Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 225 of 292
Found at i:65733425 original size:27 final size:26
Alignment explanation
Indices: 65733356--65733435 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
65733346 TACTTTACAT
* * *
65733356 TATTATATTTATTATTTATTTCTAACA
1 TATTATATTTAAT-TTTATTTATATCA
* *
65733383 TATTATTATTTTATTTTCTTTATATCA
1 TATTA-TATTTAATTTTATTTATATCA
*
65733410 TCATTATATTTAATTTGTGTTTATAT
1 T-ATTATATTTAATTT-TATTTATAT
65733436 ATTTTCTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATATTTAATTTTATTTATATCA
Found at i:65733892 original size:25 final size:25
Alignment explanation
Indices: 65733847--65733902 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
65733837 GTTAGTTTTT
* * *
65733847 ATACTATCTTATGTGTATATTTTGA
1 ATACTATCTTATGTATATATTCTAA
*
65733872 ATACTATGC-TATGTATGTATTCTAA
1 ATACTAT-CTTATGTATATATTCTAA
65733897 ATACTA
1 ATACTA
65733903 CATTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (25 bp):
ATACTATCTTATGTATATATTCTAA
Found at i:65734035 original size:15 final size:17
Alignment explanation
Indices: 65734015--65734047 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65734005 CCATCACCTT
65734015 ACATAT-TAT-TATATA
1 ACATATGTATATATATA
65734030 ACATATGTATATATATA
1 ACATATGTATATATATA
65734047 A
1 A
65734048 TTCATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
ACATATGTATATATATA
Found at i:65734851 original size:14 final size:14
Alignment explanation
Indices: 65734832--65734858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65734822 ATAGAGATAT
65734832 AAATAGATAAATAC
1 AAATAGATAAATAC
65734846 AAATAGATAAATA
1 AAATAGATAAATA
65734859 ATAGTATTTG
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:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:65736510 original size:25 final size:23
Alignment explanation
Indices: 65736479--65736529 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
65736469 CTTACTTTTA
65736479 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
65736502 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
65736524 TATTAT
1 TATTAT
65736530 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:65738132 original size:12 final size:12
Alignment explanation
Indices: 65738115--65738147 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65738105 ATGACATTAA
65738115 AATAATA-ACAAT
1 AATAATATA-AAT
65738127 AATAATATAAAT
1 AATAATATAAAT
65738139 AATAATATA
1 AATAATATA
65738148 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:65738148 original size:14 final size:15
Alignment explanation
Indices: 65738124--65738158 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
65738114 AAATAATAAC
*
65738124 AATAATAATATAAAT
1 AATAATAATATAAAA
65738139 AATAAT-ATATAAAA
1 AATAATAATATAAAA
65738153 AATAAT
1 AATAAT
65738159 GATTGTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAATATAAAA
Found at i:65738942 original size:2 final size:2
Alignment explanation
Indices: 65738935--65738964 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
65738925 AAATTGCATA
65738935 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
65738965 TACATACAAA
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:65739456 original size:21 final size:21
Alignment explanation
Indices: 65739395--65739465 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
65739385 TTAAAATTAT
*
65739395 ATAATAATAA-ATAATGAATA
1 ATAATAATAATATAGTGAATA
*
65739415 ATTATAAT-ATATAGT-AA-A
1 ATAATAATAATATAGTGAATA
*
65739433 ATAACAATAATATAGTGAATA
1 ATAATAATAATATAGTGAATA
65739454 AT-ATATATAATA
1 ATAATA-ATAATA
65739466 AAATGATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 7 0.17
19 10 0.24
20 15 0.37
21 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATAATAATATAGTGAATA
Found at i:65739465 original size:12 final size:12
Alignment explanation
Indices: 65739392--65739567 Score: 58
Period size: 12 Copynumber: 13.9 Consensus size: 12
65739382 TTTTTAAAAT
65739392 TATATAATAATA
1 TATATAATAATA
65739404 -A-ATAATGAATA
1 TATATAAT-AATA
65739415 -ATTATAATATATA
1 TA-TATAATA-ATA
* *
65739428 GTAAAATAACAATAA
1 -T-ATATAATAAT-A
65739443 TATAGTGAATAATA
1 TATA-T-AATAATA
65739457 TATATAATAAAATGA
1 TATATAAT--AAT-A
*
65739472 TATATAATAAAA
1 TATATAATAATA
* *
65739484 TGTATAAATCAAAA
1 TATAT-AAT-AATA
*
65739498 TATATAATAAAA
1 TATATAATAATA
*
65739510 TATA-AATGATA
1 TATATAATAATA
*
65739521 TA-ACAAATAATA
1 TATA-TAATAATA
* * *
65739533 CACA-AATATAAA
1 TATATAATA-ATA
* *
65739545 TAAAAAATAATA
1 TATATAATAATA
65739557 TATATAATAAT
1 TATATAATAAT
65739568 TTTTCATATA
Statistics
Matches: 127, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
10 6 0.05
11 17 0.13
12 39 0.31
13 24 0.19
14 20 0.16
15 20 0.16
16 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (12 bp):
TATATAATAATA
Found at i:65739474 original size:15 final size:15
Alignment explanation
Indices: 65739456--65739510 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
65739446 AGTGAATAAT
65739456 ATATATAATAAAATG
1 ATATATAATAAAATG
65739471 ATATATAATAAAATG
1 ATATATAATAAAATG
*
65739486 -TATA-AATCAAA--
1 ATATATAATAAAATG
65739497 ATATATAATAAAAT
1 ATATATAATAAAAT
65739511 ATAAATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 4 0.11
15 15 0.43
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATATAATAAAATG
Found at i:65739490 original size:24 final size:22
Alignment explanation
Indices: 65739463--65739522 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 22
65739453 AATATATATA
65739463 ATAAAATGATATATAATAAAATGT
1 ATAAAATGATATATAATAAAA--T
**
65739487 ATAAATCAAAATATATAATAAAAT
1 ATAAA--ATGATATATAATAAAAT
65739511 AT-AAATGATATA
1 ATAAAATGATATA
65739523 ACAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.20
23 2 0.07
24 8 0.27
26 14 0.47
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAAATGATATATAATAAAAT
Found at i:65740901 original size:3 final size:3
Alignment explanation
Indices: 65740886--65740962 Score: 56
Period size: 3 Copynumber: 26.3 Consensus size: 3
65740876 AGTGAAGATG
* *
65740886 ATA ATA ATG ATA ATAA ATA A-A A-A ACTA ATA ATA CTA ATA ATA AT-
1 ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* *
65740930 ATA ATA GTA ATA ATCA A-A ATA A-A ATA ACA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
65740963 CATTGAAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
2 10 0.17
3 42 0.71
4 7 0.12
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:65740991 original size:20 final size:20
Alignment explanation
Indices: 65740968--65741015 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
65740958 AATAACATTG
65740968 AAAGTAAAAA-AATAAATAAA
1 AAAGTAAAAAGAATAAA-AAA
65740988 AAAG-AAAAAGAATAAAAAA
1 AAAGTAAAAAGAATAAAAAA
65741007 AATAGTAAA
1 AA-AGTAAA
65741016 TAAACGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAGTAAAAAGAATAAAAAA
Found at i:65742810 original size:89 final size:85
Alignment explanation
Indices: 65742707--65742869 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
65742697 TTGTAGCTTT
*
65742707 AACCTGTTCCACTGCAACTTCAGGGAAACGAGATTTGCTATCTTCAGTCTACTCCACTGCAACTT
1 AACCTGTTCCACTGCAACTTCAGGGAAACAAGATTTG-T-T-TTCA-TCTACTCCACTGCAACTT
65742772 CAGAGAGATAAGACTAGTGACTTC
62 CAGAGAGATAAGACTAGTGACTTC
* * * * * * *
65742796 AACCTGCTT-CACTGCAACTTCAGGTAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAG
1 AACCTG-TTCCACTGCAACTTCAGGGAAACAAGATTTGTTTTCATCTACTCCACTGCAACTTCAG
65742860 AGAGATAAGA
65 AGAGATAAGA
65742870 TCTGTTTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 29 0.45
86 3 0.05
87 1 0.02
88 1 0.02
89 29 0.45
90 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
AACCTGTTCCACTGCAACTTCAGGGAAACAAGATTTGTTTTCATCTACTCCACTGCAACTTCAGA
GAGATAAGACTAGTGACTTC
Found at i:65742876 original size:41 final size:41
Alignment explanation
Indices: 65742761--65742876 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
65742751 CAGTCTACTC
65742761 CACTGCAACTTCAGAGAGATAAGA-CTAGTGACTTCAACCTGCTT
1 CACTGCAACTTCAGAGAGATAAGATCT-GT---TTCAACCTGCTT
* * ** *
65742805 CACTGCAACTTCAG-GTAGATAAGGTTTGTTTTGATCTGC-T
1 CACTGCAACTTCAGAG-AGATAAGATCTGTTTCAACCTGCTT
65742845 CTACTGCAACTTCAGAGAGATAAGATCTGTTT
1 C-ACTGCAACTTCAGAGAGATAAGATCTGTTT
65742877 ATTCATAGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
40 2 0.03
41 33 0.54
42 1 0.02
43 1 0.02
44 23 0.38
45 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
CACTGCAACTTCAGAGAGATAAGATCTGTTTCAACCTGCTT
Found at i:65743098 original size:68 final size:68
Alignment explanation
Indices: 65742989--65743659 Score: 1000
Period size: 68 Copynumber: 9.9 Consensus size: 68
65742979 ATCTACTCCT
* ** ** * *
65742989 CTGAAACTTCAAGAAGATCTACTGTGGCTTCGAGCCGCTCTAACTCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
65743054 CCG
66 CCG
* * * * * *
65743057 CTGAAGCTTCAAGGAGATCCGTTGTGGCTTCTAGCCGCTCTAACACCATTTCAGGAAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
65743122 CAG
66 CCG
* *
65743125 CTGAAACTTTAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
65743190 CCA
66 CCG
* *
65743193 CTAAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
65743258 CCG
66 CCG
* *
65743261 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGTCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
65743326 CAG
66 CCG
* *
65743329 CTGAAACTTCAAAGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
65743394 CCG
66 CCG
* **
65743397 CTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCCAACTACATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
65743462 CCG
66 CCG
* * * * * *
65743465 CTAAAACTTCAAGAAGATCTGTTGTAGCTTCTAGCTGCTCTAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
65743530 TCG
66 CCG
* *
65743533 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCTAACGTCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
65743598 CCG
66 CCG
* *
65743601 CTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGA
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA
65743660 TAAAATCTAC
Statistics
Matches: 545, Mismatches: 58, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 545 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
CCG
Found at i:65743828 original size:88 final size:87
Alignment explanation
Indices: 65743679--65743847 Score: 216
Period size: 88 Copynumber: 1.9 Consensus size: 87
65743669 CAATTTTCAG
* * * * *
65743679 CCTGTTACCCTATTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTATTTCCTTACTGCTTAGG
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGCTTAGG
65743744 GTA-ATAAGATCTTGTAAATTTAA
66 G-AGATAAGATC-TGTAAATTTAA
* * * *
65743767 CCTGTTACCTTACTACTTAGGGGGTTAAGGCTCACCGTCTTTGATCT-GTTCCACTACTGCTTAG
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCC-CTACTGCTTAG
65743831 GGAGATAAGATCTGTAA
65 GGAGATAAGATCTGTAA
65743848 TTTTCAGACG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 10 0.14
88 60 0.86
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGCTTAGG
GAGATAAGATCTGTAAATTTAA
Found at i:65751072 original size:14 final size:14
Alignment explanation
Indices: 65751053--65751079 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65751043 ATAGAGATAT
65751053 AAATAGATAAATAC
1 AAATAGATAAATAC
65751067 AAATAGATAAATA
1 AAATAGATAAATA
65751080 ATAGTATTTG
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:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:65751230 original size:12 final size:12
Alignment explanation
Indices: 65751213--65751245 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65751203 ATGACATTAA
65751213 AATAATA-ACAAT
1 AATAATATA-AAT
65751225 AATAATATAAAT
1 AATAATATAAAT
65751237 AATAATATA
1 AATAATATA
65751246 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:65751240 original size:15 final size:13
Alignment explanation
Indices: 65751213--65751269 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
65751203 ATGACATTAA
*
65751213 AATA-ATAACAAT
1 AATATATAAAAAT
65751225 AATAATATAAATAAT
1 AAT-ATATAAA-AAT
65751240 AATATATAAAAA-
1 AATATATAAAAAT
65751252 AATTATAGTAAAAAT
1 AA-TATA-TAAAAAT
65751267 AAT
1 AAT
65751270 GATAACAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 5 0.13
13 7 0.18
14 18 0.47
15 8 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:65751745 original size:24 final size:23
Alignment explanation
Indices: 65751694--65751739 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
65751684 ATAACAGAGG
65751694 TAAATAAATAGTAAAACAAATGAA
1 TAAATAAATAG-AAAACAAATGAA
*
65751718 TAAATAAATA-AAAATAAATGAA
1 TAAATAAATAGAAAACAAATGAA
65751740 AATAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
TAAATAAATAGAAAACAAATGAA
Found at i:65756973 original size:26 final size:26
Alignment explanation
Indices: 65756927--65756979 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
65756917 TCAAACATGC
*
65756927 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
65756953 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
65756979 A
1 A
65756980 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:65758499 original size:26 final size:26
Alignment explanation
Indices: 65758463--65758570 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
65758453 TGAAATTCCC
* *
65758463 ATCATGGAACATTTACCTAAACCGTT
1 ATCATGGAACATTTACCTAACCCATT
65758489 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65758515 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
65758541 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65758567 ATCA
1 ATCA
65758571 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65759314 original size:25 final size:25
Alignment explanation
Indices: 65759285--65759335 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
65759275 AAGATTAATT
**
65759285 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
65759310 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
65759335 T
1 T
65759336 TTCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:65761452 original size:138 final size:138
Alignment explanation
Indices: 65761298--65761582 Score: 453
Period size: 138 Copynumber: 2.1 Consensus size: 138
65761288 AGAGAACATA
* * *
65761298 AATATAATTAATATATGAATTTGATTCAAACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* * *
65761363 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATGTTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
65761428 TTGGAAAG
131 TTGGAAAG
* * * * *
65761436 AATACAATTAATATATGAATTTGATTCATATAAAATACTAATTGTATATATTTCATATAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* *
65761501 TAATATAAACAATTATATTAATTAAATTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
65761566 TTGGAAAG
131 TTGGAAAG
65761574 AATATAATT
1 AATATAATT
65761583 CATTTTTCTA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:65761691 original size:75 final size:76
Alignment explanation
Indices: 65761558--65761718 Score: 213
Period size: 75 Copynumber: 2.1 Consensus size: 76
65761548 ATGGAAATTA
* *
65761558 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCTATTTGCATTCTTTATTAACAAAT
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCTATTTGCATTCTCTATT-ACAAAG
65761623 GGAATAATCCT-
65 GGAATAATCCTG
* **
65761634 ATATTCTTTTGGAAA-AATATAATTCATTTTTCTAACTTT-TCATTTGTCTTTC-CTATTAGTAA
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCT-ATTTG-CATTCTCTATTACAAA
65761696 GGGAATAATCCTG
64 GGGAATAATCCTG
*
65761709 ATTTTCTTTT
1 ATATTCTTTT
65761719 TTAATATGTG
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
74 15 0.20
75 42 0.55
76 19 0.25
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (76 bp):
ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCTATTTGCATTCTCTATTACAAAGG
GAATAATCCTG
Found at i:65764561 original size:13 final size:11
Alignment explanation
Indices: 65764539--65764578 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
65764529 CACACAAAGG
65764539 AAAAGAAGAGA
1 AAAAGAAGAGA
65764550 AAAATTGAAGAG-
1 AAAA--GAAGAGA
65764562 AAAAGAAGAGA
1 AAAAGAAGAGA
65764573 AAAAGA
1 AAAAGA
65764579 GGGTGGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.23
11 10 0.38
12 4 0.15
13 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:65768829 original size:16 final size:16
Alignment explanation
Indices: 65768808--65768838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65768798 ATTCATTGAT
*
65768808 AAACATAGAAAAAAAC
1 AAACATACAAAAAAAC
65768824 AAACATACAAAAAAA
1 AAACATACAAAAAAA
65768839 TCGTAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.13, G:0.03, T:0.06
Consensus pattern (16 bp):
AAACATACAAAAAAAC
Found at i:65771192 original size:22 final size:21
Alignment explanation
Indices: 65771162--65771208 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
65771152 TACAAATTAA
65771162 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
65771184 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
65771205 ATCT
1 ATCT
65771209 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:65771214 original size:19 final size:19
Alignment explanation
Indices: 65771179--65771238 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
65771169 AGATTACAAG
65771179 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
65771200 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
65771217 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
65771236 ATC
1 ATC
65771239 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:65771782 original size:87 final size:86
Alignment explanation
Indices: 65771642--65771806 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 86
65771632 ACAATATGGA
*
65771642 GATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTACTTCA-CGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
65771707 ATTTGCTCCTTGTGAACACAAG
65 ATTTGCTCCTTGTGAACACAAG
* * * * *
65771729 GATGCCAAATCATCTTGGATCTGCTTCA-GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCACGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCTT
* *
65771792 TAATTTGCTTCTTGT
63 CAATTTGCTCCTTGT
65771807 AAAATTATGA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
85 2 0.03
86 3 0.04
87 61 0.91
88 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTACTTCACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAA
TTTGCTCCTTGTGAACACAAG
Found at i:65772031 original size:261 final size:261
Alignment explanation
Indices: 65771564--65772049 Score: 733
Period size: 261 Copynumber: 1.9 Consensus size: 261
65771554 GATTGTCATG
* * *
65771564 TTGATATCTTCGATCTGCTCTCCGTTGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTTTT
1 TTGATATATTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCGATTTGTTTT
* ** * *
65771629 CTGACAATATGGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACGTGAAAGCCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACGCGAAAACCAAATC
* * *
65771694 TGCTGTGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGT
131 AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
65771759 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGACTGTCCT
196 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGACTGTCCT
65771824 A
261 A
* * *
65771825 TTGATATATTCGATCTGCTCTCCGTCGAATACGGAGACGCCAAATATGTTTCTTCGATTTGTTTT
1 TTGATATATTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCGATTTGTTTT
* ** * *
65771890 CTAACAATACAGAGATGCCAAATCATCTTAGATTTGGTTTAGCGTAAGCACGCGAAAACCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACGCGAAAACCAAATC
* *
65771955 AGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAG
131 AGCTATGTCTTCAATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTTCAG
* *
65772019 TATAAA-CATCTGAAGGTTAGATTTGCTATGT
195 TA-AAATCATCTGAAGGTCAGATCTGCTATGT
65772050 ATCTGCTCTC
Statistics
Matches: 200, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
260 2 0.01
261 195 0.98
262 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (261 bp):
TTGATATATTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCGATTTGTTTT
CTAACAATACAGAGATGCCAAATCATCTTAGATCTACTTCAGCGTAAACACGCGAAAACCAAATC
AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGACTGTCCT
A
Found at i:65773174 original size:1 final size:1
Alignment explanation
Indices: 65773168--65773218 Score: 84
Period size: 1 Copynumber: 51.0 Consensus size: 1
65773158 GGCCTCTCCA
* *
65773168 TTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65773219 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:65773194 original size:23 final size:23
Alignment explanation
Indices: 65773168--65773218 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
65773158 GGCCTCTCCA
65773168 TTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTCTTTT
65773191 TTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTCTTTT
65773214 TTTTT
1 TTTTT
65773219 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTTCTTTT
Found at i:65779958 original size:22 final size:21
Alignment explanation
Indices: 65779932--65779973 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65779922 ATTAAACCTC
65779932 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
65779954 CAAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
65779974 AAGATTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:65779979 original size:19 final size:19
Alignment explanation
Indices: 65779944--65780022 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
65779934 AGATTACAAG
65779944 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
65779965 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
65779982 ATCATATCTAAGATTTCAT
1 ATCATATCTAAGATTGCAT
65780001 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
65780020 ATC
1 ATC
65780023 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:65780002 original size:36 final size:38
Alignment explanation
Indices: 65779944--65780016 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
65779934 AGATTACAAG
65779944 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
*
65779982 ATCATATC-T-AAGATTTCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
65780017 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:65780031 original size:36 final size:35
Alignment explanation
Indices: 65779945--65780032 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
65779935 GATTACAAGA
65779945 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
*
65779981 TATCATATC-TAAGATTTCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
65780017 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
65780033 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:65781870 original size:20 final size:20
Alignment explanation
Indices: 65781837--65781896 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
65781827 AAAAAAAATC
65781837 AAATTCAA-ATTAAAATACTA
1 AAATTCAAGA-TAAAATACTA
* * *
65781857 AAATTCAGGATAAAATCCTG
1 AAATTCAAGATAAAATACTA
*
65781877 AAATTTAAGATAAGAATACT
1 AAATTCAAGATAA-AATACT
65781897 GATGGGACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATTCAAGATAAAATACTA
Found at i:65786296 original size:2 final size:2
Alignment explanation
Indices: 65786289--65786329 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
65786279 TATTGGGCTC
65786289 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
65786330 AATTAAGCCC
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:65788174 original size:5 final size:5
Alignment explanation
Indices: 65788164--65788190 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65788154 ATAAGAATAT
65788164 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
65788191 ACTAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:65795167 original size:27 final size:26
Alignment explanation
Indices: 65795103--65795216 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
65795093 AGCATGGCTG
* * *
65795103 CCAGAACAGA-AATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65795128 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
65795156 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
65795183 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
65795210 CCAGAAC
1 CCAGAAC
65795217 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
25 5 0.06
26 5 0.06
27 52 0.67
28 16 0.21
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65795209 original size:54 final size:53
Alignment explanation
Indices: 65795103--65795216 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
65795093 AGCATGGCTG
*
65795103 CCAGAACAGAAATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * * *
65795156 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGA-A-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
65795210 CCAGAAC
1 CCAGAAC
65795217 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 10 0.19
54 26 0.49
55 17 0.32
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.16
Consensus pattern (53 bp):
CCAGAACAGAAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:65796869 original size:26 final size:26
Alignment explanation
Indices: 65796833--65796940 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
65796823 TGAAATTTCC
*
65796833 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
65796859 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65796885 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
65796911 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65796937 ATCA
1 ATCA
65796941 ATTTGTGTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65797744 original size:14 final size:15
Alignment explanation
Indices: 65797708--65797744 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
65797698 TTTCTTTTAT
*
65797708 TTATTATAACTATTA
1 TTATTATATCTATTA
65797723 -TATTATATC-ATTA
1 TTATTATATCTATTA
65797736 TTATTATAT
1 TTATTATAT
65797745 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:65797761 original size:21 final size:21
Alignment explanation
Indices: 65797710--65797772 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
65797700 TCTTTTATTT
* *
65797710 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
65797729 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
65797750 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
65797771 AT
1 AT
65797773 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:65799600 original size:5 final size:5
Alignment explanation
Indices: 65799590--65799626 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
65799580 ATAAATAAGA
65799590 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
65799627 TATAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:65799765 original size:20 final size:20
Alignment explanation
Indices: 65799721--65799761 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
65799711 ATCCTTTTTC
* *
65799721 CTAATTACTCCTAATTTAAA
1 CTAATTACTCCTAACTAAAA
65799741 CTAATT-CTCCTAACTAAAA
1 CTAATTACTCCTAACTAAAA
65799760 CT
1 CT
65799762 TAATCAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
CTAATTACTCCTAACTAAAA
Found at i:65801249 original size:18 final size:19
Alignment explanation
Indices: 65801212--65801250 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65801202 TTATGTTTTT
* *
65801212 AAAAATATTAATTATTATA
1 AAAAATATCAATTATGATA
65801231 AAAAATATCAA-TATGATA
1 AAAAATATCAATTATGATA
65801249 AA
1 AA
65801251 TAAAATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATATCAATTATGATA
Found at i:65805617 original size:35 final size:35
Alignment explanation
Indices: 65805571--65805643 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
65805561 GATTTTTACG
* *
65805571 ATAGAAAAAATATAATTTCACTGTTTTAATAGATT
1 ATAGAAAAAATATAATTTCACTCTTTTAATAGACT
65805606 ATAGAAAAAATATAATTTCACTCTTTTAATAGACT
1 ATAGAAAAAATATAATTTCACTCTTTTAATAGACT
65805641 ATA
1 ATA
65805644 TATTCATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (35 bp):
ATAGAAAAAATATAATTTCACTCTTTTAATAGACT
Found at i:65807820 original size:18 final size:19
Alignment explanation
Indices: 65807785--65807840 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
65807775 AAATATGAAA
*
65807785 TTTGGAATTTTTATAAATC
1 TTTGGAATTTTTAAAAATC
*
65807804 TTTGGAA-TTTTAAAAATTG
1 TTTGGAATTTTTAAAAA-TC
* *
65807823 TTTTGAATTTTTCAAAAT
1 TTTGGAATTTTTAAAAAT
65807841 TATTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 15 0.48
20 8 0.26
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTGGAATTTTTAAAAATC
Found at i:65807834 original size:20 final size:20
Alignment explanation
Indices: 65807784--65807851 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
65807774 AAAATATGAA
* *
65807784 ATTTGGAATTTTTATAAA-T
1 ATTTTGAATTTTTAAAAATT
* *
65807803 CTTTGGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
65807822 GTTTTGAATTTTTCAAAATT
1 ATTTTGAATTTTTAAAAATT
*
65807842 ATTTTAAATT
1 ATTTTGAATT
65807852 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 8 0.20
19 14 0.35
20 18 0.45
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:65813748 original size:17 final size:17
Alignment explanation
Indices: 65813705--65813748 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
65813695 GTGATCTTCA
65813705 AAGATATGCAATATTAG
1 AAGATATGCAATATTAG
* *
65813722 ATATGATATGTAATTTTAG
1 A-A-GATATGCAATATTAG
65813741 AAGATATG
1 AAGATATG
65813749 ATTCCGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 14 0.61
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.36
Consensus pattern (17 bp):
AAGATATGCAATATTAG
Found at i:65818907 original size:20 final size:20
Alignment explanation
Indices: 65818882--65818923 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
65818872 AAATGAATAC
65818882 TATAATAATT-ATAATATAAT
1 TATAAT-ATTAATAATATAAT
*
65818902 TATAATATTAATAATATTAT
1 TATAATATTAATAATATAAT
65818922 TA
1 TA
65818924 ACAATCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATATTAATAATATAAT
Found at i:65821364 original size:63 final size:61
Alignment explanation
Indices: 65821297--65821439 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 61
65821287 ACACGACATG
* * * * *
65821297 GGCACACACCCATGTGCCTTGGCCGTATGGTT-TTCAAGCATAAACAGTGAGTTACACGGCCT
1 GGCACATACCCATGT-CCCTAGCCGTATGGTTCTT-AAACACAAACAGTGAGTTACACGGCCT
* * * * *
65821359 AGGCACATGCCCGTGTCCCTAGCTGTGTGGTTCTTAAATACAAACAGTGAGTTACACGGCCT
1 -GGCACATACCCATGTCCCTAGCCGTATGGTTCTTAAACACAAACAGTGAGTTACACGGCCT
*
65821421 GCCACATACCCATGTCCCT
1 GGCACATACCCATGTCCCT
65821440 GACCATGAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
61 16 0.24
62 36 0.55
63 14 0.21
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (61 bp):
GGCACATACCCATGTCCCTAGCCGTATGGTTCTTAAACACAAACAGTGAGTTACACGGCCT
Found at i:65824303 original size:9 final size:9
Alignment explanation
Indices: 65824289--65824328 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
65824279 ATAGATTCTA
65824289 TTATTTTTT
1 TTATTTTTT
65824298 TTATTTTTT
1 TTATTTTTT
*
65824307 AT-TTTTTT
1 TTATTTTTT
65824315 TTAGTTTTTT
1 TTA-TTTTTT
65824325 TTAT
1 TTAT
65824329 ATTTAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
9 11 0.41
10 9 0.33
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (9 bp):
TTATTTTTT
Found at i:65824314 original size:10 final size:10
Alignment explanation
Indices: 65824287--65824332 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
65824277 TAATAGATTC
65824287 TATTATTTTT
1 TATTATTTTT
65824297 T-TTATTTTT
1 TATTATTTTT
*
65824306 TATTTTTTTT
1 TATTATTTTT
65824316 TAGTT-TTTTT
1 TA-TTATTTTT
65824326 TA-TATTT
1 TATTATTT
65824333 AGTTTCTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.38
10 17 0.53
11 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (10 bp):
TATTATTTTT
Found at i:65824434 original size:17 final size:16
Alignment explanation
Indices: 65824393--65824436 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
65824383 TTTTTAACGT
*
65824393 AAATATGAAAGCAAAA
1 AAATATTAAAGCAAAA
65824409 AAATAATTAAAGCAAAA
1 AAAT-ATTAAAGCAAAA
*
65824426 AGTATATTAAA
1 A-AATATTAAA
65824437 AATTGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (16 bp):
AAATATTAAAGCAAAA
Found at i:65828532 original size:137 final size:137
Alignment explanation
Indices: 65828303--65828574 Score: 499
Period size: 137 Copynumber: 2.0 Consensus size: 137
65828293 TTCAGGTAAC
*
65828303 AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTTAGCCCCTTATTCAGATA
1 AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
65828368 ACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAACATATGCAAGCCCATTT
65828433 GGGGAAT
131 GGGGAAT
*
65828440 AGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
* * *
65828505 ACAGTATGGCCCATAGGCTCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAACATATGCAAGCCCATTT
65828570 GGGGA
131 GGGGA
65828575 GACTACTCAA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
ACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAATAAACATATGCAAGCCCATTT
GGGGAAT
Found at i:65830396 original size:26 final size:26
Alignment explanation
Indices: 65830360--65830467 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
65830350 TGAAATTCCC
*
65830360 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
65830386 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65830412 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65830438 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65830464 ATCA
1 ATCA
65830468 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65832135 original size:3 final size:3
Alignment explanation
Indices: 65832127--65832321 Score: 162
Period size: 3 Copynumber: 65.0 Consensus size: 3
65832117 AAATAAAACA
*
65832127 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * * ** * * *
65832176 AAT AAC AAT AAT -AC AAG GAC AA- AAG AAT GGT GAT AAT AAT ATT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * * *
65832222 ACC AAA AAT AGT AAT GAA- AGT AAT AGT AGT AGT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
65832268 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65832316 AAT AAT
1 AAT AAT
65832322 GTAAAGATCG
Statistics
Matches: 160, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
2 4 0.03
3 150 0.94
4 6 0.04
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:65832590 original size:3 final size:3
Alignment explanation
Indices: 65832582--65832975 Score: 227
Period size: 3 Copynumber: 129.7 Consensus size: 3
65832572 GTTTAATAGT
65832582 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
65832630 ATA ATA ATA GTA CACTA ATA TATG TTA ACA ACAA ATA ATA AT- ATA A-A
1 ATA ATA ATA ATA -A-TA ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * *
65832677 AAA ATA GGA-A ATA ATA ATA ACGTA CTA ATA AGA ACA ATA ATA GGTTA
1 ATA ATA --ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA --ATA
* * *
65832724 ATA ATA ATG ATA ATA GTA AAA ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
65832771 ATA ATA AGG ATA A-A ATGA AGA ATA ATA GTA ATA CATTA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
** * *
65832818 A-A ATCA GGA ATA ATA ATA ACA ATA ATA AT- ATAA ATA ATA AT- GTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * * * * * * *
65832862 AAA ATA GTA ATA GTA ATA ATA ATG ATA ACA GAAA ATA ATG GTT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
65832908 GTGA A-A ATA ATA ATA ATA ATG ATA ATA GTA A-A A-A ATA CTA GTA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
65832951 ATA ACA ATA ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
65832976 TAAAATAAAA
Statistics
Matches: 297, Mismatches: 66, Indels: 56
0.71 0.16 0.13
Matches are distributed among these distances:
2 22 0.07
3 250 0.84
4 16 0.05
5 9 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:65836522 original size:24 final size:24
Alignment explanation
Indices: 65836494--65836543 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
65836484 TTATGAAGTT
*
65836494 TTTCAAAAAATTATATAATTATAA
1 TTTCAAAAAAATATATAATTATAA
* *
65836518 TTTCAAAAAAATATTTTATTATAA
1 TTTCAAAAAAATATATAATTATAA
65836542 TT
1 TT
65836544 GTTGAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTCAAAAAAATATATAATTATAA
Found at i:65837584 original size:22 final size:22
Alignment explanation
Indices: 65837559--65837631 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
65837549 AATTTAAGGT
65837559 AAATAAAATATAAAACAGTTTA
1 AAATAAAATATAAAACAGTTTA
** * * **
65837581 AAATAATTTA-AAAAAAATCAA
1 AAATAAAATATAAAACAGTTTA
*
65837602 CAAATAATATATAAAACAGTTTA
1 -AAATAAAATATAAAACAGTTTA
65837625 AAATAAA
1 AAATAAA
65837632 TAATATATAT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
21 7 0.19
22 23 0.62
23 7 0.19
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (22 bp):
AAATAAAATATAAAACAGTTTA
Found at i:65837662 original size:26 final size:25
Alignment explanation
Indices: 65837603--65837655 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
65837593 AAAAATCAAC
*
65837603 AAATAATATATAAAACAGTTTAAAAT
1 AAATAATATATAAAACA-TTAAAAAT
65837629 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
65837654 AA
1 AA
65837656 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:65840162 original size:46 final size:46
Alignment explanation
Indices: 65840091--65840226 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
65840081 TTATCCATCT
* * * * *
65840091 CACTGTAACTCAAGGGTATAGGATTTGTACCATCTTCAATCAATCC
1 CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAATCAATCC
* *
65840137 CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAAACCATCC
1 CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAATCAATCC
* * *
65840183 CACTACAATTCAGGGGTAT-AGAATTTGTATCTTCTTCAGTCAAT
1 CACTGCAACTCAGGGGTATAAG-ATTTGTATCTTCTTCAATCAAT
65840227 TTGCTCTGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (46 bp):
CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAATCAATCC
Found at i:65840714 original size:53 final size:53
Alignment explanation
Indices: 65840650--65840756 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
65840640 ATTGGGAGCA
*
65840650 TAACTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAAT
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGGAAAT
* * *
65840703 TAACTTGAAATGAATAAGTTAATCAAAAATAGCAAATGTAATAAGAAGGAAAT
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGGAAAT
65840756 T
1 T
65840757 GATTGGGAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.23
Consensus pattern (53 bp):
TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGGAAAT
Found at i:65840739 original size:26 final size:27
Alignment explanation
Indices: 65840657--65840747 Score: 66
Period size: 26 Copynumber: 3.4 Consensus size: 27
65840647 GCATAACTCG
* *
65840657 AAATG-AATAAATTAATCAAAGATAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
** *
65840683 AAATGCAATAAG--AAGGAAATTAACTTG-
1 AAATGCAATAAGTTAATCAAA--AA-TAGC
65840710 AAATG-AATAAGTTAATCAAAAATAGC
1 AAATGCAATAAGTTAATCAAAAATAGC
*
65840736 AAATGTAATAAG
1 AAATGCAATAAG
65840748 AAGGAAATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.14
26 18 0.37
27 17 0.35
28 7 0.14
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (27 bp):
AAATGCAATAAGTTAATCAAAAATAGC
Found at i:65841665 original size:1 final size:1
Alignment explanation
Indices: 65841661--65841703 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
65841651 TCTTTTTTGC
* * * *
65841661 TTTTTTTTTTGTTTTTTTATTTTTTTATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65841704 GCTGCCTCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:65841675 original size:8 final size:8
Alignment explanation
Indices: 65841664--65841702 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
65841654 TTTTTGCTTT
*
65841664 TTTTTTTG
1 TTTTTTTA
65841672 TTTTTTTA
1 TTTTTTTA
65841680 TTTTTTTA
1 TTTTTTTA
*
65841688 TTTTTTTG
1 TTTTTTTA
65841696 TTTTTTT
1 TTTTTTT
65841703 TGCTGCCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:65845717 original size:29 final size:29
Alignment explanation
Indices: 65845645--65845752 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 29
65845635 TTCACATATC
* * * *
65845645 TGTATCTGGCCCATTAAG-CCTAATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * * * *
65845673 TTTGTATAGCCTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
65845702 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
65845731 TTTATATGGCCCGTTAGACCCA
1 TGTATATGGCCCATTAGGCCCA
65845753 GTCATATTCA
Statistics
Matches: 62, Mismatches: 17, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
28 12 0.19
29 50 0.81
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:65860194 original size:60 final size:61
Alignment explanation
Indices: 65860083--65860196 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
65860073 CGTATGTTTC
* *
65860083 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAA
65860144 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CAGGACACGCTGAGGTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
65860197 ATTTCAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
60 16 0.31
61 35 0.69
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (61 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAA
Found at i:65860241 original size:134 final size:137
Alignment explanation
Indices: 65860007--65860251 Score: 363
Period size: 137 Copynumber: 1.8 Consensus size: 137
65859997 GTTTTATTTC
* * * *
65860007 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTC
*** * *
65860072 TCGTATGTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTA
66 TCGTATGTCAAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACGCGCTGAGGTA
65860137 TTTTAAA
131 TTTTAAA
65860144 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CAGGACACGCTGAGGTAATT-TCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAATTT
*
65860207 CT-GT-TGTCAAAAAAATCAACTCGTATTGCAAGAGGCGAGTTGAGC
65 CTCGTATGTCAAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGC
65860252 TTCGGGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
134 35 0.36
135 2 0.02
136 23 0.24
137 37 0.38
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (137 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTC
TCGTATGTCAAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGACGCGCTGAGGTA
TTTTAAA
Found at i:65861088 original size:27 final size:27
Alignment explanation
Indices: 65861058--65861109 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
65861048 CCCCCCAAAA
65861058 AAAAACCTAACCCCAAAAAAAAAAAGG
1 AAAAACCTAACCCCAAAAAAAAAAAGG
**
65861085 AAAAACCTAACCCCCCAAAAAAAAA
1 AAAAACCTAACCCCAAAAAAAAAAA
65861110 CCAAGAAACC
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:0.65, C:0.27, G:0.04, T:0.04
Consensus pattern (27 bp):
AAAAACCTAACCCCAAAAAAAAAAAGG
Found at i:65861122 original size:29 final size:27
Alignment explanation
Indices: 65861058--65861119 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
65861048 CCCCCCAAAA
**
65861058 AAAAACCTAACCCCAAAAAAAAAAAGG
1 AAAAACCTAACCCCAAAAAAAAAAACC
**
65861085 AAAAACCTAACCCCCCAAAAAAAAACC
1 AAAAACCTAACCCCAAAAAAAAAAACC
65861112 AAGAAACC
1 AA-AAACC
65861120 CTAGCCACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.63, C:0.29, G:0.05, T:0.03
Consensus pattern (27 bp):
AAAAACCTAACCCCAAAAAAAAAAACC
Found at i:65861675 original size:2 final size:2
Alignment explanation
Indices: 65861670--65861704 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
65861660 TAAATACTAT
*
65861670 TA TA TA CA 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 TA TA T
65861705 TTTAAATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:65868484 original size:26 final size:25
Alignment explanation
Indices: 65868425--65868477 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
65868415 AAAAATCAAC
*
65868425 AAATAATATATAAAACAATTTAAAAT
1 AAATAATATATAAAAC-ATTAAAAAT
65868451 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
65868476 AA
1 AA
65868478 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:65868619 original size:12 final size:12
Alignment explanation
Indices: 65868598--65868629 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
65868588 AAATGTTAAG
65868598 TAAATAAAATAT
1 TAAATAAAATAT
*
65868610 TAAATGAAATAT
1 TAAATAAAATAT
65868622 TAAATAAA
1 TAAATAAA
65868630 GCAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:65870984 original size:47 final size:47
Alignment explanation
Indices: 65870930--65871023 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
65870920 CTTGATTTAA
65870930 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
65870977 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
65871024 GCCACCCACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (47 bp):
CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
Found at i:65871007 original size:24 final size:24
Alignment explanation
Indices: 65870931--65871008 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
65870921 TTGATTTAAC
65870931 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
***
65870955 ACCCATAAACCT-TA-AGCAT-T-TTC
1 ACCCAT--ACCTCTATA-CATATGAAA
65870978 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
65871002 ACCCATA
1 ACCCATA
65871009 AACCTTAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 8 0.20
24 15 0.37
25 5 0.12
26 4 0.10
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.26
Consensus pattern (24 bp):
ACCCATACCTCTATACATATGAAA
Found at i:65875318 original size:244 final size:245
Alignment explanation
Indices: 65874889--65875378 Score: 928
Period size: 244 Copynumber: 2.0 Consensus size: 245
65874879 GTTGGACCTC
*
65874889 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGC
65874954 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
65875019 TCCATGCACATTCAGTTCGCATCTGAACCCGTTATCTCAAGAGTTAATGCACAAAAACAAG-AAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
65875083 AAAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
*
65875133 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTTGC
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGC
*
65875198 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATGTTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
*
65875263 TCCATGCACATTCAGTTCGCATCTGAACTCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
*
65875328 AAAGTTTGTTTCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
65875378 A
1 A
65875379 AACTAGTACA
Statistics
Matches: 240, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
244 187 0.78
245 53 0.22
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (245 bp):
ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGC
TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
TCCATGCACATTCAGTTCGCATCTGAACCCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
AAAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
Found at i:65878970 original size:54 final size:54
Alignment explanation
Indices: 65878888--65878999 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
65878878 CTATAAATAG
65878888 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
* *
65878942 GTCTATTTAGTAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
65878996 GTCT
1 GTCT
65879000 TTATGTGCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (54 bp):
GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
Found at i:65885955 original size:22 final size:21
Alignment explanation
Indices: 65885920--65885995 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
65885910 AAAAGGTATC
* *
65885920 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
65885941 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
65885964 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
65885983 TGC-AATCATATCT
1 TACAAATCATATCT
65885996 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:65886012 original size:35 final size:37
Alignment explanation
Indices: 65885949--65886027 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
65885939 ATTACAAAAT
65885949 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
65885985 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
65886020 CATATCAT
1 CATATCAT
65886028 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:65886025 original size:14 final size:15
Alignment explanation
Indices: 65885970--65886025 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
65885960 AGATTGCATA
65885970 TCATATCTAAGATTG
1 TCATATCTAAGATTG
65885985 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
65886003 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
65886020 -CATATC
1 TCATATC
65886026 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:65886035 original size:17 final size:19
Alignment explanation
Indices: 65885956--65886027 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
65885946 AATCATATCT
65885956 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
65885975 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
65885993 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
65886010 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
65886028 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:65886570 original size:86 final size:87
Alignment explanation
Indices: 65886402--65886570 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 87
65886392 TTCTAACAAT
* *
65886402 ACAAAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTGCTGTGT
1 ACAAAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGT
* *
65886467 CTTCGATTTGCTCCTTGTGAAC
66 CTTCAATCTGCTCCTTGTGAAC
* * * *
65886489 ACAAGGATGCCAAATCATCTT-GATCTACTTCAGCA-AAATCATC-TGAAGGTCAGATCTACTAT
1 ACAAAGATGCCAAATCATCTTAGATCTACTTCAGCATAAA-CA-CGTGAAAGCCAAATCTACTAT
* *
65886551 GTCTTTAATCTGCTTCTTGT
64 GTCTTCAATCTGCTCCTTGT
65886571 AAACTTATGA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 3 0.04
86 46 0.66
87 21 0.30
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (87 bp):
ACAAAGATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGT
CTTCAATCTGCTCCTTGTGAAC
Found at i:65887081 original size:205 final size:205
Alignment explanation
Indices: 65886639--65887341 Score: 1141
Period size: 205 Copynumber: 3.5 Consensus size: 205
65886629 CAAATCTTTT
* * *
65886639 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATGATCTTAGATTTGCTTCAGT-GTAAGTA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCA
* * * *
65886703 CGCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* *
65886768 TGGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATA
130 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAATG
65886828 GAGATGCCAGA
195 GAGATGCCAGA
*
65886839 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
65886904 GTTAAAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
65886969 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTTCTCTTCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAATGG
*
65887034 AAATGCCAGA
196 AGATGCCAGA
* *
65887044 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
65887109 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
65887174 GGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAATGG
*
65887239 AGATGCCAAA
196 AGATGCCAGA
* * * * *
65887249 CTTCTATTTGTTCTTTGACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
65887314 -TGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
65887342 CTGCTCTCCG
Statistics
Matches: 468, Mismatches: 29, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
199 1 0.00
200 131 0.28
202 1 0.00
204 28 0.06
205 307 0.66
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:65887390 original size:44 final size:44
Alignment explanation
Indices: 65887340--65887428 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
65887330 TATGTCTTCG
* * * * *
65887340 ATCTGCTCTCCGCCAATACAGATATGTCAAATTTGGTATATTCA
1 ATCTGCTCTCCGACAATACAAAGATGCCAAATTTGCTATATTCA
* *
65887384 ATCTGCTCTCTGACAATACAAAGATGCCAAATTTGCTATCTTCA
1 ATCTGCTCTCCGACAATACAAAGATGCCAAATTTGCTATATTCA
65887428 A
1 A
65887429 CTTGTTCCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (44 bp):
ATCTGCTCTCCGACAATACAAAGATGCCAAATTTGCTATATTCA
Found at i:65887454 original size:44 final size:44
Alignment explanation
Indices: 65887406--65887678 Score: 234
Period size: 44 Copynumber: 6.2 Consensus size: 44
65887396 ACAATACAAA
* *
65887406 GATGCCAAATTTGCTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGG
** * * * * *
65887450 GATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTTAGCACA-G
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGG
* * * *
65887493 GAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGA
1 GA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
* *
65887538 GATGCCAAATCTGCTATATTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGG
* ** * * *
65887582 GATGCCATA-CTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGG
1 GATGCCAAATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGG
* * *
65887626 AATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
65887670 GATGCCAAA
1 GATGCCAAA
65887679 CCTTGTTTCT
Statistics
Matches: 175, Mismatches: 43, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 24 0.14
44 116 0.66
45 31 0.18
46 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
Found at i:65887604 original size:132 final size:132
Alignment explanation
Indices: 65887405--65887678 Score: 476
Period size: 132 Copynumber: 2.1 Consensus size: 132
65887395 GACAATACAA
* * *
65887405 AGATGCCAAATTTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTC
1 AGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGCCATACTGAAATCCTC
* * *
65887470 GATCTGCTTCGCTGTTAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACAC
66 GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACAC
65887535 AG
131 AG
*
65887537 AGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGCCATACTGAAATCTTC
1 AGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGCCATACTGAAATCCTC
65887602 GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACAC
66 GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACAC
65887667 AG
131 AG
*
65887669 GGATGCCAAA
1 AGATGCCAAA
65887679 CCTTGTTTCT
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 134 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
AGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGCCATACTGAAATCCTC
GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACAC
AG
Found at i:65888583 original size:1 final size:1
Alignment explanation
Indices: 65888573--65888643 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
65888563 GGCCTCTCCA
* * * * * * **
65888573 TTTTTCTTTTTCTTTTTTTTCTTTTTTTTTTTTCTTTTTTTTCTTTTTTCTTTTTTTTTTTCCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65888638 TTTTTT
1 TTTTTT
65888644 GAAATAGAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:65888598 original size:16 final size:16
Alignment explanation
Indices: 65888579--65888630 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
65888569 TCCATTTTTC
65888579 TTTTTCTTTTTT-TTCT
1 TTTTTCTTTTTTCTT-T
65888595 TTTTT-TTTTTTCTTT
1 TTTTTCTTTTTTCTTT
65888610 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
65888626 TTTTT
1 TTTTT
65888631 TTTCCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:65888604 original size:22 final size:22
Alignment explanation
Indices: 65888573--65888643 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
65888563 GGCCTCTCCA
*
65888573 TTTTTCTTTTTCTTTTTTTTCT
1 TTTTTTTTTTTCTTTTTTTTCT
65888595 TTTTTTTTTTTCTTTTTTTTC-
1 TTTTTTTTTTTCTTTTTTTTCT
* *
65888616 TTTTTTCTTTT-TTTTTTTCCT
1 TTTTTTTTTTTCTTTTTTTTCT
65888637 TTTTTTT
1 TTTTTTT
65888644 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 8 0.18
21 16 0.36
22 20 0.45
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (22 bp):
TTTTTTTTTTTCTTTTTTTTCT
Found at i:65888619 original size:29 final size:28
Alignment explanation
Indices: 65888573--65888643 Score: 115
Period size: 29 Copynumber: 2.5 Consensus size: 28
65888563 GGCCTCTCCA
*
65888573 TTTTTCTTTTTCTTTTTTTTCTTTTTTT
1 TTTTTCTTTTTTTTTTTTTTCTTTTTTT
65888601 TTTTTCTTTTTTTTCTTTTTTCTTTTTTT
1 TTTTTCTTTTTTTT-TTTTTTCTTTTTTT
*
65888630 TTTTCCTTTTTTTT
1 TTTTTCTTTTTTTT
65888644 GAAATAGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 13 0.32
29 27 0.68
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (28 bp):
TTTTTCTTTTTTTTTTTTTTCTTTTTTT
Found at i:65888641 original size:28 final size:27
Alignment explanation
Indices: 65888573--65888643 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
65888563 GGCCTCTCCA
65888573 TTTTT-CTTTTTCTTTTTTTTCTTTTTTT
1 TTTTTCCTTTTT-TTTTTTTTCTTT-TTT
*
65888601 TTTTTCTTTTTTTTCTTTTTTCTTTTTT
1 TTTTTCCTTTTTTT-TTTTTTCTTTTTT
65888629 TTTTTCCTTTTTTTT
1 TTTTTCCTTTTTTTT
65888644 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 1 0.03
28 23 0.59
29 15 0.38
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (27 bp):
TTTTTCCTTTTTTTTTTTTTCTTTTTT
Found at i:65894259 original size:22 final size:21
Alignment explanation
Indices: 65894224--65894299 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
65894214 TAAAGGTATC
* *
65894224 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
65894245 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
65894268 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
65894287 TGC-AATCATATCT
1 TACAAATCATATCT
65894300 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:65894316 original size:35 final size:37
Alignment explanation
Indices: 65894253--65894331 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
65894243 ATTACAAAAT
65894253 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
65894289 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
65894324 CATATCAT
1 CATATCAT
65894332 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:65894329 original size:14 final size:15
Alignment explanation
Indices: 65894274--65894329 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
65894264 AGATTGCATA
65894274 TCATATCTAAGATTG
1 TCATATCTAAGATTG
65894289 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
65894307 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
65894324 -CATATC
1 TCATATC
65894330 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:65894339 original size:17 final size:19
Alignment explanation
Indices: 65894260--65894331 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
65894250 AATCATATCT
65894260 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
65894279 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
65894297 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
65894314 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
65894332 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:65896906 original size:27 final size:27
Alignment explanation
Indices: 65896876--65896928 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65896866 AATCAAAATT
*
65896876 AAATATATTTAATTTTATC-TTATTTTA
1 AAATATAGTTAATTTT-TCATTATTTTA
*
65896903 AAATGTAGTTAATTTTTCATTATTTT
1 AAATATAGTTAATTTTTCATTATTTT
65896929 GTAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
AAATATAGTTAATTTTTCATTATTTTA
Found at i:65897083 original size:56 final size:56
Alignment explanation
Indices: 65897017--65897126 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
65897007 CTTTTGAAAC
* * *
65897017 ATTGCTATGAGTAGTATTGGTTGCATCATTGCGATAAAACTAAGATAAACACAACA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
*
65897073 ATTGCTATGAGCAGTATTGGTTGTATCATTACGATAAAACAAAGATAAACACAA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAA
65897127 TAAATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (56 bp):
ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
Found at i:65901763 original size:21 final size:21
Alignment explanation
Indices: 65901715--65901766 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65901705 TTTAATGACC
*
65901715 TATGTGTGAACATCTATATGT
1 TATGTGTGAACATCTATATGG
*
65901736 TAAGTGTGAACATGCT-TATGG
1 TATGTGTGAACAT-CTATATGG
*
65901757 TGTGTGTGAA
1 TATGTGTGAA
65901767 TACAATAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (21 bp):
TATGTGTGAACATCTATATGG
Found at i:65906170 original size:15 final size:14
Alignment explanation
Indices: 65906150--65906197 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
65906140 TTTTAATCCC
65906150 TAAAACTCTAAATCT
1 TAAAACT-TAAATCT
65906165 TAAAACTTAAATCCT
1 TAAAACTTAAAT-CT
*
65906180 AATAAACCTTAAATCT
1 --TAAAACTTAAATCT
65906196 TA
1 TA
65906198 TTTTACCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.24
15 9 0.31
16 2 0.07
17 11 0.38
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAACTTAAATCT
Found at i:65911535 original size:79 final size:79
Alignment explanation
Indices: 65911393--65911540 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 79
65911383 CAAAATATGT
* *
65911393 ATAAATTTAAAGATGTTCTTTTTAGCGTAGTTGTCATACTTATAAAACCAACTAGTTACTTAAAA
1 ATAAATTTAAAGATGTTCTTTTTAGCGTAGTTATCATACTTATAAAACCAACTAATTACTTAAAA
65911458 AAAAAAAAGTAAGC
66 AAAAAAAAGTAAGC
* *
65911472 ATAAATTTAGAGATGTTCTTTTTTAGC-TGAGTTATCATATTTATAATAA-CAACTAATTA-TTA
1 ATAAATTTAAAGATGTTC-TTTTTAGCGT-AGTTATCATACTTATAA-AACCAACTAATTACTTA
65911534 AAAAAAA
63 AAAAAAA
65911541 TTTATTATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 28 0.45
80 32 0.52
81 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.36
Consensus pattern (79 bp):
ATAAATTTAAAGATGTTCTTTTTAGCGTAGTTATCATACTTATAAAACCAACTAATTACTTAAAA
AAAAAAAAGTAAGC
Found at i:65918021 original size:29 final size:29
Alignment explanation
Indices: 65917896--65918038 Score: 106
Period size: 29 Copynumber: 4.8 Consensus size: 29
65917886 TATACTTTTA
* *
65917896 TAAAATGTCCAATGTGGTATTTGTACTTT
1 TAAAATGTCTAATGTGGTACTTGTACTTT
* * * * *
65917925 AAAAAAGTCTAATGTGATACTTGAACTAT
1 TAAAATGTCTAATGTGGTACTTGTACTTT
* * * * * *
65917954 CAAATTGTGTATTATTTGGTACCTATACTTT
1 TAAAATGTCTA--ATGTGGTACTTGTACTTT
*
65917985 CATAAAATGTCTAATGTGGTACTTGTAGTTT
1 --TAAAATGTCTAATGTGGTACTTGTACTTT
* *
65918016 TAAAATATCCAATGTGGTACTTG
1 TAAAATGTCTAATGTGGTACTTG
65918039 AACTATCAAT
Statistics
Matches: 84, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
29 50 0.60
31 26 0.31
33 8 0.10
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (29 bp):
TAAAATGTCTAATGTGGTACTTGTACTTT
Found at i:65918031 original size:91 final size:90
Alignment explanation
Indices: 65917876--65918151 Score: 347
Period size: 91 Copynumber: 3.0 Consensus size: 90
65917866 ATAATGTCAC
* * * * *
65917876 ATTTGGTACATATACTTTTATAAAATGTCCAATGTGGTATTTGTACTTTAAAAAAGTCTAATGTG
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTATTTTAAAATA-TCTAATGTG
*
65917941 ATACTTGAACTATCAAATTGTGTATT
65 GTACTTGAACTATCAAATTGTGTATT
* *
65917967 ATTTGGTACCTATACTTTCATAAAATGTCTAATGTGGTACTTGTAGTTTTAAAATATCCAATGTG
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTA-TTTTAAAATATCTAATGTG
*
65918032 GTACTTGAACTATCAATTTGTGTATT
65 GTACTTGAACTATCAAATTGTGTATT
* * * * * *
65918058 GTTTGGTACCTATACTTTCATAAAATATCCAATGTGATACTTATACTTTGAAAATATTTAATGTG
1 ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTA-TTTTAAAATATCTAATGTG
* * *
65918123 GCACCTGAACTATCAAGA-TGTATATT
65 GTACTTGAACTATCAA-ATTGTGTATT
65918149 ATT
1 ATT
65918152 ATAGTATCTA
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
91 152 0.95
92 8 0.05
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (90 bp):
ATTTGGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTATTTTAAAATATCTAATGTGG
TACTTGAACTATCAAATTGTGTATT
Found at i:65923211 original size:16 final size:16
Alignment explanation
Indices: 65923185--65923242 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
65923175 GTAATTAGGC
65923185 TAGATAATTAATATAAT
1 TAGA-AATTAATATAAT
*
65923202 TAGAAATTAATA-AAA
1 TAGAAATTAATATAAT
* *
65923217 TAAAATATTAAAATAAT
1 TAGAA-ATTAATATAAT
65923234 TAG-AATTAA
1 TAGAAATTAA
65923243 AATTTTAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 11 0.32
16 15 0.44
17 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
TAGAAATTAATATAAT
Found at i:65925812 original size:12 final size:13
Alignment explanation
Indices: 65925787--65925815 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65925777 TGTGATGTGC
65925787 ATATATGTATTGA
1 ATATATGTATTGA
65925800 ATATATG-ATTGA
1 ATATATGTATTGA
65925812 ATAT
1 ATAT
65925816 TCCTTATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATATATGTATTGA
Found at i:65928614 original size:19 final size:19
Alignment explanation
Indices: 65928590--65928682 Score: 127
Period size: 19 Copynumber: 4.8 Consensus size: 19
65928580 AATCTTTAAG
65928590 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65928609 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65928628 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65928645 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
65928666 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
65928683 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
17 17 0.25
19 30 0.45
20 3 0.04
21 8 0.12
22 9 0.13
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:65928620 original size:36 final size:36
Alignment explanation
Indices: 65928580--65928667 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
65928570 ATGGAAATAT
65928580 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
65928616 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
65928652 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
65928668 TTTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:65933678 original size:66 final size:66
Alignment explanation
Indices: 65933595--65933728 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
65933585 GGTTTTCGAC
*
65933595 TGATGATCTGGAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAAAGAGCACCACATCCATAT
1 TGATGATCTGCAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAAAGAGCACCACATCCATAT
65933660 T
66 T
*
65933661 TGATGATCTGCAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAAAGAGTACCACATCCATAT
1 TGATGATCTGCAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAAAGAGCACCACATCCATAT
65933726 T
66 T
65933727 TG
1 TG
65933729 TTGTGGCTCC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (66 bp):
TGATGATCTGCAAGAGTTTGTTCATTCTCTATCCTATATGTATCAAAAGAGCACCACATCCATAT
T
Found at i:65934396 original size:12 final size:11
Alignment explanation
Indices: 65934372--65934436 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
65934362 CTTCTATTTC
*
65934372 AAAAAAAAGGA
1 AAAAAAAAAGA
65934383 AAAAAGAAAAGA
1 AAAAA-AAAAGA
* *
65934395 AAAAGAAAATA
1 AAAAAAAAAGA
*
65934406 AAAATAAAAATA
1 AAAA-AAAAAGA
65934418 AAAAAATAAA-A
1 AAAAAA-AAAGA
65934429 AAAAAAAA
1 AAAAAAAA
65934437 TGGAGAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 2 0.04
11 23 0.49
12 22 0.47
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:65934424 original size:14 final size:13
Alignment explanation
Indices: 65934372--65934437 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 13
65934362 CTTCTATTTC
**
65934372 AAAAAAAAGGAAA
1 AAAAAAAAATAAA
65934385 AAAGAAAAGAA-AAA
1 AAA-AAAA-AATAAA
65934399 GAAAATAAAAATAAA
1 -AAAA-AAAAATAAA
65934414 AATAAAAAAATAAA
1 AA-AAAAAAATAAA
65934428 AAAAAAAAAT
1 AAAAAAAAAT
65934438 GGAGAGGCCA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
13 11 0.24
14 23 0.50
15 12 0.26
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAAAAATAAA
Found at i:65935645 original size:27 final size:29
Alignment explanation
Indices: 65935588--65935650 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
65935578 ACTAAAAGGG
*
65935588 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
65935617 TATACTATATATATATAAT-AT-TT-GAAA
1 TATAC-ATATATATATAATGATATTAGAAA
65935644 TATACAT
1 TATACAT
65935651 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 9 0.28
28 2 0.06
29 7 0.22
30 12 0.38
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:65935764 original size:2 final size:2
Alignment explanation
Indices: 65935757--65935790 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
65935747 AATTTGGAAA
65935757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
65935791 GTATGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:65935998 original size:21 final size:21
Alignment explanation
Indices: 65935968--65936007 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65935958 ATTAATAATA
65935968 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
65935989 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
65936008 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:65936080 original size:3 final size:3
Alignment explanation
Indices: 65936066--65936187 Score: 110
Period size: 3 Copynumber: 40.7 Consensus size: 3
65936056 TACATAACAT
*
65936066 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * *
65936112 ACA A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
65936156 ATA ATA ATA AGG ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
65936188 GTAAAAAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
2 9 0.09
3 76 0.77
4 14 0.14
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:65938015 original size:89 final size:89
Alignment explanation
Indices: 65937861--65938084 Score: 222
Period size: 89 Copynumber: 2.5 Consensus size: 89
65937851 GTGATCCTGA
* * * * * * *
65937861 GCTCAACTCATTTCTTGCAATATGAATTGACTCTTTAAAAACAG-ACATTTAGAAACAGAAATTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAACATTAAAAAACAGAAATTG
* * * *
65937925 AAAATAGCTC-AGCACGTGAGCTAAG
65 AAAATACCTCGA-CACGTAACCCAAG
*
65937950 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAC-TTGAAAAAACA-AATTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATT-AAAAAACAGAA-ATT
* *
65938013 GAAAATACCTCGACATGTAACCCGAG
64 GAAAATACCTCGACACGTAACCCAAG
* * *
65938039 GCTCAACTCACCTCTCGCAATATGGGTTGAATTTTGAAAAACAGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAA
65938085 GTTAAAAGGC
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
88 15 0.13
89 88 0.78
90 10 0.09
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (89 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATTAAAAAACAGAAATTGA
AAATACCTCGACACGTAACCCAAG
Done.