Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 108 of 175
Found at i:34273219 original size:59 final size:57
Alignment explanation
Indices: 34273154--34273339 Score: 146
Period size: 59 Copynumber: 3.1 Consensus size: 57
34273144 ATGATAAATT
* * *
34273154 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAA-ATATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATC
* * * * * *
34273213 ATATATTATGATTTTAGAA-A-ATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTA-AATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTTA-TAGTATC
*
34273274 ATATATTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATC
1 ATATATTTTAATT-AAATATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATC
34273333 ATATATT
1 ATATATT
34273340 ATGATTTGAG
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 37 0.38
60 19 0.20
61 27 0.28
62 8 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (57 bp):
ATATATTTTAATTAAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATC
Found at i:34273361 original size:120 final size:121
Alignment explanation
Indices: 34273147--34273437 Score: 460
Period size: 120 Copynumber: 2.4 Consensus size: 121
34273137 TAGTATGATG
* **
34273147 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
34273212 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAA-TT-TT
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTATT
* * *
34273266 ATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTA
1 A-TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
* *
34273331 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTATT
34273388 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAT
34273438 ATGATTAAAT
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 1 0.01
120 103 0.66
121 48 0.31
122 3 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (121 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTATT
Found at i:34273645 original size:44 final size:45
Alignment explanation
Indices: 34273580--34273670 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
34273570 ACCTCTATTC
* * *
34273580 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
34273624 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
34273669 CA
1 CA
34273671 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:34273672 original size:16 final size:16
Alignment explanation
Indices: 34273651--34273719 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
34273641 GATTAGCTAT
34273651 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34273667 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
34273684 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34273700 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34273716 TACA
1 TACA
34273720 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34273693 original size:33 final size:32
Alignment explanation
Indices: 34273651--34273719 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
34273641 GATTAGCTAT
34273651 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
34273684 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
34273716 TACA
1 TACA
34273720 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:34274201 original size:261 final size:261
Alignment explanation
Indices: 34273737--34274229 Score: 864
Period size: 261 Copynumber: 1.9 Consensus size: 261
34273727 AAACGCACCC
* *
34273737 TTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGTTATTAGTGGCGCAGTTGAAAATCGCCGC
1 TTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATATTAGTGGCGCAGTTGAAAATCGCCAC
* *
34273802 AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCAGAAATTTCCTTTAACTGTAACGAAG
66 AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTATAACGAAG
* *
34273867 ACGGTGCTGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAAAAACGCCAAAAATATTGTTTACGA
131 ACGGTGCTGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCAAAAATATTGTTTAAGA
*
34273932 GATGAGGAAACGGCGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCACAAAAATG
196 GATGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCACAAAAATG
34273997 T
261 T
*
34273998 TTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATATTAGTGGCGCATTTGAAAATCGCCAC
1 TTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATATTAGTGGCGCAGTTGAAAATCGCCAC
34274063 AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTATAACGAAG
66 AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTATAACGAAG
*
34274128 ACGGTG-TCGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAATATT-TATTAA
131 ACGGTGCT-GTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCAAAAATATTGT-TTAA
*
34274191 TAGATGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTG
194 GAGATGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTG
34274230 AAGCGCCGCA
Statistics
Matches: 220, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
260 2 0.01
261 218 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (261 bp):
TTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATATTAGTGGCGCAGTTGAAAATCGCCAC
AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAACTATAACGAAG
ACGGTGCTGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCAAAAATATTGTTTAAGA
GATGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCGCCACAAAAATG
T
Found at i:34274791 original size:21 final size:21
Alignment explanation
Indices: 34274767--34274806 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34274757 TAAGCTATGT
34274767 ATCCGTAAAAAATGATTTTCA
1 ATCCGTAAAAAATGATTTTCA
*
34274788 ATCCGTAAAAATTGATTTT
1 ATCCGTAAAAAATGATTTT
34274807 GCATTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCCGTAAAAAATGATTTTCA
Found at i:34274826 original size:34 final size:34
Alignment explanation
Indices: 34274780--34274857 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
34274770 CGTAAAAAAT
*
34274780 GATTTT-CAATCCGTAAAAATTGATTTTGCATTTA
1 GATTTTGC-ATCCGTAAAAACTGATTTTGCATTTA
34274814 GATTTTGCATCCGTAAAAACTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAACTGATTTTGCATTTA
34274848 GATTTTGCAT
1 GATTTTGCAT
34274858 GCTGGAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (34 bp):
GATTTTGCATCCGTAAAAACTGATTTTGCATTTA
Found at i:34276363 original size:12 final size:12
Alignment explanation
Indices: 34276346--34276371 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34276336 ATTAATTTTA
34276346 TTTACCTTAAAT
1 TTTACCTTAAAT
34276358 TTTACCTTAAAT
1 TTTACCTTAAAT
34276370 TT
1 TT
34276372 ATATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTACCTTAAAT
Found at i:34276428 original size:34 final size:34
Alignment explanation
Indices: 34276390--34276777 Score: 211
Period size: 34 Copynumber: 10.7 Consensus size: 34
34276380 TATATAATTT
*
34276390 TATTAATTTTATTTACCTTGAATTAATATTTCGA
1 TATTAATTTTATTTACCTTGAATTAATATTTCAA
* *
34276424 TATTAATTTTATTTACCTTAAATTTATATAATTTATATAA
1 TATTAATTTTATTTACCTTGAA-TTA-AT-A-TT-T-CAA
* *
34276464 TTTTATTAATTTTATTTACCTTGAATTAATATTCCGA
1 ---TATTAATTTTATTTACCTTGAATTAATATTTCAA
* * * *
34276501 TATTAATTTTATTTACCTTAAATT-TTACCTTAAA
1 TATTAATTTTATTTACCTTGAATTAATA-TTTCAA
* * **
34276535 T-TTATATAATTTATATA-ATTTTATT-A-ATTT---
1 TATTA-AT--TTTATTTACCTTGAATTAATATTTCAA
* * *
34276565 TATTAATTTTATTTACCTTGAATTTATATTCCGA
1 TATTAATTTTATTTACCTTGAATTAATATTTCAA
* *
34276599 TATTAATTTTATTTACCTTAAATTTATATAATTTATATAA
1 TATTAATTTTATTTACCTTGAA-TTA-AT-A-TT-T-CAA
*
34276639 TTTTATTAATTTTATTTACCTTGAATTAATA-TTCTGA
1 ---TATTAATTTTATTTACCTTGAATTAATATTTC-AA
* *
34276676 TATTAATTTTATTTACTTTAAATTTATATAATTT-ATA
1 TATTAATTTTATTTACCTTGAA-TTA-AT-ATTTCA-A
*
34276713 TAATTAATAAAATTTTATTTACCTTGAATTAATATTCCAA
1 T-A-T--T--AATTTTATTTACCTTGAATTAATATTTCAA
34276753 TATTAATTTTATTTACCTTGAATTA
1 TATTAATTTTATTTACCTTGAATTA
34276778 TATAATTTAT
Statistics
Matches: 274, Mismatches: 38, Indels: 84
0.69 0.10 0.21
Matches are distributed among these distances:
28 7 0.03
29 5 0.02
30 4 0.01
31 6 0.02
33 7 0.03
34 112 0.41
35 13 0.05
36 14 0.05
37 8 0.03
38 9 0.03
39 5 0.02
40 9 0.03
41 8 0.03
42 9 0.03
43 58 0.21
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (34 bp):
TATTAATTTTATTTACCTTGAATTAATATTTCAA
Found at i:34276441 original size:77 final size:77
Alignment explanation
Indices: 34276358--34276787 Score: 399
Period size: 77 Copynumber: 5.3 Consensus size: 77
34276348 TACCTTAAAT
34276358 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTTCG
1 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTTCG
34276423 ATATTAATTTTA
66 ATATTAATTTTA
*
34276435 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCG
1 TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTTCG
34276500 ATATTAATTTTA
66 ATATTAATTTTA
* **
34276512 TTTACCTTAAATTT-TACCTTAAATTTATATAA-TTTATATAATTTTA-TTA-ATTTTATTAAT-
1 TTTACCTTAAATTTATA---T-AATTTATATAATTTTAT-TAATTTTATTTACCTTGAATTAATA
***
34276572 TTTATTTACCTTGAATTTATA
61 TTTCGATA--TT-AATTT-TA
* ** *
34276593 TTCCGATATTAATTTTATTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTAC
1 TT--TACCTTAAATTTA--TA---T-AA-TT-TAT-AT------AATTTTATTAATTTTATTTAC
34276658 CTTGAATTAATA-TTCTGATATTAATTTTA
49 CTTGAATTAATATTTC-GATATTAATTTTA
* * * *
34276687 TTTACTTTAAATTTATATAATTTATATAA-TTAATAAAATTTTATTTACCTTGAATTAATATTCC
1 TTTACCTTAAATTTATATAATTTATATAATTTTAT-TAATTTTATTTACCTTGAATTAATATTTC
*
34276751 AATATTAATTTTA
65 GATATTAATTTTA
*
34276764 TTTACCTTGAA-TTATATAATTTAT
1 TTTACCTTAAATTTATATAATTTAT
34276788 TTACCTTAAA
Statistics
Matches: 295, Mismatches: 28, Indels: 61
0.77 0.07 0.16
Matches are distributed among these distances:
76 19 0.06
77 141 0.48
78 10 0.03
79 11 0.04
80 24 0.08
81 4 0.01
83 10 0.03
84 3 0.01
85 2 0.01
86 11 0.04
87 3 0.01
88 3 0.01
89 2 0.01
90 2 0.01
92 9 0.03
94 4 0.01
95 15 0.05
96 10 0.03
97 10 0.03
98 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (77 bp):
TTTACCTTAAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTTCG
ATATTAATTTTA
Found at i:34276529 original size:12 final size:12
Alignment explanation
Indices: 34276512--34276537 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34276502 ATTAATTTTA
34276512 TTTACCTTAAAT
1 TTTACCTTAAAT
34276524 TTTACCTTAAAT
1 TTTACCTTAAAT
34276536 TT
1 TT
34276538 ATATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTACCTTAAAT
Found at i:34276547 original size:9 final size:9
Alignment explanation
Indices: 34276530--34276577 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
34276520 AAATTTTACC
*
34276530 TTAAATTTA
1 TTAATTTTA
34276539 TATAA-TTTA
1 T-TAATTTTA
34276548 TATAATTTTA
1 T-TAATTTTA
34276558 TTAATTTTA
1 TTAATTTTA
34276567 TTAATTTTA
1 TTAATTTTA
34276576 TT
1 TT
34276578 TACCTTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 29 0.78
10 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTAATTTTA
Found at i:34276551 original size:98 final size:95
Alignment explanation
Indices: 34276444--34276654 Score: 338
Period size: 98 Copynumber: 2.2 Consensus size: 95
34276434 ATTTACCTTA
34276444 AATTTATATAA-TTTATATAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAAT
1 AATTTATATAATTTTAT-TAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAAT
34276508 TTTATTTACCTTAAATTT-TACCTTAAATTTATAT
65 TTTATTTACCTTAAATTTATA---T-AATTTATAT
*
34276542 AATTTATATAATTTTATTAATTTTATTAATTTTATTTACCTTGAATTTATATTCCGATATTAATT
1 AATTTATATAATTTTATTAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAATT
34276607 TTATTTACCTTAAATTTATATAATTTATAT
66 TTATTTACCTTAAATTTATATAATTTATAT
34276637 AATTT-TATTAATTTTATT
1 AATTTATA-TAATTTTATT
34276655 TACCTTGAAT
Statistics
Matches: 109, Mismatches: 1, Indels: 9
0.92 0.01 0.08
Matches are distributed among these distances:
94 2 0.02
95 24 0.22
96 1 0.01
98 75 0.69
99 7 0.06
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (95 bp):
AATTTATATAATTTTATTAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAATT
TTATTTACCTTAAATTTATATAATTTATAT
Found at i:34276575 original size:28 final size:29
Alignment explanation
Indices: 34276521--34276653 Score: 77
Period size: 28 Copynumber: 4.6 Consensus size: 29
34276511 ATTTACCTTA
34276521 AATTTTACCTTAAATTTATATAATTTATAT
1 AATTTTA-CTTAAATTTATATAATTTATAT
*
34276551 AATTTTA-TTAATTTTAT-TAA-TT-T-T
1 AATTTTACTTAAATTTATATAATTTATAT
* *
34276575 -A-TTTACCTTGAATTTATATTCCGATATTA-AT
1 AATTTTA-CTTAAATTTATA-T--AAT-TTATAT
**
34276606 TTTATTTACCTTAAATTTATATAATTTATAT
1 AAT-TTTA-CTTAAATTTATATAATTTATAT
*
34276637 AATTTTA-TTAATTTTAT
1 AATTTTACTTAAATTTAT
34276654 TTACCTTGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 30
0.66 0.08 0.25
Matches are distributed among these distances:
22 4 0.05
23 1 0.01
24 9 0.11
25 1 0.01
26 3 0.04
27 3 0.04
28 19 0.24
30 16 0.20
31 6 0.08
33 1 0.01
34 16 0.20
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (29 bp):
AATTTTACTTAAATTTATATAATTTATAT
Found at i:34276655 original size:175 final size:172
Alignment explanation
Indices: 34276323--34276731 Score: 645
Period size: 175 Copynumber: 2.4 Consensus size: 172
34276313 GACTTTTACC
**
34276323 TTAATATTCCGATATTAATTTTATTTACCTTAAA-TT-T-T-ACCT-TA-AATTTATATAA-TTT
1 TTAATATTCCGATATTAATTTTATTTACCTTAAATTTATATAATTTATATAATTTATATAATTTT
*
34276381 ATATAATTTTATTAATTTTATTTACCTTGAATTAATATTTCGATATTAATTTTATTTACCTTAAA
66 AT-TAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAATTTTATTTACCTTAAA
34276446 TTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAA
130 TTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAA
34276489 TTAATATTCCGATATTAATTTTATTTACCTTAAATTT-TACCTTAAATTTATATAATTTATATAA
1 TTAATATTCCGATATTAATTTTATTTACCTTAAATTTATA---T-AATTTATATAATTTATATAA
*
34276553 TTTTATTAATTTTATTAATTTTATTTACCTTGAATTTATATTCCGATATTAATTTTATTTACCTT
62 TTTTATTAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAATTTTATTTACCTT
34276618 AAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAA
127 AAATTTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAA
* * * *
34276664 TTAATATTCTGATATTAATTTTATTTACTTTAAATTTATATAATTTATATAATTAATAAAATTTT
1 TTAATATTCCGATATTAATTTTATTTACCTTAAATTTATATAATTTATATAATTTATATAATTTT
34276729 ATT
66 ATT
34276732 TACCTTGAAT
Statistics
Matches: 224, Mismatches: 8, Indels: 16
0.90 0.03 0.06
Matches are distributed among these distances:
166 34 0.15
167 3 0.01
171 1 0.00
172 25 0.11
173 3 0.01
174 2 0.01
175 149 0.67
176 7 0.03
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (172 bp):
TTAATATTCCGATATTAATTTTATTTACCTTAAATTTATATAATTTATATAATTTATATAATTTT
ATTAATTTTATTAATTTTATTTACCTTGAATTAATATTCCGATATTAATTTTATTTACCTTAAAT
TTATATAATTTATATAATTTTATTAATTTTATTTACCTTGAA
Found at i:34276785 original size:24 final size:25
Alignment explanation
Indices: 34276752--34276810 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
34276742 TAATATTCCA
*
34276752 ATATTAATTTTATTTACCTTGAATT
1 ATATTAATTTTATTTACCTTAAATT
34276777 ATA-TAA-TTTATTTACCTTAAATT
1 ATATTAATTTTATTTACCTTAAATT
*
34276800 TTATTAATTTT
1 ATATTAATTTT
34276811 TTAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 18 0.60
24 6 0.20
25 6 0.20
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTAATTTTATTTACCTTAAATT
Found at i:34277030 original size:9 final size:9
Alignment explanation
Indices: 34277016--34277087 Score: 90
Period size: 9 Copynumber: 8.0 Consensus size: 9
34277006 AATTAAATAT
34277016 CTTACATAA
1 CTTACATAA
34277025 CTTACATAA
1 CTTACATAA
* * *
34277034 ATTAAATAT
1 CTTACATAA
34277043 CTTACATAA
1 CTTACATAA
34277052 CTTACATAA
1 CTTACATAA
* * *
34277061 ATTAAATAT
1 CTTACATAA
34277070 CTTACATAA
1 CTTACATAA
34277079 CTTACATAA
1 CTTACATAA
34277088 ATTAAGTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CTTACATAA
Found at i:34277048 original size:18 final size:18
Alignment explanation
Indices: 34277004--34277108 Score: 86
Period size: 18 Copynumber: 5.8 Consensus size: 18
34276994 TTATGACATT
*
34277004 TAAATTAAATATCTTACA
1 TAAATTAAATAACTTACA
* * * *
34277022 TAACTTACATAAATTAAA
1 TAAATTAAATAACTTACA
** *
34277040 TATCTTACATAACTTACA
1 TAAATTAAATAACTTACA
*
34277058 TAAATTAAATATCTTACA
1 TAAATTAAATAACTTACA
* * *
34277076 TAACTTACATAAATTA-A
1 TAAATTAAATAACTTACA
34277093 GTAAATTAAATAACTT
1 -TAAATTAAATAACTT
34277109 TCTAAAATTC
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
17 1 0.01
18 66 0.99
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (18 bp):
TAAATTAAATAACTTACA
Found at i:34277108 original size:27 final size:27
Alignment explanation
Indices: 34277004--34277092 Score: 178
Period size: 27 Copynumber: 3.3 Consensus size: 27
34276994 TTATGACATT
34277004 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
34277031 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
34277058 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
34277085 TAAATTAA
1 TAAATTAA
34277093 GTAAATTAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAATTAAATATCTTACATAACTTACA
Found at i:34282613 original size:21 final size:21
Alignment explanation
Indices: 34282589--34282657 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
34282579 CAGCAACTTA
** *
34282589 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCACAGCGAGAG
* * *
34282610 AAGCAGCGGCTACAACGAGAG
1 AAGCAGAGGCCACAGCGAGAG
34282631 AAGCAGAGGCCACAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
34282652 AAGCAG
1 AAGCAG
34282658 CGAGAGAAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.41, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCACAGCGAGAG
Found at i:34282660 original size:12 final size:12
Alignment explanation
Indices: 34282643--34282747 Score: 98
Period size: 12 Copynumber: 9.2 Consensus size: 12
34282633 GCAGAGGCCA
34282643 CAGCGAGAGAAG
1 CAGCGAGAGAAG
34282655 CAGCGAGAGAA-
1 CAGCGAGAGAAG
*
34282666 -A-C-AGAGACCG
1 CAGCGAGAGA-AG
34282676 CAGCGAGAGAAG
1 CAGCGAGAGAAG
*
34282688 CAGCAAGAGAAG
1 CAGCGAGAGAAG
**
34282700 CA--GAG-GCCG
1 CAGCGAGAGAAG
34282709 CAGCGAGAGAAG
1 CAGCGAGAGAAG
34282721 CAGCGAGAGAAG
1 CAGCGAGAGAAG
* *
34282733 CAGCAATAGAAG
1 CAGCGAGAGAAG
34282745 CAG
1 CAG
34282748 AGGTTCAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
8 5 0.07
9 5 0.07
10 3 0.04
11 4 0.05
12 53 0.71
13 5 0.07
ACGTcount: A:0.42, C:0.20, G:0.37, T:0.01
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:34282662 original size:33 final size:33
Alignment explanation
Indices: 34282625--34282735 Score: 186
Period size: 33 Copynumber: 3.4 Consensus size: 33
34282615 GCGGCTACAA
*
34282625 CGAGAGAAGCAGAGGCCACAGCGAGAGAAGCAG
1 CGAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
* *
34282658 CGAGAGAAACAGAGACCGCAGCGAGAGAAGCAG
1 CGAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
*
34282691 CAAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
1 CGAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
34282724 CGAGAGAAGCAG
1 CGAGAGAAGCAG
34282736 CAATAGAAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.41, C:0.21, G:0.39, T:0.00
Consensus pattern (33 bp):
CGAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
Found at i:34282711 original size:21 final size:21
Alignment explanation
Indices: 34282684--34282750 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
34282674 CGCAGCGAGA
34282684 GAAGCAGCAAGAGAAGCAGAG
1 GAAGCAGCAAGAGAAGCAGAG
** *
34282705 GCCGCAGCGAGAGAAGCAGCGAG
1 GAAGCAGCAAGAGAAGCA--GAG
*
34282728 AGAAGCAGCAATAGAAGCAGAG
1 -GAAGCAGCAAGAGAAGCAGAG
34282750 G
1 G
34282751 TTCAAAAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 16 0.44
22 3 0.08
23 3 0.08
24 14 0.39
ACGTcount: A:0.42, C:0.18, G:0.39, T:0.01
Consensus pattern (21 bp):
GAAGCAGCAAGAGAAGCAGAG
Found at i:34283220 original size:42 final size:42
Alignment explanation
Indices: 34283166--34283437 Score: 293
Period size: 42 Copynumber: 6.4 Consensus size: 42
34283156 GCGTTTGTGA
34283166 AATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT
* * * *
34283208 AATAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGCTTTCTTC
1 AATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTT
* * *
34283252 CA-AAGTGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
* *
34283293 TATAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT
* *
34283336 -CTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** *
34283377 TCTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
* *
34283420 ATGTAAGCGCCGCAAAAG
1 A-ATAAGCGCCGCTAAAG
34283438 TTAGTGACGT
Statistics
Matches: 199, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
41 7 0.04
42 136 0.68
43 38 0.19
44 18 0.09
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:34283364 original size:84 final size:84
Alignment explanation
Indices: 34283168--34283415 Score: 331
Period size: 84 Copynumber: 2.9 Consensus size: 84
34283158 GTTTGTGAAA
* * *
34283168 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTTAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATG
34283231 A-CTTTTAGAGGCGCTTTCTTCC
64 ATC-TTTAGAGGCG-TTTCTTCC
* * *
34283253 AAAGTGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
* *
34283318 CTTTAGGGGCGTTTCTTTC
66 CTTTAGAGGCGTTTCTTCC
* *
34283337 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
* *
34283402 ATTTAGCGGCGTTT
66 CTTTAGAGGCGTTT
34283416 TTTTATGTAA
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
84 80 0.55
85 63 0.43
86 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
CTTTAGAGGCGTTTCTTCC
Found at i:34283540 original size:22 final size:22
Alignment explanation
Indices: 34283509--34283551 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34283499 TAGTGGCGTT
* *
34283509 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
34283531 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
34283552 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:34284294 original size:13 final size:13
Alignment explanation
Indices: 34284276--34284311 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
34284266 TTCTTTATTG
34284276 CTTTTGAGAAGTA
1 CTTTTGAGAAGTA
*
34284289 CTTTTGAGAAGTG
1 CTTTTGAGAAGTA
34284302 CTTTTGAGAA
1 CTTTTGAGAA
34284312 ATTTGAGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAGTA
Found at i:34284954 original size:22 final size:22
Alignment explanation
Indices: 34284901--34284944 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
34284891 AAGCATATGA
*
34284901 AAATAATTTGGTTATATTCAAT
1 AAATAATTTGGTTATATACAAT
34284923 AAATAATTTGGTTA-ATACAAT
1 AAATAATTTGGTTATATACAAT
34284944 A
1 A
34284945 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
AAATAATTTGGTTATATACAAT
Found at i:34288024 original size:18 final size:18
Alignment explanation
Indices: 34288001--34288036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34287991 TTATTAACAT
34288001 ATTACTAACAAAATACTC
1 ATTACTAACAAAATACTC
*
34288019 ATTACTAACAAAGTACTC
1 ATTACTAACAAAATACTC
34288037 GATGTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (18 bp):
ATTACTAACAAAATACTC
Found at i:34289029 original size:51 final size:52
Alignment explanation
Indices: 34288974--34289076 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
34288964 AACTTATAAG
*
34288974 ATTAATTTATTATTTTTCAAT-AAAAACACAAAATAAAATTTCACTCAATTC
1 ATTAATTTATCATTTTTCAATAAAAAACACAAAATAAAATTTCACTCAATTC
**
34289025 ATTAATTTATCATTTTTCAATAAAAAACACAAAATGCAATTTCACTCAATTC
1 ATTAATTTATCATTTTTCAATAAAAAACACAAAATAAAATTTCACTCAATTC
34289077 CAAGATAGCG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 20 0.42
52 28 0.58
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.38
Consensus pattern (52 bp):
ATTAATTTATCATTTTTCAATAAAAAACACAAAATAAAATTTCACTCAATTC
Found at i:34295397 original size:22 final size:22
Alignment explanation
Indices: 34295338--34295401 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 22
34295328 CAAAACAGCA
*
34295338 GTTTCTCCCCTTGTTCTTGCTG
1 GTTTCTCCCCTTGTTTTTGCTG
*
34295360 GTTT-GCCCCTTGTTTTTGCTG
1 GTTTCTCCCCTTGTTTTTGCTG
34295381 GTTTCTCCCCTCT-TTTTTGCT
1 GTTTCTCCCCT-TGTTTTTGCT
34295402 TTGTTCTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 19 0.51
22 17 0.46
23 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.17, T:0.53
Consensus pattern (22 bp):
GTTTCTCCCCTTGTTTTTGCTG
Found at i:34297935 original size:30 final size:30
Alignment explanation
Indices: 34297901--34298350 Score: 757
Period size: 30 Copynumber: 14.9 Consensus size: 30
34297891 TGCACTGTAT
*
34297901 TAGTGTATTTTAAAAATAAAAAAAAATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34297931 TAGTGTATTTTAAAAAT-AAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
34297960 TAGTGTATTTTAAAAATAAAAATATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34297990 TAGTGTATTTTAAAAATAAAAAAATATATATG
1 TAGTGTATTTTAAAAAT-AAAAAA-ATATATG
34298022 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34298052 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
34298082 TAGTGTA-TTTATAAAAT-AAAAATTATATG
1 TAGTGTATTTTA-AAAATAAAAAAATATATG
*
34298111 TAGCGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
*
34298141 TAGCGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34298171 TAGTGTATTTTAAAAATAAAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34298201 TAGTGTATTTTAAAAATAAAAAAATTATATG
1 TAGTGTATTTTAAAAATAAAAAAA-TATATG
34298232 TAGTGTATTTTAAAAATAAAAAAATTATATG
1 TAGTGTATTTTAAAAATAAAAAAA-TATATG
34298263 TAGTGTATTTTAAAAAT-AAAAAATATATG
1 TAGTGTATTTTAAAAATAAAAAAATATATG
34298292 TAGTGTATTTTAAAAATAAAAAAATATATATG
1 TAGTGTATTTTAAAAAT-AAAAAA-ATATATG
34298324 TAGTGTATTTTAAAAAT-AAAAAATATA
1 TAGTGTATTTTAAAAATAAAAAAATATA
34298351 GTTTATATTC
Statistics
Matches: 403, Mismatches: 7, Indels: 21
0.94 0.02 0.05
Matches are distributed among these distances:
29 82 0.20
30 203 0.50
31 70 0.17
32 48 0.12
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (30 bp):
TAGTGTATTTTAAAAATAAAAAAATATATG
Found at i:34298119 original size:121 final size:121
Alignment explanation
Indices: 34297901--34298350 Score: 768
Period size: 121 Copynumber: 3.7 Consensus size: 121
34297891 TGCACTGTAT
*
34297901 TAGTGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTAGTG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
34297965 TATTTTAAAAATAAAAATATATATGTAGTGTATTTTAAAAATAAAAAAATATATATG
66 TATTTTAAAAATAAAAAT-TATATGTAGTGTATTTTAAAAATAAAAAAATATATATG
34298022 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
*
34298087 TA-TTTATAAAATAAAAATTATATGTAGCGTATTTTAAAAAT-AAAAAA-ATATATG
66 TATTTTA-AAAATAAAAATTATATGTAGTGTATTTTAAAAATAAAAAAATATATATG
*
34298141 TAGCGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
34298206 TATTTTAAAAATAAAAAAATTATATGTAGTGTATTTTAAAAATAAAAAAAT-TATATG
66 TATTTTAAAAAT--AAAAATTATATGTAGTGTATTTTAAAAATAAAAAAATATATATG
34298263 TAGTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAA-ATATATGTAG
*
34298327 TGTATTTTAAAAATAAAAAATATA
64 TGTATTTTAAAAATAAAAATTATA
34298351 GTTTATATTC
Statistics
Matches: 314, Mismatches: 6, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
119 78 0.25
120 10 0.03
121 138 0.44
122 64 0.20
123 24 0.08
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (121 bp):
TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
TATTTTAAAAATAAAAATTATATGTAGTGTATTTTAAAAATAAAAAAATATATATG
Found at i:34298194 original size:151 final size:151
Alignment explanation
Indices: 34297901--34298350 Score: 784
Period size: 151 Copynumber: 3.0 Consensus size: 151
34297891 TGCACTGTAT
* *
34297901 TAGTGTATTTTAAAAATAAAAAAAAATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGT
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAATTATATGTAGTGT
*
34297966 ATTTTAAAAATAAAAATATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGTATT
66 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGTATT
34298031 TTAAAAATAAAAAAATATATG
131 TTAAAAATAAAAAAATATATG
*
34298052 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTA-TTTATAAAATAAAAATTATATGTAGCG
1 TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTA-AAAATAAAAATTATATGTAGTG
*
34298116 TATTTTAAAAATAAAAAAATATATGTAGCGTATTTTAAAAAT-AAAAAA-ATATATGTAGTGTAT
65 TATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGTAT
34298179 TTTAAAAATAAAAAAATATATG
130 TTTAAAAATAAAAAAATATATG
34298201 TAGTGTATTTTAAAAATAAAAAAATTATATGTAGTGTATTTTAAAAATAAAAAAATTATATGTAG
1 TAGTGTATTTTAAAAATAAAAAAA-TATATGTAGTGTATTTTAAAAAT--AAAAATTATATGTAG
34298266 TGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGT
63 TGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGT
34298330 ATTTTAAAAAT-AAAAAATATA
128 ATTTTAAAAATAAAAAAATATA
34298351 GTTTATATTC
Statistics
Matches: 285, Mismatches: 7, Indels: 13
0.93 0.02 0.04
Matches are distributed among these distances:
149 61 0.21
150 28 0.10
151 128 0.45
152 44 0.15
153 24 0.08
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (151 bp):
TAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAATTATATGTAGTGT
ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATATGTAGTGTATT
TTAAAAATAAAAAAATATATG
Found at i:34301989 original size:21 final size:21
Alignment explanation
Indices: 34301963--34302018 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
34301953 CACCATTGTT
*
34301963 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
34301984 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
34302005 ACTAATCTCACCGC
1 TCTAATCTCACCGC
34302019 CACCGCTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:34304881 original size:18 final size:18
Alignment explanation
Indices: 34304840--34304882 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
34304830 ATTGAACCAG
*
34304840 AATTTTTAAATTTTTTAT
1 AATTTTTAAATTTTTAAT
**
34304858 TTTTTTTAAATTTTTAAT
1 AATTTTTAAATTTTTAAT
34304876 AATTTTT
1 AATTTTT
34304883 TAATCGGACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTTTTAAATTTTTAAT
Found at i:34306698 original size:58 final size:58
Alignment explanation
Indices: 34306620--34306729 Score: 193
Period size: 58 Copynumber: 1.9 Consensus size: 58
34306610 GTCCGTTAGA
* * *
34306620 GACTAACGAATGAAGAGGATGTTCGTTATGATTATCTAGGGTTGGGAAGTCCGCCAAG
1 GACTAACGAATGAAGAGGATGTTCGTTAGGACTATCTAGCGTTGGGAAGTCCGCCAAG
34306678 GACTAACGAATGAAGAGGATGTTCGTTAGGACTATCTAGCGTTGGGAAGTCC
1 GACTAACGAATGAAGAGGATGTTCGTTAGGACTATCTAGCGTTGGGAAGTCC
34306730 ATTAAGGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (58 bp):
GACTAACGAATGAAGAGGATGTTCGTTAGGACTATCTAGCGTTGGGAAGTCCGCCAAG
Found at i:34306937 original size:9 final size:9
Alignment explanation
Indices: 34306923--34306953 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34306913 GTTAAACGAA
34306923 TCGAGTTAT
1 TCGAGTTAT
*
34306932 TCGAGTTAA
1 TCGAGTTAT
34306941 TCGAGTTAT
1 TCGAGTTAT
34306950 TCGA
1 TCGA
34306954 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:34307024 original size:9 final size:9
Alignment explanation
Indices: 34307007--34307043 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34306997 TGAGTTTTCG
34307007 AATTCGAAT
1 AATTCGAAT
*
34307016 AACTCGAAT
1 AATTCGAAT
34307025 AATTCGAAT
1 AATTCGAAT
34307034 AATTCGAAT
1 AATTCGAAT
34307043 A
1 A
34307044 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34307878 original size:50 final size:50
Alignment explanation
Indices: 34307821--34307921 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
34307811 CTAACCAATA
*
34307821 TATAAAAAATTAATAAATAAATTATGAAGTGATGAAAGTTAATAAAAAAT
1 TATAAAAAAATAATAAATAAATTATGAAGTGATGAAAGTTAATAAAAAAT
34307871 TATAAAAAAATAATAAATAAATTATGAAGTGATGAAAGTTAATAAAAAAT
1 TATAAAAAAATAATAAATAAATTATGAAGTGATGAAAGTTAATAAAAAAT
34307921 T
1 T
34307922 TGATTAAGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (50 bp):
TATAAAAAAATAATAAATAAATTATGAAGTGATGAAAGTTAATAAAAAAT
Found at i:34314646 original size:19 final size:19
Alignment explanation
Indices: 34314622--34314696 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
34314612 AATCATATCT
*
34314622 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
34314641 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
34314662 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34314681 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34314697 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34315285 original size:44 final size:44
Alignment explanation
Indices: 34315236--34315441 Score: 165
Period size: 44 Copynumber: 4.8 Consensus size: 44
34315226 TTCTGATCCA
*
34315236 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTCAATCTG
* * * * **
34315280 TTCCACTACAACCTCAGGGAGATAAGATTGACTTATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTCAATCTG
* * * * *
34315324 -TCCCACTGCAACCTCGGGGAGAT-GAGACTGG---ATGCGATCTG
1 CT-CCACTGCAACTTCAGGGAGATAG-GATTGGTTTATTCAATCTG
* * * * * *
34315365 CTCTACTACAACTTCAGAGAGATAAGATCTGTGTTT-TT-AACCCG
1 CTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTATTCAATCTG
34315409 CTCCACTGCAACTTCAGGGAGATAGGATTGGTT
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTT
34315442 ACTTCTGTCT
Statistics
Matches: 124, Mismatches: 29, Indels: 20
0.72 0.17 0.12
Matches are distributed among these distances:
41 26 0.21
42 6 0.05
43 4 0.03
44 87 0.70
45 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTATTCAATCTG
Found at i:34316128 original size:45 final size:45
Alignment explanation
Indices: 34315449--34316124 Score: 859
Period size: 45 Copynumber: 15.0 Consensus size: 45
34315439 GTTACTTCTG
* * *
34315449 TCTTCGATCTACTTCGC-AGCCAATACATGAAGATAAGATCTGCTG
1 TCTTCGATCTACTTCGCTA-CCAATACAGGAAGACAAGATCTGCTA
* * * * *
34315494 TTTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCCGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
34315539 TCTTCGATCTACTTTGCTACCAATAGAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * *
34315584 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATTTGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* *
34315629 TCTTCGATCTACTTTGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * *
34315674 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATTTGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
*
34315719 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * *
34315764 TCTTTGATCTACTTCGCTACCAATATAGGAAGACAAAATCTGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
34315809 TCTTCGATCTACTTCGCTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* *
34315854 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * * *
34315899 TCTTTGATTTACTTGGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
34315944 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTG
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* ** * * *
34315989 TTTTCGATCTACTTCGCTGTCAATATAGGAAGACAAGATATGCTG
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * * * *
34316034 TTTTCAATCTGCTTTGCTACCAATACAGAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
* * *
34316079 TTTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
34316124 T
1 T
34316125 TTTTACTGAT
Statistics
Matches: 548, Mismatches: 82, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
45 548 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
Found at i:34317429 original size:46 final size:45
Alignment explanation
Indices: 34317360--34317449 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
34317350 CTATTTTCTT
* * *
34317360 TTTTTTTTGGACTCAAAGTGCCCTTTCCGGGTTTTCACATTGGTA
1 TTTTTTTTGAACTCAAAGCGCCCTTTCCAGGTTTTCACATTGGTA
* *
34317405 TTTTTTTTGAAACTCAAAGCGCCCTTTGCAGGTTTTCACCTTGGT
1 TTTTTTTTG-AACTCAAAGCGCCCTTTCCAGGTTTTCACATTGGT
34317450 CCCTTCTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 9 0.23
46 30 0.77
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (45 bp):
TTTTTTTTGAACTCAAAGCGCCCTTTCCAGGTTTTCACATTGGTA
Found at i:34319067 original size:11 final size:11
Alignment explanation
Indices: 34319051--34319075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34319041 TAGTAGGTAC
34319051 CAAAGAATATA
1 CAAAGAATATA
34319062 CAAAGAATATA
1 CAAAGAATATA
34319073 CAA
1 CAA
34319076 TATGATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (11 bp):
CAAAGAATATA
Found at i:34319361 original size:19 final size:19
Alignment explanation
Indices: 34319337--34319376 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
34319327 TCTTCCGCAG
34319337 TCCAATTGTTTAGAACACC
1 TCCAATTGTTTAGAACACC
34319356 TCCAATTGTTTAGAACACC
1 TCCAATTGTTTAGAACACC
34319375 TC
1 TC
34319377 TAAGTAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (19 bp):
TCCAATTGTTTAGAACACC
Found at i:34323452 original size:59 final size:59
Alignment explanation
Indices: 34323365--34323504 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 59
34323355 GATCTTAACA
** * *
34323365 TTTTT-TTAATTTGGTATTTAAAATTTTTTTAGCTCAATTT-AGTACTTGAACTTGACAT
1 TTTTTCTTAATTTGGTACCTAAAATTTTTTGAGCCCAATTTGA-TACTTGAACTTGACAT
* *
34323423 TTTTTCTTAATTTGGTA-CTAAAACTTTTTTGGGCCCAATTTGATAGTTGAACTTGACAT
1 TTTTTCTTAATTTGGTACCTAAAA-TTTTTTGAGCCCAATTTGATACTTGAACTTGACAT
* * *
34323482 GTTTTCCTAATTTAGTACCTAAA
1 TTTTTCTTAATTTGGTACCTAAA
34323505 TTTATTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 10 0.14
59 54 0.77
60 6 0.09
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (59 bp):
TTTTTCTTAATTTGGTACCTAAAATTTTTTGAGCCCAATTTGATACTTGAACTTGACAT
Found at i:34326062 original size:39 final size:40
Alignment explanation
Indices: 34325977--34326160 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
34325967 GCTACTCGTT
*
34325977 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34326017 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
34326056 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34326095 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
34326136 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34326161 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 6 0.05
39 55 0.45
40 50 0.41
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34327363 original size:56 final size:56
Alignment explanation
Indices: 34327296--34327415 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34327286 TATTAGTTTA
34327296 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
34327352 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
34327408 TTGCCCAT
1 TTGCCCAT
34327416 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34328560 original size:28 final size:28
Alignment explanation
Indices: 34328515--34328591 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
34328505 TTTTATGATC
* *
34328515 CGCCATAAAGGCTTTTCTTTTTACAATT
1 CGCCACAAAGGCTATTCTTTTTACAATT
* * * *
34328543 CTCCACAGAGGTTATTCTTTTTACGATT
1 CGCCACAAAGGCTATTCTTTTTACAATT
*
34328571 CGCCACAAAGGCTATTATTTT
1 CGCCACAAAGGCTATTCTTTT
34328592 CTATCGTGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (28 bp):
CGCCACAAAGGCTATTCTTTTTACAATT
Found at i:34332968 original size:341 final size:341
Alignment explanation
Indices: 34332345--34333026 Score: 1301
Period size: 341 Copynumber: 2.0 Consensus size: 341
34332335 AAGTAATTGT
34332345 CCTAGTTTATTTATGTTATAATTGTTGCAAATTGTATTTAATTTTACTAAAATCTATTTCATTCA
1 CCTAGTTTATTTATGTTATAATTGTTGCAAATTGTATTTAATTTTACTAAAATCTATTTCATTCA
*
34332410 TATAGTTTGCATACTTAGGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAAT
66 TATAGTTTGCATACTTAAGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAAT
34332475 CACCACTTCTCAACTATATTGTGTTTTTTATTTACCAAATTGTTAATATAATTTTACAAATTAAG
131 CACCACTTCTCAACTATATTGTGTTTTTTATTTACCAAATTGTTAATATAATTTTACAAATTAAG
34332540 TGACTTAGCACAAATACAATCCCTGTAGAGATGATAACTCAATACTTACTTATTACTTGATAACG
196 TGACTTAGCACAAATACAATCCCTGTAGAGATGATAACTCAATACTTACTTATTACTTGATAACG
* *
34332605 ACTGTGTACACTTGCACAAACCCTAACGTTACAACGTGGGGAAGATGGTGAAATCTATGAACTTT
261 ACTGTGTACACTTGCACAAACCCCAACGTTACAACGTGGGGAAGATGATGAAATCTATGAACTTT
34332670 TAGGATGTTTTCTTGA
326 TAGGATGTTTTCTTGA
*
34332686 CCTAGTTTATTTATGTTATAATTGTTGCAAATTGTGTTTAATTTTACTAAAATCTATTTCATTCA
1 CCTAGTTTATTTATGTTATAATTGTTGCAAATTGTATTTAATTTTACTAAAATCTATTTCATTCA
34332751 TATAGTTTGCATACTTAAGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAAT
66 TATAGTTTGCATACTTAAGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAAT
*
34332816 CACCACTTTTCAACTATATTGTGTTTTTTATTTACCAAATTGTTAATATAATTTTACAAATTAAG
131 CACCACTTCTCAACTATATTGTGTTTTTTATTTACCAAATTGTTAATATAATTTTACAAATTAAG
*
34332881 TGACTTAGCACAAATACAATCCCTGTGGAGATGATAACTCAATACTTACTTATTACTTGATAACG
196 TGACTTAGCACAAATACAATCCCTGTAGAGATGATAACTCAATACTTACTTATTACTTGATAACG
*
34332946 ACTGTGTACACTTGCACAAACCCCAGCGTTACAACGTGGGGAAGATGATGAAATCTATGAACTTT
261 ACTGTGTACACTTGCACAAACCCCAACGTTACAACGTGGGGAAGATGATGAAATCTATGAACTTT
34333011 TAGGATGTTTTCTTGA
326 TAGGATGTTTTCTTGA
34333027 AGATTTATGA
Statistics
Matches: 334, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
341 334 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (341 bp):
CCTAGTTTATTTATGTTATAATTGTTGCAAATTGTATTTAATTTTACTAAAATCTATTTCATTCA
TATAGTTTGCATACTTAAGATAATTTGCATTAGGGATCATTGCATTTAGTTTAATATATTTTAAT
CACCACTTCTCAACTATATTGTGTTTTTTATTTACCAAATTGTTAATATAATTTTACAAATTAAG
TGACTTAGCACAAATACAATCCCTGTAGAGATGATAACTCAATACTTACTTATTACTTGATAACG
ACTGTGTACACTTGCACAAACCCCAACGTTACAACGTGGGGAAGATGATGAAATCTATGAACTTT
TAGGATGTTTTCTTGA
Found at i:34336449 original size:20 final size:20
Alignment explanation
Indices: 34336410--34336449 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34336400 TTATTTTATT
*
34336410 TTTAATTTTAATTTTATTTA
1 TTTAATTTTAATATTATTTA
34336430 TTTAA-TTTAATATTACTTTA
1 TTTAATTTTAATATTA-TTTA
34336450 ATCCTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATTTTAATATTATTTA
Found at i:34336862 original size:22 final size:24
Alignment explanation
Indices: 34336827--34336871 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
34336817 TATTTTTATC
* *
34336827 ATAAAACAATAATATTGGTTTTTT
1 ATAAAACAATAATACTGGGTTTTT
34336851 ATAAAA-AA-AATACTGGGTTTT
1 ATAAAACAATAATACTGGGTTTT
34336872 AGCGGGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (24 bp):
ATAAAACAATAATACTGGGTTTTT
Found at i:34343396 original size:97 final size:97
Alignment explanation
Indices: 34343230--34343423 Score: 334
Period size: 97 Copynumber: 2.0 Consensus size: 97
34343220 CAATATTGGA
* * *
34343230 GAAGTTTCAGATGCCAATTCAATAGCAAATTCAACCTCCCTGATTGGTGGTAACCTTGGCAATTC
1 GAAGTTCCAGATGCCAATTCAATAGCAAATTCAACCTCCCTGATTAGTGGTAACCCTGGCAATTC
34343295 TTTTGGGAAAACATCAGCAAATTCATGAACAG
66 TTTTGGGAAAACATCAGCAAATTCATGAACAG
* *
34343327 GAAGTTCCCGATGCCAATTCAATAGCAAATTCAACCTTCCTGATTAGTGGTAACCCTGGCAATTC
1 GAAGTTCCAGATGCCAATTCAATAGCAAATTCAACCTCCCTGATTAGTGGTAACCCTGGCAATTC
*
34343392 TTTTGGGAAAATATCAGCAAATTCATGAACAG
66 TTTTGGGAAAACATCAGCAAATTCATGAACAG
34343424 TCAAAGCTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (97 bp):
GAAGTTCCAGATGCCAATTCAATAGCAAATTCAACCTCCCTGATTAGTGGTAACCCTGGCAATTC
TTTTGGGAAAACATCAGCAAATTCATGAACAG
Found at i:34346286 original size:21 final size:21
Alignment explanation
Indices: 34346260--34346300 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34346250 ATATGTGAGA
*
34346260 AATTTA-CTTATGTTATGGATG
1 AATTTATC-TATGTCATGGATG
34346281 AATTTATCTATGTCATGGAT
1 AATTTATCTATGTCATGGAT
34346301 AAATGCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (21 bp):
AATTTATCTATGTCATGGATG
Found at i:34350359 original size:27 final size:24
Alignment explanation
Indices: 34350290--34350337 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
34350280 TCAGGATAGA
*
34350290 AATGCTCACATAAGTTGTGAATAT
1 AATGCTCACACAAGTTGTGAATAT
*
34350314 AATGCTCACACGAGTTGTGAATAT
1 AATGCTCACACAAGTTGTGAATAT
34350338 GGGTTTGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (24 bp):
AATGCTCACACAAGTTGTGAATAT
Found at i:34358849 original size:3 final size:3
Alignment explanation
Indices: 34358841--34358869 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34358831 AGTTAAGCTC
34358841 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34358870 TTGTGAAATT
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:34359229 original size:3 final size:3
Alignment explanation
Indices: 34359223--34359257 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34359213 ACTTTTGTTG
34359223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34359258 TTGAAACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34360322 original size:24 final size:22
Alignment explanation
Indices: 34360295--34360346 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 22
34360285 TGAGAATATT
34360295 TTTTATATAATTAAATCAAT-AAAA
1 TTTTATA-AA-TAAAT-AATAAAAA
34360319 TTTTGATAAATAAATAATAAAAA
1 TTTT-ATAAATAAATAATAAAAA
34360342 TTTTA
1 TTTTA
34360347 AATTTATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.15
23 13 0.50
24 6 0.23
25 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTTATAAATAAATAATAAAAA
Found at i:34360340 original size:22 final size:24
Alignment explanation
Indices: 34360301--34360345 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
34360291 TATTTTTTAT
*
34360301 ATAATTAAATCAAT-AAAATTTTG
1 ATAAATAAATCAATAAAAATTTTG
34360324 ATAAATAAAT-AATAAAAATTTT
1 ATAAATAAATCAATAAAAATTTT
34360346 AAATTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATAAATAAATCAATAAAAATTTTG
Found at i:34364142 original size:20 final size:20
Alignment explanation
Indices: 34364117--34364155 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34364107 TTTATCCATA
*
34364117 AGATAAGGCTTAAAAGATAT
1 AGATAAGCCTTAAAAGATAT
*
34364137 AGATAAGCCTTAATAGATA
1 AGATAAGCCTTAAAAGATA
34364156 ATACATGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (20 bp):
AGATAAGCCTTAAAAGATAT
Found at i:34368428 original size:4 final size:4
Alignment explanation
Indices: 34368419--34368453 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
34368409 TTTTAACTTC
34368419 AATT AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
34368454 TGAAAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:34370158 original size:3 final size:3
Alignment explanation
Indices: 34370135--34370220 Score: 52
Period size: 3 Copynumber: 28.7 Consensus size: 3
34370125 ATATATAAAT
* * * * **
34370135 TAA T-A TAA TAA CAA TAT TAA TAA TAA T-A TCAG TAG TAA TAA GGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
34370179 TGA TAA TAA TAA TAA -AT TAA TAA TAA TAGA TTAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TA
34370221 TTATTGAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
2 5 0.08
3 55 0.85
4 3 0.05
5 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34370201 original size:14 final size:15
Alignment explanation
Indices: 34370124--34370220 Score: 67
Period size: 14 Copynumber: 6.5 Consensus size: 15
34370114 ATGGCGATTA
34370124 AATATATAA-ATTAAT
1 AATA-ATAAGATTAAT
* * *
34370139 -ATAATAACAATATT
1 AATAATAAGATTAAT
* * *
34370153 AATAATAATATCAGT
1 AATAATAAGATTAAT
*
34370168 AGTAATAAGGATGATAAT
1 AATAATAA-GAT--TAAT
34370186 AATAATAA-ATTAAT
1 AATAATAAGATTAAT
34370200 AATAAT-AGATTAAT
1 AATAATAAGATTAAT
34370214 AATAATA
1 AATAATA
34370221 TTATTGAATA
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
13 5 0.08
14 29 0.45
15 17 0.27
16 4 0.06
18 9 0.14
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (15 bp):
AATAATAAGATTAAT
Found at i:34370203 original size:17 final size:17
Alignment explanation
Indices: 34370181--34370220 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34370171 AATAAGGATG
34370181 ATAATAATA-ATAAATTA
1 ATAATAATAGATAAA-TA
*
34370198 ATAATAATAGATTAATA
1 ATAATAATAGATAAATA
34370215 ATAATA
1 ATAATA
34370221 TTATTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
ATAATAATAGATAAATA
Found at i:34374072 original size:25 final size:25
Alignment explanation
Indices: 34374038--34374088 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34374028 TCTGAACATT
34374038 ACTCTAGATAAGCTCTAAAAACTAC
1 ACTCTAGATAAGCTCTAAAAACTAC
34374063 ACTCTAGATAAGCTCTAAAAACTAC
1 ACTCTAGATAAGCTCTAAAAACTAC
34374088 A
1 A
34374089 GGGATTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (25 bp):
ACTCTAGATAAGCTCTAAAAACTAC
Found at i:34377754 original size:30 final size:30
Alignment explanation
Indices: 34377719--34377806 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 30
34377709 AAATAATGGC
34377719 GATTAAATATATAAATTAATATAATAACAAT
1 GATTAAATA-ATAAATTAATATAATAACAAT
* * *
34377750 -ATT-AATAATAATATCAGTAGTAATAACGAT
1 GATTAAATAATAA-ATTAATA-TAATAACAAT
*
34377780 GATAAGAATAATAAATTAATAATAATA
1 GATTA-AATAATAAATTAAT-ATAATA
34377807 GATGAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
28 4 0.09
29 9 0.20
30 12 0.27
31 2 0.04
32 9 0.20
33 9 0.20
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (30 bp):
GATTAAATAATAAATTAATATAATAACAAT
Found at i:34377805 original size:14 final size:14
Alignment explanation
Indices: 34377786--34377820 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34377776 CGATGATAAG
*
34377786 AATAATAAATTAAT
1 AATAATAAATGAAT
*
34377800 AATAATAGATGAAT
1 AATAATAAATGAAT
34377814 AATAATA
1 AATAATA
34377821 TTACTGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
AATAATAAATGAAT
Found at i:34381659 original size:19 final size:19
Alignment explanation
Indices: 34381635--34381673 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34381625 TTCACAACAT
*
34381635 TTTGCCTATACAGTCATTA
1 TTTGCCAATACAGTCATTA
34381654 TTTGCCAATACAGTCATTA
1 TTTGCCAATACAGTCATTA
34381673 T
1 T
34381674 GGAGATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTGCCAATACAGTCATTA
Found at i:34386993 original size:16 final size:16
Alignment explanation
Indices: 34386949--34386997 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
34386939 ATCACCACTC
* *
34386949 TAAAAATTAATATTTTT
1 TAAAAAATAATA-TTAT
34386966 TAAAATAATAATATTAT
1 TAAAA-AATAATATTAT
34386983 TAAAAAATAAT-TTAT
1 TAAAAAATAATATTAT
34386998 GAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.14
16 6 0.21
17 13 0.45
18 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAAAATAATATTAT
Found at i:34387468 original size:6 final size:6
Alignment explanation
Indices: 34387457--34387484 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34387447 CGTCTATATA
34387457 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
34387485 TACATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:34390453 original size:45 final size:44
Alignment explanation
Indices: 34390363--34390453 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
34390353 GGCTATCGCT
* * *
34390363 TAAAATGAGTAAGACCATAGTTGAAAAATGTCATGACATTATGA
1 TAAAATGAGAAAGACCATAGCTGAAAAATGTCATGACATCATGA
* * * *
34390407 TAAAGATGAGAAAGACCATAGCTGAAAGATGTTATGGCATCGTGA
1 TAAA-ATGAGAAAGACCATAGCTGAAAAATGTCATGACATCATGA
34390452 TA
1 TA
34390454 GAAACATGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 4 0.10
45 35 0.90
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (44 bp):
TAAAATGAGAAAGACCATAGCTGAAAAATGTCATGACATCATGA
Found at i:34392346 original size:27 final size:26
Alignment explanation
Indices: 34392305--34392391 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
34392295 GCATCATAGT
*
34392305 TAGTCCAATAGGACATTAAACACGGGA
1 TAGTCCGATAGGACATTAAACA-GGGA
34392332 TAGTCCGAT-GAGACATTAAACTAGGGA
1 TAGTCCGATAG-GACATTAAAC-AGGGA
* *
34392359 TAGTCTGATAGGACGTTAAACAAGGG-
1 TAGTCCGATAGGACATTAAAC-AGGGA
34392385 TAGTCCG
1 TAGTCCG
34392392 CTGGGATAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 7 0.13
27 43 0.83
28 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (26 bp):
TAGTCCGATAGGACATTAAACAGGGA
Found at i:34398422 original size:45 final size:45
Alignment explanation
Indices: 34398341--34398612 Score: 359
Period size: 45 Copynumber: 6.1 Consensus size: 45
34398331 AACCGTTACA
* * **
34398341 CAGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
* * ** ***
34398384 CAGTGGAATCAACATATAGCAACCACCTTTATTTTCAATGATTTT
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
* * * *
34398429 CGGTGGAGTCAGCACATAGAAACCACCTTTATAATCAATGGTACC
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
*
34398474 CAGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATACC
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
*
34398519 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
* *
34398564 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACT
1 CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
34398609 CAGT
1 CAGT
34398613 ACACGTAGTA
Statistics
Matches: 200, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 6 0.03
44 11 0.05
45 183 0.92
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (45 bp):
CAGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
Found at i:34403811 original size:49 final size:50
Alignment explanation
Indices: 34403710--34403900 Score: 180
Period size: 49 Copynumber: 3.9 Consensus size: 50
34403700 ACATTAAGGG
*
34403710 GATGAGA--TCCCATGTAA-ACCATGTCTGGGACATGGCATTGGCATCGA
1 GATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * *
34403757 GATGAGAGGTCCCCTGTAAGACCATGTTTGGGATATGGCA-TGGCACCGA
1 GATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * * * *
34403806 TATGAGAGCTCCCATGTAAGACCATATCAGGGATATGACATTGGTA--GTA
1 GATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * *
34403855 CA-GAAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GATGAGAGC-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34403901 TGTTATTAAC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 7 0.06
48 5 0.04
49 83 0.71
50 22 0.19
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
GATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:34408494 original size:25 final size:25
Alignment explanation
Indices: 34408466--34408522 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
34408456 TTGTAAACGA
*
34408466 TAAGCTCCTCCGAGCTGCATAATGG
1 TAAGCTCCTCCGAGCTGAATAATGG
*
34408491 TAAGCTCCTCTGAGCTGAATAATGG
1 TAAGCTCCTCCGAGCTGAATAATGG
34408516 TAAGCTC
1 TAAGCTC
34408523 ATATGAGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTGAATAATGG
Found at i:34408529 original size:25 final size:25
Alignment explanation
Indices: 34408489--34408592 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 25
34408479 GCTGCATAAT
* *
34408489 GGTAAGCTCCTCTGAGCTGAATAAT-
1 GGTAAGCTCATATGAGCTGAAT-ATC
*
34408514 GGTAAGCTCATATGAGCTGAGTATC
1 GGTAAGCTCATATGAGCTGAATATC
* * * * *
34408539 GGTAATCTTATACGAGATGAGTATC
1 GGTAAGCTCATATGAGCTGAATATC
*
34408564 GGTAAGCTCATAAGAGCTGAA-ATC
1 GGTAAGCTCATATGAGCTGAATATC
34408588 GGTAA
1 GGTAA
34408593 CCCTAATAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 10 0.15
25 56 0.85
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAATATC
Found at i:34411630 original size:40 final size:40
Alignment explanation
Indices: 34411362--34411630 Score: 441
Period size: 40 Copynumber: 6.7 Consensus size: 40
34411352 GCAAACACAT
* * *
34411362 TTGCCTTCGGGTCTTAACCCGGACATATCAAC-CTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTC-GCATAA
* *
34411402 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* * *
34411442 TTGCCTTTGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
34411482 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34411522 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34411562 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34411602 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
34411631 CCAATGCTCA
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 214 1.00
41 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:34420169 original size:40 final size:40
Alignment explanation
Indices: 34419901--34420169 Score: 441
Period size: 40 Copynumber: 6.7 Consensus size: 40
34419891 GCAAACACAT
* * *
34419901 TTGCCTTCGGGTCTTAACCCGGACATATCAAC-CTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTC-GCATAA
* *
34419941 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
* * *
34419981 TTGCCTTTGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
34420021 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34420061 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34420101 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
34420141 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
34420170 CCAATGCTCA
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 214 1.00
41 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:34428475 original size:25 final size:25
Alignment explanation
Indices: 34428446--34428501 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
34428436 TGTAAACTGC
*
34428446 AAGCTCCTCCGAGCTGAATAATGGT
1 AAGCTCCTCCGAGCTGAATAACGGT
* **
34428471 AAGCTCTTTTGAGCTGAATAACGGT
1 AAGCTCCTCCGAGCTGAATAACGGT
*
34428496 ACGCTC
1 AAGCTC
34428502 ATATGAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAGCTCCTCCGAGCTGAATAACGGT
Found at i:34428508 original size:25 final size:25
Alignment explanation
Indices: 34428456--34428512 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
34428446 AAGCTCCTCC
* * *
34428456 GAGCTGAATAATGGTAAGCTCTTTT
1 GAGCTGAATAACGGTAAGCTCATAT
*
34428481 GAGCTGAATAACGGTACGCTCATAT
1 GAGCTGAATAACGGTAAGCTCATAT
34428506 GAGCTGA
1 GAGCTGA
34428513 GTATCCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCATAT
Found at i:34442210 original size:19 final size:19
Alignment explanation
Indices: 34442188--34442225 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34442178 TCAATCATCC
34442188 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
34442207 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
34442226 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:34444987 original size:19 final size:20
Alignment explanation
Indices: 34444962--34445022 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
34444952 TTTGTAACTC
34444962 AAATGAAAGAAAAAGAAAAG
1 AAATGAAAGAAAAAGAAAAG
34444982 -AATGAAA-AAGAAAGAAAAG
1 AAATGAAAGAA-AAAGAAAAG
*
34445001 AAAGTGAAAAGAACAAGAAAAG
1 AAA-TG-AAAGAAAAAGAAAAG
34445023 TGAAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 2 0.06
19 16 0.46
20 2 0.06
21 2 0.06
22 11 0.31
23 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (20 bp):
AAATGAAAGAAAAAGAAAAG
Found at i:34445024 original size:18 final size:16
Alignment explanation
Indices: 34444992--34445028 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
34444982 AATGAAAAAG
34444992 AAAGAAAAGAAAGTGA
1 AAAGAAAAGAAAGTGA
34445008 AAAGAACAAGAAAAGTGA
1 AAAGAA-AAG-AAAGTGA
34445026 AAA
1 AAA
34445029 AAATCAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 3 0.16
18 10 0.53
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAGAAAAGAAAGTGA
Found at i:34447955 original size:20 final size:20
Alignment explanation
Indices: 34447932--34447988 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
34447922 CAGCTCCGCA
*
34447932 AGCTCATTTAAGCTCCAATC
1 AGCTCATTTAAGCTCAAATC
* * *
34447952 AGCTCACTTGAGCTTAAATC
1 AGCTCATTTAAGCTCAAATC
**
34447972 AGCTTGTTTAAGCTCAA
1 AGCTCATTTAAGCTCAA
34447989 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (20 bp):
AGCTCATTTAAGCTCAAATC
Found at i:34451987 original size:15 final size:16
Alignment explanation
Indices: 34451960--34451989 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34451950 GATAACAATT
34451960 AATATATATTATATAA
1 AATATATATTATATAA
34451976 AATATA-ATTATATA
1 AATATATATTATATA
34451990 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:34454746 original size:25 final size:25
Alignment explanation
Indices: 34454718--34454809 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 25
34454708 TCCGACCCAC
*
34454718 AGCTCGTGTGAGCATACTGATTTAT
1 AGCTCGTGTGAGCATACCGATTTAT
* * *
34454743 AGCTCGTGAGAGCATACCGATCTAC
1 AGCTCGTGTGAGCATACCGATTTAT
* * *
34454768 AGCTCGAGTGAGCATACCAATTCAT
1 AGCTCGTGTGAGCATACCGATTTAT
*
34454793 AGCTCGTATGAGCATAC
1 AGCTCGTGTGAGCATAC
34454810 ATATACATGA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATTTAT
Found at i:34456208 original size:140 final size:140
Alignment explanation
Indices: 34455956--34456237 Score: 555
Period size: 140 Copynumber: 2.0 Consensus size: 140
34455946 TTGTATCTTT
*
34455956 CAAAGGGTTGCAAGTCAGGCTGTTACATGGACTAGCACACGACCTGGCACATGGGCGTGTGGGGT
1 CAAAGGGTTGCAAGTCAGGCTGTTACACGGACTAGCACACGACCTGGCACATGGGCGTGTGGGGT
34456021 TACTTCAAAGGGTACACGGCCTGGCAAACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTGA
66 TACTTCAAAGGGTACACGGCCTGGCAAACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTGA
34456086 GTTACATGGG
131 GTTACATGGG
34456096 CAAAGGGTTGCAAGTCAGGCTGTTACACGGACTAGCACACGACCTGGCACATGGGCGTGTGGGGT
1 CAAAGGGTTGCAAGTCAGGCTGTTACACGGACTAGCACACGACCTGGCACATGGGCGTGTGGGGT
34456161 TACTTCAAAGGGTACACGGCCTGGCAAACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTGA
66 TACTTCAAAGGGTACACGGCCTGGCAAACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTGA
34456226 GTTACATGGG
131 GTTACATGGG
34456236 CA
1 CA
34456238 CTGTCACGGG
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.21
Consensus pattern (140 bp):
CAAAGGGTTGCAAGTCAGGCTGTTACACGGACTAGCACACGACCTGGCACATGGGCGTGTGGGGT
TACTTCAAAGGGTACACGGCCTGGCAAACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTGA
GTTACATGGG
Found at i:34465517 original size:16 final size:18
Alignment explanation
Indices: 34465491--34465524 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
34465481 TTAATTTAAA
34465491 TAAATTAATTTTC-CAAC
1 TAAATTAATTTTCTCAAC
34465508 TAAA-TAATTTTCTCAAC
1 TAAATTAATTTTCTCAAC
34465525 CCGATCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAC
Found at i:34468016 original size:22 final size:24
Alignment explanation
Indices: 34467972--34468016 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
34467962 ACAATAAGTT
*
34467972 AATAAGTATGTGTTGATGGAAGCA
1 AATAAGTATGTGTTGATGCAAGCA
*
34467996 AATAAG-AT-TGTTGATTCAAGC
1 AATAAGTATGTGTTGATGCAAGC
34468017 TTCCTGCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (24 bp):
AATAAGTATGTGTTGATGCAAGCA
Found at i:34474580 original size:9 final size:9
Alignment explanation
Indices: 34474561--34474590 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
34474551 GAAATATTTT
34474561 TTTTCCTTTA
1 TTTT-CTTTA
34474571 TTTTCTTTA
1 TTTTCTTTA
34474580 TTTTCTTTA
1 TTTTCTTTA
34474589 TT
1 TT
34474591 GTTTTAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:34492943 original size:31 final size:31
Alignment explanation
Indices: 34492907--34492968 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34492897 AGATAATTTT
34492907 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
34492938 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
34492969 TAATTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:34493535 original size:43 final size:43
Alignment explanation
Indices: 34493482--34493595 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 43
34493472 ATTAGTTAAT
*
34493482 AAAAAAAAGCAAAAAGCGCAAAAAAAAGTTGAGAAAAATCTAA
1 AAAAAAAAGCAAACAGCGCAAAAAAAAGTTGAGAAAAATCTAA
**
34493525 AAAAAAAAGCAAACAGCGCAAAAAAAGAGTTGAGAAAAATCTTT
1 AAAAAAAAGCAAACAGCGCAAAAAAA-AGTTGAGAAAAATCTAA
34493569 AAAAAAAAGCAAACAGCGCAAAAAAAA
1 AAAAAAAAGCAAACAGCGCAAAAAAAA
34493596 AAGTTGCCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
43 26 0.39
44 41 0.61
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (43 bp):
AAAAAAAAGCAAACAGCGCAAAAAAAAGTTGAGAAAAATCTAA
Found at i:34499178 original size:31 final size:31
Alignment explanation
Indices: 34499143--34499235 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
34499133 AGATAATTTT
*
34499143 AAAGAGTTTTAATAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
34499174 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
34499205 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
34499236 TAATTTGCTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:34501494 original size:11 final size:12
Alignment explanation
Indices: 34501479--34501508 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34501469 AAATATAAAA
34501479 ATAATATTTTAT
1 ATAATATTTTAT
34501491 -TAATATTTTAT
1 ATAATATTTTAT
34501502 ATAATAT
1 ATAATAT
34501509 CTATTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATAATATTTTAT
Found at i:34502484 original size:20 final size:20
Alignment explanation
Indices: 34502459--34502510 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
34502449 ACTTTTCATA
*
34502459 TTTTTAGTCATTATAGCATG
1 TTTTTAGTCATTACAGCATG
34502479 TTTTTAGGTTCATTACAGCATG
1 TTTTTA-G-TCATTACAGCATG
34502501 TTTTTAGTCA
1 TTTTTAGTCA
34502511 CATGGCTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 18 0.62
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTTTAGTCATTACAGCATG
Found at i:34503112 original size:71 final size:71
Alignment explanation
Indices: 34503019--34503161 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
34503009 TAATTATAAT
**
34503019 ATGAAATCAAAATAGCATAATATAAATATAAAATGTATATTATTTAAAAAATTCTAATGGAATAA
1 ATGAAATCAAAATAGCATAATATAAATATAAAATGTATATTATTTAAAAAATTCTAACCGAATAA
34503084 TTAGCG
66 TTAGCG
*
34503090 ATGAAATCAAAATAGCATAATATAAATATAAAATGTATATTATTTAAAATATTCTAACCGAATAA
1 ATGAAATCAAAATAGCATAATATAAATATAAAATGTATATTATTTAAAAAATTCTAACCGAATAA
34503155 TTAGCG
66 TTAGCG
34503161 A
1 A
34503162 AGCTGTAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (71 bp):
ATGAAATCAAAATAGCATAATATAAATATAAAATGTATATTATTTAAAAAATTCTAACCGAATAA
TTAGCG
Found at i:34503512 original size:18 final size:18
Alignment explanation
Indices: 34503486--34503521 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34503476 AGAGATAAAA
*
34503486 TTAGGTTTTACTTTTAAG
1 TTAGATTTTACTTTTAAG
*
34503504 TTAGATTTTATTTTTAAG
1 TTAGATTTTACTTTTAAG
34503522 CAAAGGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (18 bp):
TTAGATTTTACTTTTAAG
Found at i:34505051 original size:21 final size:22
Alignment explanation
Indices: 34505026--34505070 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
34505016 AGTAAGATTT
34505026 AAAATCACATTAT-TCA-ACTAA
1 AAAAT-ACATTATGTCATACTAA
*
34505047 AAAATATATTATGTCATACTAA
1 AAAATACATTATGTCATACTAA
34505069 AA
1 AA
34505071 TACATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATACATTATGTCATACTAA
Found at i:34519505 original size:13 final size:14
Alignment explanation
Indices: 34519478--34519506 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34519468 ATAGAAAAGC
34519478 TAATAAAAATAATT
1 TAATAAAAATAATT
34519492 TAATAAAAAT-ATT
1 TAATAAAAATAATT
34519505 TA
1 TA
34519507 TATTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAAAAATAATT
Found at i:34519555 original size:17 final size:17
Alignment explanation
Indices: 34519533--34519573 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34519523 TAGTTAATAA
*
34519533 TTTTATATT-TTATATT
1 TTTTATATTATTAAATT
34519549 TTTT-TATTTATTAAATT
1 TTTTATA-TTATTAAATT
34519566 TTTTATAT
1 TTTTATAT
34519574 AGTCATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 2 0.10
16 6 0.29
17 11 0.52
18 2 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATTATTAAATT
Found at i:34523571 original size:25 final size:25
Alignment explanation
Indices: 34523496--34523613 Score: 112
Period size: 25 Copynumber: 4.6 Consensus size: 25
34523486 AATAACGGGT
*
34523496 AGCTCCGAAGAGACATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* * * *
34523521 AACTCCGGATAGCCA-TATATCGGGA
1 AGCTCCGAAGAGCCATTA-ATCAGGA
* *
34523546 AGCTCCGGAGAGCCATTAAGCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* *
34523571 AGCTCACAAAGAGCCTTTAATCAGGA
1 AGCTC-CGAAGAGCCATTAATCAGGA
*
34523597 AGCTCATGAAGAGCCAT
1 AGCTC-CGAAGAGCCAT
34523614 ATATCGGGAC
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
24 2 0.03
25 40 0.54
26 32 0.43
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCAGGA
Found at i:34523590 original size:26 final size:26
Alignment explanation
Indices: 34523554--34523613 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
34523544 GAAGCTCCGG
34523554 AGAGCCATTAAGCAGGAAGCTCACAA
1 AGAGCCATTAAGCAGGAAGCTCACAA
* * **
34523580 AGAGCCTTTAATCAGGAAGCTCATGA
1 AGAGCCATTAAGCAGGAAGCTCACAA
34523606 AGAGCCAT
1 AGAGCCAT
34523614 ATATCGGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAAGCAGGAAGCTCACAA
Found at i:34526661 original size:12 final size:12
Alignment explanation
Indices: 34526645--34526678 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34526635 TTTTTAGAAG
34526645 CAGTTTTCTTCT
1 CAGTTTTCTTCT
*
34526657 TAGTTTTCTTCT
1 CAGTTTTCTTCT
*
34526669 CAATTTTCTT
1 CAGTTTTCTT
34526679 TAAGAAGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.62
Consensus pattern (12 bp):
CAGTTTTCTTCT
Found at i:34538811 original size:20 final size:20
Alignment explanation
Indices: 34538786--34538834 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34538776 TCTAAATAGT
*
34538786 GTTGCATAAAGGTTCATGTC
1 GTTGCATAAAGATTCATGTC
* *
34538806 GTTGCATATAGATTCATGTT
1 GTTGCATAAAGATTCATGTC
*
34538826 TTTGCATAA
1 GTTGCATAA
34538835 TCATTCCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (20 bp):
GTTGCATAAAGATTCATGTC
Found at i:34544322 original size:16 final size:17
Alignment explanation
Indices: 34544290--34544323 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34544280 GGGGATGACG
34544290 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
34544307 TTTGTTT-ATTTTTATT
1 TTTGTTTGATGTTTATT
34544323 T
1 T
34544324 CATAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:34549418 original size:24 final size:24
Alignment explanation
Indices: 34549391--34549447 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
34549381 GCTTTATGGG
34549391 CATTACGGATAGCATACAAAACTC
1 CATTACGGATAGCATACAAAACTC
*
34549415 CATTAGGGATAGCATACAAAACTC
1 CATTACGGATAGCATACAAAACTC
34549439 CATTACGGA
1 CATTACGGA
34549448 AAACATGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (24 bp):
CATTACGGATAGCATACAAAACTC
Found at i:34556892 original size:3 final size:3
Alignment explanation
Indices: 34556886--34556942 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
34556876 TTTTCTCTTT
34556886 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
34556934 ATC ATC ATC
1 ATC ATC ATC
34556943 CGACCTTGGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:34567225 original size:24 final size:25
Alignment explanation
Indices: 34567173--34567225 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
34567163 GTACATGTAT
* *
34567173 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTCTAAATCGGTAA
* *
34567198 GCTCTTACGAGCTGTAAAT-GGTAA
1 GCTCATACGAGCTCTAAATCGGTAA
34567222 GCTC
1 GCTC
34567226 CTCTTAGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
GCTCATACGAGCTCTAAATCGGTAA
Found at i:34576585 original size:31 final size:30
Alignment explanation
Indices: 34576550--34576608 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
34576540 TTTACATGAA
*
34576550 ATACATGGAAAT-GATTTTACATGATATATAG
1 ATACAT-GAAATAGATGTTACATG-TATATAG
*
34576581 ATACATGATATAGATGTTACATGTATAT
1 ATACATGAAATAGATGTTACATGTATAT
34576609 CGGAACTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (30 bp):
ATACATGAAATAGATGTTACATGTATATAG
Found at i:34579773 original size:25 final size:25
Alignment explanation
Indices: 34579725--34579786 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
34579715 GGTGCAGTTT
* * *
34579725 GTATAAGCTTACTGATTTACAGCTC
1 GTATGAGCATACTGATTCACAGCTC
*
34579750 GTGAT-AGCATACTGATTCATAGCTC
1 GT-ATGAGCATACTGATTCACAGCTC
34579775 GTATGAGCATAC
1 GTATGAGCATAC
34579787 ATGTAAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.06
25 28 0.88
26 2 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (25 bp):
GTATGAGCATACTGATTCACAGCTC
Found at i:34594138 original size:35 final size:35
Alignment explanation
Indices: 34594099--34594192 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
34594089 TCAGTTGGAC
* **
34594099 TAGCTCTTACGAGCACTGATGTGTTTCGGAAGGAT
1 TAGCTCTTACGAGCATTGATGTGTTTAAGAAGGAT
* * *
34594134 TAGCTCTTATGAGCATTGATGTGCTTAAGAGGGAT
1 TAGCTCTTACGAGCATTGATGTGTTTAAGAAGGAT
* *
34594169 TACCTCTTACGAGCATTGGTGTGT
1 TAGCTCTTACGAGCATTGATGTGT
34594193 CTGGATGGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (35 bp):
TAGCTCTTACGAGCATTGATGTGTTTAAGAAGGAT
Found at i:34600461 original size:18 final size:18
Alignment explanation
Indices: 34600438--34600481 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
34600428 CACTAAGCCA
34600438 ATTTTTA-CTTAATATATT
1 ATTTTTATCTTAAT-TATT
*
34600456 ATTTTTATTTTAATTATT
1 ATTTTTATCTTAATTATT
34600474 ATTTTTAT
1 ATTTTTAT
34600482 TGCTTAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTATCTTAATTATT
Found at i:34600482 original size:18 final size:19
Alignment explanation
Indices: 34600446--34600482 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
34600436 CAATTTTTAC
34600446 TTAATATATTATTTTTATT
1 TTAATATATTATTTTTATT
34600465 TTAAT-TATTATTTTTATT
1 TTAATATATTATTTTTATT
34600483 GCTTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTAATATATTATTTTTATT
Found at i:34606499 original size:24 final size:23
Alignment explanation
Indices: 34606450--34606499 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
34606440 TAAAATAAGT
* *
34606450 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
34606473 TATATCATGATTTTTATTAAT-TCA
1 TATAT-ATGATTTTTA-TAATATCA
34606497 TAT
1 TAT
34606500 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:34606583 original size:57 final size:58
Alignment explanation
Indices: 34606484--34606626 Score: 170
Period size: 61 Copynumber: 2.5 Consensus size: 58
34606474 ATATCATGAT
* *
34606484 TTTTATT-AATTCATATTTTAATAATAA-TTTTAAGATGTTATTAAATTA-TA-TATT-A
1 TTTTATTAAATT-ATA-TTTAATAATAATTTTTAAAATATTATTAAATTATTATTATTAA
*
34606539 TTTTATTAAATTTTATTTAATAATAATTATGTTAAAATATTATTAAATTATTTATTATTAA
1 TTTTATTAAATTATATTTAATAATAATT-T-TTAAAATATTATTAAATTA-TTATTATTAA
*
34606600 TTTTGTTAAATTATATTTAATAATAAT
1 TTTTATTAAATTATATTTAATAATAAT
34606627 AATCATCTAC
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
54 11 0.15
55 10 0.13
56 5 0.07
57 17 0.23
59 2 0.03
60 4 0.05
61 26 0.35
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (58 bp):
TTTTATTAAATTATATTTAATAATAATTTTTAAAATATTATTAAATTATTATTATTAA
Found at i:34606601 original size:35 final size:36
Alignment explanation
Indices: 34606541--34606609 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
34606531 ATATATTATT
34606541 TTATTAAATTTTATTTAATAATAATTATGTTAAAATA
1 TTATTAAA-TTTATTTAATAATAATTATGTTAAAATA
* * *
34606578 TTATTAAA-TTATTTATTATTAATTTTGTTAAA
1 TTATTAAATTTATTTAATAATAATTATGTTAAA
34606610 TTATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 21 0.72
37 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (36 bp):
TTATTAAATTTATTTAATAATAATTATGTTAAAATA
Found at i:34606745 original size:44 final size:46
Alignment explanation
Indices: 34606685--34606773 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
34606675 TACAACATCT
*
34606685 ATTCAATTTAACCAAACA-C-AAGAATAC-AATTACAACTCTATTTC
1 ATTCAATTCAACCAAACAGCTAA-AATACTAATTACAACTCTATTTC
* *
34606729 ATTCCATTCAACCAAACAGCTAAATTACTAATTACAACTCTATTT
1 ATTCAATTCAACCAAACAGCTAAAATACTAATTACAACTCTATTT
34606774 TATTACAGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 16 0.41
45 5 0.13
46 18 0.46
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (46 bp):
ATTCAATTCAACCAAACAGCTAAAATACTAATTACAACTCTATTTC
Found at i:34606794 original size:16 final size:16
Alignment explanation
Indices: 34606759--34606797 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34606749 TAAATTACTA
* **
34606759 ATTACAACTCTATTTT
1 ATTACAGCTCTATTAG
34606775 ATTACAGCTCTATTAG
1 ATTACAGCTCTATTAG
34606791 ATTACAG
1 ATTACAG
34606798 TCCTATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTAG
Done.