Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009018.1 Hibiscus syriacus cultivar Beakdansim tig00112408_pilon, whole genome shotgun sequence
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: 522392
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
File 2 of 2
Found at i:283638 original size:2 final size:2
Alignment explanation
Indices: 283600--283841 Score: 108
Period size: 2 Copynumber: 125.5 Consensus size: 2
283590 TATACAGTAC
* * *
283600 TA TA CA TA TA GTA TA T- TA CA TA GTA TT TA TA TA -A TA TA TA GTA
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* * * *
283643 TA TA CA T- TA TA TA TA TT TA TA TGG TA TA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
*
283685 TA -A TA TA TA -A CA TA TA TA T- TA TA TA TCA TA T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
*
283723 TA TA -A TA CT- TA TA T- TA TA GTA TA TA GTA TG TA T- TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * *
283761 TA TA TT TA TA TA T- TA TA -A TG TT TA TA TA -A TA TA TT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
283799 TA TA TA TA -A TA TGA AA TG TA TA TT TA AA TA TA GT- TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
283841 T
1 T
283842 TATTTATTTT
Statistics
Matches: 179, Mismatches: 32, Indels: 58
0.67 0.12 0.22
Matches are distributed among these distances:
1 19 0.11
2 144 0.80
3 16 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:283639 original size:7 final size:7
Alignment explanation
Indices: 283627--283729 Score: 53
Period size: 7 Copynumber: 15.3 Consensus size: 7
283617 ACATAGTATT
283627 TATATAA
1 TATATAA
*
283634 TATATAG
1 TATATAA
283641 TATATACA
1 TATATA-A
283649 T-TAT-A
1 TATATAA
*
283654 TATAT-T
1 TATATAA
*
283660 TATATGGTA
1 TATAT--AA
283669 TATATAA
1 TATATAA
283676 -ATAT-A
1 TATATAA
283681 TATATAA
1 TATATAA
283688 TATATAA
1 TATATAA
*
283695 CATAT-A
1 TATATAA
283701 TAT-T-A
1 TATATAA
*
283706 TATATCA
1 TATATAA
283713 TAT-TATA
1 TATATA-A
283720 TATTATAA
1 TA-TATAA
283728 TA
1 TA
283730 CTTATATTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
5 8 0.11
6 21 0.28
7 35 0.46
8 5 0.07
9 7 0.09
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (7 bp):
TATATAA
Found at i:283682 original size:19 final size:19
Alignment explanation
Indices: 283627--283729 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
283617 ACATAGTATT
283627 TATATAATATATAGTATATACA
1 TATATAA-ATATA-TATATA-A
* * *
283649 T-TATATATATTTATATGGTA
1 TATATAAATATATATAT--AA
283669 TATATAAATATATATATAA
1 TATATAAATATATATATAA
283688 TATATAACATATATAT-T-A
1 TATATAA-ATATATATATAA
*
283706 TATATCATATTATATATTATAA
1 TATAT-A-AATATATA-TATAA
283728 TA
1 TA
283730 CTTATATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
18 6 0.09
19 21 0.32
20 16 0.25
21 18 0.28
22 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TATATAAATATATATATAA
Found at i:283690 original size:54 final size:52
Alignment explanation
Indices: 283627--283779 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 52
283617 ACATAGTATT
*
283627 TATATAATATATAGTATATACATTATATATATTTATATGGTATATATAAATATA
1 TATATAATATATAGTATATA-ATTATATATATTTATATAGTATA-ATAAATATA
** * **
283681 TATATAATATATAACATATATATTATATATCATATTATATATTATAATACTTATA
1 TATATAATATATAGTATATA-ATTATATAT-AT-TTATATAGTATAATAAATATA
* * *
283736 T-TATAGTATATAGTATGT-ATTATATTATATTTATATATTATAAT
1 TATATAATATATAGTATATAATTATA-TATATTTATATAGTATAAT
283780 GTTTATATAA
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
51 14 0.16
52 8 0.09
53 3 0.04
54 40 0.47
55 10 0.12
56 10 0.12
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (52 bp):
TATATAATATATAGTATATAATTATATATATTTATATAGTATAATAAATATA
Found at i:283707 original size:5 final size:5
Alignment explanation
Indices: 283699--283803 Score: 53
Period size: 5 Copynumber: 21.0 Consensus size: 5
283689 ATATAACATA
* *
283699 TATAT TATAT ATCATAT TATA- TATTAT AATACT TATAT TATAG TATA-
1 TATAT TATAT -T-ATAT TATAT TA-TAT TATA-T TATAT TATAT TATAT
* * *
283746 TAGTA- TGTAT TATAT TATAT T-TA- TATAT TATAAT GTTTA- TATAA
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TAT-AT -TATAT TATAT
283790 TATAT T-TAT TATAT
1 TATAT TATAT TATAT
283804 ATAATATGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
3 1 0.01
4 17 0.22
5 45 0.57
6 10 0.13
7 6 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:283740 original size:19 final size:20
Alignment explanation
Indices: 283718--283777 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 20
283708 TATCATATTA
283718 TATATTATAATACT-TATAT
1 TATATTATAATACTATATAT
* * *
283737 TATAGTAT-ATAGTATGTAT
1 TATATTATAATACTATATAT
*
283756 TATATTAT-AT-TTATATAT
1 TATATTATAATACTATATAT
283774 TATA
1 TATA
283778 ATGTTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
TATATTATAATACTATATAT
Found at i:289775 original size:160 final size:160
Alignment explanation
Indices: 289489--289808 Score: 615
Period size: 160 Copynumber: 2.0 Consensus size: 160
289479 AATACTTATG
289489 AGATCACAGCAATGCTAGACAAAACCATGTAAACTTTAGCTGCTGAACTAAACTATCAATATGGG
1 AGATCACAGCAATGCTAGACAAAACCATGTAAACTTTAGCTGCTGAACTAAACTATCAATATGGG
289554 GCATATAATATCAAAGAATAAGAAACACCATACATTATATTACACGCCCCATAAGAAAAAAGTAG
66 GCATATAATATCAAAGAATAAGAAACACCATACATTATATTACACGCCCCATAAGAAAAAAGTAG
289619 CAAGGGATGGATTGGAAAACTAAGCATTTC
131 CAAGGGATGGATTGGAAAACTAAGCATTTC
*
289649 AGATCACAGCAATGCTAGACAAAACCATGTAAACTTTAGCTGCTGAACTAAACTATCATTATGGG
1 AGATCACAGCAATGCTAGACAAAACCATGTAAACTTTAGCTGCTGAACTAAACTATCAATATGGG
289714 GCATATAATATCAAAGAATAAG-AACACCATACATTATATTACACGCCCCATAAGAAAAAAAGTA
66 GCATATAATATCAAAGAATAAGAAACACCATACATTATATTACACGCCCCATAAG-AAAAAAGTA
289778 GCAAGGGATGGATTGGAAAACTAAGCATTTC
130 GCAAGGGATGGATTGGAAAACTAAGCATTTC
289809 TTTCTTGATC
Statistics
Matches: 158, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
159 32 0.20
160 126 0.80
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (160 bp):
AGATCACAGCAATGCTAGACAAAACCATGTAAACTTTAGCTGCTGAACTAAACTATCAATATGGG
GCATATAATATCAAAGAATAAGAAACACCATACATTATATTACACGCCCCATAAGAAAAAAGTAG
CAAGGGATGGATTGGAAAACTAAGCATTTC
Found at i:290749 original size:5 final size:5
Alignment explanation
Indices: 290720--290755 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
290710 TCCCCTCCCC
*
290720 CCCTC CCCTT CCCTT CCCTT CCCTT CCCTTT CCCTT
1 CCCTT CCCTT CCCTT CCCTT CCCTT CCC-TT CCCTT
290756 TTCTCCTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CCCTT
Found at i:290768 original size:14 final size:14
Alignment explanation
Indices: 290746--290792 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
290736 CCTTCCCTTC
*
290746 CCTTTCCCTTTTCT
1 CCTTCCCCTTTTCT
*
290760 CCTTCCCCTTTTCC
1 CCTTCCCCTTTTCT
290774 CCTTCCCC-TTTCT
1 CCTTCCCCTTTTCT
290787 CCTTCC
1 CCTTCC
290793 ATAGTCATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (14 bp):
CCTTCCCCTTTTCT
Found at i:290783 original size:20 final size:18
Alignment explanation
Indices: 290718--290783 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 18
290708 CCTCCCCTCC
*
290718 CCCCCTCCCCTTCCC-TT
1 CCCCTTCCCCTTCCCTTT
290735 -CCCTT-CCCTTCCCTTT
1 CCCCTTCCCCTTCCCTTT
* *
290751 CCCTTTTCTCCTTCCCCTTTT
1 CCC-CTTCCCCTT-CCC-TTT
290772 CCCCTTCCCCTT
1 CCCCTTCCCCTT
290784 TCTCCTTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 8 0.21
16 6 0.16
17 2 0.05
18 2 0.05
19 4 0.11
20 10 0.26
21 6 0.16
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (18 bp):
CCCCTTCCCCTTCCCTTT
Found at i:291361 original size:21 final size:20
Alignment explanation
Indices: 291337--291377 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
291327 TTAAATTTTT
*
291337 TATTTTTAATTAAAAATAATA
1 TATTTATAATTAAAAA-AATA
*
291358 TATTTATCATTAAAAAAATA
1 TATTTATAATTAAAAAAATA
291378 AACAATAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTATAATTAAAAAAATA
Found at i:294654 original size:12 final size:12
Alignment explanation
Indices: 294637--294662 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
294627 TGCTGCATCC
294637 TCTATCAAATCT
1 TCTATCAAATCT
294649 TCTATCAAATCT
1 TCTATCAAATCT
294661 TC
1 TC
294663 GAGTTTGTGA
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:0.27, G:0.00, T:0.42
Consensus pattern (12 bp):
TCTATCAAATCT
Found at i:306218 original size:68 final size:70
Alignment explanation
Indices: 306108--306241 Score: 254
Period size: 68 Copynumber: 1.9 Consensus size: 70
306098 AATATACTAT
306108 GATGCAAAATGATGAATAAGAAATACAAAGTCTTATAAATAAAATCAATAATCC-AAAATATAAA
1 GATGCAAAATGATGAATAAGAAATACAAAGTCTTATAAATAAAATCAATAATCCAAAAATATAAA
306172 TTCAA
66 TTCAA
306177 GATGC-AAATGATGAATAAGAAATACAAAGTCTTATAAATAAAATCAATAATCCAAAAATATAAA
1 GATGCAAAATGATGAATAAGAAATACAAAGTCTTATAAATAAAATCAATAATCCAAAAATATAAA
306241 T
66 T
306242 ATTCAACCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 48 0.75
69 16 0.25
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.25
Consensus pattern (70 bp):
GATGCAAAATGATGAATAAGAAATACAAAGTCTTATAAATAAAATCAATAATCCAAAAATATAAA
TTCAA
Found at i:307985 original size:122 final size:123
Alignment explanation
Indices: 307835--308081 Score: 433
Period size: 122 Copynumber: 2.0 Consensus size: 123
307825 TTTGTGCTCA
*
307835 ATTCCAAATTAAATGGACTTTGAATTATTTTTGAAAACTTTGAATTAATTCAATTCAAGTCC-AA
1 ATTCCAAATTAAATGGACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCGAA
* * * *
307899 AAACATTTTGCCATAAATTGTTATATCAAAACTTAGTTCAACAATCTCACCCTTTTTG
66 AAAAATTTTGCCATAAATTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTG
307957 ATTCCAAATTAAATGGACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCGAA
1 ATTCCAAATTAAATGGACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCGAA
*
308022 AAAAATTTTGCCATAAATTGTTATATCAAAACATAGTTAAACAATCTCCCCCATTTTG
66 AAAAATTTTGCCATAAATTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTG
308080 AT
1 AT
308082 ATAACAAAAC
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 61 0.52
123 57 0.48
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (123 bp):
ATTCCAAATTAAATGGACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCGAA
AAAAATTTTGCCATAAATTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTG
Found at i:308119 original size:123 final size:119
Alignment explanation
Indices: 307851--308081 Score: 363
Period size: 123 Copynumber: 1.9 Consensus size: 119
307841 AATTAAATGG
* *
307851 ACTTTGAATTATTTTTGAAAACTTTGAATTAATTCAATTCAAGTCCAAAAACATTTTGCCATAAA
1 ACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCAAAAAAATTTTGCCATAAA
* * * *
307916 TTGTTATATCAAAACTTAGTTCAACAATCTCACCCTTTTTGATTCCAAATTAAATGG
66 TTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTGATT-CAAA-TAAA-GC
307973 ACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCGAAAAAAATTTTGCCATAA
1 ACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCC-AAAAAAATTTTGCCATAA
*
308038 ATTGTTATATCAAAACATAGTTAAACAATCTCCCCCATTTTGAT
65 ATTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTGAT
308082 ATAACAAAAC
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
122 45 0.44
123 57 0.56
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (119 bp):
ACTTTGAATTATTTTTGAAAACTTTGAATAAATTCAATTCAAGTCCAAAAAAATTTTGCCATAAA
TTGTTATATCAAAACATAGTTAAACAATCTCACCCATTTTGATTCAAATAAAGC
Found at i:312016 original size:23 final size:23
Alignment explanation
Indices: 311990--312036 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
311980 CTTTGGAAAC
311990 TCTTAAACTAGGAAAGTAACTAA
1 TCTTAAACTAGGAAAGTAACTAA
312013 TCTTAAACTAGGAAAGTAACTAA
1 TCTTAAACTAGGAAAGTAACTAA
312036 T
1 T
312037 TCTAGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (23 bp):
TCTTAAACTAGGAAAGTAACTAA
Found at i:312043 original size:18 final size:20
Alignment explanation
Indices: 311996--312045 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
311986 AAACTCTTAA
311996 ACTAGGAAAGTAACTAATCTT
1 ACTAGGAAAGTAACTAA-CTT
312017 AAACTAGGAAAGTAACTAA-TT
1 --ACTAGGAAAGTAACTAACTT
312038 -CTAGGAAA
1 ACTAGGAAA
312046 AGATATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.30
21 2 0.07
23 17 0.63
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (20 bp):
ACTAGGAAAGTAACTAACTT
Found at i:313761 original size:111 final size:111
Alignment explanation
Indices: 313567--313788 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
313557 GTACCTTAAA
313567 ACGGTCATTAGTAGGCAAAAAAGAGTTTGCGATTGCCAAAATTTTTCCCAGGAGAACAGGAAGTT
1 ACGGTCATTAGTAGGCAAAAAAGAGTTTGCGATTGCCAAAATTTTTCCCAGGAGAACAGGAAGTT
313632 TATCGTTGAATCCATAAAGCTTGAGCTCTAACTTGTCAGTGTACAT
66 TATCGTTGAATCCATAAAGCTTGAGCTCTAACTTGTCAGTGTACAT
313678 ACGGTCATTAGTAGGCAAAAAAGAGTTTGCGATTGCCAAAATTTTTCCCAGGAGAACAGGAAGTT
1 ACGGTCATTAGTAGGCAAAAAAGAGTTTGCGATTGCCAAAATTTTTCCCAGGAGAACAGGAAGTT
313743 TATCGTTGAATCCATAAAGCTTGAGCTCTAACTTGTCAGTGTACAT
66 TATCGTTGAATCCATAAAGCTTGAGCTCTAACTTGTCAGTGTACAT
313789 TGCCTCGGAA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (111 bp):
ACGGTCATTAGTAGGCAAAAAAGAGTTTGCGATTGCCAAAATTTTTCCCAGGAGAACAGGAAGTT
TATCGTTGAATCCATAAAGCTTGAGCTCTAACTTGTCAGTGTACAT
Found at i:313887 original size:61 final size:61
Alignment explanation
Indices: 313812--313933 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
313802 TCTAGCTTGG
313812 CAATACTGGCCTGGAAACAAAATTCTAATCACCTTTAGATTTCAACAAAAAATGCAAGAAC
1 CAATACTGGCCTGGAAACAAAATTCTAATCACCTTTAGATTTCAACAAAAAATGCAAGAAC
313873 CAATACTGGCCTGGAAACAAAATTCTAATCACCTTTAGATTTCAACAAAAAATGCAAGAAC
1 CAATACTGGCCTGGAAACAAAATTCTAATCACCTTTAGATTTCAACAAAAAATGCAAGAAC
313934 AAACCAAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (61 bp):
CAATACTGGCCTGGAAACAAAATTCTAATCACCTTTAGATTTCAACAAAAAATGCAAGAAC
Found at i:314390 original size:23 final size:24
Alignment explanation
Indices: 314364--314418 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
314354 ATGTAGAAAC
314364 AGAGTTTTTC-GGTTATGGTAAAT
1 AGAGTTTTTCAGGTTATGGTAAAT
* *
314387 AGAG-TTTACAGGTTCTGGTAAAT
1 AGAGTTTTTCAGGTTATGGTAAAT
*
314410 AGGGTTTTT
1 AGAGTTTTT
314419 GATTCTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 3 0.12
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.42
Consensus pattern (24 bp):
AGAGTTTTTCAGGTTATGGTAAAT
Found at i:314512 original size:79 final size:79
Alignment explanation
Indices: 314381--314538 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
314371 TTCGGTTATG
314381 GTAAATAGAGTTTACAGGTTCTGGTAAATAGGGTTTTTGATTCTGAAATTATTTTTATTCAAAGA
1 GTAAATAGAGTTTACAGGTTCTGGTAAATAGGGTTTTTGATTCTGAAATTATTTTTATTCAAAGA
314446 ACAATTGCATATTA
66 ACAATTGCATATTA
314460 GTAAATAGAGTTTACAGGTTCTGGTAAATAGGGTTTTTGATTCTGAAATTATTTTTATTCAAAGA
1 GTAAATAGAGTTTACAGGTTCTGGTAAATAGGGTTTTTGATTCTGAAATTATTTTTATTCAAAGA
314525 ACAATTGCATATTA
66 ACAATTGCATATTA
314539 CACAAGAGGA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (79 bp):
GTAAATAGAGTTTACAGGTTCTGGTAAATAGGGTTTTTGATTCTGAAATTATTTTTATTCAAAGA
ACAATTGCATATTA
Found at i:318310 original size:2 final size:2
Alignment explanation
Indices: 318303--318331 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
318293 ATTTTAAGAA
318303 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 A
318332 AATAAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:318480 original size:136 final size:137
Alignment explanation
Indices: 318315--318563 Score: 387
Period size: 137 Copynumber: 1.8 Consensus size: 137
318305 ATATATATAT
*
318315 ATATATATATATATATAAATAAGATATTTATTTACTT-AGAAATATCA-AAAAAAGACTTCTAGG
1 ATATATATATATATAAAAATAAGATATTTATTTACTTAAG-AATATCAGAAAAAA-ACTTCTAGG
* *
318378 TGCTTTAAGATAGTCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAA
64 TGCTTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAA
318443 AAATAATTA
129 AAATAATTA
* * *
318452 ATATATA-ATTTATAAAAATAGGATATTTATTTATTTAAGAATATCAGGAAAAAAACTTCTAGGT
1 ATATATATATATATAAAAATAAGATATTTATTTACTTAAGAATATCA-GAAAAAAACTTCTAGGT
*
318516 GCTTTTAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAA
65 GCTTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAA
318564 AATATGATTA
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
136 32 0.31
137 64 0.63
138 6 0.06
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (137 bp):
ATATATATATATATAAAAATAAGATATTTATTTACTTAAGAATATCAGAAAAAAACTTCTAGGTG
CTTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAA
ATAATTA
Found at i:318740 original size:25 final size:22
Alignment explanation
Indices: 318693--318745 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
318683 TAATAATAAT
318693 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
318715 AACATATAA-AATATAAATATAAATA
1 AACA-ATAATAAT-TAAATAT--ATA
318740 AACAAT
1 AACAAT
318746 GACTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 2 0.07
25 7 0.26
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:318826 original size:30 final size:30
Alignment explanation
Indices: 318750--318826 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
318740 AACAATGACT
*
318750 AAAATAAATAAAATTAAAACTATAGATTTAA
1 AAAATAAATAAAA-TAAAACTATAGAATTAA
* *
318781 AATATAAAAAGAAATAAAACT-T-GTAATTAA
1 AAAATAAATA-AAATAAAACTATAG-AATTAA
318811 AAAATAAATGAAAATA
1 AAAATAAAT-AAAATA
318827 TTAAAATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 1 0.03
30 18 0.47
31 16 0.42
32 3 0.08
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (30 bp):
AAAATAAATAAAATAAAACTATAGAATTAA
Found at i:318888 original size:29 final size:27
Alignment explanation
Indices: 318826--318889 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
318816 AAATGAAAAT
*
318826 ATTAAAATTAGTGACTAAATTAAATAT
1 ATTAAAATTAGTGACTAAATTAAATAA
*
318853 ATATAAAATTCG-GACATCAAATTAAATTAA
1 AT-TAAAATTAGTGAC-T-AAATTAAA-TAA
318883 ATTAAAA
1 ATTAAAA
318890 CATGCTATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 5 0.16
28 9 0.29
29 13 0.42
30 4 0.13
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (27 bp):
ATTAAAATTAGTGACTAAATTAAATAA
Found at i:319994 original size:33 final size:33
Alignment explanation
Indices: 319932--319999 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
319922 TTATTTATTT
* * *
319932 AATAATAATAATAAAATAATTAAATTAAAACAA
1 AATAATAATAATAAAAAAATGAAATTAAAAAAA
319965 AATAATAATAATAAATAAAATGAAA-TAAAAAAA
1 AATAATAATAATAAA-AAAATGAAATTAAAAAAA
319998 AA
1 AA
320000 CTAGTGTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (33 bp):
AATAATAATAATAAAAAAATGAAATTAAAAAAA
Found at i:320658 original size:99 final size:99
Alignment explanation
Indices: 320459--320638 Score: 265
Period size: 99 Copynumber: 1.8 Consensus size: 99
320449 GATAGAGTCA
* * *
320459 AGCAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGAGGAGTTCTTCTC
* * *
320524 ATTATGAACTTTGATCTATCGAATAATGAATTCG
66 ATTATGAACTCTGACCTAGCGAATAATGAATTCG
* *
320558 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGAGGAGTTC-TGT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCC-TCTTCAGAGGAGTTCTTCT
320622 CATTATGAACTCT-ACCT
65 CATTATGAACTCTGACCT
320639 GGCAATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
98 3 0.04
99 56 0.77
100 14 0.19
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (99 bp):
AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGAGGAGTTCTTCTC
ATTATGAACTCTGACCTAGCGAATAATGAATTCG
Found at i:320715 original size:64 final size:64
Alignment explanation
Indices: 320606--320732 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
320596 TTCTTCCTTC
* * * *
320606 TTCAGAGGAGTTCTGTCATTATGAACTCTACCTGGCAATGCTGATCCATCGAGTGATGAATTCG
1 TTCAGAGGAGTTCTCTCATTATGAACTCTACCTAGAAATGCTGATCCATCGAGTAATGAATTCG
* * * * *
320670 TTCAGATGAGTTCTTCTCATTATGAACTCTTCC-AGAAATGTTGATCCATTGAGTAATGGATTC
1 TTCAGAGGAGTTC-TCTCATTATGAACTCTACCTAGAAATGCTGATCCATCGAGTAATGAATTC
320733 AAATCTTTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 36 0.68
65 17 0.32
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (64 bp):
TTCAGAGGAGTTCTCTCATTATGAACTCTACCTAGAAATGCTGATCCATCGAGTAATGAATTCG
Found at i:321142 original size:22 final size:22
Alignment explanation
Indices: 321087--321144 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
321077 AATTAAGCTT
*
321087 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
321109 TCATCTTTGAAGAGA-ACATCTA
1 TCATCTTTGAAGAGAGA-ATCTA
321131 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
321145 TGTAGATGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:321558 original size:54 final size:54
Alignment explanation
Indices: 321410--321551 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
321400 ATAATCATTG
* * * * * *
321410 GTTCGTAAAACATATGACAATACATTCATCATTTCTCGTGGCTTCTGCCCGGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
* * * * * *
321464 TTTCATAAAGCTTTTGATAACTCATTCATCCTTTCTTGTGGCTTCTGGCCAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
321518 GTTCGTAAAGCATTTGACAACACATTCATCCTTT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTT
321552 TATGTGGTTT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
Found at i:322402 original size:75 final size:75
Alignment explanation
Indices: 322270--322438 Score: 203
Period size: 75 Copynumber: 2.3 Consensus size: 75
322260 GATATGGGTC
* * * * **
322270 TTCAGTATGCCCCAACATTGGCTAATATAAATGTTCAAAATACATCAACATTTCTGATTCTGATT
1 TTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTAGGATT
322335 GAAAGGGGCT
66 GAAAGGGGCT
* *** *
322345 TTCAGCATGCCCCAGCATTGGCTAATACAAACGTTCAAAATGTGTCAATATTCCTGATTAGGATT
1 TTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTAGGATT
*
322410 GAAATGGGCT
66 GAAAGGGGCT
* * *
322420 TTCAACATGCTCCATCATT
1 TTCAGCATGCCCCAACATT
322439 TGCTTCTTGT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTAGGATT
GAAAGGGGCT
Found at i:329260 original size:7 final size:7
Alignment explanation
Indices: 329250--329290 Score: 59
Period size: 6 Copynumber: 6.0 Consensus size: 7
329240 AGCAAACAAC
329250 AAATGCA
1 AAATGCA
329257 AAATG-A
1 AAATGCA
329263 AAATGCA
1 AAATGCA
329270 AAGATGCA
1 AA-ATGCA
329278 AAATGC-
1 AAATGCA
329284 AAATGCA
1 AAATGCA
329291 TGTATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 7 0.23
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:329947 original size:36 final size:36
Alignment explanation
Indices: 329902--329973 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
329892 ACTCTTGTTA
* *
329902 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
*
329938 GAATACTTTTGGTATTAATATAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
329974 TGCATAGCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:330775 original size:17 final size:17
Alignment explanation
Indices: 330753--330785 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
330743 AATACTTGAA
330753 AATAAAATAAA-AATATT
1 AATAAAA-AAATAATATT
330770 AATAAAAAAATAATAT
1 AATAAAAAAATAATAT
330786 ACATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAAAATAATATT
Found at i:330797 original size:29 final size:30
Alignment explanation
Indices: 330759--330833 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
330749 TGAAAATAAA
330759 ATAAAAATATTAAT-AAAAAAATAA-TATAC
1 ATAAAAATATT-ATGAAAAAAATAAGTATAC
* * *
330788 ATATAAATATTATGAAAATAATAAGTATAT
1 ATAAAAATATTATGAAAAAAATAAGTATAC
330818 ATAAAAAT-TT-TGAAAA
1 ATAAAAATATTATGAAAA
330834 GAAAGAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.20
29 21 0.52
30 11 0.28
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
ATAAAAATATTATGAAAAAAATAAGTATAC
Found at i:330831 original size:28 final size:26
Alignment explanation
Indices: 330776--330833 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
330766 TATTAATAAA
*
330776 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
330802 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
330830 AAAA
1 AAAA
330834 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:333022 original size:3 final size:3
Alignment explanation
Indices: 333014--333050 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
333004 ATTATTTATT
*
333014 TAA TAA TAA TAA TAT TAA -AA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
333051 AAAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:333040 original size:22 final size:22
Alignment explanation
Indices: 333015--333063 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
333005 TTATTTATTT
**
333015 AATAATAATAATATTAAAATAA
1 AATAATAATAATAAAAAAATAA
*
333037 AATAATAATAATAAAAAAATGA
1 AATAATAATAATAAAAAAATAA
333059 AATAA
1 AATAA
333064 AAAAAACTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAATAATAATAAAAAAATAA
Found at i:333054 original size:16 final size:16
Alignment explanation
Indices: 333015--333069 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
333005 TTATTTATTT
*
333015 AATAATAATAATATTAA
1 AATAA-AATAATAATAA
333032 AATAAAATAATAATAA
1 AATAAAATAATAATAA
* *
333048 TAAAAAAATGA-AATAA
1 -AATAAAATAATAATAA
333064 AA-AAAA
1 AATAAAA
333070 CTAGTATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 15 0.44
17 13 0.38
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AATAAAATAATAATAA
Found at i:334427 original size:22 final size:22
Alignment explanation
Indices: 334402--334446 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
334392 TCGAATAGGG
334402 GCAGAACAACTACCAAACAGCA
1 GCAGAACAACTACCAAACAGCA
* **
334424 GCAGATCATGTACCAAACAGCA
1 GCAGAACAACTACCAAACAGCA
334446 G
1 G
334447 AACGGGAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.29, G:0.18, T:0.09
Consensus pattern (22 bp):
GCAGAACAACTACCAAACAGCA
Found at i:343248 original size:201 final size:201
Alignment explanation
Indices: 342893--343411 Score: 679
Period size: 201 Copynumber: 2.6 Consensus size: 201
342883 AGGTTATCTG
* * * * * * *
342893 TCAACGAAAACTTTCGAGTTCGATTCCATTCAACTCGAGGGTGTATCAA-CTGTATGGTAGCAGC
1 TCAACAAAAACTTTTGAGTTCAATTCCATTCAGCTCGAGGGCGTATCAATC-GCATGGTAGAAGC
* * **
342957 GAGGAACTATTTTCC-AGTTGAATTTTAAACCGAGATCTTTAAGGCAAGAAGAAGACCTAGGTTG
65 GAGGAACTATTTTCCGA-TTGAATTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGAAATAGGTTG
* * * * * *
343021 GATGGGATTTAGAAATAATCAACTATCTCCCATCCTAATTTACAACATAGCTTGAGTCGGGAAAA
129 GATGCGATTTAGAAACAAACAACTATCTCCCAGCCTAATTTACAACATAGCTTAAGTCGAGAAAA
343086 -ATTGTCTA
194 GA-TGTCTA
**
343094 TCAACAAAAACTTTTGAGTTCAATTCCATTCAGCTCGAGGGCAAATCAATCGCATGGTAGAAGCG
1 TCAACAAAAACTTTTGAGTTCAATTCCATTCAGCTCGAGGGCGTATCAATCGCATGGTAGAAGCG
* * *
343159 AGGAACTATTTTCCGATTGAATTTTAAATCGAGGTCTTTAAGCCAAGAAGAAGAAATATGTTGGC
66 AGGAACTATTTTCCGATTGAATTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGAAATAGGTTGGA
* * *
343224 TGCGATTTAGCAACAAAGAACTATCTCCCAGCCTGATTTACAACATAGCTTAAGTCGAGAAAAGA
131 TGCGATTTAGAAACAAACAACTATCTCCCAGCCTAATTTACAACATAGCTTAAGTCGAGAAAAGA
*
343289 TGTCTG
196 TGTCTA
* *
343295 TCAACAAAAACTTTTGAGTTCAATTCTATTCAGCTCGAGGGCGTATCAATCGCATGGTA-ACAAC
1 TCAACAAAAACTTTTGAGTTCAATTCCATTCAGCTCGAGGGCGTATCAATCGCATGGTAGA-AGC
* * *
343359 GAGGAATTACTTTT-TGGTTGAATTTTAAACCGAGGTCTTTAAGCCAAGAAGAA
65 GAGGAACTA-TTTTCCGATTGAATTTTAAACCGAGGTCTTTAAGCCAAGAAGAA
343412 TACCAAGGTT
Statistics
Matches: 279, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
200 1 0.00
201 271 0.97
202 7 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (201 bp):
TCAACAAAAACTTTTGAGTTCAATTCCATTCAGCTCGAGGGCGTATCAATCGCATGGTAGAAGCG
AGGAACTATTTTCCGATTGAATTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGAAATAGGTTGGA
TGCGATTTAGAAACAAACAACTATCTCCCAGCCTAATTTACAACATAGCTTAAGTCGAGAAAAGA
TGTCTA
Found at i:344261 original size:28 final size:28
Alignment explanation
Indices: 344189--344264 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 28
344179 TTTATTACAT
*
344189 TATATAGTATATA-TGATAATAT-ATATA
1 TATATA-TATATATTGAAAATATAATATA
**
344216 TATATA-ATA-ATTTCAAATATAATATA
1 TATATATATATATTGAAAATATAATATA
344242 TATATATATATATTGAAAATATA
1 TATATATATATATTGAAAATATA
344265 TAGTATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 1 0.03
25 9 0.22
26 11 0.28
27 9 0.22
28 10 0.25
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (28 bp):
TATATATATATATTGAAAATATAATATA
Found at i:344266 original size:2 final size:2
Alignment explanation
Indices: 344189--344254 Score: 59
Period size: 2 Copynumber: 33.5 Consensus size: 2
344179 TTTATTACAT
*
344189 TA TA TA GTA TA TA TGA TA -A TA TA TA TA TA TA TA -A TA -A TT TCA
1 TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
*
344231 AA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
344255 TGAAAATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
1 4 0.08
2 45 0.85
3 4 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:344266 original size:30 final size:31
Alignment explanation
Indices: 344199--344271 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
344189 TATATAGTAT
**
344199 ATATGATAATATATATATATATAATAATTTCA
1 ATAT-ATAATATATATATATATAATAATTAAA
344231 A-ATATAATATATATATATAT-AT-ATTGAAA
1 ATATATAATATATATATATATAATAATT-AAA
*
344260 ATATATAGTATA
1 ATATATAATATA
344272 ATTTTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 4 0.11
30 26 0.72
31 2 0.06
32 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATATAATATATATATATATAATAATTAAA
Found at i:344316 original size:39 final size:38
Alignment explanation
Indices: 344256--344363 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 38
344246 TATATATATT
* *
344256 GAAAATATATAGTATA-A-TTTTTGAAAACATTATTTTC
1 GAAAACATATAATATATAGTTTTTGAAAACATT-TTTTC
* * *
344293 GAAAACATATAATATATAGTTTTTTAAAACGGTTTTTTT
1 GAAAACATATAATATATAGTTTTTGAAAAC-ATTTTTTC
* *
344332 GAAAACATA-CATAATATAGTTTTAGAAAACAT
1 GAAAACATATAAT-ATATAGTTTTTGAAAACAT
344364 ATATACATAG
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
37 14 0.24
38 4 0.07
39 38 0.66
40 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.40
Consensus pattern (38 bp):
GAAAACATATAATATATAGTTTTTGAAAACATTTTTTC
Found at i:344373 original size:23 final size:24
Alignment explanation
Indices: 344327--344377 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
344317 TAAAACGGTT
* *
344327 TTTTTGAAAACATACATAATATAG
1 TTTTAGAAAACATACATAACATAG
*
344351 TTTTAGAAAACATATAT-ACATAG
1 TTTTAGAAAACATACATAACATAG
344374 TTTT
1 TTTT
344378 TTAAAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
TTTTAGAAAACATACATAACATAG
Found at i:344383 original size:23 final size:24
Alignment explanation
Indices: 344326--344383 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
344316 TTAAAACGGT
*
344326 TTTTTTGAAAACATACATAATATAG
1 TTTTTT-AAAACATACATAACATAG
** *
344351 TTTTAGAAAACATATAT-ACATAG
1 TTTTTTAAAACATACATAACATAG
344374 TTTTTTAAAA
1 TTTTTTAAAA
344384 TGATTTTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 13 0.48
24 10 0.37
25 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
TTTTTTAAAACATACATAACATAG
Found at i:344411 original size:62 final size:63
Alignment explanation
Indices: 344288--344409 Score: 169
Period size: 60 Copynumber: 2.0 Consensus size: 63
344278 GAAAACATTA
* * *
344288 TTTTCGAAAACATATAATATATAGTTTTTTAAAACGGTTTTTTTGAAAACATACATAATATAG
1 TTTTAGAAAACATATAATACATAGTTTTTTAAAACGGTATTTTTGAAAACATACATAATATAG
* * *
344351 TTTTAGAAAACATAT-ATACATAGTTTTTTAAAA-TG-ATTTTTGAAAACGTATATAATATA
1 TTTTAGAAAACATATAATACATAGTTTTTTAAAACGGTATTTTTGAAAACATACATAATATA
344410 TATAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 21 0.40
61 1 0.02
62 17 0.32
63 14 0.26
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.42
Consensus pattern (63 bp):
TTTTAGAAAACATATAATACATAGTTTTTTAAAACGGTATTTTTGAAAACATACATAATATAG
Found at i:346630 original size:25 final size:26
Alignment explanation
Indices: 346579--346641 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
346569 CTAAACCAAT
346579 TGGAGGAAAAAGAGTGTACCATGGGG
1 TGGAGGAAAAAGAGTGTACCATGGGG
* *
346605 TGGAGGAAAAAGAGTGTGCCGT-GGG
1 TGGAGGAAAAAGAGTGTACCATGGGG
*
346630 TGGAAGAAAAAG
1 TGGAGGAAAAAG
346642 GAATCCAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.06, G:0.43, T:0.14
Consensus pattern (26 bp):
TGGAGGAAAAAGAGTGTACCATGGGG
Found at i:356538 original size:3 final size:3
Alignment explanation
Indices: 356530--356575 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
356520 CACTTGGAAT
356530 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
356576 GCAGTCAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:363178 original size:29 final size:27
Alignment explanation
Indices: 363144--363202 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
363134 AATATATATA
*
363144 AAATAACT-ACTATATTTAAAATGAAAAGC
1 AAATAACTGACCATA-TTAAAAT-AAAA-C
*
363173 AAATAAGTGACCATATTAAAATAAAAC
1 AAATAACTGACCATATTAAAATAAAAC
363200 AAA
1 AAA
363203 ATGAAAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
29 14 0.52
30 5 0.19
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (27 bp):
AAATAACTGACCATATTAAAATAAAAC
Found at i:373274 original size:15 final size:17
Alignment explanation
Indices: 373249--373291 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
373239 CTTCCCTTTC
373249 TTCGAGAGAAATACTC-T-
1 TTCGAGA-AAA-ACTCATG
373266 TTCGAGAAAAACTCATG
1 TTCGAGAAAAACTCATG
373283 TTCGAGAAA
1 TTCGAGAAA
373292 CAAACACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 16 0.67
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (17 bp):
TTCGAGAAAAACTCATG
Found at i:377232 original size:89 final size:89
Alignment explanation
Indices: 377064--377235 Score: 299
Period size: 90 Copynumber: 1.9 Consensus size: 89
377054 CCTAACACAC
*
377064 CCTTTTATAGCCAAGTTACTCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCAATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCAATA
377129 TTTAATTAATTTAAATTTGATAAT
66 TTTAATTAATTTAAATTTGATAAT
* *
377153 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCAAT
*
377218 ATTTAATTAATTAAAATT
65 ATTTAATTAATTTAAATT
377236 AAAATATATA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 33 0.42
90 45 0.58
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCAATA
TTTAATTAATTTAAATTTGATAAT
Found at i:394026 original size:133 final size:133
Alignment explanation
Indices: 393788--394053 Score: 460
Period size: 133 Copynumber: 2.0 Consensus size: 133
393778 GTATGGGGGT
*
393788 AAGGGGGAGGTAAGATAGTAGGCTACTCCCAACACCAAGTTGAGAGCAGCTTCCGTAAGAGACCT
1 AAGGGGGAGGTAAGATAGTAGGCTACCCCCAACACCAAGTTGAGAGCAGCTTCCGTAAGAGACCT
* * *
393853 TCGAATTATGAAATGCCCTCCATGGGACTCGATCCCACGACCTCAAGGTTAAAAACCTTGTGCTC
66 CCGAATTATAAAATGCCCTCCATGAGACTCGATCCCACGACCTCAAGGTTAAAAACCTTGTGCTC
393918 TAC
131 TAC
*
393921 AAGGGGGAGGTAAGATAGTAGGCTACCCCCAACACCAGGTTGAGAGCAGCTTCCGTAAGAGACCT
1 AAGGGGGAGGTAAGATAGTAGGCTACCCCCAACACCAAGTTGAGAGCAGCTTCCGTAAGAGACCT
* * *
393986 CCGAATTATAAAATGCCCTCCGTGAGACTCGATCCTACGACCTCAAGGTTAAGAACCTTGTGCTC
66 CCGAATTATAAAATGCCCTCCATGAGACTCGATCCCACGACCTCAAGGTTAAAAACCTTGTGCTC
394051 TAC
131 TAC
394054 CAACTAAGCT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 125 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.21
Consensus pattern (133 bp):
AAGGGGGAGGTAAGATAGTAGGCTACCCCCAACACCAAGTTGAGAGCAGCTTCCGTAAGAGACCT
CCGAATTATAAAATGCCCTCCATGAGACTCGATCCCACGACCTCAAGGTTAAAAACCTTGTGCTC
TAC
Found at i:395282 original size:238 final size:221
Alignment explanation
Indices: 394928--395397 Score: 642
Period size: 238 Copynumber: 2.0 Consensus size: 221
394918 TTTATTTTGG
*
394928 TCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCTGGTCGAGTACGAGTTTAAGGTGAAAAATAC
1 TCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCTGGTCGAGTACGAGTTTAAGGTGAAAAATAC
*
394993 CCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAAAAATACCCCTCTA
66 CCGACCCGAAAATAAATATAATTTTACCTTATATATTTAGGAATAATTACAAAAATACCCCTCTA
395058 TATATA-ATTTTTT-CAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTATTATTATTTCG
131 TATATATATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTT-TTATT-TTTCG
395121 GGTCGGGTCGGATCG-GATTTATAATTCATATAT
194 GGT----T-GGATCGAG-TTTATAATTCATATAT
* * *
395154 TCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGAGTCGGGTCGGGTTCGAGTTTAGGGTGAAA
1 TCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTC---T--GGTCGAGTACGAGTTTAAGGTGAAA
395219 AATAACCGACCCGACCCGACCCAAA-AAATATAATTTTACCTTATATATTTAGGAATAATTACAA
61 AAT-----ACCCGACCCGA---AAATAAATATAATTTTACCTTATATATTTAGGAATAATTACAA
* * *
395283 TAATACCCCTCTCTATATATATTTTTTCCAATTAAGTCATTGTTTTTATTGAATAAAAATAATTT
118 AAATACCCCTCTATATATATATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTT
*
395348 TTTATTTTTCGGGTTGGATCGAGTTTCTAATTCATATAT
183 TTTATTTTTCGGGTTGGATCGAGTTTATAATTCATATAT
395387 TCGGGTCGGGT
1 TCGGGTCGGGT
395398 TGGGTGAAAC
Statistics
Matches: 219, Mismatches: 9, Indels: 25
0.87 0.04 0.10
Matches are distributed among these distances:
226 33 0.15
229 1 0.00
231 25 0.11
233 32 0.15
234 2 0.01
236 11 0.05
238 63 0.29
239 15 0.07
240 37 0.17
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (221 bp):
TCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCTGGTCGAGTACGAGTTTAAGGTGAAAAATAC
CCGACCCGAAAATAAATATAATTTTACCTTATATATTTAGGAATAATTACAAAAATACCCCTCTA
TATATATATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTATTTTTCGGG
TTGGATCGAGTTTATAATTCATATAT
Found at i:402172 original size:17 final size:17
Alignment explanation
Indices: 402150--402188 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
402140 TAGCTCATAA
402150 AACAAGTATGTTAAGTT
1 AACAAGTATGTTAAGTT
402167 AACAAGTATGTTAAGTT
1 AACAAGTATGTTAAGTT
402184 AACAA
1 AACAA
402189 ATCTGCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (17 bp):
AACAAGTATGTTAAGTT
Found at i:402424 original size:36 final size:36
Alignment explanation
Indices: 402347--402486 Score: 176
Period size: 36 Copynumber: 3.9 Consensus size: 36
402337 AAAGATGAAC
* * *
402347 ACTTGAATCGAAAATG-CGACGCCTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
* *
402382 ATTTGAATCGAAAGTGCCGATGCTTCATTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
* * *
402418 ACTTGAATCAAAAGTGTCGATGCTTCCTTTCGTTC-
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
* *
402453 ACTTGAATCGAAAGTTCCGATGCTTCCTTTCGTT
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTT
402487 ATTCTTATTC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
35 45 0.49
36 46 0.51
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
Found at i:402463 original size:71 final size:71
Alignment explanation
Indices: 402347--402478 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 71
402337 AAAGATGAAC
*
402347 ACTTGAATCGAAAATGCGACGCCTCCTTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCATTC
1 ACTTGAATCGAAAATGCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCATTC
402412 CGTTCG
66 CGTTCG
* * * *
402418 ACTTGAATC-AAAAGTGTCGATGCTTCCTTTCGTTC-ACTTGAATCGAAAGTTCCGATGCTTC
1 ACTTGAATCGAAAA-TG-CGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTC
402479 CTTTCGTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
70 4 0.07
71 35 0.65
72 15 0.28
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (71 bp):
ACTTGAATCGAAAATGCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCATTC
CGTTCG
Found at i:408818 original size:23 final size:22
Alignment explanation
Indices: 408789--408868 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 22
408779 CACTTAACAA
408789 TGCATCGATGCATCCTTTGAATG
1 TGCATCGATGCA-CCTTTGAATG
*
408812 TGCATCGATTCACCATATTG-A--
1 TGCATCGATGCACC-T-TTGAATG
* *
408833 TGCACCGATGCACGCCTTGAATG
1 TGCATCGATGCAC-CTTTGAATG
408856 TGCATCGATGCAC
1 TGCATCGATGCAC
408869 AGGGTCATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 3 0.07
23 25 0.54
24 3 0.07
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCACCTTTGAATG
Found at i:411028 original size:2 final size:2
Alignment explanation
Indices: 411021--411081 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
411011 CAGCTTAAGC
411021 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
411063 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
411082 CAACTGGCTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:417682 original size:13 final size:13
Alignment explanation
Indices: 417664--417690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
417654 ATTCATATAT
417664 ATACACTTTCAAA
1 ATACACTTTCAAA
417677 ATACACTTTCAAA
1 ATACACTTTCAAA
417690 A
1 A
417691 CTACTATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
ATACACTTTCAAA
Found at i:423991 original size:19 final size:21
Alignment explanation
Indices: 423963--424007 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
423953 GTAACCCGAT
423963 TTTTTAAAAAAAAT-CACTAA
1 TTTTTAAAAAAAATCCACTAA
*
423983 TTTTT-AAAAAAATCCTCTAA
1 TTTTTAAAAAAAATCCACTAA
424003 TTTTT
1 TTTTT
424008 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTTAAAAAAAATCCACTAA
Found at i:424034 original size:19 final size:18
Alignment explanation
Indices: 424010--424046 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
424000 TAATTTTTTT
424010 AATTTTAAAAAAAATCTTA
1 AATTTT-AAAAAAATCTTA
*
424029 AATTTTATAAAAATCTTA
1 AATTTTAAAAAAATCTTA
424047 CGCAACCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTTAAAAAAATCTTA
Found at i:428851 original size:66 final size:67
Alignment explanation
Indices: 428740--428878 Score: 262
Period size: 66 Copynumber: 2.1 Consensus size: 67
428730 CGTACAAGTT
428740 CCTTATGATGATCTTTGGCCTCACGAATACCCCACTACCTTTTTCACATTGATGAAAAAGTACTA
1 CCTT-TGATGATCTTTGGCCTCACGAATACCCCACTACCTTTTTCACATTGATGAAAAAGTACTA
428805 T-A
65 TAA
428807 CCTTTGATGATCTTTGGCCTCACGAATACCCCACTACCTTTTTCACATTGATGAAAAAGTACTAT
1 CCTTTGATGATCTTTGGCCTCACGAATACCCCACTACCTTTTTCACATTGATGAAAAAGTACTAT
428872 AA
66 AA
428874 CCTTT
1 CCTTT
428879 TCTTGATTGG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 61 0.86
67 10 0.14
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (67 bp):
CCTTTGATGATCTTTGGCCTCACGAATACCCCACTACCTTTTTCACATTGATGAAAAAGTACTAT
AA
Found at i:432526 original size:3 final size:3
Alignment explanation
Indices: 432518--432587 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
432508 AGCATGAAAT
*
432518 GAA GAA GAA GTA GAA GAA GAA GAA G-A GAA GAA G-A GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
432564 GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA
432588 AAAAAAAAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:433597 original size:12 final size:13
Alignment explanation
Indices: 433575--433603 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
433565 GATAACGTTT
433575 TTAACGCCTTCTA
1 TTAACGCCTTCTA
433588 TTAA-GCCTTCTA
1 TTAACGCCTTCTA
433600 TTAA
1 TTAA
433604 ACAAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (13 bp):
TTAACGCCTTCTA
Found at i:434616 original size:43 final size:43
Alignment explanation
Indices: 434555--434648 Score: 179
Period size: 43 Copynumber: 2.2 Consensus size: 43
434545 CTTGTACTTA
434555 TCTCTCTCATCAGTCTAGTAGCTTGACTCTCTCAAGGAAAACT
1 TCTCTCTCATCAGTCTAGTAGCTTGACTCTCTCAAGGAAAACT
434598 TCTCTCTCATCAGTCTAGTAGCTTGACTCTCTCAAGGAAAACT
1 TCTCTCTCATCAGTCTAGTAGCTTGACTCTCTCAAGGAAAACT
*
434641 TCTTTCTC
1 TCTCTCTC
434649 CAACATCATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (43 bp):
TCTCTCTCATCAGTCTAGTAGCTTGACTCTCTCAAGGAAAACT
Found at i:442114 original size:20 final size:18
Alignment explanation
Indices: 442073--442126 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
442063 ATGCTTAACG
* *
442073 AAATCAAAGAATAAAAATT
1 AAATGAAAGAA-AAAAAAT
442092 AAAATGAAAGAAAACAAAAT
1 -AAATGAAAGAAAA-AAAAT
442112 AAATGAAATGAAAAA
1 AAATGAAA-GAAAAA
442127 TGGGTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (18 bp):
AAATGAAAGAAAAAAAAT
Found at i:453100 original size:36 final size:36
Alignment explanation
Indices: 453047--453137 Score: 146
Period size: 36 Copynumber: 2.5 Consensus size: 36
453037 TAGGCCCATA
* * *
453047 AGGAATTACCAGATTGATCGGTGTTGAACCTGCATG
1 AGGAATTACCAGCTTGATCAGAGTTGAACCTGCATG
*
453083 AGGAATTACTAGCTTGATCAGAGTTGAACCTGCATG
1 AGGAATTACCAGCTTGATCAGAGTTGAACCTGCATG
453119 AGGAATTACCAGCTTGATC
1 AGGAATTACCAGCTTGATC
453138 TTGAACCTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATCAGAGTTGAACCTGCATG
Found at i:466062 original size:14 final size:14
Alignment explanation
Indices: 466043--466071 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
466033 CTCGTTTCGC
466043 CCCGAAATTATATA
1 CCCGAAATTATATA
466057 CCCGAAATTATATA
1 CCCGAAATTATATA
466071 C
1 C
466072 TATATAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (14 bp):
CCCGAAATTATATA
Found at i:478112 original size:26 final size:26
Alignment explanation
Indices: 478072--478149 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
478062 TAAATTTTTG
478072 TACGAGA-AAAGTATAAATAAAATTTC
1 TACGAGATAAA-TATAAATAAAATTTC
478098 TACGAGATAAATATAAATAAAATTTC
1 TACGAGATAAATATAAATAAAATTTC
*
478124 TATGAGATAAATATAAATAAAATTTC
1 TACGAGATAAATATAAATAAAATTTC
478150 AAAATAGACA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 47 0.94
27 3 0.06
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (26 bp):
TACGAGATAAATATAAATAAAATTTC
Found at i:478169 original size:24 final size:24
Alignment explanation
Indices: 478136--478201 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
478126 TGAGATAAAT
*
478136 ATAAATAAAATTTCAAAATAGACA
1 ATAAAAAAAATTTCAAAATAGACA
* * *
478160 ATAAAAAAAATAT-AAAAAATACA
1 ATAAAAAAAATTTCAAAATAGACA
*
478183 A-AAAATTAAATTTCAAAAT
1 ATAAAA-AAAATTTCAAAAT
478202 GAAGAGACGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
22 4 0.12
23 14 0.42
24 15 0.45
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAAAAAAAATTTCAAAATAGACA
Found at i:478185 original size:18 final size:17
Alignment explanation
Indices: 478159--478192 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
478149 CAAAATAGAC
478159 AATAAAAAAAATATAAAA
1 AATAAAAAAAAT-TAAAA
*
478177 AATACAAAAAATTAAA
1 AATAAAAAAAATTAAA
478193 TTTCAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAAAAAATTAAAA
Found at i:478200 original size:23 final size:25
Alignment explanation
Indices: 478133--478201 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 25
478123 CTATGAGATA
478133 AATATAAATAAAATTTCAAAATAGAC
1 AATA-AAATAAAATTTCAAAATAGAC
* * *
478159 AATAAAA-AAAATAT-AAAAAATAC
1 AATAAAATAAAATTTCAAAATAGAC
*
478182 AA-AAAATTAAATTTCAAAAT
1 AATAAAATAAAATTTCAAAAT
478202 GAAGAGACGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.11
23 14 0.40
24 10 0.29
25 3 0.09
26 4 0.11
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (25 bp):
AATAAAATAAAATTTCAAAATAGAC
Found at i:480773 original size:301 final size:300
Alignment explanation
Indices: 480232--480834 Score: 1161
Period size: 301 Copynumber: 2.0 Consensus size: 300
480222 AGCTACATCG
480232 ATCAACCAAATAACACCAATAGGGAGTTAATGGGCTTTTTTTAAAATTTGGTGTAAGCAATCAAA
1 ATCAACCAAATAACACCAATAGGGAGTTAATGGGCTTTTTTTAAAATTTGGTGTAAGCAATCAAA
* *
480297 AAATAAACTTTTTGCATACCGATTTAATGTGGTTCAACTTTCTCAAACAAAGCCTACATATACTA
66 AAATAAACTTTTTGCACACCAATTTAATGTGGTTCAACTTTCTCAAACAAAGCCTACATATACTA
480362 TCTTAGCATTCACACTAAGGATTTCTCAAATCCACTAGATTTGCTTACCTTTAAGGACAAGGTGT
131 TCTTAGCATTCACACTAAGGATTTCTCAAATCCACTAGATTTGCTTACCTTTAAGGACAAGGTGT
*
480427 AACCTTACAAACACTTCAAGGTTTATACCCAAAACTTGAGAAAACCTCACGAGGCAAAATATGTT
196 AACCTTACAAACACTTCAAGGTTTATACCCAAAACTTGAGAAAACCTCACAAGGCAAAATATGTT
480492 TACACAATTTAAGCACTCACCCAATACACACTTGAGTAAA
261 TACACAATTTAAGCACTCACCCAATACACACTTGAGTAAA
480532 ATCAACCAAATAACACCAATAGGGAGTTAATGGGCTTTTTTTAAAAATTTGGTGTAAGCAATCAA
1 ATCAACCAAATAACACCAATAGGGAGTTAATGGGCTTTTTTT-AAAATTTGGTGTAAGCAATCAA
*
480597 AAAATAAACTTTTTGCACACCAATTTAGTGTGGTTCAACTTTCTCAAACAAAGCCTACATATACT
65 AAAATAAACTTTTTGCACACCAATTTAATGTGGTTCAACTTTCTCAAACAAAGCCTACATATACT
480662 ATCTTAGCATTCACACTAAGGATTTCTCAAATCCACTAGATTTGCTTACCTTTAAGGACAAGGTG
130 ATCTTAGCATTCACACTAAGGATTTCTCAAATCCACTAGATTTGCTTACCTTTAAGGACAAGGTG
480727 TAACCTTACAAACACTTCAAGGTTTATACCCAAAACTTGAGAAAACCTCACAAGGCAAAATATGT
195 TAACCTTACAAACACTTCAAGGTTTATACCCAAAACTTGAGAAAACCTCACAAGGCAAAATATGT
480792 TTACACAATTTAAGCACTCACCCAATACACACTTGAGTAAA
260 TTACACAATTTAAGCACTCACCCAATACACACTTGAGTAAA
480833 AT
1 AT
480835 AAACAATGTA
Statistics
Matches: 298, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
300 42 0.14
301 256 0.86
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (300 bp):
ATCAACCAAATAACACCAATAGGGAGTTAATGGGCTTTTTTTAAAATTTGGTGTAAGCAATCAAA
AAATAAACTTTTTGCACACCAATTTAATGTGGTTCAACTTTCTCAAACAAAGCCTACATATACTA
TCTTAGCATTCACACTAAGGATTTCTCAAATCCACTAGATTTGCTTACCTTTAAGGACAAGGTGT
AACCTTACAAACACTTCAAGGTTTATACCCAAAACTTGAGAAAACCTCACAAGGCAAAATATGTT
TACACAATTTAAGCACTCACCCAATACACACTTGAGTAAA
Found at i:481224 original size:20 final size:21
Alignment explanation
Indices: 481186--481234 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
481176 TAGAATCCAA
* **
481186 GGGATCAATCCTTTTTC-AAG
1 GGGATCGATCCTTGGTCAAAG
481206 GGGATCGATCCTTGGTCAAAG
1 GGGATCGATCCTTGGTCAAAG
481227 GGG-TCGAT
1 GGGATCGAT
481235 TCTTTTTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (21 bp):
GGGATCGATCCTTGGTCAAAG
Found at i:485197 original size:19 final size:20
Alignment explanation
Indices: 485149--485186 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
485139 TTTAATGCAC
485149 AAGAGATCGATCCTTTTTTGA
1 AAGA-ATCGATCCTTTTTTGA
485170 AAGAATCGAT-CTTTTTT
1 AAGAATCGATCCTTTTTT
485187 AAATAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
AAGAATCGATCCTTTTTTGA
Found at i:485244 original size:21 final size:20
Alignment explanation
Indices: 485218--485287 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
485208 AAAAGAATTG
485218 ATCCTTTAATGGAAGGGATCA
1 ATCCTTT-ATGGAAGGGATCA
*
485239 ATCCTTT-TGGTGAAGGGATCG
1 ATCCTTTAT-G-GAAGGGATCA
* *
485260 ATCATTTTACTCG-AGGGATCA
1 ATC-CTTTA-TGGAAGGGATCA
485281 ATCCTTT
1 ATCCTTT
485288 TTGTAAAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
21 29 0.74
22 4 0.10
24 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (20 bp):
ATCCTTTATGGAAGGGATCA
Found at i:485297 original size:21 final size:21
Alignment explanation
Indices: 485230--485305 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
485220 CCTTTAATGG
* *
485230 AAGGGATCAATCCTTTTGGTG
1 AAGGGATCAATCCTTTTAGTA
* * * *
485251 AAGGGATCGATCATTTTACTC
1 AAGGGATCAATCCTTTTAGTA
* *
485272 GAGGGATCAATCCTTTTTGTA
1 AAGGGATCAATCCTTTTAGTA
*
485293 AAGGGATCGATCC
1 AAGGGATCAATCC
485306 CAAACCTATT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (21 bp):
AAGGGATCAATCCTTTTAGTA
Found at i:494060 original size:15 final size:17
Alignment explanation
Indices: 494042--494078 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
494032 ATGTCTTTTT
494042 AAAAT-AATTTTAAGA-
1 AAAATCAATTTTAAGAC
*
494057 AAAATCATTTTTAAGAC
1 AAAATCAATTTTAAGAC
494074 AAAAT
1 AAAAT
494079 GGTATGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAATCAATTTTAAGAC
Found at i:494960 original size:59 final size:59
Alignment explanation
Indices: 494897--495126 Score: 136
Period size: 59 Copynumber: 3.9 Consensus size: 59
494887 TAAATGATTG
* * * *
494897 AAATAGCTAAAATAAAAACTT-AGGGACTAAAATAGAT-AAAACAGAAACTTAAAGGGTTA
1 AAATAGCTAAAACAAAAA-TTAAAGGACTAAAATA-ATAAAAACAGAAACTTAAAAGGCTA
* * *
494956 AAATAG-AAGAAACAGAAATTAAAGGACTAAAATAATAAAAACATAAACTTAAAAGGCTA
1 AAATAGCTA-AAACAAAAATTAAAGGACTAAAATAATAAAAACAGAAACTTAAAAGGCTA
* * * * * *
495015 AAACAGC-ATAAACAGAAACTTAAAAGG-CTAAAATAGA-AAAAGCAAAAAATT-AGAGGACTA
1 AAATAGCTA-AAACA-AAAATT-AAAGGACTAAAATA-ATAAAAACAGAAACTTAAAAGG-CTA
** * ** *
495075 AACA-A-CTAAAACAGAAACCTAAAGGACTAAACTAGCAAAAACTGAAACTTAA
1 AA-ATAGCTAAAACA-AAAATTAAAGGACTAAAATAATAAAAACAGAAACTTAA
495127 GGGACTCAAA
Statistics
Matches: 136, Mismatches: 22, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
58 10 0.07
59 88 0.65
60 31 0.23
61 7 0.05
ACGTcount: A:0.59, C:0.12, G:0.13, T:0.16
Consensus pattern (59 bp):
AAATAGCTAAAACAAAAATTAAAGGACTAAAATAATAAAAACAGAAACTTAAAAGGCTA
Found at i:495076 original size:30 final size:29
Alignment explanation
Indices: 494905--495138 Score: 154
Period size: 30 Copynumber: 7.9 Consensus size: 29
494895 TGAAATAGCT
* *
494905 AAAATAAAAACTT-AGGGACTAAAATAGA
1 AAAACAAAAACTTAAAGGACTAAAATAGA
* **
494933 TAAAACAGAAACTTAAAGGGTTAAAATAGA
1 -AAAACAAAAACTTAAAGGACTAAAATAGA
* *
494963 AGAAACAGAAA-TTAAAGGACTAAAATAATA
1 A-AAACAAAAACTTAAAGGACTAAAAT-AGA
* *
494993 AAAACATAAACTTAAAAGG-CTAAAACAGCA
1 AAAACAAAAACTT-AAAGGACTAAAATAG-A
* *
495023 TAAACAGAAACTTAAAAGG-CTAAAATAGA
1 AAAACAAAAACTT-AAAGGACTAAAATAGA
* * **
495052 AAAAGCAAAAAATTAGAGGACTAAACA-ACT
1 AAAA-CAAAAACTTAAAGGACTAAA-ATAGA
* * *
495082 AAAACAGAAACCTAAAGGACTAAACTAGCA
1 AAAACAAAAACTTAAAGGACTAAAATAG-A
** * *
495112 AAAACTGAAACTTAAGGGACTCAAATA
1 AAAACAAAAACTTAAAGGACTAAAATA
495139 ATAAAAATAG
Statistics
Matches: 162, Mismatches: 32, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
29 59 0.36
30 97 0.60
31 6 0.04
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.16
Consensus pattern (29 bp):
AAAACAAAAACTTAAAGGACTAAAATAGA
Found at i:495138 original size:89 final size:90
Alignment explanation
Indices: 494920--495126 Score: 230
Period size: 89 Copynumber: 2.3 Consensus size: 90
494910 AAAAACTTAG
* * *
494920 GGACTAAAATAG-ATAAAACAGAAACTTAAAGGGTTAAAATAGAAGAAACAGAAATTAAAGGACT
1 GGACTAAACTAGCA-AAAACAGAAACTTAAAGGGCTAAAATAGAAGAAACAAAAATTAAAGGACT
* *
494984 AAAATAATAAAAACATAAACTTAAAA
65 AAAATAATAAAAACAGAAACCTAAAA
* * *
495010 GG-CTAAAAC-AGCATAAACAGAAACTTAAAAGGCTAAAATAGAA-AAAGCAAAAAATTAGAGGA
1 GGACT-AAACTAGCAAAAACAGAAACTTAAAGGGCTAAAATAGAAGAAA-C-AAAAATTAAAGGA
*
495072 CTAAACA-ACT-AAAACAGAAACCT-AAA
63 CTAAA-ATAATAAAAACAGAAACCTAAAA
*
495098 GGACTAAACTAGCAAAAACTGAAACTTAA
1 GGACTAAACTAGCAAAAACAGAAACTTAA
495127 GGGACTCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
88 12 0.12
89 62 0.63
90 24 0.24
91 1 0.01
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.15
Consensus pattern (90 bp):
GGACTAAACTAGCAAAAACAGAAACTTAAAGGGCTAAAATAGAAGAAACAAAAATTAAAGGACTA
AAATAATAAAAACAGAAACCTAAAA
Found at i:496557 original size:19 final size:19
Alignment explanation
Indices: 496541--496580 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
496531 TATGTAATTG
*
496541 TAATATTAATAAATAATAA
1 TAATAATAATAAATAATAA
496560 TAATAATAATAAATAATAA
1 TAATAATAATAAATAATAA
496579 TA
1 TA
496581 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAATAATAAATAATAA
Found at i:496560 original size:3 final size:3
Alignment explanation
Indices: 496541--496580 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
496531 TATGTAATTG
*
496541 TAA TAT TAA TAAA TAA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TA
496581 TTTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:496566 original size:16 final size:16
Alignment explanation
Indices: 496541--496580 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
496531 TATGTAATTG
*
496541 TAATATTAATAA-ATAA
1 TAATAATAATAATA-AA
496557 TAATAATAATAATAAA
1 TAATAATAATAATAAA
496573 TAATAATA
1 TAATAATA
496581 TTTAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:497101 original size:133 final size:134
Alignment explanation
Indices: 496768--497080 Score: 403
Period size: 133 Copynumber: 2.3 Consensus size: 134
496758 AATTCCTATA
* *
496768 TGATGAGGAGATCTGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTGGCCATCTTTA
1 TGATAAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTA
* * * * * * *
496833 AGAAGTGTGATAACTCAGTTCCTATGCGATGAGGACGGCTGGTTATCTAGGGGTAATACGGCTCC
66 GGAAGTATGATAACTCAGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTAACACAGCTCA
496898 TACG
131 TACG
* * * *
496902 CGATAAGGAGATCTAGTCGGGGGATGACATGGCTCATACGTGATGAAGAGTTCTGGACATCTTTA
1 TGATAAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTA
* * * * * * *
496967 GGAAG-ATGATAACTCGGTTCGTACGTGATGAGGACGGTTGATTATCTATGGTTGACACAGCTCA
66 GGAAGTATGATAACTCAGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTAACACAGCTCA
497031 TACG
131 TACG
* * * *
497035 TGATAAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGA
1 TGATAAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGA
497081 GGATGGCTGG
Statistics
Matches: 152, Mismatches: 27, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
133 89 0.59
134 63 0.41
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (134 bp):
TGATAAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTA
GGAAGTATGATAACTCAGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTAACACAGCTCA
TACG
Found at i:497156 original size:28 final size:30
Alignment explanation
Indices: 497125--497182 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
497115 AGAGAAATCG
497125 ACTCAAAGAT-T-TGTTTCAAAAGAAACAA
1 ACTCAAAGATATGTGTTTCAAAAGAAACAA
497153 ACTCAAAGATGATGTGTTTCAAAAGAAACA
1 ACTCAAAGAT-ATGTGTTTCAAAAGAAACA
497183 TTCTTGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.37
30 1 0.04
31 16 0.59
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (30 bp):
ACTCAAAGATATGTGTTTCAAAAGAAACAA
Found at i:497481 original size:65 final size:66
Alignment explanation
Indices: 497398--497532 Score: 200
Period size: 65 Copynumber: 2.0 Consensus size: 66
497388 CAAAGATGGT
*
497398 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATT-TTTCTCAAAAGAAACTGTCTCAAGAGAGAC
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTGTTTCTCAAAAGAAACTGTCTCAAGAGAGAA
497462 A
66 A
* * * **
497463 AAATTTTGTTTCCAAAGAAACAATCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAGA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATT-GTTTCTCAAAAGAAACTGTCTCAAGAGAGA
497528 AA
65 AA
497530 AAA
1 AAA
497533 ATTGTTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
65 32 0.52
67 30 0.48
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (66 bp):
AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTGTTTCTCAAAAGAAACTGTCTCAAGAGAGAA
A
Found at i:499317 original size:2 final size:2
Alignment explanation
Indices: 499300--499335 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
499290 AACTTTATTG
*
499300 TA TA CA TA TA -A 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 TA T
499336 TTGGGTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:502931 original size:21 final size:21
Alignment explanation
Indices: 502895--502952 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
502885 ATAACCATTT
*
502895 TTTTATAAAACAATTACTATTA
1 TTTTA-AAAACGATTACTATTA
* *
502917 TTTTAAAAATGATTACTATTG
1 TTTTAAAAACGATTACTATTA
502938 TTTTAAAAACGATTA
1 TTTTAAAAACGATTA
502953 TGACTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTTAAAAACGATTACTATTA
Found at i:504159 original size:30 final size:30
Alignment explanation
Indices: 503856--504192 Score: 235
Period size: 30 Copynumber: 11.3 Consensus size: 30
503846 ATTTAAATAC
* * * *
503856 AAGGACCAAAATAGCAAGAATAAAAACTCA
1 AAGGACTAAAATAGCAAAAATAGAAACTTA
** * *
503886 AAGGACATAAAATAATATTAAA-A-AAATTTA
1 AAGGAC-TAAAATAGCA-AAAATAGAAACTTA
* *
503916 AAGGACTGAAATAGCTAAAATAGAAACTT-
1 AAGGACTAAAATAGCAAAAATAGAAACTTA
* *
503945 AGGGACTAAAATAG-ATGAAATAGAAACTTA
1 AAGGACTAAAATAGCA-AAAATAGAAACTTA
** * *
503975 AAGGGTTAAAATAG-AAGAAACA-AAAATTA
1 AAGGACTAAAATAGCAA-AAATAGAAACTTA
* ** * *
504004 AATGACTAAAATAATAAAAACATAAACTTAA
1 AAGGACTAAAATAGCAAAAATAGAAACTT-A
* * *
504035 AAGG-CTAAAACAGCATAAACAGAAACTTAA
1 AAGGACTAAAATAGCAAAAATAGAAACTT-A
*
504065 AAGG-CTAAAATAGCAAAAATAGAAAATTA
1 AAGGACTAAAATAGCAAAAATAGAAACTTA
* *
504094 GAGGACT-AAATAGCAAAAATAGAAACCTA
1 AAGGACTAAAATAGCAAAAATAGAAACTTA
504123 AAGGACTAAAATAGCAAAAACTA-AAACTTA
1 AAGGACTAAAATAGCAAAAA-TAGAAACTTA
* * ** * * *
504153 AGGGACTTAAATAATAAAAATACACATTTA
1 AAGGACTAAAATAGCAAAAATAGAAACTTA
504183 AAGGACTAAA
1 AAGGACTAAA
504193 CCATAGAGAT
Statistics
Matches: 242, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
28 3 0.01
29 84 0.35
30 139 0.57
31 14 0.06
32 2 0.01
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.18
Consensus pattern (30 bp):
AAGGACTAAAATAGCAAAAATAGAAACTTA
Found at i:504159 original size:59 final size:60
Alignment explanation
Indices: 503858--504192 Score: 208
Period size: 59 Copynumber: 5.6 Consensus size: 60
503848 TTAAATACAA
* * * * ** * * *
503858 GGACCAAAATAGCAAGAATAAAAACTCAAAGGACATAAAATAATATTAAA-A-AAATTTAAA
1 GGACTAAAATAGCAAAAATAGAAACTTAAAGGAC-TAAAATAGCA-AAAATAGAAACTTAAG
* * * *
503918 GGACTGAAATAGCTAAAATAGAAACTT-AGGGACTAAAATAG-ATGAAATAGAAACTTAAAG
1 GGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGCA-AAAATAGAAACTT-AAG
* * * * ** * * *
503978 GG-TTAAAATAG-AAGAAACA-AAAATTAAATGACTAAAATAATAAAAACATAAACTTAAAA
1 GGACTAAAATAGCAA-AAATAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAACTT-AAG
* * * *
504037 GG-CTAAAACAGCATAAACAGAAACTTAAAAGG-CTAAAATAGCAAAAATAGAAAATT-AG
1 GGACTAAAATAGCAAAAATAGAAACTT-AAAGGACTAAAATAGCAAAAATAGAAACTTAAG
*
504095 AGGACT-AAATAGCAAAAATAGAAACCTAAAGGACTAAAATAGCAAAAACTA-AAACTTAAG
1 -GGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGCAAAAA-TAGAAACTTAAG
* ** * * *
504155 GGACTTAAATAATAAAAATACACATTTAAAGGACTAAA
1 GGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAA
504193 CCATAGAGAT
Statistics
Matches: 215, Mismatches: 45, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
57 5 0.02
58 20 0.09
59 103 0.48
60 83 0.39
61 4 0.02
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (60 bp):
GGACTAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAG
Found at i:504165 original size:89 final size:89
Alignment explanation
Indices: 503907--504192 Score: 239
Period size: 89 Copynumber: 3.2 Consensus size: 89
503897 ATAATATTAA
* * * * *
503907 AAAAATTTAAAGGACTGAAATAGCTAAAATAGAAA-CTTAGGGACTAAAATAG-ATGAAA-TAGA
1 AAAAA-TTAAAGGACTAAAATAGCAAAAATAGAAACCTAAAGGACTAAAATAGCA-AAAACTAGA
*
503969 AACTTAAAGGG-TTAAAATAGAAGAAAC
64 AACTTAAAGGGCTT-AAATAGAA-AAAT
* ** * * * * *
503996 AAAAATTAAATGACTAAAATAATAAAAACATAAACTTAAAAGG-CTAAAACAGCATAAAC-AGAA
1 AAAAATTAAAGGACTAAAATAGCAAAAATAGAAACCT-AAAGGACTAAAATAGCAAAAACTAGAA
* *
504059 ACTTAAAAGGCTAAAATAGCAAAAAT
65 ACTTAAAGGGCTTAAATAG-AAAAAT
*
504085 AGAAAATTAGAGGACT-AAATAGCAAAAATAGAAACCTAAAGGACTAAAATAGCAAAAACTA-AA
1 A-AAAATTAAAGGACTAAAATAGCAAAAATAGAAACCTAAAGGACTAAAATAGCAAAAACTAGAA
*
504148 ACTT-AAGGGACTTAAATAATAAAAAT
65 ACTTAAAGGG-CTTAAAT-AGAAAAAT
* *
504174 ACACATTTAAAGGACTAAA
1 A-AAAATTAAAGGACTAAA
504193 CCATAGAGAT
Statistics
Matches: 154, Mismatches: 31, Indels: 23
0.74 0.15 0.11
Matches are distributed among these distances:
88 31 0.20
89 100 0.65
90 23 0.15
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (89 bp):
AAAAATTAAAGGACTAAAATAGCAAAAATAGAAACCTAAAGGACTAAAATAGCAAAAACTAGAAA
CTTAAAGGGCTTAAATAGAAAAAT
Found at i:507599 original size:20 final size:19
Alignment explanation
Indices: 507573--507612 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
507563 ATAATTTTGA
507573 ATTTTTTTTAAAACAAAAG
1 ATTTTTTTTAAAACAAAAG
507592 ATTTTTTTTAAAACAAAAG
1 ATTTTTTTTAAAACAAAAG
507611 AT
1 AT
507613 ATTTATGAAA
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:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTTTTTTTAAAACAAAAG
Found at i:507623 original size:19 final size:19
Alignment explanation
Indices: 507582--507623 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
507572 AATTTTTTTT
* * *
507582 AAAACAAAAGATTTTTTTT
1 AAAACAAAAGATATTTATG
507601 AAAACAAAAGATATTTATG
1 AAAACAAAAGATATTTATG
507620 AAAA
1 AAAA
507624 AACTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAACAAAAGATATTTATG
Found at i:507880 original size:16 final size:16
Alignment explanation
Indices: 507859--507889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
507849 TAGGGTGGCT
507859 TCGAGTGGCTGGGTCG
1 TCGAGTGGCTGGGTCG
*
507875 TCGAGTGGTTGGGTC
1 TCGAGTGGCTGGGTC
507890 ATCGGTGGTA
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:0.06, C:0.16, G:0.48, T:0.29
Consensus pattern (16 bp):
TCGAGTGGCTGGGTCG
Found at i:510006 original size:18 final size:18
Alignment explanation
Indices: 509983--510025 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
509973 CTTTAAATTA
*
509983 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
510001 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
510019 TTTATTT
1 TTTATTT
510026 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:518125 original size:3 final size:3
Alignment explanation
Indices: 518117--518170 Score: 81
Period size: 3 Copynumber: 17.0 Consensus size: 3
518107 AATATTTATT
518117 TAA TAA TAA TAA TATA TATA TAA TAA TAA TAA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA
518165 TAA TAA
1 TAA TAA
518171 GATGAAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 39 0.80
4 10 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:518489 original size:22 final size:22
Alignment explanation
Indices: 518429--518491 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 22
518419 CATTTGAAAA
*
518429 CATCTTGCACTGTAGTTCTTAT
1 CATCTTGCACTGTAGGTCTTAT
* * *
518451 GA--ATGGACCTG-AGGTCTTAT
1 CATCTTGCA-CTGTAGGTCTTAT
518471 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
518492 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
20 12 0.40
21 6 0.20
22 12 0.40
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (22 bp):
CATCTTGCACTGTAGGTCTTAT
Found at i:519038 original size:45 final size:45
Alignment explanation
Indices: 518471--519037 Score: 774
Period size: 45 Copynumber: 12.6 Consensus size: 45
518461 GAGGTCTTAT
* * * *
518471 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * * *
518516 CATCATGCACTAAAGGGCTTATAGATGACCCAAAGGCTTTTAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* *
518561 CATCATGTACTGAAGGGCTTACAGATGACTCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * * **
518606 TATCATGCACTGAAGGGCTTACTGATGACCCGGAGAATTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
518651 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* *
518696 TATCATGCACTGAAGGGCTTACAGATGACTCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * * * * * *
518741 CATTATGAACTGAAGGGCTTACAAATGATCCAAAGGATTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
518786 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * * *
518831 CATCATGCACTGAAGGGCTTACAGATGATCCAAAGGATTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * *
518876 CATCATGCACTGAAAGGCTTACATATGACCCAAAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* * * * * *
518921 CATCATGCACTGAAGGTCTTATAGATGATCCAAAGGATTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
* *
518966 CATCATGCACTGAAGGGCTTACAGATGTCCCGAAGGCTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
*
519011 CATCATGCACTAAAGGGCTTACAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
519038 TGGGAAACAT
Statistics
Matches: 455, Mismatches: 67, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 455 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA
Found at i:519051 original size:34 final size:34
Alignment explanation
Indices: 519008--519078 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
518998 AAGGCTTTAA
*
519008 AAACATCATGCACTAAAGGGCTTACAGATGTGGG
1 AAACATCATGCACTAAAGGGCTTACAGATGTGAG
*
519042 AAACATCATGCACTGAAGGGCTTACAGATGTGAG
1 AAACATCATGCACTAAAGGGCTTACAGATGTGAG
519076 AAA
1 AAA
519079 TAGTTTACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (34 bp):
AAACATCATGCACTAAAGGGCTTACAGATGTGAG
Found at i:519342 original size:22 final size:22
Alignment explanation
Indices: 519317--519459 Score: 250
Period size: 22 Copynumber: 6.5 Consensus size: 22
519307 AATAAAGCAT
519317 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
519339 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
519361 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
519383 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
519405 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
519427 TCATCTTTGAAAAGACAATCTA
1 TCATCTTTGAAAAGAGAATCTA
519449 TCATCTTTGAA
1 TCATCTTTGAA
519460 GAATGTAGAT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 116 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:519924 original size:53 final size:53
Alignment explanation
Indices: 519818--519977 Score: 239
Period size: 53 Copynumber: 3.0 Consensus size: 53
519808 GTAATCACTG
* * * * *
519818 GTTCGTAAAACATTTGACAACACGTTCATCATTTCCTATGGCTTCTGTTCAGAA
1 GTTCGTAAAACATTTGACAATAC-ATCATTATTTCCTGTGGCTTCTGTACAGAA
*
519872 GTTCGTAAAACATTTGACAATACATCATTATTTCCTGTGGCTTCTGTCCAGAA
1 GTTCGTAAAACATTTGACAATACATCATTATTTCCTGTGGCTTCTGTACAGAA
*
519925 GTTCGTAAAACATTTGACAATACATTCATTCTTTCCTGTGGCTTCTGTACAGA
1 GTTCGTAAAACATTTGACAATACA-TCATTATTTCCTGTGGCTTCTGTACAGA
519978 TGTTTGTTAG
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
53 50 0.51
54 48 0.49
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAATACATCATTATTTCCTGTGGCTTCTGTACAGAA
Done.