Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 168 of 444
Found at i:46360924 original size:27 final size:27
Alignment explanation
Indices: 46360894--46361001 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
46360884 GTAAATCTAC
46360894 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
46360921 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * **
46360947 AGAAAGTCAAAGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
46360977 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
46361002 ACAAATTGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.61
28 7 0.10
29 17 0.25
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:46361007 original size:27 final size:27
Alignment explanation
Indices: 46360958--46361081 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
46360948 GAAAGTCAAA
* **
46360958 GGTATTTTTGTAATTTTGTAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
*
46360985 GGTATTTTGGTAATTTTACAAAT-TGAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* * * *
46361012 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAATCAGG
*
46361039 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
* *
46361066 GGTATTCTAGTAATTT
1 GGTATTTTGGTAATTT
46361082 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAGG
Found at i:46361276 original size:17 final size:18
Alignment explanation
Indices: 46361254--46361288 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
46361244 AACTTATCCA
46361254 ATTGGGCCCATA-GGCCC
1 ATTGGGCCCATATGGCCC
46361271 ATTGGGCCCATATGGCCC
1 ATTGGGCCCATATGGCCC
46361289 TTAGGCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (18 bp):
ATTGGGCCCATATGGCCC
Found at i:46361295 original size:17 final size:17
Alignment explanation
Indices: 46361258--46361307 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
46361248 TATCCAATTG
*
46361258 GGCCCATA-GGCCCATTG
1 GGCCCATATGGCCC-TTA
46361275 GGCCCATATGGCCCTTA
1 GGCCCATATGGCCCTTA
* *
46361292 GGCCTACATGGCCCTT
1 GGCCCATATGGCCCTT
46361308 TTCGGGCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (17 bp):
GGCCCATATGGCCCTTA
Found at i:46367581 original size:54 final size:54
Alignment explanation
Indices: 46367468--46367582 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
46367458 TTAGTTTACT
* * *
46367468 AAATTATTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAAGGTA
1 AAATTACTGAAATACCCATATAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
* * * **
46367522 GAATTACTGAAATACCCATGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA
1 AAATTACTGAAATACCCATATAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
46367576 AAATTAC
1 AAATTAC
46367583 CATTTTGCCC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
AAATTACTGAAATACCCATATAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
Found at i:46367582 original size:27 final size:27
Alignment explanation
Indices: 46367476--46367583 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
46367466 CTAAATTATT
* * *
46367476 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
46367503 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
46367530 GAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
46367557 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
46367584 ATTTTGCCCC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:46367824 original size:27 final size:26
Alignment explanation
Indices: 46367784--46367871 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
46367774 ATGGAGGAAG
*
46367784 TGTTCTGGTAGCTCCGCCACAAATATC
1 TGTTCTGGTGGCTCCGCCAC-AATATC
*
46367811 TGTTCTGGTGGCTCCTCCACAATATC
1 TGTTCTGGTGGCTCCGCCACAATATC
* * *
46367837 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCCGCCACAATATC
*
46367864 TATTCTGG
1 TGTTCTGG
46367872 CAGCCATGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (26 bp):
TGTTCTGGTGGCTCCGCCACAATATC
Found at i:46368021 original size:25 final size:25
Alignment explanation
Indices: 46367993--46368055 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
46367983 ATTCACATTT
*
46367993 TGATTCTGATTCTGTTAACTGATAC
1 TGATTCTGATTCTGTCAACTGATAC
* *
46368018 TGATTCTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTGTCAACTGATAC
* *
46368043 TAATTTTGATTCT
1 TGATTCTGATTCT
46368056 CATTTTGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTCAACTGATAC
Found at i:46368054 original size:12 final size:12
Alignment explanation
Indices: 46368037--46368068 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46368027 TTCTGTCACC
46368037 TGATTCTAATTT
1 TGATTCTAATTT
*
46368049 TGATTCTCATTT
1 TGATTCTAATTT
46368061 TGATTCTA
1 TGATTCTA
46368069 GTTCTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.56
Consensus pattern (12 bp):
TGATTCTAATTT
Found at i:46370801 original size:14 final size:14
Alignment explanation
Indices: 46370782--46370816 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46370772 TCACATTTCT
*
46370782 ACTCATCCCTTATC
1 ACTCATCCCTCATC
46370796 ACTCATCCCTCATC
1 ACTCATCCCTCATC
*
46370810 ATTCATC
1 ACTCATC
46370817 ATTCTCTCCT
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:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (14 bp):
ACTCATCCCTCATC
Found at i:46372032 original size:22 final size:22
Alignment explanation
Indices: 46372001--46372076 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
46371991 AATACGATTT
*
46372001 GCACAAAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
** ** *
46372023 GCACAGAGCCAT-ATTTAGGTT
1 GCACAGAGCCATAATCAACATA
*
46372044 GACATAGAGCCATAATCAACATA
1 G-CACAGAGCCATAATCAACATA
*
46372067 ACACAGAGCC
1 GCACAGAGCC
46372077 TTATTTAGGT
Statistics
Matches: 38, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
21 5 0.13
22 29 0.76
23 4 0.11
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (22 bp):
GCACAGAGCCATAATCAACATA
Found at i:46372056 original size:44 final size:44
Alignment explanation
Indices: 46372002--46372103 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
46371992 ATACGATTTG
* *
46372002 CACAAAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTGA
1 CACAGAGCCATAATCAACATAACACAGAGCCATATTTAGGTTGA
* * *
46372046 CATAGAGCCATAATCAACATAACACAGAGCCTTATTTAGGTTGT
1 CACAGAGCCATAATCAACATAACACAGAGCCATATTTAGGTTGA
46372090 CACAGAGCCATAAT
1 CACAGAGCCATAAT
46372104 TAGATTAAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (44 bp):
CACAGAGCCATAATCAACATAACACAGAGCCATATTTAGGTTGA
Found at i:46372106 original size:22 final size:22
Alignment explanation
Indices: 46372024--46372106 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
46372014 ATCAACATAG
*
46372024 CACAGAGCCATATTTAGGTTGA
1 CACAGAGCCATAATTAGGTTGA
* * *** *
46372046 CATAGAGCCATAATCAACATAA
1 CACAGAGCCATAATTAGGTTGA
* * *
46372068 CACAGAGCCTTATTTAGGTTGT
1 CACAGAGCCATAATTAGGTTGA
46372090 CACAGAGCCATAATTAG
1 CACAGAGCCATAATTAG
46372107 ATTAAGCAGC
Statistics
Matches: 43, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
CACAGAGCCATAATTAGGTTGA
Found at i:46372436 original size:27 final size:27
Alignment explanation
Indices: 46372406--46372467 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
46372396 CAAAACAATC
* * * *
46372406 ATTTTACCCTATAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
*
46372433 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
46372460 ATTTTACA
1 ATTTTACA
46372468 AATTGGGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:46372477 original size:27 final size:27
Alignment explanation
Indices: 46372447--46372846 Score: 328
Period size: 27 Copynumber: 14.9 Consensus size: 27
46372437 TACACTACAA
*
46372447 GGGTATTTTGATAATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* ***
46372474 GGGTATTTC-AGTAATTTAACAAACCAG
1 GGGTATTTCGA-TAATTTTACAAATTGG
* *
46372501 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATTGG
* * *
46372528 GGGTATTT-TAGTAATTTCACAAACTGG
1 GGGTATTTCGA-TAATTTTACAAATTGG
* * **
46372555 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCGATAATTTTACAAATTGG
* *
46372582 GGGTATCTCAGA-AATTTTACAAATTAG
1 GGGTATTTC-GATAATTTTACAAATTGG
*
46372609 GGGTATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * * *
46372636 GTGTATTTGGGTAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * *
46372663 GGGTATTTCGATTATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATTGG
* **
46372690 GAGTATTTC-AGTAATTTTA-AAGATCAG
1 GGGTATTTCGA-TAATTTTACAA-ATTGG
* *
46372717 GGGTATTTCTATAATTTTACAAA-TCG
1 GGGTATTTCGATAATTTTACAAATTGG
* * * *
46372743 GGGAATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATTGG
* *
46372770 GGGTATTTCGATGATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * **
46372797 GGGTATTTCGGTAATTTCACAAATAAG
1 GGGTATTTCGATAATTTTACAAATTGG
* *
46372824 AGGTATTT-GTGTAATTTTACAAA
1 GGGTATTTCG-ATAATTTTACAAA
46372847 CCGGGGGCAT
Statistics
Matches: 298, Mismatches: 63, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
26 29 0.10
27 264 0.89
28 5 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATTGG
Found at i:46372531 original size:81 final size:81
Alignment explanation
Indices: 46372418--46372846 Score: 446
Period size: 81 Copynumber: 5.3 Consensus size: 81
46372408 TTTACCCTAT
* * * *
46372418 AGGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTTGATAATTTTACAAATTGGGGGTATTT
1 AGGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTTGATAATTTTACAAACTGGGGGTATTT
* * *
46372482 CAGTAATTTAACAAACC
65 CGGTAATTTCACAAATC
*
46372499 AGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTT-AGTAATTTCACAAACTGGGGGTATTT
1 AGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGA-TAATTTTACAAACTGGGGGTATTT
46372563 CGGTAATTTCACAAATC
65 CGGTAATTTCACAAATC
* * * *
46372580 AGGGGTATCTCAGA-AATTTTACAAAT-TAGGGGTATTTCGATAATTTTACAAACTGGGTGTATT
1 AGGGGTATTTC-GATAATTTTACAAATCGA-GGGTATTTTGATAATTTTACAAACTGGGGGTATT
* *
46372643 TGGGTAATTTTACAAA-C
64 TCGGTAATTTCACAAATC
* * * * *
46372660 TGGGGGTATTTCGATTATTTTACAAATCGAGAGTA-TTTCAGTAATTTTA-AAGA-TCAGGGGTA
1 -AGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGA-TAATTTTACAA-ACT-GGGGGTA
** *
46372722 TTTCTATAATTTTACAAATC
62 TTTCGGTAATTTCACAAATC
* * * *
46372742 -GGGGAATTTCGGTAATTTTACAAATCGAGGGTATTTCGATGATTTTACAAACTGGGGGTATTTC
1 AGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAACTGGGGGTATTTC
*
46372806 GGTAATTTCACAAATA
66 GGTAATTTCACAAATC
* *
46372822 AGAGGTATTT-GTGTAATTTTACAAA
1 AGGGGTATTTCG-ATAATTTTACAAA
46372847 CCGGGGGCAT
Statistics
Matches: 290, Mismatches: 41, Indels: 34
0.79 0.11 0.09
Matches are distributed among these distances:
80 71 0.24
81 212 0.73
82 7 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
AGGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAACTGGGGGTATTTC
GGTAATTTCACAAATC
Found at i:46372820 original size:54 final size:53
Alignment explanation
Indices: 46372419--46372867 Score: 376
Period size: 54 Copynumber: 8.3 Consensus size: 53
46372409 TTACCCTATA
* * * *
46372419 GGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTTGATAATTTTACAAATTG
1 GGGGTATTTCAGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAA-TG
* *
46372473 GGGGTATTTCAGTAATTTAACAAA-CCAGGGGTATTTCGATAATTTTACAAATCG
1 GGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTTCGATAATTTTACAAAT-G
* * * * * * *
46372527 AGGGTATTTTAGTAATTTCACAAA-CTGGGGGTATTTCGGTAATTTCACAAATCA
1 GGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAAAT-G
* * *
46372581 GGGGTATCTCAGAAATTTTACAAAT-TAGGGGTATTTCGATAATTTTACAAACTG
1 GGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTTCGATAATTTTACAAA-TG
* ** * *
46372635 GGTGTATTTGGGTAATTTTACAAA-CTGGGGGTATTTCGATTATTTTACAAATCG
1 GGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAAAT-G
* * * *
46372689 AGAGTATTTCAGTAATTTTA-AAGATC-AGGGGTATTTCTATAATTTTACAAATC
1 GGGGTATTTCAGTAATTTTACAA-ATCGA-GGGTATTTCGATAATTTTACAAATG
* * *
46372742 GGGGAATTTCGGTAATTTTACAAATCGAGGGTATTTCGATGATTTTACAAACTG
1 GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAA-TG
* * * * *
46372796 GGGGTATTTCGGTAATTTCACAAAT-AAGAGGTATTT-GTGTAATTTTACAAACCG
1 GGGGTATTTCAGTAATTTTACAAATCGAG-GGTATTTCG-ATAATTTTACAAA-TG
* *
46372850 GGGGCATTTTAGTAATTT
1 GGGGTATTTCAGTAATTT
46372868 AAACTGTTTG
Statistics
Matches: 322, Mismatches: 55, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
53 49 0.15
54 270 0.84
55 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (53 bp):
GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATG
Found at i:46380648 original size:43 final size:43
Alignment explanation
Indices: 46380578--46380661 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
46380568 CACATCTATC
* * ** *
46380578 GCATCCATCATGAACTCGGACCACTCAACGAGCTCGGATGCTT
1 GCATCCATAACGAACTCAAACCACTCAACGAGCTCGAATGCTT
* *
46380621 GCATCCATAACGAACTCAAACCTCTCAACGAGGTCGAATGC
1 GCATCCATAACGAACTCAAACCACTCAACGAGCTCGAATGC
46380662 CACATATATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
GCATCCATAACGAACTCAAACCACTCAACGAGCTCGAATGCTT
Found at i:46382080 original size:47 final size:47
Alignment explanation
Indices: 46381973--46382082 Score: 159
Period size: 47 Copynumber: 2.3 Consensus size: 47
46381963 CAGATTTACA
46381973 CCCATAGCCAAATCAAGGTAACTCATCCCGAAGTACCTATACCATGG
1 CCCATAGCCAAATCAAGGTAACTCATCCCGAAGTACCTATACCATGG
* * * * *
46382020 CCCGTAACAAAATCAAGGTAACTCCTCTCTGAA-TACCTATACCATGG
1 CCCATAGCCAAATCAAGGTAACTCATC-CCGAAGTACCTATACCATGG
46382067 CCCATAGCCAAATCAA
1 CCCATAGCCAAATCAA
46382083 CGTATTATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (47 bp):
CCCATAGCCAAATCAAGGTAACTCATCCCGAAGTACCTATACCATGG
Found at i:46388927 original size:11 final size:11
Alignment explanation
Indices: 46388896--46388941 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
46388886 ATGAATATAA
46388896 CATGTGCATAT
1 CATGTGCATAT
*
46388907 CA--TACATAT
1 CATGTGCATAT
46388916 CATGTGCATAT
1 CATGTGCATAT
*
46388927 CATGT-CAAAT
1 CATGTGCATAT
46388937 CATGT
1 CATGT
46388942 ATATCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:46389006 original size:25 final size:25
Alignment explanation
Indices: 46388978--46389026 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
46388968 ATAATTAAAC
* * *
46388978 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
46389003 CCTAGGGGCAAAATAGTCATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
46389027 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:46392830 original size:13 final size:13
Alignment explanation
Indices: 46392812--46392837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46392802 ATATTATAAT
46392812 TATTTTATGTTAA
1 TATTTTATGTTAA
46392825 TATTTTATGTTAA
1 TATTTTATGTTAA
46392838 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:46394295 original size:40 final size:40
Alignment explanation
Indices: 46394212--46394416 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
46394202 GGACTAAGAT
46394212 CCGAAGGCATTTGTGCTAGTGACTATAT-CGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
46394251 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
46394291 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
46394331 CCGAAGGCATTTGTGCTAGTGATTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
46394371 CCGAAGGCATTTGTGCAAGTTG-CTATATCC-GGCTAAATA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
46394410 CCGAAGG
1 CCGAAGG
46394417 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 42 0.27
40 114 0.72
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:46396168 original size:55 final size:53
Alignment explanation
Indices: 46396044--46396337 Score: 306
Period size: 55 Copynumber: 5.5 Consensus size: 53
46396034 TTACCATTTT
* ** * * *
46396044 CATGTCTTGACATGGTCTTATGTGGGATCCTTGCCATAT-GAACTCACCAATGT
1 CATGCCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAATGC
*
46396097 CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAATGC
* *
46396152 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCA-CAAATGC
1 CATGCCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATC-AATGC
* * *
46396205 CATGCCTTGGCATGGTCTTACATGGGACATTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGGGAC-CTTGCCTTATAG-AACTCATCAATGC
* * *** * *
46396260 CATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAATGC
* *
46396314 CATGCCTTGGCATAGTCTTACATG
1 CATGCCTTGACATGGTCTTACATG
46396338 ATATCCTTAT
Statistics
Matches: 202, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
52 4 0.02
53 74 0.37
54 35 0.17
55 85 0.42
56 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGCCTTGACATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCAATGC
Found at i:46396242 original size:108 final size:107
Alignment explanation
Indices: 46396044--46396337 Score: 435
Period size: 108 Copynumber: 2.7 Consensus size: 107
46396034 TTACCATTTT
** * * *
46396044 CATGTCTTGACATGGTCTTATGTGGGATCCTTGCCATATGAACTCACCAATGTCATGCCTTGGCA
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCA-CAATGCCATGCCTTGGCA
*
46396109 TGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGC
65 TGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAATGC
46396152 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACAAATGCCATGCCTTGGCA
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCAC-AATGCCATGCCTTGGCA
*
46396217 TGGTCTTACATGGGACATTTTCCTTATAGTAACTCATCAATGC
65 TGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAATGC
* * * * *
46396260 CATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCA-CAATGCCATGCCTTGGC
*
46396325 ATAGTCTTACATG
64 ATGGTCTTACATG
46396338 ATATCCTTAT
Statistics
Matches: 170, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
107 1 0.01
108 135 0.79
109 33 0.19
110 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (107 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACAATGCCATGCCTTGGCAT
GGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAATGC
Found at i:46398150 original size:40 final size:39
Alignment explanation
Indices: 46398057--46398202 Score: 118
Period size: 40 Copynumber: 3.7 Consensus size: 39
46398047 CGAATGGTGT
* * * * *
46398057 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACCAAAA
*
46398098 CC-GG--ATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * *
46398134 CCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTACTAAAT
1 CCGGGCTAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
46398174 CTGGGCTAATTCCGAAGGCAATTGTGCGA
1 CCGGGCTAATCCCGAAGGCATTTGTGCGA
46398203 ATCACTATAA
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
36 10 0.12
37 19 0.23
38 1 0.01
39 17 0.20
40 35 0.42
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:46398201 original size:39 final size:40
Alignment explanation
Indices: 46398104--46398244 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
46398094 AAATCCGGAT
* *
46398104 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATTGTGCGAGTTACCAAAACCGGGCTAAG
* * * *
46398144 TCCCGAAGG-TATTCGTGCGAGTTACTAAATCTGGGCTAA-
1 TCCCGAAGGCAATT-GTGCGAGTTACCAAAACCGGGCTAAG
* * * * *
46398183 TTCCGAAGGCAATTGTGCGAATCACTATAACCGGGC-AATG
1 TCCCGAAGGCAATTGTGCGAGTTACCAAAACCGGGCTAA-G
* * *
46398223 TCCCGAAGACAATCGAGCGAGT
1 TCCCGAAGGCAATTGTGCGAGT
46398245 CGCTATATCT
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 2 0.03
39 27 0.34
40 50 0.63
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCCGAAGGCAATTGTGCGAGTTACCAAAACCGGGCTAAG
Found at i:46398243 original size:79 final size:79
Alignment explanation
Indices: 46398106--46398270 Score: 172
Period size: 79 Copynumber: 2.1 Consensus size: 79
46398096 ATCCGGATTC
* * * * ** * * *
46398106 CCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTCACTA
46398171 AATCTGGGCT-AATT
66 AATCT-GGCTAAATT
* * *
46398185 CCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAGTCGCT
1 CCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAGACAATCGAGCGAGTCACT
* *
46398249 ATATCTGGTTAAATT
65 AAATCTGGCTAAATT
46398264 CCGAAGG
1 CCGAAGG
46398271 TACGTGATTC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
78 5 0.07
79 65 0.93
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTCACTA
AATCTGGCTAAATT
Found at i:46406204 original size:40 final size:40
Alignment explanation
Indices: 46406106--46406257 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
46406096 TCGAATGGTG
* * * *
46406106 TCCGGGCTAAGTCCCGAAGACTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
46406147 TTCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
46406187 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46406227 TCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
46406258 ATCTCTATAA
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 68 0.74
41 24 0.26
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46406244 original size:80 final size:81
Alignment explanation
Indices: 46406107--46406288 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 81
46406097 CGAATGGTGT
* * * *
46406107 CCGGGCTAAGTCCCGAAGACTTTTGTGCTAAGTGACTAAATTCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGACATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
46406172 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * *
46406188 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGACATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
46406251 TGTGCGAATCT-CTATAA
65 TGTGCGAGT-TACCAAAA
46406268 CCGGGC-AATGTCCCGAAGACA
1 CCGGGCTAA-GTCCCGAAGACA
46406289 ATCGAGCGAG
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.04
80 57 0.67
81 25 0.29
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGACATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:46406272 original size:40 final size:39
Alignment explanation
Indices: 46406155--46406299 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 39
46406145 AATTCGGGTC
* * *
46406155 AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTT
1 AATTCCCGAAGGCAATTGTGCGAGTTA-CTAAACCGGGCT
*
46406195 AAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAATCCGGGCT
1 AATTCCCGAAGGCAATT-GTGCGAGTTACTAAA-CCGGGCT
*
46406235 AATTCCCGAAGGCAATTGTGCGAATCT-CTATAACCGGGC-
1 AATTCCCGAAGGCAATTGTGCGAGT-TACTA-AACCGGGCT
* * *
46406274 AATGTCCCGAAGACAATCGAGCGAGT
1 AAT-TCCCGAAGGCAATTGTGCGAGT
46406300 CGTTATATCC
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
39 9 0.10
40 74 0.83
41 6 0.07
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
AATTCCCGAAGGCAATTGTGCGAGTTACTAAACCGGGCT
Found at i:46413715 original size:53 final size:54
Alignment explanation
Indices: 46413642--46413944 Score: 341
Period size: 55 Copynumber: 5.6 Consensus size: 54
46413632 CTTACCATTT
* *
46413642 CCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAAT-
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * * * *
46413694 CCTATGCCTTGCCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTAGCAATG
1 CC-ATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCACCAATG
46413750 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* *
46413803 CCATGTCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATG-GTATCC-TTGCCTTATAG-AACTCACCAATG
* * * *
46413858 TCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACAT-ATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAC-TCACCAATG
* * * *
46413912 GCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
46413945 ATCTTACCAA
Statistics
Matches: 216, Mismatches: 22, Indels: 24
0.82 0.08 0.09
Matches are distributed among these distances:
52 5 0.02
53 75 0.35
54 43 0.20
55 87 0.40
56 6 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
Found at i:46413819 original size:108 final size:108
Alignment explanation
Indices: 46413642--46413937 Score: 443
Period size: 108 Copynumber: 2.7 Consensus size: 108
46413632 CTTACCATTT
* * *
46413642 CCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTATGAACTCACCAAT-CCTATGCCTTGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCC-ATGCCTTGG
* *
46413706 CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTAGCAATG
65 CATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCAGCAATG
*
46413750 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGTCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
*
46413815 ATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCAGCAATG
* * * * *
46413858 TCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACAT-ATCAATGGCATGCCTTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAAC-TCACCAATGCCATGCCTTG
46413922 GCATGGTCTTACATGA
64 GCATGGTCTTACATGA
46413938 TATCCTTATC
Statistics
Matches: 172, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
108 135 0.78
109 36 0.21
110 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (108 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCAGCAATG
Found at i:46423890 original size:25 final size:27
Alignment explanation
Indices: 46423856--46424247 Score: 274
Period size: 27 Copynumber: 14.6 Consensus size: 27
46423846 GTAGGCTAGT
*
46423856 ATTACTGAAATACCCT-GA-TTGTGAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* *
46423881 ATTACTGAAATACCCTCAATTTGTGAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* * *
46423908 ACTACCGAAATACCCCCGATTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* *
46423935 ATTATTGAAACACCCTCGATTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* *** *
46423962 ATTACTGAAACATTGTCAATTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
*
46423989 ATTA-TCGAAATACCCTTGATTTGTAAA
1 ATTACT-GAAATACCCTCGATTTGTAAA
* *
46424016 ATTACTGAAATGCCCTCAATTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* *
46424043 ATTA-TCGAAATACCCTCAATTTGTAAG
1 ATTACT-GAAATACCCTCGATTTGTAAA
** * *
46424070 ATTACAAAAATACCC-CTAATTTGGAAA
1 ATTACTGAAATACCCTC-GATTTGTAAA
* * * *
46424097 ATTAC-CAAATATCCTTGATTTGGAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* * * **
46424123 ATTACAGAAATACCCTTGGTTTACAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
** * * **
46424150 ATTACAAAAATACCTTTGACTTTCAAAA
1 ATTACTGAAATACCCTCGA-TTTGTAAA
* * * * *
46424178 ATTAATGAAATACCATTGGTTTGCAAA
1 ATTACTGAAATACCCTCGATTTGTAAA
* * *
46424205 ATTACTGAAATACCCTTGGTTTGTAGA
1 ATTACTGAAATACCCTCGATTTGTAAA
* * *
46424232 TTTACTAAAACACCCT
1 ATTACTGAAATACCCT
46424248 TGTAGGGTGA
Statistics
Matches: 298, Mismatches: 59, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
25 16 0.05
26 25 0.08
27 236 0.79
28 21 0.07
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
ATTACTGAAATACCCTCGATTTGTAAA
Found at i:46424313 original size:26 final size:26
Alignment explanation
Indices: 46424271--46424367 Score: 61
Period size: 27 Copynumber: 3.6 Consensus size: 26
46424261 GACTAAAATA
46424271 CCCCTAATA-GGTAAAAAGACCGTAATG
1 CCCCT-ATAGGGT-AAAAGACCGTAATG
* * *
46424298 CCCCTATAGGGTAAAATAACCATAAAG
1 CCCCTATAGGGTAAAA-GACCGTAATG
* * * * * *
46424325 CCCTTGTAGGGTAAAGTGACAGTGATA
1 CCCCTATAGGGTAAA-AGACCGTAATG
*
46424352 CCCCTATATGGTAAAA
1 CCCCTATAGGGTAAAA
46424368 TGAGGATTAT
Statistics
Matches: 51, Mismatches: 16, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
26 7 0.14
27 44 0.86
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (26 bp):
CCCCTATAGGGTAAAAGACCGTAATG
Found at i:46424327 original size:27 final size:27
Alignment explanation
Indices: 46424271--46424339 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
46424261 GACTAAAATA
* *
46424271 CCCCTAATA-GGTAAAAAGACCGTAATG
1 CCCCT-ATAGGGTAAAAAGACCATAAAG
46424298 CCCCTATAGGGTAAAATA-ACCATAAAG
1 CCCCTATAGGGTAAAA-AGACCATAAAG
* *
46424325 CCCTTGTAGGGTAAA
1 CCCCTATAGGGTAAA
46424340 GTGACAGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 32 0.89
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCATAAAG
Found at i:46424546 original size:27 final size:26
Alignment explanation
Indices: 46424512--46424598 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
46424502 GGAAGTTCTG
* *
46424512 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
46424539 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
46424566 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
*
46424593 TTCTGG
1 TACTGG
46424599 CAACTATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.92
28 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:46424704 original size:21 final size:21
Alignment explanation
Indices: 46424680--46424723 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
46424670 TATCCCCACA
*
46424680 TGGTGTGTTGGTTGGTACAGG
1 TGGTGTGCTGGTTGGTACAGG
46424701 TGGTGTGCTGGTTGGTACAGG
1 TGGTGTGCTGGTTGGTACAGG
46424722 TG
1 TG
46424724 AGATGCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.07, G:0.48, T:0.36
Consensus pattern (21 bp):
TGGTGTGCTGGTTGGTACAGG
Found at i:46424829 original size:33 final size:34
Alignment explanation
Indices: 46424781--46424851 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
46424771 TTAGGCCCAC
* * *
46424781 ACTGCTACTGTATAGGGCTTAGGCCCAGACTG-T
1 ACTGATACTGAATAGGGCTAAGGCCCAGACTGTT
46424814 ACTGATACTGAATAGGGCTAAGGCCCAGACTGTT
1 ACTGATACTGAATAGGGCTAAGGCCCAGACTGTT
46424848 ACTG
1 ACTG
46424852 CATGCACTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (34 bp):
ACTGATACTGAATAGGGCTAAGGCCCAGACTGTT
Found at i:46424850 original size:28 final size:28
Alignment explanation
Indices: 46424755--46424851 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 28
46424745 CATACTGTAT
* * *
46424755 TGTTACTGCATTGGGCTTAGGCCCACAC
1 TGTTACTGAATAGGGCTTAGGCCCAGAC
* *
46424783 TGCTACTGTATAGGGCTTAGGCCCAGAC
1 TGTTACTGAATAGGGCTTAGGCCCAGAC
*
46424811 TGTACTGATACTGAATAGGGCTAAGGCCCAGAC
1 TG---T--TACTGAATAGGGCTTAGGCCCAGAC
46424844 TGTTACTG
1 TGTTACTG
46424852 CATGCACTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
28 31 0.54
30 1 0.02
33 25 0.44
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (28 bp):
TGTTACTGAATAGGGCTTAGGCCCAGAC
Found at i:46429861 original size:41 final size:41
Alignment explanation
Indices: 46429816--46429933 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
46429806 TGAAAGATAA
46429816 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
46429857 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46429887 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
46429928 ATGTAG
1 ATGTAG
46429934 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:46429872 original size:71 final size:71
Alignment explanation
Indices: 46429784--46429947 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46429774 GAGATGTATC
46429784 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46429849 AGGACA
66 AGGACA
46429855 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46429920 AGGACA
66 AGGACA
46429926 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46429948 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46437391 original size:40 final size:40
Alignment explanation
Indices: 46437347--46437461 Score: 92
Period size: 40 Copynumber: 3.1 Consensus size: 40
46437337 AGAGAGCTAC
46437347 GTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA
1 GTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA
* * * *
46437387 GTG-AAGACACCATGTAGAC-AAG-AG-A-GC-T-A---C--
1 GTGAAAGATA-AATGTAG-CTAGGTCGCATGCGTGATTCCAA
46437417 GTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA
1 GTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA
46437457 GTGAA
1 GTGAA
46437462 GGACACCATG
Statistics
Matches: 53, Mismatches: 8, Indels: 28
0.60 0.09 0.31
Matches are distributed among these distances:
29 1 0.02
30 11 0.21
31 6 0.11
32 2 0.04
33 2 0.04
34 1 0.02
35 2 0.04
36 1 0.02
37 2 0.04
38 2 0.04
39 6 0.11
40 16 0.30
41 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
GTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAA
Found at i:46437415 original size:70 final size:71
Alignment explanation
Indices: 46437326--46437488 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
46437316 GAGATGTATC
46437326 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46437391 A-GACA
66 AGGACA
46437396 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
46437461 AGGACA
66 AGGACA
46437467 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
46437489 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 66 0.72
71 26 0.28
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:46444578 original size:40 final size:40
Alignment explanation
Indices: 46444533--46444700 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
46444523 CGGAATATAA
46444533 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46444573 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46444613 CCGGATGATAGCCACTAGC-CAATTGCCTTCGGGTCTTAAC
1 CCGGAT-ATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46444653 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
46444693 CCGGATAT
1 CCGGATAT
46444701 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 8 0.08
40 89 0.85
41 8 0.08
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46452573 original size:40 final size:40
Alignment explanation
Indices: 46452528--46452694 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46452518 CGGAATATAA
46452528 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46452568 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46452608 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46452648 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46452687 CCGGATAT
1 CCGGATAT
46452695 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46452678 original size:80 final size:79
Alignment explanation
Indices: 46452528--46452694 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
46452518 CGGAATATAA
* *
46452528 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
46452593 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
46452608 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
46452670 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
46452687 CCGGATAT
1 CCGGATAT
46452695 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:46453543 original size:17 final size:19
Alignment explanation
Indices: 46453520--46453565 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
46453510 AAGAAGCATG
46453520 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
46453538 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
46453556 AATCATGCTC
1 AATCATGCTC
46453566 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:46454497 original size:40 final size:40
Alignment explanation
Indices: 46454423--46454668 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
46454413 AACCCAAGTA
* *
46454423 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTC-ACTAGCACAAATG
* *
46454462 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
*
46454502 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
46454542 CCTTCGGGACTTAGCCCAGATATAGT-ATCTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCA-CTAGCACAAATG
46454582 CCTTC-GGATCTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCAGATATAGTCACTAGCACAAATG
* *
46454622 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
46454662 CCTTCGG
1 CCTTCGG
46454669 ATCTTAGTCC
Statistics
Matches: 193, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
39 17 0.09
40 171 0.89
41 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
Found at i:46456064 original size:13 final size:13
Alignment explanation
Indices: 46456046--46456071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46456036 ATTTTTATTT
46456046 TTAACATAAAATA
1 TTAACATAAAATA
46456059 TTAACATAAAATA
1 TTAACATAAAATA
46456072 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:46461342 original size:13 final size:13
Alignment explanation
Indices: 46461324--46461348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46461314 CGTGTGTGAC
46461324 ACACGGCCTTGTT
1 ACACGGCCTTGTT
46461337 ACACGGCCTTGT
1 ACACGGCCTTGT
46461349 GTCCCCTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGCCTTGTT
Found at i:46470483 original size:93 final size:93
Alignment explanation
Indices: 46470371--46470542 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46470361 GCCCATAAGT
* *
46470371 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46470436 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
46470464 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
46470529 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
46470543 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:46470538 original size:46 final size:46
Alignment explanation
Indices: 46470363--46470538 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
46470353 TGTAACCTGC
* *
46470363 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
46470409 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
46470459 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
46470502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
46470539 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:46484551 original size:47 final size:47
Alignment explanation
Indices: 46484492--46484741 Score: 362
Period size: 47 Copynumber: 5.4 Consensus size: 47
46484482 GATGTACAAG
* *
46484492 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
46484539 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
46484585 GTGTGTATATGAGATAA-GCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
46484631 GTGTATATATGAGATAA-ACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
46484677 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
46484724 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
46484742 TCCCGAAGGG
Statistics
Matches: 184, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 25 0.14
46 76 0.41
47 83 0.45
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:46486914 original size:39 final size:40
Alignment explanation
Indices: 46486596--46486900 Score: 496
Period size: 39 Copynumber: 7.8 Consensus size: 40
46486586 AGTATGTTAT
*
46486596 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
46486636 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
* *
46486676 TCCGGACTAGGTCCC-AAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
* *
46486715 TCCGGACT-AGT-CCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
*
46486753 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
46486793 T-CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
*
46486832 -CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
*
46486871 TCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
46486901 TGGACAAAAT
Statistics
Matches: 250, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
37 2 0.01
38 32 0.13
39 120 0.48
40 96 0.38
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
Found at i:46490888 original size:47 final size:47
Alignment explanation
Indices: 46490831--46491083 Score: 371
Period size: 47 Copynumber: 5.4 Consensus size: 47
46490821 GATGTACAAG
* *
46490831 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
46490878 GTGTACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
46490925 GTGTGTATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
46490972 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
46491019 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
46491066 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
46491084 TCCCGAAGGG
Statistics
Matches: 187, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:46496550 original size:21 final size:20
Alignment explanation
Indices: 46496524--46496602 Score: 122
Period size: 21 Copynumber: 3.8 Consensus size: 20
46496514 AAAAGACACC
46496524 CCAATTTTGACCATTACCGTT
1 CCAATTTTGACCATTACC-TT
*
46496545 CCAATTTTGACCATTAGCCTG
1 CCAATTTTGACCATTA-CCTT
46496566 CCAATTTTGACCATTACCATT
1 CCAATTTTGACCATTACC-TT
46496587 CCAATTTTGACCATTA
1 CCAATTTTGACCATTA
46496603 AAATTAGCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.04
21 50 0.93
22 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.37
Consensus pattern (20 bp):
CCAATTTTGACCATTACCTT
Found at i:46496612 original size:48 final size:44
Alignment explanation
Indices: 46496524--46496680 Score: 192
Period size: 48 Copynumber: 3.4 Consensus size: 44
46496514 AAAAGACACC
*
46496524 CCAATTTTGACCATTACCGTTCCAATTTTGACC--ATTAGCCTG
1 CCAATTTTGACCATTACCATTCCAATTTTGACCATATTAGCCTG
46496566 CCAATTTTGACCATTACCATTCCAATTTTGACCATTAAAATTAGCCTG
1 CCAATTTTGACCATTACCATTCCAATTTTGACCA-T---ATTAGCCTG
* * *
46496614 CCAATTTTGACCAGTACCATTCCAACTTTGACCAGTGCCATTAGCCTA
1 CCAATTTTGACCATTACCATTCCAATTTTGACCA-T---ATTAGCCTG
46496662 CCAATTTTGACCATTACCA
1 CCAATTTTGACCATTACCA
46496681 CCATTGCCAT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 32 0.32
48 68 0.68
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (44 bp):
CCAATTTTGACCATTACCATTCCAATTTTGACCATATTAGCCTG
Found at i:46496643 original size:21 final size:21
Alignment explanation
Indices: 46496614--46496655 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46496604 AATTAGCCTG
*
46496614 CCAATTTTGACCAGTACCATT
1 CCAACTTTGACCAGTACCATT
*
46496635 CCAACTTTGACCAGTGCCATT
1 CCAACTTTGACCAGTACCATT
46496656 AGCCTACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (21 bp):
CCAACTTTGACCAGTACCATT
Found at i:46496673 original size:27 final size:26
Alignment explanation
Indices: 46496554--46496680 Score: 94
Period size: 27 Copynumber: 5.2 Consensus size: 26
46496544 TCCAATTTTG
*
46496554 ACCATTAGCCTGCCAATTTTGACCATT
1 ACCATTAGCCT-CCAATTTTGACCAGT
*
46496581 ACCA-T----TCCAATTTTGACCATT
1 ACCATTAGCCTCCAATTTTGACCAGT
**
46496602 AAAATTAGCCTGCCAATTTTGACCAGT
1 ACCATTAGCCT-CCAATTTTGACCAGT
*
46496629 ACCA-T----TCCAACTTTGACCAGT
1 ACCATTAGCCTCCAATTTTGACCAGT
* *
46496650 GCCATTAGCCTACCAATTTTGACCATT
1 ACCATTAGCCT-CCAATTTTGACCAGT
46496677 ACCA
1 ACCA
46496681 CCATTGCCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
21 34 0.44
22 4 0.05
26 4 0.05
27 36 0.46
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (26 bp):
ACCATTAGCCTCCAATTTTGACCAGT
Found at i:46500978 original size:39 final size:39
Alignment explanation
Indices: 46500894--46501039 Score: 188
Period size: 39 Copynumber: 3.7 Consensus size: 39
46500884 TCGAATAATG
* ** *
46500894 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGACTAAGTCCGAAGGCATTTGTGC-GAGTTCCCAAA
46500933 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTCCCAAA
46500973 T-CGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTCCCAAA
**
46501012 TCCGGGTTAAGTCCCGAAGGCATTTGTG
1 TCCGGACTAAGT-CCGAAGGCATTTGTG
46501040 TGAGCTATTA
Statistics
Matches: 97, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
39 50 0.52
40 40 0.41
41 7 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTCCCAAA
Found at i:46509027 original size:39 final size:38
Alignment explanation
Indices: 46508946--46509094 Score: 201
Period size: 39 Copynumber: 3.8 Consensus size: 38
46508936 TCGAATGATG
* * *
46508946 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGACTAAGTCCGAAGGCATTTGTGC-GAGT-TCCAAA
46508985 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTCCAAA
46509024 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTCCAAA
**
46509063 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG
46509095 CTATTATAAC
Statistics
Matches: 102, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 81 0.79
40 13 0.13
41 7 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (38 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTCCAAA
Found at i:46509119 original size:40 final size:39
Alignment explanation
Indices: 46508946--46509128 Score: 189
Period size: 39 Copynumber: 4.7 Consensus size: 39
46508936 TCGAATGATG
* *
46508946 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-TCCAAA
*
46508985 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTCCAAA
*
46509024 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTCCAAA
* *
46509063 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTAT-TATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-T-TCCA-AA
* *
46509104 -CCGGGCTATGTCCCGAAGGCTTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46509129 AGTGAGTCGC
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 81 0.63
40 37 0.29
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCAAA
Found at i:46511523 original size:13 final size:13
Alignment explanation
Indices: 46511505--46511536 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
46511495 CATCTTGATT
46511505 AAATCATATTTTG
1 AAATCATATTTTG
46511518 AAATCATATTTTG
1 AAATCATATTTTG
46511531 AAATCA
1 AAATCA
46511537 CAAGTATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
AAATCATATTTTG
Found at i:46522120 original size:29 final size:28
Alignment explanation
Indices: 46522053--46522120 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
46522043 TAATAGTGCT
* *
46522053 ATATATATATATATTAAAGTATGTACGAA
1 ATATATATA-ATACTAAAATATGTACGAA
46522082 ATA-ATAATAATACTAAATATATGTAC-ATA
1 ATATAT-ATAATACTAAA-ATATGTACGA-A
46522111 ATATATATAA
1 ATATATATAA
46522121 AATGAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
28 10 0.30
29 21 0.64
30 2 0.06
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (28 bp):
ATATATATAATACTAAAATATGTACGAA
Found at i:46522160 original size:31 final size:31
Alignment explanation
Indices: 46522125--46522221 Score: 101
Period size: 31 Copynumber: 3.1 Consensus size: 31
46522115 ATATAAAATG
46522125 AACATATACAATATATATTAGAAATACTA-AT
1 AACATATACAATATATATTA-AAATACTACAT
* *
46522156 AACATAAATAATATATATTAATAATACTACAT
1 AACATATACAATATATATTAA-AATACTACAT
*
46522188 AA-ATATGTAC-ATATATATTAAAATAAATACAT
1 AACATA--TACAATATATATTAAAAT-ACTACAT
46522220 AA
1 AA
46522222 TAATATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.02
31 31 0.55
32 23 0.41
33 1 0.02
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (31 bp):
AACATATACAATATATATTAAAATACTACAT
Found at i:46522244 original size:23 final size:23
Alignment explanation
Indices: 46522148--46522381 Score: 152
Period size: 23 Copynumber: 10.2 Consensus size: 23
46522138 TATATTAGAA
*
46522148 ATAC-TAATAACA-TAAATAATAT
1 ATACATAATAATATTAAA-AATAT
* *
46522170 ATA-TTAATAATACTACATAAATAT
1 ATACATAATAATATTA-A-AAATAT
* *
46522194 GTACAT-AT-ATATT-AAAATAA
1 ATACATAATAATATTAAAAATAT
**
46522214 ATACATAATAATATTAAAAGCAT
1 ATACATAATAATATTAAAAATAT
*
46522237 ATACATAA-AATAGCGTTAAAAATAC
1 ATACATAATAATA---TTAAAAATAT
*
46522262 ATGCATAAT-ATAGTTATTAAAATAT
1 ATACATAATAATA-TTA--AAAATAT
*
46522287 ATACATAAT-ATAAT-AAAATAT
1 ATACATAATAATATTAAAAATAT
* *
46522308 ATACATGAAATAGTATAAAAAATAT
1 ATACAT--AATAATATTAAAAATAT
46522333 ATA-ACTAATAATATTAAAAATAT
1 ATACA-TAATAATATTAAAAATAT
46522356 ATACATAAT-ATA-TATAAAATAT
1 ATACATAATAATATTA-AAAATAT
46522378 ATAC
1 ATAC
46522382 CTATATACCT
Statistics
Matches: 170, Mismatches: 21, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
20 10 0.06
21 18 0.11
22 33 0.19
23 47 0.28
24 15 0.09
25 47 0.28
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (23 bp):
ATACATAATAATATTAAAAATAT
Found at i:46522333 original size:94 final size:90
Alignment explanation
Indices: 46522188--46522388 Score: 205
Period size: 94 Copynumber: 2.2 Consensus size: 90
46522178 AATACTACAT
* * * *
46522188 AAATATGTACATATATATTAAAATAAATACATAATAATATTAAAAGCATATA-CA-TAA-AATAG
1 AAATATATACATATATAATAAAATAAATACATAATAATATTAAAAGAATATATAACTAATAATA-
*
46522250 CGTTAAAAATACATGCATAATATAGTTATTA
65 --TTAAAAATACATACATAATATA--TA-TA
* *
46522281 AAATATATACATAATATAATAAAATATATACATGA-AATAGTATAAAA-AATATATAACTAATAA
1 AAATATATACAT-ATATAATAAAATAAATACATAATAATA-T-TAAAAGAATATATAACTAATAA
*
46522344 TATTAAAAATATATACATAATATATATA
63 TATTAAAAATACATACATAATATATATA
*
46522372 AAATATATACCTATATA
1 AAATATATACATATATA
46522389 CCTATATTAG
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
90 5 0.05
91 13 0.14
92 2 0.02
93 15 0.16
94 45 0.48
95 6 0.06
96 3 0.03
97 4 0.04
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (90 bp):
AAATATATACATATATAATAAAATAAATACATAATAATATTAAAAGAATATATAACTAATAATAT
TAAAAATACATACATAATATATATA
Found at i:46522554 original size:22 final size:23
Alignment explanation
Indices: 46522505--46522578 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
46522495 AATATTAGAA
46522505 ATATACAT-ACAATAGTATAAAAGAT
1 ATATACATAACAATA-TAT-AAA-AT
46522530 ATATA-ACTAACAATAT-TAAAAT
1 ATATACA-TAACAATATATAAAAT
* *
46522552 ATATACATAATAATATATAAAAA
1 ATATACATAACAATATATAAAAT
46522575 ATAT
1 ATAT
46522579 GATATTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
22 15 0.35
23 13 0.30
24 2 0.05
25 7 0.16
26 6 0.14
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATATAAAAT
Found at i:46522584 original size:38 final size:35
Alignment explanation
Indices: 46522542--46522627 Score: 93
Period size: 41 Copynumber: 2.3 Consensus size: 35
46522532 ATAACTAACA
46522542 ATATTAAAATATATACATAATAATATATAAAAAATAT
1 ATATTAAAATATATACATAA-AATATAT-AAAAATAT
* *
46522579 GATATTAAAAACATATATACATAACATATATGAAAATAT
1 -ATATT--AAA-ATATATACATAAAATATATAAAAATAT
46522618 ATA-TAAAATA
1 ATATTAAAATA
46522628 GTATTAGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
34 3 0.07
35 3 0.07
37 1 0.02
38 8 0.19
39 7 0.16
40 9 0.21
41 12 0.28
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (35 bp):
ATATTAAAATATATACATAAAATATATAAAAATAT
Found at i:46522621 original size:12 final size:11
Alignment explanation
Indices: 46522503--46522627 Score: 58
Period size: 12 Copynumber: 10.5 Consensus size: 11
46522493 GTAATATTAG
*
46522503 AAATATACATA
1 AAATATATATA
*
46522514 CAATAGTATA-A
1 AAATA-TATATA
46522525 AAGATATATAACTA
1 AA-ATATAT-A-TA
46522539 ACAATAT-TA-A
1 A-AATATATATA
*
46522549 AATATATACATA
1 AA-ATATATATA
*
46522561 ATAATATATAAA
1 A-AATATATATA
46522573 AAATATGATATTAA
1 AAATAT-ATA-T-A
*
46522587 AAACATATATA
1 AAATATATATA
*
46522598 CATAACATATATGA
1 -A-AATATATAT-A
46522612 AAATATATATA
1 AAATATATATA
46522623 AAATA
1 AAATA
46522628 GTATTAGAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 32
0.68 0.07 0.25
Matches are distributed among these distances:
9 1 0.01
10 6 0.07
11 22 0.25
12 31 0.35
13 15 0.17
14 13 0.15
15 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (11 bp):
AAATATATATA
Found at i:46522779 original size:3 final size:3
Alignment explanation
Indices: 46522765--46522841 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
46522755 AAACATATAC
*
46522765 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46522813 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46522842 TTGAAATACA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46524194 original size:28 final size:29
Alignment explanation
Indices: 46524148--46524210 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 29
46524138 TAGGTTTAGT
46524148 TTGGGTTTGCAGATGGGTTAAATGGGTAA
1 TTGGGTTTGCAGATGGGTTAAATGGGTAA
46524177 TTGGGTTTG-AGATGGGTTAAATGGGTAA
1 TTGGGTTTGCAGATGGGTTAAATGGGTAA
46524205 TTGGGT
1 TTGGGT
46524211 CTTGTTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.74
29 9 0.26
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.37
Consensus pattern (29 bp):
TTGGGTTTGCAGATGGGTTAAATGGGTAA
Found at i:46525084 original size:75 final size:75
Alignment explanation
Indices: 46524914--46525333 Score: 363
Period size: 73 Copynumber: 5.5 Consensus size: 75
46524904 ATGTGACCCA
* *
46524914 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTAAAATAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAACATAAATT-GAA-AATACCT
** *
46524979 CAGTGTGTGATCTG
62 CAGTACGTGATTTG
* * * *
46524993 AAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAATCATAAATTGAAAATACCTCAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAATTGAAAATACCTCAGT
*
46525058 GCGTGATTTG
66 ACGTGATTTG
* * *
46525068 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACAAAAATTGAAAA-ACAGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAATTGAAAATAC-----C
* * *
46525130 TGAAAATACCTCGACATGTCTG
61 T--CAGTACGT-G--AT-T-TG
* * * * *
46525152 AGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAACATAAATTGAGAATACCTTAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAACATAAATTGAAAATACCTCAG
*
46525217 T--GTGACTTG
65 TACGTGATTTG
* * * * *
46525226 AGGCTCAACTCCCCTCTCGCAATATGAGTT-AATTTTTGAAAGACAGAAATTGAAAAAACCTCA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA-ACATAAATTGAAAATACCTCAG
46525289 -ACGTG-TCTTG
65 TACGTGAT-TTG
46525299 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
46525334 CTGAAAACAG
Statistics
Matches: 280, Mismatches: 40, Indels: 47
0.76 0.11 0.13
Matches are distributed among these distances:
72 9 0.03
73 72 0.26
74 32 0.11
75 50 0.18
76 3 0.01
77 11 0.04
78 1 0.00
79 41 0.15
80 1 0.00
81 2 0.01
82 2 0.01
83 2 0.01
84 32 0.11
87 20 0.07
88 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACATAAATTGAAAATACCTCAGT
ACGTGATTTG
Found at i:46526912 original size:34 final size:34
Alignment explanation
Indices: 46526874--46526941 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
46526864 CAGATTCAAG
46526874 GCGTTATCTGAAATGATTCTTTCAGGCAAACCAT
1 GCGTTATCTGAAATGATTCTTTCAGGCAAACCAT
*
46526908 GCGTTATCTGAAATGATTCTTTTAGGCAAACCAT
1 GCGTTATCTGAAATGATTCTTTCAGGCAAACCAT
46526942 ATCGACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (34 bp):
GCGTTATCTGAAATGATTCTTTCAGGCAAACCAT
Found at i:46533149 original size:18 final size:18
Alignment explanation
Indices: 46533122--46533156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46533112 AATGAGTGTA
*
46533122 TGAATGAATGACAAATGT
1 TGAATAAATGACAAATGT
*
46533140 TGAATAAATGACGAATG
1 TGAATAAATGACAAATG
46533157 AATGTTAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.26
Consensus pattern (18 bp):
TGAATAAATGACAAATGT
Found at i:46537034 original size:31 final size:31
Alignment explanation
Indices: 46536999--46537086 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
46536989 ATATAAAATG
46536999 AACATATACAATATATATTAGAAATACTA-AT
1 AACATATACAATATATATTA-AAATACTACAT
* *
46537030 AACATAAATAATATATATTAATAATACTACAT
1 AACATATACAATATATATTAA-AATACTACAT
46537062 AA-ATATGTAC-ATATATATTAAAATA
1 AACATA--TACAATATATATTAAAATA
46537087 AATGCATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.02
31 32 0.65
32 15 0.31
33 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (31 bp):
AACATATACAATATATATTAAAATACTACAT
Found at i:46537151 original size:23 final size:22
Alignment explanation
Indices: 46537062--46537254 Score: 146
Period size: 25 Copynumber: 8.5 Consensus size: 22
46537052 AATACTACAT
*
46537062 AAATATGTACAT-ATATATT-A
1 AAATATATACATAATATATTAA
* *
46537082 AAATAAATGCATAATAATATTAA
1 AAATATATACATAAT-ATATTAA
* *
46537105 AAGTATATACATAAAATAGCGTTAA
1 AAATATATACATAATATA---TTAA
*
46537130 AAATACATACATAATATAGTTATTA
1 AAATATATACATAATATA-TTA--A
*
46537155 AAATATATACATAATATAAT-A
1 AAATATATACATAATATATTAA
46537176 AAATATATACATGAA-ATAGTATAA
1 AAATATATACAT-AATATA-T-TAA
*
46537200 AAATATATA-ACTAATAATAATAA
1 AAATATATACA-TAAT-ATATTAA
*
46537223 AAATATATGCATAATATA-TATA
1 AAATATATACATAATATATTA-A
46537245 AAATATATAC
1 AAATATATAC
46537255 CTATATACCT
Statistics
Matches: 140, Mismatches: 16, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.06
21 20 0.14
22 23 0.16
23 35 0.25
24 13 0.09
25 40 0.29
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.33
Consensus pattern (22 bp):
AAATATATACATAATATATTAA
Found at i:46537195 original size:46 final size:47
Alignment explanation
Indices: 46537127--46537254 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 47
46537117 AAAATAGCGT
*
46537127 TAAAAATACATACATAATATAGTTATTAAAATATATACA-TAAT-ATAA
1 TAAAAATATATACATAA-ATAG-TATTAAAATATATACACTAATAATAA
*
46537174 T-AAAATATATACATGAAATAGTATAAAAATATATA-ACTAATAATAA
1 TAAAAATATATACAT-AAATAGTATTAAAATATATACACTAATAATAA
*
46537220 TAAAAATATATGCAT-AATA-TATATAAAATATATAC
1 TAAAAATATATACATAAATAGTAT-TAAAATATATAC
46537255 CTATATACCT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
44 4 0.06
45 31 0.44
46 21 0.30
47 15 0.21
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (47 bp):
TAAAAATATATACATAAATAGTATTAAAATATATACACTAATAATAA
Found at i:46537449 original size:24 final size:24
Alignment explanation
Indices: 46537380--46537703 Score: 96
Period size: 24 Copynumber: 14.1 Consensus size: 24
46537370 AATATTAGAA
*
46537380 ATATACAT-ACAATAGTATAAAAGAT
1 ATATACATAATAATA-TATAAAA-AT
* *
46537405 ATAT-CACTAACAAT-T-TTAAAAT
1 ATATACA-TAATAATATATAAAAAT
46537427 ATATACATAATAATATATAAAAA-
1 ATATACATAATAATATATAAAAAT
* *
46537450 ATAT-GAT-AT--TA-A-AAACAT
1 ATATACATAATAATATATAAAAAT
*
46537468 ATATACATAA-CATATATGAAAAAT
1 ATATACATAATAATATAT-AAAAAT
* * *
46537492 ATATATAT-ATAATAGTATTAGAAT
1 ATATACATAATAATA-TATAAAAAT
* *
46537516 ATTTACATAATATATACATATTAGAAAT
1 ATATACATAATA-AT--ATA-TAAAAAT
* *
46537544 A-ATA-ATAATAATGT-TACAAAAC
1 ATATACATAATAATATATA-AAAAT
***
46537566 A-ATTA-ATAATAATACTACCTAAAT
1 ATA-TACATAATAATA-TATAAAAAT
* *
46537590 ATATACGT-ATATATATATTAAAGAT
1 ATATACATAATA-ATATA-TAAAAAT
*
46537615 ATATGCAT-AT-ATA-ATAAAACAT
1 ATATACATAATAATATATAAAA-AT
*
46537637 ATACTA-ATAATAATA-ATAATAAT
1 ATA-TACATAATAATATATAAAAAT
*
46537660 A-ATA-ATAATAATA-ATAATAAT
1 ATATACATAATAATATATAAAAAT
*
46537681 A-ATA-ATAATAATA-ATAATAAT
1 ATATACATAATAATATATAAAAAT
46537702 AT
1 AT
46537704 TGAAATACAA
Statistics
Matches: 231, Mismatches: 35, Indels: 69
0.69 0.10 0.21
Matches are distributed among these distances:
17 4 0.02
18 5 0.02
19 4 0.02
20 1 0.00
21 51 0.22
22 29 0.13
23 32 0.14
24 53 0.23
25 29 0.13
26 13 0.06
27 4 0.02
28 6 0.03
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (24 bp):
ATATACATAATAATATATAAAAAT
Found at i:46537505 original size:13 final size:13
Alignment explanation
Indices: 46537421--46537505 Score: 54
Period size: 13 Copynumber: 6.5 Consensus size: 13
46537411 CTAACAATTT
*
46537421 TAAAATATATACA
1 TAAAATATATATA
46537434 TAATAATATATA-A
1 TAA-AATATATATA
46537447 -AAAATATGATAT-
1 TAAAATAT-ATATA
*
46537459 TAAAA-ACATATA
1 TAAAATATATATA
*
46537471 TACATAACATATATGA
1 TA-A-AATATATAT-A
46537487 -AAAATATATATA
1 TAAAATATATATA
*
46537499 TATAATA
1 TAAAATA
46537506 GTATTAGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
11 9 0.16
12 9 0.16
13 22 0.38
14 11 0.19
15 6 0.10
16 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (13 bp):
TAAAATATATATA
Found at i:46537616 original size:23 final size:22
Alignment explanation
Indices: 46537585--46537640 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
46537575 TAATACTACC
* *
46537585 TAAATATATACGTATATATATAT
1 TAAACATATACGCATATATA-AT
* *
46537608 TAAAGATATATGCATATATAAT
1 TAAACATATACGCATATATAAT
*
46537630 AAAACATATAC
1 TAAACATATAC
46537641 TAATAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAACATATACGCATATATAAT
Found at i:46537647 original size:3 final size:3
Alignment explanation
Indices: 46537641--46537702 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
46537631 AAACATATAC
46537641 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46537689 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
46537703 TTGAAATACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46539089 original size:29 final size:29
Alignment explanation
Indices: 46539012--46539075 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
46539002 TAGGTTTAGT
*
46539012 TTGGGTTTGAAGATGGGTTAAATGGGTAA
1 TTGGGTTTGAGGATGGGTTAAATGGGTAA
46539041 TTGGGTTTGAGGATGGGTTAAATGGGTAA
1 TTGGGTTTGAGGATGGGTTAAATGGGTAA
46539070 TTGGGT
1 TTGGGT
46539076 CTTGTTTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (29 bp):
TTGGGTTTGAGGATGGGTTAAATGGGTAA
Found at i:46539742 original size:13 final size:13
Alignment explanation
Indices: 46539724--46539759 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
46539714 ATGAGTTGAT
46539724 TTTTGAAAACAGA
1 TTTTGAAAACAGA
46539737 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
46539751 TTTTGAAAA
1 TTTTGAAAA
46539760 TACCTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:46539789 original size:88 final size:86
Alignment explanation
Indices: 46539606--46539815 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 86
46539596 GTGATCTTGA
* * *
46539606 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACAGACATTAAAAACAAAAATTGAAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACAGACATTAAAAACAAAAATTGAAA
* * *
46539671 ATAGCTCAGCACGTGAGCCAAG
65 ATACCTCAACACGTGACCCAAG
* ** * **
46539693 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGATTTTGAAAAACAGATTTTGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACAGACATT-AAAAACAAAAATTGAA
*
46539758 AATACCTCAACATGTGACCCAAG
64 AATACCTCAACACGTGACCCAAG
46539781 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
46539816 TTGAAAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
86 4 0.04
87 37 0.35
88 66 0.62
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (86 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAGACATTAAAAACAAAAATTGAAAA
TACCTCAACACGTGACCCAAG
Found at i:46539864 original size:79 final size:74
Alignment explanation
Indices: 46539781--46540149 Score: 243
Period size: 74 Copynumber: 4.8 Consensus size: 74
46539771 GTGACCCAAG
*
46539781 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATT-AAAATAACACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---AAACATAAATTGAAAAT---ACCTC
*
46539845 AGTGTGTGATCTGAA
60 AGTGCGTGATCTGAA
* * *
46539860 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAATCATAAATTGAAAATACCTTAGTGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACATAAATTGAAAATACCTCAGTGCG
* *
46539925 TGATTTGAG
66 TGATCTGAA
* * * * ***
46539934 GCTCAACTCACCTCTGGCGATAT--G-TGA-TTTTTGAAACAAAAATTGAAAA-ACAGAATGTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACATAAATTGAAAATACCTCA-GTG-
* *
46539994 AAATACCTCGGCATGTCTGAG
64 -----CGT--G-A--TCTGAA
* * *
46540015 GTTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAACATAAATTGAGAATACCTCAG-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-AAACATAAATTGAAAATACCTCAGTG
*
46540079 -GTGA-CTTGAG
64 CGTGATC-TGAA
* * * ** *
46540089 GCACAACTCCCCTCTCGCAATATGAGTTTATTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA-ACATAAATTGAAAATACCTCA
46540150 ACGTGTCTTG
Statistics
Matches: 230, Mismatches: 38, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
69 3 0.01
70 22 0.10
71 3 0.01
72 3 0.01
73 25 0.11
74 65 0.28
76 13 0.06
77 6 0.03
78 1 0.00
79 37 0.16
81 24 0.10
83 1 0.00
84 3 0.01
86 6 0.03
87 15 0.07
88 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAACATAAATTGAAAATACCTCAGTGCG
TGATCTGAA
Found at i:46540123 original size:73 final size:74
Alignment explanation
Indices: 46540018--46540169 Score: 184
Period size: 73 Copynumber: 2.1 Consensus size: 74
46540008 GTCTGAGGTT
* * **
46540018 CAACTCACCTCTCACAATATGAGTTGATTTTTTTTG-AA-ACATAAATTGAGAATACCTCAGGGT
1 CAACTCACCTCTCACAATATGAGTTGA--TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
46540081 GACTTGAGGCA
64 GACTTGAGGCA
* * * *
46540092 CAACTCCCCTCTCGCAATATGAGTTTA-TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGT
1 CAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGA
*
46540156 CTTGAGGCT
66 CTTGAGGCA
46540165 CAACT
1 CAACT
46540170 TCTATATGCC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
71 6 0.09
72 2 0.03
73 35 0.52
74 24 0.36
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
CAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGA
CTTGAGGCA
Found at i:46542218 original size:29 final size:28
Alignment explanation
Indices: 46542154--46542218 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
46542144 CTAATAGTGC
* * *
46542154 TATATAT-ATATTAAAGTATGTACGTAA
1 TATATATAATACTAAAATATGTACATAA
46542181 TA-ATAATAATACTAAATATATGTACATAA
1 TATAT-ATAATACTAAA-ATATGTACATAA
46542210 TATATATAA
1 TATATATAA
46542219 AATGAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.06
27 4 0.13
28 7 0.23
29 16 0.52
30 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (28 bp):
TATATATAATACTAAAATATGTACATAA
Found at i:46542258 original size:31 final size:31
Alignment explanation
Indices: 46542223--46542310 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
46542213 ATATAAAATG
46542223 AACATATACAATATATATTAGAAATACTA-AT
1 AACATATACAATATATATTA-AAATACTACAT
* *
46542254 AACATAAATAATATATATTAATAATACTACAT
1 AACATATACAATATATATTAA-AATACTACAT
46542286 AA-ATATGTAC-ATATATATTAAAATA
1 AACATA--TACAATATATATTAAAATA
46542311 AATGCATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.02
31 32 0.65
32 15 0.31
33 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (31 bp):
AACATATACAATATATATTAAAATACTACAT
Found at i:46542375 original size:23 final size:22
Alignment explanation
Indices: 46542286--46542479 Score: 137
Period size: 25 Copynumber: 8.5 Consensus size: 22
46542276 AATACTACAT
*
46542286 AAATATGTACAT-ATATATT-A
1 AAATATATACATAATATATTAA
* *
46542306 AAATAAATGCATAATAATATTAA
1 AAATATATACATAAT-ATATTAA
* *
46542329 AAGTATATACATAAAATAGCGTTAA
1 AAATATATACATAATATA---TTAA
*
46542354 AAATACATACATAATATAGTTATTA
1 AAATATATACATAATATA-TTA--A
*
46542379 AAATATATACATAATATAAT-A
1 AAATATATACATAATATATTAA
* *
46542400 AAATATATATATGAAATAGTATAAA
1 AAATATATACAT--AATA-TATTAA
46542425 AAATATATA-ACTAATAATATTAA
1 AAATATATACA-TAAT-ATATTAA
* *
46542448 AAATATATGCATAATAT-GTATA
1 AAATATATACATAATATATTA-A
46542470 AAATATATAC
1 AAATATATAC
46542480 CTATATACCT
Statistics
Matches: 139, Mismatches: 19, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
20 9 0.06
21 16 0.12
22 20 0.14
23 40 0.29
24 6 0.04
25 48 0.35
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATATATACATAATATATTAA
Found at i:46542627 original size:22 final size:23
Alignment explanation
Indices: 46542578--46542651 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
46542568 GGTGTTAGAA
46542578 ATATACAT-ACAATAGTATAAAAGAT
1 ATATACATAACAATA-TAT-AAA-AT
46542603 ATATA-ACTAACAATAT-TAAAAT
1 ATATACA-TAACAATATATAAAAT
* *
46542625 ATATACATAATAATATATAAAAA
1 ATATACATAACAATATATAAAAT
46542648 ATAT
1 ATAT
46542652 GATATTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
22 15 0.35
23 13 0.30
24 2 0.05
25 7 0.16
26 6 0.14
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATATAAAAT
Found at i:46542657 original size:38 final size:36
Alignment explanation
Indices: 46542615--46542701 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 36
46542605 ATAACTAACA
46542615 ATATTAAAATATATACATAATAATATATAAAAAATAT
1 ATATTAAAATATATACATAA-AATATATAAAAAATAT
* * *
46542652 GATATTAAAAACATATATACATAACATATATGAAATATAT
1 -ATATT--AAA-ATATATACATAAAATATATAAAAAATAT
46542692 ATA-TAAAATA
1 ATATTAAAATA
46542702 GTATTAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
38 6 0.14
39 3 0.07
40 16 0.37
41 12 0.28
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (36 bp):
ATATTAAAATATATACATAAAATATATAAAAAATAT
Found at i:46542690 original size:22 final size:23
Alignment explanation
Indices: 46542664--46542727 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
46542654 TATTAAAAAC
*
46542664 ATATATACATAACATATATGA-A
1 ATATATACATAAAATATATGAGA
* *
46542686 ATATATATATAAAATAGTATTAGA
1 ATATATACATAAAATA-TATGAGA
* *
46542710 ATATTTACATAATATATA
1 ATATATACATAAAATATA
46542728 CATATTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 14 0.41
23 6 0.18
24 14 0.41
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (23 bp):
ATATATACATAAAATATATGAGA
Found at i:46542693 original size:13 final size:13
Alignment explanation
Indices: 46542615--46542701 Score: 60
Period size: 13 Copynumber: 6.9 Consensus size: 13
46542605 ATAACTAACA
46542615 ATAT-TAAAATAT
1 ATATATAAAATAT
*
46542627 ATACATAATAATAT
1 ATATATAA-AATAT
46542641 ATA-A-AAAATAT
1 ATATATAAAATAT
*
46542652 GATAT-TAAAA-AC
1 -ATATATAAAATAT
* *
46542664 ATATAT-ACATAAC
1 ATATATAAAAT-AT
*
46542677 ATATATGAAATAT
1 ATATATAAAATAT
46542690 ATATATAAAATA
1 ATATATAAAATA
46542702 GTATTAGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
11 11 0.18
12 10 0.17
13 28 0.47
14 11 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (13 bp):
ATATATAAAATAT
Found at i:46544549 original size:40 final size:40
Alignment explanation
Indices: 46544484--46544635 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
46544474 TGTGCATGAT
46544484 TAGTCGAATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 TAGT-GAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
46544526 TAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 TAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* * *
46544566 TAGTGACTATATCCGGGCTAAGACCCGAAGGAATTTGTGC
1 TAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* * * *
46544606 GAGTTG-CTATAT-CTGGCTAAATCCCGAAGG
1 TAG-TGAATATATCCGGGCTAAGTCCCGAAGG
46544636 TACTTGGGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
39 15 0.15
40 77 0.75
41 6 0.06
42 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
Found at i:46552552 original size:40 final size:40
Alignment explanation
Indices: 46552491--46552634 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
46552481 TATTCGAATG
*
46552491 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
46552531 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
46552571 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
46552611 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
46552635 CTTGGGTTTG
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.17
40 78 0.81
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:46554045 original size:3 final size:3
Alignment explanation
Indices: 46554039--46554264 Score: 78
Period size: 3 Copynumber: 73.7 Consensus size: 3
46554029 AAACATATAC
* *
46554039 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TGAA -AGA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA
* * *
46554085 AAA GTAA -ATA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG TAA TTAA
1 TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
46554129 -AA TAA T-A TTA TATA TAA -AA T-A TATA TACA TACA TATA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TA-A TA-A TA-A TAA TAA
* * * * * * *
46554172 AACA TACA CTAA GAT TAA TAA TAA TAA TAA TAC TAG CAA TAA CAA TAA
1 TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
46554220 TTAG TAA TAA TAA TACA TTAA GAA -AA -AA TAA AAA TAA AAA TAA TA
1 -TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46554265 GTATTAGACA
Statistics
Matches: 170, Mismatches: 31, Indels: 44
0.69 0.13 0.18
Matches are distributed among these distances:
2 19 0.11
3 114 0.67
4 33 0.19
5 4 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:46556141 original size:27 final size:27
Alignment explanation
Indices: 46556111--46556495 Score: 448
Period size: 27 Copynumber: 14.3 Consensus size: 27
46556101 TTAGTTTACC
*
46556111 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
46556138 AAATTATCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
46556165 AAATTACCAAAATACCCC-GATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
46556191 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
46556218 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
46556245 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
46556272 AAATTACCAAAAATACCATTGGTTTGTA
1 AAATTACC-AAAATACCCCTGGTTTGTA
* * * *
46556300 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
46556327 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
46556354 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
46556381 AAATTACCAAATTACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
46556408 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
46556435 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
46556462 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
46556489 AAATTAC
1 AAATTAC
46556496 TGAAATAGCA
Statistics
Matches: 300, Mismatches: 56, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.07
27 256 0.85
28 23 0.08
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:46556502 original size:54 final size:54
Alignment explanation
Indices: 46556104--46556478 Score: 574
Period size: 54 Copynumber: 6.9 Consensus size: 54
46556094 GAATACTTTA
* *
46556104 GTTTACCAAATTATCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTG
*
46556158 GTTTACAAAATTACCAAAATACCCC-GATTTGTAAAATTACTAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
46556211 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
** *
46556265 GTTTACAAAATTACCAAAAATACCATTGGTTTGTAAAATTACTAGAATACCCTTG
1 GTTTACAAAATTACC-AAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* * * * *
46556320 GTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTA
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* *
46556374 GTTTACAAAATTACCAAATTACCCCTGGTTTGTAAAATTACTAAAATACCCTTT
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* * *
46556428 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
46556479 CTGATTTGTG
Statistics
Matches: 293, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 50 0.17
54 194 0.66
55 49 0.17
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
Found at i:46556518 original size:81 final size:80
Alignment explanation
Indices: 46556111--46556561 Score: 420
Period size: 81 Copynumber: 5.6 Consensus size: 80
46556101 TTAGTTTACC
* * * ** *
46556111 AAATTATCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
*
46556176 ATACCCCGATTTGTA
66 ATACCTCGATTTGTA
* * **
46556191 AAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* * **
46556256 ATACCCTTGGTTTACA
66 ATA-CCTCGATTTGTA
** * * * * * *
46556272 AAATTACCAAAAATACCATTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACC-AAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAA
* *
46556337 AATACCCCTAGTTTGTA
65 AATACCTCGA-TTTGTA
* * ** *
46556354 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAATTACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* *
46556419 ATACCCTTTG-TTTATA
66 ATA-CC-TCGATTTGTA
* * * *
46556435 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* **
46556500 ATAGCATCGACCTGTA
66 ATA-CCTCGATTTGTA
*** ** *
46556516 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCCT
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCT
46556562 AATTTATAGA
Statistics
Matches: 298, Mismatches: 66, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
80 64 0.21
81 169 0.57
82 65 0.22
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
ATACCTCGATTTGTA
Found at i:46556614 original size:27 final size:27
Alignment explanation
Indices: 46556111--46556616 Score: 360
Period size: 27 Copynumber: 18.7 Consensus size: 27
46556101 TTAGTTTACC
* *
46556111 AAATTA-TCAAAATACCCCTGGTTTGTA
1 AAATTACT-AAAATACCCTTGATTTGTA
* **
46556138 AAATTA-TCAAAATACCCTTGGTTTACA
1 AAATTACT-AAAATACCCTTGATTTGTA
* *
46556165 AAATTACCAAAATACCC-CGATTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* **
46556191 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
46556218 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* **
46556245 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
46556272 AAATTACCAAAAATACCATTGGTTTGTA
1 AAATTA-CTAAAATACCCTTGATTTGTA
* * *
46556300 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACTAAAATACCCTTGATTTGTA
* * *
46556327 AAATCACCAAAATACCCCT-AGTTTGTA
1 AAATTACTAAAATACCCTTGA-TTTGTA
* **
46556354 AAATTACCAAAATACCCTT-AGTTTACA
1 AAATTACTAAAATACCCTTGA-TTTGTA
* * * *
46556381 AAATTACCAAATTACCCCTGGTTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
*
46556408 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACTAAAATACCC-TTGATTTGTA
* *
46556435 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACTAAAATACCCTTGA-TTTGTA
* * *
46556462 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACTAAAATACCCTTGATTTGTA
* * * * **
46556489 AAATTACTGAAATAGCATCGACCTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* * * *
46556516 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTTGATTTGTA
* * * * *
46556543 AAATTACCAAAGTACCCCTAATTTATA
1 AAATTACTAAAATACCCTTGATTTGTA
* **** *
46556570 GAATTACTGTTTTACCCTTGATTTATA
1 AAATTACTAAAATACCCTTGATTTGTA
*
46556597 AAATTACTGAAATACCCTTG
1 AAATTACTAAAATACCCTTG
46556617 TAGGGTAGAA
Statistics
Matches: 384, Mismatches: 86, Indels: 18
0.79 0.18 0.04
Matches are distributed among these distances:
26 22 0.06
27 336 0.88
28 26 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTTGATTTGTA
Found at i:46556635 original size:27 final size:27
Alignment explanation
Indices: 46556598--46556871 Score: 374
Period size: 27 Copynumber: 10.3 Consensus size: 27
46556588 TGATTTATAA
* *
46556598 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46556625 AAATACCGAAATA-CCCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46556651 AATTACCGAAATACCCCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46556678 AATTACCGAAATACCCCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
46556705 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
46556732 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
46556759 AATTATCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
46556786 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
46556813 AATTACTAAAATA-CCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
46556839 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
46556865 AATTACC
1 AATTACC
46556872 ATTTTGCCTA
Statistics
Matches: 224, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
26 59 0.26
27 165 0.74
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:46556886 original size:30 final size:30
Alignment explanation
Indices: 46556850--46556909 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
46556840 ATTATCGAGA
46556850 TACCTTGTGGGGTAAAATTACCATTTTGCC
1 TACCTTGTGGGGTAAAATTACCATTTTGCC
46556880 TACCTTGTGGGGTAAAATTACCATTTTGCC
1 TACCTTGTGGGGTAAAATTACCATTTTGCC
46556910 CCTAAGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (30 bp):
TACCTTGTGGGGTAAAATTACCATTTTGCC
Found at i:46557380 original size:22 final size:22
Alignment explanation
Indices: 46557328--46557381 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
46557318 TTAAAGCCTT
* **
46557328 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTACCAAC
*
46557350 CT-ACATATGGCTCTGTACCAAC
1 CTGA-TTATGGCTCTGTACCAAC
46557372 CTGATTATGG
1 CTGATTATGG
46557382 TTGTGTGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTACCAAC
Found at i:46557392 original size:22 final size:21
Alignment explanation
Indices: 46557328--46557392 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
46557318 TTAAAGCCTT
*
46557328 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGG-TTTGTGCCAAC
* * *
46557350 CT-ACATATGGCTCTGTACCAAC
1 CTGA-TTATGG-TTTGTGCCAAC
46557372 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTT-TGTGCCAA
46557393 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGATTATGGTTTGTGCCAAC
Found at i:46557578 original size:27 final size:26
Alignment explanation
Indices: 46557548--46557648 Score: 103
Period size: 27 Copynumber: 3.8 Consensus size: 26
46557538 TTCTATTAAA
* * *
46557548 TGGCTTTGCCACATTATCTATTTCTGG
1 TGGCTATGCCACAATATCT-GTTCTGG
46557575 TGGCTATGCCACAAATATCTGTTCTGG
1 TGGCTATGCCAC-AATATCTGTTCTGG
* *
46557602 TGGCTCTGCCACAATATTTGTATCTGG
1 TGGCTATGCCACAATATCTGT-TCTGG
* * *
46557629 TGACTCTGTCACAATATCTG
1 TGGCTATGCCACAATATCTG
46557649 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.78
28 6 0.09
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TGGCTATGCCACAATATCTGTTCTGG
Found at i:46557823 original size:6 final size:6
Alignment explanation
Indices: 46557785--46557895 Score: 57
Period size: 6 Copynumber: 17.8 Consensus size: 6
46557775 TTGCATTCAC
* * *
46557785 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTC-G
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
46557834 GTTACCTG ATACTG ATTTTG ATTCTA ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
46557885 ATTCTG ATTCT
1 ATTCTG ATTCT
46557896 AGTTTTGATA
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
5 6 0.08
6 56 0.73
7 11 0.14
8 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46557831 original size:31 final size:31
Alignment explanation
Indices: 46557785--46557895 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
46557775 TTGCATTCAC
*
46557785 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
46557817 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
46557848 ATTTTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
46557879 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
46557896 AGTTTTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
31 62 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:46558702 original size:29 final size:29
Alignment explanation
Indices: 46558625--46558688 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
46558615 TAGGTTTAGT
*
46558625 TTGGGTTTGAAGATGGGTTAAATGGGTAA
1 TTGGGTTTGAGGATGGGTTAAATGGGTAA
*
46558654 TTGGGTTTGAGGATAGGTTAAATGGGTAA
1 TTGGGTTTGAGGATGGGTTAAATGGGTAA
46558683 TTGGGT
1 TTGGGT
46558689 CTTGTTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (29 bp):
TTGGGTTTGAGGATGGGTTAAATGGGTAA
Found at i:46559355 original size:13 final size:13
Alignment explanation
Indices: 46559337--46559372 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
46559327 ATGAGTTGAT
46559337 TTTTGAAAACAGA
1 TTTTGAAAACAGA
46559350 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
46559364 TTTTGAAAA
1 TTTTGAAAA
46559373 TACCTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:46559562 original size:75 final size:76
Alignment explanation
Indices: 46559392--46559740 Score: 334
Period size: 75 Copynumber: 4.5 Consensus size: 76
46559382 ATGTGACCCA
*
46559392 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATT-AAAATAAAACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AAACATAAATTGAAAAT--AACC
* *
46559456 TCAGTGTGTGATCTG
62 TCAGTGCGTGATTTG
* * * *
46559471 AAGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAATCATAAAGTGAAAAT-ACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATAACCTCAG
46559535 TGCGTGATTTG
66 TGCGTGATTTG
* * **
46559546 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGGAAACAAAAATTGAAAAATAGAATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTG-AAAAT--AACCT
* * * *
46559609 GAAAATACCTCGGCATGTCTG
63 --CAGTGCGT--G-AT-T-TG
* * *
46559630 AGGTTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAACATAAATTGAGAAT-ACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAACATAAATTGAAAATAACCTCA
*
46559694 GT--GTGACTTG
65 GTGCGTGATTTG
*
46559704 AGGCTCAACTCCCCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46559741 GAAAGACAGA
Statistics
Matches: 222, Mismatches: 33, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
73 19 0.09
74 36 0.16
75 47 0.21
76 1 0.00
77 12 0.05
78 5 0.02
79 42 0.19
81 3 0.01
82 2 0.01
83 3 0.01
84 32 0.14
86 4 0.02
87 16 0.07
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATAACCTCAG
TGCGTGATTTG
Found at i:46559763 original size:73 final size:72
Alignment explanation
Indices: 46559628--46559786 Score: 187
Period size: 73 Copynumber: 2.2 Consensus size: 72
46559618 TCGGCATGTC
* * *
46559628 TGAGGTTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTGAAACATAAATTGAGAATACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAACAGAAATTGAGAATACCTC
**
46559693 AGTGTGACT
64 AACGTGACT
*
46559702 TGAGGCTCAACTCCCCTCTCGCAATATGAGTTGA-TTTTTGAAAGACAGAAATTGTA-AATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AA-ACAGAAATTG-AGAATACCT
*
46559765 CAACGTGTCT
63 CAACGTGACT
*
46559775 TGAGGCTTAACT
1 TGAGGCTCAACT
46559787 TCTATATGCC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
71 6 0.08
72 2 0.03
73 34 0.46
74 32 0.43
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (72 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACAGAAATTGAGAATACCTCAA
CGTGACT
Found at i:46562100 original size:29 final size:28
Alignment explanation
Indices: 46562036--46562100 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
46562026 CTAATAGTGC
* * *
46562036 TATATAT-ATATTAAAGTATGTACGTAA
1 TATATATAATACTAAAATATGTACATAA
46562063 TA-ATAATAATACTAAATATATGTACATAA
1 TATAT-ATAATACTAAA-ATATGTACATAA
46562092 TATATATAA
1 TATATATAA
46562101 AATGAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.06
27 4 0.13
28 7 0.23
29 16 0.52
30 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (28 bp):
TATATATAATACTAAAATATGTACATAA
Found at i:46562140 original size:31 final size:31
Alignment explanation
Indices: 46562105--46562192 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
46562095 ATATAAAATG
46562105 AACATATACAATATATATTAGAAATACTA-AT
1 AACATATACAATATATATTA-AAATACTACAT
* *
46562136 AACATAAATAATATATATTAATAATACTACAT
1 AACATATACAATATATATTAA-AATACTACAT
46562168 AA-ATATGTAC-ATATATATTAAAATA
1 AACATA--TACAATATATATTAAAATA
46562193 AATGCATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.02
31 32 0.65
32 15 0.31
33 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (31 bp):
AACATATACAATATATATTAAAATACTACAT
Found at i:46562226 original size:23 final size:22
Alignment explanation
Indices: 46562168--46562288 Score: 83
Period size: 23 Copynumber: 5.5 Consensus size: 22
46562158 AATACTACAT
* *
46562168 AAATATGTACAT--ATATATTA
1 AAATATATACATAAATATAATA
* *
46562188 AAATAAATGCAT-AATATAATA
1 AAATATATACATAAATATAATA
46562209 AAATATATACATGAAATAGT-ATA
1 AAATATATACAT-AAATA-TAATA
* *
46562232 AAATATATATA-ACTAATAATATTAA
1 AAATATATACATA--AAT-ATAAT-A
46562257 AAATATATACAT-AATATATATA
1 AAATATATACATAAATATA-ATA
46562279 AAATATATAC
1 AAATATATAC
46562289 CTATATACCT
Statistics
Matches: 80, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
20 9 0.11
21 18 0.22
22 14 0.17
23 25 0.31
24 3 0.04
25 11 0.14
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (22 bp):
AAATATATACATAAATATAATA
Found at i:46562521 original size:13 final size:13
Alignment explanation
Indices: 46562450--46562527 Score: 56
Period size: 14 Copynumber: 6.0 Consensus size: 13
46562440 TATAACTAAC
46562450 TATAT-TAAAATA
1 TATATATAAAATA
*
46562462 TATACATAATAATA
1 TATATATAA-AATA
46562476 TATA-A-AAAATA
1 TATATATAAAATA
*
46562487 TGATAT-TAAAAACAA
1 T-ATATAT-AAAA-TA
* *
46562502 CATATATGAAATA
1 TATATATAAAATA
46562515 TATATATAAAATA
1 TATATATAAAATA
46562528 GTATTAGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
11 5 0.10
12 9 0.18
13 16 0.31
14 19 0.37
15 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (13 bp):
TATATATAAAATA
Found at i:46564057 original size:29 final size:29
Alignment explanation
Indices: 46564014--46564077 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
46564004 TAGGTTTAGT
*
46564014 TTGGGTTTGAAGATGGGTTAAATGGGTAA
1 TTGGGTTTGAAGATGGGTTAAATCGGTAA
* * *
46564043 TTGGTTTTGAGGATGGGTTAAATCGGTAT
1 TTGGGTTTGAAGATGGGTTAAATCGGTAA
46564072 TTGGGT
1 TTGGGT
46564078 CTTGTTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.38, T:0.39
Consensus pattern (29 bp):
TTGGGTTTGAAGATGGGTTAAATCGGTAA
Found at i:46567084 original size:43 final size:43
Alignment explanation
Indices: 46567036--46567163 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
46567026 TAGGATTTCT
46567036 GATATGTGATTACATGTAAGACCATGTCTGGGAAGTTGGCATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGAAGTTGGCATC
* * ** *
46567079 GATATGTGATTACGTGTAAGACCCTGTCTTTGACAG-TGGCATT
1 GATATGTGATTACATGTAAGACCATGTCTGGGA-AGTTGGCATC
* * *
46567122 GATATGTGATTACATGTAACACCACGTCTGGGACGTTGGCAT
1 GATATGTGATTACATGTAAGACCATGTCTGGGAAGTTGGCAT
46567164 TGTACGATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.96
44 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCATGTCTGGGAAGTTGGCATC
Found at i:46569384 original size:77 final size:77
Alignment explanation
Indices: 46569257--46569418 Score: 279
Period size: 77 Copynumber: 2.1 Consensus size: 77
46569247 GTTAAAACTC
* *
46569257 TCTTGTTTCAAAGGAATACAATATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTTGAA
1 TCTTGATTCAAAGGAATACAATATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
46569322 ACTACGATCAAT
66 ACTACGATCAAT
* *
46569334 TCTTGATTCAAAGGAATACAGTATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGTA
1 TCTTGATTCAAAGGAATACAATATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
*
46569399 GCTACGATCAAT
66 ACTACGATCAAT
46569411 TCTTGATT
1 TCTTGATT
46569419 TCCAAAAACT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (77 bp):
TCTTGATTCAAAGGAATACAATATCACATCCAGCACGTTAGGACACGATCCTTTAAACCCTCGAA
ACTACGATCAAT
Done.