Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 238 of 333
Found at i:78555864 original size:13 final size:13
Alignment explanation
Indices: 78555848--78555880 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
78555838 TTTAATTAAA
*
78555848 TTAGTTAATTAGT
1 TTAGATAATTAGT
78555861 TTAGATAATTAGT
1 TTAGATAATTAGT
78555874 TTA-ATAA
1 TTAGATAA
78555881 ACAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:78559559 original size:49 final size:47
Alignment explanation
Indices: 78559338--78559600 Score: 400
Period size: 47 Copynumber: 5.6 Consensus size: 47
78559328 CCCTTCGGGA
* * * * * *
78559338 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78559385 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78559432 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78559479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78559526 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78559575 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
78559601 CACAATTATC
Statistics
Matches: 198, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 151 0.76
49 47 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78567852 original size:8 final size:8
Alignment explanation
Indices: 78567804--78567863 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
78567794 AGCCGGCAGC
78567804 AAAGAAGAA
1 AAAG-AGAA
78567813 AAAGA-AA
1 AAAGAGAA
78567820 ATAAGAGAA
1 A-AAGAGAA
* *
78567829 GAAG-GAT
1 AAAGAGAA
*
78567836 AAAGCGAA
1 AAAGAGAA
78567844 AAAGAGAA
1 AAAGAGAA
78567852 AAAG-GAA
1 AAAGAGAA
78567859 AAAGA
1 AAAGA
78567864 AAGAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
7 15 0.36
8 21 0.50
9 6 0.14
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAGAGAA
Found at i:78567861 original size:15 final size:16
Alignment explanation
Indices: 78567804--78567863 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
78567794 AGCCGGCAGC
78567804 AAAGAAGAAAAAGA-AA
1 AAAG-AGAAAAAGAGAA
* *
78567820 ATAAGAGAAGAAG-GAT
1 A-AAGAGAAAAAGAGAA
*
78567836 AAAGCGAAAAAGAGAA
1 AAAGAGAAAAAGAGAA
78567852 AAAG-GAAAAAGA
1 AAAGAGAAAAAGA
78567864 AAGAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 17 0.47
16 16 0.44
17 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAAAGAGAA
Found at i:78572288 original size:28 final size:27
Alignment explanation
Indices: 78572256--78572323 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
78572246 TTCACCACAG
*
78572256 GCTATTCTTTTCAAAGTTTGCCACAAA
1 GCTATTCTTTTCAAAGTTCGCCACAAA
*
78572283 TGCTATTCTTTTCATAGTTCGCCACAAA
1 -GCTATTCTTTTCAAAGTTCGCCACAAA
78572311 GACTATTCTTTTC
1 G-CTATTCTTTTC
78572324 TGTCGTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (27 bp):
GCTATTCTTTTCAAAGTTCGCCACAAA
Found at i:78574292 original size:19 final size:19
Alignment explanation
Indices: 78574268--78574306 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
78574258 AGAAGCTAAG
78574268 AGATAACTTTTCGAACGCT
1 AGATAACTTTTCGAACGCT
78574287 AGATAACTTTTCGAACGCT
1 AGATAACTTTTCGAACGCT
78574306 A
1 A
78574307 TGAAGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (19 bp):
AGATAACTTTTCGAACGCT
Found at i:78578643 original size:13 final size:13
Alignment explanation
Indices: 78578625--78578651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78578615 TTTTAAAATA
78578625 TGAAAAATAAAAG
1 TGAAAAATAAAAG
78578638 TGAAAAATAAAAG
1 TGAAAAATAAAAG
78578651 T
1 T
78578652 ATAAGGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (13 bp):
TGAAAAATAAAAG
Found at i:78585938 original size:10 final size:11
Alignment explanation
Indices: 78585919--78585951 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
78585909 TTATTTAGTT
78585919 TAATTATAATA
1 TAATTATAATA
78585930 TAA-TATAATA
1 TAATTATAATA
78585940 TAATTATAATA
1 TAATTATAATA
78585951 T
1 T
78585952 TTTCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTATAATA
Found at i:78597175 original size:19 final size:20
Alignment explanation
Indices: 78597138--78597174 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
78597128 TGGTAATGTT
78597138 AATGTTTTAATTGAATTTTG
1 AATGTTTTAATTGAATTTTG
78597158 AATG-TTTAATTG-ATTTT
1 AATGTTTTAATTGAATTTT
78597175 TATGTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (20 bp):
AATGTTTTAATTGAATTTTG
Found at i:78604103 original size:4 final size:4
Alignment explanation
Indices: 78604087--78604138 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
78604077 AATAAAAGAT
* * * * * *
78604087 CATA CAAA CATA CATA CATA CATG CATG CATG CATG CATA CATA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
78604135 CATA
1 CATA
78604139 TATCTGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.21
Consensus pattern (4 bp):
CATA
Found at i:78605356 original size:20 final size:18
Alignment explanation
Indices: 78605309--78605357 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
78605299 TTCAATTATG
78605309 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
78605326 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
78605346 ATTAAATTAATA
1 ATTAAATTAATA
78605358 ATGTAACACC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:78614052 original size:56 final size:56
Alignment explanation
Indices: 78613949--78614055 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
78613939 TTACATGTAA
* * *
78613949 TCACATATCGATGCCACTGTCCCAGACAGTGTCTTACTTACATACATATATTGGAG
1 TCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATATTGGAG
* *
78614005 TCACATATCGATGCCACTGTCCCTGACAGGGTCTTACTCGCACACATATAT
1 TCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATAT
78614056 CTATGCCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (56 bp):
TCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATATTGGAG
Found at i:78616163 original size:19 final size:20
Alignment explanation
Indices: 78616139--78616180 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
78616129 TTCGACCAGT
*
78616139 TTTTGGG-TCTTGGTCTCAA
1 TTTTGGGCTCTTGGCCTCAA
78616158 TTTTGGGCTCTTGGCCTCAA
1 TTTTGGGCTCTTGGCCTCAA
78616178 TTT
1 TTT
78616181 AAGATCTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.48
Consensus pattern (20 bp):
TTTTGGGCTCTTGGCCTCAA
Found at i:78617422 original size:36 final size:36
Alignment explanation
Indices: 78617375--78617446 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
78617365 TCTTCAGTTT
* * *
78617375 GAACTTAGGCAATCTATGAGCTAATATTTGCTTGTC
1 GAACTTAGGCAATCAATAACCTAATATTTGCTTGTC
78617411 GAACTTAGGCAATCAATAACCTAATATTTGCTTGTC
1 GAACTTAGGCAATCAATAACCTAATATTTGCTTGTC
78617447 ACAATTTCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (36 bp):
GAACTTAGGCAATCAATAACCTAATATTTGCTTGTC
Found at i:78618090 original size:21 final size:21
Alignment explanation
Indices: 78618061--78618118 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
78618051 ATTTTTAGAC
*
78618061 TTTAGTTTTTAGGATTTTATT
1 TTTAATTTTTAGGATTTTATT
* ** **
78618082 TTTATTTTTTATTACATTATT
1 TTTAATTTTTAGGATTTTATT
78618103 TTTAATTTTTAGGATT
1 TTTAATTTTTAGGATT
78618119 GGGTTGGATT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTAATTTTTAGGATTTTATT
Found at i:78619302 original size:39 final size:40
Alignment explanation
Indices: 78619245--78619331 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
78619235 TATTTGGCTA
* *
78619245 AATAAATTTATTTGTTAAA-AAATTTATCATACAT-ATAAAT
1 AATAATTTTAATTGTTAAATAAATTTAT-ATA-ATAATAAAT
*
78619285 AATAATTTTAATT-TTAAATGAATTTATATAATAATAAAT
1 AATAATTTTAATTGTTAAATAAATTTATATAATAATAAAT
*
78619324 AAAAATTT
1 AATAATTT
78619332 AAAATTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.05
39 21 0.51
40 18 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (40 bp):
AATAATTTTAATTGTTAAATAAATTTATATAATAATAAAT
Found at i:78630106 original size:55 final size:55
Alignment explanation
Indices: 78630029--78630141 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
78630019 TTATTAAAGA
78630029 GAATGTTTCTTAGGGTTAATATAGGATATCGCAGGGAGCCCAGCCTACTTAAAAT
1 GAATGTTTCTTAGGGTTAATATAGGATATCGCAGGGAGCCCAGCCTACTTAAAAT
78630084 GAATGTTTCTTAGGGTTAATATAGGATATCGCAGGGAGCCCAGCCTACTTAAAAT
1 GAATGTTTCTTAGGGTTAATATAGGATATCGCAGGGAGCCCAGCCTACTTAAAAT
78630139 GAA
1 GAA
78630142 AAAAATTTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
GAATGTTTCTTAGGGTTAATATAGGATATCGCAGGGAGCCCAGCCTACTTAAAAT
Found at i:78630764 original size:17 final size:17
Alignment explanation
Indices: 78630742--78630774 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78630732 CATTCAAAAG
*
78630742 ATGTAGTAAAAAATGTT
1 ATGTAGCAAAAAATGTT
78630759 ATGTAGCAAAAAATGT
1 ATGTAGCAAAAAATGT
78630775 CAATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.30
Consensus pattern (17 bp):
ATGTAGCAAAAAATGTT
Found at i:78631201 original size:97 final size:97
Alignment explanation
Indices: 78631092--78631289 Score: 267
Period size: 97 Copynumber: 2.0 Consensus size: 97
78631082 TTAATTCATC
* *
78631092 TTTTTAATTAAT-AACTCTTTTATTTATATAAATAAAGTAA-AGA-AATTTAATTATATAATAAA
1 TTTTTAATTAATAAATTC-TTTATTTATATAAATAAAGTAATA-ATAATATAATTATATAATAAA
78631154 ATATAATTTATATATATATCATTATGTTAAAAATA
64 A-ATAATTTATATATATATCATTATGTTAAAAATA
* * *
78631189 TTTTTAATTAATAAATTCTTTATTTATGTAAATAAATTAATAATTATATAATTATATAATAAAAA
1 TTTTTAATTAATAAATTCTTTATTTATATAAATAAAGTAATAATAATATAATTATATAATAAAAA
* * * *
78631254 TATTTTTTATATTTATCATTATGTTGAAAATA
66 TAATTTATATATATATCATTATGTTAAAAATA
78631286 TTTT
1 TTTT
78631290 ATTTCTTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
97 66 0.74
98 23 0.26
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (97 bp):
TTTTTAATTAATAAATTCTTTATTTATATAAATAAAGTAATAATAATATAATTATATAATAAAAA
TAATTTATATATATATCATTATGTTAAAAATA
Found at i:78641692 original size:3 final size:3
Alignment explanation
Indices: 78641652--78641748 Score: 72
Period size: 3 Copynumber: 32.7 Consensus size: 3
78641642 GTATAAGAGA
* * * * * * * *
78641652 AAT AAT AGT AAT ATT AAT ACT AAC GAT AAT AGT AAT AAT AAT AAC CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
78641700 AAT AAT AAT AGT AA- ACT AAT AAT AAT ATTT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
78641744 AAT AA
1 AAT AA
78641749 CATAAAATTG
Statistics
Matches: 69, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
2 3 0.04
3 64 0.93
4 2 0.03
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:78641816 original size:29 final size:29
Alignment explanation
Indices: 78641760--78641824 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
78641750 ATAAAATTGC
*
78641760 TAAAATATGGGCTAAATCGAAATAAAAACA
1 TAAAATATGGGCAAAATCGAAATAAAAA-A
* *
78641790 -AAAATATAGGGCAAAATTGAAA-GAAAAA
1 TAAAATAT-GGGCAAAATCGAAATAAAAAA
78641818 TAAAATA
1 TAAAATA
78641825 AAAGGGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.57
30 12 0.40
ACGTcount: A:0.62, C:0.06, G:0.14, T:0.18
Consensus pattern (29 bp):
TAAAATATGGGCAAAATCGAAATAAAAAA
Found at i:78642566 original size:10 final size:10
Alignment explanation
Indices: 78642553--78642591 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
78642543 AAAAACAACA
*
78642553 AAAATAAAAT
1 AAAATAAAAG
78642563 AAAATAAAAGG
1 AAAATAAAA-G
78642574 AAAAT-AAAG
1 AAAATAAAAG
78642583 AAAATAAAA
1 AAAATAAAA
78642592 ACGCAAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 6 0.23
10 15 0.58
11 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:78642592 original size:21 final size:21
Alignment explanation
Indices: 78642553--78642591 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
78642543 AAAAACAACA
*
78642553 AAAATAAAATAAAATAAAAGG
1 AAAATAAAAGAAAATAAAAGG
78642574 AAAAT-AAAGAAAATAAAA
1 AAAATAAAAGAAAATAAAA
78642592 ACGCAAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (21 bp):
AAAATAAAAGAAAATAAAAGG
Found at i:78643964 original size:17 final size:17
Alignment explanation
Indices: 78643944--78643998 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
78643934 AAAAATCAAA
78643944 AAAAATTAAAAATAATT
1 AAAAATTAAAAATAATT
*
78643961 AAAAATAAAAAAGTAA-T
1 AAAAATTAAAAA-TAATT
*
78643978 AGAAA-T-AAAAT-ATT
1 AAAAATTAAAAATAATT
78643992 AAAAATT
1 AAAAATT
78643999 TATTTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 1 0.03
14 6 0.19
15 5 0.16
17 16 0.52
18 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAATTAAAAATAATT
Found at i:78644026 original size:9 final size:9
Alignment explanation
Indices: 78644012--78644139 Score: 87
Period size: 10 Copynumber: 13.2 Consensus size: 9
78644002 TTAAACCTAC
78644012 AAAAATTAT
1 AAAAATTAT
78644021 AAAAATTCAT
1 AAAAATT-AT
78644031 AAAAACTTAT
1 AAAAA-TTAT
* *
78644041 AAATATTTT
1 AAAAATTAT
*
78644050 ATAAATTAT
1 AAAAATTAT
78644059 AAAAATAATTAT
1 --AAA-AATTAT
*
78644071 AAAAAATA-
1 AAAAATTAT
*
78644079 AAACATATTAA
1 AAA-A-ATTAT
78644090 AAATAATTAT
1 AAA-AATTAT
78644100 AAAAATTAT
1 AAAAATTAT
* *
78644109 AATAAGTTCT
1 AA-AAATTAT
78644119 AATAAATTAT
1 AA-AAATTAT
*
78644129 ATAAATTAT
1 AAAAATTAT
78644138 AA
1 AA
78644140 TTTTTAATAA
Statistics
Matches: 94, Mismatches: 16, Indels: 18
0.73 0.12 0.14
Matches are distributed among these distances:
8 3 0.03
9 37 0.39
10 40 0.43
11 8 0.09
12 6 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:78644036 original size:29 final size:28
Alignment explanation
Indices: 78644004--78644063 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
78643994 AAATTTATTT
78644004 AAACCTACAAAAATTATAAAAATTCATAA
1 AAACCTACAAAAATTATAAAAATT-ATAA
* * * * *
78644033 AAACTTATAAATATTTTATAAATTATAA
1 AAACCTACAAAAATTATAAAAATTATAA
78644061 AAA
1 AAA
78644064 TAATTATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (28 bp):
AAACCTACAAAAATTATAAAAATTATAA
Found at i:78644058 original size:18 final size:19
Alignment explanation
Indices: 78644012--78644139 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 19
78644002 TTAAACCTAC
78644012 AAAAATTATAAAAATTCAT
1 AAAAATTATAAAAATTCAT
* *
78644031 AAAAACTTATAAATATT-TT
1 AAAAA-TTATAAAAATTCAT
* *
78644050 ATAAATTATAAAAATAATTAT
1 AAAAATTATAAAAAT--TCAT
* *
78644071 AAAAA--ATAAAACATATTAA
1 AAAAATTATAAAA-AT-TCAT
78644090 AAATAATTATAAAAATT-AT
1 AAA-AATTATAAAAATTCAT
* *
78644109 AATAAGTTCTAATAAATT-AT
1 AA-AAATTATAA-AAATTCAT
*
78644129 ATAAATTATAA
1 AAAAATTATAA
78644140 TTTTTAATAA
Statistics
Matches: 86, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
18 9 0.10
19 39 0.45
20 25 0.29
21 7 0.08
22 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTATAAAAATTCAT
Found at i:78644070 original size:12 final size:12
Alignment explanation
Indices: 78644053--78644105 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
78644043 ATATTTTATA
78644053 AATTATAAAAAT
1 AATTATAAAAAT
78644065 AATTATAAAAAAT
1 AATTAT-AAAAAT
*
78644078 AAAACATATTAAAAAT
1 --AA-TTA-TAAAAAT
78644094 AATTATAAAAAT
1 AATTATAAAAAT
78644106 TATAATAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 13 0.38
13 8 0.24
14 2 0.06
15 2 0.06
16 8 0.24
17 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AATTATAAAAAT
Found at i:78644147 original size:26 final size:27
Alignment explanation
Indices: 78644094--78644161 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
78644084 TATTAAAAAT
78644094 AATTATAAAAATTATAATAAGTTCTAATA
1 AATTATAAAAATTATAAT-A-TTCTAATA
* *
78644123 AATTATATAAATTATAAT-TTTTAATAA
1 AATTATAAAAATTATAATATTCTAAT-A
*
78644150 AATTAAAAAAAT
1 AATTATAAAAAT
78644162 ATGTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 6 0.18
27 11 0.32
29 17 0.50
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
AATTATAAAAATTATAATATTCTAATA
Found at i:78645643 original size:21 final size:21
Alignment explanation
Indices: 78645622--78645660 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78645612 TTTTATGTTA
*
78645622 AATAA-GGTTATAATAATATT
1 AATAATGGTTAAAATAATATT
78645642 AATAATGGTTAAAATAATA
1 AATAATGGTTAAAATAATA
78645661 AAACATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (21 bp):
AATAATGGTTAAAATAATATT
Found at i:78663448 original size:18 final size:18
Alignment explanation
Indices: 78663425--78663459 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78663415 TACGCCCGCT
78663425 ACTCCCAAGGCGGAGACC
1 ACTCCCAAGGCGGAGACC
*
78663443 ACTCCCACGGCGGAGAC
1 ACTCCCAAGGCGGAGAC
78663460 GGTAAGCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.40, G:0.29, T:0.06
Consensus pattern (18 bp):
ACTCCCAAGGCGGAGACC
Found at i:78670433 original size:18 final size:18
Alignment explanation
Indices: 78670410--78670444 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78670400 ATGCAAATAT
*
78670410 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
78670428 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
78670445 TTTATGAGAT
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:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:78670817 original size:14 final size:14
Alignment explanation
Indices: 78670798--78670839 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
78670788 ATTTTAAAAT
78670798 TATACATAATATAA
1 TATACATAATATAA
*
78670812 TATAC--AATAAAA
1 TATACATAATATAA
*
78670824 TATAAATAATATAA
1 TATACATAATATAA
78670838 TA
1 TA
78670840 GATAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATAATATAA
Found at i:78670846 original size:26 final size:27
Alignment explanation
Indices: 78670792--78670846 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
78670782 TTACAAATTT
* *
78670792 TAAAATTATACATAATATAATATACAA
1 TAAAATTATAAATAATATAATAGACAA
*
78670819 TAAAA-TATAAATAATATAATAGATAA
1 TAAAATTATAAATAATATAATAGACAA
78670845 TA
1 TA
78670847 CAAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAAATTATAAATAATATAATAGACAA
Found at i:78670856 original size:26 final size:26
Alignment explanation
Indices: 78670803--78670857 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
78670793 AAAATTATAC
* *
78670803 ATAATATAATATACAATAAAATATAA
1 ATAATATAATAGACAATAAAATAAAA
*
78670829 ATAATATAATAGATAATACAAA-AAAA
1 ATAATATAATAGACAATA-AAATAAAA
78670855 ATA
1 ATA
78670858 TTTTTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (26 bp):
ATAATATAATAGACAATAAAATAAAA
Found at i:78670912 original size:25 final size:26
Alignment explanation
Indices: 78670884--78670933 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
78670874 AAGTTTAAAG
78670884 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATA-AAAATATT
78670909 TAAAATAAATAAATTATAAAAATAT
1 TAAAATAAATAAATTATAAAAATAT
78670934 GTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 9 0.39
27 4 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAATAAATAAATTATAAAAATATT
Found at i:78672575 original size:90 final size:90
Alignment explanation
Indices: 78672422--78672918 Score: 737
Period size: 90 Copynumber: 5.5 Consensus size: 90
78672412 TAATATCATT
* * *
78672422 GATCTGCTCCTCGTCAAATACAGAGACTCCAAATCTG-CTATCTTCGATCTGCTTCGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
*
78672486 ACATGAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* ** *
78672512 GATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTACCATCTTTGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
78672577 CACGAATGTCAAATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* *
78672602 GATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
78672667 CACGAATGTCAGATCTGCTATATTC
66 CACGAATGTCAGATCTGCTATCTTC
* * * *
78672692 GATCTGCTCCTCGTCTAATACGGAGACACCAAATCTGTCATCTTCGATCTACTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
78672757 CACGAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * *
78672782 GATTTGCTCCCCGTCTAATACGGAGACGCTAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
78672847 TACGAATGTCAGATCTGTTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * * * *
78672872 GATCTGCTCCCCGTTTAATACAAAGATGCCAAATTTG-CTTCTTCGAT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
78672919 TTGTTCCTTG
Statistics
Matches: 370, Mismatches: 36, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
89 9 0.02
90 360 0.97
91 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:78685556 original size:30 final size:30
Alignment explanation
Indices: 78685522--78685584 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
78685512 AAAGATATTA
*
78685522 ATATATATCAAACAATTTTCATATAACTGT
1 ATATATATCAAACAATTTTCATATAACCGT
*
78685552 ATATATATCAAACAATTTTCATTTAACCGT
1 ATATATATCAAACAATTTTCATATAACCGT
78685582 ATA
1 ATA
78685585 AATGTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (30 bp):
ATATATATCAAACAATTTTCATATAACCGT
Found at i:78686235 original size:18 final size:18
Alignment explanation
Indices: 78686212--78686248 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
78686202 GGCGGACGGT
78686212 AGTGGTCCGACGACCGGA
1 AGTGGTCCGACGACCGGA
78686230 AGTGGTCCGACGACCGGA
1 AGTGGTCCGACGACCGGA
78686248 A
1 A
78686249 TCCGGCCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.38, T:0.11
Consensus pattern (18 bp):
AGTGGTCCGACGACCGGA
Found at i:78686938 original size:3 final size:3
Alignment explanation
Indices: 78686932--78687055 Score: 96
Period size: 3 Copynumber: 42.0 Consensus size: 3
78686922 CTTTTGTTTC
* * * *
78686932 TTA TTA TTA TTA TT- TTC TTA CTA TTA TTA TTTA TTA TCA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * *
78686977 TTA TTA TCA TTG CTA TT- TT- TTA TT- TGTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
78687020 TT- TTA CTA GTA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
78687056 CTGTTATTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
2 9 0.09
3 80 0.83
4 7 0.07
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:78698465 original size:18 final size:18
Alignment explanation
Indices: 78698417--78698493 Score: 111
Period size: 18 Copynumber: 4.3 Consensus size: 18
78698407 ATAATCTTCA
*
78698417 ATGATATGCAACCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
78698436 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
78698453 ATAATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
78698471 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
78698489 ATGAT
1 ATGAT
78698494 ATATAATCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
17 14 0.27
18 34 0.65
19 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:78698468 original size:35 final size:36
Alignment explanation
Indices: 78698423--78698490 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
78698413 TTCAATGATA
78698423 TGCAACCTTAGATATGA-TACAATCTTAGATATAAT
1 TGCAACCTTAGATATGATTACAATCTTAGATATAAT
* *
78698458 TGCAATCTTAGATATGATTGCAATCTTAGATAT
1 TGCAACCTTAGATATGATTACAATCTTAGATAT
78698491 GATATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
TGCAACCTTAGATATGATTACAATCTTAGATATAAT
Found at i:78698993 original size:15 final size:14
Alignment explanation
Indices: 78698950--78699001 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
78698940 TTTCTAAACC
*
78698950 AATATATTTTATAT
1 AATATATTTTTTAT
78698964 AAT-TATTATTCTTAT
1 AATATATT-TT-TTAT
78698979 AAATATATTTTTTAT
1 -AATATATTTTTTAT
*
78698994 TATATATT
1 AATATATT
78699002 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 4 0.12
14 12 0.38
15 7 0.22
16 5 0.16
17 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
AATATATTTTTTAT
Found at i:78704932 original size:6 final size:6
Alignment explanation
Indices: 78704923--78704992 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
78704913 AAAAAAAGAA
* * * *
78704923 AAAAAG AAAAAG GAAAA- AAAAGG AAAAAG --AAAG AAAAGG AAAAGG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
78704968 AAAAAG AAAAAAAG AAAAAG AAAAA
1 AAAAAG --AAAAAG AAAAAG AAAAA
78704993 TGGAGAGGCG
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.08
5 3 0.06
6 40 0.75
8 6 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:78704940 original size:16 final size:15
Alignment explanation
Indices: 78704911--78704986 Score: 77
Period size: 16 Copynumber: 5.1 Consensus size: 15
78704901 CTTCTATTTT
78704911 AAAA-AAAAAG-AAA
1 AAAAGAAAAAGAAAA
78704924 AAAAGAAAAAGGAAAA
1 AAAAGAAAAA-GAAAA
78704940 AAAAGGAAAAAGAAAGA
1 AAAA-GAAAAAGAAA-A
* *
78704957 AAAGGAAAAGGAAAA
1 AAAAGAAAAAGAAAA
*
78704972 AGAA-AAAAAGAAAA
1 AAAAGAAAAAGAAAA
78704986 A
1 A
78704987 GAAAAATGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
13 4 0.08
14 15 0.28
15 4 0.08
16 20 0.38
17 10 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:78704950 original size:26 final size:25
Alignment explanation
Indices: 78704911--78704992 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 25
78704901 CTTCTATTTT
78704911 AAAAAAAAAGAAAAAAAGAAAAAGG
1 AAAAAAAAAGAAAAAAAGAAAAAGG
*
78704936 AAAAAAAAGGAAAAAGAA-AGAAAAGG
1 AAAAAAAAAGAAAAA-AAGA-AAAAGG
78704962 AAAAGGAAAAAGAAAAAAAGAAAAA-G
1 AAAA--AAAAAGAAAAAAAGAAAAAGG
78704988 AAAAA
1 AAAAA
78704993 TGGAGAGGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
24 1 0.02
25 15 0.30
26 17 0.34
27 6 0.12
28 11 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAAGAAAAAGG
Found at i:78705953 original size:44 final size:44
Alignment explanation
Indices: 78705905--78706084 Score: 195
Period size: 44 Copynumber: 4.1 Consensus size: 44
78705895 CAAAGAAACA
78705905 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* ** * * * * **
78705949 AGATTTGACATTTCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
78705994 AGCA--TGGCATCCCTATGTTCATAGGGAAC-GAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
*
78706037 AGATTTGGCATCCCTGTATTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
78706081 AGAT
1 AGAT
78706085 CTAACCTTTA
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
42 3 0.03
43 12 0.11
44 75 0.70
45 16 0.15
46 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:78706338 original size:83 final size:83
Alignment explanation
Indices: 78706195--78706620 Score: 701
Period size: 83 Copynumber: 5.1 Consensus size: 83
78706185 GTTCTTAGAC
* *
78706195 ACATAGCAGATTAGACTCTCAGATGTTTTCAAACAGACTCAAGATGGTTTGGCGTCCTTGTGCTT
1 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
78706260 ACAAGGAACAAATCGAGG
66 ACAAGGAACAAATCGAGG
*
78706278 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATTCTTGTGCTT
1 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
78706343 ACAAGGAACAAATCGAGG
66 ACAAGGAACAAATCGAGG
78706361 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
1 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
*
78706426 ACTAGGAACAAATCGAGG
66 ACAAGGAACAAATCGAGG
* * * * * *
78706444 ACATAGCAGATTTGACTCTCAGATGTTCTTAAACAGACTCAAGATGATTTGGTATTCTTGTGTTT
1 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
**
78706509 ACAAAAAACAAATCGAGG
66 ACAAGGAACAAATCGAGG
* * *
78706527 ACATAGCAGATTTGACTCTCAGATGTTCTCAAACAGACTTAAGATGATTTGGCATCCTTGTGCTT
1 ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
78706592 ACAAGGAACAAATCGA-G
66 ACAAGGAACAAATCGAGG
*
78706609 ACATAGCTGATT
1 ACATAGCAGATT
78706621 TGGCTTTCAC
Statistics
Matches: 321, Mismatches: 22, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
82 12 0.04
83 309 0.96
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (83 bp):
ACATAGCAGATTAGACTCTCAGATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTT
ACAAGGAACAAATCGAGG
Found at i:78707418 original size:18 final size:18
Alignment explanation
Indices: 78707389--78707478 Score: 137
Period size: 18 Copynumber: 4.9 Consensus size: 18
78707379 ATAATCTTCA
78707389 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
78707408 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
78707426 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
78707443 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
78707461 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
78707479 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
17 16 0.24
18 34 0.52
19 16 0.24
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:78707430 original size:37 final size:36
Alignment explanation
Indices: 78707389--78707478 Score: 155
Period size: 35 Copynumber: 2.5 Consensus size: 36
78707379 ATAATCTTCA
78707389 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATAT-CAATCTTAGATATGATTGCAATCTTAGAT
78707426 ATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATCAATCTTAGATATGATTGCAATCTTAGAT
78707461 ATGATATACAATCTTAGA
1 ATGATAT-CAATCTTAGA
78707479 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
35 35 0.69
37 16 0.31
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
ATGATATCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:78708003 original size:15 final size:16
Alignment explanation
Indices: 78707960--78708018 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
78707950 CAATATATTT
*
78707960 TATATATTTTATATAA
1 TATATTTTTTATATAA
78707976 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
78707992 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
78708010 TTATATTTT
1 -TATATTTT
78708019 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:78708022 original size:30 final size:29
Alignment explanation
Indices: 78707953--78708027 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
78707943 TCTAAACCAA
78707953 TATATTTT--ATATATTTTATATAATTAT
1 TATATTTTAAATATATTTTATATAATTAT
* *
78707980 TAT-TCTTATAAATATATTTTTTATTATATAT
1 TATAT-TT-TAAATATATTTTATATAAT-TAT
*
78708011 TATATTTTAAATTTATT
1 TATATTTTAAATATATT
78708028 ATTAAATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.03
27 5 0.13
28 1 0.03
30 23 0.59
31 8 0.21
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTTTAAATATATTTTATATAATTAT
Found at i:78708043 original size:26 final size:26
Alignment explanation
Indices: 78707995--78708044 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
78707985 TTATAAATAT
* * * *
78707995 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
78708021 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
78708045 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:78710923 original size:3 final size:3
Alignment explanation
Indices: 78710915--78710944 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
78710905 CACCCAGTTC
78710915 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
78710945 GGTAAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:78713578 original size:28 final size:28
Alignment explanation
Indices: 78713538--78713597 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
78713528 ACTCTTAAGC
78713538 TTAAACATATATTAGCTTGTTTAGAGAA
1 TTAAACATATATTAGCTTGTTTAGAGAA
78713566 TTAAACATATATTAGCTTGTTTAGAGAA
1 TTAAACATATATTAGCTTGTTTAGAGAA
78713594 TTAA
1 TTAA
78713598 GTTCTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (28 bp):
TTAAACATATATTAGCTTGTTTAGAGAA
Found at i:78714664 original size:32 final size:32
Alignment explanation
Indices: 78714623--78714687 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
78714613 TTACTTTCGT
78714623 ACAATGACGACGTAACTCAAATTCACCTTATA
1 ACAATGACGACGTAACTCAAATTCACCTTATA
78714655 ACAATGACGACGTAACTCAAATTCACCTTATA
1 ACAATGACGACGTAACTCAAATTCACCTTATA
78714687 A
1 A
78714688 AAAGTATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (32 bp):
ACAATGACGACGTAACTCAAATTCACCTTATA
Found at i:78716164 original size:118 final size:118
Alignment explanation
Indices: 78715961--78716178 Score: 305
Period size: 118 Copynumber: 1.8 Consensus size: 118
78715951 ATTATATAAT
* * *
78715961 ATATTAATAATTTATATATATGCATCGTTGATTAAACATTATAATATCATATAATATTATATCTT
1 ATATTAATAATTTATATATATGCATCATTGACTAAACATTATAATATCATATAATACTATATCTT
*
78716026 TTATTATAATCTATATTATAATAATAGTTATATATGTATTAATATTTTTAGTA
66 TTATTATAACCTATATTATAATAATAGTTATATATGTATTAATATTTTTAGTA
* * * * * * *
78716079 ATATTAATAGTTTATATATGTGTATCAATT-ACTAAACATTATAATCTTATGTAATACTGTATCT
1 ATATTAATAATTTATATATATGCATC-ATTGACTAAACATTATAATATCATATAATACTATATCT
78716143 TTTATTATAACCTAT-TGTATAATAATAGTTATATAT
65 TTTATTATAACCTATAT-TATAATAATAGTTATATAT
78716179 TATAGTAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 84 0.97
119 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (118 bp):
ATATTAATAATTTATATATATGCATCATTGACTAAACATTATAATATCATATAATACTATATCTT
TTATTATAACCTATATTATAATAATAGTTATATATGTATTAATATTTTTAGTA
Found at i:78716212 original size:17 final size:17
Alignment explanation
Indices: 78716190--78716226 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
78716180 ATAGTAGTAC
78716190 ATTATATATTA-CATATT
1 ATTATATATTATC-TATT
78716207 ATTATATATTATCTATT
1 ATTATATATTATCTATT
78716224 ATT
1 ATT
78716227 GTTTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATATATTATCTATT
Found at i:78718592 original size:43 final size:43
Alignment explanation
Indices: 78718542--78718692 Score: 191
Period size: 43 Copynumber: 3.5 Consensus size: 43
78718532 TATCCCAGAT
* * *
78718542 ATGGTCTTACATTTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * *
78718585 AGGGTCTTACACGTAATCGA-TTAAT-GATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-ACAT-ATCGATGCCAATGTCCTAGAC
*
78718628 ATGGTCTTACATGTAATCACA-ATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCTAGAC
78718671 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
78718693 CTCAGTAACC
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 86 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:78724666 original size:17 final size:17
Alignment explanation
Indices: 78724644--78724676 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78724634 TGTGTATGTG
78724644 AATGAATGTTAATTGAT
1 AATGAATGTTAATTGAT
*
78724661 AATGAATGTTTATTGA
1 AATGAATGTTAATTGA
78724677 GTTGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (17 bp):
AATGAATGTTAATTGAT
Found at i:78731266 original size:56 final size:56
Alignment explanation
Indices: 78731198--78731309 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
78731188 TTATGTTTAT
78731198 TTACTTTTTGTTATTAATTTAATATTATAACTAATATATATTTCAATTAAAAATCC
1 TTACTTTTTGTTATTAATTTAATATTATAACTAATATATATTTCAATTAAAAATCC
78731254 TTACTTTTTGTTATTAATTTAATATTATAACTAATATATATTTCAATTAAAAATCC
1 TTACTTTTTGTTATTAATTTAATATTATAACTAATATATATTTCAATTAAAAATCC
78731310 CCCACTAACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (56 bp):
TTACTTTTTGTTATTAATTTAATATTATAACTAATATATATTTCAATTAAAAATCC
Found at i:78732266 original size:19 final size:19
Alignment explanation
Indices: 78732242--78732305 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
78732232 CAAATTTTAT
78732242 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTG
* *
78732261 AATTTTAAAAATTATTTTT
1 AATTTTTAAAATTATTTTG
*
78732280 TATTTTTGAAAATTATTTTG
1 AATTTTT-AAAATTATTTTG
78732300 -ATTTTT
1 AATTTTT
78732306 TTTTTAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 24 0.63
20 11 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTG
Found at i:78732305 original size:20 final size:20
Alignment explanation
Indices: 78732244--78732306 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
78732234 AATTTTATAA
*
78732244 TTTTTATAAA-TATTTTGA-
1 TTTTTAAAAATTATTTTGAT
* *
78732262 ATTTTAAAAATTATTTT-TT
1 TTTTTAAAAATTATTTTGAT
*
78732281 ATTTTTGAAAATTATTTTGAT
1 -TTTTTAAAAATTATTTTGAT
78732302 TTTTT
1 TTTTT
78732307 TTTTAGAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 20 0.57
21 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAT
Found at i:78735707 original size:40 final size:40
Alignment explanation
Indices: 78735677--78735884 Score: 292
Period size: 40 Copynumber: 5.2 Consensus size: 40
78735667 GGACTAAGAT
* * * *
78735677 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
78735717 CCGAAGGCATTCGCGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
78735757 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
78735797 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
78735837 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78735876 CCGAAGGCA
1 CCGAAGGCA
78735885 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 32 0.21
40 123 0.79
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:78743632 original size:40 final size:40
Alignment explanation
Indices: 78743602--78743810 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
78743592 GGACTAAGAT
* * * *
78743602 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
78743642 CCGAAGGCATTCGCGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
78743682 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
78743722 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * *
78743762 CCGAAGGCATT-GTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
78743800 CCGAAGGCATT
1 CCGAAGGCATT
78743811 GAACGAGGAG
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 22 0.14
39 12 0.08
40 123 0.78
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:78759833 original size:17 final size:16
Alignment explanation
Indices: 78759811--78759853 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
78759801 CAGATAAATT
78759811 AAATTAAATACAATTAA
1 AAATTAAATA-AATTAA
*
78759828 AAATTATTATAAATTAA
1 AAATTA-AATAAATTAA
78759845 AAA-TAAATA
1 AAATTAAATA
78759854 TCTATAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 2 0.09
17 15 0.65
18 3 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTAAATAAATTAA
Found at i:78760520 original size:37 final size:37
Alignment explanation
Indices: 78760413--78760523 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
78760403 AGCTCAGATG
* * *
78760413 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
78760450 AAAGCTCCACACATAGTCATCGGGTCTTCCCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78760487 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
78760524 TAGTCACCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78760534 original size:74 final size:74
Alignment explanation
Indices: 78760413--78760551 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
78760403 AGCTCAGATG
* *
78760413 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACAAAAGCTCCACACATAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAAGCACCACACATAGTCATCGGGTCTT
78760478 CCCCGGACA
66 CCCCGGACA
* * * * * *
78760487 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC-ATAGTCACCACATATGGTCATCTGGTCT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAAG-CACCACACATAGTCATCGGGTCT
78760551 T
65 T
78760552 TAATCCCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 3 0.05
74 53 0.95
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAAGCACCACACATAGTCATCGGGTCTT
CCCCGGACA
Found at i:78760543 original size:37 final size:37
Alignment explanation
Indices: 78760416--78760551 Score: 150
Period size: 37 Copynumber: 3.7 Consensus size: 37
78760406 TCAGATGAAA
* *
78760416 TCTCCACACGA-AGTTATCGGGTCTTACCCGAACAAAAG
1 TCTCCACAC-ATAGTCATCGGGTCTTACCCGGAC-AAAG
* *
78760454 -CTCCACACATAGTCATCGGGTCTTCCCCGGACAAAA
1 TCTCCACACATAGTCATCGGGTCTTACCCGGACAAAG
* *
78760490 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAG
1 TCTCCACACATAGTCATCGGGTCTTACCCGGACAAAG
* * * *
78760527 TCACCACATATGGTCATCTGGTCTT
1 TCTCCACACATAGTCATCGGGTCTT
78760552 TAATCCCAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
36 4 0.05
37 79 0.95
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TCTCCACACATAGTCATCGGGTCTTACCCGGACAAAG
Found at i:78760759 original size:46 final size:46
Alignment explanation
Indices: 78760706--78760842 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
78760696 TATATATACA
* * * *
78760706 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
78760752 CATCTCATACACGTTTCGTATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
78760798 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
78760843 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:78760879 original size:47 final size:47
Alignment explanation
Indices: 78760816--78761104 Score: 389
Period size: 47 Copynumber: 6.1 Consensus size: 47
78760806 ACACATTTCG
* *
78760816 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
78760863 CATTGGCCATTTGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
78760910 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
78760957 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCG
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
78761004 CATTGGCCATTCGGTCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA
* * **
78761055 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
78761102 CAT
1 CAT
78761105 AAAATCCTAA
Statistics
Matches: 217, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 176 0.81
49 2 0.01
51 39 0.18
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:78766185 original size:13 final size:14
Alignment explanation
Indices: 78766153--78766186 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
78766143 ATTGGTTAAA
78766153 AATAATAATAAAATG
1 AATAA-AATAAAATG
78766168 AATAAAATAAAA-G
1 AATAAAATAAAATG
78766181 AATAAA
1 AATAAA
78766187 GGTGTCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 7 0.37
15 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
AATAAAATAAAATG
Found at i:78767314 original size:39 final size:39
Alignment explanation
Indices: 78767270--78767467 Score: 224
Period size: 39 Copynumber: 5.1 Consensus size: 39
78767260 GGCTTTATAA
78767270 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
78767309 TGGTGTTATATCCGGGCTAAGTCTCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
78767348 TAGTGTTATATCCGGGCTAAG-CCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGC
* * * *
78767387 TGGTGTTATATCTGGGCTGAAGTCCTGTAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
** * * *
78767426 TGGAATTGTATCCGGACTTAAGGT-CCGCAGGC-TTCGTGC
1 TGGTGTTATATCCGGGC-TAA-GTCCCGAAGGCATTCGTGC
78767465 TGG
1 TGG
78767468 AATTGTATCT
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 121 0.89
40 11 0.08
41 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:78767438 original size:78 final size:76
Alignment explanation
Indices: 78767278--78767521 Score: 235
Period size: 78 Copynumber: 3.1 Consensus size: 76
78767268 AATGGTGTTA
* *
78767278 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGT-CTCAAAGGCAT
1 TATCCGGGCTAAG-CCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGTCCT-GAAGGC-T
* ** *
78767342 TCGTGCTAGTGTTA
63 TCGTGCTGGAATTG
*
78767356 TATCCGGGCTAAGCCCTGAAGGCATTCGTGCTGGTGTTATATCTGGGCTGAAGTCCTGTAGGCTT
1 TATCCGGGCTAAGCCC-GAAGGCATTCGTGCTGGTGTTATATCTGGGCT-AAGTCCTGAAGGCTT
*
78767421 TGTGCTGGAATTG
64 CGTGCTGGAATTG
* * * ** * *
78767434 TATCCGGACTTAAGGTCCGCAGGC-TTCGTGCTGGAATTGTATCTGGACTTAAGGTCC-GCAA-G
1 TATCCGGGC-TAA-GCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGC-TAA-GTCCTG-AAGG
78767496 CTTCGTGCTGGAATTG
61 CTTCGTGCTGGAATTG
78767512 TATCCGGGCT
1 TATCCGGGCT
78767522 TAAAGACCCG
Statistics
Matches: 140, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
77 4 0.03
78 109 0.78
79 22 0.16
80 5 0.04
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (76 bp):
TATCCGGGCTAAGCCCGAAGGCATTCGTGCTGGTGTTATATCTGGGCTAAGTCCTGAAGGCTTCG
TGCTGGAATTG
Found at i:78767469 original size:39 final size:39
Alignment explanation
Indices: 78767415--78767564 Score: 185
Period size: 39 Copynumber: 3.8 Consensus size: 39
78767405 GAAGTCCTGT
*
78767415 AGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCCGC
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGC
*
78767454 AGGCTTCGTGCTGGAATTGTATCTGGACTTAAGGTCCGC
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGC
* * **
78767493 AAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGC
1 AGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGGTCCGC
* * * *
78767533 AGTCTAT-ATGCTGGAATTATATCCGGGCTTAA
1 AGGCT-TCGTGCTGGAATTGTATCCGGACTTAA
78767565 AGACCCGTAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 66 0.67
40 31 0.32
41 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGC
Found at i:78771438 original size:16 final size:16
Alignment explanation
Indices: 78771417--78771468 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
78771407 AAGGACTATG
*
78771417 TGAAGAAAATGTTAAA
1 TGAAGAAAATGCTAAA
**
78771433 TGAAGAATGTGCTAAA
1 TGAAGAAAATGCTAAA
**
78771449 TGAAGAATGTGCTAAA
1 TGAAGAAAATGCTAAA
78771465 TGAA
1 TGAA
78771469 ATAAAAGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (16 bp):
TGAAGAAAATGCTAAA
Found at i:78773081 original size:27 final size:27
Alignment explanation
Indices: 78773051--78773228 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78773041 ATATTGAGTC
* * * *
78773051 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78773078 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78773105 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
78773133 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78773160 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78773187 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78773214 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78773229 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78773190 original size:82 final size:81
Alignment explanation
Indices: 78773072--78773227 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78773062 TGCTATATAA
* *
78773072 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
78773137 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78773154 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78773218 CACTTAGTGC
65 CACTTAGTGC
78773228 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78773727 original size:12 final size:12
Alignment explanation
Indices: 78773710--78773736 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78773700 ATGGCATACT
78773710 TATGTATATATA
1 TATGTATATATA
78773722 TATGTATATATA
1 TATGTATATATA
78773734 TAT
1 TAT
78773737 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:78777428 original size:29 final size:29
Alignment explanation
Indices: 78777369--78777426 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
78777359 CAAATAGCCG
78777369 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
78777398 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
78777427 AAAACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:78777862 original size:39 final size:39
Alignment explanation
Indices: 78777803--78777882 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
78777793 ATTCTTCTAG
78777803 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
1 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
* *
78777842 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
1 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
78777881 TA
1 TA
78777883 GTCCCTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (39 bp):
TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
Found at i:78783819 original size:18 final size:18
Alignment explanation
Indices: 78783796--78783830 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78783786 TGGCAAAATA
*
78783796 AAAATGACAATAATAACG
1 AAAATGACAAAAATAACG
*
78783814 AAAATGATAAAAATAAC
1 AAAATGACAAAAATAAC
78783831 AATACAGATA
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:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAATGACAAAAATAACG
Found at i:78793884 original size:17 final size:17
Alignment explanation
Indices: 78793862--78793895 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78793852 TATTTAATTT
*
78793862 TTTTAAATTAATTTTTA
1 TTTTAAAATAATTTTTA
*
78793879 TTTTAAAATATTTTTTA
1 TTTTAAAATAATTTTTA
78793896 AAAATATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATAATTTTTA
Found at i:78794037 original size:38 final size:41
Alignment explanation
Indices: 78793964--78794047 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 41
78793954 ATACTAAAAA
* *
78793964 GTATTAATATTAAAAACATTACCATAAATATAATAAA-ATTT
1 GTATTAATATTAAAAACATCACAATAAATATAATAAATA-TT
*
78794005 GTATT-ATATTAAAAACA-CA-AATAAATGTAATAAATATT
1 GTATTAATATTAAAAACATCACAATAAATATAATAAATATT
78794043 GTATT
1 GTATT
78794048 GTCTTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 20 0.51
39 2 0.05
40 12 0.31
41 5 0.13
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (41 bp):
GTATTAATATTAAAAACATCACAATAAATATAATAAATATT
Found at i:78794627 original size:28 final size:28
Alignment explanation
Indices: 78794595--78794650 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
78794585 TGCTAATTGG
78794595 ATAGTTAATTAAGGTAAAAGTGTATCAA
1 ATAGTTAATTAAGGTAAAAGTGTATCAA
78794623 ATAGTTAATTAAGGTAAAAGTGTATCAA
1 ATAGTTAATTAAGGTAAAAGTGTATCAA
78794651 CCCTAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (28 bp):
ATAGTTAATTAAGGTAAAAGTGTATCAA
Found at i:78794811 original size:24 final size:22
Alignment explanation
Indices: 78794784--78794837 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
78794774 AACTTTGTCG
**
78794784 AATTAATAATTAATTGTAATAAAA
1 AATTAATAA-TAAAAGTAAT-AAA
78794808 AATTAAATAATAAAAGTAATAAA
1 AATT-AATAATAAAAGTAATAAA
78794831 AATTAAT
1 AATTAAT
78794838 CGTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 12 0.44
25 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTAATAATAAAAGTAATAAA
Found at i:78797285 original size:39 final size:39
Alignment explanation
Indices: 78797242--78797322 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
78797232 TTAGCTAATT
* *
78797242 GTTAGGATGAATATAATTTTATATGATATTTAATTACAA
1 GTTAGGATGAATATAATTTAAGATGATATTTAATTACAA
78797281 GTTAGGATGAATATAATTTAAGATGATATTTAATTACAA
1 GTTAGGATGAATATAATTTAAGATGATATTTAATTACAA
78797320 GTT
1 GTT
78797323 CATATATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.42
Consensus pattern (39 bp):
GTTAGGATGAATATAATTTAAGATGATATTTAATTACAA
Found at i:78800209 original size:47 final size:47
Alignment explanation
Indices: 78800146--78800740 Score: 894
Period size: 47 Copynumber: 12.6 Consensus size: 47
78800136 CCCTTCGGGA
* * *
78800146 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78800193 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78800240 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78800287 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78800334 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
78800381 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78800428 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78800475 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
78800522 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78800571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78800618 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
78800667 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78800714 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
78800741 TATTCAAATA
Statistics
Matches: 518, Mismatches: 24, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 427 0.82
49 89 0.17
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:78802129 original size:85 final size:85
Alignment explanation
Indices: 78802000--78802178 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
78801990 TATTTTATTT
*
78802000 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
78802065 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
78802085 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
78802150 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
78802170 CCCATGCTC
1 CCCATGCTC
78802179 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:78804236 original size:49 final size:49
Alignment explanation
Indices: 78804174--78804271 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
78804164 TTATGAATGC
78804174 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
1 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
* *
78804223 TTGATGATTGCATTTGTTACTGGTATGAAATATTATAGAAATGCATATT
1 TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
78804272 GATGATAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (49 bp):
TTGATGATTGCATTTGTTACTAGTATGAAATATCATAGAAATGCATATT
Found at i:78806968 original size:39 final size:39
Alignment explanation
Indices: 78806883--78807067 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
78806873 AGCTACTGCT
*
78806883 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
78806923 CAAATGCCTTCGGGACTTAGCCTGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
78806962 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTATAGTAACTCGCA
* * ** * *
78807002 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
78807042 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
78807068 TATCATCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 38 0.30
40 87 0.70
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:78806981 original size:79 final size:80
Alignment explanation
Indices: 78806883--78807070 Score: 245
Period size: 79 Copynumber: 2.4 Consensus size: 80
78806873 AGCTACTGCT
* *
78806883 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
78806948 TA-TAATAACTCGCA
66 AATTAACAACTAGCA
** * *
78806962 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
78807027 AATTAGCCACTAGCT
66 AATTAACAACTAGCA
78807042 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
78807071 CATCCGAACA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 62 0.67
80 31 0.33
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAACAACTAGCA
Found at i:78817562 original size:23 final size:23
Alignment explanation
Indices: 78817517--78817563 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78817507 TTAATTAATT
*
78817517 AAAAATTAAACAAGTATATAAAC
1 AAAAATTAAACAAATATATAAAC
*
78817540 AAAAATTAAAAGAAATATA-AAAC
1 AAAAATT-AAACAAATATATAAAC
78817563 A
1 A
78817564 TTTGTCCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAATTAAACAAATATATAAAC
Found at i:78821564 original size:27 final size:27
Alignment explanation
Indices: 78821534--78821711 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78821524 ATATTGAGCC
* * * *
78821534 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78821561 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78821588 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
78821616 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78821643 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78821670 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78821697 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78821712 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78821673 original size:82 final size:81
Alignment explanation
Indices: 78821555--78821710 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78821545 TGCTATATAA
* *
78821555 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
78821620 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78821637 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78821701 CACTTAGTGC
65 CACTTAGTGC
78821711 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78821723 original size:82 final size:83
Alignment explanation
Indices: 78821534--78821723 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
78821524 ATATTGAGCC
* * * * *
78821534 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
78821598 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
78821616 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
78821677 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
78821697 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
78821724 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:78829645 original size:27 final size:27
Alignment explanation
Indices: 78829615--78829765 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
78829605 ATATTGAGTC
* *
78829615 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
78829642 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
78829670 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
78829697 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
78829724 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
78829751 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78829766 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:78832942 original size:47 final size:47
Alignment explanation
Indices: 78832888--78833031 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 47
78832878 GATTTTATGA
** * * *
78832888 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
78832935 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
78832982 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
78833029 GAT
1 GAT
78833032 AAACGTGGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:78832961 original size:25 final size:25
Alignment explanation
Indices: 78832932--78833009 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
78832922 TAATGGCCAA
78832932 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
78832957 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
78832979 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
78833004 TGTGAT
1 TGTGAT
78833010 AAGGTAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:78834640 original size:40 final size:40
Alignment explanation
Indices: 78834592--78834785 Score: 334
Period size: 40 Copynumber: 4.8 Consensus size: 40
78834582 AGTTATATAG
78834592 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
78834632 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
78834672 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * *
78834712 CCAGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * *
78834752 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
78834786 ATGTGTATTC
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:78838710 original size:47 final size:47
Alignment explanation
Indices: 78838656--78838846 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
78838646 GATTTTATGA
** * * * * *
78838656 GATGAATGTGAATGTGTATATATGAGATAAGACCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
78838703 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
78838750 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** *
78838797 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
78838844 GAT
1 GAT
78838847 AAACGTGGAA
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:78838729 original size:25 final size:25
Alignment explanation
Indices: 78838700--78838824 Score: 76
Period size: 25 Copynumber: 5.2 Consensus size: 25
78838690 TAATGGCCAA
78838700 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
78838725 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
78838747 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
78838772 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
78838794 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
78838819 TGTGAT
1 TGTGAT
78838825 AAGGTAGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 16 0.22
24 16 0.22
25 24 0.32
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:78838752 original size:22 final size:22
Alignment explanation
Indices: 78838725--78838799 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
78838715 CATGCATATG
78838725 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
78838747 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
78838770 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
78838794 TGTGAT
1 TGTGAT
78838800 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:78838757 original size:94 final size:93
Alignment explanation
Indices: 78838656--78838892 Score: 305
Period size: 94 Copynumber: 2.5 Consensus size: 93
78838646 GATTTTATGA
*
78838656 GATGAATGTGAATGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAA-GTGTATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCA
*
78838721 TATGTGTGATAAGGCCGAATGGCCAATGT
65 TATGTGTGATAAGGCAGAATGGCCAATGT
* * * * *
78838750 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAA-GTGTATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
78838815 TATGTGTGATAAGGTAGAATGGCTAATGT
65 TATGTGTGATAAGGCAGAATGGCCAATGT
* * * * *
78838844 GATAAACGTGGAAGTGTATATATGTGGTGAAG-CCGAATGGCTAATGTGA
1 GATGAATGT-GAAGTGTATATATGAGAT-AAGACCGAATGGCCAATGTGA
78838893 GATATGTATG
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
94 118 0.95
95 6 0.05
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCAT
ATGTGTGATAAGGCAGAATGGCCAATGT
Found at i:78850255 original size:15 final size:15
Alignment explanation
Indices: 78850237--78850266 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78850227 CAAGATGGAG
78850237 AAATCCAAGATACAA
1 AAATCCAAGATACAA
*
78850252 AAATCCAATATACAA
1 AAATCCAAGATACAA
78850267 TACCGTACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATCCAAGATACAA
Found at i:78851577 original size:46 final size:47
Alignment explanation
Indices: 78851526--78851721 Score: 124
Period size: 48 Copynumber: 4.1 Consensus size: 47
78851516 CACATTTGGT
* *
78851526 CATTCGAC-CACAATATACACACATCTCCTACATAGTTCACACTAGC
1 CATTCGACTCACAACACACACACATCTCCTACATAGTTCACACTAGC
* * * * * *
78851572 CATTCGGCTTTACCACACATACATATCTCCTACATATTTCACACTAGC
1 CATTCGAC-TCACAACACACACACATCTCCTACATAGTTCACACTAGC
* * * * * * * * *
78851620 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGAC-TCACAACACACACACATCTCCTACATAGTTCACACTAGC
* * * * * * * * *
78851668 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGAC-TCACAACACACACACATCTCCTACATAGTTCACACTAGC
78851716 CATTCG
1 CATTCG
78851722 GCTTTATCAC
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
46 7 0.05
48 130 0.95
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CATTCGACTCACAACACACACACATCTCCTACATAGTTCACACTAGC
Found at i:78851601 original size:48 final size:48
Alignment explanation
Indices: 78851548--78851743 Score: 302
Period size: 48 Copynumber: 4.0 Consensus size: 48
78851538 ATATACACAC
* *
78851548 ATCTCCTACATAGTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
* *
78851596 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
* *
78851644 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
* *
78851692 ATCTCATACATATTTCACATTAGCCATTCGGCTTTATCACACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA-C-CACACATACAT
78851742 AT
1 AT
78851744 TTATCCTGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 128 0.91
49 1 0.01
50 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
Found at i:78865825 original size:41 final size:42
Alignment explanation
Indices: 78865702--78865865 Score: 125
Period size: 41 Copynumber: 3.9 Consensus size: 42
78865692 TTACCATACC
** * * * * *
78865702 AATGCCACGTCCCAGATATAGTCTTACATGAGATCTCGTATC
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
* * * * * * * *
78865744 GATGCTAATAGCCTAGCTATTGTCTTACACGAAATTTCATATC
1 AATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATA
* * *
78865787 AATGTCAT-TCCCAGATATGGTCTTCCACGAAGTCTCATATA
1 AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
*
78865828 AATGCCATATCCCAGATATGATCTTACAC-ATAATCTCA
1 AATGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
78865866 GTGACCCTAA
Statistics
Matches: 92, Mismatches: 27, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
41 33 0.36
42 30 0.33
43 29 0.32
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (42 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATA
Found at i:78882100 original size:27 final size:27
Alignment explanation
Indices: 78882070--78882179 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
78882060 TATAAACATA
78882070 TATCACAT-AGGGCCAAAACAGTCATTT
1 TATCACATAAGGG-CAAAACAGTCATTT
** *
78882097 TATCAGTTAGGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
* *
78882124 TACCACATAAGGGAAAAATC-GTCATTT
1 TATCACATAAGGGCAAAA-CAGTCATTT
*
78882151 TAACACATAAGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAACAGTCATTT
78882178 TA
1 TA
78882180 CCTTACAGAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 65 0.93
28 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
TATCACATAAGGGCAAAACAGTCATTT
Found at i:78882614 original size:73 final size:73
Alignment explanation
Indices: 78882491--78882709 Score: 375
Period size: 73 Copynumber: 3.0 Consensus size: 73
78882481 TGGGCCTACG
** * * * *
78882491 TGGCCCAGTATCTTTTTGGCTCATGGAAACACCCATGGCCATCTCATTGACCACACGGTCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
78882556 TTGTTACA
66 TTGTTACA
78882564 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
78882629 TTGTTACA
66 TTGTTACA
*
78882637 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGACCATGTT
1 TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
78882702 TTGTTACA
66 TTGTTACA
78882710 CGACTTGCCA
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 139 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (73 bp):
TGGCCCAGTATGGTTTCGGCTCATGGAAACGCCCATGGCCATCTCGTTGACCACACGGCCATGTT
TTGTTACA
Found at i:78882779 original size:8 final size:8
Alignment explanation
Indices: 78882766--78882822 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
78882756 CACTTTTTGA
78882766 CTTTTCAG
1 CTTTTCAG
* *
78882774 CCTTTCGG
1 CTTTTCAG
* *
78882782 TTTTTCAT
1 CTTTTCAG
78882790 CTTTTCAG
1 CTTTTCAG
*
78882798 CCTTTCAG
1 CTTTTCAG
*
78882806 CTTTTTAG
1 CTTTTCAG
78882814 CTTTTCAG
1 CTTTTCAG
78882822 C
1 C
78882823 CTTTGTAGTT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.11, C:0.26, G:0.12, T:0.51
Consensus pattern (8 bp):
CTTTTCAG
Found at i:78882793 original size:24 final size:24
Alignment explanation
Indices: 78882758--78882826 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
78882748 CGTCAACCCA
78882758 CTTTTT-GACTTTTCAGCCTTTC-G
1 CTTTTTAG-CTTTTCAGCCTTTCAG
* *
78882781 GTTTTTCATCTTTTCAGCCTTTCAG
1 CTTTTT-AGCTTTTCAGCCTTTCAG
78882806 CTTTTTAGCTTTTCAGCCTTT
1 CTTTTTAGCTTTTCAGCCTTT
78882827 GTAGTTTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 5 0.13
24 28 0.72
25 6 0.15
ACGTcount: A:0.10, C:0.25, G:0.12, T:0.54
Consensus pattern (24 bp):
CTTTTTAGCTTTTCAGCCTTTCAG
Found at i:78883755 original size:10 final size:10
Alignment explanation
Indices: 78883740--78883765 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
78883730 CGGCTAACAA
78883740 CAAACTTATT
1 CAAACTTATT
78883750 CAAACTTATT
1 CAAACTTATT
78883760 CAAACT
1 CAAACT
78883766 CTTGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:78897881 original size:20 final size:21
Alignment explanation
Indices: 78897833--78897881 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
78897823 GTGTGGCCCA
* *
78897833 CATGGCCAATTTTAGCCCCAC
1 CATGGCCCATTTTAGCCACAC
*
78897854 C-TGACCCATTTTAG-CACAC
1 CATGGCCCATTTTAGCCACAC
78897873 CATGGCCCA
1 CATGGCCCA
78897882 AATCGACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.22
20 17 0.74
21 1 0.04
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.22
Consensus pattern (21 bp):
CATGGCCCATTTTAGCCACAC
Found at i:78899531 original size:48 final size:47
Alignment explanation
Indices: 78899414--78899620 Score: 181
Period size: 46 Copynumber: 4.4 Consensus size: 47
78899404 TATGTGTGCT
* * * *
78899414 AGTGGAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TAT-TAAGCC
* * *
78899460 ACTGTAAGTCATG-CTAGGACATGCATCGGCCTTGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA-TTAAGCC
* * * * ** *
78899507 AGTATAAGACATGTCTGGGACATGCATTGGCATTGAGACA-TGGGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTAAGCC
* *
78899553 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATAT-TAAGCC
* *
78899601 AGTGTAAAACCTGTCTGGGA
1 AGTGTAAGACATGTCTGGGA
78899621 GATGGTGTCA
Statistics
Matches: 128, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 16 0.12
46 49 0.38
47 17 0.13
48 46 0.36
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTAAGCC
Found at i:78901101 original size:41 final size:40
Alignment explanation
Indices: 78901030--78901142 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 40
78901020 ATGTGGTTAC
* * * * * *
78901030 GTGTAAGACCATGTTTAGGACATCGACATCGTATTTGA-TTT
1 GTGTAAGACCATGTCTGGGACAT-GGCATCG-ATATGAGATA
*
78901071 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGATA
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATA
78901112 GCATGTAAGACCATGTCTGGGACATTGGCAT
1 G--TGTAAGACCATGTCTGGGACA-TGGCAT
78901143 TGTACGATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 5 0.08
41 27 0.46
42 1 0.02
43 26 0.44
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (40 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATA
Found at i:78901958 original size:18 final size:19
Alignment explanation
Indices: 78901918--78901959 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
78901908 TGTATTGATA
* *
78901918 ATGGTTGGTGAACTTGGAT
1 ATGGTTGATGAACTTGGAC
*
78901937 ATGGTTGATGAA-TTGGCC
1 ATGGTTGATGAACTTGGAC
78901955 ATGGT
1 ATGGT
78901960 ATATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (19 bp):
ATGGTTGATGAACTTGGAC
Found at i:78902394 original size:20 final size:20
Alignment explanation
Indices: 78902328--78902394 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
78902318 ATGATTCGAC
78902328 ATTTGTATATGTATAAGCATAT
1 ATTTGTATATG-ATAAG-ATAT
* * *
78902350 A-ATGT-TTTGATATGATAT
1 ATTTGTATATGATAAGATAT
78902368 -TTATGTATATGATAAGATAT
1 ATT-TGTATATGATAAGATAT
78902388 ATTTGTA
1 ATTTGTA
78902395 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 18 0.51
21 5 0.14
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (20 bp):
ATTTGTATATGATAAGATAT
Found at i:78935459 original size:170 final size:171
Alignment explanation
Indices: 78935164--78935504 Score: 621
Period size: 170 Copynumber: 2.0 Consensus size: 171
78935154 TCATAATGAC
78935164 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
1 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
* *
78935229 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCGAGCTAGCTGAATAAACC
66 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
78935294 TATGAGAGGTGGGAAAG-AAAAAAGGGGGTAAGCTTCAAAG
131 TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
* *
78935334 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGATTCAAAGGTTTGCGTTCATTTACCCA
1 ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
*
78935399 ACATGATAGCTTGATAGTGTGATAGAATCTTCGACGATCTCCAACCCCAGCTACCTGAATAAACC
66 ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
*
78935464 TATGAGAGGTTGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
131 TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
78935505 CTTAGTAAAT
Statistics
Matches: 164, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
170 141 0.86
171 23 0.14
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (171 bp):
ACATACACAAAATGACTAAGTCCCTATACATGCCATAGACTCAAAGGTTTGCATTCATTTACCCA
ACATGATAGCTTGATAGTGTGATAGAATCTACGACGATCTCCAACCCCAGCTACCTGAATAAACC
TATGAGAGGTGGGAAAGAAAAAAAGGGGGTAAGCTTCAAAG
Found at i:78936041 original size:45 final size:45
Alignment explanation
Indices: 78935991--78936078 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
78935981 CCAAAACATG
*
78935991 TGTCACATACATCGCGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCAGA
** * * *
78936036 TGTCACATATGTCATGAACTCAGAGCATAACTCAATGAGTTCA
1 TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCA
78936079 AACCACATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCACGAACTCAGACCACAACTCAATGAGTTCAGA
Done.