Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 18 of 208
Found at i:7242055 original size:14 final size:14
Alignment explanation
Indices: 7242038--7242067 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7242028 GTTTTGGTGT
7242038 TTTTAAGTTAAGGG
1 TTTTAAGTTAAGGG
7242052 TTTTAAGTTAAGGG
1 TTTTAAGTTAAGGG
7242066 TT
1 TT
7242068 AGGGTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
TTTTAAGTTAAGGG
Found at i:7242098 original size:21 final size:22
Alignment explanation
Indices: 7242074--7242124 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
7242064 GGTTAGGGTT
7242074 AGGGTTAGGA-TTTTTAAGTTA
1 AGGGTTAGGAGTTTTTAAGTTA
7242095 AGGGTTA-GAGTTTTTAAGTTA
1 AGGGTTAGGAGTTTTTAAGTTA
7242116 AGGGTTAGG
1 AGGGTTAGG
7242125 GTTATGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.89
22 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.39
Consensus pattern (22 bp):
AGGGTTAGGAGTTTTTAAGTTA
Found at i:7242119 original size:54 final size:54
Alignment explanation
Indices: 7242052--7242156 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
7242042 AAGTTAAGGG
7242052 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTTAAGTTAAGGGTTAGAGT
1 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTTAAGTTAAGGGTTAGAGT
* * *
7242106 TTTTAAGTTAAGGGTTAGGGTTATGGTTAGGGTTTTTATGTTAAGGGTTAG
1 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTTAAGTTAAGGGTTAG
7242157 GGTTAGGGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (54 bp):
TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTTAAGTTAAGGGTTAGAGT
Found at i:7242134 original size:33 final size:33
Alignment explanation
Indices: 7242097--7242301 Score: 216
Period size: 33 Copynumber: 6.4 Consensus size: 33
7242087 TTAAGTTAAG
*
7242097 GGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTAT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAT
* *
7242130 GGTTAGGGTTTTTATGTTAAGGGTTAGGGTTAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAT
* *
7242163 GGCTAGGGTTTTT--GTT-AGGGTTTTGGTGTTATT
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGG-GTTA-T
*
7242196 AAGTTAAGGG-TTTTAAGTTAAGGGTTAGGGTTA-
1 -GGTT-AGGGTTTTTAAGTTAAGGGTTAGGGTTAT
7242229 -G-T---GTTTTTAAGTTAAGGGTTAGGGTTAT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAT
*
7242257 GGCTAGGGTTTTTAAGTTAAGGGTTA-GGTTAT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAT
*
7242289 GGTTACGGTTTTT
1 GGTTAGGGTTTTT
7242302 GTTAGGAATT
Statistics
Matches: 146, Mismatches: 11, Indels: 31
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.01
27 23 0.16
29 1 0.01
30 6 0.04
31 8 0.05
32 21 0.14
33 61 0.42
34 6 0.04
35 8 0.05
36 7 0.05
37 4 0.03
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (33 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAT
Found at i:7242211 original size:14 final size:14
Alignment explanation
Indices: 7242194--7242221 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7242184 TTTGGTGTTA
7242194 TTAAGTTAAGGGTT
1 TTAAGTTAAGGGTT
7242208 TTAAGTTAAGGGTT
1 TTAAGTTAAGGGTT
7242222 AGGGTTAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTAAGTTAAGGGTT
Found at i:7242236 original size:27 final size:30
Alignment explanation
Indices: 7242206--7242284 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 30
7242196 AAGTTAAGGG
7242206 TTTTAAGTTAAGGGTTAGGGTTA-G-T-GT
1 TTTTAAGTTAAGGGTTAGGGTTAGGCTGGT
7242233 TTTTAAGTTAAGGGTTAGGGTTATGGCTAGGGT
1 TTTTAAGTTAAGGGTTAGGGTTA-GGCT--GGT
7242266 TTTTAAGTTAAGGGTTAGG
1 TTTTAAGTTAAGGGTTAGG
7242285 TTATGGTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 23 0.50
29 1 0.02
30 1 0.02
33 21 0.46
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (30 bp):
TTTTAAGTTAAGGGTTAGGGTTAGGCTGGT
Found at i:7242253 original size:154 final size:152
Alignment explanation
Indices: 7241910--7242301 Score: 508
Period size: 154 Copynumber: 2.5 Consensus size: 152
7241900 CAAATTATAT
* *
7241910 GGGTTAGGGTTAGGGTTTTT-GTT-AGCATTAGGGTTTTAGTGTTTTTAAGTTAAGGGTTAGGGT
1 GGGTTAGGGTTAGGGTTTTTAGTTAAG-GTTAGGG--TTAGAGTTTTTAAGTTAAGGGTTAGGGT
*
7241973 TATGGTTAGGGGTTTTAAGTTAAGGATTAAGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTGT
63 TATGGTTAGGGTTTTTAAGTTAAGGATTAAGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTGT
*
7242038 TTTTAAGTTAAGGGTTTTAAGTTAA
128 TATTAAGTTAAGGGTTTTAAGTTAA
7242063 GGGTTAGGGTTAGGGTTAGGATTT--TTAA-GTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTAGG
1 GGGTTAGGGTTAGGGTT----TTTAGTTAAGGTT-AGGGTTAGAGTTTTTAAGTTAAGGGTTAGG
* * * *
7242125 GTTATGGTTAGGGTTTTTATGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTGGT
61 GTTATGGTTAGGGTTTTTAAGTTAAGGATTAAGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGT
7242190 GTTATTAAGTTAAGGGTTTTAAGTTAA
126 GTTATTAAGTTAAGGGTTTTAAGTTAA
*
7242217 GGGTTAGGGTTAGTGTTTTTAAGTTAAGGGTTAGGGTTATGGCTAGGGTTTTTAAGTTAAGGGTT
1 GGGTTAGGGTTAGGGTTTTT-AGTTAA-GGTTAGGGTTA--G--A--GTTTTTAAGTTAAGGGTT
*
7242282 A-GGTTATGGTTACGGTTTTT
58 AGGGTTATGGTTAGGGTTTTT
7242302 GTTAGGAATT
Statistics
Matches: 212, Mismatches: 10, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
150 3 0.01
153 21 0.10
154 134 0.63
155 5 0.02
156 7 0.03
157 4 0.02
158 1 0.00
159 18 0.08
160 19 0.09
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (152 bp):
GGGTTAGGGTTAGGGTTTTTAGTTAAGGTTAGGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTAT
GGTTAGGGTTTTTAAGTTAAGGATTAAGGTTAGGGCTAAGGTTTTTGTTAGGGTTTTGGTGTTAT
TAAGTTAAGGGTTTTAAGTTAA
Found at i:7248600 original size:29 final size:29
Alignment explanation
Indices: 7248568--7248623 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7248558 ATAGGGATAT
*
7248568 GATTAAATTAATCTCTCTACTATTAAATG
1 GATTAAATTAATCCCTCTACTATTAAATG
* * *
7248597 GATTAATTTAGTCCCTGTACTATTAAA
1 GATTAAATTAATCCCTCTACTATTAAA
7248624 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (29 bp):
GATTAAATTAATCCCTCTACTATTAAATG
Found at i:7256492 original size:16 final size:15
Alignment explanation
Indices: 7256473--7256502 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7256463 TTATATTATA
7256473 AAAATATTATTAAATT
1 AAAATATTA-TAAATT
7256489 AAAATATTATAAAT
1 AAAATATTATAAAT
7256503 ATATTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATTATAAATT
Found at i:7256506 original size:27 final size:29
Alignment explanation
Indices: 7256465--7256519 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
7256455 TTCTTGATTT
7256465 ATATTATAAAAATATT-ATT-AAATTAAA
1 ATATTATAAAAATATTAATTAAAATTAAA
*
7256492 ATATTATAAATATATTAATTAAAATTAA
1 ATATTATAAAAATATTAATTAAAATTAA
7256520 GATAATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.60
28 3 0.12
29 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATTATAAAAATATTAATTAAAATTAAA
Found at i:7256524 original size:24 final size:25
Alignment explanation
Indices: 7256474--7256524 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
7256464 TATATTATAA
**
7256474 AAATATTATTAAATTAAAATATTAT
1 AAATATTATTAAATTAAAATAAGAT
7256499 AAATA-TATT-AATTAAAATTAAGAT
1 AAATATTATTAAATTAAAA-TAAGAT
7256523 AA
1 AA
7256525 TATGTTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 10 0.43
25 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATATTATTAAATTAAAATAAGAT
Found at i:7257718 original size:23 final size:21
Alignment explanation
Indices: 7257695--7257771 Score: 104
Period size: 21 Copynumber: 3.6 Consensus size: 21
7257685 ATCAAACACT
7257695 TTATGTGTCGTATCTCAGGCAC
1 TTATGTGTCGTAT-TCAGGCAC
7257717 TTTATGTGTCGTA-TCAGGCAC
1 -TTATGTGTCGTATTCAGGCAC
*
7257738 CTAGTGTGTCGT-TTCAGGCAC
1 TTA-TGTGTCGTATTCAGGCAC
7257759 TTATGTGTCGTAT
1 TTATGTGTCGTAT
7257772 ACTGATCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.20
21 27 0.55
23 12 0.24
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (21 bp):
TTATGTGTCGTATTCAGGCAC
Found at i:7273066 original size:12 final size:12
Alignment explanation
Indices: 7273049--7273073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7273039 CCTCCTAGTA
7273049 AACCACTAAACC
1 AACCACTAAACC
7273061 AACCACTAAACC
1 AACCACTAAACC
7273073 A
1 A
7273074 GTGAATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (12 bp):
AACCACTAAACC
Found at i:7280924 original size:74 final size:78
Alignment explanation
Indices: 7280802--7280945 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 78
7280792 AGAAAACAAG
* * *
7280802 TTTTATAAGCAGAAATTATAAATTTTTACAAACAAATTAAGTTAATTTTTTA-TATA-AA-TATT
1 TTTTATAAACAAAAATTATAAATTTTCACAAACAAATTAAGTTAATTTTTTATTATATAATTATT
7280864 ATTTATCTCAAAT
66 ATTTATCTCAAAT
* * * **
7280877 TTTTATAAACAAAAATTAT-TATTTTCACGAATAAATTATTTTAATTTTTTATTATATAATTATT
1 TTTTATAAACAAAAATTATAAATTTTCACAAACAAATTAAGTTAATTTTTTATTATATAATTATT
7280941 ATTTA
66 ATTTA
7280946 CCTCTCAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 26 0.45
75 21 0.36
76 2 0.03
77 9 0.16
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (78 bp):
TTTTATAAACAAAAATTATAAATTTTCACAAACAAATTAAGTTAATTTTTTATTATATAATTATT
ATTTATCTCAAAT
Found at i:7281113 original size:15 final size:15
Alignment explanation
Indices: 7281095--7281125 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7281085 TAAAAATTAT
7281095 ATAAATATATTTTAA
1 ATAAATATATTTTAA
7281110 ATAAATATATTTTAA
1 ATAAATATATTTTAA
7281125 A
1 A
7281126 ATTTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATATATTTTAA
Found at i:7281159 original size:15 final size:14
Alignment explanation
Indices: 7281091--7281159 Score: 61
Period size: 15 Copynumber: 4.8 Consensus size: 14
7281081 ATAATAAAAA
7281091 TTATATAAATATATT
1 TTATATAAATATA-T
*
7281106 TTAAATAAATATAT
1 TTATATAAATATAT
*
7281120 TT-TA-AAATTTAAT
1 TTATATAAATAT-AT
*
7281133 TAAATATAAATATAT
1 T-TATATAAATATAT
7281148 TTATATTAAATA
1 TTATA-TAAATA
7281160 CAAAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
12 5 0.12
13 4 0.09
14 6 0.14
15 23 0.53
16 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATATAAATATAT
Found at i:7282457 original size:48 final size:45
Alignment explanation
Indices: 7282386--7282478 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 45
7282376 GATAGCCTCG
*
7282386 TAAATCTTAGTTTGGCTTTCACTATTCAAAAGGTATTGTGGTGGTTCA
1 TAAATCTTAGTTTGACTTTCACTATTCAAAA---ATTGTGGTGGTTCA
7282434 TAAATCTT-GATTTGACTTTCACTATTCAAAAATTGTGGTGGTTCA
1 TAAATCTTAG-TTTGACTTTCACTATTCAAAAATTGTGGTGGTTCA
7282479 AAAGGTTCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
45 14 0.33
47 1 0.02
48 28 0.65
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (45 bp):
TAAATCTTAGTTTGACTTTCACTATTCAAAAATTGTGGTGGTTCA
Found at i:7282659 original size:21 final size:21
Alignment explanation
Indices: 7282635--7282674 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7282625 TCAACAATTT
*
7282635 AATATTGATATTAAAATTAAA
1 AATATTAATATTAAAATTAAA
*
7282656 AATATTAATATTATAATTA
1 AATATTAATATTAAAATTA
7282675 CAAAGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AATATTAATATTAAAATTAAA
Found at i:7285199 original size:87 final size:87
Alignment explanation
Indices: 7285053--7285446 Score: 386
Period size: 87 Copynumber: 4.6 Consensus size: 87
7285043 CGCTTTCTCT
* *
7285053 TGCCAGTAATCAGGA-TATCAGTTTCCAATACTTTGATCTCCCTCATTGCTGATAGATCCATCTT
1 TGCCAGTAATC-GGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTT
7285117 -TCCAGTGACACAAAGGTTATCAG
65 AT-CAGTGACACAAAGGTTATCAG
*
7285140 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCAATCTCCCTCATTGCTGATATATCCATCTTA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTTA
*
7285205 TCAGTGACACAAAGGTTATCTG
66 TCAGTGACACAAAGGTTATCAG
* * * *
7285227 TGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTGCCC-CA---CTG-------C-T-TT
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCT-CCCTCATTGCTGATATATCCATCTT
*
7285279 ATCAGTGACACAAAGATTATCAG
65 ATCAGTGACACAAAGGTTATCAG
* * * * * *
7285302 TGCCAGTAATTGGGGCATAAGTTTCTAATACTTTGATCTCCCTCATTGCTGATAGATCCAGATCC
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGAT--AT----ATCC
* * *
7285367 ATCTTATCAGTGACATAAAGGTCACCAG
60 ATCTTATCAGTGACACAAAGGTTATCAG
* * * * * *
7285395 TGCCAGCAACCGGAGTATCACTTTCCAATCCTTCGATCTCCATCACTGCTGA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGA
7285447 GAGATCCTTA
Statistics
Matches: 250, Mismatches: 35, Indels: 38
0.77 0.11 0.12
Matches are distributed among these distances:
74 3 0.01
75 56 0.22
76 1 0.00
77 1 0.00
78 3 0.01
84 3 0.01
86 3 0.01
87 113 0.45
88 4 0.02
91 1 0.00
92 1 0.00
93 61 0.24
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (87 bp):
TGCCAGTAATCGGAGTATCAGTTTCCAATACTTCGATCTCCCTCATTGCTGATATATCCATCTTA
TCAGTGACACAAAGGTTATCAG
Found at i:7285340 original size:75 final size:75
Alignment explanation
Indices: 7285202--7285340 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 75
7285192 TATATCCATC
* * * * *
7285202 TTATCAGTGACACAAAGGTTATCTGTGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTG
1 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTG
7285267 CCCCACTGCT
66 CCCCACTGCT
** * * *
7285277 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATTGGGGCATAAGTTTCTAATACTTTGATCT
1 TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCT
7285341 CCCTCATTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 54 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (75 bp):
TTATCAGTGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTG
CCCCACTGCT
Found at i:7286239 original size:39 final size:39
Alignment explanation
Indices: 7286196--7286280 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
7286186 TTCGCAGCTA
7286196 CAAGCTTTGGTTTCTTTT-CCTTGACTAGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTT-ACTAGCTTTGGAGTTG
* *
7286235 CAAGCCTTGGTTTCTTTTCCCTTACTTGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
7286274 CAAGCTT
1 CAAGCTT
7286281 CAGTGTGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (39 bp):
CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
Found at i:7287064 original size:213 final size:213
Alignment explanation
Indices: 7286805--7287241 Score: 775
Period size: 213 Copynumber: 2.0 Consensus size: 213
7286795 CCCATTGAAA
7286805 CCATCTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCC
1 CCAT-TTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCC
* * *
7286870 ATCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAATAAATCCGCCG
65 ATCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCA
7286935 TGCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCT
130 TGCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCT
*
7287000 GTTCTGTTGGAACTTTGCT
195 GCTCTGTTGGAACTTTGCT
7287019 CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
1 CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
*
7287084 TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCTTTCACCAGCACTCAACAAATCCCCCAT
66 TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCAT
* ** *
7287149 GCCTAGAGAATCCAAGCTCATCTTCAAATCTATTTTGCCTACCGATCCCAAACTTATGCTCTCTG
131 GCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCTG
7287214 CTCTGTTGGAACTTTGCT
196 CTCTGTTGGAACTTTGCT
*
7287232 CCTTTTCTTT
1 CCATTTCTTT
7287242 GTCTGACAAT
Statistics
Matches: 213, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
213 209 0.98
214 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (213 bp):
CCATTTCTTTTTGCTTGCTTGTGACGGTGCAGACTGTGGACTCCAAGCATAAGTCTTCGATTCCA
TCAAAATTTCTGCCTGGACAAAAATTCTGTTCCTTGCCTTCACCAGCACTCAACAAATCCCCCAT
GCCTAGAGAATCCAAGCTCATCTTCAAATCTAATTTGCCTACAAATCCCAAACTTATGCACTCTG
CTCTGTTGGAACTTTGCT
Found at i:7292785 original size:16 final size:16
Alignment explanation
Indices: 7292764--7292795 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7292754 TTGTAATTTC
7292764 AATAATGATTCGGTTT
1 AATAATGATTCGGTTT
7292780 AATAATGATTCGGTTT
1 AATAATGATTCGGTTT
7292796 TAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
AATAATGATTCGGTTT
Found at i:7296603 original size:24 final size:24
Alignment explanation
Indices: 7296576--7296624 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
7296566 GCAGCTTCAG
*
7296576 CAGGTCTCTTCTTGCTTGACTCGA
1 CAGGTATCTTCTTGCTTGACTCGA
7296600 CAGGTATCTTCTTGCTTGACTCGA
1 CAGGTATCTTCTTGCTTGACTCGA
7296624 C
1 C
7296625 CTAGAAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.37
Consensus pattern (24 bp):
CAGGTATCTTCTTGCTTGACTCGA
Found at i:7296892 original size:18 final size:18
Alignment explanation
Indices: 7296860--7296906 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7296850 TGAAAAGAAA
* *
7296860 CCTCGTCAGACTCATCAT
1 CCTCATCAGAATCATCAT
* *
7296878 CGTCATCAGAATCATCTT
1 CCTCATCAGAATCATCAT
7296896 CCTCATCAGAA
1 CCTCATCAGAA
7296907 CCACTCTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.28
Consensus pattern (18 bp):
CCTCATCAGAATCATCAT
Found at i:7306293 original size:2 final size:2
Alignment explanation
Indices: 7306286--7306312 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7306276 TTTTACAAAT
7306286 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
7306313 TTTGGTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7307024 original size:21 final size:22
Alignment explanation
Indices: 7306985--7307026 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
7306975 TATACAATTT
*
7306985 ATTAAAATAATAAAGTGTATATA
1 ATTAAAAT-ATAAAATGTATATA
7307008 ATTAAAAT-TAAAATGTATA
1 ATTAAAATATAAAATGTATA
7307027 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
ATTAAAATATAAAATGTATATA
Found at i:7307537 original size:6 final size:6
Alignment explanation
Indices: 7307526--7307552 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7307516 AAATATGCAT
7307526 AATTAA AATTAA AATTAA AATTAA AAT
1 AATTAA AATTAA AATTAA AATTAA AAT
7307553 GTATAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:7308485 original size:8 final size:9
Alignment explanation
Indices: 7308432--7308485 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
7308422 CTGAAAGTTT
7308432 TAAAAATAA
1 TAAAAATAA
7308441 TAAAAATAA
1 TAAAAATAA
7308450 T-AAAATATA
1 TAAAAATA-A
* *
7308459 TAACAAT-T
1 TAAAAATAA
*
7308467 TAAAAACAA
1 TAAAAATAA
7308476 TAAAAA-AA
1 TAAAAATAA
7308484 TA
1 TA
7308486 GGAGGATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 15 0.41
9 18 0.49
10 4 0.11
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAATAA
Found at i:7316538 original size:21 final size:21
Alignment explanation
Indices: 7316512--7316552 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7316502 ATCTGCTCAA
* *
7316512 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7316533 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7316553 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7322325 original size:14 final size:14
Alignment explanation
Indices: 7322306--7322332 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7322296 ATCACCGGGC
7322306 CAGTTTGGTTGGGT
1 CAGTTTGGTTGGGT
7322320 CAGTTTGGTTGGG
1 CAGTTTGGTTGGG
7322333 CTAAATGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.44, T:0.41
Consensus pattern (14 bp):
CAGTTTGGTTGGGT
Found at i:7327447 original size:14 final size:14
Alignment explanation
Indices: 7327428--7327459 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7327418 TCCAATCACC
7327428 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7327442 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7327456 GGGC
1 GGGC
7327460 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:7353525 original size:24 final size:23
Alignment explanation
Indices: 7353493--7353538 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7353483 AAATTAAAAT
* *
7353493 AAATCATTAATTATTATATTTTTA
1 AAATAATT-ATTATTAAATTTTTA
*
7353517 AAATAATTATTTTTAAATTTTT
1 AAATAATTATTATTAAATTTTT
7353539 TGAACTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATAATTATTATTAAATTTTTA
Found at i:7356909 original size:15 final size:15
Alignment explanation
Indices: 7356873--7356903 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7356863 TGAAATCCTA
7356873 TATACTAGCATGTAG
1 TATACTAGCATGTAG
7356888 TATACTAGCATGTAG
1 TATACTAGCATGTAG
7356903 T
1 T
7356904 GAACTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TATACTAGCATGTAG
Found at i:7357607 original size:13 final size:13
Alignment explanation
Indices: 7357589--7357614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7357579 ACAGTATTAA
7357589 AAGTAACTTGGGT
1 AAGTAACTTGGGT
7357602 AAGTAACTTGGGT
1 AAGTAACTTGGGT
7357615 TATAAAAATA
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:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
AAGTAACTTGGGT
Found at i:7366741 original size:20 final size:21
Alignment explanation
Indices: 7366704--7366742 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7366694 GAAAAAAATA
*
7366704 TGTAAAAATCAATGAAATTTT
1 TGTAAAAATCAATAAAATTTT
*
7366725 TGTAAAAAT-GATAAAATT
1 TGTAAAAATCAATAAAATT
7366743 AAGGCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (21 bp):
TGTAAAAATCAATAAAATTTT
Found at i:7372327 original size:33 final size:32
Alignment explanation
Indices: 7372290--7372351 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
7372280 ATTGATGTTG
*
7372290 TAGCAAAATAGTGATAAAACAATAA-AAAAATAA
1 TAGCAAAACAGT-A-AAAACAATAAGAAAAATAA
*
7372323 TAGCAAAACAGTAAAAAGAATAAGAAAAA
1 TAGCAAAACAGTAAAAACAATAAGAAAAA
7372352 GCAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.35
32 6 0.23
33 11 0.42
ACGTcount: A:0.68, C:0.06, G:0.11, T:0.15
Consensus pattern (32 bp):
TAGCAAAACAGTAAAAACAATAAGAAAAATAA
Found at i:7376523 original size:14 final size:14
Alignment explanation
Indices: 7376504--7376543 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7376494 TTGATTGGCA
7376504 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
7376518 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
7376532 GGAAAATGTTTT
1 GTAAAATGTTTT
7376544 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:7376556 original size:34 final size:35
Alignment explanation
Indices: 7376512--7376578 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
7376502 CAGTAAAATG
* *
7376512 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
7376546 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
7376579 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:7376565 original size:20 final size:20
Alignment explanation
Indices: 7376527--7376566 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7376517 CGTAAAATGA
**
7376527 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
7376547 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
7376567 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:7378129 original size:13 final size:13
Alignment explanation
Indices: 7378111--7378136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7378101 CCAGAAACTG
7378111 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7378124 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7378137 TACCCATTTG
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:7381428 original size:21 final size:21
Alignment explanation
Indices: 7381397--7381496 Score: 84
Period size: 21 Copynumber: 4.9 Consensus size: 21
7381387 TTAAAATTAA
7381397 TATAAAT-TTATAAAAAAACT
1 TATAAATATTATAAAAAAACT
* *
7381417 TATAAATATTATACAAATACT
1 TATAAATATTATAAAAAAACT
*
7381438 AATAAATTATT-TAAAAAAA-T
1 TATAAA-TATTATAAAAAAACT
* *
7381458 TAT-AATATTAATAAAACACATT
1 TATAAATATT-ATAAAA-AAACT
*
7381480 TA-AAATTTTATAAAAAA
1 TATAAATATTATAAAAAA
7381497 TCACCAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.06
19 2 0.03
20 16 0.25
21 30 0.47
22 12 0.19
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAAATATTATAAAAAAACT
Found at i:7383082 original size:17 final size:18
Alignment explanation
Indices: 7383037--7383083 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
7383027 TATATAGGCA
7383037 ACATTTTTATTATTATTT
1 ACATTTTTATTATTATTT
7383055 ACATTAATTTATTA-TATATT
1 ACATT--TTTATTATTAT-TT
7383075 A-ATTTTTAT
1 ACATTTTTAT
7383084 GTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 6 0.23
20 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ACATTTTTATTATTATTT
Found at i:7385838 original size:20 final size:21
Alignment explanation
Indices: 7385813--7385852 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7385803 TTTAATAATT
*
7385813 TAAATATAA-TATTTTTTAAG
1 TAAATAAAAGTATTTTTTAAG
7385833 TAAATAAAAGTATTTTTTAA
1 TAAATAAAAGTATTTTTTAA
7385853 AACTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAATAAAAGTATTTTTTAAG
Found at i:7385915 original size:29 final size:29
Alignment explanation
Indices: 7385861--7385918 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
7385851 AAAACTTTAA
* * *
7385861 AATTATTTTTATTATTTGAAATATAAAAT
1 AATTATTTTTATTATATAAAAAATAAAAT
7385890 AATTATTTTTA-TATCATAAAAAATAAAAT
1 AATTATTTTTATTAT-ATAAAAAATAAAAT
7385919 TAACTATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
AATTATTTTTATTATATAAAAAATAAAAT
Found at i:7390905 original size:37 final size:37
Alignment explanation
Indices: 7390861--7390953 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
7390851 CACTTATCCC
*
7390861 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCT
*
7390898 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCT
*
7390935 TGATCAGATAAGTATAGCC
1 TGATCAGATAAGTGTAGCC
7390954 GAAGCTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCT
Found at i:7390995 original size:52 final size:52
Alignment explanation
Indices: 7390916--7391132 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
7390906 TAAGTGTAGC
* *
7390916 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
7390969 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
7391021 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
7391067 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
7391119 CACTTTGTCACTTG
1 CACTTT-TCACTTG
7391133 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:7391038 original size:46 final size:46
Alignment explanation
Indices: 7390966--7391138 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
7390956 AGCTATCACT
*
7390966 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
7391011 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
7391057 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
7391109 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
7391139 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:7391082 original size:98 final size:98
Alignment explanation
Indices: 7390915--7391138 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
7390905 ATAAGTGTAG
* *
7390915 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
7390980 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
7391013 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
7391078 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
7391111 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
7391139 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:7399527 original size:40 final size:39
Alignment explanation
Indices: 7399467--7399595 Score: 95
Period size: 40 Copynumber: 3.3 Consensus size: 39
7399457 AACACACTAG
* *
7399467 TTTGGCACCCAAG-GCCTCATCAGATAATTCGAAGTAATAA
1 TTTGACACCC-AGTGCCTCATC-GATAATCCGAAGTAATAA
* *
7399507 TTTGACACCCAGTGCCTCATCGGTTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAATAA
* * * * *
7399545 -TTGGCACTCAATGCCTCATCGAATTAATGCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCG-A-TAATCCGAAGTAATAA
*
7399585 ATTGACACCCA
1 TTTGACACCCA
7399596 ATATCTCATC
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
36 1 0.01
37 17 0.25
38 11 0.16
39 3 0.04
40 29 0.42
41 8 0.12
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGATAATCCGAAGTAATAA
Found at i:7400886 original size:7 final size:7
Alignment explanation
Indices: 7400876--7400902 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7400866 TTATTATTCA
7400876 TTATTAG
1 TTATTAG
7400883 TTATTAG
1 TTATTAG
7400890 TTATTAG
1 TTATTAG
7400897 TTATTA
1 TTATTA
7400903 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TTATTAG
Found at i:7400886 original size:14 final size:13
Alignment explanation
Indices: 7400869--7400905 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
7400859 AAGATATTTA
7400869 TTATTCATTATTAG
1 TTATT-ATTATTAG
7400883 TTATTAGTTATTAG
1 TTATTA-TTATTAG
7400897 TTATTATTA
1 TTATTATTA
7400906 AATTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (13 bp):
TTATTATTATTAG
Found at i:7401208 original size:14 final size:14
Alignment explanation
Indices: 7401186--7401242 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
7401176 AATAATTAAT
7401186 TAAACATAAAAGAAA
1 TAAA-ATAAAAGAAA
*
7401201 TAAAATAAAGGAAA
1 TAAAATAAAAGAAA
* *
7401215 TAAAGT-AAAGTAAGT
1 TAAAATAAAAG-AA-A
7401230 TAAAATAAAAGAA
1 TAAAATAAAAGAA
7401243 TAGAAGGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 16 0.47
15 11 0.32
16 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:7401967 original size:12 final size:12
Alignment explanation
Indices: 7401950--7401992 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7401940 ATGTGAAGTA
7401950 AGTATTAATATT
1 AGTATTAATATT
*
7401962 AGTATTAATATA
1 AGTATTAATATT
* *
7401974 ATTATTAGTATT
1 AGTATTAATATT
*
7401986 ATTATTA
1 AGTATTA
7401993 TTATGAGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
AGTATTAATATT
Found at i:7401981 original size:18 final size:18
Alignment explanation
Indices: 7401958--7401996 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7401948 TAAGTATTAA
7401958 TATTAGTATTAATATAAT
1 TATTAGTATTAATATAAT
* *
7401976 TATTAGTATTATTATTAT
1 TATTAGTATTAATATAAT
7401994 TAT
1 TAT
7401997 GAGTGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTAGTATTAATATAAT
Found at i:7403494 original size:4 final size:4
Alignment explanation
Indices: 7403487--7403541 Score: 58
Period size: 4 Copynumber: 13.0 Consensus size: 4
7403477 TTTCTCCTTC
*
7403487 CTTT CTTT CTTT -TTT CTTTT TTTT CTTT CTTT CTATTT CGTTT CTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT C--TTT C-TTT CTTT
7403534 CTTT CTTT
1 CTTT CTTT
7403542 TTATTTATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.07
4 30 0.68
5 7 0.16
6 4 0.09
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:7403532 original size:19 final size:17
Alignment explanation
Indices: 7403488--7403542 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 17
7403478 TTCTCCTTCC
7403488 TTTCTTTCTTT-TTTCT
1 TTTCTTTCTTTCTTTCT
*
7403504 TTTTTTTCTTTCTTTCT
1 TTTCTTTCTTTCTTTCT
7403521 ATTTCGTTTCTTTCTTTCT
1 -TTTC-TTTCTTTCTTTCT
7403540 TTT
1 TTT
7403543 TATTTATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 10 0.29
17 5 0.15
18 6 0.18
19 13 0.38
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTCT
Found at i:7403534 original size:23 final size:23
Alignment explanation
Indices: 7403487--7403547 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
7403477 TTTCTCCTTC
* * *
7403487 CTTTCTTTCTTTTTTCTTTTTTTT
1 CTTTCTTTC-TATTTCGTTTCTTT
7403511 CTTTCTTTCTATTTCGTTTCTTT
1 CTTTCTTTCTATTTCGTTTCTTT
*
7403534 CTTTCTTTTTATTT
1 CTTTCTTTCTATTT
7403548 ATTCTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (23 bp):
CTTTCTTTCTATTTCGTTTCTTT
Found at i:7403574 original size:5 final size:5
Alignment explanation
Indices: 7403564--7403592 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7403554 TATTTTTTAT
7403564 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
7403593 TACTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:7403606 original size:57 final size:57
Alignment explanation
Indices: 7403538--7403649 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
7403528 TTCTTTCTTT
7403538 CTTTTTATTTATTCTTTATTTTTTATTATA-ATATAATATAATATAATATAATATATA
1 CTTTTTATTTATTCTTTATTTTTTATTATATAT-TAATATAATATAATATAATATATA
*
7403595 CTTTTTATTTATTCTTTATTTTTTATTATATATTATTATAATATAATATAATATA
1 CTTTTTATTTATTCTTTATTTTTTATTATATATTAATATAATATAATATAATATA
7403650 ATATATATAC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
57 51 0.96
58 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (57 bp):
CTTTTTATTTATTCTTTATTTTTTATTATATATTAATATAATATAATATAATATATA
Found at i:7411250 original size:14 final size:14
Alignment explanation
Indices: 7411221--7411249 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7411211 TATATTTTGA
7411221 TTAATTATTATATT
1 TTAATTATTATATT
7411235 TTAA-TATTATATT
1 TTAATTATTATATT
7411248 TT
1 TT
7411250 TCTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAATTATTATATT
Found at i:7418532 original size:19 final size:21
Alignment explanation
Indices: 7418498--7418539 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
7418488 TTTTTTATTC
7418498 ATCATTTTTCCAATAAAA-AA
1 ATCATTTTTCCAATAAAATAA
*
7418518 ATCATTTTTTC-ATAAAATAA
1 ATCATTTTTCCAATAAAATAA
7418538 AT
1 AT
7418540 AAAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCATTTTTCCAATAAAATAA
Found at i:7433291 original size:12 final size:13
Alignment explanation
Indices: 7433274--7433310 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7433264 GAACCGGACA
7433274 CGAACCGAA-CTC
1 CGAACCGAAGCTC
7433286 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
7433298 CGAACCGTAGCTC
1 CGAACCGAAGCTC
7433311 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:7435863 original size:3 final size:3
Alignment explanation
Indices: 7435848--7435878 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7435838 GTGATTGTTA
*
7435848 TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7435879 TTCTTTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7447558 original size:14 final size:15
Alignment explanation
Indices: 7447533--7447563 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7447523 TTGACATAAA
7447533 TTTAATTACTAAATT
1 TTTAATTACTAAATT
7447548 TTTAA-TACTAAATT
1 TTTAATTACTAAATT
7447562 TT
1 TT
7447564 ATAAGTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATTACTAAATT
Found at i:7456696 original size:95 final size:94
Alignment explanation
Indices: 7456570--7456871 Score: 263
Period size: 95 Copynumber: 3.2 Consensus size: 94
7456560 TAAATAAAGG
* * * * * *
7456570 ATTAGGGTTTAGGGTT-TTTCAATTAAATTAATTATAAATGTTTCAAAAT-TAGATTA-GTTTTC
1 ATTAGGGTTTAGGGTTACTT-AAGTAAATTAATTATAAAT-TTTAAAAATCAAG-TTAGGGTTTA
* ** *
7456632 GTGTTTATTGTTTTTTAAGAAAAAATCAATTAA
63 GAG-TTAAAGTTTTTTAAGAAAAAATCAAATAA
* * *
7456665 GTTAGGGTTTAGGGTTACTTAAGTAATTTAATTAAAAAATTTTAAAAATCAAGTTAGGGTTTAGA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATT-ATAAATTTTAAAAATCAAGTTAGGGTTTAGA
7456730 GTTAAAGTTTTTTAAGAAAAAATCAAATAA
65 GTTAAAGTTTTTTAAGAAAAAATCAAATAA
* * * * *
7456760 ATTAGCGTTCATGGTTACTTAAGTAAATTAATTATAATTTTTAATAAAT-TAGTTAAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTAA-AAATCAAGTT-AGGGTTTAG
* * * * *
7456824 TA-TTTAGGGTTTTTAAGTAAAAACTTAAATAA
64 -AGTTAAAGTTTTTTAAG-AAAAAATCAAATAA
* *
7456856 ATTAAGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
7456872 TAGGGTTACT
Statistics
Matches: 168, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
94 13 0.08
95 116 0.69
96 39 0.23
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTAAAAATCAAGTTAGGGTTTAGAG
TTAAAGTTTTTTAAGAAAAAATCAAATAA
Found at i:7457079 original size:126 final size:126
Alignment explanation
Indices: 7456905--7457196 Score: 458
Period size: 126 Copynumber: 2.3 Consensus size: 126
7456895 TTGTTAATTT
* ** *
7456905 AAAGAAGCTCTCACGTGGACGCGCTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
* * *
7456970 GTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
* *
7457031 AAAGAATCTCTCACGTGGACGCGCTTTTGCTACAGTATCCCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
* *
7457096 GTTTCTGAGCAAACATTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
* **
7457157 AAAGAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCC
7457197 TTTGAAAAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 150 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:7457213 original size:44 final size:44
Alignment explanation
Indices: 7457155--7457239 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
7457145 GCAGAAGTAC
*
7457155 TGAAAGAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
1 TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
* **
7457199 TGAAAAAAGGTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGC
7457240 GCATTGCCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
Found at i:7461678 original size:46 final size:46
Alignment explanation
Indices: 7461601--7461832 Score: 313
Period size: 46 Copynumber: 5.0 Consensus size: 46
7461591 CCATGGCAAA
* *
7461601 TTGTGAAAAGTAGGTATGGTGCTTCAGTAAAGAAAACCATACGGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* * *
7461647 TTGCGAAAAGTATGTATGGTATTTC-GATAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAG-TAAAGAAAACCATACTGAG
* * *
7461693 TTGTGAAAAGCATGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* *
7461739 TTGTGAAAAGTAGGTATGGTGTTTCATTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* * * * *
7461785 TTGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAATCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
7461831 TT
1 TT
7461833 ATAGCAATGT
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
Found at i:7469759 original size:12 final size:12
Alignment explanation
Indices: 7469742--7469769 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7469732 AGAGGAATTT
7469742 GAGAGAATATTA
1 GAGAGAATATTA
7469754 GAGAGAATATTA
1 GAGAGAATATTA
7469766 GAGA
1 GAGA
7469770 AAGGGTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (12 bp):
GAGAGAATATTA
Found at i:7469761 original size:22 final size:19
Alignment explanation
Indices: 7469713--7469770 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 19
7469703 CTTTTAAATA
7469713 AGAATTTAAGAGCAATTTGAG
1 AGAATTT-AGAG-AATTTGAG
7469734 AGGAATTTGAGAGAATATTAGAG
1 A-GAATTT-AGAGAAT-TT-GAG
7469757 AGAATATTAGAGAA
1 AGAAT-TTAGAGAA
7469771 AGGGTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.12
22 22 0.69
23 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (19 bp):
AGAATTTAGAGAATTTGAG
Found at i:7480488 original size:20 final size:20
Alignment explanation
Indices: 7480463--7480512 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7480453 TGGCTTAAAA
7480463 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7480483 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7480500 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7480513 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7485128 original size:20 final size:20
Alignment explanation
Indices: 7485103--7485152 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7485093 TGGCTTAAAA
7485103 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7485123 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7485140 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7485153 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7507568 original size:13 final size:13
Alignment explanation
Indices: 7507552--7507591 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7507542 TTTAAATCAA
7507552 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
7507565 ACTTCTTC-ACAGC
1 ACTT-TTCAAAAGC
7507578 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7507591 A
1 A
7507592 ATGAAGGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7508097 original size:22 final size:20
Alignment explanation
Indices: 7508062--7508112 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
7508052 CGTGCATGTA
*
7508062 TTTTTTTATAAATTTCTATTT
1 TTTTTTTATAAATTT-AATTT
7508083 TTATTTTTA-AGAATTTAATTT
1 TT-TTTTTATA-AATTTAATTT
7508104 TTTTTTTAT
1 TTTTTTTAT
7508113 TTTTTAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTTTATAAATTTAATTT
Found at i:7518215 original size:30 final size:30
Alignment explanation
Indices: 7518179--7518236 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7518169 TTTCATCTTT
*
7518179 TAAAATTTTAAATTAATCCTCTAAAAATGA
1 TAAAATTTTAAATTAATACTCTAAAAATGA
* *
7518209 TAAAATTTTAATTTAATACTTTAAAAAT
1 TAAAATTTTAAATTAATACTCTAAAAAT
7518237 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (30 bp):
TAAAATTTTAAATTAATACTCTAAAAATGA
Found at i:7535411 original size:5 final size:5
Alignment explanation
Indices: 7535397--7535444 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
7535387 CAATATTAAG
7535397 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
7535445 GTAAAACAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.09
5 39 0.91
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:7535549 original size:14 final size:14
Alignment explanation
Indices: 7535530--7535557 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7535520 AACATAAGGG
7535530 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
7535544 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
7535558 GGAGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:7536258 original size:15 final size:15
Alignment explanation
Indices: 7536238--7536286 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
7536228 TATGTGATAA
7536238 ATTGATTGAATTTAT
1 ATTGATTGAATTTAT
7536253 ATTGATTGAATTGGTAT
1 ATTGATTGAATT--TAT
*
7536270 ATAT-ATTGAATATAT
1 AT-TGATTGAATTTAT
7536285 AT
1 AT
7536287 ACTGGTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 17 0.57
17 12 0.40
18 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (15 bp):
ATTGATTGAATTTAT
Found at i:7536444 original size:41 final size:39
Alignment explanation
Indices: 7536400--7536534 Score: 130
Period size: 41 Copynumber: 3.4 Consensus size: 39
7536390 GACTTCGAGT
*
7536400 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTCAATTTACTACTT-GGATT-ATC
* * * *
7536441 CGATGAGGCACTGGGTGCCAATTTACT--TTGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTACTACTTGGATTATC
* * * *
7536478 CGATGAGACACTGGATGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTAC-TTGGATTATC
* *
7536518 CGATGAGATACTAGGTG
1 CGATGAGACACTGGGTG
7536535 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 23 0.31
38 4 0.05
39 2 0.03
40 21 0.28
41 25 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTGGATTATC
Found at i:7536521 original size:40 final size:40
Alignment explanation
Indices: 7536400--7536539 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
7536390 GACTTCGAGT
* * * *
7536400 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATT-ATC
* * * *
7536441 CGATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
7536478 CGATGAGACACTGGATGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* * *
7536518 CGATGAGATACTAGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
7536540 CTGGTGTGTT
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.15
39 2 0.03
40 32 0.41
41 16 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:7548251 original size:16 final size:17
Alignment explanation
Indices: 7548230--7548263 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7548220 TAAAAGAACT
7548230 TTAAAAGTATAAA-AAA
1 TTAAAAGTATAAATAAA
*
7548246 TTAAAATTATAAATAAA
1 TTAAAAGTATAAATAAA
7548263 T
1 T
7548264 ATAAGTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAAAGTATAAATAAA
Found at i:7548342 original size:20 final size:20
Alignment explanation
Indices: 7548298--7548343 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
7548288 GTGAAAAGTA
*
7548298 ATAAAAAATATAAAAAACTT
1 ATAAAAAATATAAAAAAATT
7548318 ATAAAAAA-ATAATAAAAATT
1 ATAAAAAATATAA-AAAAATT
*
7548338 GTAAAA
1 ATAAAA
7548344 TATTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAAAAATATAAAAAAATT
Found at i:7548345 original size:17 final size:17
Alignment explanation
Indices: 7548323--7548361 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7548313 AACTTATAAA
7548323 AAAATAATAAAAATTGT
1 AAAATAATAAAAATTGT
* * *
7548340 AAAATATTGAAAATTTT
1 AAAATAATAAAAATTGT
7548357 AAAAT
1 AAAAT
7548362 GTTTATTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAATAATAAAAATTGT
Found at i:7549008 original size:16 final size:18
Alignment explanation
Indices: 7548981--7549015 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7548971 ATGTGATTTA
7548981 TAAAATTTTATAA-ATAT
1 TAAAATTTTATAATATAT
7548998 TAAAA-TTTATAATATAT
1 TAAAATTTTATAATATAT
7549015 T
1 T
7549016 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTATAATATAT
Found at i:7551254 original size:37 final size:37
Alignment explanation
Indices: 7551204--7551278 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
7551194 GATCACAGTG
7551204 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
1 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
7551241 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
1 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
7551278 A
1 A
7551279 CTCGGAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (37 bp):
AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
Found at i:7552676 original size:20 final size:21
Alignment explanation
Indices: 7552647--7552691 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7552637 TATAATTGAA
*
7552647 TTAATGAATT-AATTAAAGGT
1 TTAATGAATTCAATAAAAGGT
* *
7552667 TTAATTAATTCAATAAAATGT
1 TTAATGAATTCAATAAAAGGT
7552688 TTAA
1 TTAA
7552692 ATATAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (21 bp):
TTAATGAATTCAATAAAAGGT
Found at i:7558600 original size:19 final size:20
Alignment explanation
Indices: 7558573--7558619 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
7558563 AAATATTTCA
7558573 ATATAA-TTTATTAAATTAT
1 ATATAATTTTATTAAATTAT
*
7558592 ATATTATTTTTATTAAATTAT
1 ATA-TAATTTTATTAAATTAT
*
7558613 ATTTAAT
1 ATATAAT
7558620 AATATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 5 0.22
21 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATAATTTTATTAAATTAT
Found at i:7558633 original size:25 final size:25
Alignment explanation
Indices: 7558599--7558646 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7558589 TATATATTAT
* *
7558599 TTTTATTAAATTATATTTAATAATA
1 TTTTAATAAAATATATTTAATAATA
*
7558624 TTTTAATAAAATATTTTTAATAA
1 TTTTAATAAAATATATTTAATAA
7558647 CAATCCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAATAAAATATATTTAATAATA
Found at i:7558643 original size:14 final size:14
Alignment explanation
Indices: 7558596--7558646 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
7558586 AATTATATAT
* *
7558596 TATTTTTATTAAAT
1 TATTTTTAATAAAA
*
7558610 TATATTTAAT--AA
1 TATTTTTAATAAAA
7558622 TA-TTTTAATAAAA
1 TATTTTTAATAAAA
7558635 TATTTTTAATAA
1 TATTTTTAATAA
7558647 CAATCCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.20
12 3 0.10
13 4 0.13
14 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTAATAAAA
Found at i:7575743 original size:2 final size:2
Alignment explanation
Indices: 7575731--7575760 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7575721 TTGGTTTAAA
7575731 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7575761 ATAACATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7576082 original size:38 final size:37
Alignment explanation
Indices: 7576005--7576085 Score: 92
Period size: 39 Copynumber: 2.2 Consensus size: 37
7575995 AAATAAAATT
* ** * *
7576005 AAAATAATCAAAACAACATGCCAAATAAATTTCTTTA
1 AAAAAAATCAAAACAACATAACAAATAAATTACTATA
7576042 AAAAAAATCTAAAACACACATAACAAATAAATTAC-ATA
1 AAAAAAATC-AAAACA-ACATAACAAATAAATTACTATA
7576080 AAAAAA
1 AAAAAA
7576086 TAAAATATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 8 0.22
38 14 0.38
39 15 0.41
ACGTcount: A:0.63, C:0.15, G:0.01, T:0.21
Consensus pattern (37 bp):
AAAAAAATCAAAACAACATAACAAATAAATTACTATA
Found at i:7577435 original size:16 final size:17
Alignment explanation
Indices: 7577414--7577451 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7577404 TTCTATATGG
*
7577414 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
7577430 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
7577448 ATTT
1 ATTT
7577452 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:7580193 original size:25 final size:23
Alignment explanation
Indices: 7580118--7580218 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 23
7580108 ACTAATGAAT
* *
7580118 AGAGAGCATTGAAGTGCTAT-AC
1 AGAGAGCACTGACGTGCTATAAC
* *
7580140 AGAGAGCACAGATGTGCTA-AAC
1 AGAGAGCACTGACGTGCTATAAC
*
7580162 GGAGAGCACTGACGTGCTAGTAATC
1 AGAGAGCACTGACGTGCTA-TAA-C
*
7580187 AGAGAGCAGC-AACGTGCTAATAATC
1 AGAGAGCA-CTGACGTGCT-ATAA-C
7580212 AGAGAGC
1 AGAGAGC
7580219 GCGCTAAAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
22 34 0.52
24 2 0.03
25 27 0.42
26 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.17
Consensus pattern (23 bp):
AGAGAGCACTGACGTGCTATAAC
Found at i:7580204 original size:47 final size:44
Alignment explanation
Indices: 7580119--7580206 Score: 106
Period size: 47 Copynumber: 1.9 Consensus size: 44
7580109 CTAATGAATA
* *
7580119 GAGAGCATTGAAGTGCTATACAGAGAGCACAGATGTGCTAAACG
1 GAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAACG
*
7580163 GAGAGCACTGACGTGCTAGTAATCAGAGAGCAGCA-ACGTGCTAA
1 GAGAGCACTGAAGTGCTA-T-A-CAGAGAGCA-CAGACGTGCTAA
7580207 TAATCAGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 16 0.43
45 1 0.03
46 1 0.03
47 17 0.46
48 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (44 bp):
GAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAACG
Found at i:7581207 original size:11 final size:13
Alignment explanation
Indices: 7581176--7581216 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
7581166 TCATTTACTT
7581176 TATATAT-ATATA
1 TATATATAATATA
7581188 TATATATAATAT-
1 TATATATAATATA
7581200 TATA-ATAATATA
1 TATATATAATATA
7581212 -ATATA
1 TATATA
7581217 ACAACATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.38
12 12 0.46
13 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATATAATATA
Found at i:7600694 original size:10 final size:10
Alignment explanation
Indices: 7600679--7600831 Score: 65
Period size: 10 Copynumber: 15.3 Consensus size: 10
7600669 GAAGGAGAGG
7600679 GAAAGAAGAA
1 GAAAGAAGAA
7600689 GAAAGAAAGGAA
1 GAAAG-AA-GAA
*
7600701 GAAAGAAAAA
1 GAAAGAAGAA
*
7600711 GAAGGAA-AA
1 GAAAGAAGAA
*
7600720 GGAAAGGAG-A
1 -GAAAGAAGAA
7600730 G-AA-AAGAAA
1 GAAAGAAG-AA
7600739 GAAA-AAGAA
1 GAAAGAAGAA
7600748 GGAAAGAA-AA
1 -GAAAGAAGAA
** *
7600758 GGAAAGGGGAG
1 -GAAAGAAGAA
7600769 GAAAG-A-AA
1 GAAAGAAGAA
7600777 GAAA-AAGAA
1 GAAAGAAGAA
7600786 GGAAAGAA-AA
1 -GAAAGAAGAA
*
7600796 GGAAAGTAGAAGA
1 -GAAAGAAG-A-A
* *
7600809 GAAAAAAAAA
1 GAAAGAAGAA
7600819 GAAAGAAGAA
1 GAAAGAAGAA
7600829 GAA
1 GAA
7600832 GAGGGAAGGA
Statistics
Matches: 110, Mismatches: 16, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
7 2 0.02
8 8 0.07
9 9 0.08
10 66 0.60
11 10 0.09
12 14 0.13
13 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:7600724 original size:28 final size:30
Alignment explanation
Indices: 7600680--7600756 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
7600670 AAGGAGAGGG
7600680 AAAGAAGAAGAAAGAAAGGA-AG-AAAGAA
1 AAAGAAGAAGAAAGAAAGGAGAGAAAAGAA
*
7600708 AAAGAAGGAA-AAGGAAAGGAGAGAAAAGAA
1 AAAGAA-GAAGAAAGAAAGGAGAGAAAAGAA
*
7600738 AGAAAAAGAAGGAAAGAAA
1 A-AAGAAGAA-GAAAGAAA
7600757 AGGAAAGGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 15 0.38
29 5 0.12
30 10 0.25
31 4 0.10
32 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
AAAGAAGAAGAAAGAAAGGAGAGAAAAGAA
Found at i:7600757 original size:38 final size:36
Alignment explanation
Indices: 7600699--7600857 Score: 157
Period size: 38 Copynumber: 4.3 Consensus size: 36
7600689 GAAAGAAAGG
7600699 AAGAAAGAAAAAGAAG--GAAAAGGAAAGGAGAGAA
1 AAGAAAGAAAAAGAAGAAGAAAAGGAAAGGAGAGAA
* *
7600733 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAA-G-AAGAAAAGGAAAGGAGAGAA
7600771 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGTAGAAGAGAA
1 AAGAAAGAAAAAGAA-G-AAGAAAAGGAAAG--G-AGAGAA
* *
7600812 AA-AAA-AAGAAAGAAGAAGAAGAGGGAAGGA-AGGAA
1 AAGAAAGAA-AAAGAAGAAGAAAAGGAAAGGAGA-GAA
*
7600847 AAAAAAGAAAA
1 AAGAAAGAAAA
7600858 TAAGGTAATT
Statistics
Matches: 108, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
34 16 0.15
35 7 0.06
36 6 0.06
37 2 0.02
38 58 0.54
39 3 0.03
40 10 0.09
41 6 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (36 bp):
AAGAAAGAAAAAGAAGAAGAAAAGGAAAGGAGAGAA
Found at i:7600763 original size:28 final size:28
Alignment explanation
Indices: 7600679--7600763 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 28
7600669 GAAGGAGAGG
7600679 GAAAGAAGAA-GAAAG-AAAGG-AAGAAA
1 GAAA-AAGAAGGAAAGAAAAGGAAAGAAA
7600705 GAAAAAGAAGGAAAAGGAAAGGAGAGAAAAGAAA
1 GAAAAAGAAGG-AAA-GAAA--AG-G-AAAGAAA
7600739 GAAAAAGAAGGAAAGAAAAGGAAAG
1 GAAAAAGAAGGAAAGAAAAGGAAAG
7600764 GGGAGGAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
25 5 0.10
26 5 0.10
27 3 0.06
28 5 0.10
29 3 0.06
30 2 0.04
31 2 0.04
32 5 0.10
33 3 0.06
34 17 0.34
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
GAAAAAGAAGGAAAGAAAAGGAAAGAAA
Found at i:7600831 original size:76 final size:72
Alignment explanation
Indices: 7600699--7600857 Score: 178
Period size: 76 Copynumber: 2.2 Consensus size: 72
7600689 GAAAGAAAGG
* * *
7600699 AAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 AAGAAAGAAAAAGAAGGAAAAGAAAAGGAGAGAAAAGAAAAAAAAAGAAGAAAAGAAAAGGAAA-
*
7600764 GGGAGG-A
65 GGAAGGAA
* *
7600771 AAGAAAGAAAAAGAAGG-AAAGAAAAGGAAAGTAGAAGAGAAAAAAAAAGAAAGAAGAAGAAGAG
1 AAGAAAGAAAAAGAAGGAAAAGAAAAGG--AG-AGAAAAGAAAAAAAAAG-AAGAA-AAGAAAAG
*
7600835 GGAAGGAAGGAA
61 GAAAGGAAGGAA
*
7600847 AAAAAAGAAAA
1 AAGAAAGAAAA
7600858 TAAGGTAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
71 9 0.12
72 17 0.23
73 2 0.03
74 15 0.21
75 9 0.12
76 21 0.29
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (72 bp):
AAGAAAGAAAAAGAAGGAAAAGAAAAGGAGAGAAAAGAAAAAAAAAGAAGAAAAGAAAAGGAAAG
GAAGGAA
Found at i:7601562 original size:19 final size:19
Alignment explanation
Indices: 7601538--7601589 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7601528 AAAATATATA
*
7601538 TAATATTTTGA-TATTTTTT
1 TAATATTTT-ATTATTTTTG
7601557 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
7601576 TAATGTTTTATTAT
1 TAATATTTTATTAT
7601590 GGGTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:7601669 original size:28 final size:27
Alignment explanation
Indices: 7601626--7601694 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
7601616 AAATAAAAAA
7601626 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
7601653 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
*
7601680 TTTCCAAAATATATA
1 TTACCAAAATATATA
7601695 AAAAAAAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:7601726 original size:17 final size:17
Alignment explanation
Indices: 7601692--7601725 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7601682 TCCAAAATAT
7601692 ATAAAAAAAAGTAAAAA
1 ATAAAAAAAAGTAAAAA
7601709 ATAAAAAAAA-TAAAAA
1 ATAAAAAAAAGTAAAAA
7601725 A
1 A
7601726 ACAGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (17 bp):
ATAAAAAAAAGTAAAAA
Found at i:7605372 original size:52 final size:52
Alignment explanation
Indices: 7605301--7605648 Score: 459
Period size: 52 Copynumber: 6.9 Consensus size: 52
7605291 ATCAAGTGAC
* **
7605301 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7605353 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7605405 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
7605451 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7605503 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
7605549 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAAAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
7605601 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
7605649 AGTGATAAGT
Statistics
Matches: 262, Mismatches: 22, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
46 84 0.32
52 178 0.68
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:7605423 original size:98 final size:98
Alignment explanation
Indices: 7605353--7605659 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
7605343 TGACAAGTGG
* *
7605353 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
7605418 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
7605451 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
7605516 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* * *
7605549 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAAAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
7605614 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
7605647 AAAGTGATAAGTG
1 AAAGTGATAAGTG
7605660 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:7605507 original size:150 final size:144
Alignment explanation
Indices: 7605287--7605648 Score: 571
Period size: 150 Copynumber: 2.4 Consensus size: 144
7605277 TTTGAGTACT
7605287 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
7605352 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
7605417 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
7605437 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
7605502 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
7605567 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* * *
7605581 TCTGATCAAGTGAAAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTG---A---CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
7605646 CAA
60 CAA
7605649 AGTGATAAGT
Statistics
Matches: 201, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
144 42 0.21
147 1 0.00
150 158 0.79
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:7605667 original size:37 final size:37
Alignment explanation
Indices: 7605623--7605731 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
7605613 GATAGCTTTA
7605623 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
7605660 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
7605697 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
7605732 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:7607843 original size:37 final size:37
Alignment explanation
Indices: 7607786--7607890 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
7607776 TATGATCACT
*
7607786 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
7607821 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
7607858 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
7607891 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:7607933 original size:52 final size:52
Alignment explanation
Indices: 7607854--7608070 Score: 275
Period size: 52 Copynumber: 4.2 Consensus size: 52
7607844 TAAGTGTAGC
* * *
7607854 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
7607907 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * * *
7607959 CAC---T---TTGTCACTTGATCAGATAAGTATAACCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
7608005 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
7608057 CACTTTGTCACTTG
1 CACTTT-TCACTTG
7608071 ATCAGAAGTA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 42 0.30
49 1 0.01
52 84 0.59
53 15 0.11
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:7607976 original size:46 final size:46
Alignment explanation
Indices: 7607904--7608076 Score: 222
Period size: 46 Copynumber: 3.7 Consensus size: 46
7607894 AGCTATCACT
*
7607904 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
7607949 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAACCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
7607995 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
7608047 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
7608077 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
45 12 0.11
46 58 0.52
48 1 0.01
50 1 0.01
52 39 0.35
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:7608020 original size:98 final size:98
Alignment explanation
Indices: 7607853--7608076 Score: 358
Period size: 98 Copynumber: 2.3 Consensus size: 98
7607843 ATAAGTGTAG
* * * * *
7607853 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAACCAAAGCTATCACTTATCACTTTCCACT
*
7607918 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
7607951 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAACCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAACCAAAGCTATCACTTATCACTTTCCACT
*
7608016 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
7608049 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
7608077 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 115 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAACCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:7610762 original size:52 final size:52
Alignment explanation
Indices: 7610700--7610831 Score: 219
Period size: 52 Copynumber: 2.5 Consensus size: 52
7610690 TCCAAATATC
* *
7610700 ATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTT
1 ATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTT
7610752 ATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTT
1 ATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTT
* *
7610804 ATCTGATCAAGAGACAAAGTGATAAGTG
1 ATCTGATCAAGTGAC-AAGTGAAAAGTG
7610832 GCTACACTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 64 0.85
53 11 0.15
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (52 bp):
ATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTT
Found at i:7610839 original size:37 final size:37
Alignment explanation
Indices: 7610795--7610904 Score: 204
Period size: 37 Copynumber: 3.0 Consensus size: 37
7610785 GATAGCTTCA
7610795 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
7610832 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
7610869 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
7610905 ATCATACGTA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
36 12 0.17
37 60 0.83
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:7612220 original size:49 final size:49
Alignment explanation
Indices: 7612159--7612351 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
7612149 ATGTGAACAT
7612159 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
7612209 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
7612258 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
7612307 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
7612352 AGAAAACGAA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 132 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:7615564 original size:52 final size:52
Alignment explanation
Indices: 7615485--7615707 Score: 347
Period size: 52 Copynumber: 4.2 Consensus size: 52
7615475 TACTTCTGAT
* *
7615485 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
7615538 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
7615590 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
7615642 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
7615694 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
7615708 GCTACACTTA
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
52 141 0.89
53 17 0.11
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:7615715 original size:37 final size:37
Alignment explanation
Indices: 7615671--7615853 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
7615661 GATAGCTTTA
7615671 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
7615708 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
7615745 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
7615782 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
7615819 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
7615854 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:7617219 original size:3 final size:3
Alignment explanation
Indices: 7617211--7617263 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
7617201 AGTAACATCT
7617211 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
7617259 TAA TA
1 TAA TA
7617264 CTATAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7617607 original size:27 final size:27
Alignment explanation
Indices: 7617577--7617640 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
7617567 GCAGGACTGA
7617577 TGCCGCCAACAGGGAACCCTTGTTTGG
1 TGCCGCCAACAGGGAACCCTTGTTTGG
**
7617604 TGCCGCCAACAGGGTTCCCTTGTTTGG
1 TGCCGCCAACAGGGAACCCTTGTTTGG
*
7617631 TGCCACCAAC
1 TGCCGCCAAC
7617641 CTGCTTCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCCGCCAACAGGGAACCCTTGTTTGG
Found at i:7617648 original size:27 final size:27
Alignment explanation
Indices: 7617593--7617650 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
7617583 CAACAGGGAA
* *
7617593 CCCTTGTTTGGTGCCGCCAACAGGGTT
1 CCCTTGTTTGGTGCCACCAACAGGCTT
**
7617620 CCCTTGTTTGGTGCCACCAACCTGCTT
1 CCCTTGTTTGGTGCCACCAACAGGCTT
7617647 CCCT
1 CCCT
7617651 CCACCCAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.10, C:0.36, G:0.22, T:0.31
Consensus pattern (27 bp):
CCCTTGTTTGGTGCCACCAACAGGCTT
Done.