Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 52 of 213
Found at i:13990285 original size:22 final size:22
Alignment explanation
Indices: 13990230--13990294 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 22
13990220 TTTTGGTATT
* *
13990230 TGGTAATTGGTTCGAAATAGTA
1 TGGTAATTGGTACGAAATGGTA
13990252 TGG-AATTGGTACGAAATGGTA
1 TGGTAATTGGTACGAAATGGTA
* *
13990273 TGGTATTTGGTACGAATTGGTA
1 TGGTAATTGGTACGAAATGGTA
13990295 ATTGTTCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (22 bp):
TGGTAATTGGTACGAAATGGTA
Found at i:13994141 original size:16 final size:16
Alignment explanation
Indices: 13994117--13994155 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13994107 CTGTATACAA
13994117 TTTTTTTTTCAATTT-
1 TTTTTTTTTCAATTTC
*
13994132 TTTTTCTTTTCGATTTC
1 TTTTT-TTTTCAATTTC
13994149 TTTTTTT
1 TTTTTTT
13994156 CTTTTTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 11 0.52
17 5 0.24
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCAATTTC
Found at i:14004710 original size:18 final size:17
Alignment explanation
Indices: 14004682--14004716 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14004672 ATTATTAAGA
*
14004682 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14004699 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14004717 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14004854 original size:18 final size:17
Alignment explanation
Indices: 14004826--14004860 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14004816 ATTATTAAGA
*
14004826 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14004843 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14004861 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14005071 original size:44 final size:45
Alignment explanation
Indices: 14005022--14005116 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
14005012 TTACACCTCT
* *
14005022 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
14005066 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
14005111 ATTACA
1 ATTACA
14005117 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:14005116 original size:16 final size:16
Alignment explanation
Indices: 14005095--14005127 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14005085 TTGATTTGCT
*
14005095 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14005111 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
14005127 A
1 A
14005128 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14005137 original size:21 final size:21
Alignment explanation
Indices: 14005108--14005150 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14005098 ACACCTCTAT
*
14005108 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
14005129 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
14005150 T
1 T
14005151 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:14006993 original size:19 final size:18
Alignment explanation
Indices: 14006957--14006996 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14006947 TTTCCACTCG
*
14006957 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
14006975 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
14006994 TTT
1 TTT
14006997 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:14008077 original size:15 final size:14
Alignment explanation
Indices: 14008057--14008112 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
14008047 CTTCTTCTTC
14008057 TTTTTTCACGAAATT
1 TTTTTTCAC-AAATT
14008072 TTTTTTCACAAATTTT
1 TTTTTTCACAAA--TT
14008088 TTTTTTCA-AAATTT
1 TTTTTTCACAAA-TT
14008102 TTTTTTCACAA
1 TTTTTTCACAA
14008113 CTTGATATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.37
15 14 0.37
16 10 0.26
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (14 bp):
TTTTTTCACAAATT
Found at i:14008167 original size:12 final size:12
Alignment explanation
Indices: 14008150--14008196 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
14008140 TGGAAACTAG
14008150 TTTTTTTTCAAA
1 TTTTTTTTCAAA
*
14008162 TTTTTTTTTAAA
1 TTTTTTTTCAAA
* *
14008174 TTTTTTTTCGAG
1 TTTTTTTTCAAA
14008186 TTTTTTTTCAA
1 TTTTTTTTCAA
14008197 GAAACTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:14024292 original size:15 final size:16
Alignment explanation
Indices: 14024253--14024293 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
14024243 AACAACACTC
14024253 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
14024269 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
14024283 CTTTCTTTTTC
1 CTTTCTTTTTC
14024294 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:14024488 original size:17 final size:15
Alignment explanation
Indices: 14024451--14024489 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
14024441 TATGTCCCAC
14024451 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
14024467 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
14024484 TCATTT
1 TCATTT
14024490 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:14027204 original size:11 final size:11
Alignment explanation
Indices: 14027190--14027218 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
14027180 TCCAACTCAA
14027190 TTTTTTTTGA-
1 TTTTTTTTGAC
14027200 TTTTTTTTGAC
1 TTTTTTTTGAC
14027211 TTTTTTTT
1 TTTTTTTT
14027219 ACGTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:14028093 original size:13 final size:13
Alignment explanation
Indices: 14028075--14028148 Score: 78
Period size: 13 Copynumber: 5.5 Consensus size: 13
14028065 TTGGAGTAAC
14028075 AAAAAAAATT-AA
1 AAAAAAAATTGAA
14028087 AAAAAAAATTCGAA
1 AAAAAAAATT-GAA
*
14028101 AAAAAATTGATTGAA
1 AAAAAA--AATTGAA
*
14028116 AAAAAAAATTCAA
1 AAAAAAAATTGAA
* *
14028129 AAAAATAAGTGAA
1 AAAAAAAATTGAA
14028142 AAAAAAA
1 AAAAAAA
14028149 TCGAGCAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
12 10 0.20
13 21 0.41
14 8 0.16
15 9 0.18
16 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:14028146 original size:29 final size:29
Alignment explanation
Indices: 14028085--14028148 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
14028075 AAAAAAAATT
* * **
14028085 AAAAAAAAAATTCGAAAAAAAATTGATTG
1 AAAAAAAAAATTCAAAAAAAAAGTGATAA
14028114 AAAAAAAAAATTCAAAAAAATAAGTGA-AA
1 AAAAAAAAAATTCAAAAAAA-AAGTGATAA
14028143 AAAAAA
1 AAAAAA
14028149 TCGAGCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (29 bp):
AAAAAAAAAATTCAAAAAAAAAGTGATAA
Found at i:14028159 original size:41 final size:40
Alignment explanation
Indices: 14028075--14028164 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
14028065 TTGGAGTAAC
* *
14028075 AAAAAAAATTAAAAAAAAAATTCGAAAAAAAATTGATTGAA
1 AAAAAAAATTAAAAAAAAAAGTCGAAAAAAAATCGA-TGAA
*
14028116 AAAAAAAATTCAAAAAAATAAGT-GAAAAAAAAATCGA-GCAA
1 AAAAAAAATT-AAAAAAAAAAGTCG-AAAAAAAATCGATG-AA
14028157 AAAAAAAA
1 AAAAAAAA
14028165 GGGTGACCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 1 0.02
41 21 0.49
42 21 0.49
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (40 bp):
AAAAAAAATTAAAAAAAAAAGTCGAAAAAAAATCGATGAA
Found at i:14028160 original size:42 final size:41
Alignment explanation
Indices: 14028075--14028164 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 41
14028065 TTGGAGTAAC
* * ***
14028075 AAAAAAAATTAAAAAAAAAATTCGAAAAAAAATTGATTGAA
1 AAAAAAAATTAAAAAAAAAAGTCGAAAAAAAATCGAGCAAA
*
14028116 AAAAAAAATTCAAAAAAATAAGT-GAAAAAAAAATCGAGCAAA
1 AAAAAAAATT-AAAAAAAAAAGTCG-AAAAAAAATCGAGCAAA
14028158 AAAAAAA
1 AAAAAAA
14028165 GGGTGACCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 11 0.27
42 30 0.73
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (41 bp):
AAAAAAAATTAAAAAAAAAAGTCGAAAAAAAATCGAGCAAA
Found at i:14028161 original size:30 final size:29
Alignment explanation
Indices: 14028127--14028203 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
14028117 AAAAAAATTC
* *
14028127 AAAAAAATAAGTGAAAAAAAAATCGAGCA
1 AAAAAAAAAAGTGAAAAAAAAATCAAGCA
* * **
14028156 AAAAAAAAAGGGTGACCAAAAAAATCAAGTT
1 AAAAAAAAA-AGTGA-AAAAAAAATCAAGCA
14028187 AAAAAAAAAAGTGAAAA
1 AAAAAAAAAAGTGAAAA
14028204 GTCTTGCGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 10 0.26
30 8 0.21
31 20 0.53
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.10
Consensus pattern (29 bp):
AAAAAAAAAAGTGAAAAAAAAATCAAGCA
Found at i:14029166 original size:18 final size:18
Alignment explanation
Indices: 14029128--14029169 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14029118 AAATCGAAAG
* **
14029128 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
14029146 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
14029164 AAAAGA
1 AAAAGA
14029170 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:14030874 original size:10 final size:10
Alignment explanation
Indices: 14030859--14030896 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14030849 GCTCGTTTCC
*
14030859 AGCTCACTCG
1 AGCTCAATCG
14030869 AGCTCAAGTC-
1 AGCTCAA-TCG
14030879 AGCTCAATCG
1 AGCTCAATCG
14030889 AGCTCAAT
1 AGCTCAAT
14030897 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:14030883 original size:20 final size:20
Alignment explanation
Indices: 14030858--14030895 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14030848 AGCTCGTTTC
*
14030858 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
14030878 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
14030896 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:14030902 original size:20 final size:20
Alignment explanation
Indices: 14030859--14030919 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
14030849 GCTCGTTTCC
* * *
14030859 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
14030879 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
14030899 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
14030919 A
1 A
14030920 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:14030913 original size:11 final size:10
Alignment explanation
Indices: 14030869--14030915 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
14030859 AGCTCACTCG
*
14030869 AGCTCAAGTC
1 AGCTCAATTC
14030879 AGCTCAA-TC
1 AGCTCAATTC
*
14030888 GAGCTCAATTT
1 -AGCTCAATTC
14030899 AGCTACAATTC
1 AGCT-CAATTC
14030910 AGCTCA
1 AGCTCA
14030916 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 20 0.62
11 10 0.31
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:14032263 original size:20 final size:20
Alignment explanation
Indices: 14032240--14032286 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14032230 GGGTTAAGAT
*
14032240 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
14032260 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
14032280 TGAGCTG
1 TGAGCTG
14032287 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:14034472 original size:321 final size:321
Alignment explanation
Indices: 14033890--14034505 Score: 1214
Period size: 321 Copynumber: 1.9 Consensus size: 321
14033880 AGTTGGCTGC
14033890 TGCATTTTTCCTAAACAGCCGAATTTAATATGCCTTGTTGACCCAATTTTTGTTTTGCCTTAAAC
1 TGCATTTTTCCTAAACAGCCGAATTTAATATGCCTTGTTGACCCAATTTTTGTTTTGCCTTAAAC
14033955 TTGAGTTAATGGCTGATTTAAATGTGTGCAGGTGCATGGATATGGGGACGAATTTAAAGAACAAT
66 TTGAGTTAATGGCTGATTTAAATGTGTGCAGGTGCATGGATATGGGGACGAATTTAAAGAACAAT
14034020 TTATTATGCAGGTTTAATGCTAGCTGCCGAATTTAATGTGTCTACAATAGACTTAATAGCAAAGG
131 TTATTATGCAGGTTTAATGCTAGCTGCCGAATTTAATGTGTCTACAATAGACTTAATAGCAAAGG
14034085 GAAGCATTTAAAGAGCTGTTGACTTCTCCTTTAGAAGCATGCATGAACGGCATTAAAGGAAGCAT
196 GAAGCATTTAAAGAGCTGTTGACTTCTCCTTTAGAAGCATGCATGAACGGCATTAAAGGAAGCAT
14034150 GCATTGTGTTTCTATACATCAATTTTCGTGCATAGCAAAGGACTCATTAAGGGCTGCTGAT
261 GCATTGTGTTTCTATACATCAATTTTCGTGCATAGCAAAGGACTCATTAAGGGCTGCTGAT
14034211 TGCATTTTTCCTAAACAGCCGAATTTAATATGCCTTGTTGACCCAATTTTTGTTTTGCCTTAAAC
1 TGCATTTTTCCTAAACAGCCGAATTTAATATGCCTTGTTGACCCAATTTTTGTTTTGCCTTAAAC
*
14034276 TTGAGTTAATGGCTGATTTAAATGTGTGCAGGTGCATGGATATGGGGATGAATTTAAAGAACAAT
66 TTGAGTTAATGGCTGATTTAAATGTGTGCAGGTGCATGGATATGGGGACGAATTTAAAGAACAAT
14034341 TTATTATGCAGGTTTAATGCTAGCTGCCGAATTTAATGTGTCTACAATAGACTTAATAGCAAAGG
131 TTATTATGCAGGTTTAATGCTAGCTGCCGAATTTAATGTGTCTACAATAGACTTAATAGCAAAGG
14034406 GAAGCATTTAAAGAGCTGTTGACTTCTCCTTTAGAAGCATGCATGAACGGCATTAAAGGAAGCAT
196 GAAGCATTTAAAGAGCTGTTGACTTCTCCTTTAGAAGCATGCATGAACGGCATTAAAGGAAGCAT
*
14034471 GCATTGTGTTTCTATACATCCATTTTCGTGCATAG
261 GCATTGTGTTTCTATACATCAATTTTCGTGCATAG
14034506 ATGATACGGC
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
321 293 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (321 bp):
TGCATTTTTCCTAAACAGCCGAATTTAATATGCCTTGTTGACCCAATTTTTGTTTTGCCTTAAAC
TTGAGTTAATGGCTGATTTAAATGTGTGCAGGTGCATGGATATGGGGACGAATTTAAAGAACAAT
TTATTATGCAGGTTTAATGCTAGCTGCCGAATTTAATGTGTCTACAATAGACTTAATAGCAAAGG
GAAGCATTTAAAGAGCTGTTGACTTCTCCTTTAGAAGCATGCATGAACGGCATTAAAGGAAGCAT
GCATTGTGTTTCTATACATCAATTTTCGTGCATAGCAAAGGACTCATTAAGGGCTGCTGAT
Found at i:14034638 original size:10 final size:10
Alignment explanation
Indices: 14034623--14034660 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14034613 GCTCGTTTCC
*
14034623 AGCTCACTCG
1 AGCTCAATCG
14034633 AGCTCAAGTC-
1 AGCTCAA-TCG
14034643 AGCTCAATCG
1 AGCTCAATCG
14034653 AGCTCAAT
1 AGCTCAAT
14034661 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:14034666 original size:20 final size:20
Alignment explanation
Indices: 14034622--14034659 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14034612 AGCTCGTTTC
*
14034622 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
14034642 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
14034660 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:14036409 original size:13 final size:13
Alignment explanation
Indices: 14036393--14036454 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 13
14036383 CAAAAAAATC
14036393 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
14036406 AAAAAAAATTTGATTGA
1 AAAAAAAA--T--TCGA
14036423 AAAAAAAATTC-A
1 AAAAAAAATTCGA
*
14036435 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
14036447 AAAAAAAA
1 AAAAAAAA
14036455 ACCGAGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 19 0.46
13 9 0.22
15 2 0.05
17 11 0.27
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:14037403 original size:18 final size:18
Alignment explanation
Indices: 14037382--14037416 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14037372 AGAAAAGAAA
14037382 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
14037400 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
14037417 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:14039074 original size:10 final size:10
Alignment explanation
Indices: 14039059--14039096 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14039049 GCTCGTTTCC
*
14039059 AGCTCACTCG
1 AGCTCAATCG
14039069 AGCTCAAGTC-
1 AGCTCAA-TCG
14039079 AGCTCAATCG
1 AGCTCAATCG
14039089 AGCTCAAT
1 AGCTCAAT
14039097 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:14039102 original size:20 final size:20
Alignment explanation
Indices: 14039058--14039095 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14039048 AGCTCGTTTC
*
14039058 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
14039078 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
14039096 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:14041799 original size:12 final size:12
Alignment explanation
Indices: 14041793--14041837 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
14041783 AAAAAAATAT
14041793 AAAAAAATTCAA
1 AAAAAAATTCAA
*
14041805 AAAAAAAGTTTGAA
1 AAAAAAA--TTCAA
14041819 AAAAAAATTCAA
1 AAAAAAATTCAA
14041831 AAAAAAA
1 AAAAAAA
14041838 AAGTTTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 18 0.62
14 11 0.38
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:14041809 original size:13 final size:13
Alignment explanation
Indices: 14041793--14041838 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
14041783 AAAAAAATAT
14041793 AAAAAAATTCAAA
1 AAAAAAATTCAAA
* **
14041806 AAAAAAGTTTGAA
1 AAAAAAATTCAAA
14041819 AAAAAAATTCAAA
1 AAAAAAATTCAAA
14041832 AAAAAAA
1 AAAAAAA
14041839 AGTTTGTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:14041897 original size:12 final size:12
Alignment explanation
Indices: 14041880--14041932 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
14041870 ATTTAGTATT
14041880 GAAGAAAAAAAA
1 GAAGAAAAAAAA
14041892 GAAGAAAAAAAA
1 GAAGAAAAAAAA
*
14041904 TTCGGAATTAAAAAAAA
1 ----GAA-GAAAAAAAA
14041921 GAAGAAAAAAAA
1 GAAGAAAAAAAA
14041933 TCAAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 20 0.59
13 3 0.09
16 3 0.09
17 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (12 bp):
GAAGAAAAAAAA
Found at i:14041945 original size:29 final size:30
Alignment explanation
Indices: 14041883--14041953 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
14041873 TAGTATTGAA
**
14041883 GAAAAAAAAGAAGAAAAAAAATTCGGAATT
1 GAAAAAAAAGAAGAAAAAAAATTCAAAATT
14041913 -AAAAAAAAGAAGAAAAAAAA-TCAAAATT
1 GAAAAAAAAGAAGAAAAAAAATTCAAAATT
14041941 GAAAAAAAA-AAGA
1 GAAAAAAAAGAAGA
14041954 GTGATTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 10 0.26
29 28 0.74
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.10
Consensus pattern (30 bp):
GAAAAAAAAGAAGAAAAAAAATTCAAAATT
Found at i:14042788 original size:21 final size:20
Alignment explanation
Indices: 14042759--14042804 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14042749 AATCTTGAAT
*
14042759 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
14042780 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
14042800 GAAAA
1 GAAAA
14042805 AAAAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:14042820 original size:6 final size:6
Alignment explanation
Indices: 14042811--14042846 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
14042801 AAAAAAAAAT
* *
14042811 TTGAGA TTGAGA TTGAGA TTGATA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
14042847 AAAAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TTGAGA
Found at i:14042821 original size:27 final size:28
Alignment explanation
Indices: 14042756--14042822 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
14042746 ACGAATCTTG
* *
14042756 AATGAAATTGAG-AGAAGAAAAAAAGAA
1 AATGAGATTGAGAAAAAGAAAAAAAGAA
*
14042783 AATGAGAGTGAGAAAAAGAAAAAAA-AA
1 AATGAGATTGAGAAAAAGAAAAAAAGAA
**
14042810 TTTGAGATTGAGA
1 AATGAGATTGAGA
14042823 TTGAGATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (28 bp):
AATGAGATTGAGAAAAAGAAAAAAAGAA
Found at i:14046413 original size:13 final size:13
Alignment explanation
Indices: 14046395--14046420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14046385 ACCTGAAAGC
14046395 AATTTAATTCATA
1 AATTTAATTCATA
14046408 AATTTAATTCATA
1 AATTTAATTCATA
14046421 TTAGGACACA
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:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:14046835 original size:20 final size:21
Alignment explanation
Indices: 14046810--14046848 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14046800 TCAAACAAGC
14046810 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
14046830 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
14046849 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:14048303 original size:21 final size:23
Alignment explanation
Indices: 14048258--14048304 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14048248 TCACCTGCAA
*
14048258 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATGAGCTTAT
14048281 TAAACACATTAAAAT-A-CTTAT
1 TAAACACATTAAAATGAGCTTAT
14048302 TAA
1 TAA
14048305 TCATAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 1 0.04
23 15 0.65
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAACACATTAAAATGAGCTTAT
Found at i:14072826 original size:25 final size:25
Alignment explanation
Indices: 14072798--14072847 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14072788 GGGAAGATCT
*
14072798 TTCGAGCCATATAGTGAGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
** *
14072823 TTCGAGCTGTATAATGGGAAGCTCA
1 TTCGAGCCATATAATGAGAAGCTCA
14072848 AAAAGCTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
TTCGAGCCATATAATGAGAAGCTCA
Found at i:14072964 original size:25 final size:25
Alignment explanation
Indices: 14072879--14072964 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
14072869 CAGCGGGCCA
* *
14072879 ATATCGGGAAGCTCCGGAGAGCCAT
1 ATATCGGGAAGCTCTGGAGAGCTAT
* * * *
14072904 -TAATCGAGAAGCTCATGAAAAAGCCTTT
1 AT-ATCGGGAAGCTC-TG-GAGAG-CTAT
14072932 A-ATCGGGAAGCTCTGGAGAGCTAT
1 ATATCGGGAAGCTCTGGAGAGCTAT
14072956 ATATCGGGA
1 ATATCGGGA
14072965 TGATCATAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
24 5 0.11
25 21 0.47
26 3 0.07
27 14 0.31
28 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
ATATCGGGAAGCTCTGGAGAGCTAT
Found at i:14073099 original size:25 final size:24
Alignment explanation
Indices: 14073071--14073118 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14073061 ATAACGGGAA
*
14073071 GCTCGTGAGAGCCAAATATCAGGAT
1 GCTCATGAGAG-CAAATATCAGGAT
* *
14073096 GCTCATGATAGCTAATATCAGGA
1 GCTCATGAGAGCAAATATCAGGA
14073119 CGCCCTTTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (24 bp):
GCTCATGAGAGCAAATATCAGGAT
Found at i:14075554 original size:21 final size:22
Alignment explanation
Indices: 14075516--14075557 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14075506 ATTAAATTTC
14075516 AAATATTTTGCCTGCTTTTGGT
1 AAATATTTTGCCTGCTTTTGGT
*
14075538 AAATATTTTG-TTGCTTTTGG
1 AAATATTTTGCCTGCTTTTGG
14075558 AATCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (22 bp):
AAATATTTTGCCTGCTTTTGGT
Found at i:14082556 original size:4 final size:4
Alignment explanation
Indices: 14082547--14082579 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
14082537 GTGAAAGAAT
14082547 AATA AATA AATA AATAA AATA AAT- AATA AATA A
1 AATA AATA AATA AAT-A AATA AATA AATA AATA A
14082580 CATCAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:14082673 original size:74 final size:73
Alignment explanation
Indices: 14082572--14082763 Score: 187
Period size: 73 Copynumber: 2.6 Consensus size: 73
14082562 AAAATAAATA
* *
14082572 ATAAATAACA-TCAAATTTAAATGTTTAAAAAGTAAAAGAA-AA-AACGAACAAACAAATAAACA
1 ATAAATAACATTC-AATTTAAGTATTTAAAAAGTAAAAGAATAATAA-G--CAAACAAATAAACA
14082634 GATAAAACACAT
62 GATAAAACACAT
* * * * * *
14082646 ATAAATAACATTCAATTTAAGTATTTAAAAGGTAATAGAATAATAAGTAAATAGATAAATAGATA
1 ATAAATAACATTCAATTTAAGTATTTAAAAAGTAAAAGAATAATAAGCAAACAAATAAACAGATA
* **
14082711 AAGCTGAT
66 AAACACAT
* *
14082719 ATAAATAAGATTAAATTT-AGATATTTAAAAAGT-AAAGAATAATAA
1 ATAAATAACATTCAATTTAAG-TATTTAAAAAGTAAAAGAATAATAA
14082764 ATAAATGAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
72 13 0.13
73 46 0.46
74 33 0.33
75 5 0.05
76 2 0.02
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (73 bp):
ATAAATAACATTCAATTTAAGTATTTAAAAAGTAAAAGAATAATAAGCAAACAAATAAACAGATA
AAACACAT
Found at i:14085320 original size:101 final size:101
Alignment explanation
Indices: 14085124--14085386 Score: 323
Period size: 101 Copynumber: 2.6 Consensus size: 101
14085114 CAATTATTCA
* * * *
14085124 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGGTCATAGCTGGGCTAAGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* * * * *
14085189 CTAATGATAATATCATATCTAGGTTTTGGCACTATG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
*
14085225 GACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
* *
14085290 CTGATGATAAGACCATAACTGGGTTATGGCACTACG
66 CTAATGATAAGACCATAACTAGGTTATGGCACTACG
* ** * * * * * *
14085326 AATGTAAGACCATGGCAGGGCCATGATAATG--CATATGTAAGACCATAGTTGGACTATGGCA
1 AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCA
14085387 CAAAGGAAAC
Statistics
Matches: 140, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
99 27 0.19
101 113 0.81
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGATCATAGTTGGGCTATGGCATT
CTAATGATAAGACCATAACTAGGTTATGGCACTACG
Found at i:14094478 original size:16 final size:16
Alignment explanation
Indices: 14094457--14094525 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
14094447 TTTGGTTCGC
14094457 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14094473 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14094489 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
14094506 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14094522 TGTA
1 TGTA
14094526 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14094503 original size:33 final size:32
Alignment explanation
Indices: 14094457--14094525 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
14094447 TTTGGTTCGC
14094457 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
14094489 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
14094522 TGTA
1 TGTA
14094526 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:14094590 original size:44 final size:45
Alignment explanation
Indices: 14094506--14094596 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14094496 GGATTAGAGG
* * *
14094506 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14094551 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14094595 TG
1 TG
14094597 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14094778 original size:16 final size:16
Alignment explanation
Indices: 14094741--14094795 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
14094731 TTAATCATAT
*
14094741 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
14094757 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
14094772 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
14094790 -TAAAAT
1 TTAAAAT
14094796 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:14094788 original size:18 final size:18
Alignment explanation
Indices: 14094747--14094795 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
14094737 ATATTTAAAC
14094747 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
14094765 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
14094781 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
14094796 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:14094891 original size:117 final size:118
Alignment explanation
Indices: 14094754--14095033 Score: 465
Period size: 117 Copynumber: 2.4 Consensus size: 118
14094744 AACATAATTA
14094754 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
*
14094819 TGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATTAACATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAA-ATAAT
* *
14094872 T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
* *
14094936 TGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTTAAATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
*
14094989 TAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 T--AATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
14095034 TAAAATAATT
Statistics
Matches: 151, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
117 107 0.71
118 5 0.03
120 39 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (118 bp):
TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
Found at i:14095017 original size:16 final size:17
Alignment explanation
Indices: 14094992--14095032 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
14094982 AAATAATTAA
14094992 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
14095007 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
14095025 AA-TAAAAT
1 AATTAAAAT
14095033 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:14101494 original size:59 final size:60
Alignment explanation
Indices: 14101423--14101539 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 60
14101413 TTGGATAACT
* * *
14101423 ATTTTGTAACTTTTCATAGTT-GGTGGCTAAAAAAAG-AATTTACTAATAGTTGGGTGATC
1 ATTTTGTAACTTTCCATAGTTAGGTGAC-AAAAAAAGAAATTCACTAATAGTTGGGTGATC
* * *
14101482 ATTTTGTAACTTTCCATAGTTAGGTGACCAAAAAAGAAATTCATTGATAGTTGGGTGA
1 ATTTTGTAACTTTCCATAGTTAGGTGACAAAAAAAGAAATTCACTAATAGTTGGGTGA
14101540 CTACTAGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 27 0.54
60 23 0.46
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (60 bp):
ATTTTGTAACTTTCCATAGTTAGGTGACAAAAAAAGAAATTCACTAATAGTTGGGTGATC
Found at i:14122021 original size:24 final size:24
Alignment explanation
Indices: 14121974--14122018 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14121964 ACATTTTTAG
14121974 AAAAATATAAGAAATATATATTAT
1 AAAAATATAAGAAATATATATTAT
14121998 AAAAATA-AA-AAATAT-TATTAT
1 AAAAATATAAGAAATATATATTAT
14122019 TATGAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 2 0.10
24 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATATAAGAAATATATATTAT
Found at i:14125356 original size:24 final size:24
Alignment explanation
Indices: 14125329--14125376 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14125319 ATAAATACTC
14125329 CCCGTTACAATTGGTTTTTGACCA
1 CCCGTTACAATTGGTTTTTGACCA
14125353 CCCGTTACAATTGGTTTTTGACCA
1 CCCGTTACAATTGGTTTTTGACCA
14125377 AGAGCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
CCCGTTACAATTGGTTTTTGACCA
Found at i:14125387 original size:23 final size:24
Alignment explanation
Indices: 14125334--14125387 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
14125324 TACTCCCCGT
* * *
14125334 TACAATTGGTTTTTGACCACCCGT
1 TACAATTGGTTTTTGACCAACAGC
*
14125358 TACAATTGGTTTTTGACCAAGAGC
1 TACAATTGGTTTTTGACCAACAGC
14125382 TA-AATT
1 TACAATT
14125388 TTTCTCATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (24 bp):
TACAATTGGTTTTTGACCAACAGC
Found at i:14127440 original size:19 final size:20
Alignment explanation
Indices: 14127418--14127460 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14127408 TTTTCTAAAA
*
14127418 TTTTAACTATAT-TTTTATT
1 TTTTAACTATATATTTAATT
*
14127437 TTTTAATTATATATTTAATT
1 TTTTAACTATATATTTAATT
14127457 TTTT
1 TTTT
14127461 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTAACTATATATTTAATT
Found at i:14127449 original size:21 final size:21
Alignment explanation
Indices: 14127425--14127465 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14127415 AAATTTTAAC
*
14127425 TATAT-TTTTATTTTTT-AAT
1 TATATATTTAATTTTTTGAAT
14127444 TATATATTTAATTTTTTGAAT
1 TATATATTTAATTTTTTGAAT
14127465 T
1 T
14127466 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TATATATTTAATTTTTTGAAT
Found at i:14128017 original size:4 final size:4
Alignment explanation
Indices: 14128008--14128034 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14127998 TTTTCATTAA
14128008 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
14128035 GAGCATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:14130952 original size:5 final size:5
Alignment explanation
Indices: 14130942--14130974 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
14130932 ATTTTCTCTC
14130942 CTTCT CTTCT CTTCT CTTTCT CTTCT CTTCT CT
1 CTTCT CTTCT CTTCT C-TTCT CTTCT CTTCT CT
14130975 GTAAAACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
CTTCT
Found at i:14130962 original size:16 final size:16
Alignment explanation
Indices: 14130938--14130974 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
14130928 CACCATTTTC
*
14130938 TCTCCTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
14130954 TCTCTTTCTCTTCTCT
1 TCTCTTTCTCTTCTCT
14130970 TCTCT
1 TCTCT
14130975 GTAAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
TCTCTTTCTCTTCTCT
Found at i:14133300 original size:126 final size:126
Alignment explanation
Indices: 14133075--14133328 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
14133065 TTTTAGTTGA
*
14133075 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGT
1 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
14133140 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
66 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
14133201 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
1 GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
14133266 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
66 GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
14133327 GC
1 GC
14133329 CCTTTGGTTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (126 bp):
GCTTGGAGTAGCCACACATTTTTCTAGACTGGGCTTGAGGTCTGGTTACCATCAGACTAGAATGC
GGGTCAAGGATGTTCACAAAACATCTAAAACTCATGAGGGGCATTATGATTTCTTGGTCAT
Found at i:14142949 original size:21 final size:22
Alignment explanation
Indices: 14142910--14142954 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
14142900 AAGCATTATA
*
14142910 TTCTTCTCTTATTTTTCTT-TT
1 TTCTTCTCTTATTTCTCTTCTT
14142931 TTCTTCT-TTATTTACTCTTCTT
1 TTCTTCTCTTATTT-CTCTTCTT
14142953 TT
1 TT
14142955 TAATTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCTTCTCTTATTTCTCTTCTT
Found at i:14145466 original size:16 final size:16
Alignment explanation
Indices: 14145445--14145476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14145435 TCAGCTCATG
*
14145445 TCATTTCAGCTTTGAA
1 TCATTTAAGCTTTGAA
14145461 TCATTTAAGCTTTGAA
1 TCATTTAAGCTTTGAA
14145477 CCCTTATCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (16 bp):
TCATTTAAGCTTTGAA
Found at i:14150784 original size:15 final size:15
Alignment explanation
Indices: 14150764--14150793 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14150754 AAGTATATTA
14150764 AAAATATAATATAAT
1 AAAATATAATATAAT
*
14150779 AAAATATAGTATAAT
1 AAAATATAATATAAT
14150794 CATTAAATAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATATAATATAAT
Found at i:14152133 original size:21 final size:20
Alignment explanation
Indices: 14152095--14152133 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14152085 TAAGACATGG
*
14152095 AATTAATTAGAAATTAAATC
1 AATTAATTAGAAAATAAATC
*
14152115 AATTAGATTATAAAATAAA
1 AATTA-ATTAGAAAATAAA
14152134 CAGTACAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAATTAGAAAATAAATC
Found at i:14153917 original size:20 final size:19
Alignment explanation
Indices: 14153892--14153931 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14153882 TAGCTGCACG
14153892 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAG-AAGAAAAAGA
*
14153912 AAGGAGAAGAAGAAGAAGA
1 AAGGAGAAGAAGAAAAAGA
14153931 A
1 A
14153932 GAAGAGGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AAGGAGAAGAAGAAAAAGA
Found at i:14154004 original size:20 final size:20
Alignment explanation
Indices: 14153967--14154005 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14153957 AAGTAAAAGA
*
14153967 GAGAAAGAGAATAGAGAAAC
1 GAGAAAGAGAAGAGAGAAAC
14153987 GAGAAAGA-AAGAGAAGAAA
1 GAGAAAGAGAAGAG-AGAAA
14154006 AAAATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.03
Consensus pattern (20 bp):
GAGAAAGAGAAGAGAGAAAC
Found at i:14154420 original size:25 final size:25
Alignment explanation
Indices: 14154372--14154420 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14154362 CATAATTGAA
* * *
14154372 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
14154397 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
14154421 AAGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:14157394 original size:49 final size:49
Alignment explanation
Indices: 14157312--14157405 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
14157302 TCAAGTAGGG
* * *
14157312 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCAATGT
* *
14157361 ATAAATAGTGATAAGAGTGCGGACAATGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCA
14157406 TAGCATAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAGACAATGAAAGACCAAGTTTAGCAATGT
Found at i:14158316 original size:23 final size:23
Alignment explanation
Indices: 14158290--14158370 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
14158280 TTGGTGGAAG
* **
14158290 CATTCTAACACTACGGTGCAATT
1 CATTCTAGCACTATAGTGCAATT
14158313 CATTCTAGCACTATAGTGCAATT
1 CATTCTAGCACTATAGTGCAATT
* *
14158336 CATTCTGGCGCTATAGTGCAATT
1 CATTCTAGCACTATAGTGCAATT
*
14158359 CATTCTGGCACT
1 CATTCTAGCACT
14158371 TTGATGCGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (23 bp):
CATTCTAGCACTATAGTGCAATT
Found at i:14164624 original size:68 final size:69
Alignment explanation
Indices: 14164537--14164698 Score: 177
Period size: 68 Copynumber: 2.4 Consensus size: 69
14164527 ATAGTTTTAT
* * * * * * *
14164537 ACCTTATAATCTCCATGTTTATTGTCTCGATGGACTTTGTTGGTCGCTATAG-CGGAGCTATGGT
1 ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTC-GAGCTATGGT
14164601 C-TAC
65 CTTAC
* * * *
14164605 ACCTTGTAATCTTCGTGTTTACTGTCCCGGCGGGCTTTGTTAGTTGCCATAGTCGAGCTATGGTC
1 ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTCGAGCTATGGTC
14164670 TTAC
66 TTAC
*
14164674 ACCTCGTAATACTT-GTGTTTATTGT
1 ACCTTGTAAT-CTTCGTGTTTATTGT
14164699 TCTGATAGAC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
68 52 0.67
69 23 0.29
70 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (69 bp):
ACCTTGTAATCTTCGTGTTTATTGTCCCGACGGACTTTGTTAGTCGCCATAGTCGAGCTATGGTC
TTAC
Found at i:14170371 original size:43 final size:43
Alignment explanation
Indices: 14170305--14170419 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
14170295 AGTTTGTACA
* ** * * * *
14170305 ATGCCAACGTCCCAGGCCTGGTCTTACATGTGATCAC-CGATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAG-TTG
14170348 ATGCC-ACTGTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
**
14170391 ATGCCAACGTCCCAGACATAGTCTTACAC
1 ATGCCAACGTCCCAGACAGGGTCTTACAC
14170420 AAAATCACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.03
43 55 0.92
44 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAGTTG
Found at i:14174415 original size:30 final size:30
Alignment explanation
Indices: 14174351--14174415 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
14174341 ATTATATATT
** *
14174351 TTTATTTTTATTTTTTAAAATACATTTCCCA
1 TTTATTTTTATTTTTTAAAATA-ATTAACAA
14174382 TTTATTTTTATTTTTTAAAAGT-ATTAACAA
1 TTTATTTTTATTTTTTAAAA-TAATTAACAA
14174412 TTTA
1 TTTA
14174416 ACTTTAACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.30
31 20 0.67
32 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTATTTTTATTTTTTAAAATAATTAACAA
Found at i:14175122 original size:25 final size:25
Alignment explanation
Indices: 14175061--14175123 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
14175051 GGAATTTTAG
*
14175061 AATCTGTATTCTAGATTGTATATTC
1 AATCTGTATTCTGGATTGTATATTC
*
14175086 AAGT-TGTATTCTGGATTGTATGTTC
1 AA-TCTGTATTCTGGATTGTATATTC
*
14175111 AATCTGTCTTCTG
1 AATCTGTATTCTG
14175124 CTTAGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (25 bp):
AATCTGTATTCTGGATTGTATATTC
Found at i:14175295 original size:30 final size:30
Alignment explanation
Indices: 14175259--14175319 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
14175249 AATGAAAATA
14175259 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
1 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
14175289 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
1 TTTGGGAATTAGTTCCCCTTCTTTAATCAG
14175319 T
1 T
14175320 CTCATAGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (30 bp):
TTTGGGAATTAGTTCCCCTTCTTTAATCAG
Found at i:14177409 original size:38 final size:37
Alignment explanation
Indices: 14177339--14177411 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
14177329 TTTTCATAAT
* *
14177339 TTCACTTTTTTACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
14177376 TTCACTTTTTCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTTCACTTTT-AA-TCAATATTCAATTCAA
14177412 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.48
Consensus pattern (37 bp):
TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
Found at i:14177585 original size:45 final size:45
Alignment explanation
Indices: 14177512--14177833 Score: 414
Period size: 45 Copynumber: 7.2 Consensus size: 45
14177502 AATAATAACA
* * * *
14177512 GTACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * * *
14177555 ATACTCGGTGTAATCCGCACATGGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
14177600 GTACCCAGTGGAATCAACACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * * *
14177645 GTACCCGGTAGAATTAGCACATAACAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
*
14177690 GTACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
14177735 GTACTTGGTGGAATCAACACATAGCAACCACCTTTATAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * * * *
14177780 GTATTCAGTGGAATCAGTACATAGCAACCACCGTTACAATCAATG
1 GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
*
14177825 ATACTCGGT
1 GTACTCGGT
14177834 ACACGTAGTA
Statistics
Matches: 241, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 8 0.03
44 10 0.04
45 223 0.93
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (45 bp):
GTACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
Found at i:14184818 original size:32 final size:32
Alignment explanation
Indices: 14184777--14184841 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14184767 CTGAAGAAAA
14184777 GAATCTGATATGGATAATTATAGGAGTTAGTG
1 GAATCTGATATGGATAATTATAGGAGTTAGTG
14184809 GAATCTGATATGGATAATTATAGGAGTTAGTG
1 GAATCTGATATGGATAATTATAGGAGTTAGTG
14184841 G
1 G
14184842 GTGGGTTTTA
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:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (32 bp):
GAATCTGATATGGATAATTATAGGAGTTAGTG
Found at i:14185535 original size:34 final size:35
Alignment explanation
Indices: 14185473--14185546 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
14185463 GCACAGTTGA
* ** *
14185473 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATTAGTG
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
*
14185508 ACAGT-TTGGGCCTTAGCCCATCACAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
*
14185542 GCAGT
1 ACAGT
14185547 AACAGTTATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (35 bp):
ACAGTCTTGGGCCTAAGCCCATCACAGTATCAGTG
Found at i:14189655 original size:22 final size:21
Alignment explanation
Indices: 14189620--14189671 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
14189610 AAAATTTTTA
*
14189620 ATTTTTT-AATTTTTTATATAT
1 ATTTTTTAAATTTTCTA-ATAT
14189641 ATTTTTTAGAATTTTCTAATAT
1 ATTTTTTA-AATTTTCTAATAT
14189663 -TTTTTTAAA
1 ATTTTTTAAA
14189672 AAAATACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 14 0.50
22 4 0.14
23 8 0.29
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTTTAAATTTTCTAATAT
Found at i:14192056 original size:6 final size:6
Alignment explanation
Indices: 14192042--14192079 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
14192032 CGGCTGATAC
*
14192042 CGCCTT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CG
1 CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CGCCAT CG
14192080 TCATGTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.50, G:0.18, T:0.18
Consensus pattern (6 bp):
CGCCAT
Found at i:14200560 original size:20 final size:20
Alignment explanation
Indices: 14200535--14200572 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14200525 CGTAAAATTA
*
14200535 TTTCTGGAAAATGCTTTACT
1 TTTCTGGAAAATGATTTACT
*
14200555 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
14200573 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14203399 original size:3 final size:3
Alignment explanation
Indices: 14203346--14203409 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
14203336 GAATATGCTG
* * *
14203346 AGA AG- AGA AGA TGA AGA ACA A-A AGA AGA AAA AGGA ATGA AGA ATGGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA A-GA AGA A--GA
14203393 AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AG
14203410 GAGCCTTACC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.08
3 38 0.76
4 5 0.10
5 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:14204915 original size:27 final size:27
Alignment explanation
Indices: 14204877--14204945 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
14204867 GAGGAGGGTA
*
14204877 TCCCATGGGCGGCACCAAAGGTGCCTT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
* * *
14204904 TCCCATAGGCGGCACCGATGGTGCCAT
1 TCCCATGGGCGGCACCAAAGGTGCCAT
*
14204931 TCCCATGGGCAGCAC
1 TCCCATGGGCGGCAC
14204946 TGCCCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (27 bp):
TCCCATGGGCGGCACCAAAGGTGCCAT
Found at i:14205015 original size:4 final size:4
Alignment explanation
Indices: 14204998--14205140 Score: 65
Period size: 4 Copynumber: 36.2 Consensus size: 4
14204988 GAAGGAGAGG
*
14204998 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAA GAAAA GGAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
* *
14205046 GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA
* * * *
14205093 AAAA GAAA G-AA G-AA GAAGA GGGAA GGAA GGAA -AAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAA-A -GAAA GAAA GAAA GAAA GAAA GAAA GAAA
14205140 G
1 G
14205141 GTAATTTTTT
Statistics
Matches: 113, Mismatches: 9, Indels: 34
0.72 0.06 0.22
Matches are distributed among these distances:
3 27 0.24
4 58 0.51
5 23 0.20
6 5 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14205050 original size:38 final size:38
Alignment explanation
Indices: 14204997--14205139 Score: 150
Period size: 38 Copynumber: 3.7 Consensus size: 38
14204987 AGAAGGAGAG
* *
14204997 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
*
14205035 GGAAAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAA-AAAGAAAGAAAA
* *
14205073 GGAAAGGAGAAGAGAAA-AAAAAAAGAAAGAAG-AAGAAGA
1 GGAAAGGAG-AG-GAAAGAAAGAAAGAAA-AAGAAAGAAAA
*
14205112 GGGAAGGA-AGGAAAAAGAAAGAAAGAAA
1 GGAAAGGAGAGG--AAAGAAAGAAAGAAA
14205140 GGTAATTTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 44 0.49
39 32 0.36
40 8 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:14205135 original size:10 final size:10
Alignment explanation
Indices: 14204998--14205135 Score: 72
Period size: 10 Copynumber: 13.8 Consensus size: 10
14204988 GAAGGAGAGG
*
14204998 GAAAGAAGAA
1 GAAAGAAAAA
14205008 GAAAG--AAA
1 GAAAGAAAAA
14205016 GAAAGAAAAA
1 GAAAGAAAAA
*
14205026 GAAAGAAAAG
1 GAAAGAAAAA
14205036 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
14205050 GAAAGAAAAA
1 GAAAGAAAAA
* *
14205060 GAAGGAAAGA
1 GAAAGAAAAA
* *
14205070 -AAAGGAAAG
1 GAAAGAAAAA
*
14205079 GAGAAG-AGAA
1 GA-AAGAAAAA
14205089 -AAA-AAAAA
1 GAAAGAAAAA
*
14205097 GAAAGAAGAA
1 GAAAGAAAAA
** *
14205107 GAAGAGGGAAG
1 GAA-AGAAAAA
*
14205118 GAAGGAAAAA
1 GAAAGAAAAA
14205128 GAAAGAAA
1 GAAAGAAA
14205136 GAAAGGTAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
8 12 0.13
9 9 0.10
10 52 0.55
11 11 0.12
12 2 0.02
13 2 0.02
14 6 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:14205655 original size:158 final size:159
Alignment explanation
Indices: 14205465--14206023 Score: 612
Period size: 158 Copynumber: 3.5 Consensus size: 159
14205455 TATTTAATAA
* * * *
14205465 ATTTCAAACATAATGCATTGAAATAAAGTAAAATTATAAAATTAGAAATTATGATATTTT-TT-A
1 ATTTCAAACAAAATGCACTGAAATAAAGTAAAATAATAAAATTAGAAATAAT-ATATTTTATTGA
*
14205528 AAATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTTTTACTAAATTT
65 AAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
14205593 TTTAAAAATTCAGAAATAATTAATACAAAT
130 TTTAAAAATTCAGAAATAATTAATACAAAT
* * *
14205623 ATTTCAAACAAAATGTACTGAAATAATA-TAAAATAATAAAATACAAAAATAATATATTTTTATT
1 ATTTCAAACAAAATGCACTGAAATAA-AGTAAAATAATAAAAT-TAGAAATAATATA-TTTTATT
* * * * * * * * *
14205687 GAAAGTAATAAAATTC-GA-AAAAATAATACGAGCAGAGGGCAGGAA-TACGGGTTTTTTACACT
63 GAAAATAATAAAATGCGGAGAAAAA-AATACGAACAAATGGC-CGAAGTAAGAGTGTTTT--ACT
* * **
14205749 AAATTAATTTAAAAATACA-CTA-AATTAAT---AA-
124 AAATT-TTTTAAAAATTCAGAAATAATTAATACAAAT
* * * * *
14205780 ATTTCAAACATAATACATTGAAATAAAGTAAAATTATAAAATTAGAAATTATGATATTTT-TT-A
1 ATTTCAAACAAAATGCACTGAAATAAAGTAAAATAATAAAATTAGAAATAAT-ATATTTTATTGA
*
14205843 AAATAATAAAATGCAGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
65 AAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTT
14205908 TTTAAAAATTCAGAAATAATTAATACAAAT
130 TTTAAAAATTCAGAAATAATTAATACAAAT
*
14205938 ATTTCAAACAAAATGTACTGAAATAATA-TAAAATAATAAAA-TACGAAAATAATATATTTTATT
1 ATTTCAAACAAAATGCACTGAAATAA-AGTAAAATAATAAAATTA-G-AAATAATATATTTTATT
* *
14206001 GAAAGTAATAAAATTCGG-GAAAA
63 GAAAATAATAAAATGCGGAGAAAA
14206024 TAAGAAATTA
Statistics
Matches: 324, Mismatches: 51, Indels: 51
0.76 0.12 0.12
Matches are distributed among these distances:
152 11 0.03
153 9 0.03
154 23 0.07
155 26 0.08
156 17 0.05
157 42 0.13
158 83 0.26
159 31 0.10
160 39 0.12
161 23 0.07
162 9 0.03
163 11 0.03
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (159 bp):
ATTTCAAACAAAATGCACTGAAATAAAGTAAAATAATAAAATTAGAAATAATATATTTTATTGAA
AATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTT
TTAAAAATTCAGAAATAATTAATACAAAT
Found at i:14206024 original size:45 final size:44
Alignment explanation
Indices: 14205975--14206067 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 44
14205965 ATAAAATAAT
* *
14205975 AAAATACGAAAATAAT-ATATTTTATTGAAAGTAATAAAATTCGG-G
1 AAAATAAG-AAATAATGATATTTT-TT-AAAGTAATAAAATGCGGAG
* *
14206020 AAAATAAGAAATTATGATATTTTTTAAATTAATAAAATGCGGAG
1 AAAATAAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAG
14206064 AAAA
1 AAAA
14206068 AAATACGAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 15 0.36
44 13 0.31
45 14 0.33
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.31
Consensus pattern (44 bp):
AAAATAAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAG
Found at i:14207778 original size:6 final size:6
Alignment explanation
Indices: 14207769--14207819 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
14207759 GCCGAGCAGG
* * *
14207769 AGCCCC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAG AGCCCC
1 AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC
14207817 AGC
1 AGC
14207820 TAGATCCGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.29, C:0.51, G:0.20, T:0.00
Consensus pattern (6 bp):
AGCCAC
Found at i:14211411 original size:40 final size:39
Alignment explanation
Indices: 14211361--14211466 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 39
14211351 ATAACAATAA
* *
14211361 TACTCAAAATAATACTAACTAACAATAATAATTAGGGTTT
1 TACTAAAAATAATACTAACTAACAATAAT-ACTAGGGTTT
* **
14211401 TACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTT
1 TACTAAAAATAAT-ACTAA-C-TAACAATAATACTAGGGTTT
* *
14211443 TACTAACAATAATACTAAGTAACA
1 TACTAAAAATAATACTAACTAACA
14211467 TCTAAACCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.07
40 12 0.22
41 10 0.18
42 20 0.36
43 9 0.16
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (39 bp):
TACTAAAAATAATACTAACTAACAATAATACTAGGGTTT
Found at i:14217799 original size:19 final size:18
Alignment explanation
Indices: 14217764--14217802 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
14217754 TACTTTTTTA
14217764 TAATTTTTATTTAATATT
1 TAATTTTTATTTAATATT
14217782 TAATTTTTGAATTT-ATATT
1 TAATTTTT--ATTTAATATT
14217801 TA
1 TA
14217803 TTAAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TAATTTTTATTTAATATT
Found at i:14218501 original size:30 final size:30
Alignment explanation
Indices: 14218465--14218524 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14218455 ACTTAGCAAG
14218465 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
14218495 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
14218525 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:14218580 original size:14 final size:14
Alignment explanation
Indices: 14218561--14218587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14218551 CAAACAATAA
14218561 CAACATAATAGTAT
1 CAACATAATAGTAT
14218575 CAACATAATAGTA
1 CAACATAATAGTA
14218588 AAATGGTAGC
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:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (14 bp):
CAACATAATAGTAT
Found at i:14224832 original size:25 final size:25
Alignment explanation
Indices: 14224793--14224842 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14224783 CTCTGCGCAG
* *
14224793 CTCTGTTCTATTTTGTTATGCTCTA
1 CTCTGTTCTACTTTGCTATGCTCTA
* *
14224818 CTCTGTTCTGCTTTGCTCTGCTCTA
1 CTCTGTTCTACTTTGCTATGCTCTA
14224843 TTTTGCTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.08, C:0.26, G:0.14, T:0.52
Consensus pattern (25 bp):
CTCTGTTCTACTTTGCTATGCTCTA
Found at i:14224834 original size:20 final size:20
Alignment explanation
Indices: 14224811--14224852 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14224801 TATTTTGTTA
*
14224811 TGCTCTACTCTGTTCTGCTT
1 TGCTCTACTCTATTCTGCTT
* *
14224831 TGCTCTGCTCTATTTTGCTT
1 TGCTCTACTCTATTCTGCTT
14224851 TG
1 TG
14224853 TCCTATTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.26, G:0.17, T:0.52
Consensus pattern (20 bp):
TGCTCTACTCTATTCTGCTT
Found at i:14230696 original size:8 final size:8
Alignment explanation
Indices: 14230679--14230711 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
14230669 AAAAAAAGGT
14230679 ATTA-AAA
1 ATTATAAA
14230686 ATTATAAA
1 ATTATAAA
14230694 ATTATAAAA
1 ATTAT-AAA
14230703 ATTATAAA
1 ATTATAAA
14230711 A
1 A
14230712 AAATTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.17
8 12 0.50
9 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATTATAAA
Found at i:14230703 original size:9 final size:9
Alignment explanation
Indices: 14230681--14230712 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14230671 AAAAAGGTAT
14230681 TAAAAATTA
1 TAAAAATTA
14230690 T-AAAATTA
1 TAAAAATTA
14230698 TAAAAATTA
1 TAAAAATTA
14230707 TAAAAA
1 TAAAAA
14230713 AATTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14235686 original size:36 final size:36
Alignment explanation
Indices: 14235639--14235710 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14235629 AATTGTGCCT
*
14235639 TCATTTCCATTTCCATCACCACCAAATACATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
14235675 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
1 TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
14235711 CTTTTAGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (36 bp):
TCATTTCCATTTCCATCACCACCAAATAAATAAAAA
Found at i:14236688 original size:2 final size:2
Alignment explanation
Indices: 14236681--14236719 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14236671 GAGCTAATAT
14236681 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
14236720 GGACAAGAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14237260 original size:3 final size:3
Alignment explanation
Indices: 14237252--14237289 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14237242 ACACATAGAA
14237252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14237290 AGTAATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14237871 original size:3 final size:3
Alignment explanation
Indices: 14237863--14237898 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14237853 TAAAATAGAT
14237863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14237899 AAGCATGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14242066 original size:39 final size:39
Alignment explanation
Indices: 14242018--14242121 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
14242008 TATAAAGATG
* * * *
14242018 TTTTAGAGTATTGTGGTATATGCTTGAA-TGTTATGTGA
1 TTTTAGAGTATTGTGATATATGCTTGAAGCGTCATGAGA
* *
14242056 TTTTACGAGTATTATGACATATGCTT-AAGCGTCATGAGA
1 TTTTA-GAGTATTGTGATATATGCTTGAAGCGTCATGAGA
* *
14242095 TTATATGAGTATGGTGATATATGCTTG
1 TTTTA-GAGTATTGTGATATATGCTTG
14242122 TATCTTAGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
38 7 0.13
39 45 0.87
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (39 bp):
TTTTAGAGTATTGTGATATATGCTTGAAGCGTCATGAGA
Found at i:14245955 original size:69 final size:69
Alignment explanation
Indices: 14245881--14246262 Score: 343
Period size: 69 Copynumber: 5.5 Consensus size: 69
14245871 CTATGCTTGC
** * *
14245881 GAGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAGCTGTAACTCTTCGC
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGC
14245946 CTGT
66 CTGT
* * * *
14245950 AAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGC
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGC
*
14246015 CTGC
66 CTGT
* * ** * * *
14246019 GAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTTCGC
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGC
*
14246084 CAGT
66 CTGT
* * * ** * *** * * *
14246088 GAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTACGTTAG-AGACTGTGATTCTTTG
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAG-CTGTGACTCTTCG
* **
14246152 CATAC
65 CCTGT
* * * * * *
14246157 GAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTCGC
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGC
*
14246222 CTGC
66 CTGT
* * * * * *
14246226 GAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCT
1 GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCT
14246263 GACTCTGCTA
Statistics
Matches: 247, Mismatches: 64, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
68 1 0.00
69 245 0.99
70 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (69 bp):
GAGCCTTAATATAACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAAGCTGTGACTCTTCGC
CTGT
Found at i:14246275 original size:138 final size:139
Alignment explanation
Indices: 14245880--14246375 Score: 459
Period size: 138 Copynumber: 3.6 Consensus size: 139
14245870 TCTATGCTTG
* * * **
14245880 CGAGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAGCTGTAACTCTTCG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * * *
14245945 CCTGTAAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCG-GAAGCTGTGACT
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTGTAGAGAAGCTGTGACT
* *
14246009 CTTCGCCTG
131 CTTCGCATA
* * * ** *
14246018 CGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTTCG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * *
14246083 CCAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTAC-GTTAGAG-A-CTGTGA
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACT-CTG-TAGAGAAGCTGTGA
* *
14246145 TTCTTTGCATA
129 CTCTTCGCATA
* * *
14246156 CGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTCG
1 CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
* * * * * * *
14246221 CCTGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAGAG--GTTGTGGC
66 CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTG-TAGAGAAGCTGTGAC
* * *
14246284 TTTTTGTC-TG
130 TCTTCG-CATA
* * * * * * * * **
14246294 CTAACCTTAATACGATAGCT-GGAAGCTTTGCTCTCACTAACTGTGTTAGAGGCTACGGCTCTTC
1 CGAGCCTTAATATGACAGTTAGG-AGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTC
*
14246358 GCTTGTGAGCCTTAATAT
65 GCCTGTGAGCCTTAATAT
14246376 GACACGAATT
Statistics
Matches: 288, Mismatches: 63, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
137 3 0.01
138 280 0.97
139 4 0.01
140 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (139 bp):
CGAGCCTTAATATGACAGTTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGTGGCTCTTCG
CCTGTGAGCCTTAATATAATAGTTGGGAGCTTTACTCTCGCTAACTCTGTAGAGAAGCTGTGACT
CTTCGCATA
Found at i:14246282 original size:69 final size:68
Alignment explanation
Indices: 14245878--14246379 Score: 322
Period size: 69 Copynumber: 7.3 Consensus size: 68
14245868 AGTCTATGCT
* * * * * * **
14245878 TGCGAGCCTTAATATGGCAGTTAGGAGCTTTGCTCTCGCTAACTGTATTTGAAGCTGTAACTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGCA-TAGAGGCTGTGGCTCTT
14245943 CGCC
65 CGCC
** * * ** * * *
14245947 TGTAAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGCAT-AGAGGCTGTGGCTCTT
14246012 CGCC
65 CGCC
* * * ** * * * * *
14246016 TGCGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGCA-TAGAGGCTGTGGCTCTT
14246081 CGCC
65 CGCC
* * * * * * * * * * **
14246085 AGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTACGTTAGAGACTGTGATTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGC-ATAGAGGCTGTGGCTCTT
* *
14246150 TGCA
65 CGCC
* * * *
14246154 TACGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGCA-TAGAGGCTGTGGCTCTT
14246219 CGCC
65 CGCC
* * * * * *
14246223 TGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGC-TAGAGGTTGTGGCTTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCT-A-ACTGCATAGAGGCTGTGGCTCT
* *
14246287 TTGTC
64 TCGCC
* * * * * * * * ** **
14246292 TGCTAACCTTAATACGATAGCTGGAAGCTTTGCTCTCACTAACTGTGTTAGAGGCTACGGCTCTT
1 TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTG-CATAGAGGCTGTGGCTCTT
*
14246357 CGCT
65 CGCC
*
14246361 TGTGAGCCTTAATATGACA
1 TGCGAGCCTTAATATGACA
14246380 CGAATTTTGT
Statistics
Matches: 333, Mismatches: 92, Indels: 16
0.76 0.21 0.04
Matches are distributed among these distances:
67 3 0.01
68 2 0.01
69 322 0.97
70 2 0.01
71 4 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (68 bp):
TGCGAGCCTTAATATGACAGTTGGGAGCTTTACTCTCGCTAACTGCATAGAGGCTGTGGCTCTTC
GCC
Found at i:14246344 original size:207 final size:207
Alignment explanation
Indices: 14245951--14246328 Score: 452
Period size: 207 Copynumber: 1.8 Consensus size: 207
14245941 TTCGCCTGTA
**
14245951 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGCTGTGACTCTTCGCC
1 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
* * * * *
14246016 TGCGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGGAGGCTGCGGCTCTT
66 TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
* * * *
14246081 CGCCAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTACGTTAGAGACTGTGAT
131 CGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTACGTTAGAGACTGTGAT
14246146 TCTTTGCATACG
196 TCTTTGCATACG
* * * * *
14246158 AGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGCTGTGGCTCTTCGCC
1 AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
* * ** * * * * * * *
14246223 TGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAGAGGTTGTGGCTTTT
66 TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
* * * * *
14246288 TGTCTGCT-AACCTTAATACGATAGCTGGAAGCTTTGCTCTC
131 CGCCAG-TGAACCTTAATACAATAGCTGGAAGCTTTACTCTC
14246329 ACTAACTGTG
Statistics
Matches: 138, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
207 137 0.99
208 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.33
Consensus pattern (207 bp):
AGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGCTGTGACTCTTCGCC
TGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAGAGGCTGCGGCTCTT
CGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTACGTTAGAGACTGTGAT
TCTTTGCATACG
Found at i:14246370 original size:207 final size:207
Alignment explanation
Indices: 14245937--14246379 Score: 449
Period size: 207 Copynumber: 2.1 Consensus size: 207
14245927 TGAAGCTGTA
* * * **
14245937 ACTCTTCGCCTGTAAGCCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTCGGAAGC
1 ACTCTTCGCATGTGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGC
* * * * *
14246002 TGTGACTCTTCGCCTGCGAGCTTTAGTATAACAACTAGGAGCTTTGCTCTCGCTAACTGTATTGG
66 TGTGACTCTTCGCCTGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAG
* * * *
14246067 AGGCTGCGGCTCTTCGCCAGTGAGCCTTAATATAATAGCTGGGAGCTTTATTCTCGATAACTACG
131 AGGCTGCGGCTCTTCGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTACG
**
14246132 TTAGAGACTGTG
196 TTAGAGACTACG
* * ** * * *
14246144 ATTCTTTGCATACGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTTGCTAACTGCATTGGAGGC
1 ACTCTTCGCATGTGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGC
* * * ** * * * *
14246209 TGTGGCTCTTCGCCTGCGAGCTTTAATATGATAGTTGGGAGCTTTACTGTCGCTGACTCTGCTAG
66 TGTGACTCTTCGCCTGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAG
* * * * * * * * *
14246274 AGGTTGTGGCTTTTTGTCTGCT-AACCTTAATACGATAGCTGGAAGCTTTGCTCTC-ACTAACTG
131 AGGCTGCGGCTCTTCGCCAG-TGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGA-TAACTA
* *
14246337 TGTTAGAGGCTACG
194 CGTTAGAGACTACG
* *
14246351 GCTCTTCGCTTGTGAGCCTTAATATGACA
1 ACTCTTCGCATGTGAGCCTTAATATGACA
14246380 CGAATTTTGT
Statistics
Matches: 185, Mismatches: 49, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
206 1 0.01
207 183 0.99
208 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.33
Consensus pattern (207 bp):
ACTCTTCGCATGTGAGCCTTAATATGACAGTTGGGAGCTTTGCTCTCGCTAACTGCATCGGAAGC
TGTGACTCTTCGCCTGCGAGCTTTAATATAACAACTAGGAGCTTTACTCTCGCTAACTCTACTAG
AGGCTGCGGCTCTTCGCCAGTGAACCTTAATACAATAGCTGGAAGCTTTACTCTCGATAACTACG
TTAGAGACTACG
Found at i:14254665 original size:26 final size:26
Alignment explanation
Indices: 14254629--14254679 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
14254619 TTTTCTTATT
14254629 CAGATTTTCAGATAACTCAAATTGTC
1 CAGATTTTCAGATAACTCAAATTGTC
14254655 CAGATTTTCAGATAACTCAAATTGT
1 CAGATTTTCAGATAACTCAAATTGT
14254680 GTAATTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
CAGATTTTCAGATAACTCAAATTGTC
Found at i:14260115 original size:39 final size:38
Alignment explanation
Indices: 14260072--14260146 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
14260062 TTTTTAATTT
*
14260072 TTAAAAAT-TTAAAATTATTATAAAAAGTATTTTTAAGAG
1 TTAAAAATATCAAAATTATTA-AAAAA-TATTTTTAAGAG
14260111 TTAAAAATAATCAAAATTATTAAAAAATATTTTTAA
1 TTAAAAAT-ATCAAAATTATTAAAAAATATTTTTAA
14260147 AATTTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 17 0.52
40 5 0.15
41 11 0.33
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (38 bp):
TTAAAAATATCAAAATTATTAAAAAATATTTTTAAGAG
Found at i:14261341 original size:6 final size:6
Alignment explanation
Indices: 14261330--14261355 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14261320 AAAACTTAAT
14261330 CCAAAA CCAAAA CCAAAA CCAAAA CC
1 CCAAAA CCAAAA CCAAAA CCAAAA CC
14261356 CTCAAGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAA
Found at i:14263282 original size:31 final size:31
Alignment explanation
Indices: 14263244--14263341 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
14263234 TTTGGTCTGG
14263244 GTACCAAATTAAACATTAAAGCCAAACTCAA
1 GTACCAAATTAAACATTAAAGCCAAACTCAA
*
14263275 GTACCAAATTGAAA-A--AAA--AAAACTC-A
1 GTACCAAATT-AAACATTAAAGCCAAACTCAA
* * *
14263301 GATACCAAATTGAACATTGAAGCCAGACTCAA
1 G-TACCAAATTAAACATTAAAGCCAAACTCAA
*
14263333 GTACGAAAT
1 GTACCAAAT
14263342 GTTATGGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
26 4 0.08
27 16 0.30
29 5 0.09
31 23 0.43
32 5 0.09
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.18
Consensus pattern (31 bp):
GTACCAAATTAAACATTAAAGCCAAACTCAA
Found at i:14264566 original size:30 final size:30
Alignment explanation
Indices: 14264501--14264567 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
14264491 TTATTACACT
* * *
14264501 CAAATAAGTCCTTCACCCTTCATTTGTATC
1 CAAATAAGTCCTCCAACCTTCATTTATATC
14264531 CAAATAAGT-CTCCAACCTTCAATTTATA-C
1 CAAATAAGTCCTCCAACCTTC-ATTTATATC
14264560 CTAAATAA
1 C-AAATAA
14264568 ACCCTTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (30 bp):
CAAATAAGTCCTCCAACCTTCATTTATATC
Found at i:14270444 original size:61 final size:62
Alignment explanation
Indices: 14270330--14270459 Score: 228
Period size: 61 Copynumber: 2.1 Consensus size: 62
14270320 TTTGACAAAA
* *
14270330 CTTAT-ATATTTTGGTACTTAAGAGTAACAATGTTAACTTTTTTTTTGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTAGTCTTTATTTTGGGT
14270391 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAAC-TTTTTTTAGTCTTTATTTTGGGT
1 CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTAGTCTTTATTTTGGGT
14270452 CTTATGAT
1 CTTATGAT
14270460 TAATGAAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 35 0.53
62 31 0.47
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (62 bp):
CTTATGATATTTTGGTACTTAAGAGTAACAATGCTAACTTTTTTTTAGTCTTTATTTTGGGT
Found at i:14271425 original size:195 final size:196
Alignment explanation
Indices: 14271058--14271435 Score: 573
Period size: 195 Copynumber: 1.9 Consensus size: 196
14271048 TATCACGGTA
* * *
14271058 TTGTTATCAATCTTTAATTAGTGTCGAGTTAACTTGTGGCATCAACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATTAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
* * * *
14271123 TAGATAATATACAATTGATGAATGTAATAAAGTGTGCATAATGAAAATTGATATGTTCAAAAAGA
66 TAGATAATATACAATTGATGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAGA
* *
14271188 TCAAAACAAAGTTTTAGTTGAGTGGTAAATTAAAGATTTTACTAATGTAATTGGTCCGGGTTGGT
131 TCAAAACAAAATTTTAGTTGAGTGGTAAATTAAAGATTTTACTAAAGTAATTGGTCCGGGTTGGT
14271253 G
196 G
* *
14271254 TTGTTATCAATCTTTAGTTGGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
1 TTGTTATCAATCTTTAATTAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
*
14271319 TAGAT-ATATACAATTGATTG-AGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAT
66 TAGATAATATACAATTGA-TGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAG
* * * *
14271382 ATTAAAATAAAATTTTATTTGAGTGTTAAATTAAATG-TTTTACTAAAGTAATTG
130 ATCAAAACAAAATTTTAGTTGAGTGGTAAATTAAA-GATTTTACTAAAGTAATTG
14271436 TTCTTGGTTC
Statistics
Matches: 164, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
195 96 0.59
196 68 0.41
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (196 bp):
TTGTTATCAATCTTTAATTAGTGTCAAGTTAACTTGTGACACCAACTCAATCAAATACATTAATA
TAGATAATATACAATTGATGAAGGTAATAAAGTGTGCATAATAAAAATTGAAATGTACAAAAAGA
TCAAAACAAAATTTTAGTTGAGTGGTAAATTAAAGATTTTACTAAAGTAATTGGTCCGGGTTGGT
G
Found at i:14274330 original size:25 final size:24
Alignment explanation
Indices: 14274300--14274360 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
14274290 AAAATATAAT
* *
14274300 TAAAAATATTTTATATTAATATTAAA
1 TAAAAATA-ATTATATCAAT-TTAAA
14274326 TAAAAATAATTATATCAATTTAAA
1 TAAAAATAATTATATCAATTTAAA
14274350 TAAAAA-AATTA
1 TAAAAATAATTA
14274361 CGTCTCCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 11 0.33
25 9 0.27
26 8 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAAATAATTATATCAATTTAAA
Done.