Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 43 of 145
Found at i:13752983 original size:28 final size:29
Alignment explanation
Indices: 13752926--13752985 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
13752916 TATAAACCCC
*
13752926 TAAACCCCTAACACCTAACCCTTAACCCA
1 TAAACCCCTAACACCTAACCCTTAAACCA
* **
13752955 TAAACCCTTAAC-CCTAACTTTTAAACCA
1 TAAACCCCTAACACCTAACCCTTAAACCA
13752983 TAA
1 TAA
13752986 TCCATAAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (29 bp):
TAAACCCCTAACACCTAACCCTTAAACCA
Found at i:13753166 original size:7 final size:7
Alignment explanation
Indices: 13753146--13753208 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
13753136 ATTAATTATA
13753146 AACCCCT
1 AACCCCT
13753153 AAACCCCT
1 -AACCCCT
13753161 AACCCC-
1 AACCCCT
*
13753167 AACCCTT
1 AACCCCT
*
13753174 AACCCTT
1 AACCCCT
*
13753181 AACCCTT
1 AACCCCT
*
13753188 AAACCCT
1 AACCCCT
*
13753195 AAACCCTT
1 -AACCCCT
13753203 AACCCC
1 AACCCC
13753209 AATCCTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
6 5 0.11
7 30 0.64
8 12 0.26
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:13753166 original size:15 final size:15
Alignment explanation
Indices: 13753146--13753208 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
13753136 ATTAATTATA
*
13753146 AACCCCTAAACCCCT
1 AACCCCTAAACCCTT
13753161 AACCCC--AACCCTT
1 AACCCCTAAACCCTT
*
13753174 AA-CCCTTAACCCTT
1 AACCCCTAAACCCTT
*
13753188 AAACCCTAAACCCTT
1 AACCCCTAAACCCTT
13753203 AACCCC
1 AACCCC
13753209 AATCCTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.07
13 8 0.19
14 9 0.21
15 22 0.52
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCCTAAACCCTT
Found at i:13753186 original size:14 final size:14
Alignment explanation
Indices: 13753149--13753207 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
13753139 AATTATAAAC
*
13753149 CCCTAAACCCCTAA
1 CCCTAAACCCTTAA
*
13753163 CCC-CAACCCTTAA
1 CCCTAAACCCTTAA
*
13753176 CCCTTAACCCTTAAA
1 CCCTAAACCCTT-AA
13753191 CCCTAAACCCTTAA
1 CCCTAAACCCTTAA
13753205 CCC
1 CCC
13753208 CAATCCTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.28
14 15 0.38
15 13 0.33
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Found at i:13753197 original size:42 final size:41
Alignment explanation
Indices: 13753143--13753248 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
13753133 AACATTAATT
* *
13753143 ATAAACCCCTAAACCCCTAACCCCAACCCTTAACCCTTAACCC
1 ATAAA-CCCTAAACCCCTAACCCCAACCCTTAAACCAT-ACCC
* * * *
13753186 TTAAACCCTAAACCCTTAACCCCAATCCTTAAACCATATCC
1 ATAAACCCTAAACCCCTAACCCCAACCCTTAAACCATACCC
* *
13753227 ATAATCCATAAACCCCTAACCC
1 ATAAACCCTAAACCCCTAACCC
13753249 ATATCTCTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 21 0.40
42 28 0.53
43 4 0.08
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (41 bp):
ATAAACCCTAAACCCCTAACCCCAACCCTTAAACCATACCC
Found at i:13753220 original size:14 final size:14
Alignment explanation
Indices: 13753149--13753217 Score: 70
Period size: 13 Copynumber: 5.0 Consensus size: 14
13753139 AATTATAAAC
* *
13753149 CCCTAAACCCCTAA
1 CCCTCAACCCTTAA
13753163 CCC-CAACCCTTAA
1 CCCTCAACCCTTAA
*
13753176 CCCTTAACCCTTAAA
1 CCCTCAACCCTT-AA
*
13753191 CCCTAAACCCTTAA
1 CCCTCAACCCTTAA
*
13753205 CCC-CAATCCTTAA
1 CCCTCAACCCTTAA
13753218 ACCATATCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
13 19 0.40
14 15 0.32
15 13 0.28
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTCAACCCTTAA
Found at i:13753946 original size:115 final size:116
Alignment explanation
Indices: 13753657--13753953 Score: 273
Period size: 115 Copynumber: 2.6 Consensus size: 116
13753647 AACAGTTTAT
* * * * *
13753657 GGCATTTTTAAACGAGCGCCACTAAAGGCCCTAAATGCTAAATAATAAACGACATCGTTTGCTTA
1 GGCATTTTTAGACAAGCGCCACTAAAGTCCCTAAAAGCTAAATAACAAACGACATCGTTTGCTTA
** *** *
13753722 ATAGTTTTGCGGCGCTTTTGTTAAAGCACAGCTAATTCTTCACAGTTTTGC
66 ATACCTTTGCGGCGCTTTTCAGAAAGCACAGCTAATTCCTCACAGTTTTGC
* * * * * * * * *
13753773 GGCGTTTCTATGA-AAGCGCCACCAATGTCGC-AAAAGCTCAACAAGCAAACGGCGTCGTTTGGC
1 GGCATTTTTA-GACAAGCGCCACTAAAGTCCCTAAAAGCTAAATAA-CAAACGACATCGTTT-GC
* * *
13753836 TTAACT-CCTTTGCGGCGCTTTTCAGAAATCACCGCTAATTCCT-ATA-TTTTGC
63 TTAA-TACCTTTGCGGCGCTTTTCAGAAAGCACAGCTAATTCCTCACAGTTTTGC
* * *
13753888 GGCATTTTTAGACAAGCGCCACTAAAGTCTCTAAAACCTAAATTAA-AAACGACATCGTTTTCTT
1 GGCATTTTTAGACAAGCGCCACTAAAGTCCCTAAAAGCTAAA-TAACAAACGACATCGTTTGCTT
13753952 AA
65 AA
13753954 CAGTTTTACG
Statistics
Matches: 140, Mismatches: 34, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
114 7 0.05
115 51 0.36
116 43 0.31
117 38 0.27
118 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (116 bp):
GGCATTTTTAGACAAGCGCCACTAAAGTCCCTAAAAGCTAAATAACAAACGACATCGTTTGCTTA
ATACCTTTGCGGCGCTTTTCAGAAAGCACAGCTAATTCCTCACAGTTTTGC
Found at i:13754118 original size:114 final size:114
Alignment explanation
Indices: 13753904--13754188 Score: 281
Period size: 114 Copynumber: 2.5 Consensus size: 114
13753894 TTTAGACAAG
* * * * *
13753904 CGCCACTAAAGTCTCTAAAACCTAAATTAAAAACGACATCGTTTTCTTAACAGTTTTACGGCACT
1 CGCCACTAAAGTCTCGAAAACATAAATGAAAAACGACAACGTTTTCTTAACAGTTTTACGACACT
* *
13753969 TGTGATAAAGCGCCACTAAAGCTTCGCTACTGCGGCGCTTTCCGAAAAT
66 TATAATAAAGCGCCACTAAAGCTTCGCTACTGCGGCGCTTTCCGAAAAT
* * * **
13754018 CGCCACTAACGTCTCGAAAAGATAAATGAAAAACGACAACGTTTTCTTAACAGTTTTGCGACGGT
1 CGCCACTAAAGTCTCGAAAACATAAATGAAAAACGACAACGTTTTCTTAACAGTTTTACGACACT
* ** * * * *
13754083 TATAATAAAGCGCCGCTAATTCTT-GACTA-TAGCGGCGTTTTTC-AGTAAG
66 TATAATAAAGCGCCACTAAAGCTTCG-CTACT-GCGGCGCTTTCCGA-AAAT
* * * * **
13754132 CACCACTAAAGTCCCCAAAACCTAAACTG-AAAACGACAGTGTTTTCTTAACAGTTTT
1 CGCCACTAAAGTCTCGAAAACATAAA-TGAAAAACGACAACGTTTTCTTAACAGTTTT
13754189 TGCGGCGTTT
Statistics
Matches: 140, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
113 3 0.02
114 135 0.96
115 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (114 bp):
CGCCACTAAAGTCTCGAAAACATAAATGAAAAACGACAACGTTTTCTTAACAGTTTTACGACACT
TATAATAAAGCGCCACTAAAGCTTCGCTACTGCGGCGCTTTCCGAAAAT
Found at i:13769447 original size:18 final size:20
Alignment explanation
Indices: 13769410--13769455 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
13769400 TACAAAAGAT
13769410 TTACAAAAAGATATAAAAAA
1 TTACAAAAAGATATAAAAAA
*
13769430 TTACAAATAGA-A-AAAAAA
1 TTACAAAAAGATATAAAAAA
*
13769448 TTATAAAA
1 TTACAAAA
13769456 TTATAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 10 0.43
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
TTACAAAAAGATATAAAAAA
Found at i:13770749 original size:27 final size:28
Alignment explanation
Indices: 13770719--13770774 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
13770709 ATTTTTTACA
13770719 ATAATTTTCAAT-TTCT-AATATTTTTTT
1 ATAATTTT-AATATTCTAAATATTTTTTT
*
13770746 ATAATTTTAATATTTTAAATATTTTTTT
1 ATAATTTTAATATTCTAAATATTTTTTT
13770774 A
1 A
13770775 CGATTTTNNN
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 11 0.42
28 12 0.46
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
ATAATTTTAATATTCTAAATATTTTTTT
Found at i:13802899 original size:20 final size:22
Alignment explanation
Indices: 13802870--13802911 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13802860 AAGAATGTGG
*
13802870 AAAATAAGAAACCCT-AGAAAA
1 AAAATAAGAAAACCTAAGAAAA
13802891 AAAAT-AGAAAACCTAAGAAAA
1 AAAATAAGAAAACCTAAGAAAA
13802912 CTAAAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAATAAGAAAACCTAAGAAAA
Found at i:13806910 original size:12 final size:12
Alignment explanation
Indices: 13806893--13806924 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13806883 GTCACACGAG
13806893 CGTGTGGCCGGT
1 CGTGTGGCCGGT
13806905 CGTGTGGCCGGT
1 CGTGTGGCCGGT
13806917 CGTGTGGC
1 CGTGTGGC
13806925 TAGCTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.25, G:0.50, T:0.25
Consensus pattern (12 bp):
CGTGTGGCCGGT
Found at i:13814242 original size:26 final size:26
Alignment explanation
Indices: 13814212--13814274 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
13814202 CTTCTCCAAT
13814212 ATAAATTTTCTCATCTGAGTCATTTC
1 ATAAATTTTCTCATCTGAGTCATTTC
13814238 ATAAATTTTCTCATCTGAGTCATTTC
1 ATAAATTTTCTCATCTGAGTCATTTC
13814264 ATAAATTTTCT
1 ATAAATTTTCT
13814275 TATGATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (26 bp):
ATAAATTTTCTCATCTGAGTCATTTC
Found at i:13818955 original size:24 final size:26
Alignment explanation
Indices: 13818916--13818983 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 26
13818906 ACAATTTCAA
* *
13818916 GGTTTTATTCTATCCA-AAATTTCGT
1 GGTTTTATTTTGTCCACAAATTTCGT
** *
13818941 -GTTTTATTTTGTCCACATTTTTTGT
1 GGTTTTATTTTGTCCACAAATTTCGT
13818966 GGTTTTTATTTTGTCCAC
1 GG-TTTTATTTTGTCCAC
13818984 TCTGTTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 13 0.37
25 6 0.17
26 1 0.03
27 15 0.43
ACGTcount: A:0.16, C:0.15, G:0.13, T:0.56
Consensus pattern (26 bp):
GGTTTTATTTTGTCCACAAATTTCGT
Found at i:13821252 original size:92 final size:92
Alignment explanation
Indices: 13821095--13821279 Score: 334
Period size: 92 Copynumber: 2.0 Consensus size: 92
13821085 GGACAAGAGG
*
13821095 ACAGGCTAATTAAAAAGATAAATGTTGAGAGTGACTTTAGGGTGCTAAAAAGGCGATCCCTTGTT
1 ACAGGCTAATTAAAAAGATAAATGTTGAGAGTGACTTTAGGGTGCTAAAAAGGCGATCCCCTGTT
13821160 CATAGTTTTCCAAGATATTTATAGGAA
66 CATAGTTTTCCAAGATATTTATAGGAA
* *
13821187 ACAGGCTGATTAAAAGGATAAATGTTGAGAGTGACTTTAGGGTGCTAAAAAGGCGATCCCCTGTT
1 ACAGGCTAATTAAAAAGATAAATGTTGAGAGTGACTTTAGGGTGCTAAAAAGGCGATCCCCTGTT
*
13821252 CCTAGTTTTCCAAGATATTTATAGGAA
66 CATAGTTTTCCAAGATATTTATAGGAA
13821279 A
1 A
13821280 AGTCCTCTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (92 bp):
ACAGGCTAATTAAAAAGATAAATGTTGAGAGTGACTTTAGGGTGCTAAAAAGGCGATCCCCTGTT
CATAGTTTTCCAAGATATTTATAGGAA
Found at i:13839496 original size:22 final size:21
Alignment explanation
Indices: 13839455--13839497 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 21
13839445 TTTTCTTCTT
13839455 AAAAAAAATGAAACGAAAAAGA
1 AAAAAAAATGAAAC-AAAAAGA
13839477 AAAAAAAATTGAAATCAAAAA
1 AAAAAAAA-TGAAA-CAAAAA
13839498 CTACCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAAAATGAAACAAAAAGA
Found at i:13844772 original size:177 final size:175
Alignment explanation
Indices: 13844393--13844914 Score: 769
Period size: 177 Copynumber: 3.0 Consensus size: 175
13844383 AAGCTGTGTG
* * *
13844393 TTTAGCATTGCTTATGGCTCAATAAATTTAAGTCCAATACAAATATTATATAAAATATATTAAAT
1 TTTA-CATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATATATTAGAT
* *
13844458 TATAAATAAGAGTTAAAAAGATTCTTTGACTCCGAAAA-TGTTTTTTTTTTTCAAACACAATAGC
65 TATAAATAAGAGTTAAAAACATCCTTTGACTCC-AAAAGTGTTTTTTTTTTTCAAACACAATAGC
* * **
13844522 TTTTGGGTTTGGATTGAAAAAT-AAATTTAATTTCAAAAATGGTCTGT
129 TTTTGGGTTTGGATTG-AAAATCAATTTTAACTTCAAAAATAATCTGT
*
13844569 TTTACGTTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATATATTAGATT
1 TTTACATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATATATTAGATT
* * **
13844634 ATAAATAAGAGTTAAAAATATCCTTGGACTCCAAAAGTGTTTTTTTTTTTTACAAACGTAATAGC
66 ATAAATAAGAGTTAAAAACATCCTTTGACTCCAAAAGTG-TTTTTTTTTTT-CAAACACAATAGC
13844699 TTTTGGGTTTGGATTGAAAATCAATTTTAACTTCAAAAATAATCTGT
129 TTTTGGGTTTGGATTGAAAATCAATTTTAACTTCAAAAATAATCTGT
** * * * *
13844746 TTTGTATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAATACATTAGATT
1 TTTACATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATATATTAGATT
* *
13844811 ATAAATAAGAGTTAAAAACATCTTTTGACTCCAAAAGTGTTTTTTTTTTTCAAACACAATAGCTG
66 ATAAATAAGAGTTAAAAACATCCTTTGACTCCAAAAGTGTTTTTTTTTTTCAAACACAATAGCTT
* *
13844876 TTGGGTTTGGATTGAAAAACAATTTTAACTTCACAAATA
131 TTGGGTTTGGATTGAAAATCAATTTTAACTTCAAAAATA
13844915 GCTTATGACT
Statistics
Matches: 314, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
174 4 0.01
175 137 0.44
176 31 0.10
177 142 0.45
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (175 bp):
TTTACATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATATATTAGATT
ATAAATAAGAGTTAAAAACATCCTTTGACTCCAAAAGTGTTTTTTTTTTTCAAACACAATAGCTT
TTGGGTTTGGATTGAAAATCAATTTTAACTTCAAAAATAATCTGT
Found at i:13854578 original size:26 final size:27
Alignment explanation
Indices: 13854533--13854589 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
13854523 AATTTTAAAA
** * *
13854533 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACAATTTTTAATGTT
13854560 TATTTTTAAAATA-AATTTTTAATGTT
1 TATTTTTAAAATACAATTTTTAATGTT
13854586 TATT
1 TATT
13854590 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTAATGTT
Found at i:13856378 original size:22 final size:22
Alignment explanation
Indices: 13856350--13856409 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
13856340 AGAACAGGTT
13856350 TTTAGCGGCGTTTTTTTAGGCC
1 TTTAGCGGCGTTTTTTTAGGCC
13856372 TTTAGCGGCGTTTTTTTAGGCC
1 TTTAGCGGCGTTTTTTTAGGCC
*
13856394 TTTAGCGGCGCTTTTT
1 TTTAGCGGCGTTTTTT
13856410 AACGCCACTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTAGCGGCGTTTTTTTAGGCC
Found at i:13856533 original size:42 final size:42
Alignment explanation
Indices: 13856481--13856749 Score: 323
Period size: 42 Copynumber: 6.2 Consensus size: 42
13856471 ACGTCGCTAA
* *
13856481 CTTTTGCGGCGCTTATGAAAAAACGCGGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
13856523 CTTTAGCGGCGCTT-TGGAAAAAACGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAT-GAAAAAACGCCGCTAA-AGATCA-TGTT
* *
13856565 CTTTAGCGGCGCTTACGCGCTTATGAAAACCGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-----TGA--AAAAACGCCGCTAAAGATCATGTT
*
13856614 CTTTAGCCGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
* * *
13856656 CTTTAGTGGCGCTTAGGAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
13856698 CTTTAGCGGCGCTT-TGGTAAAAAA-GCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAT-G-AAAAAACGCCGCTAAAGATCATGTT
13856740 CTTTAGCGGC
1 CTTTAGCGGC
13856750 ACTTTGGAAG
Statistics
Matches: 198, Mismatches: 14, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.01
42 149 0.75
43 8 0.04
44 2 0.01
47 1 0.01
48 3 0.02
49 32 0.16
50 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:13856637 original size:133 final size:126
Alignment explanation
Indices: 13856489--13856746 Score: 367
Period size: 133 Copynumber: 2.0 Consensus size: 126
13856479 AACTTTTGCG
* * *
13856489 GCGCTTATGAAAAAACGCGGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTA
1 GCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTA
*
13856554 ACAG-T-AGTGTTCTTTAGCGGCGCTTACGCGCTTATGAAAACCGCCGCTAAAGATCATGTTCTT
66 A-AGATCA-TGTTCTTTAGCGGCGCTT-CG-G--TA--AAAA-AGCCGCTAAAGATCATGTTCTT
13856617 TAGCC
122 TAGCC
*
13856622 GCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGGAAAAAACGCCACTA
1 GCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTA
*
13856687 AAGATCATGTTCTTTAGCGGCGCTTTGGTAAAAAAGCCGCTAAAGATCATGTTCTTTAGC
66 AAGATCATGTTCTTTAGCGGCGCTTCGGTAAAAAAGCCGCTAAAGATCATGTTCTTTAGC
13856747 GGCACTTTGG
Statistics
Matches: 117, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
126 25 0.21
127 4 0.03
129 2 0.02
131 1 0.01
132 3 0.03
133 81 0.69
134 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (126 bp):
GCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCACTA
AAGATCATGTTCTTTAGCGGCGCTTCGGTAAAAAAGCCGCTAAAGATCATGTTCTTTAGCC
Found at i:13856804 original size:78 final size:81
Alignment explanation
Indices: 13856632--13856826 Score: 206
Period size: 78 Copynumber: 2.4 Consensus size: 81
13856622 GCGCTTATGA
* * *
13856632 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAGGAAAAAACGCCACTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGGAAAAAACGCCAC---AGATAATGT
* *
13856697 TCTTTAGCGGCGCTTTGGT
63 TCTATAGCGACGCTTTGGT
* *
13856716 AAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAGAAAAC-CC-C-G-TAATGTTC
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGGAA-AAAACGCCACAGATAATGTTC
*
13856777 TATAGCGACGC-TTGTT
65 TATAGCGACGCTTTGGT
13856793 CAAAAACGCCGCTAACAG-T-AGTGTTCTTTAGCGG
1 -AAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGG
13856827 ACTAATTTTG
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
77 5 0.05
78 43 0.44
79 3 0.03
83 1 0.01
84 41 0.42
85 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGGAAAAAACGCCACAGATAATGTTCT
ATAGCGACGCTTTGGT
Found at i:13857183 original size:12 final size:12
Alignment explanation
Indices: 13857162--13857197 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13857152 TGAACCTCTA
*
13857162 CTTCTATCGCTG
1 CTTCTCTCGCTG
13857174 CTTCTCTCGCTG
1 CTTCTCTCGCTG
*
13857186 CTTCTCTTGCTG
1 CTTCTCTCGCTG
13857198 TGGCCTCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.36, G:0.17, T:0.44
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:13857207 original size:21 final size:21
Alignment explanation
Indices: 13857183--13857251 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
13857173 GCTTCTCTCG
* * *
13857183 CTGCTTCTCTTGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCAT
13857204 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGTAGCAT
**
13857225 CTGCTT-TCCTCGCTGCCGCAT
1 CTGCTTCT-CTCGCTGTAGCAT
13857246 CTGCTT
1 CTGCTT
13857252 TAAGTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.04, C:0.36, G:0.20, T:0.39
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCAT
Found at i:13866029 original size:191 final size:190
Alignment explanation
Indices: 13865736--13866083 Score: 543
Period size: 191 Copynumber: 1.8 Consensus size: 190
13865726 TTTGTGCGAA
* * * *
13865736 CATTAGAGAAAGAAAAAATCAAACAGAAAAATGAATAGCCATATACGTAATCAACGAAGACATTA
1 CATTACAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAATCAACGAAGAAATTA
*
13865801 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAAGCAATATTCGATCGAAAAGAGGGGA
66 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAAGCAATATTCGACCGAAAAGAGGGG-
** *
13865866 AATCGTCGTTGAAGGGGTGAATGGTCTATGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
130 AATCGTCGTTGAAAAGGTGAAAGGTCTATGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
* * * * *
13865927 CATTACAGAAAGAAAAAATCGAACATAAAAATGAACAGCTATATACGGAGTCAACGGAGAAATTA
1 CATTACAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAATCAACGAAGAAATTA
* * *
13865992 GGGATTTGGAAAGTTTTTTACCAGTCAGCCCAGACGAGAAGCGATATTCGACCGAGAAGAGGGGA
66 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAAGCAATATTCGACCGAAAAGAGGGGA
13866057 ATCGTCGTTGAAAAGGTGAAAGGTCTA
131 ATCGTCGTTGAAAAGGTGAAAGGTCTA
13866084 GGGATTTGTA
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
190 25 0.18
191 116 0.82
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (190 bp):
CATTACAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAATCAACGAAGAAATTA
GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAAGCAATATTCGACCGAAAAGAGGGGA
ATCGTCGTTGAAAAGGTGAAAGGTCTATGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
Found at i:13866943 original size:15 final size:15
Alignment explanation
Indices: 13866923--13866951 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13866913 CCATAATCTT
13866923 TAAACCCTAAACCTG
1 TAAACCCTAAACCTG
13866938 TAAACCCTAAACCT
1 TAAACCCTAAACCT
13866952 TGACTCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAACCCTAAACCTG
Found at i:13868118 original size:114 final size:113
Alignment explanation
Indices: 13867453--13868102 Score: 980
Period size: 114 Copynumber: 5.7 Consensus size: 113
13867443 GTTTCGGTTT
* *
13867453 AAAACGATGCGTTTTGGTTAAGATTTGTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTAC
1 AAAACGATGCGTTTTGGTTAAGATTT-TTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
* * * *
13867518 TTTAGCGGCGTTTTAC-TATAGCGCTACTAATTCTAAAAATACCTCAACCA
65 TTTAGCGGCATTTTTCTTA-AGCGCCACTAATTCT-AAAATACCTCAACCC
* *
13867568 AAAACGATGCGTTTTGGTTATGATTTTTTGCGGCGCTTTGTATAATGCACCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* *
13867633 TTAGCGGCATTTATCCTTAAGCGCCACTAAATCTAAAATACCTCAACCC
66 TTAGCGGCATTT-TTCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
*
13867682 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * ** *
13867747 TTAGTGGCATTTATCCGCAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCATTT-TTCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
13867796 AAAACGATGCGTTTCGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTGTGCG
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
13867861 TTAGCGGCGTTTTTTCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGC-ATTTTTCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
13867910 AGAACAATGCGTTTTGGTTAAGA-TTTTTGCGGCGCTTTGTATAATACGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* *
13867974 TTAGCGGCATTTATCTTAAAGCGCCACTAATTCTAAAATACCTCAATCC
66 TTAGCGGCATTTTTCTT-AAGCGCCACTAATTCTAAAATACCTCAACCC
*
13868023 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGAT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
13868088 TTAGCGGCGTTTTTC
66 TTAGCGGCATTTTTC
13868103 GAAGGTCGCC
Statistics
Matches: 488, Mismatches: 42, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
112 7 0.01
113 97 0.20
114 339 0.69
115 43 0.09
116 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (113 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
TTAGCGGCATTTTTCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
Found at i:13869799 original size:33 final size:33
Alignment explanation
Indices: 13869761--13869824 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
13869751 TTAACTTTAT
*
13869761 TTTAATGTATAATTTGATAT-ATGAACTTTTAGC
1 TTTAATGGATAATTTGAT-TCATGAACTTTTAGC
*
13869794 TTTAATGGATATTTTGATTCATGAACTTTTA
1 TTTAATGGATAATTTGATTCATGAACTTTTA
13869825 TTTTGTGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (33 bp):
TTTAATGGATAATTTGATTCATGAACTTTTAGC
Found at i:13872919 original size:14 final size:15
Alignment explanation
Indices: 13872887--13872923 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13872877 AAAAAACTGT
*
13872887 AAAATTAATTATTGA
1 AAAATTAAGTATTGA
*
13872902 AAAATTAAGTGTTGA
1 AAAATTAAGTATTGA
13872917 AAAATTA
1 AAAATTA
13872924 TGAATTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (15 bp):
AAAATTAAGTATTGA
Found at i:13877470 original size:6 final size:6
Alignment explanation
Indices: 13877459--13877493 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
13877449 CGTCATCATT
13877459 CATTGC CATTGC CATTGC CATTGC CATTGC CATTG
1 CATTGC CATTGC CATTGC CATTGC CATTGC CATTG
13877494 GTAACAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (6 bp):
CATTGC
Found at i:13878081 original size:18 final size:18
Alignment explanation
Indices: 13878057--13878106 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 18
13878047 TTATTCATGA
13878057 CATTATTCTATCATATA-
1 CATTATTCTATCATATAG
*
13878074 CAATTA-T-T-TCCTATAG
1 C-ATTATTCTATCATATAG
13878090 CATTATTCTATCATATA
1 CATTATTCTATCATATA
13878107 TATATATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
15 10 0.38
16 3 0.12
17 3 0.12
18 10 0.38
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (18 bp):
CATTATTCTATCATATAG
Found at i:13881590 original size:23 final size:23
Alignment explanation
Indices: 13881560--13881632 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
13881550 NNNNNNNNNN
*
13881560 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTTCGGCTACATATC
13881583 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
*
13881606 AGTGGTAGCTTCAGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
13881629 AGTG
1 AGTG
13881633 TGGCACTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:13884363 original size:35 final size:35
Alignment explanation
Indices: 13884322--13884392 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
13884312 TAATTAAAAT
*
13884322 CGAAAACGAGGTTTCGAGACCTCAAAGATTTTAAA
1 CGAAAACGAGGTATCGAGACCTCAAAGATTTTAAA
*
13884357 CGAAAACGAGGTATCGAGACCTCGAAGATTTTAAA
1 CGAAAACGAGGTATCGAGACCTCAAAGATTTTAAA
13884392 C
1 C
13884393 CGAGCCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (35 bp):
CGAAAACGAGGTATCGAGACCTCAAAGATTTTAAA
Found at i:13885611 original size:36 final size:36
Alignment explanation
Indices: 13885559--13885629 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
13885549 NNNNNNGTGT
*
13885559 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 TATACTTATCTAATCAAGTGAAAAAGTGATAAGTGC
*
13885595 TATACTTATCTAATCAAGTGACAAAGTGATAAGTG
1 TATACTTATCTAATCAAGTGAAAAAGTGATAAGTG
13885630 GTAGCTTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (36 bp):
TATACTTATCTAATCAAGTGAAAAAGTGATAAGTGC
Found at i:13891272 original size:23 final size:23
Alignment explanation
Indices: 13891243--13891295 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13891233 AGTGTTATTG
13891243 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13891266 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13891289 ATCAGTG
1 ATCAGTG
13891296 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13896985 original size:215 final size:217
Alignment explanation
Indices: 13896734--13897145 Score: 747
Period size: 217 Copynumber: 1.9 Consensus size: 217
13896724 TTTAAAAAAG
13896734 AAATCATCAATAAAAGTTAGCATATAATTAGTTCCACCTCTCGAAGGCACTCTAGATGACCCCC-
1 AAATCATCAATAAAAGTTAGCATATAATTAGTTCCACCTCTCGAAGGCACTCTAGATGACCCCCT
* *
13896798 ACATATCAGAATCAATATACTCTAATGTTCCCTTTGTGTTATGGA-TTCCTTTTGTGAATCGAAC
66 ACATATCAGAATCAATATACTCCAATGTTCCCTTTGTGTTATGGATTTCCTTTTGAGAATCGAAC
13896862 TCTCTTTTGCTTTGCAAAAATGCAGTGCTCACAAAACTTCAGTTTGTAAATTTTTTACCCATCAA
131 TCTCTTTTGCTTTGCAAAAATGCAGTGCTCACAAAACTTCAGTTTGTAAATTTTTTACCCATCAA
13896927 GAACGCCCAACCTTTTCTGAAA
196 GAACGCCCAACCTTTTCTGAAA
*
13896949 AAATCATCAATAAAAGTTAGCATATAATTAGTTCCACCTCTCGAAGGCACTCTGGATGACCCCCT
1 AAATCATCAATAAAAGTTAGCATATAATTAGTTCCACCTCTCGAAGGCACTCTAGATGACCCCCT
*
13897014 ACATATCAGAATCAATATACTCCAATGTTCCCTTTGTGTTATGGATTTCTTTTTGAGAATCGAAC
66 ACATATCAGAATCAATATACTCCAATGTTCCCTTTGTGTTATGGATTTCCTTTTGAGAATCGAAC
* **
13897079 TCTTTTTTTTTTTGCAAAAATGCAGTGCTCACAAAACTTCAGTTTGTAAATTTTTTACCCATCAA
131 TCTCTTTTGCTTTGCAAAAATGCAGTGCTCACAAAACTTCAGTTTGTAAATTTTTTACCCATCAA
13897144 GA
196 GA
13897146 TGTCCTCTTT
Statistics
Matches: 188, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
215 63 0.34
216 44 0.23
217 81 0.43
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (217 bp):
AAATCATCAATAAAAGTTAGCATATAATTAGTTCCACCTCTCGAAGGCACTCTAGATGACCCCCT
ACATATCAGAATCAATATACTCCAATGTTCCCTTTGTGTTATGGATTTCCTTTTGAGAATCGAAC
TCTCTTTTGCTTTGCAAAAATGCAGTGCTCACAAAACTTCAGTTTGTAAATTTTTTACCCATCAA
GAACGCCCAACCTTTTCTGAAA
Found at i:13897769 original size:82 final size:80
Alignment explanation
Indices: 13897650--13897808 Score: 255
Period size: 82 Copynumber: 2.0 Consensus size: 80
13897640 TGACAGAAGC
* * *
13897650 GACTAGAAGTTTATCATCGCTAGTCTTCTACAACATCAACTTCACCAAAATTTTCTGGTTGTTTT
1 GACTAGAAGTTTACCATCGCTAGTATTCTACAACATCAACTTCACCAAAATTTTCTAGTTGTTTT
13897715 CCCTTTTGATTCGCA
66 CCCTTTTGATTCGCA
* *
13897730 GACTAGAAGTTTACCATTGCTGTAGTATTCTACAACATCAACTTCACCTAAATTTTCTAGTTGTT
1 GACTAGAAGTTTACCATCGC--TAGTATTCTACAACATCAACTTCACCAAAATTTTCTAGTTGTT
13897795 TTCCCTTTTGATTC
64 TTCCCTTTTGATTC
13897809 AGAACCTCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 18 0.25
82 54 0.75
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (80 bp):
GACTAGAAGTTTACCATCGCTAGTATTCTACAACATCAACTTCACCAAAATTTTCTAGTTGTTTT
CCCTTTTGATTCGCA
Found at i:13905232 original size:30 final size:30
Alignment explanation
Indices: 13905137--13905237 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
13905127 TTTATTAGAA
* *
13905137 TTTTT-TTATAATATTTATAATATTTATGAT
1 TTTTTATTTTAAT-TTTATAATTTTTATGAT
* * **
13905167 TTTTT-TTCTAATTTTAATAAGTTTGTACAATT
1 TTTTTATTTTAATTTT-ATAA-TTTTTATGA-T
*
13905199 TTTTTATTTTTATTTTATAATTTTTATGAT
1 TTTTTATTTTAATTTTATAATTTTTATGAT
13905229 TTTTTATTT
1 TTTTTATTT
13905238 GAAAAATGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 3 0.05
30 25 0.44
31 11 0.19
32 10 0.18
33 8 0.14
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (30 bp):
TTTTTATTTTAATTTTATAATTTTTATGAT
Found at i:13906811 original size:40 final size:40
Alignment explanation
Indices: 13906767--13906845 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
13906757 TACGTGGCAA
* * *
13906767 CAAAGCGCGCTTACTTGGACGCGCTTTGTTGCCACGTAGG
1 CAAAGCGCGCTGACGTGGACGCGCTTTGCTGCCACGTAGG
*
13906807 CAAAGCGCGCTGACGTGGACGCGTTTTGCTGCCACGTAG
1 CAAAGCGCGCTGACGTGGACGCGCTTTGCTGCCACGTAG
13906846 CGCGCCTCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.23
Consensus pattern (40 bp):
CAAAGCGCGCTGACGTGGACGCGCTTTGCTGCCACGTAGG
Found at i:13907005 original size:11 final size:11
Alignment explanation
Indices: 13906989--13907022 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
13906979 TCAATTATTT
13906989 TCTCAATTTCC
1 TCTCAATTTCC
*
13907000 TCTCAATTTGC
1 TCTCAATTTCC
13907011 TCTCAATTTCC
1 TCTCAATTTCC
13907022 T
1 T
13907023 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:13911941 original size:126 final size:125
Alignment explanation
Indices: 13911675--13912114 Score: 718
Period size: 126 Copynumber: 3.5 Consensus size: 125
13911665 CCCAAACATG
*
13911675 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
13911740 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13911800 CTATTGTAGCAAAAGCGGGTCCATGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
13911865 TTGAAGCGTCTTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGT-TTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13911926 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCAGAAATTCTTTTGATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * * *
13911991 CTGAAGCGTGTTTTTGTACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGCGT-TTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13912052 CTACTGTAGCAAAAGCGCGTCTACGTGGGTGCGATTTCAGAAATTCTTCTGATAAAACATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
13912115 ACTTTGATTT
Statistics
Matches: 290, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 70 0.24
126 220 0.76
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:13912288 original size:21 final size:22
Alignment explanation
Indices: 13912248--13912290 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13912238 CCCTCAAAAT
* *
13912248 CCTAAAAACCTTAAACCCTAAC
1 CCTAAAAACCTCAAAACCTAAC
13912270 CCTAAAAACC-CAAAACCTAAC
1 CCTAAAAACCTCAAAACCTAAC
13912291 GTGGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAAACCTCAAAACCTAAC
Found at i:13917824 original size:24 final size:24
Alignment explanation
Indices: 13917774--13917825 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13917764 AATTAAAGTC
** **
13917774 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
13917798 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
13917822 AAAT
1 AAAT
13917826 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:13919213 original size:18 final size:18
Alignment explanation
Indices: 13919192--13919239 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
13919182 TACTTATTTG
*
13919192 ATTAAAATTTTACTTTTA
1 ATTAAAATTATACTTTTA
* *
13919210 ATTAAAAATATAGTTTTA
1 ATTAAAATTATACTTTTA
13919228 ATTATAAATTAT
1 ATTA-AAATTAT
13919240 TGAAAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAAAATTATACTTTTA
Found at i:13922342 original size:13 final size:14
Alignment explanation
Indices: 13922316--13922345 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13922306 GTATATTGAA
13922316 ATATTTTTATAAAT
1 ATATTTTTATAAAT
13922330 ATATTTTTA-AAAT
1 ATATTTTTATAAAT
13922343 ATA
1 ATA
13922346 AGATATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTTTATAAAT
Found at i:13929684 original size:25 final size:25
Alignment explanation
Indices: 13929652--13929778 Score: 86
Period size: 25 Copynumber: 5.2 Consensus size: 25
13929642 CACACAAGCA
*
13929652 CATA-AACGGGAAGCTC-TTTCGAGC
1 CATATAACGGGAAGCTCATGT-GAGC
13929676 CATATAACGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
** * *
13929701 TGTATAACGGGAAGCTTC-GGAGAGC
1 CATATAACGGGAAGC-TCATGTGAGC
* ** *
13929726 CAT-TAACAGGAAGCTCATACGATC
1 CATATAACGGGAAGCTCATGTGAGC
* *
13929750 CA-ATATCGGGAAGCTTCA-GAGAGC
1 CATATAACGGGAAGC-TCATGTGAGC
13929774 CATAT
1 CATAT
13929779 TTCAGGAAGC
Statistics
Matches: 79, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
23 2 0.03
24 33 0.42
25 40 0.51
26 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGTGAGC
Found at i:13930344 original size:18 final size:18
Alignment explanation
Indices: 13930321--13930377 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
13930311 CTTTCTCCAT
13930321 TTTCTTTTTCTTTCTTTC
1 TTTCTTTTTCTTTCTTTC
13930339 TTTCTTTTT-TCTTC-TT-
1 TTTCTTTTTCT-TTCTTTC
*
13930355 TTTCGTTTTTGCTTTGTTTC
1 TTTC-TTTTT-CTTTCTTTC
13930375 TTT
1 TTT
13930378 TTAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 4 0.12
17 8 0.25
18 14 0.44
19 3 0.09
20 3 0.09
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTCTTTTTCTTTCTTTC
Found at i:13930399 original size:13 final size:13
Alignment explanation
Indices: 13930376--13930411 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
13930366 CTTTGTTTCT
13930376 TTTTAATTATTTTA
1 TTTT-ATTATTTTA
*
13930390 TTTTATTATTTTG
1 TTTTATTATTTTA
13930403 TTTTATTAT
1 TTTTATTAT
13930412 AAATTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:13931701 original size:5 final size:5
Alignment explanation
Indices: 13931677--13931737 Score: 95
Period size: 5 Copynumber: 12.0 Consensus size: 5
13931667 AGAGAATTTG
* *
13931677 ATTAA AGTAA TTTGAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATT-AA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
13931728 ATTAA ATTAA
1 ATTAA ATTAA
13931738 TCCAAATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 47 0.92
6 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
ATTAA
Found at i:13944912 original size:18 final size:18
Alignment explanation
Indices: 13944889--13944928 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13944879 AAAATAAATG
13944889 TAATTGCCA-TAAAGAAAA
1 TAATTG-CATTAAAGAAAA
*
13944907 TAATTGCATTCAAGAAAA
1 TAATTGCATTAAAGAAAA
13944925 TAAT
1 TAAT
13944929 CAAGTCTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (18 bp):
TAATTGCATTAAAGAAAA
Found at i:13974986 original size:19 final size:19
Alignment explanation
Indices: 13974958--13975004 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13974948 TACTAAATTT
13974958 ATTT-TAAAA-TAGAAAAAA
1 ATTTATAAAATTA-AAAAAA
*
13974976 ATTTATAAAATTACAAAAA
1 ATTTATAAAATTAAAAAAA
*
13974995 ATATATAAAA
1 ATTTATAAAA
13975005 AAATCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 19 0.76
20 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTTATAAAATTAAAAAAA
Found at i:13975376 original size:27 final size:29
Alignment explanation
Indices: 13975341--13975400 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
13975331 ATTTATAAAA
* *
13975341 TTTTT-AAAATATTAAATTTT-CTAATTT
1 TTTTTAAAAATAGTAAATTTTAATAATTT
13975368 TTTTTAAAAAATAGTAAATTTTAATAATTT
1 TTTTT-AAAAATAGTAAATTTTAATAATTT
13975398 TTT
1 TTT
13975401 GTTTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.18
29 14 0.50
30 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTAAAAATAGTAAATTTTAATAATTT
Found at i:13976539 original size:16 final size:17
Alignment explanation
Indices: 13976518--13976549 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13976508 ATATCCACAG
13976518 AGCACATT-GGACAAAA
1 AGCACATTAGGACAAAA
13976534 AGCACATTAGGACAAA
1 AGCACATTAGGACAAA
13976550 CTCCATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (17 bp):
AGCACATTAGGACAAAA
Found at i:13978961 original size:18 final size:18
Alignment explanation
Indices: 13978940--13979015 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 18
13978930 TTTTTTAGAT
13978940 TTTTTTAAATTTATATAA
1 TTTTTTAAATTTATATAA
***
13978958 TTTTTTAAAAAAATATAA
1 TTTTTTAAATTTATATAA
* *
13978976 -ATTTTAGAATTTTTATAAA
1 TTTTTTA-AATTTATAT-AA
13978995 TATTTTT-AATTTATA-AA
1 T-TTTTTAAATTTATATAA
13979012 TTTT
1 TTTT
13979016 GAATTTTTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
16 3 0.07
17 8 0.18
18 20 0.45
19 9 0.20
21 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TTTTTTAAATTTATATAA
Found at i:13979009 original size:17 final size:17
Alignment explanation
Indices: 13978987--13979044 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
13978977 TTTTAGAATT
13978987 TTTATAAATATTTTTAA
1 TTTATAAATATTTTTAA
*
13979004 TTTAT-AA-ATTTTGAA
1 TTTATAAATATTTTTAA
13979019 TTTTTATAAATATTTTTAA
1 --TTTATAAATATTTTTAA
13979038 TTT-TAAA
1 TTTATAAA
13979045 AATTATTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.20
16 6 0.17
17 13 0.37
18 2 0.06
19 7 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTATAAATATTTTTAA
Found at i:13979025 original size:34 final size:35
Alignment explanation
Indices: 13978971--13979044 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 35
13978961 TTTAAAAAAA
13978971 TATAAATTTTAGAATTTTTATAAATATTTTTAATT
1 TATAAATTTTAGAATTTTTATAAATATTTTTAATT
13979006 TATAAATTTT-GAATTTTTATAAATATTTTTAATT
1 TATAAATTTTAGAATTTTTATAAATATTTTTAATT
13979040 T-TAAA
1 TATAAA
13979045 AATTATTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 4 0.10
34 25 0.64
35 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
TATAAATTTTAGAATTTTTATAAATATTTTTAATT
Found at i:13979039 original size:19 final size:19
Alignment explanation
Indices: 13978983--13979041 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
13978973 TAAATTTTAG
13978983 AATTTTTATAAATATTTTT
1 AATTTTTATAAATATTTTT
*
13979002 AA--TTTAT-AA-ATTTTG
1 AATTTTTATAAATATTTTT
13979017 AATTTTTATAAATATTTTT
1 AATTTTTATAAATATTTTT
13979036 AATTTT
1 AATTTT
13979042 AAAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 7 0.21
16 2 0.06
17 10 0.29
18 2 0.06
19 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
AATTTTTATAAATATTTTT
Found at i:13979051 original size:19 final size:18
Alignment explanation
Indices: 13978976--13979058 Score: 64
Period size: 19 Copynumber: 4.6 Consensus size: 18
13978966 AAAAATATAA
*
13978976 ATTTTAGAATTTTTATAAAT
1 ATTTT-GAA-TTTTAAAAAT
* *
13978996 ATTTTTAA-TTT-ATAA-
1 ATTTTGAATTTTAAAAAT
*
13979011 ATTTTGAATTTTTATAAAT
1 ATTTTGAA-TTTTAAAAAT
*
13979030 ATTTTTAATTTTAAAAATT
1 ATTTTGAATTTTAAAAA-T
13979049 ATTTTGAATT
1 ATTTTGAATT
13979059 ATTTTATATT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
15 7 0.14
16 2 0.04
17 6 0.12
18 10 0.20
19 19 0.39
20 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTTTGAATTTTAAAAAT
Found at i:13980101 original size:23 final size:21
Alignment explanation
Indices: 13980058--13980101 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
13980048 ATTTTACAAC
**
13980058 AAAATTTTTATTTATTTATTT
1 AAAATTTTTATTTATAGATTT
13980079 AAAATTTTAGTATTTATAGATTT
1 AAAATTTT--TATTTATAGATTT
13980102 TTTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
AAAATTTTTATTTATAGATTT
Found at i:13982807 original size:86 final size:87
Alignment explanation
Indices: 13982701--13982874 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
13982691 TAAAACATTA
13982701 TGTTAATAAAATTAGAATTATGAATTAATCAATTTTTAAAGTTGAAGTATTTTATTATTAAACAA
1 TGTTAATAAAATTAGAATTATGAATTAATCAATTTTTAAAGTTGAAGTATTTTATTATTAAACAA
13982766 CAGAAATATAAATAAATAATTT
66 CAGAAATATAAATAAATAATTT
13982788 TGTTAAT-AAATTAGAATTATGAATTAATCAATTTTTAAAGTTGAAGTATTTTATTATTAAACAA
1 TGTTAATAAAATTAGAATTATGAATTAATCAATTTTTAAAGTTGAAGTATTTTATTATTAAACAA
13982852 CAGAAATATAAATAAATAATTT
66 CAGAAATATAAATAAATAATTT
13982874 T
1 T
13982875 TACTAACATA
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 80 0.92
87 7 0.08
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (87 bp):
TGTTAATAAAATTAGAATTATGAATTAATCAATTTTTAAAGTTGAAGTATTTTATTATTAAACAA
CAGAAATATAAATAAATAATTT
Found at i:13985758 original size:36 final size:36
Alignment explanation
Indices: 13985717--13985790 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
13985707 TCAACAAAGA
* * * *
13985717 AAATGCATGTTTGAACCTTTGATTGTCGGAAAGAAC
1 AAATGCAGGTTTCAACCTTTGAATGTCGGAAAAAAC
*
13985753 AAATGCAGGTTTCAACCTTTGAATGTTGGAAAAAAC
1 AAATGCAGGTTTCAACCTTTGAATGTCGGAAAAAAC
13985789 AA
1 AA
13985791 TCACAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
AAATGCAGGTTTCAACCTTTGAATGTCGGAAAAAAC
Found at i:13996682 original size:33 final size:32
Alignment explanation
Indices: 13996645--13996784 Score: 96
Period size: 33 Copynumber: 4.3 Consensus size: 32
13996635 TAAATTATAC
13996645 AATATTTAAATAATTTAATATAATGATACATAA
1 AATA-TTAAATAATTTAATATAATGATACATAA
** *
13996678 AATA-TAAAT--TTTAA-AT-ATTTTTCAAGTAA
1 AATATTAAATAATTTAATATAATGATAC-A-TAA
* *
13996707 TTAATA-TAAATTATTTGTAAAATTAATGATACATAA
1 --AATATTAAA-TAATT-TAATA-TAATGATACATAA
*
13996743 AATGTTTAAATAATTTAATATAATGATACATAA
1 AAT-ATTAAATAATTTAATATAATGATACATAA
13996776 AATA-TAAAT
1 AATATTAAAT
13996785 TAACTATTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
27 4 0.05
28 3 0.04
29 8 0.10
31 18 0.21
32 1 0.01
33 20 0.24
34 9 0.11
35 7 0.08
36 8 0.10
37 2 0.02
38 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (32 bp):
AATATTAAATAATTTAATATAATGATACATAA
Found at i:13996777 original size:49 final size:48
Alignment explanation
Indices: 13996649--13996784 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 48
13996639 TTATACAATA
** *
13996649 TTTAAATAATTTAATATAATGATACATAAAATATAAATTTTAAATATT
1 TTTAAATAATTTAATATAATGATACATAAAATATAAATCATAAATATG
* * ***
13996697 TTTCAAGTAA-TTAATATAAATTATTTGTAAAAT-TAATGATACATAAA-ATG
1 TTT-AAATAATTTAATAT-AATGATACATAAAATATAA--AT-CATAAATATG
13996747 TTTAAATAATTTAATATAATGATACATAAAATATAAAT
1 TTTAAATAATTTAATATAATGATACATAAAATATAAAT
13996785 TAACTATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
48 15 0.22
49 32 0.47
50 17 0.25
51 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (48 bp):
TTTAAATAATTTAATATAATGATACATAAAATATAAATCATAAATATG
Found at i:14000290 original size:14 final size:15
Alignment explanation
Indices: 14000261--14000292 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14000251 AAAAACATCA
14000261 TAATTTTATCTATTT
1 TAATTTTATCTATTT
14000276 TAATTTTAT-TATTT
1 TAATTTTATCTATTT
14000290 TAA
1 TAA
14000293 CTATAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTATCTATTT
Found at i:14003335 original size:20 final size:19
Alignment explanation
Indices: 14003306--14003349 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14003296 CGAAAAATAA
14003306 TTTCTAGAAAATGATTTACT
1 TTTCTAG-AAATGATTTACT
*
14003326 TTTCTTGAAATGATTTACT
1 TTTCTAGAAATGATTTACT
14003345 TTTCT
1 TTTCT
14003350 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (19 bp):
TTTCTAGAAATGATTTACT
Found at i:14004497 original size:11 final size:12
Alignment explanation
Indices: 14004466--14004498 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14004456 TTCAGCTTGG
14004466 ATGCTGGTTTGC
1 ATGCTGGTTTGC
*
14004478 ATACTGGTTTGC
1 ATGCTGGTTTGC
14004490 -TGCTGGTTT
1 ATGCTGGTTT
14004499 CCTGTTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.09, C:0.15, G:0.30, T:0.45
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:14007026 original size:25 final size:25
Alignment explanation
Indices: 14006977--14007064 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
14006967 GTACATGTAT
14006977 GCTCATACGAGCT--ATAAACGGTAA
1 GCTCATACGAGCTGAAT-AACGGTAA
*
14007001 GCTC-TTCTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* *
14007026 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
14007051 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
14007065 GAATCGGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
23 2 0.04
24 9 0.16
25 40 0.73
26 4 0.07
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:14007073 original size:49 final size:48
Alignment explanation
Indices: 14006977--14007074 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 48
14006967 GTACATGTAT
* **
14006977 GCTCATACGAGCTATAAACGGTAAGCTCTTCTGAGCTGAATAACGGTAA
1 GCTCATACGAGCTATAAACGGTAAGCTCATAAGAGCTGAAT-ACGGTAA
*
14007026 GCTCATACGAGCTGAGT-ATCGGTAAGCTCATAAGAGCTGGAAT-CGGTAA
1 GCTCATACGAGCT-A-TAAACGGTAAGCTCATAAGAGCT-GAATACGGTAA
14007075 CCCTAATGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
49 19 0.45
50 18 0.43
51 5 0.12
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (48 bp):
GCTCATACGAGCTATAAACGGTAAGCTCATAAGAGCTGAATACGGTAA
Found at i:14013570 original size:17 final size:17
Alignment explanation
Indices: 14013550--14013584 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14013540 GATTGCTTGG
14013550 TCACAAATGGTAAAGAC
1 TCACAAATGGTAAAGAC
14013567 TCACAAATGGTAAAGAC
1 TCACAAATGGTAAAGAC
14013584 T
1 T
14013585 AACTTGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TCACAAATGGTAAAGAC
Found at i:14022049 original size:16 final size:16
Alignment explanation
Indices: 14022028--14022060 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14022018 AATGAAAAAG
14022028 ATTGACCAGAACTTGC
1 ATTGACCAGAACTTGC
14022044 ATTGACCAGAACTTGC
1 ATTGACCAGAACTTGC
14022060 A
1 A
14022061 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (16 bp):
ATTGACCAGAACTTGC
Found at i:14023229 original size:11 final size:11
Alignment explanation
Indices: 14023213--14023238 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14023203 TCACGGGCAT
14023213 TAATAATTATA
1 TAATAATTATA
14023224 TAATAATTATA
1 TAATAATTATA
14023235 TAAT
1 TAAT
14023239 TAGTGCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAATTATA
Found at i:14023902 original size:11 final size:11
Alignment explanation
Indices: 14023864--14023902 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
14023854 AAATAAAATT
14023864 TTTAAATATAAA
1 TTTAAA-ATAAA
*
14023876 TTTAAAATACAT
1 TTTAAAATA-AA
14023888 TTTAAAATAAA
1 TTTAAAATAAA
14023899 TTTA
1 TTTA
14023903 TTGGTATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTAAAATAAA
Found at i:14025982 original size:21 final size:19
Alignment explanation
Indices: 14025936--14025982 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
14025926 TTTTTTTTCA
14025936 TTCTTTTCTACTTCTCATT
1 TTCTTTTCTACTTCTCATT
*
14025955 TTGTTTTCTCACATTCTCCA-T
1 TTCTTTTCT-AC-TTCT-CATT
14025976 TTCTTTT
1 TTCTTTT
14025983 AACGCATCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 11 0.48
22 2 0.09
ACGTcount: A:0.11, C:0.26, G:0.02, T:0.62
Consensus pattern (19 bp):
TTCTTTTCTACTTCTCATT
Found at i:14033170 original size:25 final size:24
Alignment explanation
Indices: 14033142--14033247 Score: 106
Period size: 25 Copynumber: 4.3 Consensus size: 24
14033132 TGACTCTCTT
*
14033142 GAGCTTCCCGTTATTTGGCTCTCAC
1 GAGCTTCCCGATA-TTGGCTCTCAC
*
14033167 GAGCTTCCCGATAATTGGCTCTCAT
1 GAGCTTCCCGAT-ATTGGCTCTCAC
* *
14033192 GAGGTTCCCGATTAATGGCTCTC-C
1 GAGCTTCCCGA-TATTGGCTCTCAC
* * *
14033216 AGAGCTTCTCGATATTGGCTCGCAT
1 -GAGCTTCCCGATATTGGCTCTCAC
14033241 GAGCTTC
1 GAGCTTC
14033248 TTGAATACGA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
24 16 0.24
25 49 0.73
26 2 0.03
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCGATATTGGCTCTCAC
Found at i:14033211 original size:50 final size:49
Alignment explanation
Indices: 14033135--14033247 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 49
14033125 GCATATATGA
* *
14033135 CTCTCTTGAGCTTCCCGTTATTTGGCTCT-CACGAGCTTCCCGATAATTGG
1 CTCTCATGAGCTTCCCGTTATATGGCTCTCCA-GAGCTTCCCGAT-ATTGG
* *
14033185 CTCTCATGAGGTTCCCGATTA-ATGGCTCTCCAGAGCTTCTCGATATTGG
1 CTCTCATGAGCTTCCCG-TTATATGGCTCTCCAGAGCTTCCCGATATTGG
*
14033234 CTCGCATGAGCTTC
1 CTCTCATGAGCTTC
14033248 TTGAATACGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 17 0.31
50 33 0.60
51 5 0.09
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (49 bp):
CTCTCATGAGCTTCCCGTTATATGGCTCTCCAGAGCTTCCCGATATTGG
Found at i:14035167 original size:18 final size:18
Alignment explanation
Indices: 14035136--14035195 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
14035126 GAAGCAAGCA
14035136 AAAAGAAA-AAGAAAAAG
1 AAAAGAAAGAAGAAAAAG
** *
14035153 AAAAGAAAGGTGAAAGACG
1 AAAAGAAAGAAGAAA-AAG
*
14035172 -AAAGAAAGAAGAAAAGG
1 AAAAGAAAGAAGAAAAAG
14035189 AAAAGAA
1 AAAAGAA
14035196 GAACAAAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 10 0.29
18 22 0.65
19 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (18 bp):
AAAAGAAAGAAGAAAAAG
Found at i:14054926 original size:38 final size:38
Alignment explanation
Indices: 14054882--14054957 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
14054872 GAAAAAAATG
14054882 TTGGAATAGTGCTCAAGGGCGTGACCTGGATCAAGTGA
1 TTGGAATAGTGCTCAAGGGCGTGACCTGGATCAAGTGA
14054920 TTGGAATAGTGCTCAAGGGCGTGACCTGGATCAAGTGA
1 TTGGAATAGTGCTCAAGGGCGTGACCTGGATCAAGTGA
14054958 CGTCGTGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (38 bp):
TTGGAATAGTGCTCAAGGGCGTGACCTGGATCAAGTGA
Found at i:14064392 original size:13 final size:13
Alignment explanation
Indices: 14064374--14064398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14064364 CACACACCAA
14064374 ATAAAAATAAAAT
1 ATAAAAATAAAAT
14064387 ATAAAAATAAAA
1 ATAAAAATAAAA
14064399 CCTCATCTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:14064941 original size:21 final size:21
Alignment explanation
Indices: 14064917--14064956 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14064907 GGAACAACAA
14064917 ATAAACAAGTCAAATTATGGC
1 ATAAACAAGTCAAATTATGGC
* *
14064938 ATAAACACGTCATATTATG
1 ATAAACAAGTCAAATTATG
14064957 TGTCTTTTAG
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:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAAACAAGTCAAATTATGGC
Found at i:14066429 original size:242 final size:243
Alignment explanation
Indices: 14065875--14066513 Score: 977
Period size: 245 Copynumber: 2.6 Consensus size: 243
14065865 TTAAATATCA
*
14065875 TTTCTTGGAAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACA-CCTCAAAATAGGGC
1 TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACACCCT-AAAATAGGGC
* *
14065939 CTAAGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTATT-AGGAATTTTGCGACATGGT
65 CTAGGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTGTTCA-GAATTTTGCGACATGGT
* * * * *
14066003 ATATTGATAATGTTTTTTATGGTTTTTAGAAATTTTAGCCTTCGAGTGTTTTAGGGAAAATATTT
129 ATATCGATAATGTTTTTTAT-GCTTTTAGAAATTTAAGCCTTAGAGTGTTTTAGGGAAAAGATTT
* * *
14066068 ATGGTTTTTTTTATGGTTTTAGGGGTACTTTAGGAATTTTAGCCTTAGATTG
193 ATGG-TTTTTTTATGGTTTTAGGGGTACTTTACGAATTTTAACCTTAGAGTG
* *
14066120 TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAAGACCCCAAAATAGGGCC
1 TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACACCCTAAAATAGGGCC
* *
14066185 TAGGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTGTTCAGAATTTTGCGATATGATAT
66 TAGGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTGTTCAGAATTTTGCGACATGGTAT
* *
14066250 ATCGATAATGTTTTTTATGCTTTTAGGAATTTAAGCCTTAGATTGTTTTAGGGAAAAGATTTATG
131 ATCGATAATGTTTTTTATGCTTTTAGAAATTTAAGCCTTAGAGTGTTTTAGGGAAAAGATTTATG
*
14066315 G-TTTTTTATGGTTTTAGGGGTATTTTACGAATTTTAACCTTAGAGTG
196 GTTTTTTTATGGTTTTAGGGGTACTTTACGAATTTTAACCTTAGAGTG
*
14066362 TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACACCCTAAAATAAGGCC
1 TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACACCCTAAAATAGGGCC
* *
14066427 TAGGAGTTTTA-GGGTATTTTAAGAATTTTAGCCTTAGTGTGTTC-GAAATTTTGCGACATGGTA
66 TAGGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTGTTCAG-AATTTTGCGACATGGTA
*
14066490 TATC-AGTAAT-TTTTTTATGGTTTT
130 TATCGA-TAATGTTTTTTATGCTTTT
14066514 TTTTTTAAAA
Statistics
Matches: 364, Mismatches: 26, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
240 15 0.04
241 54 0.15
242 115 0.32
244 42 0.12
245 135 0.37
246 3 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (243 bp):
TTTCTTGGGAAAATATTTAATAAGAGACAATCTTGAATGTGTATGTAACACCCTAAAATAGGGCC
TAGGAGTTTTAGGGGTATTTTAGGAATTTTAGCCTTAGAGTGTTCAGAATTTTGCGACATGGTAT
ATCGATAATGTTTTTTATGCTTTTAGAAATTTAAGCCTTAGAGTGTTTTAGGGAAAAGATTTATG
GTTTTTTTATGGTTTTAGGGGTACTTTACGAATTTTAACCTTAGAGTG
Found at i:14068538 original size:39 final size:39
Alignment explanation
Indices: 14068331--14068524 Score: 255
Period size: 39 Copynumber: 5.0 Consensus size: 39
14068321 TGTTTTTTAT
* *
14068331 TATTGTGATATATGTTTAAATGTTATAAGATTATATGTA
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
*
14068370 TATTGTGATATATGCTTAAATTTTATGAGATTATATGTA
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
* * *
14068409 TATTGTGATATATGCTTGAATATTATGTGATTATATG-A
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
* * * *
14068447 AAGTTGTGATATGTGCTTAAATGTTATGAGATTAAATATA
1 TA-TTGTGATATATGCTTAAATGTTATGAGATTATATGTA
* * *
14068487 TATTGTGATATATGCTTGAATGTTAGGTGATTATATGT
1 TATTGTGATATATGCTTAAATGTTATGAGATTATATGT
14068525 GTAATAGGAT
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
38 2 0.02
39 129 0.97
40 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGCTTAAATGTTATGAGATTATATGTA
Found at i:14072523 original size:25 final size:25
Alignment explanation
Indices: 14072494--14072559 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
14072484 AGCACTTTCT
*
14072494 CGAGCCATATAATAGGAAGCTTATG
1 CGAGCCATATAACAGGAAGCTTATG
* * *
14072519 CGAGCCATGTAACAGGAAGTTTATC
1 CGAGCCATATAACAGGAAGCTTATG
*
14072544 CG-GGC-TATAACAGGAA
1 CGAGCCATATAACAGGAA
14072560 AACTCATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 10 0.29
24 2 0.06
25 23 0.66
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTTATG
Found at i:14072652 original size:25 final size:25
Alignment explanation
Indices: 14072622--14072683 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
14072612 GAAGAGCTAT
*
14072622 TATCAGGAAGCTCCAGAT-AGCCATA
1 TATCAGGAAGCTCAAG-TGAGCCATA
*
14072647 TATCAGGAAGTTCAAGTGAGCCATA
1 TATCAGGAAGCTCAAGTGAGCCATA
14072672 T-T-AGGAAGCTCA
1 TATCAGGAAGCTCA
14072684 TTAAGAGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.27
24 2 0.06
25 22 0.67
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
TATCAGGAAGCTCAAGTGAGCCATA
Found at i:14073220 original size:21 final size:21
Alignment explanation
Indices: 14073195--14073235 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14073185 AGTAAATTTA
* *
14073195 ACTCAATTTAATGAAATTCAT
1 ACTCAATTCAATCAAATTCAT
14073216 ACTCAATTCAATCAAATTCA
1 ACTCAATTCAATCAAATTCA
14073236 CATTTTAGGA
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:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (21 bp):
ACTCAATTCAATCAAATTCAT
Found at i:14082550 original size:21 final size:21
Alignment explanation
Indices: 14082524--14082584 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
14082514 CGACACATAA
14082524 GTGTCTAAAACGACACACGAG
1 GTGTCTAAAACGACACACGAG
* *
14082545 GTGTCTGATACGACACACGAG
1 GTGTCTAAAACGACACACGAG
*
14082566 GTGCCTGAAATACGACACA
1 GTGTCT-AAA-ACGACACA
14082585 TAAAGTGCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 8 0.24
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (21 bp):
GTGTCTAAAACGACACACGAG
Found at i:14082592 original size:23 final size:23
Alignment explanation
Indices: 14082511--14082617 Score: 80
Period size: 23 Copynumber: 4.9 Consensus size: 23
14082501 CTTGATCAGT
*
14082511 ATACGACACAT-AAGTGTCT-AA
1 ATACGACACATAAAGTGCCTGAA
** * *
14082532 A-ACGACACACGAGGTGTCTG--
1 ATACGACACATAAAGTGCCTGAA
** *
14082552 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
* *
14082575 ATACGACACATAAAGTGCTTGAT
1 ATACGACACATAAAGTGCCTGAA
*
14082598 ACACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
14082618 AATCGGCAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.13
21 26 0.37
23 36 0.51
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:14083392 original size:20 final size:20
Alignment explanation
Indices: 14083369--14083409 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
14083359 TATCAATACT
14083369 AATTTTATTTTCCCAATCTA
1 AATTTTATTTTCCCAATCTA
*
14083389 AATTTTATTTTCCCATTCTA
1 AATTTTATTTTCCCAATCTA
14083409 A
1 A
14083410 CTCCATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTATTTTCCCAATCTA
Found at i:14083772 original size:8 final size:8
Alignment explanation
Indices: 14083760--14083796 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
14083750 ATTTTCCCTT
*
14083760 TTCTTTCT
1 TTCTTTCC
14083768 TTCTTTTCC
1 TTC-TTTCC
14083777 TTCTTTCC
1 TTCTTTCC
14083785 TTCTTTCC
1 TTCTTTCC
14083793 TTCT
1 TTCT
14083797 CTGTTTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
TTCTTTCC
Found at i:14085436 original size:28 final size:28
Alignment explanation
Indices: 14085377--14085475 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 28
14085367 CCTAACCTAC
** *
14085377 ACTTGTGTGAGC-AACCCAAATATCATA
1 ACTTGTGTGAGCAAATTCAAATATCACA
*
14085404 GCTTGTGTGAGCAAATTCAAATATCACA
1 ACTTGTGTGAGCAAATTCAAATATCACA
* * * *
14085432 ACTTGCGTGAGCAAATTCGAATATTAGA
1 ACTTGTGTGAGCAAATTCAAATATCACA
**
14085460 GGTTGTGTGAGCAAAT
1 ACTTGTGTGAGCAAAT
14085476 CGGTCACGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 11 0.19
28 48 0.81
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (28 bp):
ACTTGTGTGAGCAAATTCAAATATCACA
Found at i:14086210 original size:54 final size:54
Alignment explanation
Indices: 14086146--14086250 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
14086136 GCAAATGACA
14086146 GTTTAGCATGAACAAAAGCATAATAGTATAAGTGAAGTATGAATAGGCTAACAT
1 GTTTAGCATGAACAAAAGCATAATAGTATAAGTGAAGTATGAATAGGCTAACAT
14086200 GTTTAGCATGAACAAAAGCATAATAGTATAAGTGAAGTATGAATAGGCTAA
1 GTTTAGCATGAACAAAAGCATAATAGTATAAGTGAAGTATGAATAGGCTAA
14086251 ATTGGTAGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (54 bp):
GTTTAGCATGAACAAAAGCATAATAGTATAAGTGAAGTATGAATAGGCTAACAT
Found at i:14087998 original size:11 final size:12
Alignment explanation
Indices: 14087965--14087992 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14087955 CGGCCCGCTC
14087965 ATATTAATTTTT
1 ATATTAATTTTT
14087977 ATATTAATTTTT
1 ATATTAATTTTT
14087989 ATAT
1 ATAT
14087993 GATTTTAAAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14091415 original size:22 final size:23
Alignment explanation
Indices: 14091382--14091426 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
14091372 AAAGAAAGAA
14091382 AGAAAGAAAATTAACTAACATGT
1 AGAAAGAAAATTAACTAACATGT
14091405 AGAAA-AAAATTAACTAACATGT
1 AGAAAGAAAATTAACTAACATGT
14091427 GAATTAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (23 bp):
AGAAAGAAAATTAACTAACATGT
Found at i:14100772 original size:20 final size:20
Alignment explanation
Indices: 14100743--14100782 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14100733 AGGCTCCAAC
* *
14100743 ACTTCTGTATCTTCATCAAA
1 ACTTCCGTATCGTCATCAAA
14100763 ACTTCCGTATCGTCATCAAA
1 ACTTCCGTATCGTCATCAAA
14100783 GTTAACCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (20 bp):
ACTTCCGTATCGTCATCAAA
Found at i:14109065 original size:25 final size:25
Alignment explanation
Indices: 14109031--14109081 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14109021 GAGACAGTAT
14109031 CATAGGAACCACTAAAACAAAATGA
1 CATAGGAACCACTAAAACAAAATGA
14109056 CATAGGAACCACTAAAACAAAATGA
1 CATAGGAACCACTAAAACAAAATGA
14109081 C
1 C
14109082 TATGGCATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.55, C:0.22, G:0.12, T:0.12
Consensus pattern (25 bp):
CATAGGAACCACTAAAACAAAATGA
Found at i:14113426 original size:17 final size:17
Alignment explanation
Indices: 14113406--14113438 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14113396 TAGAATTGGG
14113406 TTGAAAAAATAATTTAA
1 TTGAAAAAATAATTTAA
*
14113423 TTGAAAAATTAATTTA
1 TTGAAAAAATAATTTA
14113439 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTGAAAAAATAATTTAA
Found at i:14116714 original size:63 final size:63
Alignment explanation
Indices: 14116614--14116750 Score: 184
Period size: 63 Copynumber: 2.2 Consensus size: 63
14116604 GGCTTGAAAT
* * * * *
14116614 AGTGAGTTACACAACCTGGACACATGTCCATGTCCCTAGCCCGTGTGACTCTAAATCTAAAAC
1 AGTGAGTTACACAACCTAGACACATGCCCATGCCCCTAGCCCGTGTGACTCCAAATCAAAAAC
* * * * *
14116677 AGTGAGTTACACAGCCTAGACACATGCCCATGCCCCTAGCTCGTGTGCCTCCAATTCAAAAAT
1 AGTGAGTTACACAACCTAGACACATGCCCATGCCCCTAGCCCGTGTGACTCCAAATCAAAAAC
14116740 AGTGAGTTACA
1 AGTGAGTTACA
14116751 TGGCCTGCCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (63 bp):
AGTGAGTTACACAACCTAGACACATGCCCATGCCCCTAGCCCGTGTGACTCCAAATCAAAAAC
Found at i:14117323 original size:3 final size:3
Alignment explanation
Indices: 14117315--14117366 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
14117305 AAGAAAAATA
* *
14117315 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAA AAT AAG AA- AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14117360 AA- AAG AA
1 AAG AAG AA
14117367 ATGAGGAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:14124305 original size:39 final size:39
Alignment explanation
Indices: 14124231--14124670 Score: 637
Period size: 39 Copynumber: 11.2 Consensus size: 39
14124221 TAGAATACTA
* * * *
14124231 ATTATACTGAATGATTTGTTCAAACGAGCAATATCCACTT
1 ATTATACTGAATG-CTTGCTCAAACGAGCATTATCCACTG
* *
14124271 ATTATATTGAATGTTTGCTCAAACGAGCATTATCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
*
14124310 ATTATACTGAATGTTTGCTCAAACGAGCATTATCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
*
14124349 ATTATACTGAATGCTTGCTCAAAATGAGCATTATCCACTG
1 ATTATACTGAATGCTTGCTC-AAACGAGCATTATCCACTG
* * *
14124389 ATTATGCTGAATGCTTGCTCAAACGAGCATTATCCATTA
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
*
14124428 ATTATACTGAATGCTTGCTCAAACAAGCATTATCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
* * *
14124467 ATTATGCTGAATGCTTGCTCAAACGAGCAATATCCACTA
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
** *
14124506 ATTATGTTGAATGCTTGCTCAAACGAGCAATATCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
* * *
14124545 ATTATGCTGAATGCTTGCTTAAACGAGCATTACCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
* * *
14124584 ATTATGCTGAATGCTTGCTCAAACGAACATTACCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
*
14124623 ATTATACTAAATGCTTGCTCAAACGAGCATTATCCACTG
1 ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
14124662 ATTATACTG
1 ATTATACTG
14124671 TATAAGATTT
Statistics
Matches: 367, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 318 0.87
40 49 0.13
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (39 bp):
ATTATACTGAATGCTTGCTCAAACGAGCATTATCCACTG
Found at i:14127839 original size:27 final size:27
Alignment explanation
Indices: 14127722--14127837 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 27
14127712 TATAACAGTT
*
14127722 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
14127749 ATTTTATCCTATGGGGGTATTTCGATT
1 ATTTTACCCTATGGGGGTATTTCGGTC
14127776 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* * *
14127803 ATTTTACCTTCTGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
14127830 ATTTTACC
1 ATTTTACC
14127838 TTATTTTAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:14146423 original size:43 final size:42
Alignment explanation
Indices: 14146362--14146526 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 42
14146352 TACTCTGATA
* *
14146362 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
* * * *
14146405 TGTGTTTACGTGTAAGACCATGTCTAGGACATTGGCACCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-AT
*
14146448 T-TGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 TGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * *
14146488 ATGAG-ATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
14146527 TGTTCGATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 6 0.06
43 61 0.62
44 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:14146524 original size:84 final size:84
Alignment explanation
Indices: 14146368--14146525 Score: 198
Period size: 84 Copynumber: 1.9 Consensus size: 84
14146358 GATATGTGTT
* * * *
14146368 TTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTAGG
1 TTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACTTGAGTATACATGTAAGACCACGTCTAGG
14146433 ACATTGGCACCGTATTTGA
66 ACATTGGCACCGTATTTGA
14146452 TTCGTGTAAGACC-CTGTCTGGGACAGT-GGCATCGA-TATGAG-ATAGCATGTAAGACCACGTC
1 TTCGTGTAAGACCAC-GTCTGGGAC-GTCGGCATCGACT-TGAGTATA-CATGTAAGACCACGTC
* *
14146513 TGGGACGTTGGCA
62 TAGGACATTGGCA
14146526 TTGTTCGATA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
83 4 0.06
84 58 0.91
85 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (84 bp):
TTCGTGTAAGACCACGTCTGGGACGTCGGCATCGACTTGAGTATACATGTAAGACCACGTCTAGG
ACATTGGCACCGTATTTGA
Found at i:14153593 original size:86 final size:85
Alignment explanation
Indices: 14153415--14153697 Score: 295
Period size: 87 Copynumber: 3.3 Consensus size: 85
14153405 AAATGACGAT
** * * * *
14153415 AATAAATCCCGAAACAGATTTTATTTAATTTAATTCT-AATTTAGAAACAAAATTAAAATCGAAT
1 AATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCGTTTTGGAAATAAAATCAAAATAGAAT
* * *
14153479 AGAATCTTGTT-AATCGGCGGG
66 AAAAT-ATGTTGAA-CGGCGTG
* * *
14153500 AATAAATCCTGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGGAAATAAAA-GAAAAAAGA
1 AATAAATCCCGAAACAGATTTTATTTAA-TTTAA-TTCTCGTTTTGGAAATAAAATCAAAATAGA
14153564 ATAAAATATGTTGAACGGCGTG
64 ATAAAATATGTTGAACGGCGTG
* * * *
14153586 AATAAATCCTGAAATAGATTTTATTTTAATTTAAATTCTCGTTTTGGAAATAAAATCAAATTGGA
1 AATAAATCCCGAAACAGATTTTA-TTTAATTT-AATTCTCGTTTTGGAAATAAAATCAAAATAGA
* *
14153651 ATAAAATCTATTGAACGGC-TGG
64 ATAAAATATGTTGAACGGCGT-G
* *
14153673 AATAAATCCCAAAACATATTTTATT
1 AATAAATCCCGAAACAGATTTTATT
14153698 CACTTTTAGA
Statistics
Matches: 168, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
85 27 0.16
86 63 0.38
87 67 0.40
88 11 0.07
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (85 bp):
AATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCGTTTTGGAAATAAAATCAAAATAGAAT
AAAATATGTTGAACGGCGTG
Found at i:14158250 original size:35 final size:35
Alignment explanation
Indices: 14158203--14158277 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
14158193 GTTTGGTCGA
* *
14158203 AAATGGTCTACTGGCTCTACGGAGTGGCATCATGG
1 AAATGGTCTACTGGCTCTACAGAGCGGCATCATGG
* *
14158238 AAATGGTGTACTGGCTCTACATAGCGGCATCATGG
1 AAATGGTCTACTGGCTCTACAGAGCGGCATCATGG
14158273 AAATG
1 AAATG
14158278 ATTGTTAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (35 bp):
AAATGGTCTACTGGCTCTACAGAGCGGCATCATGG
Found at i:14163202 original size:25 final size:25
Alignment explanation
Indices: 14163107--14163194 Score: 131
Period size: 25 Copynumber: 3.5 Consensus size: 25
14163097 CTGAGTCATG
* *
14163107 TAACGGGAAGCTTATGTGAGCTGTA
1 TAACGGGAAGCTCATGCGAGCTGTA
*
14163132 TAACGGGAAGCTCATGTGAGCTGTA
1 TAACGGGAAGCTCATGCGAGCTGTA
*
14163157 TAACGGGAAGCTCGTGCGAGCTGTA
1 TAACGGGAAGCTCATGCGAGCTGTA
*
14163182 TAACAGGAAGCTC
1 TAACGGGAAGCTC
14163195 TTACGAGCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (25 bp):
TAACGGGAAGCTCATGCGAGCTGTA
Found at i:14163215 original size:25 final size:24
Alignment explanation
Indices: 14163187--14163305 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
14163177 CTGTATAACA
* * * *
14163187 GGAAGCTCTTACGAGCCAATTATCG
1 GGAAGCTCATAAGAGCC-ATAAACG
14163212 GGAAGCTCATAAGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATAAACG
**
14163236 GGAAGCTCA-AGAGAGCCATTAATTG
1 GGAAGCTCATA-AGAGCCA-TAAACG
* *
14163261 GGAAGCTCATGAGAGCCA-AATATTG
1 GGAAGCTCATAAGAGCCATAA-A-CG
* *
14163286 GGAAGCTCGTGAGAGCCATA
1 GGAAGCTCATAAGAGCCATA
14163306 TAATAGGTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.04
24 21 0.27
25 54 0.68
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAAACG
Found at i:14170705 original size:21 final size:21
Alignment explanation
Indices: 14170662--14170705 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14170652 AGTAACAAAT
* *
14170662 CAGCAACATAGGCTTTAGTTG
1 CAGCAACATAGGCTTGAGCTG
14170683 CAGCATACAT-GGCTTGAGCTG
1 CAGCA-ACATAGGCTTGAGCTG
14170704 CA
1 CA
14170706 TGGTCTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
CAGCAACATAGGCTTGAGCTG
Found at i:14178419 original size:78 final size:79
Alignment explanation
Indices: 14178289--14178445 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 79
14178279 TGTGAGGAAG
14178289 AACAGAAAGCAAATAAAATTTTGAGTTGTGAAGCTGCATTCTGTTCCTGTATCAAATCCGAAAAC
1 AACAGAAAGCAAATAAAATTTTGAGTTGTGAAGCTGCATTCTGTTCCTGTATCAAATCCGAAAAC
14178354 ATGAAGCATGTCGA
66 ATGAAGCATGTCGA
*
14178368 AACAGAAAGC-AATAAATTTTTGAGTTGTGAAGCTGCATTCTGTTCCTGTATCAAATCCGAAAAC
1 AACAGAAAGCAAATAAAATTTTGAGTTGTGAAGCTGCATTCTGTTCCTGTATCAAATCCGAAAAC
14178432 ATGAAGCATGTCGA
66 ATGAAGCATGTCGA
14178446 GATAGTGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
78 67 0.87
79 10 0.13
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (79 bp):
AACAGAAAGCAAATAAAATTTTGAGTTGTGAAGCTGCATTCTGTTCCTGTATCAAATCCGAAAAC
ATGAAGCATGTCGA
Found at i:14213565 original size:249 final size:250
Alignment explanation
Indices: 14213118--14213617 Score: 993
Period size: 249 Copynumber: 2.0 Consensus size: 250
14213108 TAATAATTAT
14213118 TCATTTAATTTTATAATTATTCAAGTAATATTGTTTGAATAGTTATATTGTTTTTTTCAAAAATC
1 TCATTTAATTTTATAATTATTCAAGTAATATTGTTTGAATAGTTATATTGTTTTTTTCAAAAATC
14213183 AAATGATATAACTTTTGTCCAATGACAAAAAGATTTATCTTTTGATTAATTACACCCATTCATTT
66 AAATGATATAACTTTTGTCCAATGACAAAAAGATTTATCTTTTGATTAATTACACCCATTCATTT
14213248 ATAGTTATTGAAATACTATAAATATTTGAGAATATTCCAACATAAATTATCATCCATTTTCATCT
131 ATAGTTATTGAAATACTATAAATATTTGAGAATATTCCAACATAAATTATCATCCATTTTCATCT
14213313 TGTATATGCATATTAATATTTTCATATCATATGAACATTAAGTCTTTATACATGC
196 TGTATATGCATATTAATATTTTCATATCATATGAACATTAAGTCTTTATACATGC
14213368 TCATTTAA-TTTATAATTATTCAAGTAATATTGTTTGAATAGTTATATTGTTTTTTTCAAAAATC
1 TCATTTAATTTTATAATTATTCAAGTAATATTGTTTGAATAGTTATATTGTTTTTTTCAAAAATC
14213432 AAATGATATAACTTTTGTCCAATGACAAAAAGATTTATCTTTTGATTAATTACACCCATTCATTT
66 AAATGATATAACTTTTGTCCAATGACAAAAAGATTTATCTTTTGATTAATTACACCCATTCATTT
14213497 ATAGTTATTGAAATACTATAAATATTTGAGAATATTCCAACATAAATTATCATCCATTTTCATCT
131 ATAGTTATTGAAATACTATAAATATTTGAGAATATTCCAACATAAATTATCATCCATTTTCATCT
14213562 TGTATATGCATATTAATATTTTCATATCATATGAACATTAAGTCTTTATACATGC
196 TGTATATGCATATTAATATTTTCATATCATATGAACATTAAGTCTTTATACATGC
14213617 T
1 T
14213618 TTTCCATTGA
Statistics
Matches: 250, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
249 242 0.97
250 8 0.03
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (250 bp):
TCATTTAATTTTATAATTATTCAAGTAATATTGTTTGAATAGTTATATTGTTTTTTTCAAAAATC
AAATGATATAACTTTTGTCCAATGACAAAAAGATTTATCTTTTGATTAATTACACCCATTCATTT
ATAGTTATTGAAATACTATAAATATTTGAGAATATTCCAACATAAATTATCATCCATTTTCATCT
TGTATATGCATATTAATATTTTCATATCATATGAACATTAAGTCTTTATACATGC
Found at i:14214978 original size:19 final size:19
Alignment explanation
Indices: 14214954--14214991 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
14214944 ATCTAAAGTT
14214954 TTATTTAATTTA-TATTTTA
1 TTATTT-ATTTACTATTTTA
14214973 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
14214992 CCCTTACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:14231681 original size:71 final size:71
Alignment explanation
Indices: 14231565--14231705 Score: 232
Period size: 71 Copynumber: 2.0 Consensus size: 71
14231555 AAAGTGTTAC
* *
14231565 CGATACCTTGAGGACTTCTACAGAAACAAGTCAAGTCAGTAGCAAAAGTTCAGCA-TCTCTTGCA
1 CGATACCTTGAGGACTTCTACAGAAACAAGTCAAGTCAGTAGCAAAAGTTCAACATTC-CCTGCA
14231629 CTTCTAT
65 CTTCTAT
14231636 CGATACCTTGAGGACTTCTATC-GAAACAAGTCAAGTCAGTAGCAAAAGTTCAACATTCCCTGCA
1 CGATACCTTGAGGACTTCTA-CAGAAACAAGTCAAGTCAGTAGCAAAAGTTCAACATTCCCTGCA
14231700 CTTCTA
65 CTTCTA
14231706 CCAATACTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
71 63 0.95
72 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (71 bp):
CGATACCTTGAGGACTTCTACAGAAACAAGTCAAGTCAGTAGCAAAAGTTCAACATTCCCTGCAC
TTCTAT
Found at i:14235974 original size:33 final size:33
Alignment explanation
Indices: 14235931--14236002 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
14235921 CAGTACAACA
*
14235931 AAATACAATACATAGCATAAATTAATAACCTCC
1 AAATATAATACATAGCATAAATTAATAACCTCC
14235964 AAATATAATACATAGCATAAATTAATAACCTCC
1 AAATATAATACATAGCATAAATTAATAACCTCC
*
14235997 GAATAT
1 AAATAT
14236003 GTCATGCACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.26
Consensus pattern (33 bp):
AAATATAATACATAGCATAAATTAATAACCTCC
Found at i:14237354 original size:34 final size:34
Alignment explanation
Indices: 14237316--14237380 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
14237306 TAAAAGCTGA
* *
14237316 TTAATTTTAATCTAGTTAATTAATTTAATTTCGG
1 TTAATTTGAATCTAGTTAATTAATTCAATTTCGG
*
14237350 TTAATTTGCATCTAGTTAATTAATTCAATTT
1 TTAATTTGAATCTAGTTAATTAATTCAATTT
14237381 TAAAATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (34 bp):
TTAATTTGAATCTAGTTAATTAATTCAATTTCGG
Found at i:14242211 original size:34 final size:34
Alignment explanation
Indices: 14242173--14242237 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
14242163 TAAAAGCTGA
* *
14242173 TTAATTTTCATCTAGTTAATTAATTTAATTTCGG
1 TTAATTTGCATCTAGTTAATTAATTCAATTTCGG
14242207 TTAATTTGCATCTAGTTAATTAATTCAATTT
1 TTAATTTGCATCTAGTTAATTAATTCAATTT
14242238 TAAAATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (34 bp):
TTAATTTGCATCTAGTTAATTAATTCAATTTCGG
Found at i:14242722 original size:122 final size:122
Alignment explanation
Indices: 14242502--14242868 Score: 545
Period size: 122 Copynumber: 3.0 Consensus size: 122
14242492 CAACTGACTC
* * * * *
14242502 TAGGTTGATTAATTCAACTTTCTTTCTAATTAAAACTCCTATTATCACATCCGAAAAATCAAGTT
1 TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAACCCCTATTGTCACATCCCAAAAATTAAGTT
* * * *
14242567 AGAAGGATTGGGTTAGTGGAACTAAGAGCGGTCACGCCCTGATTTTTAAGTTACTAT
66 AGAAGGATTGGGTTAGTGGAACCAAGAGTGGTCACGCCCTGATTTTTGAGTTAATAT
*
14242624 TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAACCCCTATTGTCACATCCTAAAAATTAAGTT
1 TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAACCCCTATTGTCACATCCCAAAAATTAAGTT
**
14242689 AGAAGGATTGGGTTAGTGGAACCAAGAGTGGTCACAACCTGATTTTTGAGTTAATAT
66 AGAAGGATTGGGTTAGTGGAACCAAGAGTGGTCACGCCCTGATTTTTGAGTTAATAT
* * * **
14242746 TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAATCCTTATTGTCACATCCCAAAAACTGGGTT
1 TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAACCCCTATTGTCACATCCCAAAAATTAAGTT
* * * *
14242811 AGAAGGATTAGGTTGGTGGAACCAAGAGTGGTCAAGCCTTGATTTTTGAGTTAATAT
66 AGAAGGATTGGGTTAGTGGAACCAAGAGTGGTCACGCCCTGATTTTTGAGTTAATAT
14242868 T
1 T
14242869 GTGAATATTT
Statistics
Matches: 222, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 222 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (122 bp):
TAGGTTGATTAATTGAACTTTCTTTCTAATTAAAACCCCTATTGTCACATCCCAAAAATTAAGTT
AGAAGGATTGGGTTAGTGGAACCAAGAGTGGTCACGCCCTGATTTTTGAGTTAATAT
Found at i:14250248 original size:19 final size:19
Alignment explanation
Indices: 14250224--14250261 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
14250214 ATCTAAAGTT
14250224 TTATTTAATTTAC-ATTTTA
1 TTATTT-ATTTACTATTTTA
14250243 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
14250262 CCCTTACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:14276407 original size:4 final size:4
Alignment explanation
Indices: 14276398--14276436 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
14276388 GAAATCAAAT
14276398 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
14276437 TAAATGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:14286840 original size:4 final size:4
Alignment explanation
Indices: 14286831--14286897 Score: 125
Period size: 4 Copynumber: 16.8 Consensus size: 4
14286821 GAAATCAAAT
*
14286831 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
14286879 ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATA
14286898 TAAATGAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:14293617 original size:24 final size:24
Alignment explanation
Indices: 14293589--14293645 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
14293579 GGTTTTATCT
*
14293589 ATTATTAAATTATAAAATATATTA
1 ATTATTAAATTATAAAATAAATTA
* *
14293613 ATTATTATATTATGAAATAAATTA
1 ATTATTAAATTATAAAATAAATTA
14293637 ATTAATTAA
1 ATT-ATTAA
14293646 TTAAGACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTATTAAATTATAAAATAAATTA
Found at i:14293656 original size:24 final size:24
Alignment explanation
Indices: 14293589--14293656 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
14293579 GGTTTTATCT
* *
14293589 ATTATTAAATTATA-AAATATATTA
1 ATTATTATATTA-AGAAATAAATTA
*
14293613 ATTATTATATTATGAAATAAATTA
1 ATTATTATATTAAGAAATAAATTA
*
14293637 ATTAATTA-ATTAAGACATAA
1 ATT-ATTATATTAAGAAATAA
14293657 CAAATGTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 33 0.89
25 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTATTATATTAAGAAATAAATTA
Found at i:14294742 original size:14 final size:15
Alignment explanation
Indices: 14294718--14294750 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14294708 AATTGAATTG
14294718 AATAAATAATAAATA
1 AATAAATAATAAATA
14294733 AATAAA-AATAAATA
1 AATAAATAATAAATA
14294747 AATA
1 AATA
14294751 TGTGAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAATAATAAATA
Done.