Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 148 of 228
Found at i:44509390 original size:23 final size:22
Alignment explanation
Indices: 44509315--44509466 Score: 83
Period size: 22 Copynumber: 6.8 Consensus size: 22
44509305 TGACTTCCAT
* **
44509315 GTGATATGCGAACTTACATTAAA
1 GTGATATGCGAACCTATGTT-AA
* * * *
44509338 GTGACATGTGAACCTATGCTAT
1 GTGATATGCGAACCTATGTTAA
44509360 GTGATATGCGAACCTATGTTTAA
1 GTGATATGCGAACCTATG-TTAA
* * *
44509383 GTGATATGCAAATCTAAGTTATA
1 GTGATATGCGAACCTATGTTA-A
* * * *
44509406 -TGGTATGCAAACTTATGCTAAA
1 GTGATATGCGAACCTATG-TTAA
* * *
44509428 GTGATATGTGAACCTAAGTTAT
1 GTGATATGCGAACCTATGTTAA
* *
44509450 GTGGTATGAGAA-CTATG
1 GTGATATGCGAACCTATG
44509467 ACTTATGTGA
Statistics
Matches: 96, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
21 4 0.04
22 46 0.48
23 46 0.48
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (22 bp):
GTGATATGCGAACCTATGTTAA
Found at i:44510049 original size:17 final size:17
Alignment explanation
Indices: 44510029--44510066 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44510019 TTATGGAGTA
* *
44510029 GTATGAATTGTTATTTT
1 GTATGAATTGCTATTTG
44510046 GTATGAATTGCTATTTG
1 GTATGAATTGCTATTTG
44510063 GTAT
1 GTAT
44510067 AAAGTATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.53
Consensus pattern (17 bp):
GTATGAATTGCTATTTG
Found at i:44510103 original size:17 final size:17
Alignment explanation
Indices: 44510083--44510120 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44510073 TTGTCTCATA
44510083 TGAACTG-TTGTTTACTG
1 TGAACTGATTGTTTAC-G
*
44510100 TGAACTGATTTTTTACG
1 TGAACTGATTGTTTACG
44510117 TGAA
1 TGAA
44510121 GTACATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.45
Consensus pattern (17 bp):
TGAACTGATTGTTTACG
Found at i:44510147 original size:18 final size:18
Alignment explanation
Indices: 44510126--44510177 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
44510116 GTGAAGTACA
44510126 TATTTTATGCGAATTGCT
1 TATTTTATGCGAATTGCT
* * * **
44510144 TATTCTATGTGAACTATT
1 TATTTTATGCGAATTGCT
*
44510162 TATTTTATGGGAATTG
1 TATTTTATGCGAATTG
44510178 TAAGTCGTGC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (18 bp):
TATTTTATGCGAATTGCT
Found at i:44512198 original size:51 final size:50
Alignment explanation
Indices: 44512138--44512323 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
44512128 ACTGGTTCAC
* * * * * *
44512138 ATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTCATCCGATACAT
1 ATAGTAGCCTACACATAGTACTACACACGTGACCA-TATCATCCGGTACAA
* * *
44512189 GTAGTAGCCTACACATAGTACTACACACGTGATCGA-AGCTATCCGGTACAA
1 ATAGTAGCCTACACATAGTACTACACACGTGA-CCATATC-ATCCGGTACAA
* * *
44512240 ATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACAC
1 ATAGTAGCCTACACATAGTACTACACACGTGACCATATCA-TCCGGTACAA
* *
44512290 ATAGTAGCCTGCACATAGTACTACGCACGTGACC
1 ATAGTAGCCTACACATAGTACTACACACGTGACC
44512324 TAGCAACTTC
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 43 0.38
51 66 0.59
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
ATAGTAGCCTACACATAGTACTACACACGTGACCATATCATCCGGTACAA
Found at i:44512319 original size:101 final size:101
Alignment explanation
Indices: 44512138--44512321 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 101
44512128 ACTGGTTCAC
* * * * **
44512138 ATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTCATCCGATACATGTAGTAGCCTACAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACACATAGTAGCCTACAC
44512203 ATAGTACTACACACGTGATCGAAGCTATCCGGTACAA
65 ATAGTACTACACACGTGATCGAAGCTATCCGGTACAA
* *
44512240 ATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACATAGTAGCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGATACACATAGTAGCCTACAC
*
44512304 ATAGTACTACGCACGTGA
65 ATAGTACTACACACGTGA
44512322 CCTAGCAACT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.06
101 37 0.51
102 31 0.43
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACACATAGTAGCCTACACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACAA
Found at i:44515503 original size:49 final size:48
Alignment explanation
Indices: 44515447--44515592 Score: 220
Period size: 49 Copynumber: 3.0 Consensus size: 48
44515437 TTTATTTTCT
44515447 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAG-CCAACTATGGTCTTACACGTAATCACATATCACATAC
* * *
44515496 CGATGCCATAGCTCAGCTATGGTCTTACACGTAATCACACATCATATAC
1 CGATGCCATAGC-CAACTATGGTCTTACACGTAATCACATATCACATAC
*
44515545 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACATTATCACAT
1 CGATGCCATAG-CCAACTATGGTCTTACACGTAATCACA-TATCACAT
44515593 TTTCACATGT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
48 1 0.01
49 79 0.91
50 7 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (48 bp):
CGATGCCATAGCCAACTATGGTCTTACACGTAATCACATATCACATAC
Found at i:44516703 original size:40 final size:40
Alignment explanation
Indices: 44516645--44516726 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
44516635 GCCACAAAGA
*
44516645 TAGTACAAATTTTTTCTATTCGATATAAACCAAAACCTGT
1 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
44516685 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
1 TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
44516725 TA
1 TA
44516727 TTTCTTTTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (40 bp):
TAGTACAAATTTTCTCTATTCGATATAAACCAAAACCTGT
Found at i:44518318 original size:50 final size:50
Alignment explanation
Indices: 44518153--44518339 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 50
44518143 CCAGTTCACA
* * * * * * * *
44518153 TAGTAGCCTGCACATGGTACTACACATGTGACCATTTTAATCTGATATATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACG
* * * ** * * *
44518204 TAGTAGCCTGCACGTAGTGCTACACACGTGATCGAAGC-TATCCAGTACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCTATCAT-TCCGGTACACG
*
44518255 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGGTACACG
* *
44518305 TAGTAGCCTGCACATAGTACTGCACAAGTGACCTA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTA
44518340 GCAACTTCAC
Statistics
Matches: 105, Mismatches: 28, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
50 44 0.42
51 60 0.57
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGGTACACG
Found at i:44518357 original size:102 final size:102
Alignment explanation
Indices: 44518143--44518370 Score: 235
Period size: 102 Copynumber: 2.2 Consensus size: 102
44518133 ATTAATGACA
* * * * * * *
44518143 CCAGTTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTAATCTGATATATGTAGT
1 CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
* * * * *
44518208 AGCCTGCACGTAGTGCTACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACAAGTGATCCAAGCAAT
* * *
44518245 CCAGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGT
1 CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
* *
44518309 AGCCTGCACATAGTACTGCACAAGTGA-CCTAGCAACT
66 AGCCTGCACATAGTACTACACAAGTGATCCAAGCAA-T
* * * *
44518346 TCACTTTCACATAGTGGCCTACACA
1 CCA-GTTCACATAGTAGCCTGCACA
44518371 CAGTCCATGC
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
100 5 0.05
101 40 0.39
102 57 0.56
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CCAGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCAATCCGATACACGTAGT
AGCCTGCACATAGTACTACACAAGTGATCCAAGCAAT
Found at i:44520645 original size:13 final size:13
Alignment explanation
Indices: 44520627--44520651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44520617 TAATCATTGC
44520627 ATAATTTAATCAT
1 ATAATTTAATCAT
44520640 ATAATTTAATCA
1 ATAATTTAATCA
44520652 AAATTAAACC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTTAATCAT
Found at i:44522994 original size:7 final size:7
Alignment explanation
Indices: 44522982--44523009 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
44522972 GATCAGTAAG
44522982 CCCTAAA
1 CCCTAAA
44522989 CCCTAAA
1 CCCTAAA
44522996 CCCTAAA
1 CCCTAAA
44523003 CCCTAAA
1 CCCTAAA
44523010 ATTAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:44523360 original size:4 final size:4
Alignment explanation
Indices: 44523351--44523381 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
44523341 AACCTAAGCT
44523351 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
44523382 CTGTACAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:44523645 original size:22 final size:22
Alignment explanation
Indices: 44523620--44523663 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44523610 ACAAAAATCA
*
44523620 ATCAATCATGTATACTTACCAT
1 ATCAATCATGCATACTTACCAT
44523642 ATCAATCATGCATACTTACCAT
1 ATCAATCATGCATACTTACCAT
44523664 TTAAACCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (22 bp):
ATCAATCATGCATACTTACCAT
Found at i:44524923 original size:20 final size:20
Alignment explanation
Indices: 44524898--44524940 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
44524888 ACCTAGGAGC
44524898 TTCATCTTACTCGTGTATAA
1 TTCATCTTACTCGTGTATAA
44524918 TTCATCTTACTCGTGTATAA
1 TTCATCTTACTCGTGTATAA
44524938 TTC
1 TTC
44524941 TTTTGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (20 bp):
TTCATCTTACTCGTGTATAA
Found at i:44527049 original size:42 final size:40
Alignment explanation
Indices: 44526995--44527129 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 40
44526985 TAGATGTTAC
44526995 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTATTATTGTTAGTAAAAAACTA-TATTATTATTATGG
** * *
44527036 TTAGTTATTATTGTTAGTAAAACCCTA-ATTATTATTGTTAG
1 TTAG-TATTATTGTTAGTAAAAAACTATATTATTATT-ATGG
* *
44527077 TTAGTATTATT-TTGAGTATAAAACTATTATTATTGTTATTGTG
1 TTAGTATTATTGTT-AGTAAAAAACTA-TATTATTATTA-TG-G
44527120 TTAGTTATTA
1 TTAG-TATTA
44527130 GGGTTAGTGG
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
39 2 0.03
40 25 0.33
41 10 0.13
42 29 0.38
43 5 0.07
44 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (40 bp):
TTAGTATTATTGTTAGTAAAAAACTATATTATTATTATGG
Found at i:44531875 original size:18 final size:18
Alignment explanation
Indices: 44531852--44531908 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
44531842 TATATTTAGG
*
44531852 TATAATAATAATATACAA
1 TATAATAATAATATAAAA
44531870 TATAATAATAATTAATAAAA
1 TATAATAATAA-T-ATAAAA
*
44531890 TAAAATTAATAATATAAAA
1 TATAA-TAATAATATAAAA
44531909 AAACTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 11 0.32
19 7 0.21
20 10 0.29
21 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAATAATAATATAAAA
Found at i:44531898 original size:14 final size:14
Alignment explanation
Indices: 44531868--44531908 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44531858 AATAATATAC
*
44531868 AATATAATAATAATT
1 AATAAAATAA-AATT
44531883 AATAAAATAAAATT
1 AATAAAATAAAATT
*
44531897 AATAATATAAAA
1 AATAAAATAAAA
44531909 AAACTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAATAAAATT
Found at i:44535050 original size:29 final size:29
Alignment explanation
Indices: 44534967--44535050 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
44534957 TTTTTTTCCC
*
44534967 GAATTTTATTACTTTCAATAAAAATATAT
1 GAATTTTATTACTTTCAATAAAAATTTAT
* * * *
44534996 -TATTTCTA-TATTTTTAA-AAAATATTTCT
1 GAATTT-TATTACTTTCAATAAAA-ATTTAT
*
44535024 GAATTTTATTACTTTCAATATAAATTT
1 GAATTTTATTACTTTCAATAAAAATTT
44535051 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
27 4 0.10
28 17 0.41
29 17 0.41
30 3 0.07
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (29 bp):
GAATTTTATTACTTTCAATAAAAATTTAT
Found at i:44535251 original size:160 final size:159
Alignment explanation
Indices: 44535046--44535664 Score: 622
Period size: 158 Copynumber: 3.9 Consensus size: 159
44535036 TTTCAATATA
* * *
44535046 AATTTTT-AAAAATTTAGTGTAAAAAAAACTCTTATTCCTGCCCTTTGCTCATATAATTTTC-CC
1 AATTTTTAAAAAATTTAG-GT-AAAAAAACTCTTATTCCGGCCCTTTGCTCGTATTATTTTCTCC
* * * *
44535109 GAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTAAATTATTTTAGTA
64 GAATTTTATTACTTT--A-AAAAATATATAATTTTT-AATTTTATTATTTTATATTATTTCAGTA
* * *
44535174 CATTTTTTTTGAAATATTTGTATTCATTATTTCTG
125 CATTATGTTTGAAATATTTGTATTAATTATTTCTG
* * *
44535209 AATTTTTAAAAAATTTA-GT-AAAAGACTCTTACTT-CGGCCCTTTGTTCGTATTTTTTTCTCCG
1 AATTTTTAAAAAATTTAGGTAAAAAAACTCTTA-TTCCGGCCCTTTGCTCGTATTATTTTCTCCG
* * * * *
44535271 CATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATT
65 AATTTTATTACTTTAAAAAATAT-ATAATTTTTAATTTTATTATTTTATATTATTTCAGTACATT
* *
44535336 ATGTTTG-AA-A-TT-TATTAATT-TAGTGTG
129 ATGTTTGAAATATTTGTATTAATTAT-TTCTG
* * * **
44535363 -TTTTTTAAATTAATTTAGTGTAAAAAAAATTCTTATTCCTACCCTTTGCTCGTATTATTTTC-C
1 AATTTTTAAA-AAATTTAG-GT-AAAAAAACTCTTATTCCGGCCCTTTGCTCGTATTATTTTCTC
* *
44535426 CGAATTTTATTATTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTATATTATTTCAG
63 CGAATTTTATTACTTT--A-AAAAATATATAATTTT--TAATTTTATTATTTTATATTATTTCAG
* *
44535490 TACATTTTGTTTGAAATATTTGTATTAATTATTTCTA
123 TACATTATGTTTGAAATATTTGTATTAATTATTTCTG
* * * * *
44535527 AATTTTTAAAAAATTTA-GT-AAAACACTTTTACTT-CGGCCATTTGTTCGTATTTTTTTCTCCG
1 AATTTTTAAAAAATTTAGGTAAAAAAACTCTTA-TTCCGGCCCTTTGCTCGTATTATTTTCTCCG
* * *
44535589 CATTTTATTACTTTAAAAAATACCATAATTTTTAATTTTATTATTTTATATTATTTTAGTACATT
65 AATTTTATTACTTTAAAAAATA-TATAATTTTTAATTTTATTATTTTATATTATTTCAGTACATT
44535654 ATGTTTGAAAT
129 ATGTTTGAAAT
44535665 TTATTAATTT
Statistics
Matches: 376, Mismatches: 54, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
153 9 0.02
154 16 0.04
155 2 0.01
156 3 0.01
157 20 0.05
158 117 0.31
159 23 0.06
160 100 0.27
161 38 0.10
162 5 0.01
163 9 0.02
164 25 0.07
165 9 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (159 bp):
AATTTTTAAAAAATTTAGGTAAAAAAACTCTTATTCCGGCCCTTTGCTCGTATTATTTTCTCCGA
ATTTTATTACTTTAAAAAATATATAATTTTTAATTTTATTATTTTATATTATTTCAGTACATTAT
GTTTGAAATATTTGTATTAATTATTTCTG
Found at i:44535605 original size:318 final size:316
Alignment explanation
Indices: 44535048--44535690 Score: 1063
Period size: 318 Copynumber: 2.0 Consensus size: 316
44535038 TCAATATAAA
*
44535048 TTTTTAAA-AATTTAGTGTAAAAAAAACTCTTATTCCTGCCCTTTGCTCATATAATTTTCCCGAA
1 TTTTTAAATAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGAA
* *
44535112 TTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTAAATTATTTTAGTACAT
66 TTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACAT
* * * *
44535177 TTTTTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTACT
131 TTTGTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTACT
* *
44535242 TCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAAT
196 TCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAAT
* * *
44535307 TTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGT
261 TTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAATAT-T
* * *
44535364 TTTTTAAATTAATTTAGTGTAAAAAAAATTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCGA
1 TTTTTAAA-TAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGA
* *
44535429 ATTTTATTATTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACA
65 ATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACA
*
44535494 TTTTGTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTTTTAC
130 TTTTGTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTAC
*
44535559 TTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTTTAA
195 TTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAA
* * *
44535624 TTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAATATT
260 TTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAATATT
44535681 TTTTTAAATA
1 TTTTTAAATA
44535691 TACCATTTTT
Statistics
Matches: 303, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
316 10 0.03
317 9 0.03
318 284 0.94
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (316 bp):
TTTTTAAATAATTTAGTGTAAAAAAAACTCTTATTCCTACCCTTTGCTCATATAATTTTCCCGAA
TTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTAAATTATTTCAGTACAT
TTTGTTTGAAATATTTGTATTAATTATTTCTAAATTTTTAAAAAATTTAGTAAAACACTCTTACT
TCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATACCATAATTTCTAAT
TTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAATATT
Found at i:44536062 original size:10 final size:10
Alignment explanation
Indices: 44536044--44536158 Score: 66
Period size: 10 Copynumber: 11.9 Consensus size: 10
44536034 TTTCCTTCCC
44536044 TCTTC-TTCT
1 TCTTCTTTCT
44536053 TCTTCTTTCT
1 TCTTCTTTCT
*
44536063 TTTTCTTTTCT
1 TCTTC-TTTCT
*
44536074 TCTCCTTTCCT
1 TCTTCTTT-CT
44536085 T-TTCTTTC-
1 TCTTCTTTCT
44536093 -CTTCTTT-T
1 TCTTCTTTCT
* *
44536101 TCTTTCTTCCC
1 TC-TTCTTTCT
*
44536112 TCTCCTTTCCT
1 TCTTCTTT-CT
44536123 T-TTCTTTCT
1 TCTTCTTTCT
* *
44536132 TTTTGTTTC-
1 TCTTCTTTCT
44536141 T-TTCTTTCT
1 TCTTCTTTCT
*
44536150 TCTCCTTTC
1 TCTTCTTTC
44536159 CCTCTCCTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
8 12 0.15
9 12 0.15
10 42 0.52
11 15 0.19
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:44536075 original size:21 final size:21
Alignment explanation
Indices: 44536044--44536105 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
44536034 TTTCCTTCCC
44536044 TCTTCTTCTTCTTCTTTCTTTT
1 TCTT-TTCTTCTTCTTTCTTTT
* *
44536066 TCTTTTCTTCTCCTTTCCTTT
1 TCTTTTCTTCTTCTTTCTTTT
*
44536087 TCTTTCCTTCTT-TTTCTTT
1 TCTTTTCTTCTTCTTTCTTT
44536106 CTTCCCTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 6 0.17
21 25 0.71
22 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTCTTCTTCTTTCTTTT
Found at i:44536107 original size:34 final size:34
Alignment explanation
Indices: 44536023--44536135 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 34
44536013 AAAATTACCT
44536023 TTTCTTTTTCTTTTCCTTCCCTCTT-CTTCTTC-TTC
1 TTTCTTTTTCTTTT-CTTCCCT-TTCCTT-TTCTTTC
44536058 TTTCTTTTTCTTTTCTTCTCCTTTCCTTTTCTTTC
1 TTTCTTTTTCTTTTCTTC-CCTTTCCTTTTCTTTC
* * *
44536093 CTTCTTTTTC-TTTCTTCCCTCTCCTTTCCTTTTC
1 TTTCTTTTTCTTTTCTTCCCTTTCCTTTTC-TTTC
44536127 TTTCTTTTT
1 TTTCTTTTT
44536136 GTTTCTTTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
33 10 0.14
34 28 0.40
35 32 0.46
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTCTTTTTCTTTTCTTCCCTTTCCTTTTCTTTC
Found at i:44536124 original size:38 final size:36
Alignment explanation
Indices: 44536024--44536159 Score: 140
Period size: 38 Copynumber: 3.8 Consensus size: 36
44536014 AAATTACCTT
*
44536024 TTCTTTTTCTTT-TCCTTC-CCTCTT-CTTCTTC-TTC
1 TTCTTTTTCTTTCTTCTTCTCCT-TTCCTT-TTCTTTC
44536058 TTTCTTTTTC-TT-TTCTTCTCCTTTCCTTTTCTTTCC
1 -TTCTTTTTCTTTCTTCTTCTCCTTTCCTTTTCTTT-C
*
44536094 TTCTTTTTCTTTCTTCCCTCTCCTTTCCTTTTCTTTC
1 TTCTTTTTCTTTCTT-CTTCTCCTTTCCTTTTCTTTC
*
44536131 TTTTTGTTTCTTTCTTTCTTCTCCTTTCC
1 TTCTT-TTTCTTTC-TTCTTCTCCTTTCC
44536160 CTCTCCTTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
34 12 0.14
35 26 0.30
36 3 0.03
37 7 0.08
38 38 0.43
39 2 0.02
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (36 bp):
TTCTTTTTCTTTCTTCTTCTCCTTTCCTTTTCTTTC
Found at i:44536141 original size:34 final size:33
Alignment explanation
Indices: 44536020--44536142 Score: 110
Period size: 34 Copynumber: 3.7 Consensus size: 33
44536010 AAAAAAATTA
* * *
44536020 CCTTTTCTTT-TTCTTTTCCTTCCCTCTTC-TT
1 CCTTTTCTTTCTTTTTTTTCTTCCCTCTCCTTT
*
44536051 -CTTCTTCTTTCTTTTTCTTTTCTTCTCCTTTCCTTT
1 CCTT-TTCTTTC-TTTT-TTTTCTTC-CCTCTCCTTT
* *
44536087 TC-TTTCCTTCTTTTTCTTTCTTCCCTCTCCTTT
1 CCTTTTCTTTCTTTTT-TTTCTTCCCTCTCCTTT
44536120 CCTTTTCTTTCTTTTTGTTTCTT
1 CCTTTTCTTTCTTTTT-TTTCTT
44536143 TCTTTCTTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
30 3 0.04
31 6 0.08
33 14 0.19
34 36 0.49
35 11 0.15
36 3 0.04
37 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (33 bp):
CCTTTTCTTTCTTTTTTTTCTTCCCTCTCCTTT
Found at i:44542814 original size:43 final size:43
Alignment explanation
Indices: 44542759--44542946 Score: 279
Period size: 43 Copynumber: 4.4 Consensus size: 43
44542749 CCGCTAAAAG
*
44542759 TCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
* * *
44542802 TCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
* * *
44542845 TCATGACTTTTAGTGGCACTTCTCCCACAAACGCCGCTATACA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
*
44542888 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGA
1 TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
* *
44542931 ACACGAC-TTTAGCGGC
1 TCATGACTTTTAGCGGC
44542947 ATTTTTTTAA
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 9 0.07
43 120 0.93
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGA
Found at i:44545490 original size:56 final size:56
Alignment explanation
Indices: 44545419--44545683 Score: 301
Period size: 56 Copynumber: 4.8 Consensus size: 56
44545409 TTATGTAAGT
* *
44545419 TATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGT-AGATTATGA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAG-TTATGA
* * * * * *
44545475 TATGATATATATAAGTTATT-A-TTCA-CTAATTTATGAGA-TACATTTAAGTTA-CA
1 TATGATATATATAAGTTATTAAGTT-ATGTAAGTTATGTGAGT-TATGTAAGTTATGA
44545528 GTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGT-AGATTATGA
1 -TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAG-TTATGA
* * * * *
44545585 TATGATATATCTAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGG
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGA
* *
44545641 TATGATATATATAAGTTATTAAGTTTTGTAAATTATGTGAGTT
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTT
44545684 TCTGGGATTA
Statistics
Matches: 176, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
53 2 0.01
54 38 0.22
55 8 0.05
56 124 0.70
57 4 0.02
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (56 bp):
TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGA
Found at i:44545562 original size:9 final size:9
Alignment explanation
Indices: 44545540--44545894 Score: 94
Period size: 9 Copynumber: 39.2 Consensus size: 9
44545530 ATGATATATA
44545540 TAAGTTAT-
1 TAAGTTATG
44545548 TAAGTTATG
1 TAAGTTATG
44545557 TAAGTTATG
1 TAAGTTATG
*
44545566 TGAGTTATG
1 TAAGTTATG
44545575 T-AGATTATG
1 TAAG-TTATG
* *
44545584 ATATGATATATC
1 -TAAG-T-TATG
44545596 TAAGTTAT-
1 TAAGTTATG
*
44545604 TAAGTTAGG
1 TAAGTTATG
*
44545613 TAATTTATG
1 TAAGTTATG
* *
44545622 TGAGTTATT
1 TAAGTTATG
44545631 TAAGTTATGG
1 TAAGTTAT-G
* *
44545641 TATGATATATA
1 TAAG-T-TATG
44545652 TAAGTTAT-
1 TAAGTTATG
*
44545660 TAAGTTTTG
1 TAAGTTATG
*
44545669 TAAATTATG
1 TAAGTTATG
* *
44545678 TGAGTT-TC
1 TAAGTTATG
**
44545686 TGGGATTATG
1 TAAG-TTATG
* * *
44545696 TGATTTATT
1 TAAGTTATG
44545705 TAAGTTATG
1 TAAGTTATG
44545714 ---GTT-TG
1 TAAGTTATG
*
44545719 -ATA-TATATA
1 TA-AGT-TATG
44545728 TAAGTTAT-
1 TAAGTTATG
*
44545736 TAAGTTAGG
1 TAAGTTATG
*
44545745 TAATTTATG
1 TAAGTTATG
* *
44545754 TGAGTTATT
1 TAAGTTATG
*
44545763 TAAGTAATG
1 TAAGTTATG
* * *
44545772 GATGATATATA
1 TAAG-T-TATG
44545783 TAAGTTATTATG
1 TAAG---TTATG
*
44545795 TGAGTTATG
1 TAAGTTATG
*
44545804 TGAGTTATG
1 TAAGTTATG
44545813 TATA-TTATG
1 TA-AGTTATG
* * *
44545822 TGATTTATT
1 TAAGTTATG
44545831 TAAGTTATGG
1 TAAGTTAT-G
** * *
44545841 TTTGATATA
1 TAAGTTATG
*
44545850 T-A-TATATA
1 TAAGT-TATG
44545858 TAAGTTAT-
1 TAAGTTATG
44545866 TAAGTTATG
1 TAAGTTATG
44545875 TAAGTTATG
1 TAAGTTATG
*
44545884 TGAGTTATG
1 TAAGTTATG
44545893 TA
1 TA
44545895 GATTATCAAT
Statistics
Matches: 255, Mismatches: 61, Indels: 61
0.68 0.16 0.16
Matches are distributed among these distances:
5 2 0.01
6 3 0.01
7 1 0.00
8 50 0.20
9 152 0.60
10 19 0.07
11 14 0.05
12 12 0.05
13 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:44545562 original size:110 final size:112
Alignment explanation
Indices: 44545419--44545683 Score: 394
Period size: 110 Copynumber: 2.4 Consensus size: 112
44545409 TTATGTAAGT
* *
44545419 TATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
44545484 TATAAGTTATT-A-TTCA-CTAATTTATGAGA-TACATTTAAGTTACAG
66 TATAAGTTATTAAGTT-AGCTAATTTATGAGAGT-CATTTAAGTTACAG
44545529 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
* * * * **
44545594 TCTAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGG
66 TATAAGTTATTAAGTTAGCTAATTTATGAGAGTCATTTAAGTTACAG
* *
44545641 TATGATATATATAAGTTATTAAGTTTTGTAAATTATGTGAGTT
1 TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTT
44545684 TCTGGGATTA
Statistics
Matches: 141, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
110 73 0.52
111 2 0.01
112 65 0.46
113 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (112 bp):
TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
TATAAGTTATTAAGTTAGCTAATTTATGAGAGTCATTTAAGTTACAG
Found at i:44545704 original size:74 final size:75
Alignment explanation
Indices: 44545617--44545759 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 75
44545607 GTTAGGTAAT
**
44545617 TTATGTGAGTTATTTAAGTTATGGTATG-ATATATATAAGTTATTAAGTTTTGTAAATTATGTGA
1 TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
44545681 GTTTCTGGGA
66 GTTTCTGGGA
* * *
44545691 TTATGTGATTTATTTAAGTTATGGTTTGATATATATATAAGTTATTAAGTTAGGTAATTTATGTG
1 TTATGTGAGTTATTTAAGTTATGGTATGA-ATATATATAAGTTATTAAGTTAGGTAAATTATGTG
44545756 AGTT
65 AGTT
44545760 ATTTAAGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 26 0.42
76 36 0.58
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (75 bp):
TTATGTGAGTTATTTAAGTTATGGTATGAATATATATAAGTTATTAAGTTAGGTAAATTATGTGA
GTTTCTGGGA
Found at i:44545850 original size:126 final size:130
Alignment explanation
Indices: 44545589--44545891 Score: 427
Period size: 132 Copynumber: 2.3 Consensus size: 130
44545579 TTATGATATG
* *
44545589 ATATATCTAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTTATGGTATGATATATATA
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
*
44545654 AGTTATTAAGTTTTGTAAATTATGTGAGTTTCTGGGATTATGTGATTTATTTAAGTTATGGTTTG
66 AGTTATTAA---TTGTAAATTATGTGAGTTTCTGAGATTATGTGATTTATTTAAGTTATGGTTTG
44545719 -AT
128 AAT
44545721 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGG-ATGATATATATA
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
* * * *
44545785 AGTTATT-A-TGTGAGTTATGTGAG-TTATGTATATTATGTGATTTATTTAAGTTATGGTTTGAT
66 AGTTATTAATTGTAAATTATGTGAGTTTCTG-AGATTATGTGATTTATTTAAGTTATGGTTTG--
44545847 ATAT
128 A-AT
* *
44545851 ATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTAT
1 ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTAT
44545892 GTAGATTATC
Statistics
Matches: 157, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
125 4 0.03
126 42 0.27
130 42 0.27
131 19 0.12
132 50 0.32
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (130 bp):
ATATATATAAGTTATTAAGTTAGGTAATTTATGTGAGTTATTTAAGTAATGGTATGATATATATA
AGTTATTAATTGTAAATTATGTGAGTTTCTGAGATTATGTGATTTATTTAAGTTATGGTTTGAAT
Found at i:44546641 original size:13 final size:13
Alignment explanation
Indices: 44546623--44546647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44546613 TTACCCACAG
44546623 CATTAACCAGAAA
1 CATTAACCAGAAA
44546636 CATTAACCAGAA
1 CATTAACCAGAA
44546648 CTTGCAGCAA
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
CATTAACCAGAAA
Found at i:44548027 original size:19 final size:20
Alignment explanation
Indices: 44547990--44548029 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44547980 ATTTGGCAGA
*
44547990 GATTTCGAAGGGGAGTTAGG
1 GATTTCGAAGGGGAATTAGG
*
44548010 GATTTGGAA-GGGAATTAGG
1 GATTTCGAAGGGGAATTAGG
44548029 G
1 G
44548030 GCTGGGTGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.25
Consensus pattern (20 bp):
GATTTCGAAGGGGAATTAGG
Found at i:44548452 original size:18 final size:20
Alignment explanation
Indices: 44548426--44548467 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
44548416 CAAACGCCAC
44548426 AATTGTTAA-AATTTT-TAA
1 AATTGTTAATAATTTTATAA
* *
44548444 AATTTTTAATAGTTTTATAA
1 AATTGTTAATAATTTTATAA
44548464 AATT
1 AATT
44548468 ATAATTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
AATTGTTAATAATTTTATAA
Found at i:44549454 original size:21 final size:21
Alignment explanation
Indices: 44549413--44549456 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44549403 AAACCCTATA
* *
44549413 AATCCCTAACTTTTAACCCCT
1 AATCCCTAACCTCTAACCCCT
*
44549434 AATCCCTAACCTCTAATCCCT
1 AATCCCTAACCTCTAACCCCT
44549455 AA
1 AA
44549457 ACCTTAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.30
Consensus pattern (21 bp):
AATCCCTAACCTCTAACCCCT
Found at i:44549466 original size:15 final size:14
Alignment explanation
Indices: 44549426--44549456 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44549416 CCCTAACTTT
*
44549426 TAACCCCTAATCCC
1 TAACCTCTAATCCC
44549440 TAACCTCTAATCCC
1 TAACCTCTAATCCC
44549454 TAA
1 TAA
44549457 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (14 bp):
TAACCTCTAATCCC
Found at i:44549497 original size:15 final size:14
Alignment explanation
Indices: 44549475--44549509 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
44549465 TCACAACCCT
44549475 TAAACCATAATCCC
1 TAAACCATAATCCC
*
44549489 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
44549504 TAAACC
1 TAAACC
44549510 TTACACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:44549950 original size:41 final size:41
Alignment explanation
Indices: 44549892--44550131 Score: 255
Period size: 41 Copynumber: 5.9 Consensus size: 41
44549882 AAATGTTTTT
* *
44549892 GCGGCGCATTTTCAAAAACGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** * *
44549933 GCGGCGCTTTTTTAAAAATACCGTTAAATCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * ** * * *
44549974 GCGGCACTTCTTGGAGAACGCCGCTATAGCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
44550015 GTGGTGCTTTTTCAAAACCGCCGCTAAATCCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
44550056 GCGGCGCTTTTTCAAAAACACCTCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
44550097 GCAGCGCTTTTTCAAAAACGCCACTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
44550132 AAGGTCAGAA
Statistics
Matches: 157, Mismatches: 42, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 157 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:44550128 original size:123 final size:123
Alignment explanation
Indices: 44549900--44550129 Score: 291
Period size: 123 Copynumber: 1.9 Consensus size: 123
44549890 TTGCGGCGCA
* * * * *
44549900 TTTTCAAAAACGCCGCTATAGCCCCGAGCATTAGCGGCGCTTTTTTAAAAATACCGTTAAATCCC
1 TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTCAAAAACACCGTTAAAGCCC
* ** * * *
44549965 CGAGCATTAGCGGCACTTCTTGGAGAACGCCGCTATAGCCCCAAGCATTAGTGGTGCT
66 CGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCCAAGCATTAGTGGTGCT
* * *
44550023 TTTTCAAAACCGCCGCTAAATCCCCAAGCATTAGCGGCGCTTTTTCAAAAACACC-TCTAAAGCT
1 TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTCAAAAACACCGT-TAAAGCC
* * *
44550087 CTGAGCATTAGCAGCGCTTTTTCAAAAACGCCACTAAAGCCCC
65 CCGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCC
44550130 GAAAGGTCAG
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 1 0.01
123 88 0.99
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (123 bp):
TTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTCAAAAACACCGTTAAAGCCC
CGAGCATTAGCAGCACTTCTTCAAAAACGCCACTAAAGCCCCAAGCATTAGTGGTGCT
Found at i:44550285 original size:40 final size:40
Alignment explanation
Indices: 44550210--44550285 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
44550200 CGCTTTACTA
**
44550210 AAAGTGCCGCTAATGCTCGATCTTTAGTGGCGTTTTACGT
1 AAAGTGCCGCTAATGCTCGATCTTTAGCAGCGTTTTACGT
* *
44550250 AAAGTGCCGCTAATGCTCGATTTTTAGCAGTGTTTT
1 AAAGTGCCGCTAATGCTCGATCTTTAGCAGCGTTTT
44550286 TCGTCCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
AAAGTGCCGCTAATGCTCGATCTTTAGCAGCGTTTTACGT
Found at i:44554823 original size:20 final size:22
Alignment explanation
Indices: 44554800--44554845 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
44554790 AATAGTAGAT
44554800 TATTTTTAA-AATA-TTAAAAA
1 TATTTTTAACAATATTTAAAAA
*
44554820 TA--TTTAACTATATTTAAAAA
1 TATTTTTAACAATATTTAAAAA
44554840 TATTTT
1 TATTTT
44554846 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 11 0.52
22 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTAACAATATTTAAAAA
Found at i:44554842 original size:10 final size:10
Alignment explanation
Indices: 44554807--44554844 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
44554797 GATTATTTTT
44554807 AAAATA-TTA
1 AAAATATTTA
44554816 AAAATATTTA
1 AAAATATTTA
**
44554826 ACTATATTTA
1 AAAATATTTA
44554836 AAAATATTT
1 AAAATATTT
44554845 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:44555170 original size:19 final size:19
Alignment explanation
Indices: 44555146--44555186 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
44555136 CTTTAAAATG
* *
44555146 AAACTTATAAAATACTTTC
1 AAACTTACAAAATACTATC
44555165 AAACTTACAAAATACTATC
1 AAACTTACAAAATACTATC
44555184 AAA
1 AAA
44555187 ATTGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (19 bp):
AAACTTACAAAATACTATC
Found at i:44560569 original size:20 final size:19
Alignment explanation
Indices: 44560500--44560570 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
44560490 TTTGCACATT
*
44560500 TGTGCCCTTAAATGCACTC
1 TGTGCCCTTGAATGCACTC
*
44560519 TGGTGCCCTTG-ATAGCACATT
1 T-GTGCCCTTGAAT-GCAC-TC
44560540 TGTGCCCTTGAATGCACTC
1 TGTGCCCTTGAATGCACTC
*
44560559 CGATGCCCTTGA
1 TG-TGCCCTTGA
44560571 TAGTACATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.12
20 34 0.79
21 4 0.09
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.31
Consensus pattern (19 bp):
TGTGCCCTTGAATGCACTC
Found at i:44560589 original size:40 final size:40
Alignment explanation
Indices: 44560493--44560590 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
44560483 GTTCATGTTT
* * *
44560493 GCACATTTGTGCCCTTAAATGCACTCTGGTGCCCTTGATA
1 GCACATTTGTGCCCTTGAATGCACTCCGATGCCCTTGATA
44560533 GCACATTTGTGCCCTTGAATGCACTCCGATGCCCTTGATA
1 GCACATTTGTGCCCTTGAATGCACTCCGATGCCCTTGATA
* * *
44560573 GTACATTCGTTCCCTTGA
1 GCACATTTGTGCCCTTGA
44560591 TAGCATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (40 bp):
GCACATTTGTGCCCTTGAATGCACTCCGATGCCCTTGATA
Found at i:44560611 original size:20 final size:20
Alignment explanation
Indices: 44560521--44560636 Score: 58
Period size: 20 Copynumber: 5.8 Consensus size: 20
44560511 ATGCACTCTG
* *
44560521 GTGCCCTTGATAGCACATTT
1 GTGCCCCTGATAGCACACTT
* * *
44560541 GTGCCCTTGA-ATGCACTC-C
1 GTGCCCCTGATA-GCACACTT
* *
44560560 GATGCCCTTGATAGTACA-TT
1 G-TGCCCCTGATAGCACACTT
* * * *
44560580 CGTTCCCTTGATAGCATATTT
1 -GTGCCCCTGATAGCACACTT
*
44560601 GTGCCCCTGATTGCACACTT
1 GTGCCCCTGATAGCACACTT
* *
44560621 GTGCTCCTGATTGCAC
1 GTGCCCCTGATAGCAC
44560637 TTTGGTACCC
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
19 2 0.03
20 69 0.92
21 4 0.05
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (20 bp):
GTGCCCCTGATAGCACACTT
Found at i:44560649 original size:20 final size:20
Alignment explanation
Indices: 44560599--44560649 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
44560589 GATAGCATAT
*
44560599 TTGTGCCCCTGATTGCACAC
1 TTGTACCCCTGATTGCACAC
* * *
44560619 TTGTGCTCCTGATTGCAC-T
1 TTGTACCCCTGATTGCACAC
44560638 TTGGTACCCCTG
1 TT-GTACCCCTG
44560650 TTTTTGCATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.12, C:0.31, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGTACCCCTGATTGCACAC
Found at i:44566702 original size:40 final size:40
Alignment explanation
Indices: 44566658--44566829 Score: 157
Period size: 40 Copynumber: 4.3 Consensus size: 40
44566648 CCCTTGTGAA
* * * *
44566658 CACTTTGGTGTCCATGTTTGCACATTCATGCCCCTGAATG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
** *
44566698 CACTTTGGTGCCCCTGATAGCACATTTGTGCTCCTGAATG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
* * * * * * *
44566738 CGCTTCGGTGCCCTTGATAGCACATTCGTACCCCTAAAAG
1 CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
* * * * *
44566778 CACATTT-GTGCCCCTGATTGCACACTCATGCTCTTGATTG
1 CAC-TTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
44566818 CACTTTGGTGCC
1 CACTTTGGTGCC
44566830 TTTGTTTTTG
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
39 3 0.03
40 98 0.95
41 2 0.02
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (40 bp):
CACTTTGGTGCCCCTGATAGCACATTCATGCCCCTGAATG
Found at i:44566801 original size:20 final size:20
Alignment explanation
Indices: 44566675--44566801 Score: 87
Period size: 20 Copynumber: 6.3 Consensus size: 20
44566665 GTGTCCATGT
**
44566675 TTGCACATTCATGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
*
44566695 ATGCAC-TTTGGTGCCCCTGA
1 TTGCACATTT-GTGCCCCTGA
* *
44566715 TAGCACATTTGTGCTCCTGA
1 TTGCACATTTGTGCCCCTGA
* * * *
44566735 ATGCGC-TTCGGTGCCCTTGA
1 TTGCACATT-TGTGCCCCTGA
* * * *
44566755 TAGCACATTCGTACCCCTAA
1 TTGCACATTTGTGCCCCTGA
**
44566775 AAGCACATTTGTGCCCCTGA
1 TTGCACATTTGTGCCCCTGA
44566795 TTGCACA
1 TTGCACA
44566802 CTCATGCTCT
Statistics
Matches: 78, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
19 4 0.05
20 69 0.88
21 5 0.06
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (20 bp):
TTGCACATTTGTGCCCCTGA
Found at i:44569421 original size:220 final size:221
Alignment explanation
Indices: 44569002--44569439 Score: 770
Period size: 220 Copynumber: 2.0 Consensus size: 221
44568992 AAAGAAAATA
* *
44569002 TTATAAATATTGTAATGTTTTGTTTAACATTAATCACATAAATTTTATATTATTTTATGGCTTAT
1 TTATAAAGATTGTAATATTTTGTTTAACATTAATCACATAAATTTTATATTATTTTATGGCTTAT
* *
44569067 ATGTCAGAAAAGCCCTTAAGAAAATGTGAAAAAAAGTAATTAAGTTCTTGTATTAAATTCGCACT
66 ATGTCAGAAAAGCCCTTAAGAAAATGTGAAAAAAAGTAATTAAATTCTTGTATTAAATCCGCACT
* * *
44569132 CAATTAAGTCCCTGCCATTAACAACAAGAAAATCAATTAAGCCCTTCCATTAATGATTTCTGTCA
131 CAATTAAGTCCCTGCCATTAACAAAAAGAAAATCAATTAAGCCCCTCCATTAATGATTTCCGTCA
*
44569197 TTGACCATTTTGACTGTTAAAATTTT
196 TTGACCATTTTGAATGTTAAAATTTT
44569223 TTATAAAGATTGTAATATTTTGTTTAACATTAATCACATAAATTTTATATTATTTTATGGCTTAT
1 TTATAAAGATTGTAATATTTTGTTTAACATTAATCACATAAATTTTATATTATTTTATGGCTTAT
*
44569288 ATGTCAGAAAAGCCCTTAAGAAATTGTG-AAAAAAGTAATTAAATTCTTGTATTAAATCCGCACT
66 ATGTCAGAAAAGCCCTTAAGAAAATGTGAAAAAAAGTAATTAAATTCTTGTATTAAATCCGCACT
* *
44569352 CAATTAAGTCCTTGCCATTAACAAAAAGAAAATCAATTAATCCCCTCCATTAATGATTTCCGTCA
131 CAATTAAGTCCCTGCCATTAACAAAAAGAAAATCAATTAAGCCCCTCCATTAATGATTTCCGTCA
44569417 TTGACCATTTTGAATGTTAAAAT
196 TTGACCATTTTGAATGTTAAAAT
44569440 AAATTGACGT
Statistics
Matches: 206, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
220 116 0.56
221 90 0.44
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (221 bp):
TTATAAAGATTGTAATATTTTGTTTAACATTAATCACATAAATTTTATATTATTTTATGGCTTAT
ATGTCAGAAAAGCCCTTAAGAAAATGTGAAAAAAAGTAATTAAATTCTTGTATTAAATCCGCACT
CAATTAAGTCCCTGCCATTAACAAAAAGAAAATCAATTAAGCCCCTCCATTAATGATTTCCGTCA
TTGACCATTTTGAATGTTAAAATTTT
Found at i:44569535 original size:8 final size:9
Alignment explanation
Indices: 44569512--44569758 Score: 117
Period size: 9 Copynumber: 26.1 Consensus size: 9
44569502 AAAAAATGAT
44569512 TAAAGAATTA
1 TAAA-AATTA
44569522 TAAAAATTA
1 TAAAAATTA
*
44569531 TAAAAA-AA
1 TAAAAATTA
*
44569539 TAGAAAAATA
1 TA-AAAATTA
*
44569549 GAAAAATTA
1 TAAAAATTA
44569558 TAAAAA-TA
1 TAAAAATTA
* *
44569566 TTAAAACTGA
1 -TAAAAATTA
**
44569576 TATAAGCTTA
1 TA-AAAATTA
44569586 TAAAAATTA
1 TAAAAATTA
*
44569595 TAAAAAATAA
1 T-AAAAATTA
* *
44569605 TAAGAACTCA
1 TAA-AAATTA
*
44569615 TAAATATTA
1 TAAAAATTA
*
44569624 TAAAAAATA
1 TAAAAATTA
* *
44569633 TAAAAAATC
1 TAAAAATTA
44569642 TAATAAATTA
1 TAA-AAATTA
44569652 TAAAAAATTA
1 T-AAAAATTA
44569662 T-AAAATTA
1 TAAAAATTA
44569670 -ATAAAATATA
1 TA-AAAAT-TA
44569680 TTAAAAATTTA
1 -TAAAAA-TTA
* *
44569691 TAAAGAGTA
1 TAAAAATTA
*
44569700 TAAAATTTCTTA
1 TAAAA---ATTA
*
44569712 AAAAAATTA
1 TAAAAATTA
44569721 TAAAAA-TA
1 TAAAAATTA
* *
44569729 TTAAAATAGA
1 TAAAAAT-TA
44569739 TAAAAACTTA
1 TAAAAA-TTA
*
44569749 TCAAAATTA
1 TAAAAATTA
44569758 T
1 T
44569759 TACTGAATCA
Statistics
Matches: 181, Mismatches: 35, Indels: 43
0.70 0.14 0.17
Matches are distributed among these distances:
8 19 0.10
9 85 0.47
10 60 0.33
11 9 0.05
12 8 0.04
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:44569617 original size:29 final size:28
Alignment explanation
Indices: 44569585--44569666 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
44569575 ATATAAGCTT
* *
44569585 ATAAAAATTATAAAAAATAATAAGAACTC
1 ATAAAAATTATAAAAAAT-ATAAAAAATC
*
44569614 ATAAATATTATAAAAAATATAAAAAATC
1 ATAAAAATTATAAAAAATATAAAAAATC
44569642 -TAATAAATTATAAAAAATTATAAAA
1 ATAA-AAATTATAAAAAA-TATAAAA
44569667 TTAATAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.06
28 20 0.43
29 24 0.51
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (28 bp):
ATAAAAATTATAAAAAATATAAAAAATC
Found at i:44569625 original size:38 final size:38
Alignment explanation
Indices: 44569550--44569640 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
44569540 AGAAAAATAG
* * *
44569550 AAAAATTAT-AAAAATATTAAAACTGATATAAGCTTAT
1 AAAAATTATAAAAAATAATAAAACTCATATAAGATTAT
*
44569587 AAAAATTATAAAAAATAATAAGAACTCATA-AATATTAT
1 AAAAATTATAAAAAATAATAA-AACTCATATAAGATTAT
*
44569625 AAAAAATATAAAAAAT
1 AAAAATTATAAAAAAT
44569641 CTAATAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
37 9 0.19
38 31 0.66
39 7 0.15
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (38 bp):
AAAAATTATAAAAAATAATAAAACTCATATAAGATTAT
Found at i:44569662 original size:38 final size:38
Alignment explanation
Indices: 44569583--44569666 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
44569573 TGATATAAGC
* * *
44569583 TTATAAAAATTATAAAAAATAATAAGAACTCATAAATA
1 TTATAAAAAATATAAAAAATAATAAGAAATCATAAAAA
* * *
44569621 TTATAAAAAATATAAAAAAT-CTAATAAATTATAAAAAA
1 TTATAAAAAATATAAAAAATAATAAGAAATCAT-AAAAA
44569659 TTATAAAA
1 TTATAAAA
44569667 TTAATAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 8 0.21
38 31 0.79
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (38 bp):
TTATAAAAAATATAAAAAATAATAAGAAATCATAAAAA
Found at i:44569684 original size:29 final size:29
Alignment explanation
Indices: 44569616--44569757 Score: 107
Period size: 29 Copynumber: 4.9 Consensus size: 29
44569606 AAGAACTCAT
*
44569616 AAATAT-TATAAAAAATATAAAAAATCTAAT-
1 AAATATAT-TAAAAAAT-TATAAAAT-TAATA
44569646 AAAT-TA-TAAAAAATTATAAAATTAATA
1 AAATATATTAAAAAATTATAAAATTAATA
* *
44569673 AAATATATTAAAAATTTATAAAGAGT-ATA
1 AAATATATTAAAAAATTATAAA-ATTAATA
* * * *
44569702 AAATTTCTTAAAAAAATTATAAAAATATTA
1 AAATATATT-AAAAAATTATAAAATTAATA
* *
44569732 AAATAGA-TAAAAACTTATCAAAATTA
1 AAATATATTAAAAAATTAT-AAAATTA
44569758 TTACTGAATC
Statistics
Matches: 91, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.04
27 11 0.12
28 19 0.21
29 33 0.36
30 24 0.26
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATATATTAAAAAATTATAAAATTAATA
Found at i:44570343 original size:20 final size:21
Alignment explanation
Indices: 44570306--44570344 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44570296 ATTTTAAGGA
*
44570306 TTTAAATGATTTTGTATAAAT
1 TTTAAATAATTTTGTATAAAT
44570327 TTTAAATAATTTT-TATAA
1 TTTAAATAATTTTGTATAA
44570345 TTTCCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTAAATAATTTTGTATAAAT
Found at i:44570346 original size:9 final size:9
Alignment explanation
Indices: 44570332--44570619 Score: 96
Period size: 9 Copynumber: 30.9 Consensus size: 9
44570322 TAAATTTTAA
44570332 ATAATTTTT
1 ATAATTTTT
*
44570341 ATAATTTCCT
1 ATAATTT-TT
44570351 ATAATTTATT
1 ATAATTT-TT
*
44570361 A-GATTTTT
1 ATAATTTTT
*
44570369 AT-ATTATAT
1 ATAATT-TTT
44570378 ATAAATTTTTT
1 AT-AA-TTTTT
*
44570389 ATAAATTTT
1 ATAATTTTT
*
44570398 AAATATATTTT
1 ATA-AT-TTTT
44570409 ATTAATTTTAT
1 A-TAATTTT-T
*
44570420 AAAATTTTT
1 ATAATTTTT
*
44570429 AATGATTTATT
1 -ATAATTT-TT
*
44570440 A-GATTTTAT
1 ATAATTTT-T
* ***
44570449 AAAAAAATT
1 ATAATTTTT
*
44570458 ATAATATTT
1 ATAATTTTT
44570467 ATAATATTTT
1 ATAAT-TTTT
**
44570477 ATTGTTTTTT
1 A-TAATTTTT
44570487 ATAA-TTTT
1 ATAATTTTT
*
44570495 ATAAGTTTAT
1 ATAA-TTTTT
*
44570505 ATCAATTTTA
1 AT-AATTTTT
44570515 AT-ATTTTT
1 ATAATTTTT
44570523 ATTAA-TTTT
1 A-TAATTTTT
44570532 ATAAATATTTT
1 AT-AAT-TTTT
44570543 AATAATTTATT
1 -ATAATTT-TT
*
44570554 A-GATTTTT
1 ATAATTTTT
44570562 AT-A-TTTT
1 ATAATTTTT
*
44570569 ATAATAATTT
1 ATAAT-TTTT
44570579 ATAA-TTTT
1 ATAATTTTT
*
44570587 ATAA--TTA
1 ATAATTTTT
44570594 ATAATTTTT
1 ATAATTTTT
* *
44570603 ATAACTTCT
1 ATAATTTTT
44570612 ATAATTTT
1 ATAATTTT
44570620 CTGAACTTTT
Statistics
Matches: 209, Mismatches: 38, Indels: 64
0.67 0.12 0.21
Matches are distributed among these distances:
7 12 0.06
8 34 0.16
9 69 0.33
10 60 0.29
11 29 0.14
12 5 0.02
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
ATAATTTTT
Found at i:44570428 original size:20 final size:20
Alignment explanation
Indices: 44570323--44570590 Score: 83
Period size: 19 Copynumber: 14.1 Consensus size: 20
44570313 GATTTTGTAT
*
44570323 AAATTTTAAATAATTTT-TA
1 AAATTTTTAATAATTTTATA
* * *
44570342 TAATTTCCT-ATAA-TTTATT
1 AAATTT-TTAATAATTTTATA
* *
44570361 AGATTTTT-AT-ATTATATA
1 AAATTTTTAATAATTTTATA
*
44570379 TAAATTTTTTATAAATTTTA-A
1 -AAATTTTTAAT-AATTTTATA
* *
44570400 ATATATTTTATTAATTTTATA
1 AAAT-TTTTAATAATTTTATA
* *
44570421 AAATTTTTAATGA-TTTATT
1 AAATTTTTAATAATTTTATA
* * **
44570440 AGATTTTATAAAAAAATTATA
1 AAATTTT-TAATAATTTTATA
* *
44570461 ATATTTATAAT-ATTTTAT-
1 AAATTTTTAATAATTTTATA
** *
44570479 -TGTTTTTTATAATTTTAT-
1 AAATTTTTAATAATTTTATA
* *
44570497 AAGTTTAT-ATCAA-TTT-TA
1 AAATTTTTAAT-AATTTTATA
* *
44570515 ATATTTTTATTAATTTTAT-
1 AAATTTTTAATAATTTTATA
*
44570534 AAATATTTTAATAA-TTTATT
1 AAAT-TTTTAATAATTTTATA
*
44570554 AGATTTTT-AT-ATTTTATA
1 AAATTTTTAATAATTTTATA
44570572 ATAA--TTT-ATAATTTTATA
1 A-AATTTTTAATAATTTTATA
44570590 A
1 A
44570591 TTAATAATTT
Statistics
Matches: 184, Mismatches: 42, Indels: 47
0.67 0.15 0.17
Matches are distributed among these distances:
17 15 0.08
18 46 0.25
19 61 0.33
20 38 0.21
21 19 0.10
22 5 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (20 bp):
AAATTTTTAATAATTTTATA
Found at i:44570569 original size:18 final size:19
Alignment explanation
Indices: 44570350--44570588 Score: 85
Period size: 20 Copynumber: 12.6 Consensus size: 19
44570340 TATAATTTCC
44570350 TATAA-TTTATTAGATTTT
1 TATAATTTTATTAGATTTT
* *
44570368 TAT-ATTATATATAAATTTTT
1 TATAATTTTAT-TAGA-TTTT
* *
44570388 TATAAATTTTA-AATATATTT
1 TAT-AATTTTATTAGAT-TTT
* *
44570408 TATTAATTTTATAAAATTTT
1 TA-TAATTTTATTAGATTTT
*
44570428 TAATGA-TTTATTAGATTTT
1 T-ATAATTTTATTAGATTTT
* ** *
44570447 ATAAAAAAATTA-TA-ATATT
1 -T-ATAATTTTATTAGATTTT
*
44570466 TATAATATTTTATT-GTTTTT
1 TAT-A-ATTTTATTAGATTTT
* *
44570486 TATAATTTTATAAG-TTTA
1 TATAATTTTATTAGATTTT
*
44570504 TATCAATTTTA--ATATTTT
1 TAT-AATTTTATTAGATTTT
*
44570522 TATTAATTTTA-TAAATATTT
1 TA-TAATTTTATTAGAT-TTT
44570542 TAATAA-TTTATTAGATTTT
1 T-ATAATTTTATTAGATTTT
*
44570561 TAT-ATTTTA-TA-ATAATT
1 TATAATTTTATTAGAT-TTT
44570578 TATAATTTTAT
1 TATAATTTTAT
44570589 AATTAATAAT
Statistics
Matches: 169, Mismatches: 25, Indels: 53
0.68 0.10 0.21
Matches are distributed among these distances:
16 2 0.01
17 11 0.07
18 46 0.27
19 44 0.26
20 51 0.30
21 10 0.06
22 5 0.03
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TATAATTTTATTAGATTTT
Found at i:44570592 original size:15 final size:15
Alignment explanation
Indices: 44570572--44570619 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
44570562 ATATTTTATA
44570572 ATAATTTATAATTTT
1 ATAATTTATAATTTT
*
44570587 ATAATTAATAATTTTT
1 ATAATTTATAA-TTTT
44570603 ATAACTTCTATAATTTT
1 ATAA-TT-TATAATTTT
44570620 CTGAACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 6 0.21
18 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTTATAATTTT
Found at i:44574336 original size:22 final size:23
Alignment explanation
Indices: 44574295--44574342 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
44574285 TTAATATGTC
*
44574295 AATGCAATATTTTCAGAAAACAA
1 AATGCAATATTTTCAGAAAAAAA
*
44574318 AATGCAGAT-TTTTCAAAAAAAAA
1 AATGCA-ATATTTTCAGAAAAAAA
44574341 AA
1 AA
44574343 ACTTCTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (23 bp):
AATGCAATATTTTCAGAAAAAAA
Found at i:44575090 original size:32 final size:32
Alignment explanation
Indices: 44575054--44575126 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
44575044 CTAGAAAATG
* *
44575054 GGCCCACACGACTTAAACAACCCAAATTGTGT
1 GGCCCACACGACCTAAACAACCCAAACTGTGT
* * *
44575086 GGCCCACATGGCCTAAACAACCCAGACTGTGT
1 GGCCCACACGACCTAAACAACCCAAACTGTGT
*
44575118 GGACCACAC
1 GGCCCACAC
44575127 AGTTTGGCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (32 bp):
GGCCCACACGACCTAAACAACCCAAACTGTGT
Found at i:44583574 original size:28 final size:28
Alignment explanation
Indices: 44583534--44583590 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
44583524 TAATTTTTTG
*
44583534 TAATAATTAATATC-ATATAAAAACTTAA
1 TAATAAATAATATCTA-ATAAAAACTTAA
* *
44583562 TAATAAATGATATCTAATTAAAACTTAA
1 TAATAAATAATATCTAATAAAAACTTAA
44583590 T
1 T
44583591 TTAAAGTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (28 bp):
TAATAAATAATATCTAATAAAAACTTAA
Found at i:44585057 original size:15 final size:17
Alignment explanation
Indices: 44585037--44585077 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44585027 ACTATAAAAA
44585037 ATTTATTA-T-TAATAT
1 ATTTATTATTGTAATAT
*
44585052 ATTTATAATTGTAATAT
1 ATTTATTATTGTAATAT
44585069 ATATTATTA
1 AT-TTATTA
44585078 AAATATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 8 0.38
18 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTATTATTGTAATAT
Found at i:44585142 original size:15 final size:16
Alignment explanation
Indices: 44585122--44585152 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44585112 TTGTTTAAAA
44585122 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
44585137 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
44585153 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:44585193 original size:14 final size:14
Alignment explanation
Indices: 44585147--44585204 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
44585137 TTTAAAATTT
44585147 ATTATTAAA-ATAAA
1 ATTATTAAATAT-AA
*
44585161 ATTATAAAATCGAATAA
1 ATTATTAAAT---ATAA
44585178 ATTATTAAATATAA
1 ATTATTAAATATAA
*
44585192 ATAATTAAATATA
1 ATTATTAAATATA
44585205 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 24 0.65
17 11 0.30
18 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
ATTATTAAATATAA
Found at i:44585269 original size:6 final size:6
Alignment explanation
Indices: 44585258--44585283 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
44585248 TTAAATATTT
44585258 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
44585284 TTATTATTAA
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:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:44588047 original size:5 final size:5
Alignment explanation
Indices: 44588039--44588064 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44588029 GAGATGGAGT
44588039 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
44588065 ATATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:44588613 original size:15 final size:16
Alignment explanation
Indices: 44588593--44588622 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44588583 GTGGAAAATA
44588593 AAAAGTTTG-GGGAAT
1 AAAAGTTTGAGGGAAT
44588608 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
44588623 AATAAATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:44588657 original size:32 final size:33
Alignment explanation
Indices: 44588570--44588658 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 33
44588560 AATGGTGAAA
44588570 AGTAAAAGTTTGG-GTGGAAAATAAAAAGTTTGGGG
1 AGTAAAAGTTTGGAG-GGAAAATAAAAAG--TGGGG
* *
44588605 AATAAAAGTTT-GAGGGAAAATAAATAG-GGGG
1 AGTAAAAGTTTGGAGGGAAAATAAAAAGTGGGG
*
44588636 AGTAAAATTTTGGAGGGAAAATA
1 AGTAAAAGTTTGGAGGGAAAATA
44588659 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 13 0.27
32 11 0.23
34 13 0.27
35 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (33 bp):
AGTAAAAGTTTGGAGGGAAAATAAAAAGTGGGG
Found at i:44588742 original size:31 final size:29
Alignment explanation
Indices: 44588707--44588768 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
44588697 GGGAGGTGGG
*
44588707 ATGGGAAGAGAATAAAAGTTTTAGGGGATAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGA-AA
* * *
44588738 ATGGGAGGGAGTAAAAATTTTGGGGGAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAA
44588767 AT
1 AT
44588769 AAAAGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.15
30 18 0.67
31 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAA
Found at i:44589001 original size:9 final size:9
Alignment explanation
Indices: 44588987--44589018 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
44588977 TTTGACATTT
44588987 GAATTATTC
1 GAATTATTC
44588996 GAATTATTC
1 GAATTATTC
*
44589005 GAGTTATTC
1 GAATTATTC
44589014 GAATT
1 GAATT
44589019 CGAAAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (9 bp):
GAATTATTC
Found at i:44610186 original size:17 final size:16
Alignment explanation
Indices: 44610166--44610198 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
44610156 TATCCCTCAT
44610166 CTCTCATCTCATCATCC
1 CTCTCATCTC-TCATCC
44610183 CTCTCATCTCTCATCC
1 CTCTCATCTCTCATCC
44610199 TCTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.48, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCTCATCTCTCATCC
Found at i:44624046 original size:26 final size:28
Alignment explanation
Indices: 44623995--44624046 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
44623985 TACGTGTGTA
* *
44623995 TATATATATATTATAAAATGTGTATATG
1 TATATATAAATTATAAAATGTATATATG
44624023 TATATATAAATTAT-AAA-GTATATA
1 TATATATAAATTATAAAATGTATATA
44624047 AGAAATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 3 0.14
28 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
TATATATAAATTATAAAATGTATATATG
Found at i:44624128 original size:3 final size:3
Alignment explanation
Indices: 44624120--44624145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44624110 TAAATGAATA
44624120 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
44624146 ACCAATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44629784 original size:13 final size:13
Alignment explanation
Indices: 44629764--44629827 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
44629754 AGTTCTTCAT
44629764 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
44629777 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
44629790 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* * *
44629803 TGTTTTTCAGAAG
1 TGCTTTTGAAAAG
44629816 TGCTTTTGAAAA
1 TGCTTTTGAAAA
44629828 ATTTGAGTGT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:44631118 original size:19 final size:19
Alignment explanation
Indices: 44631094--44631132 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44631084 TCAGTGGAGA
*
44631094 AGAGGAACAAAGAACTAGC
1 AGAGGAACAAAGAACCAGC
44631113 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
44631132 A
1 A
44631133 CCAGCACCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:44631552 original size:19 final size:18
Alignment explanation
Indices: 44631515--44631557 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
44631505 AAGTATTTAT
*
44631515 AGTAAAAATAATAACCAAA
1 AGTAATAATAATAACC-AA
44631534 AGTAATAATGAATAA-CAA
1 AGTAATAAT-AATAACCAA
44631552 AGTAAT
1 AGTAAT
44631558 TAAAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (18 bp):
AGTAATAATAATAACCAA
Found at i:44637683 original size:22 final size:23
Alignment explanation
Indices: 44637641--44637683 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
44637631 TCTTAACAAA
44637641 AAAATTATTTATTCATATAAAAG
1 AAAATTATTTATTCATATAAAAG
44637664 AAAATATATTT-TT-ATATAAA
1 AAAAT-TATTTATTCATATAAA
44637684 GAATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTATTTATTCATATAAAAG
Found at i:44639469 original size:24 final size:24
Alignment explanation
Indices: 44639428--44639519 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
44639418 AATAGGAAAT
* *
44639428 GAGTTACAAGAAGATGAAATATGAA
1 GAGTTA-AGGAAGATGAAAGATGAA
*
44639453 GAGTTAAGGAAGATGAAAGGTGAA
1 GAGTTAAGGAAGATGAAAGATGAA
* *
44639477 -AGGTTGAGGAAGATGAAAGGTGAA
1 GA-GTTAAGGAAGATGAAAGATGAA
* *
44639501 -ATGTGAAGAAAGATGAAAG
1 GA-GTTAAGGAAGATGAAAG
44639520 GTTGAACATC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 1 0.02
24 51 0.88
25 6 0.10
ACGTcount: A:0.48, C:0.01, G:0.34, T:0.17
Consensus pattern (24 bp):
GAGTTAAGGAAGATGAAAGATGAA
Found at i:44639520 original size:24 final size:24
Alignment explanation
Indices: 44639462--44639521 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
44639452 AGAGTTAAGG
*
44639462 AAGATGAAAGGTGAAAGGTTGAGG
1 AAGATGAAAGGTGAAAGGTTGAGA
*
44639486 AAGATGAAAGGTGAAATG-TGAAGA
1 AAGATGAAAGGTGAAAGGTTG-AGA
44639510 AAGATGAAAGGT
1 AAGATGAAAGGT
44639522 TGAACATCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.17
Consensus pattern (24 bp):
AAGATGAAAGGTGAAAGGTTGAGA
Found at i:44639782 original size:89 final size:89
Alignment explanation
Indices: 44639632--44639796 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 89
44639622 TTTCTTTTTA
* * *** *
44639632 CACTCATTTGGGTACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACCTTTTCAAAAAAAG
1 CACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACCTTAAAAAAAAAAA
*
44639697 TAATTAAGCCCCTACTTTTTTTCG
66 CAATTAAGCCCCTACTTTTTTTCG
*
44639721 CACTCAATTGGGTACTTGAACTTTCAAAATGCAGTAAAAAAGGCCCTCAAA-CTTAAAAAAAAAA
1 CACTCAATTGGGTACTTGAACTTTCAAAATACA-TAAAAAAGGCCCTCAAACCTTAAAAAAAAAA
44639785 ACAATTAAGCCC
65 ACAATTAAGCCC
44639797 TTGCTTTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 51 0.76
90 16 0.24
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (89 bp):
CACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGGCCCTCAAACCTTAAAAAAAAAAA
CAATTAAGCCCCTACTTTTTTTCG
Found at i:44639804 original size:89 final size:84
Alignment explanation
Indices: 44639587--44639804 Score: 238
Period size: 89 Copynumber: 2.4 Consensus size: 84
44639577 GTGCAAAAAA
* * *
44639587 CCCTCAAACTTAAAAAAAAAATTAAGCCCTTGTTTTTTCTTTTTACACTCATTTGGGTACTTGAA
1 CCCTCAAACTTAAAAAAAAAATTAAGCCCTTG--CTTT-TTTTCACACTCAATTGGGTACTTGAA
*
44639652 CTTTCAAAATACATCAAAAAGG
63 CTTTCAAAATACATAAAAAAGG
* * * *
44639674 CCCTCAAACCTTTTCAAAAAAAGTAATTAAGCCCCTACTTTTTTTCGCACTCAATTGGGTACTTG
1 CCCTCAAA-C--TT-AAAAAAA-AAATTAAGCCCTTGCTTTTTTTCACACTCAATTGGGTACTTG
*
44639739 AACTTTCAAAATGCAGTAAAAAAGG
61 AACTTTCAAAATACA-TAAAAAAGG
44639764 CCCTCAAACTTAAAAAAAAAAACAATTAAGCCCTTGCTTTT
1 CCCTCAAACTT---AAAAAAAA-AATTAAGCCCTTGCTTTT
44639805 ATTAAAAGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
87 10 0.09
88 1 0.01
89 59 0.54
90 21 0.19
91 7 0.06
92 11 0.10
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (84 bp):
CCCTCAAACTTAAAAAAAAAATTAAGCCCTTGCTTTTTTTCACACTCAATTGGGTACTTGAACTT
TCAAAATACATAAAAAAGG
Found at i:44639850 original size:39 final size:40
Alignment explanation
Indices: 44639807--44639890 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 40
44639797 TTGCTTTTAT
* * *
44639807 TAAAAGTTAGAAAAAAATTA-GAAAAAATCGTAAAATA-TA
1 TAAAAATT-GAAAAAAATTATAAAAAAATCGTAAAAAATTA
* **
44639846 TAAAAATTGTAAAATTTTATAAAAAAATCGTAAAAAATTA
1 TAAAAATTGAAAAAAATTATAAAAAAATCGTAAAAAATTA
44639886 TAAAA
1 TAAAA
44639891 TATATAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
38 8 0.22
39 22 0.59
40 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (40 bp):
TAAAAATTGAAAAAAATTATAAAAAAATCGTAAAAAATTA
Found at i:44639851 original size:10 final size:10
Alignment explanation
Indices: 44639838--44639918 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
44639828 AAAAAATCGT
44639838 AAAATATATA
1 AAAATATATA
*
44639848 AAAAT-TGTA
1 AAAATATATA
* *
44639857 AAATTTTATA
1 AAAATATATA
* *
44639867 AAAAAATCGTA
1 AAAATAT-ATA
44639878 AAAA-AT-TA
1 AAAATATATA
44639886 TAAAATATATA
1 -AAAATATATA
* *
44639897 GAAATATAAA
1 AAAATATATA
44639907 AAAAT-TATA
1 AAAATATATA
44639916 AAA
1 AAA
44639919 TTTTATAAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
8 2 0.04
9 17 0.31
10 28 0.51
11 8 0.15
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:44639871 original size:21 final size:21
Alignment explanation
Indices: 44639842--44639927 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
44639832 AATCGTAAAA
* *
44639842 TATATAAAAATTGTAAAATTT
1 TATAAAAAAATTATAAAATTT
** **
44639863 TATAAAAAAATCGTAAAAAAT
1 TATAAAAAAATTATAAAATTT
*
44639884 TAT-AAAATA-TATAGAAA---
1 TATAAAAAAATTATA-AAATTT
44639901 TATAAAAAAATTATAAAATTT
1 TATAAAAAAATTATAAAATTT
44639922 TATAAA
1 TATAAA
44639928 GTTGTAAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.06
18 8 0.16
19 6 0.12
20 8 0.16
21 26 0.51
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (21 bp):
TATAAAAAAATTATAAAATTT
Found at i:44639950 original size:59 final size:57
Alignment explanation
Indices: 44639839--44639965 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 57
44639829 AAAAATCGTA
* * *
44639839 AAATATATAAAAATTGTAAAATTTTATAAAAAAATCGTAAAAAATTATAAAATATATAG
1 AAATATAAAAAAATTATAAAATTTTAT--AAAAATCGTAAAAAATTATAAAATATAAAG
* * * *
44639898 AAATATAAAAAAATTATAAAATTTTAT-AAAGTTGTAAGAAAGTTATACAAAATGTAAAG
1 AAATATAAAAAAATTATAAAATTTTATAAAAATCGTAA-AAAATTAT--AAAATATAAAG
44639957 AAATATAAA
1 AAATATAAA
44639966 TTTCGTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 8 0.14
57 7 0.12
59 43 0.74
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (57 bp):
AAATATAAAAAAATTATAAAATTTTATAAAAATCGTAAAAAATTATAAAATATAAAG
Found at i:44640443 original size:88 final size:91
Alignment explanation
Indices: 44640298--44640489 Score: 248
Period size: 88 Copynumber: 2.1 Consensus size: 91
44640288 TCTTAATTGC
* * *
44640298 TTTTTTGAAAAATTTTGAGGGCCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG-A
1 TTTTTTGAAAAAGTTTGAGGG-CTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCA
** *
44640362 AAAAAAGCAGAG-A-CTTAATTGCTTT
65 AAAAAAAAAGAGAAGCTTAATTGCTTA
* * * *
44640387 TTTTTTGAAGAAGTTTGAGGG-TTTTGTGATACATTTTGAAAGTTCGAGTGCTCAATTGAGTGCA
1 TTTTTTGAAAAAGTTTGAGGGCTTTT-TGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCA
44640451 AAAAAAAAAGAGAAGCTTAATTGCTTA
65 AAAAAAAAAGAGAAGCTTAATTGCTTA
44640478 TTTTTTGAAAAA
1 TTTTTTGAAAAA
44640490 TTTAAAGGAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
87 4 0.05
88 31 0.35
89 30 0.34
90 1 0.01
91 22 0.25
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTTTGAAAAAGTTTGAGGGCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAA
AAAAAAAAGAGAAGCTTAATTGCTTA
Found at i:44654712 original size:12 final size:14
Alignment explanation
Indices: 44654678--44654716 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44654668 TATTTTACAT
*
44654678 TTCAATTCATCATA
1 TTCAATTTATCATA
44654692 TTCAATTTATCA-A
1 TTCAATTTATCATA
44654705 TT-AATTTATCAT
1 TTCAATTTATCAT
44654717 TTTCTTCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 11 0.48
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (14 bp):
TTCAATTTATCATA
Found at i:44657957 original size:12 final size:14
Alignment explanation
Indices: 44657940--44657976 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44657930 TTCCTTAACA
44657940 TTTCTCT-TC-CTC
1 TTTCTCTCTCTCTC
44657952 TTTCTCTCTCTCTC
1 TTTCTCTCTCTCTC
*
44657966 TCTCTCTCTCT
1 TTTCTCTCTCT
44657977 TATCTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 13 0.59
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTCTCTCTCTCTC
Found at i:44659725 original size:28 final size:28
Alignment explanation
Indices: 44659670--44659727 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
44659660 CAGAAAAGTG
** * *
44659670 AGAAAGTCCACCAAGAGCTATTGTAAGA
1 AGAAAGTCCACCAAGAAATAATGGAAGA
*
44659698 AGAAAGTCCACCAGGAAATAATGGAAGA
1 AGAAAGTCCACCAAGAAATAATGGAAGA
44659726 AG
1 AG
44659728 CAGAAGTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.14
Consensus pattern (28 bp):
AGAAAGTCCACCAAGAAATAATGGAAGA
Found at i:44663243 original size:138 final size:137
Alignment explanation
Indices: 44662987--44663295 Score: 433
Period size: 138 Copynumber: 2.2 Consensus size: 137
44662977 ATGTCATTAG
* * * * * *
44662987 GGTTACCATGTTTTGGATGCTGGTCTTGAATGTCCTATCAGTGGCTGAGTTTCAGATGTATTGCG
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTCACACGTATTGCG
* * *
44663052 AATACTTGACAGATTGTGTGAGTAACATCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGT
66 AATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGC
44663117 AGAACTA
131 AGAACTA
* ** *
44663124 GGTTATCATGTTTCGGGTGTTGGTCTTGAATGTCCTATTGGTGGCTAAGTTTCAACACGTGTTGC
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTC-ACACGTATTGC
*
44663189 -AGATACTTGACAGCTTGTGTGAGCAACACCGTGTAGCTTACATTCCGA-CGGACAGCTTGTGTG
65 GA-ATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATC-GACAGCTTGTGTG
*
44663252 AGCAGACCTA
128 AGCAGAACTA
*
44663262 GGTTACCATGTTTCGAGTGTTGGTCTTGAATGTC
1 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTC
44663296 TTACCGATGG
Statistics
Matches: 152, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
137 48 0.32
138 104 0.68
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (137 bp):
GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCAGTGGCTAAGTTTCACACGTATTGCG
AATACTTGACAGATTGTGTGAGCAACACCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGC
AGAACTA
Found at i:44663332 original size:138 final size:137
Alignment explanation
Indices: 44663053--44663397 Score: 406
Period size: 138 Copynumber: 2.5 Consensus size: 137
44663043 TGTATTGCGA
* * *
44663053 ATACTTGACAGATTGTGTGAGTAACATCGTGTAGCTTACATTCCGATCGACAGCTTGTGTGAGTA
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGA-CGACAGCTTGTGTGAGCA
* * * ** * * *
44663118 GAACTAGGTTATCATGTTTCGGGTGTTGGTCTTGAATGTCCTATTGGTGGCTAAGTTTCAACACG
65 GACCTAGGTTACCATGTTTCGAGTGTTGGTCTTGAATGTCCTACCGATGGATAAGTCTCAACACG
44663183 TGTTGCAG
130 TGTTGCAG
*
44663191 ATACTTGACAGCTTGTGTGAGCAACACCGTGTAGCTTACATTCCGACGGACAGCTTGTGTGAGCA
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGAC-GACAGCTTGTGTGAGCA
* * *
44663256 GACCTAGGTTACCATGTTTCGAGTGTTGGTCTTGAATGTCTTACCGATGGATGAGGTCT-AGCA-
65 GACCTAGGTTACCATGTTTCGAGTGTTGGTCTTGAATGTCCTACCGATGGAT-AAGTCTCAACAC
* **
44663319 TTAGTTGTGG
129 GT-GTTGCAG
* * * * * * *
44663329 ATACTCGATAGCTTGTGTGAGCAACATCGTCTAGCTTACATTTCAACCGATAGCTTGTGTGAGCT
1 ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGA-CGACAGCTTGTGTGAGCA
44663394 GACC
65 GACC
44663398 CATTTTACAG
Statistics
Matches: 177, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
137 2 0.01
138 170 0.96
139 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (137 bp):
ATACTTGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGACGACAGCTTGTGTGAGCAG
ACCTAGGTTACCATGTTTCGAGTGTTGGTCTTGAATGTCCTACCGATGGATAAGTCTCAACACGT
GTTGCAG
Found at i:44665533 original size:22 final size:22
Alignment explanation
Indices: 44665505--44665547 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44665495 TATAAGGGAC
44665505 AATATGTATCATATTGATTGAA
1 AATATGTATCATATTGATTGAA
44665527 AATATGTATCATATTGATTGA
1 AATATGTATCATATTGATTGA
44665548 CTTTGCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
AATATGTATCATATTGATTGAA
Found at i:44666330 original size:12 final size:12
Alignment explanation
Indices: 44666301--44666332 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
44666291 TTAGTTTAGC
44666301 CTTA-GTTTTCT
1 CTTAGGTTTTCT
44666312 C-TAGGTTTTCT
1 CTTAGGTTTTCT
44666323 CTTAGGTTTT
1 CTTAGGTTTT
44666333 TTATACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 9 0.47
12 8 0.42
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (12 bp):
CTTAGGTTTTCT
Found at i:44669350 original size:14 final size:14
Alignment explanation
Indices: 44669331--44669360 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44669321 CCTCTCTTGG
44669331 GTACGATCCTCGGA
1 GTACGATCCTCGGA
44669345 GTACGATCCTCGGA
1 GTACGATCCTCGGA
44669359 GT
1 GT
44669361 TGTAAAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:44696217 original size:12 final size:12
Alignment explanation
Indices: 44696200--44696230 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44696190 GAACATTAGA
*
44696200 TCATTTTGTCAT
1 TCATTTTGTCAC
44696212 TCATTTTGTCAC
1 TCATTTTGTCAC
44696224 TCATTTT
1 TCATTTT
44696231 TCCATGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (12 bp):
TCATTTTGTCAC
Found at i:44704462 original size:56 final size:50
Alignment explanation
Indices: 44704367--44704613 Score: 185
Period size: 50 Copynumber: 4.8 Consensus size: 50
44704357 ATTTGGGTAA
* * * **
44704367 AGAGATCCTATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-A--ACCGA-G--ATG
*
44704423 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGAACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAACCGAGATG
** * *
44704473 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGTCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-AACCGAGATG
** * * * * * * *
44704523 AGAACTCCCACGTAAGACCATATCTGGGATATGGTATTGG--CAGTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAACCG-AGATG
* ** * *
44704572 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAA
44704614 TGTTATTATC
Statistics
Matches: 159, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
48 2 0.01
49 39 0.25
50 74 0.47
51 3 0.02
52 1 0.01
53 3 0.02
55 1 0.01
56 36 0.23
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGAACCGAGATG
Found at i:44712064 original size:50 final size:50
Alignment explanation
Indices: 44712010--44712125 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 50
44712000 ACCGTGTTTG
** * *
44712010 GGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTA
1 GGACATGGCATTGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTA
* * * * *
44712060 GGACATGACATAGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GGACATGGCATTGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTA
*
44712110 GGATATGGCATTGGCA
1 GGACATGGCATTGGCA
44712126 GTACTAGAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (50 bp):
GGACATGGCATTGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTA
Found at i:44716639 original size:27 final size:27
Alignment explanation
Indices: 44716608--44716785 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44716598 TAAATTGTAC
44716608 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44716635 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44716661 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44716689 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44716717 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44716744 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44716771 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44716786 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44716722 original size:82 final size:81
Alignment explanation
Indices: 44716609--44716764 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44716599 AAATTGTACA
* *
44716609 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44716673 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44716690 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44716755 TGCGAGTTGA
65 TGCGAATTGA
44716765 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44716776 original size:82 final size:81
Alignment explanation
Indices: 44716605--44716785 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44716595 GATTAAATTG
* *
44716605 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44716670 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44716686 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44716750 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44716768 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44716786 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44718170 original size:15 final size:15
Alignment explanation
Indices: 44718150--44718182 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
44718140 GGCATGGACA
44718150 TATTTTTATGTG-TTT
1 TATTTTTAT-TGCTTT
44718165 TATTTTTATTGCTTT
1 TATTTTTATTGCTTT
44718180 TAT
1 TAT
44718183 GTTATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (15 bp):
TATTTTTATTGCTTT
Found at i:44723473 original size:43 final size:42
Alignment explanation
Indices: 44723342--44723569 Score: 219
Period size: 42 Copynumber: 5.4 Consensus size: 42
44723332 ACCACTATAG
* ** ** *
44723342 AACATGACTTTTAGCGGTGC-TTCCTTACAAATACCGCTATAG
1 AACATGACCTTTAGCGGTGCTTTCCCCACAAACGCCGCTA-AA
* * * *
44723384 AACATGACCTTTACCGGTGC-TGCCGCACAAA-GACCTCTAAA
1 AACATGACCTTTAGCGGTGCTTTCCCCACAAACG-CCGCTAAA
* *
44723425 GAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGAA
1 -AACATGACCTTTAGCGGTGCTTTCCCCACAAACGCCGCTA-AA
* * *
44723469 AACATTACCTTTATCGGTGCTTTCCCCACAAATGCCGCTAAA
1 AACATGACCTTTAGCGGTGCTTTCCCCACAAACGCCGCTAAA
* * **
44723511 AACATGACCTCTAGCAGCACTTTCCCCACAAACGCCGCTAAA
1 AACATGACCTTTAGCGGTGCTTTCCCCACAAACGCCGCTAAA
44723553 GAACATGACCTTTAGCG
1 -AACATGACCTTTAGCG
44723570 ACGTTTTTCC
Statistics
Matches: 153, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 87 0.57
43 62 0.41
44 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
AACATGACCTTTAGCGGTGCTTTCCCCACAAACGCCGCTAAA
Found at i:44723488 original size:85 final size:84
Alignment explanation
Indices: 44723340--44723566 Score: 235
Period size: 85 Copynumber: 2.7 Consensus size: 84
44723330 GCACCACTAT
* ** ** *
44723340 AGAACATGACTTTTAGCGGTGCTTCCTTACAAATACCGCTATAGAACATGACCTTTACCGGTGC-
1 AGAACATGACCTTTAGCGGTGCTTCCCCACAAACGCCGCTA-AAAACATGACCTTTACCGGTGCT
* *
44723404 TGCCGCACAAA-GACCTCTAA
65 TGCCCCACAAATG-CCGCTAA
* * *
44723424 AGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGAAAACATTACCTTTATCGGTGC
1 AGAACATGACCTTTAGCGGTGCTT-CCCCACAAACGCCGCTA-AAAACATGACCTTTACCGGTGC
*
44723489 TTTCCCCACAAATGCCGCTAA
64 TTGCCCCACAAATGCCGCTAA
* * **
44723510 A-AACATGACCTCTAGCAGCACTTTCCCCACAAACGCCGCTAAAGAACATGACCTTTA
1 AGAACATGACCTTTAGCGGTGC-TTCCCCACAAACGCCGCTAAA-AACATGACCTTTA
44723567 GCGACGTTTT
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
84 25 0.21
85 75 0.63
86 18 0.15
87 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (84 bp):
AGAACATGACCTTTAGCGGTGCTTCCCCACAAACGCCGCTAAAAACATGACCTTTACCGGTGCTT
GCCCCACAAATGCCGCTAA
Found at i:44723587 original size:43 final size:43
Alignment explanation
Indices: 44723340--44723596 Score: 184
Period size: 42 Copynumber: 6.0 Consensus size: 43
44723330 GCACCACTAT
* ** ** ** *
44723340 AGAACATGACTTTTAGCGGTGC-TTCCTTACAAATACCGCTAT
1 AGAACATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAA
* ** * * *
44723382 AGAACATGACCTTTACCGGTGC-TGCCGCACAAA-GACCTCTAA
1 AGAACATGACCTTTAGCGACGCTTTCCCCACAAACG-CCGCTAA
** * *
44723424 AGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGA
1 AGAACATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTA-A
* * ** *
44723468 A-AACATTACCTTTATCGGTGCTTTCCCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAA
* *
44723510 A-AACATGACCTCTAGC-AGCACTTTCCCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGA-CGCTTTCCCCACAAACGCCGCTAA
* * * *
44723552 AGAACATGACCTTTAGCGACGTTTTTCCCAAAAACGCCACTAA
1 AGAACATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAA
44723595 AG
1 AG
44723597 GTCATGTTCT
Statistics
Matches: 177, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
42 90 0.51
43 83 0.47
44 4 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGACGCTTTCCCCACAAACGCCGCTAA
Found at i:44723595 original size:85 final size:86
Alignment explanation
Indices: 44723420--44723596 Score: 196
Period size: 85 Copynumber: 2.1 Consensus size: 86
44723410 ACAAAGACCT
* * ** * * *
44723420 CTAAAGAACATGACCTTTAGCGGTGCTTACCCCACAAACGCTGCTAGAAAACATTACCTTTATCG
1 CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAAAACATGACCTTTAGCG
** * * *
44723485 GTGCTTTCCCCACAAATGCCG
66 ACGCTTTCCCCAAAAACGCCA
*
44723506 CTAAA-AACATGACCTCTAGCAGCACTTTCCCCACAAACGCCGCTA-AAGAACATGACCTTTAGC
1 CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAA-AACATGACCTTTAGC
* *
44723569 GACGTTTTTCCCAAAAACGCCA
65 GACGCTTTCCCCAAAAACGCCA
44723591 CTAAAG
1 CTAAAG
44723597 GTCATGTTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 2 0.03
85 67 0.91
86 5 0.07
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (86 bp):
CTAAAGAACATGACCTCTAGCAGCACTTACCCCACAAACGCCGCTAGAAAACATGACCTTTAGCG
ACGCTTTCCCCAAAAACGCCA
Found at i:44728480 original size:7 final size:7
Alignment explanation
Indices: 44728468--44728495 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
44728458 TAAAGAAATT
44728468 GAAGAGA
1 GAAGAGA
44728475 GAAGAGA
1 GAAGAGA
44728482 GAAGAGA
1 GAAGAGA
44728489 GAAGAGA
1 GAAGAGA
44728496 CCTTACCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAAGAGA
Found at i:44732913 original size:9 final size:9
Alignment explanation
Indices: 44732862--44732927 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
44732852 ATCCAAAGTT
44732862 TTATGTAAG
1 TTATGTAAG
*
44732871 TTATGATATG
1 TTATG-TAAG
* * *
44732881 ATATAT-AT
1 TTATGTAAG
44732889 TTATGT-A-
1 TTATGTAAG
*
44732896 TTATATAAG
1 TTATGTAAG
44732905 TTATGTAAG
1 TTATGTAAG
44732914 TTATGTAAG
1 TTATGTAAG
44732923 TTATG
1 TTATG
44732928 ATCCAAAGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
7 5 0.11
8 6 0.13
9 28 0.62
10 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44732998 original size:13 final size:13
Alignment explanation
Indices: 44732980--44733005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44732970 GATGATCATT
44732980 TTTAAATTTTAAC
1 TTTAAATTTTAAC
44732993 TTTAAATTTTAAC
1 TTTAAATTTTAAC
44733006 CCTTTAATTA
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAC
Found at i:44734493 original size:23 final size:23
Alignment explanation
Indices: 44734462--44734506 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44734452 ACATTGCAAG
* *
44734462 TATAGGACAATGAGGGCTTTAAA
1 TATAAGACAATGAAGGCTTTAAA
*
44734485 TATAAGACAATGAAGGTTTTAA
1 TATAAGACAATGAAGGCTTTAA
44734507 CAGTTTGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (23 bp):
TATAAGACAATGAAGGCTTTAAA
Found at i:44749635 original size:27 final size:27
Alignment explanation
Indices: 44749605--44749781 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
44749595 ATATTGAGTC
* * * *
44749605 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44749632 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44749659 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44749687 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44749714 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44749741 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44749768 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44749782 CGTACAATTT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44749744 original size:82 final size:81
Alignment explanation
Indices: 44749626--44749783 Score: 237
Period size: 82 Copynumber: 1.9 Consensus size: 81
44749616 TGCTATATAA
* *
44749626 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44749691 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44749708 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44749772 CACTTAGTGCCG
65 CACTTAGTGCCG
44749784 TACAATTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 18 0.26
82 51 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44754016 original size:25 final size:25
Alignment explanation
Indices: 44753988--44754066 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
44753978 GTAATGGCCG
44753988 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
44754013 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
44754035 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
44754060 ATGTGAT
1 ATGTGAT
44754067 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:44754038 original size:47 final size:47
Alignment explanation
Indices: 44753979--44754449 Score: 879
Period size: 47 Copynumber: 9.9 Consensus size: 47
44753969 TAGTATGGCG
44753979 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
44754026 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
44754073 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
44754122 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
44754169 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
44754218 TAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
44754265 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
44754312 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
44754359 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
44754406 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44754450 TCCCGAAGGG
Statistics
Matches: 414, Mismatches: 6, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
47 322 0.78
49 92 0.22
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:44754141 original size:96 final size:94
Alignment explanation
Indices: 44753979--44754449 Score: 879
Period size: 96 Copynumber: 5.0 Consensus size: 94
44753969 TAGTATGGCG
44753979 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44754044 ATGTGAAAGTGTATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATGTGATAAGGCC
44754073 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
44754138 GAATGTGAAAGTGTATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATGTGATAAGGCC
* *
44754169 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGTCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
44754234 GAATGTGAAAGTGTATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATGTGATAAGGCC
44754265 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44754330 ATATGAAAGTGTATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATGTGATAAGGCC
44754359 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44754424 ATGTGAAAGTGTATATATGTGATAAG
66 ATGTGAAAGTGTATATATGTGATAAG
44754450 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
94 181 0.49
96 188 0.51
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:44754624 original size:37 final size:37
Alignment explanation
Indices: 44754568--44754644 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
44754558 CCAAGCTCTA
* * *
44754568 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
* *
44754605 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
44754642 AAG
1 AAG
44754645 GCTTCGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:44763486 original size:19 final size:19
Alignment explanation
Indices: 44763462--44763500 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
44763452 CACACAACCA
* *
44763462 TGTGAAATCATGCAGGCCG
1 TGTGAAATCAGGCAGACCG
44763481 TGTGAAATCAGGCAGACCG
1 TGTGAAATCAGGCAGACCG
44763500 T
1 T
44763501 ATGGGTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
TGTGAAATCAGGCAGACCG
Found at i:44766896 original size:24 final size:22
Alignment explanation
Indices: 44766853--44766903 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
44766843 TATTTTTTAA
* *
44766853 TATTTATAAATTAAATTATTTT
1 TATTTATAAAATAAAATATTTT
44766875 TATTTATTAAAATAATAATATTTT
1 TATTTA-TAAAATAA-AATATTTT
*
44766899 AATTT
1 TATTT
44766904 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTATAAAATAAAATATTTT
Done.