Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 56
Found at i:12596104 original size:35 final size:35
Alignment explanation
Indices: 12596058--12596128 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
12596048 TAATGCTCAA
12596058 TCCCACATAGTATTGGAAACACTATTGGGAATGGG
1 TCCCACATAGTATTGGAAACACTATTGGGAATGGG
12596093 TCCCACATAGTATTGGAAACACTATTGGGAATGGG
1 TCCCACATAGTATTGGAAACACTATTGGGAATGGG
12596128 T
1 T
12596129 AATTAAGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (35 bp):
TCCCACATAGTATTGGAAACACTATTGGGAATGGG
Found at i:12597153 original size:17 final size:17
Alignment explanation
Indices: 12597133--12597188 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
12597123 GTTTTAGAGC
12597133 TATGATTGTTTTCCTTT
1 TATGATTGTTTTCCTTT
* *
12597150 TATGATTGGTTACAACTTT
1 TATGATTGTTTTC--CTTT
* *
12597169 TGT-ATTATTTTCCTTT
1 TATGATTGTTTTCCTTT
12597185 TATG
1 TATG
12597189 CTTGGTTATA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 6 0.21
17 11 0.38
18 6 0.21
19 6 0.21
ACGTcount: A:0.18, C:0.11, G:0.12, T:0.59
Consensus pattern (17 bp):
TATGATTGTTTTCCTTT
Found at i:12597180 original size:35 final size:35
Alignment explanation
Indices: 12597141--12597208 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
12597131 GCTATGATTG
12597141 TTTTCCTTTTATGATTGGTTACAACTTTTGTATTA
1 TTTTCCTTTTATGATTGGTTACAACTTTTGTATTA
* *
12597176 TTTTCCTTTTATGCTTGGTTATAACTTTTGTAT
1 TTTTCCTTTTATGATTGGTTACAACTTTTGTAT
12597209 AGAAGTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (35 bp):
TTTTCCTTTTATGATTGGTTACAACTTTTGTATTA
Found at i:12599907 original size:17 final size:17
Alignment explanation
Indices: 12599885--12599956 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
12599875 AATTAAGAGT
12599885 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
12599902 TAGTTTCATGAATGAAC
1 TAGTTTAATAAATGAAC
*
12599919 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
12599936 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
12599954 TAG
1 TAG
12599957 ATGCATGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 32 0.70
18 14 0.30
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:12602095 original size:12 final size:12
Alignment explanation
Indices: 12602070--12602108 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
12602060 TCTTAAAATT
12602070 TTTCATTTCATTTC
1 TTTCATTT--TTTC
*
12602084 TTTTATTTTTTC
1 TTTCATTTTTTC
12602096 TTTCATTTTTTC
1 TTTCATTTTTTC
12602108 T
1 T
12602109 GATTTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 16 0.70
14 7 0.30
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCATTTTTTC
Found at i:12603457 original size:18 final size:19
Alignment explanation
Indices: 12603436--12603477 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
12603426 GTTGTTTTTA
* *
12603436 AAATAAAAT-ATAAGAATT
1 AAATAAAATAAAAAAAATT
12603454 AAATAAAATAAAAAAAATT
1 AAATAAAATAAAAAAAATT
12603473 AAATA
1 AAATA
12603478 GATTGAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAAAATAAAAAAAATT
Found at i:12605897 original size:5 final size:5
Alignment explanation
Indices: 12605877--12605931 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
12605867 TTTAGAGAAA
**
12605877 AAAAT AAAATT AAAAAT AAAAT -AAAT GGAAT AAAAT -AAAT AAAAT GAAAAT
1 AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
12605928 AAAA
1 AAAA
12605932 CGAAATGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
4 8 0.19
5 23 0.55
6 7 0.17
7 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:12605908 original size:14 final size:14
Alignment explanation
Indices: 12605877--12605930 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
12605867 TTTAGAGAAA
*
12605877 AAAATAAAAT-TA-
1 AAAATAAAATAAAT
12605889 AAAATAAAATAAAT
1 AAAATAAAATAAAT
**
12605903 GGAATAAAATAAAT
1 AAAATAAAATAAAT
12605917 AAAATGAAAATAAA
1 AAAAT-AAAATAAA
12605931 ACGAAATGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 10 0.29
13 1 0.03
14 15 0.44
15 8 0.24
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:12605917 original size:9 final size:10
Alignment explanation
Indices: 12605877--12605931 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 10
12605867 TTTAGAGAAA
12605877 AAAATAAAATT
1 AAAATAAAA-T
12605888 AAAAATAAAAT
1 -AAAATAAAAT
**
12605899 -AAATGGAAT
1 AAAATAAAAT
12605908 AAAAT-AAAT
1 AAAATAAAAT
12605917 AAAATGAAAAT
1 AAAAT-AAAAT
12605928 AAAA
1 AAAA
12605932 CGAAATGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
9 15 0.41
10 4 0.11
11 9 0.24
12 9 0.24
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:12605938 original size:35 final size:34
Alignment explanation
Indices: 12605874--12605939 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
12605864 ATGTTTAGAG
*
12605874 AAAAAAATAAAATTAAAAATAAAATAAATGGAAT
1 AAAAAAATAAAATTAAAAATAAAAGAAATGGAAT
*
12605908 AAAATAAATAAAA-TGAAAATAAAACGAAATGG
1 AAAA-AAATAAAATTAAAAATAAAA-GAAATGG
12605940 GTTGTCTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (34 bp):
AAAAAAATAAAATTAAAAATAAAAGAAATGGAAT
Found at i:12608951 original size:18 final size:19
Alignment explanation
Indices: 12608930--12608973 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
12608920 GTTGTTTATA
*
12608930 AAATAAAAG-ATAAGAATT
1 AAATAAAAGAAAAAGAATT
*
12608948 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAAGAATT
12608967 AAATAAA
1 AAATAAA
12608974 CAAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAATAAAAGAAAAAGAATT
Found at i:12614169 original size:17 final size:17
Alignment explanation
Indices: 12614139--12614192 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
12614129 GTAAAGTTGA
* *
12614139 AAATATATATTAAAATT
1 AAATAAATAATAAAATT
*
12614156 AAATAAATAATAAAAAT
1 AAATAAATAATAAAATT
12614173 -AATATAATAATAAATATT
1 AAATA-AATAATAAA-ATT
12614191 AA
1 AA
12614193 TAGTAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.13
17 23 0.77
18 2 0.07
19 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATAATAAAATT
Found at i:12615017 original size:65 final size:64
Alignment explanation
Indices: 12614879--12615009 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 64
12614869 TCCTAAATCC
* * ** **
12614879 TAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATATAATATTCTAAATCC
1 TAATTAAAATA-TTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTAAAAATAA
*
12614944 TAATTAAAATATTAAAACCTATTTAAACTAAAATACCTAAAACAAA-GATAAAATA-TAAAAATA
1 TAATTAAAATATTAAAA-CTATTTAAACTAAAATACCTAAAA-AAATAATAAAATATTAAAAATA
12615007 A
64 A
12615008 TA
1 TA
12615010 TCCTAAAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
64 13 0.23
65 41 0.72
66 3 0.05
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.29
Consensus pattern (64 bp):
TAATTAAAATATTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTAAAAATAA
Found at i:12615079 original size:76 final size:75
Alignment explanation
Indices: 12614918--12615058 Score: 192
Period size: 76 Copynumber: 1.9 Consensus size: 75
12614908 AAAATACCTA
* * * * * * **
12614918 AAAAAATAATATAATATTCTAAATCCTAATTAAAATATTAAAACCTATTTAAACTAAAATACCTA
1 AAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTACTTAAACTAAAATACAGA
12614983 AAACAAAGAT
66 AAACAAAGAT
*
12614993 AAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTACTTAAACTAAAATACAG
1 AAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTACTTAAACTAAAATACAG
12615058 A
65 A
12615059 GATAAAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
75 6 0.11
76 50 0.89
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (75 bp):
AAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTACTTAAACTAAAATACAGA
AAACAAAGAT
Found at i:12616742 original size:14 final size:14
Alignment explanation
Indices: 12616723--12616764 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
12616713 AATATAATTA
12616723 AAAATAAAATAAAT
1 AAAATAAAATAAAT
**
12616737 GGAATAAAATAAAT
1 AAAATAAAATAAAT
12616751 AAAATGAAAATAAA
1 AAAAT-AAAATAAA
12616765 ACAAAATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:12623367 original size:19 final size:19
Alignment explanation
Indices: 12623311--12623373 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
12623301 CTATTTAAAC
**
12623311 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
12623331 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
12623351 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
12623370 TAAA
1 TAAA
12623374 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:12624173 original size:17 final size:17
Alignment explanation
Indices: 12624126--12624178 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
12624116 AATTAAGAGT
*
12624126 TAGTTTAATAAATGAAC
1 TAGTTTACTAAATGAAC
* *
12624143 TA-TTTTCATGAATGAAC
1 TAGTTTAC-TAAATGAAC
*
12624160 TAGTTTACTTAATGAAC
1 TAGTTTACTAAATGAAC
12624177 TA
1 TA
12624179 ACTTGATTCG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.10
17 22 0.76
18 4 0.14
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGTTTACTAAATGAAC
Found at i:12625130 original size:217 final size:219
Alignment explanation
Indices: 12624889--12625326 Score: 862
Period size: 217 Copynumber: 2.0 Consensus size: 219
12624879 AATCATATCA
12624889 ATTTTTTTTTAAATATTTTAACATAAAAATGTTCATTTTACATAACTTAGAATTAAAAAAATACA
1 ATTTTTTTTTAAATATTTTAACATAAAAATGTTCATTTTACATAACTTAGAATTAAAAAAATACA
12624954 TAATTACAAATATAAACATTTTATATCTTACAGTTCACCACC-AAATGAATGGCGTGACGGATCT
66 TAATTACAAATATAAACATTTTATATCTTACAGTTCACCACCAAAATGAATGGCGTGACGGATCT
12625018 -AAGCATTTCCATCTTCGTCATTATCTTGATTTTGATTCATTCCTATTCCATGTGAAGAATACAT
131 AAAGCATTTCCATCTTCGTCATTATCTTGATTTTGATTCATTCCTATTCCATGTGAAGAATACAT
12625082 CACATTTTGTGCATCATAAAATGC
196 CACATTTTGTGCATCATAAAATGC
12625106 ATTTTTTTTTAAATATTTTAACATAAAAATGTTCATTTTACATAACTTAGAATTAAAAAAATACA
1 ATTTTTTTTTAAATATTTTAACATAAAAATGTTCATTTTACATAACTTAGAATTAAAAAAATACA
12625171 TAATTACAAATATAAACATTTTATATCTTACAGTTCACCACCAAAATGAATGGCGTGACGGATCT
66 TAATTACAAATATAAACATTTTATATCTTACAGTTCACCACCAAAATGAATGGCGTGACGGATCT
12625236 AAAGCATTTCCATCTTCGTCATTATCTTGATTTTGATTCATTCCTATTCCATGTGAAGAATACAT
131 AAAGCATTTCCATCTTCGTCATTATCTTGATTTTGATTCATTCCTATTCCATGTGAAGAATACAT
12625301 CACATTTTGTGCATCATAAAATGC
196 CACATTTTGTGCATCATAAAATGC
12625325 AT
1 AT
12625327 CATTGGTAGG
Statistics
Matches: 219, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
217 107 0.49
218 22 0.10
219 90 0.41
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (219 bp):
ATTTTTTTTTAAATATTTTAACATAAAAATGTTCATTTTACATAACTTAGAATTAAAAAAATACA
TAATTACAAATATAAACATTTTATATCTTACAGTTCACCACCAAAATGAATGGCGTGACGGATCT
AAAGCATTTCCATCTTCGTCATTATCTTGATTTTGATTCATTCCTATTCCATGTGAAGAATACAT
CACATTTTGTGCATCATAAAATGC
Found at i:12625579 original size:16 final size:17
Alignment explanation
Indices: 12625552--12625587 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12625542 GATATGAGAA
12625552 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
12625569 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
12625585 AAA
1 AAA
12625588 ATAACGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:12626486 original size:36 final size:36
Alignment explanation
Indices: 12626439--12626507 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
12626429 TAGAGAATGG
12626439 CAAATCGAGAGGTCAACTTAACATTGCTTACGATGA
1 CAAATCGAGAGGTCAACTTAACATTGCTTACGATGA
12626475 CAAATCGAGAGGTCAACTTAACATTGCTTACGA
1 CAAATCGAGAGGTCAACTTAACATTGCTTACGA
12626508 CCACTTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (36 bp):
CAAATCGAGAGGTCAACTTAACATTGCTTACGATGA
Found at i:12632086 original size:30 final size:29
Alignment explanation
Indices: 12632016--12632088 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
12632006 ATGACTATAA
*
12632016 TGTAATTTTTAAAAGTTTAGTAGCTAAAG
1 TGTAATTTTTAAAAGTTTAGGAGCTAAAG
* * *
12632045 TATAAACTTTTAAAAGTTTAGG-GACTGAAAT
1 TGT-AATTTTTAAAAGTTTAGGAG-CT-AAAG
12632076 TGTAATTTTTAAA
1 TGTAATTTTTAAA
12632089 GTTATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 3 0.09
30 27 0.77
31 5 0.14
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.41
Consensus pattern (29 bp):
TGTAATTTTTAAAAGTTTAGGAGCTAAAG
Found at i:12639067 original size:81 final size:81
Alignment explanation
Indices: 12638904--12639238 Score: 331
Period size: 81 Copynumber: 4.1 Consensus size: 81
12638894 TATAATTATT
* * ** * * *
12638904 TTATTCTTTTACGCAAGAGTATTTAACTTTTCA-CTTAACTTGCATATTTGACACTTTTCTGTCC
1 TTATTCTTTTACTCAACAGTATTTAACCATTCATC-TAACTGGCATAATTGACACCTTTCTG-CC
* * *
12638968 AA--GACATAGCTAGTCCA
64 AATTG-CACAGTTAGGCCA
* ** * * *
12638985 TTATTCTTTTACTCAACAGTGTTTAACCATTCAGATAACCT-GCATAATCGACACCGTTATGCCA
1 TTATTCTTTTACTCAACAGTATTTAACCATTCATCTAA-CTGGCATAATTGACACCTTTCTGCCA
*
12639049 ATTACACAGTTAGGCCA
65 ATTGCACAGTTAGGCCA
* *
12639066 TTATCCTTTTACTCAAC-GATATTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGCCA
1 TTATTCTTTTACTCAACAG-TATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
12639130 ATTGCACAATTAGGCAA
65 ATTGCACAGTTAGGCCA
* * *
12639147 TTA-TCTTTTTACTCAACAGTATTTAACCGTTTATCTAATTGGCATAATTGACACCTTTCTGCCA
1 TTATTC-TTTTACTCAACAGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* *
12639211 ATTGCATAGTTAGGCTA
65 ATTGCACAGTTAGGCCA
*
12639228 TTATTATTTTA
1 TTATTCTTTTA
12639239 TTTTGGACTA
Statistics
Matches: 210, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
80 8 0.04
81 198 0.94
82 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.38
Consensus pattern (81 bp):
TTATTCTTTTACTCAACAGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
TTGCACAGTTAGGCCA
Found at i:12639520 original size:54 final size:54
Alignment explanation
Indices: 12639451--12640037 Score: 813
Period size: 54 Copynumber: 10.8 Consensus size: 54
12639441 AGTTCATGTA
* * *
12639451 TATTCATCAACTCATGATTAATTATGTGGAATGCACACTTTGTGCCTGTACGGT
1 TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGT
* * * *
12639505 TATTCATCAAATCATGATGAATTCTGTGGATTTGCACACATAGTGCCTATACGGT
1 TATTCATCAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTGCCTGTACGGT
*
12639560 TATTCATCAACTCATGATGAATTATGTGGAATGCACACTTAGTGCCTGTACGGT
1 TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGT
* * * * *
12639614 TATTCATCAACTCATGATGAATTCTGTTGATTTGCACACATAGTGCATGTACGTT
1 TATTCATCAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTGCCTGTACGGT
*
12639669 TATTCATCAACTCATGATGAATT-TCGTGGAATGCACACTTAGTGCCTGTACGGA
1 TATTCATCAACTCATGATGAATTCT-GTGGAATGCACACTTAGTGCCTGTACGGT
* *
12639723 TATTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTATGGT
1 TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGT
* **
12639777 TATTTATCAACTCATGATGAATTCCATGGAATGCACACTTAGTGCCTGTACGGT
1 TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGT
* * * *
12639831 TATTCATCAACTCATGATGAATT-TCGTGGATTTACACACTTAGTACCTTTACGGT
1 TATTCATCAACTCATGATGAATTCT-GTGGA-ATGCACACTTAGTGCCTGTACGGT
* * * *
12639886 TATTCATCAACTCATGATGAATT-TCATGGATTTGCACACATAGTGCCTGTACAGT
1 TATTCATCAACTCATGATGAATTCT-GTGGA-ATGCACACTTAGTGCCTGTACGGT
*
12639941 TATTCATCAACTCATGATGAATT-TCGTGGAATGCACACTTAGTGCATGTACGGT
1 TATTCATCAACTCATGATGAATTCT-GTGGAATGCACACTTAGTGCCTGTACGGT
*
12639995 TATTCATCAACTCATGATGAATTCTGTGGAATGCACAATTAGT
1 TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGT
12640038 TCCTTGTGGT
Statistics
Matches: 477, Mismatches: 49, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
54 283 0.59
55 194 0.41
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (54 bp):
TATTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGT
Found at i:12639593 original size:109 final size:108
Alignment explanation
Indices: 12639402--12640037 Score: 847
Period size: 109 Copynumber: 5.9 Consensus size: 108
12639392 TATACAGTAG
* * * * *
12639402 TTCATCAACTCATGAGGAATGCCGTGGATTTGCACACATAGTTCATGTA----TATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
* *
12639463 CATGATTAATTATGTGGAATGCACACTTTGTGCCTGTACGGTTA
66 CATGATGAATT-TGTGGAATGCACACTTAGTGCCTGTACGGTTA
* *
12639507 TTCATCAAATCATGATGAATTCTGTGGATTTGCACACATAGTGCCTATACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
12639572 CATGATGAATTATGTGGAATGCACACTTAGTGCCTGTACGGTTA
66 CATGATGAATT-TGTGGAATGCACACTTAGTGCCTGTACGGTTA
* * *
12639616 TTCATCAACTCATGATGAATTCTGTTGATTTGCACACATAGTGCATGTACGTTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
*
12639681 CATGATGAATTTCGTGGAATGCACACTTAGTGCCTGTACGGATA
66 CATGATGAATTT-GTGGAATGCACACTTAGTGCCTGTACGGTTA
* * * * *
12639725 TTCATCAACTCATGATGAATTCCGTGGA-ATGCACACTTAGTGCCTGTATGGTTATTTATCAACT
1 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
**
12639789 CATGATGAATTCCATGGAATGCACACTTAGTGCCTGTACGGTTA
66 CATGATGAATT-TGTGGAATGCACACTTAGTGCCTGTACGGTTA
* * * *
12639833 TTCATCAACTCATGATGAATT-TCGTGGATTTACACACTTAGTACCTTTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCT-GTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAAC
* * * *
12639897 TCATGATGAATTTCATGGATTTGCACACATAGTGCCTGTACAGTTA
65 TCATGATGAATTT-GTGGA-ATGCACACTTAGTGCCTGTACGGTTA
* * *
12639943 TTCATCAACTCATGATGAATT-TCGTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCT-GTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAAC
*
12640006 TCATGATGAATTCTGTGGAATGCACAATTAGT
65 TCATGATGAATT-TGTGGAATGCACACTTAGT
12640038 TCCTTGTGGT
Statistics
Matches: 474, Mismatches: 46, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
105 42 0.09
108 107 0.23
109 273 0.58
110 52 0.11
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (108 bp):
TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
CATGATGAATTTGTGGAATGCACACTTAGTGCCTGTACGGTTA
Found at i:12639946 original size:272 final size:271
Alignment explanation
Indices: 12639402--12640037 Score: 919
Period size: 272 Copynumber: 2.4 Consensus size: 271
12639392 TATACAGTAG
* ** * * *
12639402 TTCATCAACTCATGAGGAATGCCGTGGATTTGCACACATAGTTCATGT----ATATTCATCAACT
1 TTCATCAACTCATGATGAATTTCGTGGA-ATGCACACTTAGTGCATGTACGGATATTCATCAACT
* * *
12639463 CATGATTAATTATGTGGAATGCACACTTTGTGCCTGTACGGTTATTCATCAAATCATGATGAATT
65 CATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAAATCATGATGAATT
** * *
12639528 CTGTGGATTTGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTATGTGGAATG
130 CCATGGATATGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTATGTGGAATA
*
12639593 CACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTTGATTTGCACACATAGT
195 CACACTTAGTACCTGTACGGTTATTCATCAACTCATGATGAATTCTG-TGATTTGCACACATAGT
12639658 GCATGTACGTTTA
259 GCATGTACGTTTA
*
12639671 TTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCCTGTACGGATATTCATCAACTC
1 TTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGGATATTCATCAACTC
* * * *
12639736 ATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTATGGTTATTTATCAACTCATGATGAATTC
66 ATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAAATCATGATGAATTC
* * *
12639801 CATGGA-ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT-TCGTGGATTT
131 CATGGATATGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTAT-GTGGA-AT
*
12639864 ACACACTTAGTACCTTTACGGTTATTCATCAACTCATGATGAATTTCATG-GATTTGCACACATA
194 ACACACTTAGTACCTGTACGGTTATTCATCAACTCATGATGAA-TTC-TGTGATTTGCACACATA
*
12639928 GTGCCTGTACAG-TTA
257 GTGCATGTAC-GTTTA
*
12639943 TTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGGATATTCATCAACTC
*
12640008 ATGATGAATTCTGTGGAATGCACAATTAGT
66 ATGATGAATTCTGTGGAATGCACACTTAGT
12640038 TCCTTGTGGT
Statistics
Matches: 330, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
268 15 0.05
269 25 0.08
270 1 0.00
271 49 0.15
272 234 0.71
273 4 0.01
274 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (271 bp):
TTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGGATATTCATCAACTC
ATGATGAATTCTGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAAATCATGATGAATTC
CATGGATATGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTATGTGGAATAC
ACACTTAGTACCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGATTTGCACACATAGTGC
ATGTACGTTTA
Found at i:12640480 original size:20 final size:21
Alignment explanation
Indices: 12640455--12640510 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
12640445 TCGATGTTCA
*
12640455 ATGGTATCGATACCATCCT-T
1 ATGGTATCGATACCACCCTCT
12640475 ATGGTATCGATACTC-CCCTCT
1 ATGGTATCGATAC-CACCCTCT
12640496 -TGGTATCGATACCAC
1 ATGGTATCGATACCAC
12640511 TTGAATAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (21 bp):
ATGGTATCGATACCACCCTCT
Found at i:12641479 original size:134 final size:134
Alignment explanation
Indices: 12641234--12641618 Score: 515
Period size: 134 Copynumber: 2.9 Consensus size: 134
12641224 GGGTATTACA
* *
12641234 ACTACTCTTTAGGGGAGATCAGACACGAGAAAACTTTGATCCACTTCACTGCTCTTCAGGGAAGA
1 ACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGA
* * *
12641299 TTGAATCAGAA-TCGATTTGCTTCACTGCTCT-TTAGGAAGACCAAATCTGAAAGAAGAAAAATC
66 TTGAA-CTGAATTTGATTTGCTTCACTGCT-TATCAGGAAGACCAAATCTGAAAGAAGAAAAATC
12641362 TACTCC
129 TACTCC
* * * * *
12641368 ACTATTCTTTAGGGGAGATCAGACTTGAGTAAATTTTGATCCACTTCACTACTCATCAGGGAAGA
1 ACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGA
* * * * * * *
12641433 TTGAACTGAATTTGATTTGCTTCACTACTTATCAGAAATACCAAATCTAAAAGAAGAAGAATTTG
66 TTGAACTGAATTTGATTTGCTTCACTGCTTATCAGGAAGACCAAATCTGAAAGAAGAAAAATCTA
*
12641498 CTTC
131 CTCC
* *
12641502 ACTACTCTTTAGGGGATATCAGACTCGAGGAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGA
1 ACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGA
* * *
12641567 TTGAA-TCAAATTTGATTTGCTTCGCTGCTCATCAGGAAGACCAAATCTGAAA
66 TTGAACT-GAATTTGATTTGCTTCACTGCTTATCAGGAAGACCAAATCTGAAA
12641619 ATCAAACATT
Statistics
Matches: 217, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
133 6 0.03
134 211 0.97
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (134 bp):
ACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTCAGGGAAGA
TTGAACTGAATTTGATTTGCTTCACTGCTTATCAGGAAGACCAAATCTGAAAGAAGAAAAATCTA
CTCC
Found at i:12642395 original size:38 final size:38
Alignment explanation
Indices: 12642344--12642763 Score: 450
Period size: 38 Copynumber: 11.2 Consensus size: 38
12642334 TCAAGAAGGG
*
12642344 AGTCAAGAATAACAAAGATTGACTTCTCTTCATGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* *
12642382 AGTCAAGAATAACAAAGATTGACTCCTCTTCGCGAGGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGA-GGA
*
12642421 A-TCAGGAATAACAAAGATTGACTTCTCTTCACGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* * * * *
12642458 AATCAAGAACAACAAATATCGACTTCTCTTCATGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* * * * *
12642496 AGTCAAGGATAACAAATATTGACTTCTATTCATGAGAA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* * *
12642534 ATTCAAGAATAACAATGGGAGATTGACTCCTCTTCACTATGG-
1 AGTCAAGAATAACAA----AGATTGACTTCTCTTCACGA-GGA
*
12642576 AGTCAAG--------A-ATTGACTTATCTTCACGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
12642605 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* *
12642643 AGTCAAGAATAATAAAGATTGACTTCTCTTCATGAGGA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
* * *
12642681 AGTCAAAAATGAA-AAATATTCACTTCTCTTCACGAGGA
1 AGTCAAGAAT-AACAAAGATTGACTTCTCTTCACGAGGA
* * **
12642719 AGTCAAGAACAACAAAGATTGATTTCTCTTCACGAAAA
1 AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
12642757 AGTCAAG
1 AGTCAAG
12642764 TTGAAGCTTC
Statistics
Matches: 320, Mismatches: 43, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 22 0.07
30 1 0.00
37 7 0.02
38 260 0.81
39 6 0.02
42 21 0.07
43 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (38 bp):
AGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
Found at i:12642597 original size:29 final size:29
Alignment explanation
Indices: 12642555--12642614 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
12642545 ACAATGGGAG
* *
12642555 ATTGACTCCTCTTCACTATGG-AGTCAAGA
1 ATTGACTCATCTTCACGA-GGAAGTCAAGA
*
12642584 ATTGACTTATCTTCACGAGGAAGTCAAGA
1 ATTGACTCATCTTCACGAGGAAGTCAAGA
12642613 AT
1 AT
12642615 AACAAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (29 bp):
ATTGACTCATCTTCACGAGGAAGTCAAGA
Found at i:12642611 original size:71 final size:67
Alignment explanation
Indices: 12642513--12642652 Score: 165
Period size: 71 Copynumber: 2.0 Consensus size: 67
12642503 GATAACAAAT
* * * *
12642513 ATTGACTTCTATTCATGAGAAATTCAAGAATAACAATGGGAGATTGACTCCTCTTCACTATGG-A
1 ATTGACTTATATTCACGAGAAAGTCAAGAATAACAA----AGATTGACTCCTCTTCACGA-GGAA
12642577 GTCAAGA
61 GTCAAGA
* * *
12642584 ATTGACTTATCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAA
1 ATTGACTTATATTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGAAGTCAA
12642649 GA
66 GA
12642651 AT
1 AT
12642653 AATAAAGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
66 2 0.03
67 28 0.46
71 31 0.51
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (67 bp):
ATTGACTTATATTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGAAGTCAA
GA
Found at i:12642680 original size:185 final size:185
Alignment explanation
Indices: 12642399--12642733 Score: 485
Period size: 185 Copynumber: 1.8 Consensus size: 185
12642389 AATAACAAAG
* * *
12642399 ATTGACTCCTCTTCGCGAGGGAATCAGGAATAACAAAGATTGACTTCTCTTCACGAGGAAATCAA
1 ATTGACTCATCTTCACGAGGGAATCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAATCAA
* ** *
12642464 GAACAACAAATATCGACTTCTCTTCATGAGGAAGTCAAGGAT-AACAAATATTGACTTCTATTCA
66 GAACAACAAAGATCGACTTCTCTTCATGAGGAAGTCAAAAATGAA-AAATATTCACTTCTATTCA
* * *
12642528 TGAGAAATTCAAGAATAACAATGGGAGATTGACTCCTCTTCACTATGGAGTCAAGA
130 CGAGAAAGTCAAGAACAACAATGGGAGATTGACTCCTCTTCACTATGGAGTCAAGA
* *
12642584 ATTGACTTATCTTCACGA-GGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCA
1 ATTGACTCATCTTCACGAGGGAA-TCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAATCA
* * * *
12642648 AGAATAATAAAGATTGACTTCTCTTCATGAGGAAGTCAAAAATGAAAAATATTCACTTCTCTTCA
65 AGAACAACAAAGATCGACTTCTCTTCATGAGGAAGTCAAAAATGAAAAATATTCACTTCTATTCA
*
12642713 CGAGGAAGTCAAGAACAACAA
130 CGAGAAAGTCAAGAACAACAA
12642734 AGATTGATTT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
184 4 0.03
185 125 0.95
186 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (185 bp):
ATTGACTCATCTTCACGAGGGAATCAAGAATAACAAAGATTGACTTCTCTTCACGAGGAAATCAA
GAACAACAAAGATCGACTTCTCTTCATGAGGAAGTCAAAAATGAAAAATATTCACTTCTATTCAC
GAGAAAGTCAAGAACAACAATGGGAGATTGACTCCTCTTCACTATGGAGTCAAGA
Found at i:12645803 original size:31 final size:31
Alignment explanation
Indices: 12645765--12645844 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
12645755 ATTGATTTTG
12645765 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
12645796 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
** * *
12645827 TTAAATTTTCTCCCCCTT
1 AAAAACTTACTCCCCCTT
12645845 TTTGTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.35, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:12654138 original size:12 final size:12
Alignment explanation
Indices: 12654121--12654156 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
12654111 ATCGAATATA
12654121 ATTTGTAAAATC
1 ATTTGTAAAATC
12654133 ATTTGTAAAATC
1 ATTTGTAAAATC
12654145 ATTTGTAAAATC
1 ATTTGTAAAATC
12654157 TTAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTTGTAAAATC
Found at i:12654288 original size:19 final size:18
Alignment explanation
Indices: 12654255--12654291 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12654245 ACTTAATTTA
*
12654255 TTTTCTCTTTTTTTTCTT
1 TTTTCTCTATTTTTTCTT
12654273 TTTTCATCTATTTTTTCTT
1 TTTTC-TCTATTTTTTCTT
12654292 CTTCTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTCTATTTTTTCTT
Found at i:12654299 original size:28 final size:27
Alignment explanation
Indices: 12654253--12654322 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
12654243 ATACTTAATT
* *
12654253 TATTTTCTCTTTTTTTTCTTTTT-TCATC
1 TATTTTTTC-TTTTCTTCTTTTTCT-ATC
12654281 TATTTTTTCTTCTTCTTCTTTTTCTATC
1 TATTTTTTCTT-TTCTTCTTTTTCTATC
12654309 --TTTTTTCTTTTCTT
1 TATTTTTTCTTTTCTT
12654323 TTTATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.13
26 9 0.24
27 2 0.05
28 21 0.55
29 1 0.03
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (27 bp):
TATTTTTTCTTTTCTTCTTTTTCTATC
Found at i:12654356 original size:7 final size:7
Alignment explanation
Indices: 12654341--12654370 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
12654331 TTCCCTTTTA
12654341 TTTAT-T
1 TTTATAT
12654347 TTTATAT
1 TTTATAT
12654354 TTTATAT
1 TTTATAT
12654361 TTTATAT
1 TTTATAT
12654368 TTT
1 TTT
12654371 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATAT
Found at i:12654383 original size:20 final size:20
Alignment explanation
Indices: 12654290--12654383 Score: 61
Period size: 20 Copynumber: 4.7 Consensus size: 20
12654280 CTATTTTTTC
*
12654290 TTCTTCTTCTTTTTCTATCTTTT
1 TTCTT-TTCTTTTT-TAT-ATTT
12654313 TTCTTTTC-TTTTTATA-TT
1 TTCTTTTCTTTTTTATATTT
** *
12654331 TTCCCTT-TTATTTAT-TTT
1 TTCTTTTCTTTTTTATATTT
* * *
12654349 TATATTTTATATTTTATATTT
1 T-TCTTTTCTTTTTTATATTT
12654370 TTCTTTTCTTTTTT
1 TTCTTTTCTTTTTT
12654384 CTCTTTTTTC
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
18 16 0.30
19 3 0.06
20 19 0.35
21 8 0.15
22 3 0.06
23 5 0.09
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCTTTTCTTTTTTATATTT
Found at i:12659615 original size:17 final size:17
Alignment explanation
Indices: 12659593--12659636 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
12659583 GACACTCGAA
12659593 ATAAAATAATTACAAAG
1 ATAAAATAATTACAAAG
12659610 ATAAAATAATTACAAAG
1 ATAAAATAATTACAAAG
12659627 ATAAAATAAT
1 ATAAAATAAT
12659637 ATGCATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (17 bp):
ATAAAATAATTACAAAG
Found at i:12663076 original size:89 final size:89
Alignment explanation
Indices: 12662925--12664228 Score: 1243
Period size: 89 Copynumber: 14.7 Consensus size: 89
12662915 TCACTGCTTC
* * * *
12662925 TTCAGGAAGACCAATTCTGGA-ATAAGAAGAATTTGTTCCTCTACTCTTAAT-GGGAGATCAGAC
1 TTCAGGAAGACCAAATCT-GACATAAGAAGAATCTGTTCCACTACTCTT-CTGGGGAGATCAGAC
* *
12662988 TTGAGATTGATTTGATTCGTTACTTT
64 TCGAGATTGATTTGATTCGCTACTTT
* * * *
12663014 TTCAGGAAAATCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTAGTGAGATCAGACTC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
** *
12663079 GAGATTGATTTTCTTCGCTACTCT
66 GAGATTGATTTGATTCGCTACTTT
* ** * * *
12663103 TTCAGGAATACCAAATCCAAAATATA-AAGAATATGTTCCACTACTCTTCCGGGGAGATCAGGA-
1 TTCAGGAAGACCAAATCTGACATA-AGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCA-GAC
* * * *
12663166 TCGAGATTGATTTAATTAGTTTCTTT
64 TCGAGATTGATTTGATTCGCTACTTT
* * * * * * * *
12663192 TTTAGGAATG-CCAAATCTAAAATAAGAAAAACCTGTTCCACTACTCTTATGGGAAGATTAGACT
1 TTCAGGAA-GACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACT
* * **
12663256 TGAGATTTATTT-ACTTCGCTACACT
65 CGAGATTGATTTGA-TTCGCTACTTT
** * * * * * * * *
12663281 AACGGGAAG-GCATTATCTGAAATAAGAAGAATCTGCTCCTCTACTCTTCCGAGGAGATCAGACT
1 TTCAGGAAGACCA-AATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACT
* *
12663345 CGAGATTGATTTGATTCGATCCTTT
65 CGAGATTGATTTGATTCGCTACTTT
* * * * * *
12663370 CTCAGGAACACTAAATCTGACATGACAAGAATATGTTCCACTAC-CGTTCCT-GGGAGATCAGAC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTC-TT-CTGGGGAGATCAGAC
* *
12663433 TCGATATTGATTTGATTCGTTACTTT
64 TCGAGATTGATTTGATTCGCTACTTT
* * *
12663459 TTCAGGAAGACCAAATCTAATATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTT
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
* * * *
12663524 GAGATTGATTTGCTTTGATACTCT
66 GAGATTGATTTGATTCGCTACTTT
* * * * * * * *
12663548 GTCGGGAAGACCAAATCTGAAATAAGAAAAATATGTTCCATTACTCTTCCGGGGAGATCA-ACTT
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
* *
12663612 GAGATTTATTTGATTCGATACTTT
66 GAGATTGATTTGATTCGCTACTTT
* * * * *
12663636 TTTAGGAAGACCAAATCTGACATAA-AAAAATCTGCTCCATTACTCTT-TCGGGGAGATCAGACA
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCT-GGGGAGATCAGACT
* *
12663699 CAAGATTGATTTGATTCGCTGCTTT
65 CGAGATTGATTTGATTCGCTACTTT
* * * ** * * *
12663724 TTTAGGAAGACCAAATCTAACATAATAAGAATCTACTCCACTACTCTTCTAGGGATACCAGACTC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
* *
12663789 GAGATTGATTTGATTCACTGCTTT
66 GAGATTGATTTGATTCGCTACTTT
* * * * * *
12663813 TTTAAGAGGACCAAATCTGACATAAGAAGAATCTGCTCCACTACTCTTCCGGGGAGATCATACTC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
* *
12663878 GAAATTGATTTGATTCGCTCCTTT
66 GAGATTGATTTGATTCGCTACTTT
* * * * *
12663902 TTCAGAAAGACCAAATCTAACATAAGAATAATCTATTCCACTACTCTTCCGGGGAGATCAGACTC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
*
12663967 GAGATTGATTTGATTCGCTATTTT
66 GAGATTGATTTGATTCGCTACTTT
* * * ** **
12663991 TTCAGGAAGAACAAACCTGACATAAGAAGAATATACTCCACTACTCTTCCAGGGAGATCAGACTC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
* * **
12664056 AAAATTGATTTGATTAACTACTTT
66 GAGATTGATTTGATTCGCTACTTT
* ** *
12664080 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGCTCCGA-TACTCCTT-TAAGGAGATCAAAC
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCC-ACTACT-CTTCTGGGGAGATCAGAC
12664143 TCGAGATTGATTTGATTCGCTACTCTT
64 TCGAGATTGATTTGATTCGCTACT-TT
* * * * * * * * *
12664170 TT-AGGTAGAACAAATATGAAATATGAAGAATTTGCTCCTCTACTCTTTTGGGGAGATCA
1 TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCA
12664229 AACTTAAGAT
Statistics
Matches: 1000, Mismatches: 191, Indels: 48
0.81 0.15 0.04
Matches are distributed among these distances:
87 30 0.03
88 107 0.11
89 847 0.85
90 16 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (89 bp):
TTCAGGAAGACCAAATCTGACATAAGAAGAATCTGTTCCACTACTCTTCTGGGGAGATCAGACTC
GAGATTGATTTGATTCGCTACTTT
Found at i:12664470 original size:62 final size:61
Alignment explanation
Indices: 12664326--12664843 Score: 467
Period size: 62 Copynumber: 8.6 Consensus size: 61
12664316 ATCAGAAAAA
* * *
12664326 TTGACTTCTCTTCAGGATGAAGTCAAGGATTGACTCTATTGGGGAGTC---AATAACAAAGG
1 TTGACTTCTCTTCACGAGGAAGTCAA-GATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
* * *
12664385 TTAACTTTTCTTCATGAGGAAGTCAAGTATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
1 TTGACTTCTCTTCACGAGGAAGTCAAG-ATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
* * * *
12664447 TTGACTTCTCTTCACGAGAAAGTCAAGATTTGACTCTATTGGGGAGTCAGGAATAATAATGG
1 TTGACTTCTCTTCACGAGGAAGTCAAGA-TTGACTCTACTGGGGAGTCAGGAATAACAAAGG
* * * *
12664509 TTGACTTCTCTTCACGTGGAAGTCAAGGATTAACTCTA-TAGGGGAGTCAAGAATAATAAAGG
1 TTGACTTCTCTTCACGAGGAAGTCAA-GATTGACTCTACT-GGGGAGTCAGGAATAACAAAGG
* * ** *
12664571 TTGACTTCTTTTCACGAGGAAGTCAAGATTGACTTTGTTGGGGTGTCAGGAATAACAAAGG
1 TTGACTTCTCTTCACGAGGAAGTCAAGATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
* * * * * * *
12664632 TTGACTTTTATTCATGAGGAAGTCAAAGATTGGCTCTTCTAGGGGAGTTAGGGATAA-AAA--
1 TTGACTTCTCTTCACGAGGAAGTC-AAGATTGACTCTACT-GGGGAGTCAGGAATAACAAAGG
* * *
12664692 TGGAC-T-TC-T---GAGGAAGTTAATGATTGACTCTACTGGGGAGTCAGGAATAAAAAAGG
1 TTGACTTCTCTTCACGAGGAAGTCAA-GATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
* * * * * * * * **
12664748 TTGACTTCTCTTCACAAGGAAGTCAAATATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAA
1 TTGACTTCTCTTCACGAGGAAGTC-AAGATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
*
12664810 TTGACTTCT-TT---GAGGAAGTCAAGGATTGTCTCTA
1 TTGACTTCTCTTCACGAGGAAGTCAA-GATTGACTCTA
12664844 TTGAGGAATC
Statistics
Matches: 379, Mismatches: 58, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
53 16 0.04
54 22 0.06
56 4 0.01
57 4 0.01
58 20 0.05
59 43 0.11
60 4 0.01
61 52 0.14
62 197 0.52
63 17 0.04
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (61 bp):
TTGACTTCTCTTCACGAGGAAGTCAAGATTGACTCTACTGGGGAGTCAGGAATAACAAAGG
Found at i:12664747 original size:116 final size:114
Alignment explanation
Indices: 12664466--12664843 Score: 335
Period size: 116 Copynumber: 3.2 Consensus size: 114
12664456 CTTCACGAGA
* * * * **
12664466 AAGTCAAGATTTGACTCTATTGGGGAGTCAGGAATAATAATGGTTGACTTCTCTTCACGTGGAAG
1 AAGTCAAGA-TTGACTCTACTGGGGAGTCAGGAATAAAAAAGGTTGACTTCTATTCACAAGGAAG
* ** * * * * *
12664531 TCAAGGATTAACTC-TATAGGGGAGTCAAGAATAATAAAGGTTGACTTCTTTTCACGAGG
65 TCAAAGATTGGCTCTTCTA-GGGAGTTAGGGATAA-AAA--TGGACTTC---T---GAGG
* ** * * * **
12664590 AAGTCAAGATTGACTTTGTTGGGGTGTCAGGAATAACAAAGGTTGACTTTTATTCATGAGGAAGT
1 AAGTCAAGATTGACTCTACTGGGGAGTCAGGAATAAAAAAGGTTGACTTCTATTCACAAGGAAGT
12664655 CAAAGATTGGCTCTTCTAGGGGAGTTAGGGATAAAAATGGACTTCTGAGG
66 CAAAGATTGGCTCTTCTA-GGGAGTTAGGGATAAAAATGGACTTCTGAGG
* *
12664705 AAGTTAATGATTGACTCTACTGGGGAGTCAGGAATAAAAAAGGTTGACTTCTCTTCACAAGGAAG
1 AAGTCAA-GATTGACTCTACTGGGGAGTCAGGAATAAAAAAGGTTGACTTCTATTCACAAGGAAG
* *
12664770 TCAAATATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAATTGACTTCTTTGAGG
65 TCAAAGATTGGCTCTTCTAGGGAGTTAGGG---ATAAAAATGGACTTC--TGAGG
*
12664825 AAGTCAAGGATTGTCTCTA
1 AAGTCAA-GATTGACTCTA
12664844 TTGAGGAATC
Statistics
Matches: 215, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
115 21 0.10
116 66 0.31
118 15 0.07
120 21 0.10
121 7 0.03
123 60 0.28
124 25 0.12
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (114 bp):
AAGTCAAGATTGACTCTACTGGGGAGTCAGGAATAAAAAAGGTTGACTTCTATTCACAAGGAAGT
CAAAGATTGGCTCTTCTAGGGAGTTAGGGATAAAAATGGACTTCTGAGG
Found at i:12665932 original size:44 final size:43
Alignment explanation
Indices: 12665876--12665958 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
12665866 TATTCCTGGA
* *
12665876 TGATATGGGCCTTAAAAAATGAACC-AAGATTTATTATTTCCTGT
1 TGATATGAGCCTT-AAAAATG-ACCAAACATTTATTATTTCCTGT
* *
12665920 TGATATGAGCCTTTAAAATGCCCAAACATTTATTATTTC
1 TGATATGAGCCTTAAAAATGACCAAACATTTATTATTTC
12665959 TGAATGATCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.06
43 20 0.59
44 12 0.35
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (43 bp):
TGATATGAGCCTTAAAAATGACCAAACATTTATTATTTCCTGT
Found at i:12676321 original size:25 final size:25
Alignment explanation
Indices: 12676288--12676338 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
12676278 CTTAAAAGCG
* *
12676288 TTTTGCAATACTGAGATTTAAATAA
1 TTTTACAATACTGAAATTTAAATAA
12676313 TTTTACAATACTGAAATTTAAATAA
1 TTTTACAATACTGAAATTTAAATAA
12676338 T
1 T
12676339 CCATATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
TTTTACAATACTGAAATTTAAATAA
Found at i:12676413 original size:18 final size:20
Alignment explanation
Indices: 12676361--12676711 Score: 87
Period size: 22 Copynumber: 19.1 Consensus size: 20
12676351 AATAATAAAT
12676361 TATTTAAAATAAATCAATCCA
1 TATTT-AAATAAATCAATCCA
12676382 TATTTTAAACTAAATCAATCCA
1 TA-TTTAAA-TAAATCAATCCA
12676404 TA-TT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676417 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
**
12676436 TACAACTACAATAATAAATCAATCCA
1 T---A-T-TTA-AATAAATCAATCCA
12676462 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
12676484 TA--CAAATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676497 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
12676516 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676529 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
12676548 TAATTTAAAATAAATTAATCCA
1 T-ATTT-AAATAAATCAATCCA
*
12676570 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676583 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
12676602 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
12676624 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676637 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
*
12676656 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
12676669 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
12676688 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
12676710 TA
1 TA
12676712 CTAATAAATT
Statistics
Matches: 242, Mismatches: 25, Indels: 125
0.62 0.06 0.32
Matches are distributed among these distances:
13 13 0.05
14 43 0.18
15 6 0.02
17 6 0.02
18 41 0.17
19 14 0.06
20 4 0.02
21 12 0.05
22 82 0.34
23 3 0.01
24 1 0.00
25 2 0.01
26 15 0.06
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATCAATCCA
Found at i:12676413 original size:54 final size:54
Alignment explanation
Indices: 12676353--12676944 Score: 487
Period size: 54 Copynumber: 10.8 Consensus size: 54
12676343 ATAACTAAAA
* *
12676353 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAACTAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
12676407 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
12676464 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
12676519 TAATAAATTATTTAAAATAAATCAATCCATAATTTAAAATAAATTAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
12676573 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * **
12676627 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * ** * **
12676682 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
**
12676736 -AATCCATGT-TTTAAAATAAATCAATTCTTACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAAT-TATTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
12676799 -AACTACA--A--T--AATAAATTAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
12676847 TAATAAATTATTTAAAATAAATCAATCCATATTTTCAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
12676901 TAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
12676945 TATTTTAAAA
Statistics
Matches: 447, Mismatches: 57, Indels: 68
0.78 0.10 0.12
Matches are distributed among these distances:
48 25 0.06
49 3 0.01
50 2 0.00
52 3 0.01
53 2 0.00
54 305 0.68
55 23 0.05
56 16 0.04
57 15 0.03
58 30 0.07
60 3 0.01
62 7 0.02
63 10 0.02
64 3 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:12676421 original size:32 final size:32
Alignment explanation
Indices: 12676385--12676959 Score: 317
Period size: 32 Copynumber: 19.4 Consensus size: 32
12676375 CAATCCATAT
* *
12676385 TTTAAACTAAATCAATCCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676417 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
12676447 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676465 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
12676497 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676529 TTTAAAATAAATCAATCCATAATTTAAAATAAATTAA
1 TTTAAAATAAATCAATCCAT-A-CT--AATAAATT-A
* * * ** * * *
12676566 TCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACT-AATAAAT---TA
12676604 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
12676637 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
12676669 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
12676691 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676723 TTTAAAATAAATCAAT-C---C--AT---GT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
12676745 TTTAAAATAAATCAATTCTTACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676777 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
12676807 --T--AATAAATTAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
12676832 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
12676857 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676879 TTTCAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
12676911 TTTAAAATAAATCAATCCATATTTTATAATAAATTA
1 TTTAAAATAAATCAATCCATA----CTAATAAATTA
12676947 TTTTAAAATAAAT
1 -TTTAAAATAAAT
12676960 TATTTTATAA
Statistics
Matches: 430, Mismatches: 37, Indels: 147
0.70 0.06 0.24
Matches are distributed among these distances:
20 1 0.00
22 74 0.17
23 12 0.03
24 4 0.01
25 5 0.01
26 39 0.09
28 11 0.03
30 4 0.01
31 10 0.02
32 190 0.44
33 3 0.01
34 1 0.00
36 38 0.09
37 22 0.05
38 2 0.00
39 7 0.02
40 7 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:12676568 original size:86 final size:85
Alignment explanation
Indices: 12676353--12676931 Score: 528
Period size: 86 Copynumber: 7.0 Consensus size: 85
12676343 ATAACTAAAA
* * *
12676353 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAACTAAATCAATCCATATTAATAAATTAT
1 TAATAAATTATTT-AAATAAATCAATCCATAATTTAAAATAAATCAATCCATACTAATAAATTAT
12676418 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
* * *
12676439 -AACTACA--A--T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
1 TAA-TAAATTATTTAAATAAATCAATCCATAATTTAAAATAAATCAATCCATACTAATAAATTAT
12676498 TTAAAATAAATCAATCCATAC
65 TTAAAATAAATCAATCCATAC
*
12676519 TAATAAATTATTTAAAATAAATCAATCCATAATTTAAAATAAATTAATCCATACTAATAAATTAT
1 TAATAAATTATTT-AAATAAATCAATCCATAATTTAAAATAAATCAATCCATACTAATAAATTAT
12676584 TTAAAATAAATCAATCCATA-
65 TTAAAATAAATCAATCCATAC
** * ** * ** ** *
12676604 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAATAAAT-C-AATCCATAATTTAAAATAAATCAATCCATACTAATAAATTA
12676669 TTTAAAATAAATCAATCCATA-
64 TTTAAAATAAATCAATCCATAC
* * * ** * ** **
12676690 T--T---TTA---AAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATGT
1 TAATAAATTATTTAAATAAATCAATCCATAAT-TTAAAATAAAT-CAATCCATACTAATAAAT-T
* *
12676745 -TTTAAAATAAATCAATTCTTAC
63 ATTTAAAATAAATCAATCCATAC
** * **
12676767 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AA---AT--TAATCCA-TA
1 TAATAAATTATTT-AAATAAATCAATCCATA-ATTTAAAATAAATCAATCCATACTAATAAATTA
12676824 TTTTAAAATAAATCAATCCATAC
64 -TTTAAAATAAATCAATCCATAC
* *
12676847 TAATAAATTATTTAAAATAAATCAATCCATATTTTCAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTT-AAATAAATCAATCCATAATTTAAAATAAATCAATCCATACTAATAAATTAT
12676912 TTAAAATAAATCAATCCATA
65 TTAAAATAAATCAATCCATA
12676932 TTTTATAATA
Statistics
Matches: 403, Mismatches: 55, Indels: 70
0.76 0.10 0.13
Matches are distributed among these distances:
76 30 0.07
77 11 0.03
78 11 0.03
79 5 0.01
80 133 0.33
81 6 0.01
82 5 0.01
83 2 0.00
84 10 0.02
85 12 0.03
86 176 0.44
87 2 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (85 bp):
TAATAAATTATTTAAATAAATCAATCCATAATTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATAC
Found at i:12676720 original size:22 final size:22
Alignment explanation
Indices: 12676671--12676719 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12676661 ATAAATTATT
**
12676671 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
12676693 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
12676716 TAAA
1 TAAA
12676720 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:12676831 original size:80 final size:80
Alignment explanation
Indices: 12676728--12676877 Score: 264
Period size: 80 Copynumber: 1.9 Consensus size: 80
12676718 AATTATTTAA
* * *
12676728 AATAAATCAATCCATGTTTTAAAATAAATCAATTCTTACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
12676793 CCATACAACTACAAT
66 CCATACAACTACAAT
*
12676808 AATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
12676873 CCATA
66 CCATA
12676878 TTTTCAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:12676854 original size:22 final size:23
Alignment explanation
Indices: 12676779--12676853 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
12676769 ATAAATTATT
12676779 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
12676801 CTACAATAATAAATTAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
12676827 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
12676850 TAAA
1 TAAA
12676854 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:12676908 original size:22 final size:22
Alignment explanation
Indices: 12676861--12676908 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12676851 AAATTATTTA
**
12676861 AAATAAATCAATCCATATTTTC
1 AAATAAATCAATCCATATAATC
12676883 AAATAAATCAATCCATACTAAT-
1 AAATAAATCAATCCATA-TAATC
12676905 AAAT
1 AAAT
12676909 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAAATCAATCCATATAATC
Found at i:12676950 original size:15 final size:15
Alignment explanation
Indices: 12676930--12677033 Score: 174
Period size: 15 Copynumber: 7.0 Consensus size: 15
12676920 AATCAATCCA
*
12676930 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
12676945 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
12676960 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
*
12676975 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
12676990 TATTTT-AAATAAAT
1 TATTTTAAAATAAAT
12677004 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12677019 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12677034 AACCTTATTA
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
14 13 0.15
15 72 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:12679133 original size:46 final size:43
Alignment explanation
Indices: 12679061--12679163 Score: 143
Period size: 46 Copynumber: 2.3 Consensus size: 43
12679051 TGGTGCAGAG
*
12679061 GGAATCGATACCCCCTTGAAGAGGAACCGATTCCCCCTTTGAAGA
1 GGAATCGATTCCCCCTTGAAGAGGAACCGATTCCCCC--TGAAGA
* * *
12679106 GGAATCGATTCCCCCTTTGAAGGGGAACCGATTCCCCCTGTAGG
1 GGAATCGATTCCCCC-TTGAAGAGGAACCGATTCCCCCTGAAGA
12679150 GGAATCGATTCCCC
1 GGAATCGATTCCCC
12679164 TGGAGATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 18 0.34
45 14 0.26
46 21 0.40
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (43 bp):
GGAATCGATTCCCCCTTGAAGAGGAACCGATTCCCCCTGAAGA
Found at i:12679152 original size:21 final size:22
Alignment explanation
Indices: 12679060--12679163 Score: 129
Period size: 23 Copynumber: 4.7 Consensus size: 22
12679050 TTGGTGCAGA
*
12679060 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATTCCCCCTTGAAG
* *
12679082 AGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCC-TTGAAG
*
12679105 AGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCC-TTGAAG
* *
12679128 GGGAACCGATTCCCCC-TGTAG
1 GGGAATCGATTCCCCCTTGAAG
12679149 GGGAATCGATTCCCC
1 GGGAATCGATTCCCC
12679164 TGGAGATTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
21 18 0.25
22 13 0.18
23 42 0.58
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTGAAG
Found at i:12680225 original size:23 final size:23
Alignment explanation
Indices: 12680189--12680266 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
12680179 TGGTGCAGAG
* *
12680189 GGAATCGATACCCCC-TTGAAGA
1 GGAACCGATTCCCCCTTTGAAGA
12680211 GGAACCGATTCCCCCTTTGAAGA
1 GGAACCGATTCCCCCTTTGAAGA
*
12680234 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCTTTGAAGA
12680257 GGAACCGATT
1 GGAACCGATT
12680267 TCTCCTGTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 13 0.25
23 39 0.75
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTTGAAGA
Found at i:12684700 original size:54 final size:54
Alignment explanation
Indices: 12684631--12684852 Score: 286
Period size: 54 Copynumber: 4.1 Consensus size: 54
12684621 TTATGTGTAC
*
12684631 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATGAGTTTATGAACAACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATGAGTTTATGAACGACCG
*** * *
12684685 TATCGGCACTAAGTGTGCAACCCAAAAAAAATCATAAT-ATGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCC-ACGGAATTCATAATGA-GTTTATGAACGACCG
* *
12684740 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATGAGTTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATGAGTTTATGAACGACCG
* * * * *
12684794 TATCGGCACTAAGTGTGCAACCCATGAAATTCATAAT-ATGTTAATGAATGATCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATGA-GTTTATGAACGACCG
12684848 TATCG
1 TATCG
12684853 ACAAGTTCAT
Statistics
Matches: 150, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 102 0.68
55 47 0.31
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATGAGTTTATGAACGACCG
Found at i:12684941 original size:91 final size:89
Alignment explanation
Indices: 12684769--12684943 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 89
12684759 ACCCACGAAA
* * ** *
12684769 TTCATAATGAGTTTATGAACGATCGTATCGGCACTAAGTGTGCAACCCATGAAATTCATAATATG
1 TTCATAATGAGTTTATGAACGACCATATCAACACTAAGTGTGCAACCCATCAAATTCATAATATG
* *
12684834 TTAATGAATGATCGTATCGACAAG
66 TTAATGAACGACCGTATCGACAAG
*
12684858 TTCATAATGAGTTTATGAACGACCATATCAACACTATGTGTGTGCAACCCA-CATAATTCATAAT
1 TTCATAATGAGTTTATGAACGACCATATCAACACTA--AGTGTGCAACCCATCA-AATTCATAAT
*
12684922 GA-GTTTATGAACGACCGTATCG
63 -ATGTTAATGAACGACCGTATCG
12684944 GCAGTAAGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
89 32 0.44
90 1 0.01
91 39 0.53
92 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (89 bp):
TTCATAATGAGTTTATGAACGACCATATCAACACTAAGTGTGCAACCCATCAAATTCATAATATG
TTAATGAACGACCGTATCGACAAG
Found at i:12684982 original size:54 final size:54
Alignment explanation
Indices: 12684858--12685579 Score: 803
Period size: 54 Copynumber: 13.4 Consensus size: 54
12684848 TATCGACAAG
* * ** * **
12684858 TTCATAATGAGTTTATGAACGACCATATCAACACTATGTGTGTGCAACCCACATAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTA--AGTGTGCAACCCACGGAA
* *
12684914 TTCATAATGAGTTTATGAACGACCGTATCGGCAGTAAGTGTGCAACCCACGGAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
*
12684968 TTCATAAT-ATGTTTATGAAAGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
1 TTCATAATGA-GTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* *
12685022 TTCATAAT-ATGTTTATGAATGATCGTATCGGCACTAAGTGTACAACCCACGGAA
1 TTCATAATGA-GTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * * **
12685076 TTCATAATGAGTTTATGAACGACCGTATCAGCACTAAGTGTGTAACCCACATAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* **
12685130 TTCATAATGAGTTTATGAATGATCGTATCGGCACTAAGTGTGCAACCCATAGAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * *
12685184 TTCAGAAT-ATGTTTATGAACGACTGTATCGGCACTAAGTGTGCAACCCACGGAA
1 TTCATAATGA-GTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * **
12685238 TTCATATTGAGTTTATGAATGACCGTATCGGCACTAAGTGTGGAACCCACAAAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * * * * *
12685292 TTCATAATGAATTTATGAACGATCATATTGGCACTAAGTGTGCAACCCACGAAA
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
** ** *
12685346 TTCATAAT-ATGTTTATGAATGACTATATCAACACTAAATGTGCAACCCACGGAA
1 TTCATAATGA-GTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * * * *
12685400 TTCATAAT-ATGTTGATGAACGACCGTATCGACACTAAGTGTCCAACCCACGAAA
1 TTCATAATGA-GTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * * * *
12685454 TTCATAATGAGTTTATGAATTG--CGTATTGGTACTATGTGTGCAACCTACGAAA
1 TTCATAATGAGTTTATGAA-TGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
* * * * *
12685507 TTCACAATGAGTTTGTGAATGACCGTATCGGCACTATA-TGTGCACCCCAAGGAT
1 TTCATAATGAGTTTATGAATGACCGTATCGGCACTA-AGTGTGCAACCCACGGAA
* * *
12685561 TTCAAAATAAGTTTGTGAA
1 TTCATAATGAGTTTATGAA
12685580 ATTCCATATT
Statistics
Matches: 573, Mismatches: 83, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.00
53 45 0.08
54 490 0.86
55 4 0.01
56 32 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
TTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGTGCAACCCACGGAA
Found at i:12687816 original size:13 final size:13
Alignment explanation
Indices: 12687800--12687825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12687790 ATAACTTTAT
12687800 ATTATTTATTGAA
1 ATTATTTATTGAA
12687813 ATTATTTATTGAA
1 ATTATTTATTGAA
12687826 GTTCATACTT
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:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTATTTATTGAA
Found at i:12690856 original size:17 final size:17
Alignment explanation
Indices: 12690819--12690868 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
12690809 AATTAATATT
*
12690819 TAGTTTAATAAATGAAA
1 TAGTTTAATGAATGAAA
**
12690836 TAGTTTAATGAATGAGC
1 TAGTTTAATGAATGAAA
*
12690853 TAGTTTATTGAATGAA
1 TAGTTTAATGAATGAA
12690869 CTAACTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (17 bp):
TAGTTTAATGAATGAAA
Found at i:12690921 original size:17 final size:17
Alignment explanation
Indices: 12690819--12690924 Score: 63
Period size: 17 Copynumber: 6.1 Consensus size: 17
12690809 AATTAATATT
* *
12690819 TAGTTTAATAAATGAAA
1 TAGTTTAATCAATGAAC
* *
12690836 TAGTTTAATGAATGAGC
1 TAGTTTAATCAATGAAC
* *
12690853 TAGTTTATTGAATGAAC
1 TAGTTTAATCAATGAAC
* * * *
12690870 TAACTTTATTTAGTGAAC
1 T-AGTTTAATCAATGAAC
*
12690888 T--TGTAATCTTGAATGAAC
1 TAGTTTAATC---AATGAAC
12690906 TAGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
12690923 TA
1 TA
12690925 CTTAGTTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
15 4 0.06
17 39 0.56
18 21 0.30
20 6 0.09
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:12690936 original size:17 final size:17
Alignment explanation
Indices: 12690916--12690972 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
12690906 TAGTTTAATC
*
12690916 AATGAACTACTTAGTTA
1 AATGAACTACATAGTTA
* * *
12690933 AATGAAGTGCATAGCTA
1 AATGAACTACATAGTTA
12690950 AATGAACTACAT-GTTTA
1 AATGAACTACATAG-TTA
12690967 AATGAA
1 AATGAA
12690973 ATGAATGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
16 1 0.03
17 31 0.97
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (17 bp):
AATGAACTACATAGTTA
Found at i:12690988 original size:34 final size:34
Alignment explanation
Indices: 12690914--12690990 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
12690904 ACTAGTTTAA
* * *
12690914 TCAATGAACTACTTAGTTAAATGAAGTGCATAGC
1 TCAATGAACTACATAGTTAAATGAAATGAATAGC
*
12690948 TAAATGAACTACAT-GTTTAAATGAAATGAAT-GC
1 TCAATGAACTACATAG-TTAAATGAAATGAATAGC
12690981 TTCAATGAAC
1 -TCAATGAAC
12690991 AACACACTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (34 bp):
TCAATGAACTACATAGTTAAATGAAATGAATAGC
Found at i:12692030 original size:12 final size:12
Alignment explanation
Indices: 12692013--12692080 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
12692003 GAATCTTTTG
12692013 GTATTGATGCTA
1 GTATTGATGCTA
** *
12692025 GTATTGATATTG
1 GTATTGATGCTA
*
12692037 GTATTGATGCAA
1 GTATTGATGCTA
*
12692049 GTATTGATACTA
1 GTATTGATGCTA
*
12692061 GCATTGATGC-A
1 GTATTGATGCTA
12692072 TGTATTGAT
1 -GTATTGAT
12692081 ATGTGTATCG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
11 1 0.02
12 42 0.98
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (12 bp):
GTATTGATGCTA
Found at i:12692037 original size:24 final size:23
Alignment explanation
Indices: 12692010--12692082 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 23
12692000 TTTGAATCTT
12692010 TTGGTATTGATGCTAGTATTGATA
1 TTGGTATTGATGC-AGTATTGATA
12692034 TTGGTATTGATGCAAGTATTGATA
1 TTGGTATTGATGC-AGTATTGATA
* * *
12692058 CTAGCATTGATGCATGTATTGATA
1 TTGGTATTGATGCA-GTATTGATA
12692082 T
1 T
12692083 GTGTATCGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 42 0.98
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.42
Consensus pattern (23 bp):
TTGGTATTGATGCAGTATTGATA
Found at i:12698095 original size:2 final size:2
Alignment explanation
Indices: 12698090--12698127 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
12698080 ATTAAAAAAA
12698090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12698128 AGTTATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12698218 original size:15 final size:13
Alignment explanation
Indices: 12698184--12698209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12698174 TGTTTATATG
12698184 AACTATATATGTA
1 AACTATATATGTA
12698197 AACTATATATGTA
1 AACTATATATGTA
12698210 TAAACTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
AACTATATATGTA
Found at i:12698258 original size:2 final size:2
Alignment explanation
Indices: 12698239--12698277 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
12698229 ACTTAAACTA
12698239 AT AT AT -T A- AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
12698278 TATTCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12698398 original size:36 final size:37
Alignment explanation
Indices: 12698352--12698444 Score: 118
Period size: 36 Copynumber: 2.5 Consensus size: 37
12698342 ATTTTATTTG
*
12698352 AGAATTTAGAGGGAAATTA-AGAAATTTTGA-GAATAT
1 AGAATTTAGAGGGAAATTAGA-AAATTTAGAGGAATAT
12698388 AGAATTTAGAGGGAAATTAGAAAATTTAGAGGGAATAT
1 AGAATTTAGAGGGAAATTAGAAAATTTAGA-GGAATAT
* *
12698426 AAAATTTTGGAGGGAAATT
1 AGAA-TTTAGAGGGAAATT
12698445 GAGATTTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
36 27 0.54
37 1 0.02
38 9 0.18
39 13 0.26
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (37 bp):
AGAATTTAGAGGGAAATTAGAAAATTTAGAGGAATAT
Found at i:12698415 original size:20 final size:19
Alignment explanation
Indices: 12698354--12698444 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 19
12698344 TTTATTTGAG
12698354 AATTTAGAGGGAAATTAAGA
1 AATTTAGAGGGAAATTAA-A
* *
12698374 AATTTTGA--G-AA-TATAG
1 AATTTAGAGGGAAATTA-AA
12698390 AATTTAGAGGGAAATTAGAA
1 AATTTAGAGGGAAATTA-AA
12698410 AATTTAGAGGG-AATATAAA
1 AATTTAGAGGGAAAT-TAAA
* *
12698429 ATTTTGGAGGGAAATT
1 AATTTAGAGGGAAATT
12698445 GAGATTTGAG
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
18 2 0.04
19 17 0.30
20 26 0.46
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (19 bp):
AATTTAGAGGGAAATTAAA
Found at i:12698660 original size:8 final size:8
Alignment explanation
Indices: 12698649--12698736 Score: 112
Period size: 8 Copynumber: 11.5 Consensus size: 8
12698639 ATGTATGCAA
12698649 GTATGTAC
1 GTATGTAC
12698657 GTATGTAC
1 GTATGTAC
12698665 GTATGTAC
1 GTATGTAC
*
12698673 GTATGTAT
1 GTATGTAC
12698681 GTATGTAC
1 GTATGTAC
12698689 GTATGTAC
1 GTATGTAC
12698697 GTA--T--
1 GTATGTAC
*
12698701 GTATGTAT
1 GTATGTAC
12698709 GTATGTAC
1 GTATGTAC
*
12698717 GTATATAC
1 GTATGTAC
*
12698725 GTATGTAT
1 GTATGTAC
12698733 GTAT
1 GTAT
12698737 AAATCATGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
4 3 0.04
6 2 0.03
8 65 0.93
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (8 bp):
GTATGTAC
Found at i:12698764 original size:9 final size:9
Alignment explanation
Indices: 12698752--12698785 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
12698742 ATGTATAGTG
12698752 TATATAAAC
1 TATATAAAC
*
12698761 TATATATA-
1 TATATAAAC
12698769 TATATAAAC
1 TATATAAAC
12698778 TATATAAA
1 TATATAAA
12698786 GTAAATTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:12698884 original size:21 final size:21
Alignment explanation
Indices: 12698859--12698930 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
12698849 ATGTTTATAA
12698859 AAACCCTAAATC-CTAAATCAT
1 AAACCCTAAA-CACTAAATCAT
*
12698880 AAACCCTAAACTCTAAACTC-T
1 AAACCCTAAACACTAAA-TCAT
*
12698901 AAACCATAAACACTAAATCAT
1 AAACCCTAAACACTAAATCAT
12698922 AAACCCTAA
1 AAACCCTAA
12698931 TATAAATGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.07
21 40 0.89
22 2 0.04
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACACTAAATCAT
Found at i:12698887 original size:14 final size:14
Alignment explanation
Indices: 12698865--12698930 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
12698855 ATAAAAACCC
*
12698865 TAAATCCTAAATCA
1 TAAACCCTAAATCA
12698879 TAAACCCTAAACTC-
1 TAAACCCTAAA-TCA
* *
12698893 TAAACTCTAAACCA
1 TAAACCCTAAATCA
*
12698907 TAAACACTAAATCA
1 TAAACCCTAAATCA
12698921 TAAACCCTAA
1 TAAACCCTAA
12698931 TATAAATGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
13 1 0.02
14 41 0.93
15 2 0.05
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:12698890 original size:7 final size:7
Alignment explanation
Indices: 12698859--12698930 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
12698849 ATGTTTATAA
12698859 AAACCCT
1 AAACCCT
*
12698866 AAATCCT
1 AAACCCT
* *
12698873 AAATCAT
1 AAACCCT
12698880 AAACCCT
1 AAACCCT
*
12698887 AAACTCT
1 AAACCCT
*
12698894 AAACTCT
1 AAACCCT
*
12698901 AAACCAT
1 AAACCCT
*
12698908 AAACACT
1 AAACCCT
* *
12698915 AAATCAT
1 AAACCCT
12698922 AAACCCT
1 AAACCCT
12698929 AA
1 AA
12698931 TATAAATGGA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:12699355 original size:15 final size:15
Alignment explanation
Indices: 12699296--12699338 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
12699286 ATAAACCATG
12699296 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
12699312 TATATATATATAACC
1 TATATATATATAAAC
*
12699327 TACATATATATA
1 TATATATATATA
12699339 TATATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:12699356 original size:572 final size:566
Alignment explanation
Indices: 12698761--12700709 Score: 2833
Period size: 556 Copynumber: 3.4 Consensus size: 566
12698751 GTATATAAAC
* * *
12698761 TATATATATATATAAACTATATAAAGTAAATTGCTTATATAGTTTATAAAAACACTATGCATAAG
1 TATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAA
* * * *
12698826 CTATATAAAGTAATAAAGTATATATGTTTATAAAAACCCTAAATCCTAAATCATAAACCCTAAAC
66 CTATATAAAGTAATAAAGTATATA-GTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAAC
* * *
12698891 TCTAAACTCTAAACCA-TAAACACTAAATCA-TAAACCCTAATATAAATGGACTAACACTAATGC
130 TTTAAACTATAAACCACTAAACACTAAA-CACTAAACCCTAATATAAATGGACTAGCACTAATGC
* ** *
12698954 ATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTAAATAAATTAATGTAAATGGACT
194 ATATATATTTGCAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATGT-AATGGACT
* * * * * *
12699019 ATCACTAATGCAAATAGATTTATTTTTTGGTTTTATTATTGCTTATTCATAACAATAAAATAAAT
258 ATTACTAATGCAAATGGACTTATTTTTT--TATTATTATTACTTATTCATAACAACAAAATAAAT
*
12699084 GGGCTATTATTGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATAT
321 GGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATAT
12699149 GACATGTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTA
386 GACATGTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTA
*
12699214 ATAATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATA
451 ATCATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATA
12699279 TGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTACATA
516 TGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAA--TA-ATA
* * *
12699333 TATATATATATATAAAGTATATAAAGTATATTACTTATATAGGTTATAGAAACACTATGCATAAA
1 TATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAA
* * *
12699398 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACTCTAAATCATAAACTCTAAACCATAAACT
66 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACT
12699463 TTAAACTATACACACTAAACACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTA
131 TTAAACTATA-A-AC----CACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTA
*** *
12699528 ATGCATATATATTTGCAATAAAAGAGTGCATTTATGTATTGGGCCTATGTAAACTAATGTAATGT
190 ATGCATATATATTTGCAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATGTAATGG
*
12699593 ACTATTACTACTGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAA
255 ACTATTACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAA
12699658 TGGGCTATTAATGTGAATTAA-C---C-T--AAC----ATACTAATTATGCAAATGAAATTAATA
320 TGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATA
* * *
12699712 TGACATGTGCTATTTATGAAGCATATAATATTCAATGTGACATACTAATTATTTAACACCTAATT
385 TGACATGTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATT
12699777 AATCATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAAT
450 AATCATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAAT
12699842 ATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATATATTATATAAA
515 ATGTATGTATAAACCATGTATAGTATATATAAAC--TATATATATATA-A-TA-AT--A
* *
12699901 CCTATATTTATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGGAACACTATGCA
1 --TATA--TATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCA
* * *
12699966 TAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACTCTAAATTATAAACCCTAAACCCTA
62 TAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTA
* * * *
12700031 AAGTTTAAACTATACA-CACTAAACACTAAACACTAAACCCTAATGTAAATAGACTAGCACTAAT
127 AACTTTAAACTATAAACCACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTAAT
** * *
12700095 GCATATATATTTATAATAAAAGAGTGGGTTTATGTATTGGGCCTATGTAAACTAATATAATGGAC
192 GCATATATATTTGCAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATGTAATGGAC
*
12700160 TATTACTATTGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATG
257 TATTACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATG
*
12700225 GGCTATTAATGTGAATTAACATAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
322 GGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
*
12700290 ACATGTACTACAATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAC
387 ACATGTACT---ATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
* *
12700355 TAATCATGTTTTATATAATTTATATTTAAATAA-CTTTATTAATTTTATTAAATAATTTTATATA
449 TAATCATGTTTTATATATTTTACATTTAAATAATC-TTATTAATTTTATTAAATAATTTTATATA
12700419 ATATGTATGTATAAACCATGTATAGTATATATAAAC----------T-AT-ATA
513 ATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAATAATA
* *
12700461 TATATATATATATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAATACTATGCATAAA
1 TATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAA
*
12700526 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAA-CTTTAAACCCTAAACCCTAAAC
66 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATC-ATAAACCCTAAACCCTAAAC
* * * * *
12700590 TTTAAACCATAAA-CAATAAAAACTAAAC-CATAAATCATAATATAAATGGACTAGCACTAATGC
130 TTTAAACTATAAACCACTAAACACTAAACAC-TAAACCCTAATATAAATGGACTAGCACTAATGC
**
12700653 ATATATATTTGCAATAAAAGAGTAAGCTTATGTATTGGGCCTATGTAAACTAATGTA
194 ATATATATTTGCAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATGTA
12700710 TTGCAAAATT
Statistics
Matches: 1257, Mismatches: 86, Indels: 84
0.88 0.06 0.06
Matches are distributed among these distances:
555 1 0.00
556 219 0.17
558 4 0.00
560 1 0.00
562 2 0.00
564 188 0.15
565 189 0.15
566 16 0.01
567 2 0.00
568 4 0.00
569 1 0.00
570 7 0.01
571 43 0.03
572 215 0.17
573 2 0.00
574 1 0.00
575 51 0.04
576 37 0.03
577 35 0.03
578 93 0.07
579 146 0.12
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (566 bp):
TATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAA
CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACT
TTAAACTATAAACCACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTAATGCAT
ATATATTTGCAATAAAAGAGTGGGCTTATGTATTGGGCCTATGTAAACTAATGTAATGGACTATT
ACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATGGGCT
ATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACAT
GTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCAT
GTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATATGTAT
GTATAAACCATGTATAGTATATATAAACTATATATATATAATAATA
Found at i:12699449 original size:14 final size:14
Alignment explanation
Indices: 12699430--12699496 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
12699420 TAGTTTATAG
*
12699430 AAACTCTAAATCAT
1 AAACTCTAAACCAT
12699444 AAACTCTAAACCAT
1 AAACTCTAAACCAT
* *
12699458 AAACTTTAAACTAT
1 AAACTCTAAACCAT
* *
12699472 ACACACTAAA-CACT
1 AAACTCTAAACCA-T
*
12699486 AAACACTAAAC
1 AAACTCTAAAC
12699497 ACTAAACCCT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
13 1 0.02
14 42 0.98
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACTCTAAACCAT
Found at i:12699484 original size:7 final size:7
Alignment explanation
Indices: 12699474--12699508 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
12699464 TAAACTATAC
12699474 ACACTAA
1 ACACTAA
12699481 ACACTAA
1 ACACTAA
12699488 ACACTAA
1 ACACTAA
12699495 ACACTAA
1 ACACTAA
*
12699502 ACCCTAA
1 ACACTAA
12699509 TATAAATGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (7 bp):
ACACTAA
Found at i:12699787 original size:564 final size:559
Alignment explanation
Indices: 12698761--12700709 Score: 2751
Period size: 572 Copynumber: 3.4 Consensus size: 559
12698751 GTATATAAAC
* * * *
12698761 TATATATATATATAAACTATATAAAGTAAATTGCTTATATAGTTTATAAAAACACTATGCATAAG
1 TATATATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATGCATAAA
* * * *
12698826 CTATATAAAGTAATAAAGTATATATGTTTATAAAAACCCTAAATCCTAAATCATAAACCCTAAAC
66 CTATATAAAGTAATAAAGTATATA-GTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAAC
* * *
12698891 TCTAAACTCTAA-AC-CATAAACACTAAATCA-TAAACCCTAATATAAATGGACTAACACTAATG
130 TTTAAACTATAACACAC-TAAACACTAAA-CACTAAACCCTAATATAAATGGACTAGCACTAATG
* * * ** *
12698953 CATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCTAAATAAATTAATGTAAATGGAC
193 CATATATATTTGCAATAAAAGAGTGCGTTTATGTATTGGGCCTATGTAAACTAATGT-AATGGAC
* * * * * *
12699018 TATCACTAATGCAAATAGATTTATTTTTTGGTTTTATTATTGCTTATTCATAACAATAAAATAAA
257 TATTACTAATGCAAATGGACTTATTTTTT--TATTATTATTACTTATTCATAACAACAAAATAAA
*
12699083 TGGGCTATTATTGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATA
320 TGGGCTATTAATGTGAATTAA-C--ACAT-CAAC---AATACTAATTATGCAAATGAAATTAATA
12699148 TGACATGTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATT
378 TGACATGTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATT
*
12699213 AATAATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAAT
443 AATCATGTTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAAT
12699278 ATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTACATA
508 ATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAA--TA-ATA
* *
12699333 TATATATATATATAAAGTATATAAAGTATATTACTTATATAGGTTATAGAAACACTATGCATAAA
1 TATATATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATGCATAAA
* * *
12699398 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACTCTAAATCATAAACTCTAAACCATAAACT
66 CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACT
12699463 TTAAACTATACACACTAAACACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTA
131 TTAAACTAT--A-AC---ACACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTA
* *
12699528 ATGCATATATATTTGCAATAAAAGAGTGCATTTATGTATTGGGCCTATGTAAACTAATGTAATGT
190 ATGCATATATATTTGCAATAAAAGAGTGCGTTTATGTATTGGGCCTATGTAAACTAATGTAATGG
*
12699593 ACTATTACTACTGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAA
255 ACTATTACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAA
12699658 TGGGCTATTAATGTGAATTAAC-C-T-AAC-ATACTAATTATGCAAATGAAATTAATATGACATG
320 TGGGCTATTAATGTGAATTAACACATCAACAATACTAATTATGCAAATGAAATTAATATGACATG
* * *
12699719 TGCTATTTATGAAGCATATAATATTCAATGTGACATACTAATTATTTAACACCTAATTAATCATG
385 TACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATG
12699784 TTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATATGTATG
450 TTTTATATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATATGTATG
12699849 TATAAACCATGTATAGTATATATAAACTATATATATATATATATTATATAAA
515 TATAAACCATGTATAGTATATATAAAC--TATATATATATA-A-TA-AT--A
*
12699901 CCTATATTTATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGGAACACTATGCA
1 --TATA--TATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATGCA
* * *
12699966 TAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACTCTAAATTATAAACCCTAAACCCTA
62 TAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTA
* * *
12700031 AAGTTTAAACTAT-ACACACTAAACACTAAACACTAAACCCTAATGTAAATAGACTAGCACTAAT
127 AACTTTAAACTATAACACACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTAAT
** * *
12700095 GCATATATATTTATAATAAAAGAGTGGGTTTATGTATTGGGCCTATGTAAACTAATATAATGGAC
192 GCATATATATTTGCAATAAAAGAGTGCGTTTATGTATTGGGCCTATGTAAACTAATGTAATGGAC
*
12700160 TATTACTATTGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATG
257 TATTACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATG
12700225 GGCTATTAATGTGAATTAACATAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
322 GGCTATTAATGTGAATTAAC---ACAT-CAAC---AATACTAATTATGCAAATGAAATTAATATG
*
12700290 ACATGTACTACAATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAC
380 ACATGTACT---ATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
* *
12700355 TAATCATGTTTTATATAATTTATATTTAAATAA-CTTTATTAATTTTATTAAATAATTTTATATA
442 TAATCATGTTTTATATATTTTACATTTAAATAATC-TTATTAATTTTATTAAATAATTTTATATA
12700419 ATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAT-AT-ATA
506 ATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAATAATA
*
12700471 TATA-A-ACTATAT-AA--A-AT--A--A-ATTACTTATATAGTTTATAGAAATACTATGCATAA
1 TATATATA-TATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATGCATAA
*
12700525 ACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAA-CTTTAAACCCTAAACCCTAAA
65 ACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATC-ATAAACCCTAAACCCTAAA
* * * * *
12700589 CTTTAAACCATAA-ACAATAAAAACTAAAC-CATAAATCATAATATAAATGGACTAGCACTAATG
129 CTTTAAACTATAACACACTAAACACTAAACAC-TAAACCCTAATATAAATGGACTAGCACTAATG
** *
12700652 CATATATATTTGCAATAAAAGAGTAAGCTTATGTATTGGGCCTATGTAAACTAATGTA
193 CATATATATTTGCAATAAAAGAGTGCGTTTATGTATTGGGCCTATGTAAACTAATGTA
12700710 TTGCAAAATT
Statistics
Matches: 1259, Mismatches: 81, Indels: 90
0.88 0.06 0.06
Matches are distributed among these distances:
555 1 0.00
556 195 0.15
557 2 0.00
559 1 0.00
561 2 0.00
562 1 0.00
564 190 0.15
565 196 0.16
566 16 0.01
567 1 0.00
568 10 0.01
569 1 0.00
570 7 0.01
571 42 0.03
572 215 0.17
573 1 0.00
574 3 0.00
575 52 0.04
576 37 0.03
577 44 0.03
578 95 0.08
579 147 0.12
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (559 bp):
TATATATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAAACACTATGCATAAA
CTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACT
TTAAACTATAACACACTAAACACTAAACACTAAACCCTAATATAAATGGACTAGCACTAATGCAT
ATATATTTGCAATAAAAGAGTGCGTTTATGTATTGGGCCTATGTAAACTAATGTAATGGACTATT
ACTAATGCAAATGGACTTATTTTTTTATTATTATTACTTATTCATAACAACAAAATAAATGGGCT
ATTAATGTGAATTAACACATCAACAATACTAATTATGCAAATGAAATTAATATGACATGTACTAT
TTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTAT
ATATTTTACATTTAAATAATCTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAA
CCATGTATAGTATATATAAACTATATATATATAATAATA
Found at i:12699889 original size:19 final size:19
Alignment explanation
Indices: 12699865--12699927 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
12699855 CCATGTATAG
* *
12699865 TATATATAAACTATATATA-
1 TATATATATA-TATATAAAC
12699884 TATATATAT-TATATAAACC
1 TATATATATATATATAAA-C
*
12699903 TATATTTATATATATAAAC
1 TATATATATATATATAAAC
12699922 TATATA
1 TATATA
12699928 AAGTATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 7 0.19
19 22 0.59
20 8 0.22
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:12699899 original size:46 final size:47
Alignment explanation
Indices: 12699849--12699945 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 47
12699839 AATATGTATG
* *
12699849 TATAAACC-ATGTATAGTATATATAAACTATATATA-TATATATA-TTA
1 TATAAACCTATATATA-TATATATAAACTATATAAAGTATAT-TACTTA
*
12699895 TATAAACCTATATTTATATATATAAACTATATAAAGTATATTACTTA
1 TATAAACCTATATATATATATATAAACTATATAAAGTATATTACTTA
12699942 TATA
1 TATA
12699946 GTTTATAGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
46 28 0.62
47 17 0.38
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (47 bp):
TATAAACCTATATATATATATATAAACTATATAAAGTATATTACTTA
Found at i:12699905 original size:27 final size:26
Alignment explanation
Indices: 12699867--12699918 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
12699857 ATGTATAGTA
12699867 TATATAAACTATATATATATATATAT
1 TATATAAACTATATATATATATATAT
*
12699893 TATATAAACCTATATTTATATATATA
1 TATATAAA-CTATATATATATATATA
12699919 AACTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (26 bp):
TATATAAACTATATATATATATATAT
Found at i:12699925 original size:27 final size:26
Alignment explanation
Indices: 12699860--12699918 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
12699850 ATAAACCATG
12699860 TATAGTAT-ATATAAACTATATATATA
1 TATA-TATAATATAAACTATATATATA
* *
12699886 TATATATTATATAAACCTATATTTATA
1 TATATATAATATAAA-CTATATATATA
12699913 TATATA
1 TATATA
12699919 AACTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.10
26 11 0.37
27 16 0.53
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (26 bp):
TATATATAATATAAACTATATATATA
Found at i:12699927 original size:15 final size:15
Alignment explanation
Indices: 12699860--12699914 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
12699850 ATAAACCATG
12699860 TATAGTATATATAAAC
1 TATA-TATATATAAAC
12699876 TATATATATAT--A-
1 TATATATATATAAAC
12699888 TATAT-TATATAAACC
1 TATATATATATAAA-C
*
12699903 TATATTTATATA
1 TATATATATATA
12699915 TATAAACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 2 0.06
15 12 0.35
16 10 0.29
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:12700474 original size:23 final size:24
Alignment explanation
Indices: 12700439--12700483 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
12700429 ATAAACCATG
12700439 TATAGTATATATAAACTATATATA
1 TATAGTATATATAAACTATATATA
12700463 TATA-TATATATAAACTATATA
1 TATAGTATATATAAACTATATA
12700484 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
TATAGTATATATAAACTATATATA
Found at i:12700582 original size:21 final size:21
Alignment explanation
Indices: 12700558--12700603 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
12700548 TAGTTTATAG
*
12700558 AAACCCTAAACTTTAAACCCT
1 AAACCCTAAACTTTAAACCAT
12700579 AAACCCTAAACTTTAAACCAT
1 AAACCCTAAACTTTAAACCAT
12700600 AAAC
1 AAAC
12700604 AATAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAACTTTAAACCAT
Found at i:12700609 original size:21 final size:21
Alignment explanation
Indices: 12700564--12700623 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
12700554 ATAGAAACCC
* **
12700564 TAAACTTTAAACCCTAAACCC
1 TAAACTTTAAACCATAAACAA
12700585 TAAACTTTAAACCATAAACAA
1 TAAACTTTAAACCATAAACAA
***
12700606 TAAAAACTAAACCATAAA
1 TAAACTTTAAACCATAAA
12700624 TCATAATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACTTTAAACCATAAACAA
Found at i:12700816 original size:14 final size:14
Alignment explanation
Indices: 12700797--12700843 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
12700787 ATTTTTTCAT
12700797 TATATAAATTAAAC
1 TATATAAATTAAAC
12700811 TATAT-AATT----
1 TATATAAATTAAAC
12700820 TATATAAATTAAAC
1 TATATAAATTAAAC
*
12700834 TATATTAATT
1 TATATAAATT
12700844 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:12700826 original size:23 final size:24
Alignment explanation
Indices: 12700796--12700844 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
12700786 AATTTTTTCA
12700796 TTATATAAATTAAACTATA-TAAT
1 TTATATAAATTAAACTATATTAAT
12700819 TTATATAAATTAAACTATATTAAT
1 TTATATAAATTAAACTATATTAAT
12700843 TT
1 TT
12700845 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATATAAATTAAACTATATTAAT
Found at i:12701140 original size:16 final size:16
Alignment explanation
Indices: 12701109--12701159 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
12701099 CGGATCATTT
* *
12701109 ACAGGCCAGGTTAAAA
1 ACAGGTCAGATTAAAA
*
12701125 ACATGTCAGATTAAAA
1 ACAGGTCAGATTAAAA
* *
12701141 ACAGGTCAGGTTGAAA
1 ACAGGTCAGATTAAAA
12701157 ACA
1 ACA
12701160 AGTTGGGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGATTAAAA
Found at i:12712545 original size:29 final size:29
Alignment explanation
Indices: 12712511--12712569 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
12712501 CCTAAATTAA
12712511 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
*
12712540 TTTGATGTTATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
12712569 T
1 T
12712570 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:12717222 original size:29 final size:29
Alignment explanation
Indices: 12717188--12717246 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12717178 CCTAAATTAA
12717188 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
12717217 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
12717246 T
1 T
12717247 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:12725382 original size:31 final size:29
Alignment explanation
Indices: 12725345--12725426 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 29
12725335 TATAACTTTT
*
12725345 AAAATTATATTTTGGTCCCTAAACTTTTCCA
1 AAAATTATATTTTGGTCACTAAAC-TTT-CA
* *
12725376 AAAATTATACTTTAG-CAACTAAACTTTCA
1 AAAATTATATTTTGGTC-ACTAAACTTTCA
* *
12725405 AAATTTATATTTCGGTCACTAA
1 AAAATTATATTTTGGTCACTAA
12725427 CAAAATTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 18 0.43
30 5 0.12
31 19 0.45
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (29 bp):
AAAATTATATTTTGGTCACTAAACTTTCA
Found at i:12730693 original size:20 final size:20
Alignment explanation
Indices: 12730668--12730709 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12730658 AAACCATTCC
12730668 GGGGGAATCAGTACCCCCTG
1 GGGGGAATCAGTACCCCCTG
* *
12730688 GGGGGAATCAGTTCCCTCTG
1 GGGGGAATCAGTACCCCCTG
12730708 GG
1 GG
12730710 TAATATGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (20 bp):
GGGGGAATCAGTACCCCCTG
Found at i:12731061 original size:12 final size:12
Alignment explanation
Indices: 12731027--12731062 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
12731017 TAAGAAAATC
*
12731027 ATTTTGAAATCAA
1 ATTTT-AAATTAA
12731040 ATTTTAAATTAA
1 ATTTTAAATTAA
12731052 ATTTTAAATTA
1 ATTTTAAATTA
12731063 CTCCCCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTTTAAATTAA
Found at i:12733301 original size:22 final size:22
Alignment explanation
Indices: 12733276--12733358 Score: 73
Period size: 22 Copynumber: 3.7 Consensus size: 22
12733266 CCAGAACCCG
* *
12733276 AGGGGGTATCGATTCCCTCCAA
1 AGGGGGAATCGATTCCCTTCAA
*
12733298 AGGGGGAATC-AGTTCCTATTCAA
1 AGGGGGAATCGA-TTCC-CTTCAA
*
12733321 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATT-CCCTTCAA
12733343 A-GGGGATATCGATTCC
1 AGGGGGA-ATCGATTCC
12733359 TCCTTCCAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
21 8 0.16
22 21 0.42
23 19 0.38
24 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCTTCAA
Found at i:12733342 original size:23 final size:23
Alignment explanation
Indices: 12733276--12733364 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 23
12733266 CCAGAACCCG
* *
12733276 AGGGGGTATCGATT-CCCTCCAA
1 AGGGGGAATCGATTCCCCTTCAA
**
12733298 AGGGGGAATC-AGTTCCTATTCAA
1 AGGGGGAATCGA-TTCCCCTTCAA
*
12733321 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATTCCCCTTCAA
12733343 A-GGGGATATCGATTCCTCCTTC
1 AGGGGGA-ATCGATTCC-CCTTC
12733365 CAGAAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
21 6 0.11
22 21 0.39
23 27 0.50
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:12737198 original size:22 final size:21
Alignment explanation
Indices: 12737156--12737195 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12737146 AAGATTTTTT
12737156 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
12737177 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
12737196 ATAGAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:12739106 original size:21 final size:20
Alignment explanation
Indices: 12739080--12739132 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
12739070 CGTTATACAA
*
12739080 GGGGGAATCGGTACCCCCTAG
1 GGGGGAATCGGTACACCCT-G
*
12739101 GGGGGAATCGATACACCCTG
1 GGGGGAATCGGTACACCCTG
12739121 GGGGGAATCGGT
1 GGGGGAATCGGT
12739133 TCCCTCTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.21, C:0.23, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGGGAATCGGTACACCCTG
Found at i:12739221 original size:18 final size:20
Alignment explanation
Indices: 12739180--12739221 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
12739170 ATTTAGGGGG
*
12739180 AATCGGTATCCCTTATGGGG
1 AATCGGTATCCCTTATGGGC
*
12739200 AATCGGT-TCCC-TCTGGGC
1 AATCGGTATCCCTTATGGGC
12739218 AATC
1 AATC
12739222 TGCCCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (20 bp):
AATCGGTATCCCTTATGGGC
Found at i:12749073 original size:41 final size:41
Alignment explanation
Indices: 12749022--12749106 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
12749012 GTTTCTAAAT
* * * *
12749022 CCCTTATCCAGAATGTAGATATTTCC-TTAAGGTTTTGAAAC
1 CCCTTATCCAGAAGGTA-AAAATTCCATTAAGATTTTGAAAC
*
12749063 CCCTTTTCCAGAAGGTAAAAATTCCATTAAGATTTTGAAAC
1 CCCTTATCCAGAAGGTAAAAATTCCATTAAGATTTTGAAAC
12749104 CCC
1 CCC
12749107 CTAAGGTGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 6 0.16
41 32 0.84
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (41 bp):
CCCTTATCCAGAAGGTAAAAATTCCATTAAGATTTTGAAAC
Found at i:12751050 original size:41 final size:40
Alignment explanation
Indices: 12750973--12751050 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
12750963 AATGGGAGCT
* *
12750973 ATTGTTAAAACTGAAAGGTTGGATTATAAGTCATCCAGCC
1 ATTGTTAAAACTGAAAGGTTGGAATATAAATCATCCAGCC
*
12751013 ATTGTTAAAACTGAAAGGTTTGGAATATAAATTATCCA
1 ATTGTTAAAACTGAAAGG-TTGGAATATAAATCATCCA
12751051 AATTGCATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (40 bp):
ATTGTTAAAACTGAAAGGTTGGAATATAAATCATCCAGCC
Found at i:12757515 original size:2 final size:2
Alignment explanation
Indices: 12757432--12757505 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
12757422 ATTGATATTC
12757432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12757474 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12757506 TAACATATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12757786 original size:18 final size:18
Alignment explanation
Indices: 12757763--12757958 Score: 268
Period size: 18 Copynumber: 10.9 Consensus size: 18
12757753 GCGTAGAATT
*
12757763 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
12757781 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
12757799 TGTCCCGAAGGACCA-TA
1 TGTCCCGAAGGACCACTA
*
12757816 TTGTCCTGAAGGACCACTA
1 -TGTCCCGAAGGACCACTA
* *
12757835 TGTCCCGAAGGACCATTG
1 TGTCCCGAAGGACCACTA
*
12757853 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
*
12757871 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
* *
12757889 TGTCTCGAAGGACCACTG
1 TGTCCCGAAGGACCACTA
* *
12757907 TGTCACGAAGGACCATTA
1 TGTCCCGAAGGACCACTA
**
12757925 TGTCCAAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
12757943 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
12757959 GTAGACCCTC
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
17 2 0.01
18 156 0.98
19 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:12761883 original size:15 final size:15
Alignment explanation
Indices: 12761863--12761895 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12761853 TGAAAGTTTT
12761863 TGCCAATATACGAAA
1 TGCCAATATACGAAA
12761878 TGCCAATATACGAAA
1 TGCCAATATACGAAA
12761893 TGC
1 TGC
12761896 TAGAGAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (15 bp):
TGCCAATATACGAAA
Found at i:12769463 original size:16 final size:16
Alignment explanation
Indices: 12769444--12769506 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
12769434 AACTTAATTA
*
12769444 AAATAATTAAAATAAT
1 AAATAATAAAAATAAT
*
12769460 AAATAATAAAAATAGT
1 AAATAATAAAAATAAT
* *
12769476 AAAAAACATAAAATAA-
1 AAATAATA-AAAATAAT
* *
12769492 AAAAAATAAACATAA
1 AAATAATAAAAATAA
12769507 ATACAAGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 6 0.15
16 27 0.69
17 6 0.15
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATAATAAAAATAAT
Found at i:12769478 original size:9 final size:9
Alignment explanation
Indices: 12769427--12769500 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 9
12769417 AAAAACAATT
12769427 AATAATAAA
1 AATAATAAA
** *
12769436 CTTAATTAA
1 AATAATAAA
*
12769445 AATAATTAA
1 AATAATAAA
12769454 AATAAT--A
1 AATAATAAA
12769461 AATAATAAA
1 AATAATAAA
*
12769470 AATAGTAAA
1 AATAATAAA
12769479 AA-ACAT-AA
1 AATA-ATAAA
*
12769487 AATAAAAAA
1 AATAATAAA
12769496 AATAA
1 AATAA
12769501 ACATAAATAC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
7 7 0.13
8 6 0.12
9 39 0.75
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (9 bp):
AATAATAAA
Found at i:12769490 original size:17 final size:14
Alignment explanation
Indices: 12769451--12769507 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 14
12769441 TTAAAATAAT
*
12769451 TAAAATAATAAATAA
1 TAAAATAA-AAAAAA
12769466 TAAAAATAGTAAAAAACA
1 T-AAAATA--AAAAAA-A
12769484 TAAAATAAAAAAAA
1 TAAAATAAAAAAAA
12769498 TAAACATAAA
1 TAAA-ATAAA
12769508 TACAAGGATC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 5 0.14
15 12 0.33
16 6 0.17
17 10 0.28
18 3 0.08
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:12769496 original size:15 final size:15
Alignment explanation
Indices: 12769475--12769507 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12769465 ATAAAAATAG
*
12769475 TAAAAAACATAAA-A
1 TAAAAAAAATAAACA
12769489 TAAAAAAAATAAACA
1 TAAAAAAAATAAACA
12769504 TAAA
1 TAAA
12769508 TACAAGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAAAAAAATAAACA
Found at i:12770752 original size:14 final size:15
Alignment explanation
Indices: 12770733--12770762 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12770723 ATGATCATTA
12770733 TTTTTTTTTTG-TTT
1 TTTTTTTTTTGCTTT
12770747 TTTTTTTTTTGCTTT
1 TTTTTTTTTTGCTTT
12770762 T
1 T
12770763 GTTGTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTGCTTT
Found at i:12771498 original size:41 final size:41
Alignment explanation
Indices: 12771453--12771558 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
12771443 CCCGAAGGTC
* * *
12771453 TTATGGATGGCCCGAAGGACTTATCATCTTGCTAGAAAGAT
1 TTATGGATGGCCCGAAGGACTTAGCATCATGCTAGAAAGAA
* * *
12771494 TTATGGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAA
1 TTATGGATGGCCCGAAGGACTT-AGCATCATGCTAGAAAGAA
* *
12771536 TTACT-TATAGCCCGAAGGACTTA
1 TTA-TGGATGGCCCGAAGGACTTA
12771559 AGTTGATTCG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 21 0.40
42 31 0.58
43 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (41 bp):
TTATGGATGGCCCGAAGGACTTAGCATCATGCTAGAAAGAA
Found at i:12771692 original size:59 final size:59
Alignment explanation
Indices: 12771560--12771717 Score: 208
Period size: 59 Copynumber: 2.7 Consensus size: 59
12771550 AAGGACTTAA
* * * *
12771560 GTTGATTCGAAGTGTTGTGAATCAAGCAATAGGAAATGTTAACCCTTGTGGTAGGTCGTT
1 GTTGATTCGAAGTGTTGTGAATCAAGCAA-AGGAAATGTTAACCCCTCTGGTAGGGCATT
* * * *
12771620 GCTGATTCGAAGTGTTGTGAATCTAGCAAAGAAAATGTTAACCCCTCTGGTGGGGCATT
1 GTTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTAACCCCTCTGGTAGGGCATT
* * *
12771679 GTTGATTCAAAGTGTTGTGGATCGAGCAAAGGAAATGTT
1 GTTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTT
12771718 GAAAACATCC
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 58 0.68
60 27 0.32
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (59 bp):
GTTGATTCGAAGTGTTGTGAATCAAGCAAAGGAAATGTTAACCCCTCTGGTAGGGCATT
Found at i:12772077 original size:104 final size:106
Alignment explanation
Indices: 12771907--12772151 Score: 365
Period size: 109 Copynumber: 2.3 Consensus size: 106
12771897 TCAATTATCG
*
12771907 TCAAGAAACCCCTAAAAATTAGGCTTAACTTC-TTTAAAATTATTTGGAAATAATCATCAAGAAA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTATTTGGAAATAATCATCAAGAAA
*
12771971 CCCCTGAAAAT-C-TAGTTTCTAAAAACTCATTTAAAAACA
66 CCCCTGAAAATGCTTAGTTTCTAAAAACTCATTGAAAAACA
* *
12772010 TCAAGAAACCCCTAAAAA-TAGGCTTAGCTTCTTTTAAAAATTCA-TTGGAAATCATTATCAAGA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTT-AAAATT-ATTTGGAAATAATCATCAAGA
*
12772073 AACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTGGAAAACA
64 AACCCCTGAAAAT---GCTTAGTTTCTAAAAACTCATTGAAAAACA
12772119 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCT
1 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCT
12772152 AAAAACTCAT
Statistics
Matches: 128, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
102 12 0.09
103 21 0.16
104 36 0.28
105 1 0.01
108 1 0.01
109 43 0.34
110 14 0.11
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (106 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAATTATTTGGAAATAATCATCAAGAAA
CCCCTGAAAATGCTTAGTTTCTAAAAACTCATTGAAAAACA
Found at i:12772137 original size:52 final size:51
Alignment explanation
Indices: 12771907--12772173 Score: 256
Period size: 52 Copynumber: 5.1 Consensus size: 51
12771897 TCAATTATCG
** * *
12771907 TCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTAAAA-TTATTTGGAAATAATCA
1 TCAAGAAACCCCTAAAAA-TAGGCTTAGTTTC-TAAAAACTCA-TTGG-AA-AA-CA
* **
12771963 TCAAGAAACCCCTGAAAAT---C-TAGTTTCTAAAAACTCATTTAAAAACA
1 TCAAGAAACCCCTAAAAATAGGCTTAGTTTCTAAAAACTCATTGGAAAACA
* * *
12772010 TCAAGAAACCCCTAAAAATAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATCATTA
1 TCAAGAAACCCCTAAAAATAGGCTTAG--T-TTCTAAAAACTCATTGGAAA--A-CA
*
12772067 TCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTGGAAAACA
1 TCAAGAAACCCCTAAAAAT-AGGCTTAGTTTCTAAAAACTCATTGGAAAACA
* *
12772119 TCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTAAAAACTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAA-TAGGCTTAGTTTCTAAAAACTCATTGGAAAACA
12772171 TCA
1 TCA
12772174 TGTTGTTTGG
Statistics
Matches: 178, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
47 20 0.11
48 2 0.01
49 2 0.01
50 8 0.04
51 10 0.06
52 52 0.29
53 3 0.02
54 16 0.09
55 19 0.11
56 19 0.11
57 19 0.11
58 8 0.04
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (51 bp):
TCAAGAAACCCCTAAAAATAGGCTTAGTTTCTAAAAACTCATTGGAAAACA
Found at i:12774003 original size:65 final size:65
Alignment explanation
Indices: 12773869--12774029 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
12773859 ATGCACGAAG
* * * *
12773869 AGTGCATCGATGGATCAAGTGCATTCAATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
* * *
12773933 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGC
12773996 T
65 T
*
12773997 AAGTGCATCGATGCATGAAATGCATTCGATGTT
1 -AGTGCATCGATGCATCAAATGCATTCGATGTT
12774030 CAATTTAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 28 0.33
65 55 0.64
66 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
Found at i:12776151 original size:3 final size:3
Alignment explanation
Indices: 12776143--12776206 Score: 76
Period size: 3 Copynumber: 20.0 Consensus size: 3
12776133 TTTTATTTAT
12776143 TTA TTA TTA TTA TTA TTA TATA TATA TATA TATA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA T-TA TTA TTA TTA T-TA
12776189 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
12776207 AAAAATAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 38 0.66
4 18 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:12779959 original size:8 final size:7
Alignment explanation
Indices: 12779935--12779976 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
12779925 TTTTCATACA
12779935 TGCA-TT
1 TGCATTT
12779941 TGCATTT
1 TGCATTT
12779948 TGCATCTT
1 TGCAT-TT
12779956 TGCATTT
1 TGCATTT
* *
12779963 TTCATTG
1 TGCATTT
12779970 TGCATTT
1 TGCATTT
12779977 ATACTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:12779959 original size:15 final size:14
Alignment explanation
Indices: 12779935--12779976 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
12779925 TTTTCATACA
12779935 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
12779948 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
12779963 TTCATTGTGCATTT
1 TGCATTTTGCATTT
12779977 ATACTCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:12784429 original size:115 final size:115
Alignment explanation
Indices: 12784104--12784673 Score: 939
Period size: 114 Copynumber: 5.0 Consensus size: 115
12784094 AAGTTCCATG
*
12784104 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
12784169 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATG
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
12784219 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTT-TGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
** * *
12784283 TAATTTAGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
12784333 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
12784398 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATAAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
*
12784448 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAA-TGTTCTTTGAGTTATCTGATA
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
12784512 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
* * *
12784562 TGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * * *
12784627 TGGTTCGGTAGGAACCAC-AGAACCAGTCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAA
12784674 CTGCATGATC
Statistics
Matches: 428, Mismatches: 25, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
114 241 0.56
115 187 0.44
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATT
Done.