Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 392 of 427
Found at i:113671264 original size:21 final size:21
Alignment explanation
Indices: 113671240--113671293 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
113671230 GATGTGTCTC
113671240 GGTATCGTGATACCCATCCTT
1 GGTATCGTGATACCCATCCTT
113671261 GGTATCGTGATACCCATCCTT
1 GGTATCGTGATACCCATCCTT
113671282 GGTATCGTGATA
1 GGTATCGTGATA
113671294 TCATTAAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (21 bp):
GGTATCGTGATACCCATCCTT
Found at i:113673764 original size:6 final size:6
Alignment explanation
Indices: 113673748--113673787 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
113673738 ATTAATAAAA
113673748 CCCTC- CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
113673788 CATCTTTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTCT
Found at i:113673959 original size:29 final size:29
Alignment explanation
Indices: 113673926--113673992 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
113673916 GATGGAAAGG
113673926 GAGGGAGGA-GAGGGAGAGACGGTAGGGAA
1 GAGGGAGGAGGAGGG-GAGACGGTAGGGAA
* * *
113673955 GAGGGAGGAGGAGGGGAGATGGTGGGGGA
1 GAGGGAGGAGGAGGGGAGACGGTAGGGAA
113673984 GAGGTGAGG
1 GAGG-GAGG
113673993 GACAAGAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 24 0.73
30 9 0.27
ACGTcount: A:0.28, C:0.01, G:0.64, T:0.06
Consensus pattern (29 bp):
GAGGGAGGAGGAGGGGAGACGGTAGGGAA
Found at i:113680903 original size:9 final size:9
Alignment explanation
Indices: 113680886--113680939 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
113680876 AATGTGTATG
*
113680886 TATTATATA
1 TATTTTATA
113680895 TATTTTATA
1 TATTTTATA
*
113680904 CATTTTATA
1 TATTTTATA
113680913 TATATTATATA
1 TAT-TT-TATA
*
113680924 TATATTATA
1 TATTTTATA
113680933 T-TTTTAT
1 TATTTTAT
113680940 GTATATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 5 0.13
9 23 0.61
10 3 0.08
11 7 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTTTATA
Found at i:113680914 original size:11 final size:11
Alignment explanation
Indices: 113680888--113680981 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 11
113680878 TGTGTATGTA
113680888 TTATATATA-T
1 TTATATATATT
*
113680898 TT-TATACATT
1 TTATATATATT
113680908 TTATATATATT
1 TTATATATATT
*
113680919 ATATATATATT
1 TTATATATATT
* * *
113680930 ATATTTTTA-T
1 TTATATATATT
*
113680940 GTATATAT-TT
1 TTATATATATT
113680950 TTAATATCATATT
1 TT-ATAT-ATATT
*
113680963 ATTCATATATTTT
1 -TT-ATATATATT
113680976 TTATAT
1 TTATAT
113680982 TATGTAAATA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.08
10 13 0.20
11 32 0.48
12 4 0.06
13 6 0.09
14 6 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:113680961 original size:14 final size:14
Alignment explanation
Indices: 113680909--113680981 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
113680899 TTATACATTT
*
113680909 TATATATATTATATA
1 TATATATATT-TTTA
113680924 TATATTATATTTTTA
1 TATA-TATATTTTTA
*
113680939 TGTATATATTTTTA
1 TATATATATTTTTA
*
113680953 -ATATCATATTATT-
1 TATAT-ATATTTTTA
*
113680966 CATATAT-TTTTTA
1 TATATATATTTTTA
113680979 TAT
1 TAT
113680982 TATGTAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 4 0.08
13 7 0.15
14 21 0.44
15 10 0.21
16 6 0.12
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (14 bp):
TATATATATTTTTA
Found at i:113680964 original size:25 final size:25
Alignment explanation
Indices: 113680936--113681021 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
113680926 TATTATATTT
113680936 TTATGTATATATTTTTAATATCATA
1 TTATGTATATATTTTTAATATCATA
113680961 TTAT-TCATATA-TTTT--T-T-ATA
1 TTATGT-ATATATTTTTAATATCATA
* * *
113680981 TTATGTAAATATTTTCAATA-CTACA
1 TTATGTATATATTTTTAATATC-ATA
113681006 TTATGTATATATTTTT
1 TTATGTATATATTTTT
113681022 GTCTATATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.23
21 5 0.10
22 1 0.02
23 1 0.02
24 5 0.10
25 25 0.52
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATGTATATATTTTTAATATCATA
Found at i:113680995 original size:45 final size:45
Alignment explanation
Indices: 113680936--113681021 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
113680926 TATTATATTT
* * *
113680936 TTATGTATATATTTTTAATA-TCATATTAT-TCATATATTTTTTATA
1 TTATGTAAATATTTTCAATACT-ACATTATGT-ATATATTTTTTATA
113680981 TTATGTAAATATTTTCAATACTACATTATGTATATATTTTT
1 TTATGTAAATATTTTCAATACTACATTATGTATATATTTTT
113681022 GTCTATATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (45 bp):
TTATGTAAATATTTTCAATACTACATTATGTATATATTTTTTATA
Found at i:113681307 original size:26 final size:26
Alignment explanation
Indices: 113681277--113681328 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
113681267 ATTATGTATA
*
113681277 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
113681303 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
113681329 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:113683534 original size:28 final size:27
Alignment explanation
Indices: 113683473--113683538 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
113683463 TGAGTCCGCG
*
113683473 CACTTAGTGCTATATAATCAGCTCGCA
1 CACTTAGTGCTATATAATCAACTCGCA
113683500 CACTTAGTGCTATATAATCAAACTCGCA
1 CACTTAGTGCTATATAATC-AACTCGCA
113683528 CACTTAGTGCT
1 CACTTAGTGCT
113683539 GTACAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CACTTAGTGCTATATAATCAACTCGCA
Found at i:113691464 original size:28 final size:27
Alignment explanation
Indices: 113691399--113691468 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
113691389 ATAGTGAGTC
*
113691399 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
113691426 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
113691454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
113691469 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:113693135 original size:19 final size:19
Alignment explanation
Indices: 113693111--113693150 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
113693101 GGGCGTTTAA
113693111 GGCTGTCACATAACTTACT
1 GGCTGTCACATAACTTACT
113693130 GGCTGTCACATAACTTACT
1 GGCTGTCACATAACTTACT
113693149 GG
1 GG
113693151 GTTTCGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (19 bp):
GGCTGTCACATAACTTACT
Found at i:113704977 original size:205 final size:204
Alignment explanation
Indices: 113704577--113705075 Score: 698
Period size: 205 Copynumber: 2.4 Consensus size: 204
113704567 GAGCAGATCA
* * * * * * *
113704577 AAGATATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCCAAGATGATTTGTCGTCTC
1 AAGACATAGCTGATTTGGCTTTCACGTACTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTC
* * *
113704642 TGTAGTGTCAGAGAACAAATCGAAGTCTGCATCTCTACTTCAATAGAGAGCAGATACATAGCAGA
66 TGTATTGTCAGAGAACAAATCGAAGTCTGCATCTCCACTTCAATAGAGAGCAGACACATAGCAGA
* * * *
113704707 TCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGG
131 TCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCATTGTGCTTACAAGG
113704772 AACAAATCG
196 AACAAATCG
*
113704781 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTACTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTC
* * * *
113704846 TATATTGTCAGAGAACAAATCGAAGTCTGGTATCTCCACTTCGAT-GA-ATGGTAGACACATAGC
66 TGTATTGTCAGAGAACAAATCGAAGTCT-GCATCTCCACTTCAATAGAGA--GCAGACACATAGC
113704909 AGATC-CAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCATTGTGCTTAC
128 AGATCTC-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCATTGTGCTTAC
*
113704973 AAGGAGCAAATCG
192 AAGGAACAAATCG
* * * *
113704986 AAGACGTAGCTGATTAGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATAATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTACTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTC
* * *
113705051 TGTTTTTTCAGGGAACAAATCGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
113705076 AAGCAGATTT
Statistics
Matches: 262, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
203 1 0.00
204 86 0.33
205 175 0.67
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
AAGACATAGCTGATTTGGCTTTCACGTACTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTCTGCATCTCCACTTCAATAGAGAGCAGACACATAGCAGA
TCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCATTGTGCTTACAAGG
AACAAATCG
Found at i:113705222 original size:45 final size:45
Alignment explanation
Indices: 113705169--113705260 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
113705159 GAAGAAGCAA
*
113705169 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
*
113705214 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
113705259 AT
1 AT
113705261 ATCACCTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:113706985 original size:9 final size:9
Alignment explanation
Indices: 113706968--113707026 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
113706958 AATGTGTATG
*
113706968 TATTATATA
1 TATTTTATA
113706977 TATTTTATA
1 TATTTTATA
*
113706986 CATTTTATA
1 TATTTTATA
113706995 TA---TATA
1 TATTTTATA
*
113707001 TATTATATA
1 TATTTTATA
113707010 TATATTTATTA
1 TAT-TTTA-TA
113707021 TATTTT
1 TATTTT
113707027 TATGTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.15
9 24 0.59
10 6 0.15
11 5 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTTTATA
Found at i:113707007 original size:11 final size:11
Alignment explanation
Indices: 113706968--113707024 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
113706958 AATGTGTATG
113706968 TATTATATATA
1 TATTATATATA
* *
113706979 TTTTATACAT-
1 TATTATATATA
*
113706989 TTTATATATATA
1 TAT-TATATATA
113707001 TATTATATATA
1 TATTATATATA
113707012 TATT-TAT-TA
1 TATTATATATA
113707021 TATT
1 TATT
113707025 TTTATGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 6 0.15
10 6 0.15
11 26 0.65
12 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATATATA
Found at i:113707028 original size:11 final size:13
Alignment explanation
Indices: 113706982--113707071 Score: 75
Period size: 13 Copynumber: 7.1 Consensus size: 13
113706972 ATATATATTT
*
113706982 TATACATTTTATA
1 TATATATTTTATA
*
113706995 TATATATATTATA
1 TATATATTTTATA
113707008 TATATA-TTTAT-
1 TATATATTTTATA
*
113707019 TATAT-TTTTATG
1 TATATATTTTATA
113707031 TATATATTTT-TAA
1 TATATATTTTAT-A
113707044 TATCATATTATTCATA
1 TAT-ATATT-TT-ATA
113707060 TAT-T-TTTTATA
1 TATATATTTTATA
113707071 T
1 T
113707072 TATGTAAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
11 14 0.22
12 12 0.18
13 26 0.40
14 6 0.09
15 2 0.03
16 4 0.06
17 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (13 bp):
TATATATTTTATA
Found at i:113707054 original size:25 final size:24
Alignment explanation
Indices: 113706972--113707111 Score: 109
Period size: 25 Copynumber: 6.0 Consensus size: 24
113706962 TGTATGTATT
*
113706972 ATATATATT-T-TATACATTTTATA
1 ATATATATTATGTATATATTTT-TA
*
113706995 TATATATATTATATATATATTTATT-
1 -ATATATATTATGTATATATTT-TTA
*
113707020 ATAT-TTTTATGTATATATTTTTA
1 ATATATATTATGTATATATTTTTA
113707043 ATATCATATTAT-TCATATA-TTTT-
1 ATAT-ATATTATGT-ATATATTTTTA
* *
113707066 -T-TATATTATGTAAATATTTTCA
1 ATATATATTATGTATATATTTTTA
*
113707088 ATACTACATTATGTATATATTTTT
1 ATA-TATATTATGTATATATTTTT
113707112 GTCTATATTG
Statistics
Matches: 94, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
20 11 0.12
21 5 0.05
22 3 0.03
23 19 0.20
24 18 0.19
25 28 0.30
26 9 0.10
27 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTTA
Found at i:113707099 original size:45 final size:45
Alignment explanation
Indices: 113707002--113707111 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
113706992 ATATATATAT
* * * * *
113707002 ATTATATATATATTTATTATATTTTTATGTATATATTTTTAATATCAT
1 ATTATGTATATATTT-TT-TA-TATTATGTAAATATTTTCAATATCAC
113707050 ATTAT-TCATATATTTTTTATATTATGTAAATATTTTCAATA-CTAC
1 ATTATGT-ATATATTTTTTATATTATGTAAATATTTTCAATATC-AC
113707095 ATTATGTATATATTTTT
1 ATTATGTATATATTTTT
113707112 GTCTATATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 35 0.64
46 3 0.05
47 3 0.05
48 13 0.24
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (45 bp):
ATTATGTATATATTTTTTATATTATGTAAATATTTTCAATATCAC
Found at i:113708768 original size:30 final size:29
Alignment explanation
Indices: 113708694--113708775 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
113708684 AAATTTAAAT
*
113708694 ATATATATATATAAA-A-ATTTAAAAGAGA
1 ATATATATAT-TAAATAGATTTAAAAGAAA
* *
113708722 ATATTTACA-T-AATAGATTTGAAAAGAAA
1 ATATATATATTAAATAGATTT-AAAAGAAA
113708750 ATATATATATTAAATAGATTTAAAAG
1 ATATATATATTAAATAGATTTAAAAG
113708776 TAACTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 4 0.09
28 21 0.48
29 6 0.14
30 9 0.20
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (29 bp):
ATATATATATTAAATAGATTTAAAAGAAA
Found at i:113708783 original size:29 final size:29
Alignment explanation
Indices: 113708732--113708801 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
113708722 ATATTTACAT
* * *
113708732 AATAGATTTGAAAAGAAAATATATATATTA
1 AATAGATTT-AAAAGAAAATATAAAAATAA
* *
113708762 AATAGATTTAAAAGTAACTATAAAAATAA
1 AATAGATTTAAAAGAAAATATAAAAATAA
*
113708791 AATAGAATTAA
1 AATAGATTTAA
113708802 CAATGTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (29 bp):
AATAGATTTAAAAGAAAATATAAAAATAA
Found at i:113710624 original size:177 final size:177
Alignment explanation
Indices: 113710216--113711132 Score: 1408
Period size: 177 Copynumber: 5.2 Consensus size: 177
113710206 GTCTTACAGT
* ** * * * * * **
113710216 AACTTCAAGAAGATAAGGTTTGTAACTTCAACCTGCTCCACTGC-AACTTCAGGGAGACAAAGCC
1 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCT-CTCTGCAAAC-TCAGAGAGATAAGGTT
* * * * *
113710280 AGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCTATCTTC-AATCTACTCT
64 AGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCC
* *
113710344 ATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTAC
129 ATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
* * * * * *
113710393 AACTTCAGGAAGATAAGACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGTTG
1 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC-TGCAAACTCAGAGAGATAAGGTTA
* *
113710458 GTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTTGCCATCTTCTGATCTGCTCCA
65 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCA
113710523 TAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
130 TAGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
*
113710571 AATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
1 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
113710636 TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTC-GATCTGCTCCAT
66 TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
* ** *
113710700 AACTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGC
131 AGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
* * * *
113710747 AACTTCAGGAAGATAAGACCTGTATCTTCAACTTGTTCTCTGCAAACTCAGAAAGATAAGGTTAG
1 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
113710812 TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
66 TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
*
113710877 AGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGT
131 AGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
* * *
113710924 AATTTCAGGAAGATAAGACTTGTATCTTTAACTTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
1 AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
*
113710989 TGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
66 TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
* * *
113711054 AGCCGATACATGGAGATAAGATCCGTAATTTTCAGTCTACTTCCTGC
131 AGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
113711101 AACTTCAGGAAGATAAGACTTGTATCTTCAAC
1 AACTTCAGGAAGATAAGACTTGTATCTTCAAC
113711133 GATGTCGCTA
Statistics
Matches: 677, Mismatches: 59, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
176 169 0.25
177 416 0.61
178 92 0.14
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (177 bp):
AACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTTAG
TGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCAT
AGCCAATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGC
Found at i:113710930 original size:353 final size:354
Alignment explanation
Indices: 113710214--113711132 Score: 1455
Period size: 353 Copynumber: 2.6 Consensus size: 354
113710204 TAGTCTTACA
* * ** * * * * *
113710214 GTAACTTCAAGAAGATAAGGTTTGTAACTTCAACCTGCTCCACTGC-AACTTCAGGGAGACAAAG
1 GTAATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCT-CTCTGCAAAC-TCAGAGAGATAAGG
** * * * *
113710278 CCAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCTATCTTCAATCTACTC
64 TTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTC
* * *
113710343 TATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTACAACTTCAGGAAGATA
129 CATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATA
* * * * *
113710408 AGACCTATATCTTCAACCTGCGCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGCTAAAATCTGC
194 AGACCTGTATCTTCAACCTGCGCTCTTGCAAACTCAGAAAGATAAGGTTAGTGGCTAAAATCTGC
* *
113710473 TCCATAGCTGATACATGGAGATAAGACTTGCCATCTTCTGATCTGCTCCATAGCCAATACATGGA
259 TCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCATAGCCAATACATGGA
113710538 GATAAGATCTGTAATTTTCAGTCTGCTTCCT
324 GATAAGATCTGTAATTTTCAGTCTGCTTCCT
*
113710569 GCAATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTT
1 GTAATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTT
113710634 AGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
66 AGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
* *
113710699 TAACTGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAG
131 TAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAG
* **
113710764 ACCTGTATCTTCAACTTGTTCTC-TGCAAACTCAGAAAGATAAGGTTAGTGGCTAAAATCTGCTC
196 ACCTGTATCTTCAACCTGCGCTCTTGCAAACTCAGAAAGATAAGGTTAGTGGCTAAAATCTGCTC
113710828 CATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCATAGCCAATACATGGAGA
261 CATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCATAGCCAATACATGGAGA
113710893 TAAGATCTGTAATTTTCAGTCTGCTTCCT
326 TAAGATCTGTAATTTTCAGTCTGCTTCCT
* *
113710922 GTAATTTCAGGAAGATAAGACTTGTATCTTTAACTTGCTCTCTGCAAACTCAGAGAGATAAGGTT
1 GTAATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTT
*
113710987 AGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCC
66 AGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTC-GATCTGCTCC
* * *
113711052 ATAGCCGATACATGGAGATAAGATCCGTAATTTTCAGTCTACTTCCTGCAACTTCAGGAAGATAA
130 ATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAA
*
113711117 GACTTGTATCTTCAAC
195 GACCTGTATCTTCAAC
113711133 GATGTCGCTA
Statistics
Matches: 521, Mismatches: 41, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
353 244 0.47
354 241 0.46
355 36 0.07
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (354 bp):
GTAATTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAAACTCAGAGAGATAAGGTT
AGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCA
TAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAG
ACCTGTATCTTCAACCTGCGCTCTTGCAAACTCAGAAAGATAAGGTTAGTGGCTAAAATCTGCTC
CATAGCCGATACATGGAGATAAGACTCGCCATCTTCTGATCTGCTCCATAGCCAATACATGGAGA
TAAGATCTGTAATTTTCAGTCTGCTTCCT
Found at i:113719306 original size:12 final size:12
Alignment explanation
Indices: 113719286--113719339 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
113719276 TCTTAGCTAA
113719286 TTGCTCTTGCAT
1 TTGCTCTTGCAT
*
113719298 TTGCGCTTGCAT
1 TTGCTCTTGCAT
* *
113719310 CTGTTCTTGCAT
1 TTGCTCTTGCAT
*
113719322 TT-CTTTCTGCAT
1 TTGCTCT-TGCAT
113719334 TTGCTC
1 TTGCTC
113719340 CAACTTTTCC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.07, C:0.26, G:0.17, T:0.50
Consensus pattern (12 bp):
TTGCTCTTGCAT
Found at i:113723355 original size:24 final size:23
Alignment explanation
Indices: 113723328--113723372 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
113723318 ATAATCGAAT
113723328 TATACATAAATAAATTTAAAAATA
1 TATACATAAA-AAATTTAAAAATA
* *
113723352 TATATATAAAAAATTTTAAAA
1 TATACATAAAAAATTTAAAAA
113723373 GAGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TATACATAAAAAATTTAAAAATA
Found at i:113723379 original size:28 final size:28
Alignment explanation
Indices: 113723346--113723414 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
113723336 AATAAATTTA
*
113723346 AAAATATATATATAAAAAATTTTAAAAG
1 AAAATATATATATAAAAAATTTGAAAAG
* * * * *
113723374 AGAATATTTACATAACAGATTTGAAAAG
1 AAAATATATATATAAAAAATTTGAAAAG
113723402 AAAATATATATAT
1 AAAATATATATAT
113723415 TAAATAGATT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAATATATATATAAAAAATTTGAAAAG
Found at i:113723438 original size:29 final size:29
Alignment explanation
Indices: 113723390--113723456 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
113723380 TTTACATAAC
* * *
113723390 AGATTTGAAAAGAAAATATATATATTAAAT
1 AGATTT-AAAAGAAAATATAAAAATAAAAT
* *
113723420 AGATTTAAAAGTAACTATAAAAATAAAAT
1 AGATTTAAAAGAAAATATAAAAATAAAAT
*
113723449 AGAATTAA
1 AGATTTAA
113723457 CAATGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (29 bp):
AGATTTAAAAGAAAATATAAAAATAAAAT
Found at i:113723710 original size:13 final size:13
Alignment explanation
Indices: 113723694--113723735 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
113723684 TAAATTAAAG
113723694 AAATAATGAAATA
1 AAATAATGAAATA
*
113723707 AAATAATTAAA-A
1 AAATAATGAAATA
113723719 TAAA-AATGAAATA
1 -AAATAATGAAATA
113723732 AAAT
1 AAAT
113723736 GGACAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAATGAAATA
Found at i:113723714 original size:25 final size:26
Alignment explanation
Indices: 113723681--113723735 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
113723671 GTTAAATGCT
*
113723681 AAATAAATTAAAGA-AATAATGAAATA
1 AAATAAATTAAA-ATAAAAATGAAATA
113723707 AAAT-AATTAAAATAAAAATGAAATA
1 AAATAAATTAAAATAAAAATGAAATA
113723732 AAAT
1 AAAT
113723736 GGACAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 22 0.81
26 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (26 bp):
AAATAAATTAAAATAAAAATGAAATA
Found at i:113725596 original size:13 final size:13
Alignment explanation
Indices: 113725578--113725622 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
113725568 GAGTCATATG
113725578 AAAAAAAATTTCA
1 AAAAAAAATTTCA
113725591 AAAAAAAATTTCCA
1 AAAAAAAATTT-CA
*
113725605 AAAAAAAACTTTTA
1 AAAAAAAA-TTTCA
113725619 AAAA
1 AAAA
113725623 TTATAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.38
14 15 0.52
15 3 0.10
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAAAATTTCA
Found at i:113725597 original size:14 final size:14
Alignment explanation
Indices: 113725578--113725622 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
113725568 GAGTCATATG
113725578 AAAAAAAATTTC-A
1 AAAAAAAATTTCAA
113725591 AAAAAAAATTTCCAA
1 AAAAAAAATTT-CAA
* *
113725606 AAAAAAACTTTTAA
1 AAAAAAAATTTCAA
113725620 AAA
1 AAA
113725623 TTATAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 11 0.39
14 6 0.21
15 11 0.39
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAAAATTTCAA
Found at i:113727917 original size:2 final size:2
Alignment explanation
Indices: 113727912--113727938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
113727902 AAATCTTCTA
113727912 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
113727939 AATTAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113740649 original size:27 final size:26
Alignment explanation
Indices: 113740589--113740650 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
113740579 ATAAGACTCC
113740589 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
113740615 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
113740643 ATTTTATT
1 ATTTTATT
113740651 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:113740673 original size:20 final size:20
Alignment explanation
Indices: 113740645--113740692 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
113740635 ATTTTAGGAT
*
113740645 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
113740664 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
113740684 TTTATCTTT
1 TTTATCTTT
113740693 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:113749030 original size:6 final size:6
Alignment explanation
Indices: 113749019--113749051 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
113749009 GAAATGTGAA
113749019 GCTAAT GCTAAT GCTAAT GCTAAT GCTAAT GCT
1 GCTAAT GCTAAT GCTAAT GCTAAT GCTAAT GCT
113749052 GGCATGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (6 bp):
GCTAAT
Found at i:113760868 original size:20 final size:21
Alignment explanation
Indices: 113760842--113760890 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
113760832 TTCGTGCGAC
113760842 TCATATTAAATTAAATTTAAA
1 TCATATTAAATTAAATTTAAA
** *
113760863 -CATATT-TTTTTAATTTAAA
1 TCATATTAAATTAAATTTAAA
113760882 TCATATTAA
1 TCATATTAA
113760891 TTATATATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
TCATATTAAATTAAATTTAAA
Found at i:113762840 original size:17 final size:17
Alignment explanation
Indices: 113762794--113762840 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
113762784 AAGAATTATA
* *
113762794 ATATTTGTGTGAATTTT
1 ATATTTGTGTTAATTTC
*
113762811 ATCATTT-TTTTAATTTC
1 AT-ATTTGTGTTAATTTC
113762828 ATATTTGTGTTAA
1 ATATTTGTGTTAA
113762841 AAATACCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (17 bp):
ATATTTGTGTTAATTTC
Found at i:113766778 original size:42 final size:41
Alignment explanation
Indices: 113766669--113766810 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 41
113766659 CGATATGTGT
*
113766669 TTTCATGTAAGACCAC-GTCTGAGACATTGGCATCG-ACTTATGA
1 TTTCATGTAAGACC-CTGTCTGGGACA-TGGCATCGTA-TT-TGA
* *
113766712 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGA
1 TTT-CATGTAAGACCCTGTCTGGGACAT-GGCATCGTATTTGA
* *
113766755 TTTCGTGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGA
1 TTTCATGTAAGACCCTGTCTGGGAC-ATGGCATCG-TATTTGA
*
113766798 TTACATGTAAGAC
1 TTTCATGTAAGAC
113766811 TACGTCGGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
42 27 0.31
43 30 0.35
44 28 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (41 bp):
TTTCATGTAAGACCCTGTCTGGGACATGGCATCGTATTTGA
Found at i:113766828 original size:42 final size:43
Alignment explanation
Indices: 113766672--113766829 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 43
113766662 TATGTGTTTT
* *
113766672 CATGTAAGACCACGTCTGAGACATTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTA
* * * *
113766716 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTT
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
* * *
113766758 CGTGTAAGACC-CTGTTTGGGACAATGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* *
113766801 CATGTAAGACTACGTC-GGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACATTGGCAT
113766830 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
42 41 0.44
43 24 0.26
44 29 0.31
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:113771945 original size:10 final size:10
Alignment explanation
Indices: 113771930--113771957 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
113771920 ATAAGGGGAA
113771930 AAAGTAAAAC
1 AAAGTAAAAC
113771940 AAAGTAAAAC
1 AAAGTAAAAC
113771950 AAAGTAAA
1 AAAGTAAA
113771958 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:113772630 original size:24 final size:25
Alignment explanation
Indices: 113772603--113772653 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
113772593 TTTGGCTTGA
*
113772603 CATTTACTAAGCAATATC-GATATT
1 CATTTACTAAGCAATATCAAATATT
* *
113772627 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
113772652 CA
1 CA
113772654 AATTATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:113776627 original size:11 final size:11
Alignment explanation
Indices: 113776613--113776665 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
113776603 ATAAATATTA
113776613 TTTATTAATAT
1 TTTATTAATAT
113776624 TTTATTAATAT
1 TTTATTAATAT
*
113776635 TTTAATAAGATAT
1 TTT-ATTA-ATAT
*
113776648 TTTATTATTAT
1 TTTATTAATAT
113776659 TTTATTA
1 TTTATTA
113776666 GTATATAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 24 0.65
12 6 0.16
13 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:113776671 original size:24 final size:23
Alignment explanation
Indices: 113776579--113776671 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 23
113776569 GAGATATTTT
* *
113776579 GATATTTTATAATTATTTAATTA
1 GATATTTTATTATTATTTTATTA
*
113776602 GATA----AATATTA-TTTATTA
1 GATATTTTATTATTATTTTATTA
* *
113776620 -ATATTTTATTAATATTTTAATAA
1 GATATTTTATTATTATTTT-ATTA
113776643 GATATTTTATTATTATTTTATTA
1 GATATTTTATTATTATTTTATTA
113776666 GTATAT
1 G-ATAT
113776672 AAAGAAAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
17 3 0.06
18 6 0.11
19 5 0.09
21 5 0.09
22 3 0.06
23 11 0.20
24 21 0.39
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
GATATTTTATTATTATTTTATTA
Found at i:113778458 original size:46 final size:46
Alignment explanation
Indices: 113778399--113778570 Score: 254
Period size: 46 Copynumber: 3.7 Consensus size: 46
113778389 ATGAAATATG
*
113778399 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
113778445 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
113778491 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * * *
113778537 TAAGACTATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
113778571 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:113781501 original size:21 final size:21
Alignment explanation
Indices: 113781462--113781530 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 21
113781452 ATTTAATTAG
113781462 ATAAATA-TTATTATAATATTTT
1 ATAAATATTTA-T-TAATATTTT
113781484 ATAAATATTTATTAATATTTT
1 ATAAATATTTATTAATATTTT
*
113781505 AATAAGATATTTTATTATTATTTT
1 -ATAA-ATA-TTTATTAATATTTT
113781529 AT
1 AT
113781531 TAGTATATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 9 0.21
22 12 0.29
23 8 0.19
24 13 0.31
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
ATAAATATTTATTAATATTTT
Found at i:113781505 original size:11 final size:11
Alignment explanation
Indices: 113781465--113781532 Score: 68
Period size: 11 Copynumber: 6.1 Consensus size: 11
113781455 TAATTAGATA
113781465 AATATTATTA-T
1 AATATT-TTATT
*
113781476 AATATTTTATA
1 AATATTTTATT
113781487 AATA-TTTATT
1 AATATTTTATT
*
113781497 AATATTTTAATA
1 AATATTTT-ATT
113781509 AGATATTTTATT
1 A-ATATTTTATT
*
113781521 ATTATTTTATT
1 AATATTTTATT
113781532 A
1 A
113781533 GTATATAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
10 12 0.25
11 23 0.48
12 6 0.12
13 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (11 bp):
AATATTTTATT
Found at i:113783309 original size:46 final size:46
Alignment explanation
Indices: 113783257--113783576 Score: 371
Period size: 46 Copynumber: 7.0 Consensus size: 46
113783247 GCTTTCTAAA
*
113783257 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
113783303 ATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGAT
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
113783349 ATGCAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
113783395 GGGAAATGA-ATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
113783441 ATGAAATGA-ATAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
113783487 ATGAAATGA-ATAAGATCATGGTTGAAAGATACCATGGCAAAATGAC
1 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
113783533 A-GAAA-ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATAT--GTAAGACCATGGTTGAAAGATACCATGGCAACATG
113783577 TCAAAGATAA
Statistics
Matches: 243, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
43 1 0.00
45 4 0.02
46 238 0.98
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:113783422 original size:92 final size:92
Alignment explanation
Indices: 113783257--113783576 Score: 428
Period size: 92 Copynumber: 3.5 Consensus size: 92
113783247 GCTTTCTAAA
* **
113783257 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCA
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCA
* *
113783321 TGGTTGAAAGATACCGTGGCAACATGAT
65 TGGTTGAAAGATACCATGGCAACATGAC
* * **
113783349 ATGCAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
* *
113783414 GGTTGAAAGATACCATGGCAGCGTGAC
66 GGTTGAAAGATACCATGGCAACATGAC
* * * *
113783441 ATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGATCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
*
113783506 GGTTGAAAGATACCATGGCAAAATGAC
66 GGTTGAAAGATACCATGGCAACATGAC
* * * *
113783533 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
113783577 TCAAAGATAA
Statistics
Matches: 197, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
91 1 0.01
92 196 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:113783507 original size:138 final size:138
Alignment explanation
Indices: 113783267--113783576 Score: 431
Period size: 138 Copynumber: 2.2 Consensus size: 138
113783257 ATGAAATATG
* ** *
113783267 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACAATGGTTGAAAGA
* * * ** * *
113783332 TACCGTGGCAACATGATATGCAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGACAG
*
113783397 GAAATGAA
131 AAAATGAA
* *
113783405 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACAATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACAATGGTTGAAAGA
* *
113783470 TACCATGGCAACGTGACATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAAATGACAG
66 TACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGACAG
*
113783535 AAAATGAG
131 AAAATGAA
* * * *
113783543 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
113783577 TCAAAGATAA
Statistics
Matches: 150, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 150 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACAATGGTTGAAAGA
TACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAAATGACAG
AAAATGAA
Found at i:113785784 original size:46 final size:46
Alignment explanation
Indices: 113785734--113785909 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113785724 TGGTTGAGCA
113785734 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113785780 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113785825 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113785873 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113785910 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113785890 original size:93 final size:93
Alignment explanation
Indices: 113785731--113785902 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113785721 GGATGGTTGA
* *
113785731 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113785796 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
113785824 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113785889 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
113785903 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113793152 original size:46 final size:46
Alignment explanation
Indices: 113793102--113793277 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113793092 TGGTTGAGCA
113793102 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113793148 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113793193 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113793241 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113793278 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113793258 original size:93 final size:93
Alignment explanation
Indices: 113793099--113793270 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113793089 GGATGGTTGA
* *
113793099 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113793164 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
113793192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113793257 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
113793271 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113811529 original size:19 final size:17
Alignment explanation
Indices: 113811503--113811561 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
113811493 CTATATAATA
113811503 TTTTAGTTTTCTTCTAT
1 TTTTAGTTTTCTTCTAT
*
113811520 TTTTAAAG-TTTCTATATAAT
1 TTTT--AGTTTTCT-TCT-AT
113811540 ATTTTAGTTTTCTTCTAT
1 -TTTTAGTTTTCTTCTAT
113811558 TTTT
1 TTTT
113811562 TTGGTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
17 8 0.24
18 7 0.21
19 8 0.24
20 7 0.21
21 4 0.12
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTTAGTTTTCTTCTAT
Found at i:113811535 original size:38 final size:38
Alignment explanation
Indices: 113811484--113811561 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
113811474 TTTGGTCTTG
113811484 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
1 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
113811522 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
1 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
113811560 TT
1 TT
113811562 TTGGTAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (38 bp):
TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
Found at i:113811563 original size:19 final size:19
Alignment explanation
Indices: 113811503--113811563 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
113811493 CTATATAATA
113811503 TTTTAGTTTTCTTCTATTT
1 TTTTAGTTTTCTTCTATTT
** * * *
113811522 TTAAAG-TTTCTATATAATA
1 TTTTAGTTTTCT-TCTATTT
113811541 TTTTAGTTTTCTTCTATTT
1 TTTTAGTTTTCTTCTATTT
113811560 TTTT
1 TTTT
113811564 GGTAAAAAGT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 5 0.17
19 20 0.67
20 5 0.17
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTAGTTTTCTTCTATTT
Found at i:113812163 original size:6 final size:6
Alignment explanation
Indices: 113812152--113812178 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
113812142 TCTGCATTGC
113812152 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
113812179 TGGTTTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:113815740 original size:24 final size:24
Alignment explanation
Indices: 113815712--113815758 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
113815702 AATATCAACT
* *
113815712 ATTCACTATATCAGCATCGAATCA
1 ATTCACTATATCAACATAGAATCA
*
113815736 ATTCATTATATCAACATAGAATC
1 ATTCACTATATCAACATAGAATC
113815759 GGTCCATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (24 bp):
ATTCACTATATCAACATAGAATCA
Found at i:113825660 original size:27 final size:27
Alignment explanation
Indices: 113825622--113825687 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
113825612 CGCTTAGGAA
113825622 AGAGGCGGCACCGGTGGAGGGGATGTC
1 AGAGGCGGCACCGGTGGAGGGGATGTC
* * *
113825649 AGAGGCAGCACCGGTGGAGGGGCTGTT
1 AGAGGCGGCACCGGTGGAGGGGATGTC
113825676 AGAGGCGGCACC
1 AGAGGCGGCACC
113825688 CACTTTGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.21, G:0.48, T:0.11
Consensus pattern (27 bp):
AGAGGCGGCACCGGTGGAGGGGATGTC
Found at i:113825905 original size:14 final size:14
Alignment explanation
Indices: 113825873--113825939 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
113825863 AAGGAAAGGG
113825873 AAAAAGA-AAGAAA
1 AAAAAGAGAAGAAA
*
113825886 AAAAAGAGAAGAGA
1 AAAAAGAGAAGAAA
* * *
113825900 ATAAAGAGAGGGAAGG
1 AAAAAGAGA-AGAA-A
*
113825916 AGAAAGAGAAGAAA
1 AAAAAGAGAAGAAA
*
113825930 AAAAATAGAA
1 AAAAAGAGAA
113825940 AAGAAAATGT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
13 7 0.17
14 21 0.51
15 5 0.12
16 8 0.20
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (14 bp):
AAAAAGAGAAGAAA
Found at i:113826102 original size:17 final size:17
Alignment explanation
Indices: 113826080--113826113 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
113826070 GTTATTAAGG
*
113826080 TATATTTGTATTTATTT
1 TATATTTGTATTCATTT
*
113826097 TATATTTTTATTCATTT
1 TATATTTGTATTCATTT
113826114 ATAATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TATATTTGTATTCATTT
Found at i:113829529 original size:20 final size:20
Alignment explanation
Indices: 113829506--113829544 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
113829496 ACATTTTACT
113829506 TTCAATTGTATAAACAGTAA
1 TTCAATTGTATAAACAGTAA
*
113829526 TTCATTTGTATAAACAGTA
1 TTCAATTGTATAAACAGTA
113829545 CTATACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCAATTGTATAAACAGTAA
Found at i:113829754 original size:23 final size:23
Alignment explanation
Indices: 113829706--113829791 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
113829696 ATGGACAGTT
** *
113829706 AGCTCTAACGAGCTGAAACGGCA
1 AGCTCTAACGAGCTGAAATAGTA
113829729 AGCTCTAACGAGCTGAAATAGTA
1 AGCTCTAACGAGCTGAAATAGTA
113829752 AGCTC-ATACGAGCTGAGAATAGTA
1 AGCTCTA-ACGAGCTGA-AATAGTA
* *
113829776 AGCTCTTACAAGCTGA
1 AGCTCTAACGAGCTGA
113829792 TATATCGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 34 0.62
24 20 0.36
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (23 bp):
AGCTCTAACGAGCTGAAATAGTA
Found at i:113829777 original size:24 final size:24
Alignment explanation
Indices: 113829739--113829819 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 24
113829729 AGCTCTAACG
*
113829739 AGCTGA-AATAGTAAGCTCATACG
1 AGCTGAGAATAGTAAGCTCATACA
*
113829762 AGCTGAGAATAGTAAGCTCTTACA
1 AGCTGAGAATAGTAAGCTCATACA
* *
113829786 AGCTGATATATCGGTAAGCTCATACA
1 AGCTGAGA-AT-AGTAAGCTCATACA
*
113829812 ATCTGAGA
1 AGCTGAGA
113829820 TGATTCCACA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 6 0.12
24 22 0.46
25 2 0.04
26 18 0.38
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
AGCTGAGAATAGTAAGCTCATACA
Found at i:113831131 original size:41 final size:42
Alignment explanation
Indices: 113831072--113831166 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
113831062 GCGAATTGGA
*
113831072 ATAGCTTCGACTTTA-TG-TGGCACTAAGTGTGCAATACCGAG
1 ATAGCTTCG-GTTTAGTGATGGCACTAAGTGTGCAATACCGAG
* **
113831113 ATAGCTTCGGTTTAATGTGATGGCACTAAGTGTGCAATATCGTT
1 ATAGCTTCGGTTT-A-GTGATGGCACTAAGTGTGCAATACCGAG
113831157 ATAGCTTCGG
1 ATAGCTTCGG
113831167 CTAATCATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 3 0.07
41 10 0.22
43 2 0.04
44 31 0.67
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
ATAGCTTCGGTTTAGTGATGGCACTAAGTGTGCAATACCGAG
Found at i:113833739 original size:43 final size:43
Alignment explanation
Indices: 113833691--113834077 Score: 571
Period size: 43 Copynumber: 9.0 Consensus size: 43
113833681 ATGGTTAAAA
* * *
113833691 CGATATGTGACTACGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
113833734 CGATATGTGATTATGTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
113833777 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
113833820 CGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
113833863 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
113833906 CGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
113833949 CGATATGTGATTATGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
113833992 CGATATGTGATAATGTATAAGACC-CTGTTTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * * * *
113834035 CGATTTGTGACTACATGTAAAACCATGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
113834078 TGTACGATAT
Statistics
Matches: 312, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
42 2 0.01
43 309 0.99
44 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:113834764 original size:2 final size:2
Alignment explanation
Indices: 113834757--113834788 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
113834747 TAGTGAATTA
113834757 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
113834789 TATGTCCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113836196 original size:2 final size:2
Alignment explanation
Indices: 113836189--113836226 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
113836179 TCGAGTAAAT
*
113836189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113836227 ATTATTTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:113836964 original size:30 final size:30
Alignment explanation
Indices: 113836906--113836964 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
113836896 ATTTTTGGGC
* **
113836906 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
113836936 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
113836965 ACATAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:113837358 original size:46 final size:47
Alignment explanation
Indices: 113837305--113837478 Score: 141
Period size: 46 Copynumber: 3.8 Consensus size: 47
113837295 ATTGTGAGCT
113837305 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATTATGA-GAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACATTA-GACGAGTC
* * * * * *
113837351 AGTGTAAGACCATGTTTGGGACCTGGCATAGG--TATTGAGACGGGTGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACATT-AGACGAGT-C
** * *
113837398 TAGTGTAAGA-CATGTCTAGGACAT-GCATC-G-ACTACGAGATGTGTC
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-ATTAGACGAGTC
113837443 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACA
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACA
113837479 GATATGCTAG
Statistics
Matches: 101, Mismatches: 15, Indels: 23
0.73 0.11 0.17
Matches are distributed among these distances:
44 9 0.09
45 21 0.21
46 28 0.28
47 26 0.26
48 17 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACATTAGACGAGTC
Found at i:113839057 original size:26 final size:27
Alignment explanation
Indices: 113839021--113839073 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
113839011 TGTCAGCTAA
* *
113839021 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
113839047 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
113839074 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:113840407 original size:48 final size:48
Alignment explanation
Indices: 113840345--113840490 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
113840335 GATGTACAAT
*
113840345 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
113840393 ATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** ** * * *
113840441 CCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
113840489 AT
1 AT
113840491 GTGTATATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:113841486 original size:16 final size:16
Alignment explanation
Indices: 113841465--113841498 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
113841455 TGGATTATCT
113841465 TATGGCATGTATAGAA
1 TATGGCATGTATAGAA
113841481 TATGGCATGTATAGAA
1 TATGGCATGTATAGAA
113841497 TA
1 TA
113841499 GACTAGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (16 bp):
TATGGCATGTATAGAA
Found at i:113843967 original size:27 final size:27
Alignment explanation
Indices: 113843910--113843977 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
113843900 ATAATAGTCT
* ***
113843910 ATTTCTAACAATATCAAATTTATTGGC
1 ATTTCTAACAATATCAAATATATTAAA
*
113843937 ATTTCTAATAATATCAAATATATTAAA
1 ATTTCTAACAATATCAAATATATTAAA
* *
113843964 ATTTTTTACAATAT
1 ATTTCTAACAATAT
113843978 AACATTCTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (27 bp):
ATTTCTAACAATATCAAATATATTAAA
Found at i:113844773 original size:20 final size:20
Alignment explanation
Indices: 113844750--113844791 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
113844740 TAATTAGAAT
113844750 ATTATTCAA-ATATGGAAAGA
1 ATTATT-AATATATGGAAAGA
*
113844770 ATTATTAATATTTGGAAAGA
1 ATTATTAATATATGGAAAGA
113844790 AT
1 AT
113844792 CAATATACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATTATTAATATATGGAAAGA
Found at i:113845966 original size:32 final size:31
Alignment explanation
Indices: 113845924--113846032 Score: 130
Period size: 32 Copynumber: 3.5 Consensus size: 31
113845914 AATGACCTGC
113845924 CCTGCATGCTGCCCGAACAGTCCTCCTTGCAG
1 CCTGCATGCTGCCCGAACAGTCCTCC-TGCAG
* * * *
113845956 CCTGCCTGCTGTCCGAATAGTTCTCCCTGCA-
1 CCTGCATGCTGCCCGAACAGTCCT-CCTGCAG
*
113845987 CCTGCATACTGCCCGAACAGTCCTCCTGCAG
1 CCTGCATGCTGCCCGAACAGTCCTCCTGCAG
*
113846018 CCTACATGCATGCCC
1 CCTGCATGC-TGCCC
113846033 CCTACTCAGC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
30 6 0.10
31 26 0.41
32 29 0.46
33 2 0.03
ACGTcount: A:0.17, C:0.41, G:0.19, T:0.23
Consensus pattern (31 bp):
CCTGCATGCTGCCCGAACAGTCCTCCTGCAG
Found at i:113846173 original size:9 final size:10
Alignment explanation
Indices: 113846154--113846204 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
113846144 GAAAGAGGGA
113846154 AAGAAAAGAG
1 AAGAAAAGAG
*
113846164 -AGAAAGGAG
1 AAGAAAAGAG
*
113846173 AAGAAAAAAGG
1 AAGAAAAGA-G
113846184 AAGAAGAAGAG
1 AAGAA-AAGAG
113846195 AAGAATAAGA
1 AAGAA-AAGA
113846205 AGGGGAGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 8 0.24
10 6 0.18
11 16 0.48
12 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (10 bp):
AAGAAAAGAG
Found at i:113846204 original size:14 final size:14
Alignment explanation
Indices: 113846154--113846226 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
113846144 GAAAGAGGGA
113846154 AAGAA-AAG-AGAG
1 AAGAAGAAGAAGAG
* *
113846166 AAAGGAGAAGAA-AA
1 -AAGAAGAAGAAGAG
113846180 AAGGAAGAAGAAGAG
1 AA-GAAGAAGAAGAG
* *
113846195 AAGAATAAGAAGGG
1 AAGAAGAAGAAGAG
*
113846209 GAGAAGAAGAAGA-
1 AAGAAGAAGAAGAG
113846222 AAGAA
1 AAGAA
113846227 AAAAGAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 10 0.22
14 32 0.70
15 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (14 bp):
AAGAAGAAGAAGAG
Found at i:113846204 original size:17 final size:17
Alignment explanation
Indices: 113846183--113846222 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
113846173 AAGAAAAAAG
113846183 GAAGAAGAAGAGAAGAA
1 GAAGAAGAAGAGAAGAA
* **
113846200 TAAGAAGGGGAGAAGAA
1 GAAGAAGAAGAGAAGAA
113846217 GAAGAA
1 GAAGAA
113846223 AGAAAAAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.03
Consensus pattern (17 bp):
GAAGAAGAAGAGAAGAA
Found at i:113846390 original size:33 final size:32
Alignment explanation
Indices: 113846353--113846448 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 32
113846343 GTTTTTTATA
113846353 ATTATTTTAAAAATAATTTGTTTGTAATTTAGG
1 ATTATTTTAAAAATAATTT-TTTGTAATTTAGG
*
113846386 ATTATGTT-AAAAT--TTTTTGTGT--TTGTA--
1 ATTATTTTAAAAATAATTTTT-TGTAATT-TAGG
* *
113846413 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATTTTAAAAATAATTT-TTTGTAATTTAGG
113846446 ATT
1 ATT
113846449 GAGTTATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
27 7 0.14
28 6 0.12
29 4 0.08
30 11 0.22
31 4 0.08
32 7 0.14
33 10 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
ATTATTTTAAAAATAATTTTTTGTAATTTAGG
Found at i:113846418 original size:60 final size:61
Alignment explanation
Indices: 113846337--113846470 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 61
113846327 GAATGTAATT
* * *
113846337 TTTTTTGTTTTTTATAATTATTTTAAAAATAATTTGTTTGTAATTTAGGATT-ATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTGA-GTTATAAA
* *
113846398 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTGAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTGAGTTATAAA
*
113846459 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
113846471 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 53 0.83
61 11 0.17
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.57
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTGAGTTATAAA
Found at i:113849071 original size:33 final size:33
Alignment explanation
Indices: 113849034--113849115 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
113849024 ATCTACCTCA
* * * * * *
113849034 GTACTCCGCTCCTTCTGGCCCGTATCAATTGTC
1 GTACTCCACTCCTCCCGACCCGTATCAATCGCC
*
113849067 GTACTTCACTCCTCCCGACCCGTATCAATCGCC
1 GTACTCCACTCCTCCCGACCCGTATCAATCGCC
113849100 GTACTCCACTCCTCCC
1 GTACTCCACTCCTCCC
113849116 AGCTCAAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.15, C:0.44, G:0.13, T:0.28
Consensus pattern (33 bp):
GTACTCCACTCCTCCCGACCCGTATCAATCGCC
Found at i:113852628 original size:27 final size:27
Alignment explanation
Indices: 113852586--113852638 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
113852576 TGGGCCCTAC
113852586 CATTTGCGCCTATGAGATAGGCACAAT
1 CATTTGCGCCTATGAGATAGGCACAAT
*
113852613 CATTTGCGCCTCTGAGATAGGCACAA
1 CATTTGCGCCTATGAGATAGGCACAA
113852639 CCTCTGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (27 bp):
CATTTGCGCCTATGAGATAGGCACAAT
Found at i:113852667 original size:45 final size:45
Alignment explanation
Indices: 113852598--113852686 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
113852588 TTTGCGCCTA
* * * *
113852598 TGAGATAGGCACAATCATTTGCGCCTCTGAGATAGGCACAACCTC
1 TGAGAAAGGCACAATCAGTCGCGCCTCTCAGATAGGCACAACCTC
* * *
113852643 TGAGAAAGGCTCAATCAGTCGCGCCTCTCAGGTAGGCGCAACCT
1 TGAGAAAGGCACAATCAGTCGCGCCTCTCAGATAGGCACAACCT
113852687 GTATTTTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (45 bp):
TGAGAAAGGCACAATCAGTCGCGCCTCTCAGATAGGCACAACCTC
Found at i:113859378 original size:13 final size:13
Alignment explanation
Indices: 113859360--113859423 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
113859350 TGTTTGGCAA
113859360 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
113859373 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* * *
113859386 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
**
113859399 TGCTTTTGAGGAG
1 TGCTTTTGAAAAG
*
113859412 TACTTTTGAAAA
1 TGCTTTTGAAAA
113859424 TTTTAGGTGT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:113861258 original size:2 final size:2
Alignment explanation
Indices: 113861251--113861281 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113861241 CTATACTCCT
113861251 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
113861282 TATATCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:113867526 original size:6 final size:6
Alignment explanation
Indices: 113867515--113867550 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
113867505 ATTATATCTC
*
113867515 TAATTA TAATTA TAATTA TAATTA TAATCA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
113867551 ATATGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATTA
Found at i:113868485 original size:77 final size:77
Alignment explanation
Indices: 113868394--113868548 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
113868384 TTCACGCAAC
* * * *
113868394 TCCACAAGTATGAAACAGAGTTTAAAGGTGGAAGAATGAACAATATTTGAGGAGCAATATCAAAA
1 TCCACAAGTATGAAACAAAGTATAAAGGCGGAAGAATGAACAATATTTCAGGAGCAATATCAAAA
113868459 TTATTTTGAAGA
66 TTATTTTGAAGA
* *
113868471 TCCACAAGTATGAAACAAAGTATAAAGGCGGAAGAATGAACAATATTTCAGGAGGAATATCGAAA
1 TCCACAAGTATGAAACAAAGTATAAAGGCGGAAGAATGAACAATATTTCAGGAGCAATATCAAAA
*
113868536 TTATTTTTAAGA
66 TTATTTTGAAGA
113868548 T
1 T
113868549 GAATGATAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.26
Consensus pattern (77 bp):
TCCACAAGTATGAAACAAAGTATAAAGGCGGAAGAATGAACAATATTTCAGGAGCAATATCAAAA
TTATTTTGAAGA
Found at i:113869030 original size:26 final size:26
Alignment explanation
Indices: 113869001--113869051 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
113868991 TAAAAACTTA
*
113869001 AATTTAATTATATTTAATACAATTGG
1 AATTTAATTATAATTAATACAATTGG
* * *
113869027 AATTTATTTTTAATTAATACTATTG
1 AATTTAATTATAATTAATACAATTG
113869052 TTATTTGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (26 bp):
AATTTAATTATAATTAATACAATTGG
Found at i:113869679 original size:126 final size:126
Alignment explanation
Indices: 113869454--113869681 Score: 361
Period size: 126 Copynumber: 1.8 Consensus size: 126
113869444 AGGTAATAAA
* *
113869454 ATGATTTTAACATTTTATATATTTATTTTTTAAAACATATGTTTTAATAAAATAAACATGTATGG
1 ATGATTTTAACATTTTACATATTTATTTATTAAAACATATGTTTTAATAAAATAAACATGTATGG
113869519 AATCTTTATCACAACAAAGAGTTATAATATTAAATATATTTTTAGATTAAAACAATTACAT
66 AATCTTTATCACAACAAAGAGTTATAATATTAAATATATTTTTAGATTAAAACAATTACAT
** *
113869580 ATGATTTTAACATTTTACATATTTATTTATT-AAATTTATGTTTTAATATAGA-AAACATGTATG
1 ATGATTTTAACATTTTACATATTTATTTATTAAAACATATGTTTTAATA-AAATAAACATGTATG
**
113869643 GAATCTTTATCACCGGCAAAGAGTTATAATATTAAATAT
65 GAATCTTTATCA-CAACAAAGAGTTATAATATTAAATAT
113869682 TTTGGTAAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
125 38 0.41
126 55 0.59
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (126 bp):
ATGATTTTAACATTTTACATATTTATTTATTAAAACATATGTTTTAATAAAATAAACATGTATGG
AATCTTTATCACAACAAAGAGTTATAATATTAAATATATTTTTAGATTAAAACAATTACAT
Found at i:113869939 original size:25 final size:24
Alignment explanation
Indices: 113869906--113869952 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
113869896 TTTTCAGCAA
113869906 TTTAATTCTTTTCTTTTACATTCT
1 TTTAATTCTTTTCTTTTACATTCT
* *
113869930 TTTAACTTCTTTTTTTTTCCATT
1 TTTAA-TTCTTTTCTTTTACATT
113869953 TTCTTTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTAATTCTTTTCTTTTACATTCT
Found at i:113870076 original size:14 final size:14
Alignment explanation
Indices: 113870059--113870088 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113870049 TTTTGAACAA
*
113870059 TTTTATTTTTTTAT
1 TTTTATTTATTTAT
113870073 TTTTATTTATTTAT
1 TTTTATTTATTTAT
113870087 TT
1 TT
113870089 GTTAAAGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:113870777 original size:35 final size:36
Alignment explanation
Indices: 113870721--113870799 Score: 142
Period size: 35 Copynumber: 2.2 Consensus size: 36
113870711 AAAAGAAGTT
113870721 AAAAAACATAAAAGAAAAAATTAAATTACTCAAAACG
1 AAAAAA-ATAAAAGAAAAAATTAAATTACTCAAAACG
113870758 AAAAAAAT-AAAGAAAAAATTAAATTACTCAAAACG
1 AAAAAAATAAAAGAAAAAATTAAATTACTCAAAACG
113870793 AAAAAAA
1 AAAAAAA
113870800 ATATAGGGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 34 0.81
36 2 0.05
37 6 0.14
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.15
Consensus pattern (36 bp):
AAAAAAATAAAAGAAAAAATTAAATTACTCAAAACG
Found at i:113872306 original size:5 final size:5
Alignment explanation
Indices: 113872271--113872337 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
113872261 ATATACATTG
* * *
113872271 TAATA T-ATA TAA-A AAATA TGAATA TAGTA TAATA T-ATG TAATA TAATA
1 TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA TAATA TAATA
113872319 TAATA -ATATAA TAATA TAA
1 TAATA TA-AT-A TAATA TAA
113872338 CATTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 11 0.22
5 29 0.59
6 8 0.16
7 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:113872313 original size:19 final size:18
Alignment explanation
Indices: 113872272--113872323 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
113872262 TATACATTGT
* *
113872272 AATATATATAAAAAATATG
1 AATATA-ATATAATATATG
*
113872291 AATATAGTATAATATATG
1 AATATAATATAATATATG
113872309 TAATATAATATAATA
1 -AATATAATATAATA
113872324 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATATAATATAATATATG
Found at i:113872326 original size:8 final size:8
Alignment explanation
Indices: 113872313--113872337 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
113872303 TATATGTAAT
113872313 ATAATATA
1 ATAATATA
113872321 ATAATATA
1 ATAATATA
113872329 ATAATATA
1 ATAATATA
113872337 A
1 A
113872338 CATTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:113872328 original size:27 final size:29
Alignment explanation
Indices: 113872271--113872337 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
113872261 ATATACATTG
113872271 TAATATATATAAAAAATATGAATATAGTA
1 TAATATATATAAAAAATATGAATATAGTA
* *
113872300 TAATATATGTAATATAATAT-AATA-A-TA
1 TAATATATATAA-AAAATATGAATATAGTA
113872327 TAATA-ATATAA
1 TAATATATATAA
113872338 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.15
27 7 0.21
28 1 0.03
29 15 0.44
30 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (29 bp):
TAATATATATAAAAAATATGAATATAGTA
Found at i:113877044 original size:127 final size:127
Alignment explanation
Indices: 113876902--113877226 Score: 445
Period size: 128 Copynumber: 2.5 Consensus size: 127
113876892 GTCCAACAAA
* **
113876902 AAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAACTTCCAAACATTGAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGATAGGGCACGATT-CTCGAATTTCCAAACATCAAACATTGCCTTGTT
* * * * * *
113876967 TTAGAATTTA-AAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATAAACGAG
65 TTAAAATTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAG
* * *
113877029 AAATCGAAACCCAGCACGATAGGGCACGGTTCTCCAAATTTCCAAGCATCAAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCT-CGAATTTCCAAACATCAAACATTGCCTTGTT
* * * * *
113877094 TAAAAATTTAGAAAAACACGAGTGAAATTCTAAAGGAAGGTTCGATTATTTTGAACAAATGGG
65 TTAAAATTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAG
*
113877157 AAATCGAAACCCAGCACGATAGGGCACGATTTCTCGAATTTTCAAACATCAAACATTGCCTTCGT
1 AAATCGAAACCCAGCACGATAGGGCACGA-TTCTCGAATTTCCAAACATCAAACATTGCCTT-GT
113877222 TTTAA
64 TTTAA
113877227 GGAATTTTTA
Statistics
Matches: 172, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
126 2 0.01
127 64 0.37
128 96 0.56
129 10 0.06
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTCTCGAATTTCCAAACATCAAACATTGCCTTGTTT
TAAAATTTAGAAAAACACGAATGAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAG
Found at i:113878305 original size:29 final size:29
Alignment explanation
Indices: 113878280--113878341 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
113878270 AGGAAACACT
* *
113878280 TATATATATAT-AATAGATTTA-AAAACA
1 TATATATACATAAATAAATTTAGAAAACA
113878307 TATATATACATAAATAAATTTAGAAAA-A
1 TATATATACATAAATAAATTTAGAAAACA
*
113878335 AATATAT
1 TATATAT
113878342 GCGAGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 10 0.33
28 16 0.53
29 4 0.13
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
TATATATACATAAATAAATTTAGAAAACA
Found at i:113879670 original size:18 final size:18
Alignment explanation
Indices: 113879634--113879671 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
113879624 GCTTCATTTC
*
113879634 TGCTCTATTTTGCCTTTT
1 TGCTCTATTGTGCCTTTT
113879652 TGCTCTATTGT-CCTCTTT
1 TGCTCTATTGTGCCT-TTT
113879670 TG
1 TG
113879672 TTTTCCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.05, C:0.24, G:0.13, T:0.58
Consensus pattern (18 bp):
TGCTCTATTGTGCCTTTT
Found at i:113880641 original size:21 final size:20
Alignment explanation
Indices: 113880615--113880653 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
113880605 AACCCATTAA
113880615 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
113880636 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
113880654 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:113895102 original size:74 final size:69
Alignment explanation
Indices: 113894975--113895231 Score: 253
Period size: 74 Copynumber: 3.6 Consensus size: 69
113894965 ATTATAGAAA
*
113894975 TGAGTTGAGCCTCAAGTCACGCGCTGAGGTATTTTTAATTTTATGTTTCAAAAAATTGACTCATA
1 TGAGTTGAGCCTCAGGTCA--CGCTGAGGTA-TTTTAATTTTATGTTT-AAAAAA-T-ACTCATA
113895040 TTGCGAGAGG
60 TTGCGAGAGG
** *
113895050 TGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTTTTGTTTAAAAAAATCAGCTCATAT
1 TGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTAATT--TTATGTTT-AAAAAAT-A-CTCATAT
*
113895115 TGCGAGGGG
61 TGCGAGAGG
* ** * * * * * *
113895124 TGAGTTGAGCTTTGGGGCACACTGAGGTATTTTTAGTTTATGTTTAGAAAATACTCATATTGCAA
1 TGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTAATTTTATGTTTAAAAAATACTCATATTGCGA
113895189 GAGG
66 GAGG
* * *
113895193 TGAGTTGAGCCTCAGGACACGCTGTGGTAATTTCAATTT
1 TGAGTTGAGCCTCAGGTCACGCTGAGGT-ATTTTAATTT
113895232 CTGTTGTCAA
Statistics
Matches: 149, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
69 36 0.24
70 8 0.05
71 6 0.04
72 15 0.10
73 12 0.08
74 56 0.38
75 16 0.11
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (69 bp):
TGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTAATTTTATGTTTAAAAAATACTCATATTGCGA
GAGG
Found at i:113895199 original size:69 final size:71
Alignment explanation
Indices: 113894925--113895208 Score: 232
Period size: 74 Copynumber: 3.9 Consensus size: 71
113894915 TTTGGGTACT
* * * ** ** **
113894925 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATT-ATAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTATTTTATGTTTAAAAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
113894989 AGTCACGCG
65 GGGCA--CA
* * **
113894998 CTGAGGTATTTTTAATTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTT-ATTTTATGTTT-AAAAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
113895063 AGGTCACG
64 AGGGCACA
* * * *
113895071 CTGAGGTATTTTAATTCCTTTTGTTTAAAAAAATCAGCTCATATTGCGAGGGGTGAGTTGAGCTT
1 CTGAGGTATTTTTATT--TTATGTTTAAAAAAATCA-CTCATATTGCGAGAGGTGAGTTGAGCCT
**
113895136 TGGGGCACA
63 CAGGGCACA
* * *
113895145 CTGAGGTATTTTTAGTTTATGTTT-AGAAAAT-ACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
1 CTGAGGTATTTTTATTTTATGTTTAAAAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
113895208 G
66 G
113895209 ACACGCTGTG
Statistics
Matches: 170, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
69 27 0.16
70 1 0.01
71 6 0.04
72 10 0.06
73 34 0.20
74 68 0.40
75 24 0.14
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (71 bp):
CTGAGGTATTTTTATTTTATGTTTAAAAAAATCACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GGCACA
Found at i:113895708 original size:23 final size:23
Alignment explanation
Indices: 113895678--113895732 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
113895668 GAGCAGGTCA
113895678 AAGTTGCAAGTTTTGACTCCCTG
1 AAGTTGCAAGTTTTGACTCCCTG
113895701 AAGTTGCAAGTTTTGACTCCCTG
1 AAGTTGCAAGTTTTGACTCCCTG
113895724 AAGTTGCAA
1 AAGTTGCAA
113895733 TGGAGTCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (23 bp):
AAGTTGCAAGTTTTGACTCCCTG
Found at i:113896266 original size:21 final size:20
Alignment explanation
Indices: 113896240--113896278 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
113896230 AACCCATTAA
113896240 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
113896261 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
113896279 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:113897574 original size:26 final size:25
Alignment explanation
Indices: 113897517--113897577 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
113897507 ATTCTTATTT
* *
113897517 TATTTTTATATCATTATATTTTATC
1 TATTTTTATATCATTATATTATATA
* *
113897542 CACTTTTTATATTATTATTATTATATA
1 TA-TTTTTATATCATTA-TATTATATA
113897569 TATTTTTAT
1 TATTTTTAT
113897578 TACTATGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.03
26 20 0.69
27 8 0.28
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTTTATATCATTATATTATATA
Found at i:113901671 original size:13 final size:13
Alignment explanation
Indices: 113901653--113901678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113901643 ATAGCTATCT
113901653 CTACTCTACTCTA
1 CTACTCTACTCTA
113901666 CTACTCTACTCTA
1 CTACTCTACTCTA
113901679 ATCTATTGCA
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:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CTACTCTACTCTA
Found at i:113906999 original size:9 final size:8
Alignment explanation
Indices: 113906982--113907014 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
113906972 AAATTCTTTA
113906982 TTTAATTT
1 TTTAATTT
113906990 TTTAATTTT
1 TTTAA-TTT
113906999 TTTAATTT
1 TTTAATTT
113907007 TTTAATTT
1 TTTAATTT
113907015 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTAATTT
Found at i:113907004 original size:17 final size:17
Alignment explanation
Indices: 113906982--113907014 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
113906972 AAATTCTTTA
113906982 TTTAATTTTTTAATTTT
1 TTTAATTTTTTAATTTT
113906999 TTTAATTTTTTAATTT
1 TTTAATTTTTTAATTT
113907015 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTAATTTTTTAATTTT
Found at i:113907015 original size:30 final size:31
Alignment explanation
Indices: 113906963--113907023 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
113906953 TTTATAAAAA
113906963 AATTATTTTAAATTCTTTATTTA-ATTTTTT
1 AATTATTTTAAATTCTTTATTTATATTTTTT
* *
113906993 AATT-TTTTTAATTTTTTAATTTATATTTTTT
1 AATTATTTTAAATTCTTT-ATTTATATTTTTT
113907024 TGTCAAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (31 bp):
AATTATTTTAAATTCTTTATTTATATTTTTT
Found at i:113912008 original size:18 final size:18
Alignment explanation
Indices: 113911974--113912024 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
113911964 TGATACTTTT
*
113911974 AAATAAAATTAAATAAAA
1 AAATAAAATAAAATAAAA
*
113911992 AAAT-AAATAAAATTAAA
1 AAATAAAATAAAATAAAA
* *
113912009 AATTATAA-AAAATAAA
1 AAATAAAATAAAATAAA
113912025 TTAATTTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAATAAAATAAAA
Found at i:113914686 original size:2 final size:2
Alignment explanation
Indices: 113914674--113914711 Score: 58
Period size: 2 Copynumber: 18.0 Consensus size: 2
113914664 TGCTACATAA
113914674 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
113914712 GCATATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 30 0.88
3 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:113915482 original size:17 final size:17
Alignment explanation
Indices: 113915460--113915494 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
113915450 GTGGTTCTAT
*
113915460 TAAATTTTGAAATGTAC
1 TAAATTTAGAAATGTAC
*
113915477 TAAATTTAGAAATTTAC
1 TAAATTTAGAAATGTAC
113915494 T
1 T
113915495 TTGGAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (17 bp):
TAAATTTAGAAATGTAC
Found at i:113915610 original size:11 final size:11
Alignment explanation
Indices: 113915594--113915618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
113915584 TCATAGTTAG
113915594 AAAATAATTGA
1 AAAATAATTGA
113915605 AAAATAATTGA
1 AAAATAATTGA
113915616 AAA
1 AAA
113915619 TTCCATGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAATAATTGA
Found at i:113916646 original size:22 final size:23
Alignment explanation
Indices: 113916621--113916666 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
113916611 CAACCAAATC
113916621 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
113916643 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
113916666 A
1 A
113916667 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:113916672 original size:23 final size:23
Alignment explanation
Indices: 113916628--113916672 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113916618 ATCAATTCAA
*
113916628 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113916651 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113916673 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113923940 original size:40 final size:40
Alignment explanation
Indices: 113923895--113924062 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
113923885 CGGAATACAA
113923895 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
113923935 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
113923975 CCGGATGTAGCCACTAGCACAATTGCTTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
113924015 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
113924055 CCGGATAT
1 CCGGATAT
113924063 CATTCAATTG
Statistics
Matches: 101, Mismatches: 26, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 100 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:113924045 original size:80 final size:80
Alignment explanation
Indices: 113923911--113924060 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
113923901 ATAACCACGT
* * *
113923911 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGACTTAGCC
113923976 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * ** * *
113923991 GCACAATTGCTTTCGGGTCTTAACCCGGATATAATTTC-CAGCATAAATGTCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACAAATGCCTTCGGGACTTAGC
113924055 CCGGAT
65 CCGGAT
113924061 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGACTTAGCC
CGGATGTAGCCACTA
Found at i:113926616 original size:132 final size:132
Alignment explanation
Indices: 113926318--113926690 Score: 473
Period size: 132 Copynumber: 2.8 Consensus size: 132
113926308 AGAAGACCTG
* * * * *
113926318 AGGGATATTTGATTATTTTAAACAAATGGGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
1 AGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
* * * * * *
113926383 GAATTGCCAAATATCGCATATCGCCTTTGTTTT-AGGGA-TTTTAATAGACATGAATGAAATTTT
66 GAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAATAGACATGAATGAAATTTT
113926446 GA
131 GA
* * * *
113926448 AGTGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACATTAGGGCACGCTTCCGC
1 AGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
* * * * * *
113926513 GAATTGCCAAACATCAAATCTCGTCTTCGTTTTAAAGAATTTTTGAA-AGGCGTTAGTGAAATTT
66 GAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTT-AATAGACATGAATGAAATTT
113926577 TGA
130 TGA
* * * *
113926580 AGGGATATTCAATTATTTTGAGCAAACGCGAAATTGCAACCGAACACGTTAGGGCACTATTTCAC
1 AGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
* *
113926645 GAATTGCCAAATATTGAATCTCGTCTTCGTTTTAAAGAATTCTTAA
66 GAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAA
113926691 ACGAATACTT
Statistics
Matches: 207, Mismatches: 33, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
130 83 0.40
131 5 0.02
132 117 0.57
133 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (132 bp):
AGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
GAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAATAGACATGAATGAAATTTT
GA
Found at i:113927670 original size:6 final size:6
Alignment explanation
Indices: 113927659--113927688 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
113927649 AGTGAAAAAA
113927659 TATATG TATATG TATAATG TATATG TATAT
1 TATATG TATATG TAT-ATG TATATG TATAT
113927689 AAATAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (6 bp):
TATATG
Done.