Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 30 of 186
Found at i:8910206 original size:21 final size:22
Alignment explanation
Indices: 8910181--8910242 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
8910171 AATGAATGCC
*
8910181 AAATGAATTTAAAGAA-ATAAT
1 AAATGAATTTAAAGAATATAAA
* *
8910202 GAATGAATTATAAATAATATAAA
1 AAATGAATT-TAAAGAATATAAA
8910225 AACATGAATTTTAAAGAA
1 AA-ATGAA-TTTAAAGAA
8910243 CCCAATGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.25
22 6 0.19
23 5 0.16
24 11 0.34
25 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATGAATTTAAAGAATATAAA
Found at i:8910631 original size:24 final size:24
Alignment explanation
Indices: 8910604--8910649 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8910594 GGGGTGGTTT
8910604 AGTGGGGTGATAGAGTTAGTGGCA
1 AGTGGGGTGATAGAGTTAGTGGCA
*
8910628 AGTGGGGTGATGGAGTTAGTGG
1 AGTGGGGTGATAGAGTTAGTGG
8910650 TCGGTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.50, T:0.26
Consensus pattern (24 bp):
AGTGGGGTGATAGAGTTAGTGGCA
Found at i:8911081 original size:43 final size:43
Alignment explanation
Indices: 8911034--8911264 Score: 218
Period size: 43 Copynumber: 5.3 Consensus size: 43
8911024 GCCTGTTACC
8911034 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
1 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
* ** *** * **
8911077 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTG-CCTGTTACC-
1 CTACTGCTTAGGGA-TTAAGGCTTACCATCTTC-GATCTACT-CCA
8911121 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
1 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
* ** *** * **
8911164 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTG-CCTGTTACC-
1 CTACTGCTTAGGGA-TTAAGGCTTACCATCTTC-GATCTACT-CCA
8911208 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
1 CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
8911251 CTACTGCTTAGGGA
1 CTACTGCTTAGGGA
8911265 GATAAGATTT
Statistics
Matches: 142, Mismatches: 36, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
42 6 0.04
43 72 0.51
44 58 0.41
45 6 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGGGATTAAGGCTTACCATCTTCGATCTACTCCA
Found at i:8911104 original size:87 final size:87
Alignment explanation
Indices: 8910892--8911440 Score: 716
Period size: 87 Copynumber: 6.3 Consensus size: 87
8910882 TTTCATTTCA
* * * *
8910892 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTA-
* * * ** *
8910957 GGGGTCAAGGCTCACTGTCTTTG
65 GGGATTAAGGCTTACCATCTTCG
* * * *
8910980 ATCTGCTCCACTACTTCTTAGAGAGACAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
8911045 GGATTAAGGCTTACCATCTTCG
66 GGATTAAGGCTTACCATCTTCG
*
8911067 ATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
8911132 GGATTAAGGCTTACCATCTTCG
66 GGATTAAGGCTTACCATCTTCG
*
8911154 ATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
8911219 GGATTAAGGCTTACCATCTTCG
66 GGATTAAGGCTTACCATCTTCG
*
8911241 ATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTA-
* *
8911306 GGGTTTAAGG-TTCACTGA-CTTCG
65 GGGATTAAGGCTT-AC-CATCTTCG
* ** * * *
8911329 ATCTGCTCCACTACTATTTAAGG-G---AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGCTTA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CTGCCTGTTACCCTACTGCTTA
* * *
8911389 GAGGATTAAAGCTTGCTATCTTCG
65 G-GGATTAAGGCTTACCATCTTCG
* *
8911413 ATCTGCTCCACTACTGTTTAGAGGAGAT
1 ATCTACTCCACTACTGCTTAG-GGAGAT
8911441 CTGGCCGGTG
Statistics
Matches: 417, Mismatches: 33, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
83 6 0.01
84 60 0.14
85 4 0.01
86 1 0.00
87 253 0.61
88 92 0.22
89 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCTGCCTGTTACCCTACTGCTTAG
GGATTAAGGCTTACCATCTTCG
Found at i:8911126 original size:44 final size:44
Alignment explanation
Indices: 8910990--8911307 Score: 240
Period size: 44 Copynumber: 7.3 Consensus size: 44
8910980 ATCTGCTCCA
* * * *
8910990 CTACTTCTTAGAGAGACAAGATCTGTAATCTTCTGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
* ** *** * **
8911034 CTACTGCTTAGGGA-TTAAGGCTTACCATCTTC-GATCTACT-CC
1 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTG-CCTGTTACC
8911076 ACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
* ** *** * **
8911121 CTACTGCTTAGGGA-TTAAGGCTTACCATCTTC-GATCTACT-CC
1 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTG-CCTGTTACC
8911163 ACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
* ** *** * **
8911208 CTACTGCTTAGGGA-TTAAGGCTTACCATCTTC-GATCTACT-CC
1 CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTG-CCTGTTACC
8911250 ACTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
8911295 CTACTGCTTAGGG
1 CTACTGCTTAGGG
8911308 GTTTAAGGTT
Statistics
Matches: 201, Mismatches: 58, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
42 9 0.04
43 85 0.42
44 98 0.49
45 9 0.04
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATTTGTAATCTTCTGCCTGTTACC
Found at i:8911774 original size:133 final size:132
Alignment explanation
Indices: 8911502--8911808 Score: 389
Period size: 133 Copynumber: 2.3 Consensus size: 132
8911492 ACCATTTTTT
* * * * *
8911502 ATCTGCTCCATAGCTGATACATGGAGATAAGATTTGTAATTTTTAGCCTGTTACCCTACTGCTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGCCTGTTACCCTACTACTCA
** * *
8911567 GGGGGTTAAGGCTCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGCCTA
66 GGAAGATAAGACTCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGCCTA
8911632 AA
131 AA
* * * * * *
8911634 ATCTGCTCCATAGCCGATACATGAAGATAAGATCTGTAATTTTCAGTCTGTTTCCTTGCTACATC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGCCTGTTACCCTACTAC-TC
** * * *** *
8911699 AGGAAGATAAGACTTTTATCTTCAATCTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGCT
65 AGGAAGATAAGACTCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGCCT
8911764 AAA
130 AAA
*
8911767 ATTTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTT
8911809 CACCAATGTC
Statistics
Matches: 149, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
132 53 0.36
133 96 0.64
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (132 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGCCTGTTACCCTACTACTCA
GGAAGATAAGACTCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGCCTA
AA
Found at i:8918013 original size:29 final size:26
Alignment explanation
Indices: 8917949--8918000 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8917939 TGCCAAATTG
* *
8917949 TACATAAATAAATTTTAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
*
8917975 TATAT-AATAAATCTAAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
8918000 T
1 T
8918001 TTACATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAAATAAATCTAAAAGAAAATA
Found at i:8918682 original size:29 final size:29
Alignment explanation
Indices: 8918616--8918683 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
8918606 TTTGTAAGCA
* *
8918616 AGTGGAGTAATGGAGTTAGTAGGGTGGTTT
1 AGTGGGGTGATGGAGTTAGTA-GGTGGTTT
8918646 AGTGGGGTGATGGAGTTAGTA-GTCGGTTT
1 AGTGGGGTGATGGAGTTAGTAGGT-GGTTT
8918675 AGTGGGGTG
1 AGTGGGGTG
8918684 CTAATTGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 2 0.06
29 14 0.40
30 19 0.54
ACGTcount: A:0.19, C:0.01, G:0.47, T:0.32
Consensus pattern (29 bp):
AGTGGGGTGATGGAGTTAGTAGGTGGTTT
Found at i:8919695 original size:3 final size:3
Alignment explanation
Indices: 8919687--8919713 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8919677 GAATCCTCCC
8919687 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
8919714 CACTAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8921298 original size:31 final size:31
Alignment explanation
Indices: 8921260--8921328 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
8921250 ATTGTGTTGG
* * *
8921260 TGGGATTTTAGCATTATTCTAATAATTCAAC
1 TGGGATTTTAGCATCAATATAATAATTCAAC
*
8921291 TGGGATTTTAGTATCAATATAATAATTCAAC
1 TGGGATTTTAGCATCAATATAATAATTCAAC
*
8921322 TGAGATT
1 TGGGATT
8921329 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (31 bp):
TGGGATTTTAGCATCAATATAATAATTCAAC
Found at i:8940959 original size:44 final size:43
Alignment explanation
Indices: 8940899--8940985 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
8940889 ATACTGAACC
* * * *
8940899 GAGACTCTGAATACCTATTAACATGCGCACGGAAACAACCGTA
1 GAGACTCTAAACACCTATTAACATACGCACGAAAACAACCGTA
* *
8940942 NGAGACTCTAAACACCTATTAACCTACGCACGAAAATAACCGTA
1 -GAGACTCTAAACACCTATTAACATACGCACGAAAACAACCGTA
8940986 CACTGAGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.18
Consensus pattern (43 bp):
GAGACTCTAAACACCTATTAACATACGCACGAAAACAACCGTA
Found at i:8941673 original size:3 final size:3
Alignment explanation
Indices: 8941665--8941716 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
8941655 CACTCATCTC
8941665 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8941713 AAT A
1 AAT A
8941717 TTTACCTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8942017 original size:23 final size:22
Alignment explanation
Indices: 8941970--8942017 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
8941960 CAATTTAATC
8941970 CTAACTAAATTCACTTACTTTT
1 CTAACTAAATTCACTTACTTTT
*
8941992 CTAACTCAATTCATACTT-CTTTT
1 CTAACTAAATTC--ACTTACTTTT
8942015 CTA
1 CTA
8942018 TTTAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (22 bp):
CTAACTAAATTCACTTACTTTT
Found at i:8942372 original size:13 final size:12
Alignment explanation
Indices: 8942346--8942430 Score: 66
Period size: 13 Copynumber: 6.8 Consensus size: 12
8942336 AATCCCTAGT
*
8942346 TTTTCCTTTTTC
1 TTTTCTTTTTTC
8942358 TTTTCTTTTTCTC
1 TTTTCTTTTT-TC
8942371 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
*
8942384 TTTT-TTGTTTGC
1 TTTTCTT-TTTTC
*
8942396 TATTCTGTTCTTTC
1 TTTTCT-TT-TTTC
*
8942410 -CTTCTTTGTTTC
1 TTTTCTTT-TTTC
8942422 TTTTCTTTT
1 TTTTCTTTT
8942431 ATGTTTAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
12 24 0.41
13 29 0.49
14 6 0.10
ACGTcount: A:0.01, C:0.20, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:8942401 original size:21 final size:21
Alignment explanation
Indices: 8942354--8942430 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
8942344 GTTTTTCCTT
*
8942354 TTTCTTTTCTTTTTCTCTTTTC
1 TTTC-TTTCTTTTTCTCTTTGC
*
8942376 TTTCTTTCTTTTT-TGTTTGC
1 TTTCTTTCTTTTTCTCTTTGC
*
8942396 TATTCTGTTC-TTTCCTTCTTTG-
1 T-TTCT-TTCTTTTTC-TCTTTGC
8942418 TTTCTTTTCTTTT
1 TTTC-TTTCTTTT
8942431 ATGTTTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
20 6 0.13
21 22 0.49
22 12 0.27
23 5 0.11
ACGTcount: A:0.01, C:0.19, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTCTTTCTTTTTCTCTTTGC
Found at i:8942484 original size:25 final size:23
Alignment explanation
Indices: 8942456--8942519 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
8942446 ATTTATTCTT
*
8942456 TTATTTTATTAATTAACTTATTATA
1 TTATTTTATTAATTAAC--ATTAAA
*
8942481 TTATATTA-TAA-TAACATTAAA
1 TTATTTTATTAATTAACATTAAA
8942502 TATATTTTATATAATTAA
1 T-TATTTTAT-TAATTAA
8942520 TCATATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 4 0.12
24 6 0.19
25 10 0.31
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTTTATTAATTAACATTAAA
Found at i:8945991 original size:15 final size:15
Alignment explanation
Indices: 8945973--8946002 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8945963 ACAAACTATT
8945973 TTATTTATTTATTTA
1 TTATTTATTTATTTA
*
8945988 TTATTTCTTTATTTA
1 TTATTTATTTATTTA
8946003 CTTTTTTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:8946121 original size:39 final size:39
Alignment explanation
Indices: 8946037--8946118 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
8946027 TGTTTATACC
* * *
8946037 TTTT-TTTTTTATTTTTGTGCATTTGTTATTTATTGTTGA
1 TTTTATTTTTTATTCTTGTGCACTTGTTATTTATTATT-A
8946076 TTTTATTTTTT-TTCTTGTGCACTTGTTA-TT-TTATTA
1 TTTTATTTTTTATTCTTGTGCACTTGTTATTTATTATTA
8946112 TTTTATT
1 TTTTATT
8946119 ATTATTGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 8 0.21
37 4 0.10
38 2 0.05
39 19 0.49
40 6 0.15
ACGTcount: A:0.13, C:0.05, G:0.10, T:0.72
Consensus pattern (39 bp):
TTTTATTTTTTATTCTTGTGCACTTGTTATTTATTATTA
Found at i:8950868 original size:10 final size:10
Alignment explanation
Indices: 8950853--8950913 Score: 63
Period size: 10 Copynumber: 5.9 Consensus size: 10
8950843 AATTTTCGTT
8950853 TTTATCTTTA
1 TTTATCTTTA
*
8950863 TTTATC-CTA
1 TTTATCTTTA
8950872 GCTTTAATCTTTA
1 --TTT-ATCTTTA
8950885 TTTATCTTTA
1 TTTATCTTTA
8950895 TTTAT-TTGTA
1 TTTATCTT-TA
8950905 TTTATCTTT
1 TTTATCTTT
8950914 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 4 0.09
10 26 0.60
11 8 0.19
12 3 0.07
13 2 0.05
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:8954631 original size:31 final size:31
Alignment explanation
Indices: 8954589--8954651 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8954579 ATTCCATCCA
*
8954589 ACATAGTGATGAAATTCGATGACTTAATGTT
1 ACATAGCGATGAAATTCGATGACTTAATGTT
8954620 ACATAGCGATGAAATTCGATGACTTAATGTT
1 ACATAGCGATGAAATTCGATGACTTAATGTT
8954651 A
1 A
8954652 AATCGGTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (31 bp):
ACATAGCGATGAAATTCGATGACTTAATGTT
Found at i:8962978 original size:55 final size:53
Alignment explanation
Indices: 8962891--8963145 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
8962881 ATTAGGGTTT
* *
8962891 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTATAAGGC
* * * * * *
8962946 AAGGAAATCATGTAAGACCCTGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TATAAGGC
* * * * *
8963001 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
* * * *
8963054 AAGGATACCATGTAAGACCATGTCGAGACATGGAAATGGTAAGTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
* * *
8963103 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
8963146 GTACCCATGT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 36 0.22
50 2 0.01
52 6 0.04
53 43 0.26
54 7 0.04
55 67 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGC
Found at i:8963097 original size:108 final size:110
Alignment explanation
Indices: 8962898--8963098 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
8962888 TTTAAGGATA
** *
8962898 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTTTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* * *
8962963 CCCTGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* * *
8963008 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
8963071 CCATGTCGAGACATGGAAATGGTAAGTT
66 CCATGTCAAGACATGGAAATGATAAGTT
8963099 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 47 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:8976533 original size:28 final size:28
Alignment explanation
Indices: 8976493--8976571 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
8976483 GCAATCAAAT
*
8976493 ATGGCA-TTCAGTGTACGAAATATTGAGA
1 ATGGCACTT-AGTGTGCGAAATATTGAGA
*
8976521 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
**
8976549 ATGAAACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
8976572 CGAATAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 43 0.96
29 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:8985290 original size:74 final size:73
Alignment explanation
Indices: 8985169--8985313 Score: 229
Period size: 74 Copynumber: 2.0 Consensus size: 73
8985159 TTAGTAAACC
* *
8985169 CCTTTGAGCCTAACAAGCCATTCCTTGTATTAACCTCAATATTAACCCTTAACCCATTATTGTTG
1 CCTTTGAGCCTAACAAGCCATTACTTGTATTAACCTCAATATTAACCCATAA-CCATTATTGTTG
8985234 AAATCCCCT
65 AAATCCCCT
* *
8985243 CCTTTGAGCCTAACAAGCCATTATTTG-ATTTACCCTCAATATTAACCCATAACCATTATTGTTG
1 CCTTTGAGCCTAACAAGCCATTACTTGTA-TTAACCTCAATATTAACCCATAACCATTATTGTTG
8985307 AAATCCC
65 AAATCCC
8985314 TTAATTTGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
73 20 0.30
74 46 0.70
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (73 bp):
CCTTTGAGCCTAACAAGCCATTACTTGTATTAACCTCAATATTAACCCATAACCATTATTGTTGA
AATCCCCT
Found at i:8987732 original size:13 final size:13
Alignment explanation
Indices: 8987714--8987753 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
8987704 TCAGTAATCG
8987714 CACACGGGCGTGT
1 CACACGGGCGTGT
8987727 CACACGGGCGTGT
1 CACACGGGCGTGT
8987740 CACACGGGCGTGT
1 CACACGGGCGTGT
8987753 C
1 C
8987754 CTTGTCGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8993966 original size:8 final size:9
Alignment explanation
Indices: 8993945--8993976 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8993935 TACAAAAGTG
8993945 ATGATAACA
1 ATGATAACA
8993954 ATGATAA-A
1 ATGATAACA
8993962 ATGATAACA
1 ATGATAACA
8993971 ATGATA
1 ATGATA
8993977 TTAGTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (9 bp):
ATGATAACA
Found at i:8994076 original size:23 final size:24
Alignment explanation
Indices: 8994050--8994099 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
8994040 TAAAAAAGGA
8994050 AATAATAATATGGTAA-AAAAAAT
1 AATAATAATATGGTAATAAAAAAT
* * *
8994073 AATAGTAATATGTTAATGAAAAAT
1 AATAATAATATGGTAATAAAAAAT
8994097 AAT
1 AAT
8994100 GGTAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (24 bp):
AATAATAATATGGTAATAAAAAAT
Found at i:8994099 original size:24 final size:23
Alignment explanation
Indices: 8994050--8994106 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
8994040 TAAAAAAGGA
*
8994050 AATAATAATATGGTAAAAAAAAT
1 AATAGTAATATGGTAAAAAAAAT
* *
8994073 AATAGTAATATGTTAATGAAAAAT
1 AATAGTAATATGGTAA-AAAAAAT
*
8994097 AATGGTAATA
1 AATAGTAATA
8994107 ATAATAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (23 bp):
AATAGTAATATGGTAAAAAAAAT
Found at i:8994143 original size:22 final size:22
Alignment explanation
Indices: 8994094--8994150 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8994084 GTTAATGAAA
*
8994094 AATAATGGTAATAATAATAATG
1 AATAATGGTAATAAAAATAATG
*
8994116 ATTAATGGTAATAAAAATATAT-
1 AATAATGGTAATAAAAATA-ATG
*
8994138 AATAATAGTAATA
1 AATAATGGTAATA
8994151 CGAAGTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (22 bp):
AATAATGGTAATAAAAATAATG
Found at i:8996367 original size:21 final size:20
Alignment explanation
Indices: 8996341--8996397 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
8996331 TCGAAGACTG
*
8996341 AACAGAAGCACATAAGTGCTA
1 AACAGAAGC-CATAAGGGCTA
* *
8996362 AACAGAAATCCATAAGGGTTA
1 AACAG-AAGCCATAAGGGCTA
8996383 AACAGAAGCTCATAA
1 AACAGAAGC-CATAA
8996398 AAGAGCTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AACAGAAGCCATAAGGGCTA
Found at i:8998126 original size:27 final size:27
Alignment explanation
Indices: 8998095--8998185 Score: 155
Period size: 27 Copynumber: 3.4 Consensus size: 27
8998085 AATCATCGTG
* *
8998095 GTTGGATGAGATTAAAAGTTAGCAGAT
1 GTTGGATGAGATTAAAAGTAAGAAGAT
*
8998122 GTTGGAAGAGATTAAAAGTAAGAAGAT
1 GTTGGATGAGATTAAAAGTAAGAAGAT
8998149 GTTGGATGAGATTAAAAGTAAGAAGAT
1 GTTGGATGAGATTAAAAGTAAGAAGAT
8998176 GTTGGATGAG
1 GTTGGATGAG
8998186 TCTTTGATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.41, C:0.01, G:0.32, T:0.26
Consensus pattern (27 bp):
GTTGGATGAGATTAAAAGTAAGAAGAT
Found at i:9005783 original size:14 final size:14
Alignment explanation
Indices: 9005764--9005792 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9005754 TAATAAAAAA
9005764 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
9005778 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
9005792 T
1 T
9005793 GACTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TTAAAATTTGAAAT
Found at i:9010649 original size:37 final size:38
Alignment explanation
Indices: 9010597--9010687 Score: 121
Period size: 37 Copynumber: 2.4 Consensus size: 38
9010587 ACCCACTACC
* * *
9010597 GTGGTGTGTAAGGTGGAGGGGCCTATAATAGCCC-TTT
1 GTGGTGTGTAGGGTGGAGGGGCCTACAATAGCCCAATT
* *
9010634 GTGGTGTGTAGGGTGGATGGGCCTACCATAGCCCAATT
1 GTGGTGTGTAGGGTGGAGGGGCCTACAATAGCCCAATT
*
9010672 GTGGTGTGCAGGGTGG
1 GTGGTGTGTAGGGTGG
9010688 TTGGAGTAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 30 0.64
38 17 0.36
ACGTcount: A:0.16, C:0.14, G:0.42, T:0.27
Consensus pattern (38 bp):
GTGGTGTGTAGGGTGGAGGGGCCTACAATAGCCCAATT
Found at i:9013614 original size:6 final size:6
Alignment explanation
Indices: 9013603--9013646 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
9013593 AAAATTTAGT
9013603 AAATAA AAATAA AAATAA AAATAA ATTGCAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA A----AATAA AAATAA AAAT
9013647 GGCTAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 28 0.82
10 6 0.18
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:9015544 original size:37 final size:38
Alignment explanation
Indices: 9015495--9015582 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 38
9015485 CACTACTGTT
* *
9015495 GTGTGTAGGGTGGACGAGCCTATAATAGCCC-TTTGTG
1 GTGTGTAGGGTGGACGAGCCTACAATAGCCCAATTGTG
* * * *
9015532 GTGTGTAAGGTGGATGGGCCTACCATAGCCCAATTGTG
1 GTGTGTAGGGTGGACGAGCCTACAATAGCCCAATTGTG
9015570 GTGTGTAGGGTGG
1 GTGTGTAGGGTGG
9015583 TTGGAGTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 26 0.60
38 17 0.40
ACGTcount: A:0.18, C:0.15, G:0.39, T:0.28
Consensus pattern (38 bp):
GTGTGTAGGGTGGACGAGCCTACAATAGCCCAATTGTG
Found at i:9016479 original size:8 final size:8
Alignment explanation
Indices: 9016466--9016495 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
9016456 AGAAAGATGA
9016466 AGAAGTGT
1 AGAAGTGT
9016474 AGAAGTGT
1 AGAAGTGT
9016482 AGAAGTGT
1 AGAAGTGT
9016490 AGAAGT
1 AGAAGT
9016496 AGGGCTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (8 bp):
AGAAGTGT
Found at i:9027295 original size:19 final size:19
Alignment explanation
Indices: 9027271--9027329 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
9027261 NNNNNNNNNN
*
9027271 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
9027290 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
9027308 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
9027327 TAA
1 TAA
9027330 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:9027577 original size:28 final size:27
Alignment explanation
Indices: 9027515--9027579 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
9027505 TAAGGGAATA
*
9027515 TATTAAATTTATAAAATTAAAATAGTT
1 TATTAAATTTATAAAATTAAAATAGGT
* *
9027542 TAATTTAATTTTTTAAAATTAAAATAGAGT
1 T-A-TTAAATTTATAAAATTAAAATAG-GT
9027572 TATTAAAT
1 TATTAAAT
9027580 GAGAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 6 0.19
29 22 0.71
30 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (27 bp):
TATTAAATTTATAAAATTAAAATAGGT
Found at i:9027579 original size:19 final size:19
Alignment explanation
Indices: 9027557--9027620 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
9027547 TAATTTTTTA
9027557 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
9027576 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
9027594 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
9027613 AAATTAAA
1 AAATTAAA
9027621 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:9027962 original size:27 final size:27
Alignment explanation
Indices: 9027931--9028007 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
9027921 TTTTAATCCT
9027931 TTGGCACCATTGGTGCCGCCAATCAT-A
1 TTGGCACCATTGGTGCCGCCAATC-TCA
*
9027958 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* *
9027985 TTGGCACCTTTGGTGTCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
9028008 GTGATTGGGC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:9028115 original size:27 final size:28
Alignment explanation
Indices: 9028062--9028126 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
9028052 ATTTTTTGAT
*
9028062 ATATTTT-AGTAAATAAAAAAAATTTATA
1 ATATTTTGA-TAAATAAAAAAAAGTTATA
9028090 ATATTTTGATAAAT-AAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
9028117 ATATTTTGAT
1 ATATTTTGAT
9028127 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 22 0.63
28 12 0.34
29 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Found at i:9029153 original size:25 final size:25
Alignment explanation
Indices: 9029124--9029178 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
9029114 ATATGATATC
9029124 AATGTATAATGAATTTGGACAAATT
1 AATGTATAATGAATTTGGACAAATT
9029149 AATGTATAATGAATTTGGACAAATT
1 AATGTATAATGAATTTGGACAAATT
*
9029174 GATGT
1 AATGT
9029179 CTATGTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (25 bp):
AATGTATAATGAATTTGGACAAATT
Found at i:9029864 original size:13 final size:13
Alignment explanation
Indices: 9029846--9029883 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
9029836 TTTTACTCTT
9029846 GATTTTA-TAAAAA
1 GATTTTACT-AAAA
9029859 GATTTTACTAAAA
1 GATTTTACTAAAA
*
9029872 GATTTTGCTAAA
1 GATTTTACTAAA
9029884 TTTATGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (13 bp):
GATTTTACTAAAA
Found at i:9048386 original size:16 final size:16
Alignment explanation
Indices: 9048350--9048380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9048340 GTCCATTTAA
9048350 TTTTTAATTTATTTTC
1 TTTTTAATTTATTTTC
*
9048366 TTTTTAGTTTATTTT
1 TTTTTAATTTATTTT
9048381 TATTTTTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTAATTTATTTTC
Found at i:9049951 original size:14 final size:14
Alignment explanation
Indices: 9049898--9049942 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
9049888 TTAATTATCA
*
9049898 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
9049912 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
*
9049926 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
9049940 TTA
1 TTA
9049943 AGGTGTAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:9050089 original size:22 final size:25
Alignment explanation
Indices: 9050027--9050075 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9050017 TAAAATTTAA
*
9050027 GGGTTAGGGGTTAATGATTAGGGTC
1 GGGTTAGGGGTTAAGGATTAGGGTC
9050052 GGGTTAGGGGTTAAGGATTAGGGT
1 GGGTTAGGGGTTAAGGATTAGGGT
9050076 GTGTAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.47, T:0.31
Consensus pattern (25 bp):
GGGTTAGGGGTTAAGGATTAGGGTC
Found at i:9051211 original size:159 final size:157
Alignment explanation
Indices: 9050922--9051267 Score: 455
Period size: 159 Copynumber: 2.2 Consensus size: 157
9050912 AGATTAGTGC
* * *
9050922 CGTTTTTTTAAAAAAACGCCGCAAAAAATAGTATAGTTTAAAGAAAACGGCATCGTTTTAGTTGG
1 CGTTTTTTT-AAAAAACGCCGCAAAAAACAGTATAGTTTAAAGAAAACGGCACCGTTTTAGTTAG
* * *
9050987 ATAGGGGATTAGTGGCGTTTTGAAAAACGCCGTAACAGAATTAAAGTGTACTGGAAGCGTTGTCG
65 ATAGGGGATTAGTGGCGTTTTGAAAAACGCCGCAAAAGAATTAAAGTGTACTGGAAGCGTCGTCG
9051052 TTTTAGTTGAATATATAGGGGATTAGCAG
130 TTTTAGTTGAATATATA-GGGATTAGCAG
* * **
9051081 CGTTTTTTTAAAAAACACCGCAAAAGACAGTATTAGTTTAAAGAAAACGGTGCCGTTTTAGTATA
1 CGTTTTTTTAAAAAACGCCGCAAAAAACAGTA-TAGTTTAAAGAAAACGGCACCGTTTTAGT-TA
* * * * *
9051146 G-TAGTGTATTAGTGGCGCTTTT-AAAAATGCCGCAAAAGAATTAAAGTTTACTGTACA-CGTCG
64 GATAGGGGATTAGTGGCG-TTTTGAAAAACGCCGCAAAAGAATTAAAGTGTACTGGA-AGCGTCG
*
9051208 TCGTTTTAGTTGAATATATAGGGATTAGCGG
127 TCGTTTTAGTTGAATATATAGGGATTAGCAG
* *
9051239 CGTTTTTTTAATAAACGCCGCAAATAACA
1 CGTTTTTTTAAAAAACGCCGCAAAAAACA
9051268 TTAATGCTTA
Statistics
Matches: 163, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
158 55 0.34
159 101 0.62
160 7 0.04
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (157 bp):
CGTTTTTTTAAAAAACGCCGCAAAAAACAGTATAGTTTAAAGAAAACGGCACCGTTTTAGTTAGA
TAGGGGATTAGTGGCGTTTTGAAAAACGCCGCAAAAGAATTAAAGTGTACTGGAAGCGTCGTCGT
TTTAGTTGAATATATAGGGATTAGCAG
Found at i:9052993 original size:8 final size:8
Alignment explanation
Indices: 9052980--9053022 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
9052970 TGATTATGAT
9052980 AATAGTGG
1 AATAGTGG
9052988 AATAGTGG
1 AATAGTGG
*
9052996 AATAGTGT
1 AATAGTGG
* *
9053004 AATAGAGT
1 AATAGTGG
9053012 AATAGTGG
1 AATAGTGG
9053020 AAT
1 AAT
9053023 TTTTTGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (8 bp):
AATAGTGG
Found at i:9054066 original size:10 final size:9
Alignment explanation
Indices: 9054050--9054156 Score: 85
Period size: 9 Copynumber: 11.7 Consensus size: 9
9054040 AAATATATAT
*
9054050 CATATTTTA
1 CATAATTTA
9054059 CATAATTTA
1 CATAATTTA
*
9054068 CATAACTTA
1 CATAATTTA
9054077 CATAA--TA
1 CATAATTTA
9054084 CATAAATATATA
1 CAT-AAT-T-TA
9054096 TCAT-ATCTTA
1 -CATAAT-TTA
9054106 CATAATTTA
1 CATAATTTA
**
9054115 CATAATTCG
1 CATAATTTA
* *
9054124 GATAACTTA
1 CATAATTTA
9054133 CATAATTTA
1 CATAATTTA
*
9054142 CATAACTTA
1 CATAATTTA
9054151 CATAAT
1 CATAAT
9054157 ACATAAATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 59 0.76
10 4 0.05
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
CATAATTTA
Found at i:9054077 original size:18 final size:18
Alignment explanation
Indices: 9054056--9054156 Score: 98
Period size: 18 Copynumber: 5.5 Consensus size: 18
9054046 ATATCATATT
9054056 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
*
9054074 TTACATAA--TACATAAA
1 TTACATAATTTACATAAC
* *
9054090 TATATATCATATCTTACATAAT
1 T-TACAT-A-AT-TTACATAAC
***
9054112 TTACATAATTCGGATAAC
1 TTACATAATTTACATAAC
9054130 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
9054148 TTACATAAT
1 TTACATAAT
9054157 ACATAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
16 8 0.12
17 4 0.06
18 38 0.58
19 3 0.05
20 1 0.02
21 4 0.06
22 8 0.12
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:9059243 original size:13 final size:14
Alignment explanation
Indices: 9059227--9059255 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9059217 TTATAAATAT
9059227 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
9059240 TTATAATGGTTTAA
1 TTATAATGGTTTAA
9059254 TT
1 TT
9059256 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:9059689 original size:21 final size:21
Alignment explanation
Indices: 9059664--9059719 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
9059654 AACTTAGAGA
9059664 AGCGGCAGCAGCGAGAGAGGC
1 AGCGGCAGCAGCGAGAGAGGC
9059685 AGCGGCAGCAGCGAGAGAGGC
1 AGCGGCAGCAGCGAGAGAGGC
*
9059706 AGAGGCAGCAGCGA
1 AGCGGCAGCAGCGA
9059720 TGGCAGTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.46, T:0.00
Consensus pattern (21 bp):
AGCGGCAGCAGCGAGAGAGGC
Found at i:9060002 original size:30 final size:31
Alignment explanation
Indices: 9059968--9060032 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
9059958 TGTATTTTTT
** *
9059968 ATGCTACATTTGCT-TTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTAAGTTGGATTTA
* *
9059998 ATGCTATATTTTCTGTTTTAAGTTGGATTTA
1 ATGCTACATTTGCTGTTTTAAGTTGGATTTA
9060029 ATGC
1 ATGC
9060033 AGGAAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTAAGTTGGATTTA
Found at i:9070237 original size:28 final size:28
Alignment explanation
Indices: 9070203--9070304 Score: 113
Period size: 28 Copynumber: 3.6 Consensus size: 28
9070193 CTTACACCCG
9070203 ATCTCGCACACATAGTGCTCGGTTAACA
1 ATCTCGCACACATAGTGCTCGGTTAACA
* *
9070231 ATTTCGCACACATAGTGC-C--TTACACCCG
1 ATCTCGCACACATAGTGCTCGGTTA-A--CA
*
9070259 ATCTCACACACATAGTGCTCGGTT-ACAA
1 ATCTCGCACACATAGTGCTCGGTTAAC-A
9070287 ATCTCGCACACATAGTGC
1 ATCTCGCACACATAGTGC
9070305 ATATATTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 2 0.03
28 51 0.84
29 2 0.03
31 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
ATCTCGCACACATAGTGCTCGGTTAACA
Found at i:9070260 original size:56 final size:56
Alignment explanation
Indices: 9070181--9070304 Score: 196
Period size: 56 Copynumber: 2.2 Consensus size: 56
9070171 TAATTTTGCA
* * * *
9070181 CACACACAATGCCTTACACCCGATCTCGCACACATAGTGCTCGGTTA-ACAATTTCG
1 CACACATAGTGCCTTACACCCGATCTCACACACATAGTGCTCGGTTACA-AATCTCG
9070237 CACACATAGTGCCTTACACCCGATCTCACACACATAGTGCTCGGTTACAAATCTCG
1 CACACATAGTGCCTTACACCCGATCTCACACACATAGTGCTCGGTTACAAATCTCG
9070293 CACACATAGTGC
1 CACACATAGTGC
9070305 ATATATTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 62 0.98
57 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (56 bp):
CACACATAGTGCCTTACACCCGATCTCACACACATAGTGCTCGGTTACAAATCTCG
Found at i:9072215 original size:43 final size:43
Alignment explanation
Indices: 9072168--9072250 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
9072158 TCAGGACTAT
*
9072168 TACTTTTTAACGAAGAAATCGATCATACAGTTCGCAGAAACAC
1 TACTTTTTAACGAAGAAATCGATCACACAGTTCGCAGAAACAC
* *
9072211 TACTTTTTGACGAAGAAATCGATCACACAGTTCGTAGAAA
1 TACTTTTTAACGAAGAAATCGATCACACAGTTCGCAGAAA
9072251 TGAAAGAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (43 bp):
TACTTTTTAACGAAGAAATCGATCACACAGTTCGCAGAAACAC
Found at i:9077766 original size:16 final size:16
Alignment explanation
Indices: 9077745--9077775 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9077735 TGTCAATATC
9077745 GTGACGCATAAAAATA
1 GTGACGCATAAAAATA
9077761 GTGACGCATAAAAAT
1 GTGACGCATAAAAAT
9077776 TTGTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (16 bp):
GTGACGCATAAAAATA
Found at i:9091965 original size:50 final size:50
Alignment explanation
Indices: 9091901--9092104 Score: 209
Period size: 46 Copynumber: 4.3 Consensus size: 50
9091891 TTTGACATGA
* * * *
9091901 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-TCATTCATTTTCATGTCACGT
9091951 TGCCATGGTATCTTTCAACCATGGTC-T-T-ATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATCATTCATTTTCATGTCACGT
* *
9091997 TGCCATGGTATCTTTCAACCATGGCCTTA-CA--CA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATCATTCATTTTCATGTCACGT
* * * *
9092043 TGTCATGGTATCTTTCAACCATGGTCTTA-CA--CA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATCATTCATTTTCATGTCACGT
*
9092089 TGTCATGGTATCTTTC
1 TGCCATGGTATCTTTC
9092105 TCTTACACAT
Statistics
Matches: 139, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
45 5 0.04
46 107 0.77
47 2 0.01
48 1 0.01
49 1 0.01
50 23 0.17
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (50 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATCATTCATTTTCATGTCACGT
Found at i:9092007 original size:46 final size:46
Alignment explanation
Indices: 9091949--9092169 Score: 287
Period size: 46 Copynumber: 5.0 Consensus size: 46
9091939 TTTCTGTCAT
** * *
9091949 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
9091995 GTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * *
9092041 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
9092087 GTTGTCATGGTATCTTT----C----TCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
9092125 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATGTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
9092170 GAGAGCACAC
Statistics
Matches: 155, Mismatches: 12, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
38 35 0.23
42 2 0.01
46 118 0.76
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:9092118 original size:38 final size:38
Alignment explanation
Indices: 9092067--9092142 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
9092057 TCAACCATGG
* *
9092067 TCTTACACATTTCATATTAGGTTGTCATGGTATCTTTC
1 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
9092105 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
1 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
9092143 AACCATGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (38 bp):
TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
Found at i:9094069 original size:28 final size:28
Alignment explanation
Indices: 9094037--9094098 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
9094027 TCATATTAAC
*
9094037 ATTATACCATGTATATA-ATTTTATAA-AT
1 ATTATA-CATATATATATATTTT-TAATAT
*
9094065 ATTATATATATATATATATTTTTAATAT
1 ATTATACATATATATATATTTTTAATAT
9094093 ATTATA
1 ATTATA
9094099 TATTGTGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTATACATATATATATATTTTTAATAT
Found at i:9094099 original size:28 final size:27
Alignment explanation
Indices: 9094048--9094101 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
9094038 TTATACCATG
9094048 TATATAATTTTATAAATATTATATATA
1 TATATAATTTTATAAATATTATATATA
9094075 TATATATATTTT-TAATATATTATATAT
1 TATATA-ATTTTATAA-ATATTATATAT
9094102 TGTGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATAATTTTATAAATATTATATATA
Found at i:9095188 original size:132 final size:132
Alignment explanation
Indices: 9094951--9095190 Score: 363
Period size: 132 Copynumber: 1.8 Consensus size: 132
9094941 GGAGTCGATG
* * *
9094951 TTCGATGTTTAGCAATTCGGGAAATCTTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCCCA
1 TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
* * *
9095016 AAATAATCGAATATCTCTTTAGAATTTCGTTCATATTTTCTAAAAACTTTTTAAAACGAAGGAAA
66 AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAAAAACTTTTTAAAACGAAGGAAA
9095081 TA
131 TA
* * * *
9095083 TTCGATGTTCGGCAATTCGGGGAATCATGCCCTATCGTGCAGGGTTGCAATTTCTTGTTTGCGCA
1 TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
* * *
9095148 AAATAATCGAATATCCCTTTGGAATTTCATTCGTGGTTTCTAA
66 AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAA
9095191 GGCGAGGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 95 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (132 bp):
TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAAAAACTTTTTAAAACGAAGGAAA
TA
Found at i:9095291 original size:62 final size:62
Alignment explanation
Indices: 9095210--9095332 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
9095200 ATACTCAACG
9095210 TTTGGAAATTCAAGAGATCGTGCCCTACTGTGCTAGGTTTCAATTTTTTCGTTGGACTAAAA
1 TTTGGAAATTCAAGAGATCGTGCCCTACTGTGCTAGGTTTCAATTTTTTCGTTGGACTAAAA
* *
9095272 TTTGGAAATTCGAGGGATCGTGCCCTACTGTGCTAGGTTTCAATTTTTTCGTTGGACTAAA
1 TTTGGAAATTCAAGAGATCGTGCCCTACTGTGCTAGGTTTCAATTTTTTCGTTGGACTAAA
9095333 TAGTTGAGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (62 bp):
TTTGGAAATTCAAGAGATCGTGCCCTACTGTGCTAGGTTTCAATTTTTTCGTTGGACTAAAA
Found at i:9095992 original size:225 final size:226
Alignment explanation
Indices: 9095598--9096031 Score: 789
Period size: 225 Copynumber: 1.9 Consensus size: 226
9095588 GTGCTGATCC
* * *
9095598 TTCCTCGTACGTAACTGACTCCCGAGCCTGTTTTCTCAAAATTTCGTAGACCAAAATTATTGTTT
1 TTCCTCGTACGTAACCGACTCCCGAGCCTGTTTTCTCAAAATTTCGTAAACCAAAATTATTATTT
9095663 TAGTGAACCAGAATATTTTATTAAAACAATCAAATTTCTAGGTGATCCAATCACACCTAAACAAA
66 TAGTGAACCAGAATATTTTATTAAAACAATCAAATTTCTAGGTGATCCAATCACACCTAAACAAA
*
9095728 AAAGATTAGTGGCGACTCCACGTTTTGTTTTCAAAAAAGTCGATCCCCGTTTTTTT-TAAAATAA
131 AAAGATTAGTGGCGACTCCACGTTTTGTTTTCAAAAAAGTCGATCCCCGTTTTTTTAAAAAATAA
9095792 AAATGGTTTCGACATATATATATTATAATCA
196 AAATGGTTTCGACATATATATATTATAATCA
*
9095823 TTCCTCGTACGTAACCGACTCCCGAGCCTGTTTTTTCAAAATTTCGTAAACCAAAATTATTATTT
1 TTCCTCGTACGTAACCGACTCCCGAGCCTGTTTTCTCAAAATTTCGTAAACCAAAATTATTATTT
*
9095888 TAGTGAACCAGAATATTTTATTAAAACAATCAAATTTCTAGGTGATCCGATCACACCTAAACAAA
66 TAGTGAACCAGAATATTTTATTAAAACAATCAAATTTCTAGGTGATCCAATCACACCTAAACAAA
* *
9095953 AAAGATTGGTGGCGACTCCACGTTTTGTTTTCTAAAAAGTCGATCCCCGTTTTTTTAAAAAATAA
131 AAAGATTAGTGGCGACTCCACGTTTTGTTTTCAAAAAAGTCGATCCCCGTTTTTTTAAAAAATAA
9096018 AAATGGTTTCGACA
196 AAATGGTTTCGACA
9096032 GCTTGGTGAC
Statistics
Matches: 200, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
225 179 0.89
226 21 0.10
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (226 bp):
TTCCTCGTACGTAACCGACTCCCGAGCCTGTTTTCTCAAAATTTCGTAAACCAAAATTATTATTT
TAGTGAACCAGAATATTTTATTAAAACAATCAAATTTCTAGGTGATCCAATCACACCTAAACAAA
AAAGATTAGTGGCGACTCCACGTTTTGTTTTCAAAAAAGTCGATCCCCGTTTTTTTAAAAAATAA
AAATGGTTTCGACATATATATATTATAATCA
Found at i:9107316 original size:44 final size:44
Alignment explanation
Indices: 9107253--9107556 Score: 175
Period size: 44 Copynumber: 6.8 Consensus size: 44
9107243 GCCACATCAG
* * * *
9107253 ATCTCCTTGAAATTTCAGTGGAGTTGATTGAAGTCACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAGTCTT
* * *
9107297 ATCTCCCTGAAGTTGCAGTGGAGTAAACTAAAGAT-ATTCAA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TCA--CAAGTCTT
* ** * * *
9107342 ATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGCTGAATTACAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-T-CA-CA-AG-TCTT
* * * * *
9107391 ATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGTCATTAA-CCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCA-CAAGTCTT
* * * **
9107435 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAGTCTT
* * ** * * *
9107479 ATCTCCTTGAAGTCGCAGTGGAACAGACTAAAGAT-AGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TCA-CAAGTCTT
* * **
9107524 ATTTCTCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
9107557 CTATAAATTA
Statistics
Matches: 204, Mismatches: 45, Indels: 21
0.76 0.17 0.08
Matches are distributed among these distances:
43 2 0.01
44 91 0.45
45 66 0.32
46 6 0.03
47 6 0.03
48 1 0.00
49 32 0.16
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAGTCTT
Found at i:9107610 original size:137 final size:137
Alignment explanation
Indices: 9107469--9107762 Score: 435
Period size: 137 Copynumber: 2.1 Consensus size: 137
9107459 AGGTTAAAAC
* * * *
9107469 CACAAGTCTTATCTCCTTGAAGTCGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCTCTGA
1 CACAAGTCTTATCTCCTTGAAGTCACAATGGAACAGACTAAAGATAGCAAATCTCATTTCCCTGA
** * *
9107534 AGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGATCTCATCTCTCTAAAGTTGCAATAGAGT
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAGAGC
9107599 AGATCAA
131 AGATCAA
* * *
9107606 CACAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGATAGCAAATCTCATTTCCCTGA
1 CACAAGTCTTATCTCCTTGAAGTCACAATGGAACAGACTAAAGATAGCAAATCTCATTTCCCTGA
* *
9107671 AGTTGTAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAATAGAGC
66 AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAGAGC
9107736 AGATCAA
131 AGATCAA
* ** *
9107743 AACAAACCCTATCTCCTTGA
1 CACAAGTCTTATCTCCTTGA
9107763 GATTGCAGTG
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 139 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (137 bp):
CACAAGTCTTATCTCCTTGAAGTCACAATGGAACAGACTAAAGATAGCAAATCTCATTTCCCTGA
AGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAGAGC
AGATCAA
Found at i:9107683 original size:182 final size:181
Alignment explanation
Indices: 9107287--9107687 Score: 434
Period size: 182 Copynumber: 2.2 Consensus size: 181
9107277 TGATTGAAGT
* * ** * *
9107287 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAAACTAAAGATATTCAATCTTATTTCCCTGA
1 CACAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATATGCAATCTTATTTCCCTGA
* * * * * * *
9107352 AGTTGCAGTGGAACAGATTGGAGCTGAATTACAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAG
66 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTCATCTCCCTAAAGTTGCAATAGAGCAG
* * * **
9107417 ATCGAAGTCATTAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAC
131 ATCGAAG-CATCAACCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAAC
* * * * *
9107469 CACAAGTCTTATCTCCTTGAAGTCGCAGTGGAACAGACTAAAGATA-GCAAATCTTATTTCTCTG
1 CACAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATATGC-AATCTTATTTCCCTG
* *
9107533 AAGTTGCAGTGGAACAGATTGAAGCTATAAATTATAGATCTCATCTCTCTAAAGTTGCAATAGAG
65 AAGTTGCAGTGGAACAGATTGAAGC--TAAATTACAGATCTCATCTCCCTAAAGTTGCAATAGAG
* *
9107598 TAGATC-AA-CA-CAAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAGA-
128 CAGATCGAAGCATCAA-CCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAA-AC
* * *
9107650 TAGCAAATCTCATTTCCCTGAAGTTGTAGTGGAACAGA
1 CA-CAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGA
9107688 TTGAAGCTAT
Statistics
Matches: 183, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
180 2 0.01
181 35 0.19
182 109 0.60
183 2 0.01
184 35 0.19
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (181 bp):
CACAAATCTCATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATATGCAATCTTATTTCCCTGA
AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTCATCTCCCTAAAGTTGCAATAGAGCAG
ATCGAAGCATCAACCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAAAC
Found at i:9109419 original size:28 final size:28
Alignment explanation
Indices: 9109387--9109448 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
9109377 ACATATTAAC
*
9109387 ATTATACCATGTATATA-ATTTTATAA-AT
1 ATTATA-CATATATATATATTTT-TAATAT
*
9109415 ATTATATATATATATATATTTTTAATAT
1 ATTATACATATATATATATTTTTAATAT
9109443 ATTATA
1 ATTATA
9109449 TATTGTGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTATACATATATATATATTTTTAATAT
Found at i:9109449 original size:28 final size:27
Alignment explanation
Indices: 9109398--9109451 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
9109388 TTATACCATG
9109398 TATATAATTTTATAAATATTATATATA
1 TATATAATTTTATAAATATTATATATA
9109425 TATATATATTTT-TAATATATTATATAT
1 TATATA-ATTTTATAA-ATATTATATAT
9109452 TGTGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATAATTTTATAAATATTATATATA
Found at i:9110538 original size:132 final size:132
Alignment explanation
Indices: 9110301--9110540 Score: 363
Period size: 132 Copynumber: 1.8 Consensus size: 132
9110291 GGAGTCGATG
* * *
9110301 TTCGATGTTTAGCAATTCGGGAAATCTTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCCCA
1 TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
* * *
9110366 AAATAATCGAATATCTCTTTAGAATTTCGTTCATATTTTCTAAAAACTTTTTAAAACGAAGGAAA
66 AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAAAAACTTTTTAAAACGAAGGAAA
9110431 TA
131 TA
* * * *
9110433 TTCGATGTTCGGCAATTCGGGGAATCATGCCCTATCGTGCAGGGTTGCAATTTCTTGTTTGCGCA
1 TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
* * *
9110498 AAATAATCGAATATCCCTTTGGAATTTCATTCGTGGTTTCTAA
66 AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAA
9110541 GGCGAGGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 95 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (132 bp):
TTCGATGTTCAGCAATTCGGGAAATCATGCCCTATCGTGCAGGGTTGCAATTTCTCGTTTGCCCA
AAATAATCGAATATCCCTTTAGAATTTCATTCATAGTTTCTAAAAACTTTTTAAAACGAAGGAAA
TA
Found at i:9114231 original size:46 final size:46
Alignment explanation
Indices: 9113910--9114230 Score: 570
Period size: 46 Copynumber: 7.0 Consensus size: 46
9113900 TTTCTGTCAT
** *
9113910 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
** * *
9113956 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
9114002 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
9114048 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
9114094 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
9114140 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
9114186 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
9114231 GAGAGCACAC
Statistics
Matches: 267, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 267 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:9117537 original size:21 final size:21
Alignment explanation
Indices: 9117511--9117551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9117501 ATCTGCTCAA
* *
9117511 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9117532 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9117552 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9124738 original size:26 final size:26
Alignment explanation
Indices: 9124706--9124773 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
9124696 TCCTGGTTCA
9124706 TACGAGCTCTCCTTGTGAGCTAGATC
1 TACGAGCTCTCCTTGTGAGCTAGATC
* * *
9124732 TATGAGCTC-CTCTTGCGAGCTAGGTC
1 TACGAGCTCTC-CTTGTGAGCTAGATC
9124758 TACGAGCT-TCCCTTGT
1 TACGAGCTCT-CCTTGT
9124774 TGTCCTCTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 1 0.03
26 32 0.94
27 1 0.03
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (26 bp):
TACGAGCTCTCCTTGTGAGCTAGATC
Found at i:9135162 original size:54 final size:53
Alignment explanation
Indices: 9135080--9135187 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 53
9135070 CAATACAGAG
9135080 TAGGGAAAGTTTCAACAAACCTCCTCCCAGCAACAATATATTGTTCCTCGCCA
1 TAGGGAAAGTTTCAACAAACCTCCTCCCAGCAACAATATATTGTTCCTCGCCA
*
9135133 NTAGGGAAAGTTTCAACTAACCTCCTCCCAGCAACAATATATTGTTCCTCGCCA
1 -TAGGGAAAGTTTCAACAAACCTCCTCCCAGCAACAATATATTGTTCCTCGCCA
9135187 T
1 T
9135188 TCGTGATCAC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (53 bp):
TAGGGAAAGTTTCAACAAACCTCCTCCCAGCAACAATATATTGTTCCTCGCCA
Found at i:9139701 original size:23 final size:24
Alignment explanation
Indices: 9139657--9139703 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9139647 AAGTATATAA
9139657 AAGATTATCCGACCCATTTAGAAT
1 AAGATTATCCGACCCATTTAGAAT
* *
9139681 AAGATTATGCGA-TCATTTAGAAT
1 AAGATTATCCGACCCATTTAGAAT
9139704 CGAGCCTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (24 bp):
AAGATTATCCGACCCATTTAGAAT
Found at i:9141123 original size:5 final size:6
Alignment explanation
Indices: 9141090--9141130 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
9141080 TTTAATTTTA
9141090 TTATTT TTATTT CTTAAATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT -TT--ATTT TTATTT TTATTT TTATTT TT
9141131 CAGAATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 24 0.75
7 2 0.06
8 2 0.06
9 4 0.12
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:9142186 original size:30 final size:29
Alignment explanation
Indices: 9142162--9142243 Score: 119
Period size: 30 Copynumber: 2.8 Consensus size: 29
9142152 TTTTCAGGCC
*
9142162 TATCGATGCTTTTCCTTGGTTTTTCCCGGG
1 TATCGGTGCTTTTCCTTGGTTTTT-CCGGG
* *
9142192 TATCGGTGCTTTTCCTTGGCTTGTCCCGGG
1 TATCGGTGCTTTTCCTTGG-TTTTTCCGGG
9142222 TATCGGTGCTTTTCCTTGGTTT
1 TATCGGTGCTTTTCCTTGGTTT
9142244 CTCCCTGCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 2 0.04
30 42 0.89
31 3 0.06
ACGTcount: A:0.05, C:0.23, G:0.26, T:0.46
Consensus pattern (29 bp):
TATCGGTGCTTTTCCTTGGTTTTTCCGGG
Found at i:9144238 original size:44 final size:44
Alignment explanation
Indices: 9144206--9144885 Score: 132
Period size: 44 Copynumber: 15.5 Consensus size: 44
9144196 TCCACTGCCA
* *
9144206 AATAC-AG-AGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTCACGCC
* * * *
9144248 AATACGTGAAGACAAGATCTATTTTCTGCGATCTACTTCGCCACC
1 AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTC-ACGCC
* * * ** * * * *
9144293 AATATGGGAAGATAAGATCGGC-ATCTTCGATCCACTTC-CTACC
1 AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTCAC-GCC
* * * * * * *
9144336 AATA-TAGGAAGATAGGGTCTGA-TATCTTCGATCTTCTTCACGCC
1 AATACGA-GAAGACAAGATCT-ACTTTCTGCGATCTACTTCACGCC
* * * * * *
9144380 AATAC-ATGAAGGCAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1 AATACGA-GAAGACAAGATCTACTTTCTGCGATCTACTTC-ACGCC
* * * * * **
9144425 AATATGGGAAGACAAGATCTGC-ATCTTG-GATCCACTTC-CTATC
1 AATACGAGAAGACAAGATCTACTTTC-TGCGATCTACTTCAC-GCC
* * * * * *
9144468 AATA-TAGGAAGATAGGATCTGC-TACATTCGATCTACTTCACGCC
1 AATACGA-GAAGACAAGATCTACTTTC-TGCGATCTACTTCACGCC
** *
9144512 AATAC-ATGAAGACAAGATCTGTTTTCTGCGATCTACTTTGC-CACC
1 AATACGA-GAAGACAAGATCTACTTTCTGCGATCTAC-TT-CACGCC
* * ** * * * *
9144557 AATATGGGAAGACAAGATCGGC-ATCTTCGATCCACTTC-CTACC
1 AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTCAC-GCC
* * * * * **
9144600 AATA-TAGGAAGATAGGGTCTGA-TATCTTTGATCTACTTCACGCC
1 AATACGA-GAAGACAAGATCT-ACTTTCTGCGATCTACTTCACGCC
* * * * * *
9144644 AATAC-ATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACC
1 AATACGA-GAAGACAAGATCTACTTTCTGCGATCTACTTC-ACGCC
* * * ** * * *
9144689 AATATGGGAAGACAAGATCTGCTTTCTTTGACCTACTTCGCCACC
1 AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTC-ACGCC
* * * * * *
9144734 AATA-TAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACC
1 AATACGA-GAAGACAAGATCTACTTTCTGCGATCTACTTCAC-GCC
* * * * * **
9144777 AATA-TAGGAAGATAGGATCT-GTTATATTTGATCTACTTCACGCC
1 AATACGA-GAAGACAAGATCTACTT-TCTGCGATCTACTTCACGCC
* * * *
9144821 AATAC-ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
1 AATACGA-GAAGACAAGATCTACTTTCTGCGATCTACTTC-ACGCC
* *
9144866 AATATGGGAAGACAAGATCT
1 AATACGAGAAGACAAGATCT
9144886 GCATCTTCGA
Statistics
Matches: 477, Mismatches: 121, Indels: 77
0.71 0.18 0.11
Matches are distributed among these distances:
42 10 0.02
43 78 0.16
44 238 0.50
45 150 0.31
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
AATACGAGAAGACAAGATCTACTTTCTGCGATCTACTTCACGCC
Found at i:9144465 original size:132 final size:132
Alignment explanation
Indices: 9144228--9144771 Score: 779
Period size: 132 Copynumber: 4.1 Consensus size: 132
9144218 AGATCTGCTT
* **
9144228 TCTTCGATCTACTTCACGCCAATACGTGAAGACAAGATCTATTTTCTGCGATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
*
9144293 AATATGGGAAGATAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGA
66 AATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGA
9144358 TA
131 TA
* * * *
9144360 TCTTCGATCTTCTTCACGCCAATACATGAAGGCAAGATCTGCTTTCTTCGATCTGCTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
* * * * *
9144425 AATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGC
66 AATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGA
9144490 TA
131 TA
* *
9144492 -CATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTTGCCAC
1 TC-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
9144556 CAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTG
65 CAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTG
9144621 ATA
130 ATA
* * * *
9144624 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
* * * * * * *
9144689 AATATGGGAAGACAAGATCTGCTTTCTTTGA-CCTACTTCGCCACCAATATAGGAAGACAAGATC
66 AATATGGGAAGACAAGATCGGC-ATCTTCGATCC-ACTTC-CTACCAATATAGGAAGATAGGGTC
*
9144753 TG-CA
128 TGATA
*
9144757 TCTTCGATCCACTTC
1 TCTTCGATCTACTTC
9144772 CTACCAATAT
Statistics
Matches: 367, Mismatches: 40, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 318 0.87
133 26 0.07
134 22 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
AATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGA
TA
Found at i:9144689 original size:264 final size:265
Alignment explanation
Indices: 9144213--9144771 Score: 910
Period size: 264 Copynumber: 2.1 Consensus size: 265
9144203 CCAAATACAG
* *
9144213 AGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACGTGAAGACAAGATCTATTTTCTGCG
1 AGACAAGATCTGC-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTGCG
*
9144278 ATCTACTTCGCCACCAATATGGGAAGATAAGATCGGCATCTTCGATCCACTTCCTACCAATATAG
65 ATCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAG
* *
9144343 GAAGATAGGGTCTGATATCTTCGATCTTCTTCACGCCAATACATGAAGGCAAGATCTGCTTTCTT
130 GAAGATAGGGTCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* *
9144408 CGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTGGATCC-ACTTC-CTATCAA
195 CGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTGGA-CCTACTTCGCCACCAA
9144470 TATAGGA
259 TATAGGA
* * *
9144477 AGATAGGATCTGC-TACATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGC
1 AGACAAGATCTGCAT-C-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTGC
*
9144541 GATCTACTTTGCCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATA
64 GATCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATA
* *
9144606 GGAAGATAGGGTCTGATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTT
129 GGAAGATAGGGTCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
* *
9144671 TCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTTGACCTACTTCGCCACCAA
194 TCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTGGACCTACTTCGCCACCAA
9144736 TATAGGA
259 TATAGGA
*
9144743 AGACAAGATCTGCATCTTCGATCCACTTC
1 AGACAAGATCTGCATCTTCGATCTACTTC
9144772 CTACCAATAT
Statistics
Matches: 272, Mismatches: 17, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
262 1 0.00
263 1 0.00
264 222 0.82
265 23 0.08
266 24 0.09
267 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (265 bp):
AGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTGCGA
TCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGG
AAGATAGGGTCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
GATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTGGACCTACTTCGCCACCAATA
TAGGA
Found at i:9144734 original size:177 final size:177
Alignment explanation
Indices: 9144519--9144947 Score: 612
Period size: 177 Copynumber: 2.4 Consensus size: 177
9144509 GCCAATACAT
* * * *
9144519 GAAGACAAGATCTGTTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCGGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCGGCATCTT
* *
9144584 CGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGATATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATATTTGATCTACTTCACGCCAATAC
* * * *
9144649 ATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACCAATATGG
131 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
** *
9144696 GAAGACAAGATCTGCTTTCTTTGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCGGCATCTT
*
9144761 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGTTATATTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATATTTGATCTACTTCACGCCAATAC
9144826 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
131 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
* * * * * * * *
9144873 GAAGACAAGATCTGC-ATCTTCGATCC-ACTTC-CTACCAATATAGAAAGATAGGATCTGCTACC
1 GAAGACAAGATCTGCTTTCTGCGA-CCTACTTCGCCACCAATATAGGAAGACAAGATCGGC-ATC
*
9144935 TTCGATCTACTTC
64 TTCGATCCACTTC
9144948 TTGCCCCGGG
Statistics
Matches: 228, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
175 23 0.10
176 25 0.11
177 180 0.79
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (177 bp):
GAAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCGGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATATTTGATCTACTTCACGCCAATAC
ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
Found at i:9144771 original size:309 final size:309
Alignment explanation
Indices: 9144387--9144947 Score: 951
Period size: 309 Copynumber: 1.8 Consensus size: 309
9144377 GCCAATACAT
* * * *
9144387 GAAGGCAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTT
* *
9144452 GGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATAC
* * *
9144517 ATGAAGACAAGATCTGTTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCGGCATC
131 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATC
* * * *
9144582 TTCGATCCACTTCCTACCAATATAGGAAGATAGGGTCTGATATCTTTGATCTACTTCACGCCAAT
196 TTCGATCCACTTCCTACCAATATAGAAAGATAGGATCTGATACCTTCGATCTACTTCACGCCAAT
9144647 ACATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACCAATATGG
261 ACATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACCAATATGG
*
9144696 GAAGACAAGATCTGCTTTCTTTGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTT
* * *
9144761 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGTTATATTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATAC
*
9144826 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
131 ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATC
*
9144891 TTCGATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTC
196 TTCGATCCACTTCCTACCAATATAGAAAGATAGGATCTGATACCTTCGATCTACTTC
9144948 TTGCCCCGGG
Statistics
Matches: 233, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
309 233 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (309 bp):
GAAGACAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATAC
ATAAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCGGCATC
TTCGATCCACTTCCTACCAATATAGAAAGATAGGATCTGATACCTTCGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGCTTTTTTCGATCTGCTTCGCCACCAATATGG
Found at i:9144834 original size:132 final size:132
Alignment explanation
Indices: 9144697--9144947 Score: 421
Period size: 132 Copynumber: 1.9 Consensus size: 132
9144687 CCAATATGGG
**
9144697 AAGACAAGATCTGCTTTCTTTGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTC
1 AAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTC
* * * *
9144762 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGTTATATTTGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATACA
9144827 TA
131 TA
* *
9144829 AAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
1 AAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTC
*
9144894 GATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTC
66 GATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACATTCGATCTACTTC
9144948 TTGCCCCGGG
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 110 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (132 bp):
AAGACAAGATCTGCTTTCTGCGACCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTC
GATCCACTTCCTACCAATATAGAAAGATAGGATCTGCTACATTCGATCTACTTCACGCCAATACA
TA
Found at i:9145198 original size:134 final size:134
Alignment explanation
Indices: 9144955--9145201 Score: 424
Period size: 134 Copynumber: 1.8 Consensus size: 134
9144945 TTCTTGCCCC
*
9144955 GGGAGATAGAACTATCAGCTTCAATATACTCTACTGTGGTCAGGGAGGTAAAATTTACCATCTTT
1 GGGAGATAGAACTATCAGCTTCAATATACTCTACTGTGGTCAGGGAGGTAAAATCTACCATCTTT
9145020 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
9145085 TACA
131 TACA
* * * * *
9145089 GGGAGATAGAATTATCGGCTTCAATGTACTCTACTGTTGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAACTATCAGCTTCAATATACTCTACTGTGGTCAGGGAGGTAAAATCTACCATCTTT
9145154 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTG-ATATCTTCAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA-ATCTTCAA
9145202 CCAGCTCTGC
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
133 1 0.01
134 105 0.99
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (134 bp):
GGGAGATAGAACTATCAGCTTCAATATACTCTACTGTGGTCAGGGAGGTAAAATCTACCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:9153562 original size:40 final size:40
Alignment explanation
Indices: 9153502--9153581 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
9153492 AATAACTGCT
*
9153502 TTAATTGGTTCATCATAGTGTTCTGGGATTCTAACATGTC
1 TTAATTGGTTCATCACAGTGTTCTGGGATTCTAACATGTC
9153542 TTAATTGGTTCATCACAGTGTTCTGGGATTCTAACATGTC
1 TTAATTGGTTCATCACAGTGTTCTGGGATTCTAACATGTC
9153582 CTGCTGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (40 bp):
TTAATTGGTTCATCACAGTGTTCTGGGATTCTAACATGTC
Found at i:9157569 original size:106 final size:106
Alignment explanation
Indices: 9157384--9157584 Score: 357
Period size: 106 Copynumber: 1.9 Consensus size: 106
9157374 AAGCTTTAAG
*
9157384 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
9157449 TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
* *
9157490 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
* *
9157555 TTTTCCAAACGCGAAATGTTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTACCTTATTTA
9157585 GAAAAATTCT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
Found at i:9164825 original size:3 final size:3
Alignment explanation
Indices: 9164817--9164860 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9164807 TGAAAATAAA
9164817 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9164861 ATAGAAAAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9177516 original size:19 final size:19
Alignment explanation
Indices: 9177488--9177530 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9177478 ATTAATTTAT
*
9177488 AAATTGTAATGAAAAT-TAA
1 AAATTATAAT-AAAATATAA
*
9177507 AAATTATAATAAATTATAA
1 AAATTATAATAAAATATAA
9177526 AAATT
1 AAATT
9177531 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATTATAATAAAATATAA
Found at i:9178939 original size:16 final size:17
Alignment explanation
Indices: 9178906--9178943 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9178896 GATAATTTAG
* *
9178906 TTTTTAACATTTACATT
1 TTTTTAAAAATTACATT
9178923 TTTTTAAAAATTA-ATT
1 TTTTTAAAAATTACATT
9178939 TTTTT
1 TTTTT
9178944 TTATATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAAAAATTACATT
Found at i:9179230 original size:31 final size:31
Alignment explanation
Indices: 9179195--9179256 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
9179185 TAAAATGGGG
*
9179195 TTTTAGGTTCCTTAAAAGTTGG-AGAAATTTT
1 TTTTAGGTCCCTTAAAAGTTGGTA-AAATTTT
9179226 TTTTAGGTCCCTTAAAAGTTGGTAAAATTTT
1 TTTTAGGTCCCTTAAAAGTTGGTAAAATTTT
9179257 ATTCTTAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (31 bp):
TTTTAGGTCCCTTAAAAGTTGGTAAAATTTT
Found at i:9192742 original size:41 final size:41
Alignment explanation
Indices: 9192691--9192778 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
9192681 TTGTGCAAGA
9192691 TTTC-TTTCTTATGATTTTTAGAAGTAGTTTTCTTCTCGAT
1 TTTCTTTTCTTATGATTTTTAGAAGTAGTTTTCTTCTCGAT
9192731 TTTCTTTTCTTATGATTTTTAGAAGTAGTTTTCTTCTCGAT
1 TTTCTTTTCTTATGATTTTTAGAAGTAGTTTTCTTCTCGAT
9192772 TTTCTTT
1 TTTCTTT
9192779 AAGGAGTCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.16, C:0.12, G:0.11, T:0.60
Consensus pattern (41 bp):
TTTCTTTTCTTATGATTTTTAGAAGTAGTTTTCTTCTCGAT
Found at i:9194805 original size:21 final size:19
Alignment explanation
Indices: 9194767--9194818 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
9194757 TTATGTTATT
9194767 TTTTTAAATT-TTTT-TAA
1 TTTTTAAATTATTTTATAA
9194784 TTTTTAATATTTATTTTATAA
1 TTTTTAA-A-TTATTTTATAA
9194805 TTTTTAAATTATTT
1 TTTTTAAATTATTT
9194819 GTTGACGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.23
18 1 0.03
19 8 0.26
20 5 0.16
21 10 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAAATTATTTTATAA
Found at i:9195756 original size:69 final size:69
Alignment explanation
Indices: 9195645--9195783 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
9195635 AGTCCACCTC
9195645 ATATTTTCAATTCCTAAATTAGATCTTTTGAGACTTTGGTTATTTGACCGAAGTACTACCTAAGT
1 ATATTTTCAATTCCTAAATTAGATCTTTTGAGACTTTGGTTATTTGACCGAAGTACTACCTAAGT
9195710 TTGA
66 TTGA
9195714 ATATTTTCAATTCCTAAATTAGATCTTTTGAGACTTTGGTTATTTGACCGAAGTACTACCTAAGT
1 ATATTTTCAATTCCTAAATTAGATCTTTTGAGACTTTGGTTATTTGACCGAAGTACTACCTAAGT
9195779 TTGA
66 TTGA
9195783 A
1 A
9195784 AGTTATTGAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (69 bp):
ATATTTTCAATTCCTAAATTAGATCTTTTGAGACTTTGGTTATTTGACCGAAGTACTACCTAAGT
TTGA
Found at i:9197633 original size:3 final size:3
Alignment explanation
Indices: 9197625--9197664 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
9197615 ATACGTAGGT
9197625 ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9197665 CAAAATCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9197901 original size:21 final size:19
Alignment explanation
Indices: 9197876--9197914 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
9197866 TCTTTTTTAA
*
9197876 AATCGTAAATAAGTAAAAAAT
1 AATCG-AAA-AAGGAAAAAAT
9197897 AATCGAAAAAGGAAAAAA
1 AATCGAAAAAGGAAAAAA
9197915 AAACAGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.15
Consensus pattern (19 bp):
AATCGAAAAAGGAAAAAAT
Found at i:9198117 original size:23 final size:22
Alignment explanation
Indices: 9198073--9198131 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
9198063 TAAAGGGTAT
* *
9198073 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
9198094 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
9198117 TTACATATCATATCT
1 TTACAAATCATATCT
9198132 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:9198134 original size:19 final size:19
Alignment explanation
Indices: 9198087--9198165 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
9198077 AAATTAAATC
*
9198087 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
9198107 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
9198129 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
9198150 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
9198166 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:9198147 original size:21 final size:21
Alignment explanation
Indices: 9198121--9198164 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9198111 CTAAGATTAC
9198121 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9198142 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
9198163 AT
1 AT
9198165 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:9198835 original size:217 final size:219
Alignment explanation
Indices: 9198524--9198948 Score: 545
Period size: 217 Copynumber: 1.9 Consensus size: 219
9198514 TATGCCCCAC
* * * * *
9198524 TGCAATTTCAGGGGGATAAAACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TGCAATTTCAGGAGGATAAAACTTGATTACTTGACTCTGCTCCACTACAACTTCAGGGAGATAAG
* ** ***
9198589 ACCTAATGTGATCTACTCTACTACAACTTCAAAGAGATAAGATCTGTGATTTTAA-TCTGCTCCA
66 AACTAATGCAATCTACTCTACTACAACTTCAAAGAGATAAGATCCAAGATTTTAATTC-GCTCCA
* * * *
9198653 CTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
130 CTGCAACCTCAGAGAGATAGGATTATCGACTTTAATCTACTCCACTGCAACTTCAGGGAGATAAA
9198718 ATTCGCCATCTTCAGTCTGCCTCAT
195 ATTCGCCATCTTCAGTCTGCCTCAT
* *
9198743 TGCAACTTT-AGGAGGATAAGACTTGATTACTT-ACTCTGCTCCACTATAACTTCAGGGAGATAA
1 TGCAA-TTTCAGGAGGATAAAACTTGATTACTTGACTCTGCTCCACTACAACTTCAGGGAGATAA
* * * * * *
9198806 -AACTAGATGCAATCTGCT-TTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATTCGCTTC
65 GAACTA-ATGCAATCTACTCTACTACAACTTCAAAGAGATAAGATCCAAGATTTTAATTCGCTCC
* *
9198869 ACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
129 ACTGCAACCTCAGAGAGATAGGATTATCGACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* *
9198934 AATTTGTCATCTTCA
194 AATTCGCCATCTTCA
9198949 ATGTTAGGAA
Statistics
Matches: 176, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
217 110 0.62
218 39 0.22
219 24 0.14
220 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (219 bp):
TGCAATTTCAGGAGGATAAAACTTGATTACTTGACTCTGCTCCACTACAACTTCAGGGAGATAAG
AACTAATGCAATCTACTCTACTACAACTTCAAAGAGATAAGATCCAAGATTTTAATTCGCTCCAC
TGCAACCTCAGAGAGATAGGATTATCGACTTTAATCTACTCCACTGCAACTTCAGGGAGATAAAA
TTCGCCATCTTCAGTCTGCCTCAT
Found at i:9199305 original size:44 final size:44
Alignment explanation
Indices: 9199239--9199740 Score: 283
Period size: 44 Copynumber: 11.7 Consensus size: 44
9199229 ACTATTTTCC
* * *
9199239 ACCTACTCCATTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGGTTCACAATCTTCA
**
9199283 ACCTATTCCACTGCTGACCAGGGAGATA-GGACCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTC-ACAATCTTCA
* * ** *
9199327 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
*
9199371 ACCTATTCCACTGCTGACCA-GG-G--AGGGTT--CAATCTT-T
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
* * * * ** * *
9199408 TCC-ATTGCA--AC--ATCCA-GGCGATAGGACT-A-ATGTCTTCG
1 ACCTATTCCACTGCTGA-CCAGGGAGATAGGGTTCACA-ATCTTCA
* * * ** * ** * * * * *
9199446 ATCTGCTT-CACTGTCAGTGCAGGAAGGCA-AGATCTACTATTTTCC
1 ACCT-ATTCCACTG-CTGACCAGGGAGATAGGGTTC-ACAATCTTCA
* * *
9199491 ACCTACTCCATTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGGTTCACAATCTTCA
**
9199535 ACCTATTCCACTGCTGACCAGGGAGATA-GGACCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTC-ACAATCTTCA
* * ** *
9199579 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
** * *
9199623 ACCTATTCCACTGCTGACCA-GGAGATAGAATTCACAGTCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
* * * ** * *
9199666 ACATATTTCACTGTTGTTCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
*
9199710 ACCTATTCCACTGTTGACCAGGGAGATAGGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGG
9199741 CTGGGGTCAT
Statistics
Matches: 346, Mismatches: 84, Indels: 56
0.71 0.17 0.12
Matches are distributed among these distances:
32 1 0.00
33 5 0.01
34 2 0.01
36 10 0.03
37 6 0.02
38 8 0.02
39 2 0.01
40 6 0.02
42 2 0.01
43 46 0.13
44 239 0.69
45 19 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGGTTCACAATCTTCA
Found at i:9199350 original size:88 final size:88
Alignment explanation
Indices: 9199245--9199739 Score: 389
Period size: 88 Copynumber: 5.8 Consensus size: 88
9199235 TTCCACCTAC
* * * *
9199245 TCCATTGCTGCTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
1 TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
9199310 AGGACCTACAATCTTCAATCTAT
66 AGGACCTACAATCTTCAATCTAT
* *
9199333 TCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAG--
1 TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
* * *
9199396 -GG---TTCAATCTT--TTCCAT
66 AGGACCTACAATCTTCAATCTAT
* * * * * * * * * ** *
9199413 TGCAAC--AT--CCA-GGCGATAGGACT-A-ATGTCTTCGATCTGCTT-CACTGTCAGTGCAGGA
1 T-CCACTGCTGCCCAGGGAGATAGGATTCACA-ATCTTCAACCT-ATTCCACTG-CTGACCAGGG
** * * * * * * *
9199470 AGGCAAGATCTACTATTTTCCACCTAC
62 AGATAGGACCTACAATCTTCAATCTAT
* * * *
9199497 TCCATTGCTGCTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
1 TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
9199562 AGGACCTACAATCTTCAATCTAT
66 AGGACCTACAATCTTCAATCTAT
* *
9199585 TCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCA-GGAGAT
1 TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
** * *
9199649 A-GAATTCACAGTCTTTAA-CATAT
66 AGGACCT-ACAATCTTCAATC-TAT
* * ** * *
9199672 TTCACTGTTGTTCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGACCAGGGAGAT
1 TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
9199737 AGG
66 AGG
9199740 GCTGGGGTCA
Statistics
Matches: 309, Mismatches: 74, Indels: 47
0.72 0.17 0.11
Matches are distributed among these distances:
74 1 0.00
75 13 0.04
76 19 0.06
77 3 0.01
79 2 0.01
80 5 0.02
81 3 0.01
82 14 0.05
83 2 0.01
84 3 0.01
85 3 0.01
86 4 0.01
87 71 0.23
88 151 0.49
89 15 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
TCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
AGGACCTACAATCTTCAATCTAT
Found at i:9199588 original size:252 final size:252
Alignment explanation
Indices: 9199143--9199644 Score: 1004
Period size: 252 Copynumber: 2.0 Consensus size: 252
9199133 TCGCCATCAT
9199143 GGGTTCAATCTTTTCCATTGCAACATCCAGGCGATAGGACTAATGTCTTCGATCTGCTTCACTGT
1 GGGTTCAATCTTTTCCATTGCAACATCCAGGCGATAGGACTAATGTCTTCGATCTGCTTCACTGT
9199208 CAGTGCAGGAAGGCAAGATCTACTATTTTCCACCTACTCCATTGCTGCTCAGGGAGATAGGGTTC
66 CAGTGCAGGAAGGCAAGATCTACTATTTTCCACCTACTCCATTGCTGCTCAGGGAGATAGGGTTC
9199273 ACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCAC
131 ACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCAC
9199338 TGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGA
196 TGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGA
9199395 GGGTTCAATCTTTTCCATTGCAACATCCAGGCGATAGGACTAATGTCTTCGATCTGCTTCACTGT
1 GGGTTCAATCTTTTCCATTGCAACATCCAGGCGATAGGACTAATGTCTTCGATCTGCTTCACTGT
9199460 CAGTGCAGGAAGGCAAGATCTACTATTTTCCACCTACTCCATTGCTGCTCAGGGAGATAGGGTTC
66 CAGTGCAGGAAGGCAAGATCTACTATTTTCCACCTACTCCATTGCTGCTCAGGGAGATAGGGTTC
9199525 ACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCAC
131 ACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCAC
9199590 TGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGG
196 TGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGG
9199645 AGATAGAATT
Statistics
Matches: 250, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 250 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (252 bp):
GGGTTCAATCTTTTCCATTGCAACATCCAGGCGATAGGACTAATGTCTTCGATCTGCTTCACTGT
CAGTGCAGGAAGGCAAGATCTACTATTTTCCACCTACTCCATTGCTGCTCAGGGAGATAGGGTTC
ACGATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCAC
TGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGA
Found at i:9199713 original size:87 final size:88
Alignment explanation
Indices: 9199497--9199738 Score: 310
Period size: 87 Copynumber: 2.8 Consensus size: 88
9199487 TTCCACCTAC
* * *
9199497 TCCATTGCTGCTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
1 TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
*
9199562 AGGACCTACAATCTTCAATCTAT
66 AGAACCTACAATCTTCAATCTAT
* * *
9199585 TCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCA-GGAGAT
1 TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
* * *
9199649 AGAA-TTCACAGTCTTTAA-CATAT
66 AGAACCT-ACAATCTTCAATC-TAT
* * * * *
9199672 TTCACTGTTGTTCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGACCAGGGAGAT
1 TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
9199737 AG
66 AG
9199739 GGCTGGGGTC
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 2 0.02
87 71 0.53
88 60 0.45
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
AGAACCTACAATCTTCAATCTAT
Found at i:9199873 original size:88 final size:88
Alignment explanation
Indices: 9199739--9200589 Score: 1216
Period size: 88 Copynumber: 9.7 Consensus size: 88
9199729 AGGGAGATAG
* * * * * * *
9199739 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGCAAGAAGGAAAGATCTGTTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9199804 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
** * * * * * *
9199827 GGCTGGTGTCTTCGATCTATTTCGCTATCGGCGCAGGAAGGCAAGATCTTCTATTCTCAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* * *
9199892 TCCGCTACAACCCAAGGAGGAAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
9199915 GGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9199980 TCCGCTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* ** *
9200003 GGCTGGTGACTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGATCTGCTAATTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9200068 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
9200091 GGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9200156 TCCGCTGCAACCCAGTGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
9200179 GGCTAGTGTCTTTGATCTGCTTAGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAGCTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
9200244 TCCACTGCAACACAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
9200267 GGCTGGTGACTTCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9200332 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
9200355 GGCTGGTGACTTCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
9200420 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
9200443 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
9200508 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * ** * *
9200531 GACTGGTGTCTTTGATCTGCTTAGCTGTCGACGCAGGAAGGCAAAATCTGTTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
9200590 CTGATCTGCT
Statistics
Matches: 684, Mismatches: 79, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 684 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:9200573 original size:44 final size:44
Alignment explanation
Indices: 9199917--9200574 Score: 185
Period size: 44 Copynumber: 15.0 Consensus size: 44
9199907 GGAGGAAAGG
* * **
9199917 CTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * * * *
9199961 TCTGCTAT-TTTTAGCCTGCTCCGCT-ACAACCCAGGGAGGCAAGG
1 -CTGGTGTCTTTGA-TCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * ** **
9200005 CTGGTGACTTCGATCTGCTTCATTGTCGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * *
9200049 TCTGCTAAT-TTT-AGCCTGCTCCGCTGT-AACCCAGGGAGGCAAGG
1 -CTGGT-GTCTTTGA-TCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * **
9200093 CTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
** * * * * * * * *
9200137 TCTACTATTTTTAACCTGCTCCGCTG-CAACCCAGTG-AGGCAAGG
1 -CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAG-GAAGGCAAGA
* * *
9200181 CTAGTGTCTTTGATCTGCTTAGCTGTCGGCGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * * * *
9200225 TCTGCTAT-TTTTAGCTTGCTCCACTG-CAACACAGGGAGGCAAGG
1 -CTGGTGTCTTTGATC-TGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * **
9200269 CTGGTGACTTCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * * * *
9200313 TCTGCTAT-TTTTAGCCTACTCCGCTGT-AACCCAGGGAGGCAAGG
1 -CTGGTGTCTTTGA-TCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * **
9200357 CTGGTGACTTCGATCTACTTCGTTGTCGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * * * *
9200401 TCTGCTAT-TTTTAGCCTACTCCGCTGT-AACCCAGGGAGGCAAGG
1 -CTGGTGTCTTTGA-TCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* **
9200445 CTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
* * * * * * * *
9200489 TCTGCTAT-TTTTAGCCTGCTCCGCTG-CAACCCAGGGAGGCAAGA
1 -CTGGTGTCTTTGA-TCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
*
9200533 CTGGTGTCTTTGATCTGCTTAGCTGTCGACGCAGGAAGGCAA
1 CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAA
9200575 AATCTGTTAT
Statistics
Matches: 402, Mismatches: 182, Indels: 59
0.63 0.28 0.09
Matches are distributed among these distances:
42 1 0.00
43 100 0.25
44 199 0.50
45 102 0.25
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (44 bp):
CTGGTGTCTTTGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGA
Found at i:9206781 original size:3 final size:3
Alignment explanation
Indices: 9206773--9206812 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
9206763 ATATGTAGGT
*
9206773 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9206813 CAAAATCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9206812 original size:12 final size:12
Alignment explanation
Indices: 9206775--9206826 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
9206765 ATGTAGGTAT
9206775 AATAATAATATATA
1 AATAATAATA-A-A
9206789 ATATAATAATAAA
1 A-ATAATAATAAA
*
9206802 AATAATAATAAC
1 AATAATAATAAA
9206814 AA-AATCAATAAA
1 AATAAT-AATAAA
9206826 A
1 A
9206827 TAGACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:9207264 original size:22 final size:21
Alignment explanation
Indices: 9207228--9207312 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 21
9207218 TAAAGGGTAT
* *
9207228 TTACAAATTAAATCTCTAAGA
1 TTACAAATCATATCTCTAAGA
9207249 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATC-TCTAAGA
*
9207272 TTACATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
* *
9207291 TTGCATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
9207310 TTA
1 TTA
9207313 TATATCCTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 27 0.47
21 4 0.07
22 15 0.26
23 11 0.19
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (21 bp):
TTACAAATCATATCTCTAAGA
Found at i:9207272 original size:23 final size:22
Alignment explanation
Indices: 9207228--9207286 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
9207218 TAAAGGGTAT
* *
9207228 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
9207249 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
9207272 TTACATATCATATCT
1 TTACAAATCATATCT
9207287 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
23 11 0.33
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:9207289 original size:19 final size:19
Alignment explanation
Indices: 9207242--9207318 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
9207232 AAATTAAATC
*
9207242 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
9207262 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
9207284 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
9207303 TCTAAGATTATATATC
1 TCTAAGATTACATATC
9207319 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
22 7 0.14
23 11 0.22
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:9213527 original size:40 final size:40
Alignment explanation
Indices: 9213479--9213866 Score: 740
Period size: 40 Copynumber: 9.7 Consensus size: 40
9213469 GCAAACACAT
* *
9213479 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213519 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
9213559 TTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213599 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213639 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213679 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213719 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213759 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213799 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
9213839 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
9213867 TCCAATGCTC
Statistics
Matches: 342, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 342 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:9217056 original size:30 final size:30
Alignment explanation
Indices: 9217021--9217078 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9217011 CTGGGCATTT
* *
9217021 CCACACGGGTTGGACACACGCCCGTGTGAG
1 CCACACGGGCTGGACACACGCCCATGTGAG
*
9217051 CCACACGGGCTGGACACATGCCCATGTG
1 CCACACGGGCTGGACACACGCCCATGTG
9217079 CTAGCTCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.34, G:0.31, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGACACACGCCCATGTGAG
Found at i:9219818 original size:22 final size:25
Alignment explanation
Indices: 9219792--9219846 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
9219782 TTTATAAATT
9219792 TAATTTAAAAG-ATA-TAAT-ACAA
1 TAATTTAAAAGTATATTAATAACAA
*
9219814 TAATTT-CAAGTATATTTAATAACAA
1 TAATTTAAAAGTATA-TTAATAACAA
9219839 TAATTTAA
1 TAATTTAA
9219847 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
24 4 0.15
25 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (25 bp):
TAATTTAAAAGTATATTAATAACAA
Found at i:9246894 original size:21 final size:22
Alignment explanation
Indices: 9246868--9246914 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9246858 CTCTGCTCAA
*
9246868 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
9246889 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
9246911 ACTC
1 ACTC
9246915 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:9251169 original size:14 final size:14
Alignment explanation
Indices: 9251150--9251178 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9251140 AGTAGTAAAC
9251150 TTTATAGTATTTTA
1 TTTATAGTATTTTA
9251164 TTTATAGTATTTTA
1 TTTATAGTATTTTA
9251178 T
1 T
9251179 AGTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTATAGTATTTTA
Found at i:9251195 original size:10 final size:10
Alignment explanation
Indices: 9251164--9251188 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9251154 TAGTATTTTA
9251164 TTTATAGTAT
1 TTTATAGTAT
9251174 TTTATAGTAT
1 TTTATAGTAT
9251184 TTTAT
1 TTTAT
9251189 TTTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTATAGTAT
Found at i:9252301 original size:26 final size:26
Alignment explanation
Indices: 9252271--9252355 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
9252261 TATATGCTTA
*
9252271 AATTTGAAATTTAATTCTTATACTTT
1 AATTTGAAATTTAATCCTTATACTTT
* * * * *
9252297 AATTTCAATTTTAGTCCTAATATGCTTA
1 AATTTGAAATTTAATCCT--TATACTTT
*
9252325 AATTTGAGATTTAATCCTTATACTTT
1 AATTTGAAATTTAATCCTTATACTTT
9252351 AATTT
1 AATTT
9252356 CTAGCATCAT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
26 25 0.56
28 20 0.44
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (26 bp):
AATTTGAAATTTAATCCTTATACTTT
Found at i:9252337 original size:28 final size:26
Alignment explanation
Indices: 9252261--9252355 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
9252251 TAGTCCTTTT
*
9252261 TATATGCTTAAATTTGAAATTTAATTC
1 TATATGCTTAAATTTG-AATTTAATCC
* * * *
9252288 T-TATACTTTAATTTCAATTTTAGTCC
1 TATATGCTTAAATTTGAA-TTTAATCC
9252314 TAATATGCTTAAATTTGAGATTTAATCC
1 T-ATATGCTTAAATTTGA-ATTTAATCC
* *
9252342 T-TATACTTTAATTT
1 TATATGCTTAAATTT
9252356 CTAGCATCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.04
26 29 0.55
27 1 0.02
28 20 0.38
29 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (26 bp):
TATATGCTTAAATTTGAATTTAATCC
Found at i:9254517 original size:19 final size:18
Alignment explanation
Indices: 9254493--9254538 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
9254483 AATAAAAGTA
9254493 TTTCTTTTCTTTTTTTCCT
1 TTTCTTTTCTTTTTTT-CT
**
9254512 TTTCTTCCCTTTTTTTCT
1 TTTCTTTTCTTTTTTTCT
9254530 TTT-TTTTCT
1 TTTCTTTTCT
9254539 CTTCCTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCTTTTCTTTTTTTCT
Done.