Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 11 of 332
Found at i:3119052 original size:17 final size:17
Alignment explanation
Indices: 3118999--3119082 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 17
3118989 GTGGCAAGTT
*
3118999 GGGTAATGGAGTTAGT-
1 GGGTGATGGAGTTAGTG
* *
3119015 -GG-GATGG-TTTAATG
1 GGGTGATGGAGTTAGTG
*
3119029 GGATGATGGAGTTAGTG
1 GGGTGATGGAGTTAGTG
3119046 GGGTGAT----TTAGTG
1 GGGTGATGGAGTTAGTG
*
3119059 GGGTGATAGAGTTAGTG
1 GGGTGATGGAGTTAGTG
3119076 GGGTGAT
1 GGGTGAT
3119083 TTAGTAGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
13 17 0.32
14 4 0.08
15 3 0.06
16 5 0.09
17 24 0.45
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (17 bp):
GGGTGATGGAGTTAGTG
Found at i:3119058 original size:13 final size:13
Alignment explanation
Indices: 3119040--3119093 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 13
3119030 GATGATGGAG
3119040 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3119053 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3119066 AGAGTTAGTGGGGTGAT
1 ----TTAGTGGGGTGAT
*
3119083 TTAGTAGGGTG
1 TTAGTGGGGTG
3119094 TAGGGGTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 23 0.64
17 13 0.36
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:3119086 original size:30 final size:30
Alignment explanation
Indices: 3119007--3119093 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
3118997 TTGGGTAATG
* * * * *
3119007 GAGTTAGTGGGATGGTTTAATGGGATGATG
1 GAGTTAGTGGGGTGATTTAGTGGGGTGATA
3119037 GAGTTAGTGGGGTGATTTAGTGGGGTGATA
1 GAGTTAGTGGGGTGATTTAGTGGGGTGATA
*
3119067 GAGTTAGTGGGGTGATTTAGTAGGGTG
1 GAGTTAGTGGGGTGATTTAGTGGGGTG
3119094 TAGGGGTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (30 bp):
GAGTTAGTGGGGTGATTTAGTGGGGTGATA
Found at i:3119620 original size:133 final size:134
Alignment explanation
Indices: 3119380--3119862 Score: 616
Period size: 135 Copynumber: 3.6 Consensus size: 134
3119370 GATCTGCTGT
** * * *
3119380 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCT-GAATATTTAGCCTGCTCCACTCC
* * * *
3119445 TGCTAAGTGAAGATAAGGCTGATGATTTG-AATCTGCACCATTGCTGATACATGGAGATAAGATT
65 TGCTCAGTGAAGATAAGGCTGATG-GTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
3119509 CATCAA
129 CATCAA
*
3119515 AATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCT-AATATTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCT
* * * * *
3119579 GCTCAGTGACGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATTGAGATAAGACTTG
66 GCTCAGTGAAGATAAGGCTGATGGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-
3119644 C-T-AA
129 CATCAA
* ** * *
3119648 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCT-GAATATTTAGCCTGCTCCACTCC
* * * * *
3119713 TGCTCAGTGAAAATAAGGCTGATGGTTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTC
65 TGCTCAGTGAAGATAAGGCTGATGGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
3119778 ACCAA
130 ATCAA
* * * *
3119783 AATTTGATCTGTTCCGCTCCTGCTCAGCGAAGATAAGATCT-AGTATTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCT
3119847 GCTCAGTGAAGATAAG
66 GCTCAGTGAAGATAAG
3119863 ATCTGGTATG
Statistics
Matches: 301, Mismatches: 40, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
132 2 0.01
133 145 0.48
134 5 0.02
135 149 0.50
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (134 bp):
AATTTGATCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGATGGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
TCAA
Found at i:3119846 original size:178 final size:178
Alignment explanation
Indices: 3119656--3120040 Score: 646
Period size: 178 Copynumber: 2.2 Consensus size: 178
3119646 AAAATTTGAT
*
3119656 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
** * * *
3119721 GAAAATAAGGCTGATG-GTTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTCACCAAAA
66 GAAAATAAGGCTGATGAGTTG-AATCGGCTCCATTGCCAATACATGAAGATAAGATTCACCAAAA
* *
3119785 TTTGATCTGTTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
130 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGC
3119834 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
* * * *
3119899 GAAGATAAGGCTGATGATTTGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAAT
66 GAAAATAAGGCTGATGAGTTGAATCGGCTCCATTGCCAATACATGAAGATAAGATTCACCAAAAT
3119964 TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGC
131 TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGC
3120012 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
3120041 GCTGGTGGCT
Statistics
Matches: 194, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
178 191 0.98
179 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (178 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
GAAAATAAGGCTGATGAGTTGAATCGGCTCCATTGCCAATACATGAAGATAAGATTCACCAAAAT
TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGC
Found at i:3119860 original size:43 final size:43
Alignment explanation
Indices: 3119799--3120040 Score: 206
Period size: 43 Copynumber: 5.5 Consensus size: 43
3119789 ATCTGTTCCG
*
3119799 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCA
*
3119842 CTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCA
* ** *
3119887 CTCCTGCTCAGTGAAGATAAG-GCT-GATGATTTGAATCGGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAG-T-ATTT-AGCCTGCTCCA
* ** * ** * *
3119931 TTGCC-AATACA-TGGAGATAAGATTCATCAAAATTT-GATCTGCTCCG
1 CT-CCTGCT-CAGTGAAGATAAGA-TC-T-AGTATTTAG-CCTGCTCCA
* *
3119977 CTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCA
3120020 CTCCTGCTCAGTGAAGATAAG
1 CTCCTGCTCAGTGAAGATAAG
3120041 GCTGGTGGCT
Statistics
Matches: 158, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
43 64 0.41
44 24 0.15
45 46 0.29
46 19 0.12
47 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCA
Found at i:3119985 original size:90 final size:90
Alignment explanation
Indices: 3119701--3119997 Score: 252
Period size: 90 Copynumber: 3.3 Consensus size: 90
3119691 TATGTTTAGC
* * * *
3119701 CTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATG-GTTGAAATTTGCTCCATTGCCGATACAT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGGCTGATGATTTG-AATCTGCTCCATTGCCGATACAT
* * *
3119765 GAAGGTTAGATTCACCAAAATTTGAT
65 GAAGATAAGATTCATCAAAATTTGAT
* * * ** * *
3119791 CTGTTCCGCTCCTGCTCAGCGAAGATAAGATCT-A-GTATTT-AGCCTGCTCCACT-CCTGCT-C
1 CTGCTCCACTCCTGCTCAGCGAAGATAAG-GCTGATG-ATTTGAATCTGCTCCATTGCC-GATAC
*** * *
3119851 AGTGAAGATAAGA-TC-T-GGTATGTTTAGC
63 A-TGAAGATAAGATTCATCAAAAT-TTGA-T
* * *
3119879 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTTGAATCGGCTCCATTGCCAATACATG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGGCTGATGATTTGAATCTGCTCCATTGCCGATACATG
*
3119944 GAGATAAGATTCATCAAAATTTGAT
66 AAGATAAGATTCATCAAAATTTGAT
*
3119969 CTGCTCCGCTCCTGCTCAGCGAAGATAAG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAG
3119998 ATCTAATATT
Statistics
Matches: 155, Mismatches: 37, Indels: 30
0.70 0.17 0.14
Matches are distributed among these distances:
86 2 0.01
87 5 0.03
88 37 0.24
89 42 0.27
90 59 0.38
91 8 0.05
92 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (90 bp):
CTGCTCCACTCCTGCTCAGCGAAGATAAGGCTGATGATTTGAATCTGCTCCATTGCCGATACATG
AAGATAAGATTCATCAAAATTTGAT
Found at i:3119987 original size:268 final size:267
Alignment explanation
Indices: 3119380--3119862 Score: 626
Period size: 268 Copynumber: 1.8 Consensus size: 267
3119370 GATCTGCTGT
* ** ** * *** *
3119380 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCGGCTCCACTCCTAATCAGTGAAGATAAGATCTAAAATGTTGAGCCTGCTCCACTCC
* * * *
3119445 TGCTAAGTGAAGATAAGGCTGATGATTTGAATCTGCACCATTGCTGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGAGTTGAATCTGCACCATTGCCGATACATGAAGATAAGATTC
*
3119510 ATCAAAATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCAC
131 ACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCAC
* * * *
3119575 TCCTGCTCAGTGACGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATTGAGATAAGA
196 TCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAACCTGCTCCACTGCCAATACAGTGAGATAAGA
3119640 CTTGCTAA
261 CTTGC-AA
* * ** *** *
3119648 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCGGCTCCACTCCTAATCAGTGAAGATAAGATCTAAAATGTTGAGCCTGCTCCACTCC
* * * * *
3119713 TGCTCAGTGAAAATAAGGCTGATG-GTTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATT
66 TGCTCAGTGAAGATAAGGCTGATGAGTTG-AATCTGCACCATTGCCGATACATGAAGATAAGATT
* * *
3119777 CACCAAAATTTGATCTGTTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCA
130 CACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCA
3119842 CTCCTGCTCAGTGAAGATAAG
195 CTCCTGCTCAGTGAAGATAAG
3119863 ATCTGGTATG
Statistics
Matches: 198, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
267 3 0.02
268 195 0.98
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (267 bp):
AATTTGATCGGCTCCACTCCTAATCAGTGAAGATAAGATCTAAAATGTTGAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGATGAGTTGAATCTGCACCATTGCCGATACATGAAGATAAGATTC
ACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCAC
TCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAACCTGCTCCACTGCCAATACAGTGAGATAAGA
CTTGCAA
Found at i:3120074 original size:133 final size:134
Alignment explanation
Indices: 3119834--3120583 Score: 1021
Period size: 133 Copynumber: 5.6 Consensus size: 134
3119824 AGTATTTAGC
* * *
3119834 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCT-GAATATTTAGCCTGCTCCACTCCTGCTCAGT
** * *
3119899 GAAGATAAGGCTGATGATTTG-AATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAA
65 GAAGATAAGGCTGATG-GCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCAAAA
3119963 TTTGAT
129 TTTGAT
*
3119969 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT-AATATTTAGCCTGCTCCACTCCTGCTCAGTG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCTGCTCAGTG
* *
3120033 AAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGC-T-AAAA
66 AAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-CATCAAAA
3120096 TTTGAT
129 TTTGAT
* * * * *
3120102 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTTCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCT-GAATATTTAGCCTGCTCCACTCCTGCTCAGT
* * * *
3120167 GAAGATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTCACCAAAAT
65 GAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCAAAAT
3120232 TTGAT
130 TTGAT
* * *
3120237 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT-AGTACTTAGCCTGCTCCACTCCTGCTCAGTG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCTGCTCAGTG
* ** * *
3120301 AAAATAAGGCTGATGATTGGAATCTGCTCTATTGCCGATACATGGAGATAAGATTCATCAAAATT
66 AAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCAAAATT
3120366 TGAT
131 TGAT
* * * * *
3120370 CTGCTCCGCTACTACTCAGCAAAGATAAGATCT-AGTATTTAGCCTGCTCCACTCCTGCTCAGTG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCTGCTCAGTG
* *
3120434 AAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACGTGGAGATAAGACTTGC--CAAAA
66 AAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-CATCAAAA
3120497 TTTGAT
129 TTTGAT
* * * *
3120503 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCT-GAATATTTAGCCTGCTCCACTCCTGCTCAGT
*
3120568 GAAGATAAAGCTGATG
65 GAAGATAAGGCTGATG
3120584 ATTTTAGCCT
Statistics
Matches: 545, Mismatches: 59, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
132 2 0.00
133 346 0.63
134 7 0.01
135 190 0.35
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (134 bp):
CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTGAATATTTAGCCTGCTCCACTCCTGCTCAGTG
AAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCATCAAAATT
TGAT
Found at i:3120114 original size:268 final size:267
Alignment explanation
Indices: 3119834--3120584 Score: 1091
Period size: 268 Copynumber: 2.8 Consensus size: 267
3119824 AGTATTTAGC
3119834 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
** * *
3119899 GAAGATAAGGCTGATGATTTG-AATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAA
66 GAAGATAAGGCTGATG-GCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA-CAAAA
3119963 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCT
129 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCT
* *
3120028 CAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGC-T
194 CAGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCAATACATGGAGATAAGA-TT-CAT
3120092 -AAAATTTGAT
257 CAAAATTTGAT
* *
3120102 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTTCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
* * *
3120167 GAAGATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTCACCAAAAT
66 GAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA-CAAAAT
* *
3120232 TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTACTTAGCCTGCTCCACTCCTGCTC
130 TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTC
* * * * *
3120297 AGTGAAAATAAGGCTGATGATTGGAATCTGCTCTATTGCCGATACATGGAGATAAGATTCATCAA
195 AGTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCATCAA
3120362 AATTTGAT
260 AATTTGAT
* * * ** *
3120370 CTGCTCCGCTACTACTCAGCAAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
* *
3120433 GAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACGTGGAGATAAGACTTGC-CAAAA
66 GAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TT-CACAAAA
* * * * *
3120497 TTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTG
129 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT--AATATTTAGCCTGCTCCACTCCTG
*
3120562 CTCAGTGAAGATAAAGCTGATGA
192 CTCAGTGAAGATAAGGCTGATGA
3120585 TTTTAGCCTG
Statistics
Matches: 435, Mismatches: 41, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
266 116 0.27
267 7 0.02
268 312 0.72
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (267 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACAAAATT
TGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCA
GTGAAGATAAGGCTGATGACTGAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCATCAAA
ATTTGAT
Found at i:3120228 original size:446 final size:446
Alignment explanation
Indices: 3119395--3120308 Score: 1684
Period size: 446 Copynumber: 2.0 Consensus size: 446
3119385 GATCTGCTTT
*
3119395 ACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTAAGTGAAGATA
1 ACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTAAGTGAAGATA
* **
3119460 AGGCTGATGATTTGAATCTGCACCATTGCTGATACATGGAGATAAGATTCATCAAAATTTGATCT
66 AGGCTGATGATTTGAATCGGCACCATTGCCAATACATGGAGATAAGATTCATCAAAATTTGATCT
*
3119525 GCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCAGTGACG
131 GCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCAGTGAAG
*
3119590 ATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATTGAGATAAGACTTGCTAAAATTTGA
196 ATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCTAAAATTTGA
3119655 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAG
261 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAG
*
3119720 TGAAAATAAGGCTGATGGTTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTCACCAAAA
326 TGAAAATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTCACCAAAA
* *
3119785 TTTGATCTGTTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCC
391 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTACTTAGCCTGCTCC
*
3119841 ACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATA
1 ACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTAAGTGAAGATA
*
3119906 AGGCTGATGATTTGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAATTTGATCT
66 AGGCTGATGATTTGAATCGGCACCATTGCCAATACATGGAGATAAGATTCATCAAAATTTGATCT
*
3119971 GCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCAGTGAAG
131 GCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCAGTGAAG
3120036 ATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCTAAAATTTGA
196 ATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCTAAAATTTGA
*
3120101 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTTCTGCTCAG
261 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAG
* *
3120166 TGAAGATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTCACCAAAA
326 TGAAAATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTCACCAAAA
3120231 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTACTTAGCCTGCTCC
391 TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTACTTAGCCTGCTCC
*
3120287 ACTCCTGCTCAGTGAAAATAAG
1 ACTCCTGCTCAGTGAAGATAAG
3120309 GCTGATGATT
Statistics
Matches: 452, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
446 452 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (446 bp):
ACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTAAGTGAAGATA
AGGCTGATGATTTGAATCGGCACCATTGCCAATACATGGAGATAAGATTCATCAAAATTTGATCT
GCTCCGCTCCTGCTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCAGTGAAG
ATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCTAAAATTTGA
TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAG
TGAAAATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGAAGGTTAGATTCACCAAAA
TTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTACTTAGCCTGCTCC
Found at i:3120310 original size:401 final size:402
Alignment explanation
Indices: 3119834--3120583 Score: 1322
Period size: 401 Copynumber: 1.9 Consensus size: 402
3119824 AGTATTTAGC
* * *
3119834 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGT
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA-GCTTAGCCTGCTCCACTCCTGCTCAGT
* *
3119899 GAAGATAAGGCTGATGATTTGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAAT
65 GAAAATAAGGCTGATGATTGGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAAT
* * *
3119964 TTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTC
130 TTGATCTGCTCCGCTACTACTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTC
*
3120029 AGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCTAA
195 AGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCCAA
*
3120094 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTTC
260 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
*
3120159 TGCTCAGTGAAGATAAGGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTC
325 TGCTCAGTGAAGATAAAGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTC
3120224 ACCAAAATTTGAT
390 ACCAAAATTTGAT
*
3120237 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA-CTTAGCCTGCTCCACTCCTGCTCAGTG
1 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTAGCTTAGCCTGCTCCACTCCTGCTCAGTG
* * *
3120301 AAAATAAGGCTGATGATTGGAATCTGCTCTATTGCCGATACATGGAGATAAGATTCATCAAAATT
66 AAAATAAGGCTGATGATTGGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAATT
*
3120366 TGATCTGCTCCGCTACTACTCAGCAAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCA
131 TGATCTGCTCCGCTACTACTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCA
* *
3120431 GTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACGTGGAGATAAGACTTGCCAAA
196 GTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCCAAA
3120496 ATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCT
261 ATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCT
3120561 GCTCAGTGAAGATAAAGCTGATG
326 GCTCAGTGAAGATAAAGCTGATG
3120584 ATTTTAGCCT
Statistics
Matches: 329, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
401 295 0.90
403 34 0.10
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (402 bp):
CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTAGCTTAGCCTGCTCCACTCCTGCTCAGTG
AAAATAAGGCTGATGATTGGAATCGGCTCCATTGCCAATACATGGAGATAAGATTCATCAAAATT
TGATCTGCTCCGCTACTACTCAGCAAAGATAAGATCTAATATTTAGCCTGCTCCACTCCTGCTCA
GTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGATAAGACTTGCCAAA
ATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAAGCTGATGGCTGAAATTTGCTCCATTGCCGATACATGGAGGTTAGATTCA
CCAAAATTTGAT
Found at i:3120607 original size:44 final size:45
Alignment explanation
Indices: 3120503--3120607 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
3120493 AAAATTTGAT
* * * *
3120503 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGC
1 CTGCTCCACTACTGCTCAGTGAAGATAAGAGCTGATATGTTTAGC
*
3120548 CTGCTCCACTCCTGCTCAGTGAAGATAA-AGCTGATGAT-TTTAGC
1 CTGCTCCACTACTGCTCAGTGAAGATAAGAGCTGAT-ATGTTTAGC
*
3120592 CTGTTACC-CTACTGCT
1 CTGCT-CCACTACTGCT
3120608 TAGGGGGTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 22 0.42
45 31 0.58
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (45 bp):
CTGCTCCACTACTGCTCAGTGAAGATAAGAGCTGATATGTTTAGC
Found at i:3120772 original size:87 final size:86
Alignment explanation
Indices: 3120589--3121051 Score: 373
Period size: 87 Copynumber: 5.4 Consensus size: 86
3120579 TGATGATTTT
* * * * *
3120589 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--G-AGTCTTCGACCTGCTCTACCACTGCTT-
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCA-TCTTCGATCTGTTCCACTACTACTTA
** *
3120650 GGCGAGCCCAA-ATCTGTAA-ATTTT
65 GG-G-G-ATAAGATCTGTAATA-TTC
* * * *
3120674 AGCCTGTTACCCTAGTGCTTAGGGGGTTAAGGCTTGCATCTTTGATCTGTTCCACTATTGCTTAG
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCATCTTCGATCTGTTCCACTACTACTTAG
*
3120739 GGAGATAAGATCTGTAATCTTC
66 GG-GATAAGATCTGTAATATTC
* * * * * * *
3120761 AGCTTGTTACCCTATTGCTTAGGGAGTTAAAGCTTGCTGTCTTCGATCTGCTCCACTACTATTTA
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC-ATCTTCGATCTGTTCCACTACTACTTA
*
3120826 GGGG---AGATCTGT-ATTTTC
65 GGGGATAAGATCTGTAATATTC
* * *
3120844 TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG-TTGCCTTCGATCTATTTCC-CTACTGC
1 -AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCAT--CTTCGATCT-GTTCCACTACTAC
*
3120907 TTAGGGTGATAAGATCCGTAA-ATTC
62 TTAGGG-GATAAGATCTGTAATATTC
* * * * * *
3120932 -GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-CACCTTCGATCTGTTTCTCTACTACT
1 AG-CCTGTTACCCTACTGCTTAGGGGGTTAAG-GCT-TGCATCTTCGATCTGTTCCACTACTACT
*
3120995 TAGGGGGTTAAGATCTGTAA-ATTC
63 TA-GGGGATAAGATCTGTAATATTC
*
3121019 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
3121052 CTGTGGATTC
Statistics
Matches: 308, Mismatches: 47, Indels: 45
0.77 0.12 0.11
Matches are distributed among these distances:
82 1 0.00
83 5 0.02
84 60 0.19
85 36 0.12
86 7 0.02
87 154 0.50
88 43 0.14
89 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (86 bp):
AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCATCTTCGATCTGTTCCACTACTACTTAG
GGGATAAGATCTGTAATATTC
Found at i:3120804 original size:44 final size:45
Alignment explanation
Indices: 3120677--3120810 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 45
3120667 AAATTTTAGC
* * * *
3120677 CTGTTACCCTAGTGCTTAGGGGGTTAAGGCTTGC-ATCTT-TGAT
1 CTGTTACCCTATTGCTTAGGGAGTTAAAGCTTGCTATCTTCAGAT
* * *
3120720 CTGTT-CCACTATTGCTTAGGGAGAT-AAGATCTG-TAATCTTCAGCT
1 CTGTTACC-CTATTGCTTAGGGAGTTAAAGCT-TGCT-ATCTTCAGAT
*
3120765 -TGTTACCCTATTGCTTAGGGAGTTAAAGCTTGCTGTCTTC-GAT
1 CTGTTACCCTATTGCTTAGGGAGTTAAAGCTTGCTATCTTCAGAT
3120808 CTG
1 CTG
3120811 CTCCACTACT
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
42 5 0.07
43 23 0.32
44 34 0.48
45 9 0.13
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (45 bp):
CTGTTACCCTATTGCTTAGGGAGTTAAAGCTTGCTATCTTCAGAT
Found at i:3120879 original size:171 final size:172
Alignment explanation
Indices: 3120661--3121051 Score: 438
Period size: 171 Copynumber: 2.3 Consensus size: 172
3120651 GCGAGCCCAA
* * *
3120661 ATCTGTAAATTTTAGCCTGTTACCCTAGTGCTTAGGGGGTTAAGGCTTGCAT-CTTTGATCT-GT
1 ATCTGTAAATTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG-ATCCTTCGATCTAGT
* * * * *
3120724 TCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTC-AGCTTGTTACCCTATTGCTTAGGGAGT
65 TCC-CTACTGCTTAGGGAGATAAGATCCGTAA-ATTCGATC-TGTTACCCTACTGCTTAGGGAGT
** *
3120788 TAA-AGCT-TGCTGTCTTCGATCTGCTCCACTACTATTTA-GGGG-AG
127 TAAGAGCTAT-C-ACCTTCGATCTGCTCCACTACTACTTAGGGGGTAG
** * *
3120832 ATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTTGCCTTCGATCTATT
1 ATCTGTAAATTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAT-CCTTCGATCTAGT
* * *
3120897 TCCCTACTGCTTAGGGTGATAAGATCCGTAAATTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
65 TCCCTACTGCTTAGGGAGATAAGATCCGTAAATTCGATCTGTTACCCTACTGCTTAGGGAGTTAA
* * * *
3120962 GATCTATCACCTTCGATCTGTTTCTCTACTACTTAGGGGGTTAAG
130 GAGCTATCACCTTCGATCTGCTCCACTACTACTTAGGGGG-T-AG
*
3121007 ATCTGTAAATTC-AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
1 ATCTGTAAATTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
3121052 CTGTGGATTC
Statistics
Matches: 185, Mismatches: 25, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
170 1 0.01
171 92 0.50
172 43 0.23
173 5 0.03
174 32 0.17
175 12 0.06
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (172 bp):
ATCTGTAAATTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGATCCTTCGATCTAGTT
CCCTACTGCTTAGGGAGATAAGATCCGTAAATTCGATCTGTTACCCTACTGCTTAGGGAGTTAAG
AGCTATCACCTTCGATCTGCTCCACTACTACTTAGGGGGTAG
Found at i:3120944 original size:43 final size:43
Alignment explanation
Indices: 3120848--3121049 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 43
3120838 ATTTTCTAGC
* * ***
3120848 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTTGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TG-TAAATTCGAT
* * * *
3120892 CTATTTCCCTACTGCTTAGGGTGATAAGATCCGTAAATTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCGAT
* **
3120935 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCGAT
* * *
3120979 CTGTTTCTCTACTACTTAGGGGGTTAAGATCTGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCGA-T
* *
3121022 CTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG
3121050 GCCTGTGGAT
Statistics
Matches: 129, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 64 0.50
44 63 0.49
45 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCGAT
Found at i:3122915 original size:11 final size:11
Alignment explanation
Indices: 3122901--3122949 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
3122891 TTTTGGCATA
3122901 TTTTTTTCTCT
1 TTTTTTTCTCT
*
3122912 TTTTTTT-TATT
1 TTTTTTTCT-CT
*
3122923 TTTTTTTCTAT
1 TTTTTTTCTCT
3122934 TTTTTTTC-CT
1 TTTTTTTCTCT
3122944 TTTTTT
1 TTTTTT
3122950 GTGAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 24 0.73
12 1 0.03
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:3122922 original size:20 final size:21
Alignment explanation
Indices: 3122899--3122949 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
3122889 TCTTTTGGCA
3122899 TATTTTTTTCTCT-TTTTTTT
1 TATTTTTTTCTCTATTTTTTT
*
3122919 TATTTTTTTTTCTATTTTTTT
1 TATTTTTTTCTCTATTTTTTT
*
3122940 TCCTTTTTTT
1 T-ATTTTTTT
3122950 GTGAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 12 0.44
21 8 0.30
22 7 0.26
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (21 bp):
TATTTTTTTCTCTATTTTTTT
Found at i:3122926 original size:22 final size:22
Alignment explanation
Indices: 3122901--3122949 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
3122891 TTTTGGCATA
* *
3122901 TTTTTTTCTCTTTTTTTTTATT
1 TTTTTTTCTATTTTTTTTCATT
*
3122923 TTTTTTTCTATTTTTTTTCCTT
1 TTTTTTTCTATTTTTTTTCATT
3122945 TTTTT
1 TTTTT
3122950 GTGAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTTCTATTTTTTTTCATT
Found at i:3125296 original size:9 final size:10
Alignment explanation
Indices: 3125281--3125334 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 10
3125271 GTGAAAATCA
3125281 AATGCAAATG
1 AATGCAAATG
3125291 -ATGC-AATG
1 AATGCAAATG
3125299 -ATGC-AATG
1 AATGCAAATG
3125307 TAATGCAAATG
1 -AATGCAAATG
*
3125318 CATG-AAATG
1 AATGCAAATG
3125327 AATGCAAA
1 AATGCAAA
3125335 AGAAGATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 12 0.32
9 12 0.32
10 10 0.26
11 4 0.11
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:3125330 original size:19 final size:18
Alignment explanation
Indices: 3125286--3125334 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
3125276 AATCAAATGC
3125286 AAATG-ATGC-AATGATG
1 AAATGAATGCAAATGATG
*
3125302 CAATGTAATGCAAATGCATG
1 AAATG-AATGCAAATG-ATG
3125322 AAATGAATGCAAA
1 AAATGAATGCAAA
3125335 AGAAGATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
18 4 0.15
19 12 0.44
20 7 0.26
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (18 bp):
AAATGAATGCAAATGATG
Found at i:3126885 original size:126 final size:126
Alignment explanation
Indices: 3126659--3126886 Score: 352
Period size: 126 Copynumber: 1.8 Consensus size: 126
3126649 GGATATTCGA
* * *
3126659 ATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACGATTTTTCGAATTCTTTAA
1 ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCTTTCGAATTCTTTAA
* * **
3126724 ATACCGAATATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACCAGTAAAGGGATGCTCTG
66 ATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCAGTAAAGGGATGCTCTG
*
3126785 ATATTCAAAATAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCCTTT-GAATTCTTTA
1 ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGAT-CTTTCGAATTCTTTA
3126849 AATACCGAACATTGCCATTATTTT-AAAAACAATTGAGA
65 AATACCGAACATTGCCATTATTTTGAAAAA-AATTGAGA
3126887 ATAAATCTGT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
125 5 0.05
126 84 0.91
127 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
ATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCTTTCGAATTCTTTAA
ATACCGAACATTGCCATTATTTTGAAAAAAATTGAGAGTGAACCAGTAAAGGGATGCTCTG
Found at i:3127428 original size:18 final size:18
Alignment explanation
Indices: 3127405--3127446 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3127395 ATAATGCTAC
*
3127405 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
3127423 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
3127441 AATAAC
1 AATAAC
3127447 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:3127443 original size:3 final size:3
Alignment explanation
Indices: 3127435--3127627 Score: 57
Period size: 3 Copynumber: 65.7 Consensus size: 3
3127425 TAACGATTAA
* * * *
3127435 AAT AAT AAT AAC AAC AAT AA- AAT AGA- AGAC AAT AAT AAT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
* * * * ** **
3127479 AAT AAA AAT AAA AAT AAT AAA AAT AAC AAT -AT GTT TCT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
3127526 AA- AA- AATT AAT AAT GAT AAT AA- ATAT ATAT AA- AAT AAT AGT AAC
1 AAT AAT AA-T AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
** * *
3127570 AGC AAT AA- AAT AA- ATAC AAT -AT AAT AAT AAT ATAT AAT AAT AAC
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
3127614 AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AA
3127628 CACTTTCCCT
Statistics
Matches: 142, Mismatches: 33, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
2 18 0.13
3 111 0.78
4 13 0.09
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3127536 original size:17 final size:18
Alignment explanation
Indices: 3127516--3127562 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
3127506 AATATGTTTC
3127516 TAATAATAATAAAAAAT-
1 TAATAATAATAAAAAATA
* *
3127533 TAATAATGATAATAAATA
1 TAATAATAATAAAAAATA
3127551 TATATAA-AATAA
1 TA-ATAATAATAA
3127563 TAGTAACAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAATAATAAAAAATA
Found at i:3127601 original size:20 final size:19
Alignment explanation
Indices: 3127516--3127606 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 19
3127506 AATATGTTTC
3127516 TAATAATAATAAA-AAAT-
1 TAATAATAATAAATAAATA
*
3127533 TAATAATGAT-AATAAATA
1 TAATAATAATAAATAAATA
*
3127551 TATATAA-AATAATAGTAACA-G
1 TA-ATAATAATAA-A-TAA-ATA
*
3127572 CAATAA-AATAAATACAATA
1 TAATAATAATAAATA-AATA
*
3127591 TAATAATAATATATAA
1 TAATAATAATAAATAA
3127607 TAATAACAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
16 2 0.04
17 13 0.23
18 7 0.12
19 13 0.23
20 17 0.30
21 4 0.07
22 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
TAATAATAATAAATAAATA
Found at i:3127604 original size:13 final size:13
Alignment explanation
Indices: 3127588--3127612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3127578 AATAAATACA
3127588 ATATAATAATAAT
1 ATATAATAATAAT
3127601 ATATAATAATAA
1 ATATAATAATAA
3127613 CAATATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:3127606 original size:10 final size:11
Alignment explanation
Indices: 3127518--3127611 Score: 50
Period size: 11 Copynumber: 8.1 Consensus size: 11
3127508 TATGTTTCTA
3127518 ATAATAATAA-
1 ATAATAATAAT
*
3127528 AAAATTAATAAT
1 ATAA-TAATAAT
3127540 GATAATAAATATAT
1 -ATAAT-AATA-AT
3127554 ATAA-AATAAT
1 ATAATAATAAT
* **
3127564 AGTAACAGCAAT
1 A-TAATAATAAT
*
3127576 AAAATAAATACAAT
1 ATAAT-AAT--AAT
3127590 ATAATAATAAT
1 ATAATAATAAT
3127601 AT-ATAATAAT
1 ATAATAATAAT
3127611 A
1 A
3127612 ACAATATTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
10 15 0.23
11 20 0.31
12 7 0.11
13 14 0.22
14 9 0.14
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:3127617 original size:16 final size:15
Alignment explanation
Indices: 3127590--3127629 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
3127580 TAAATACAAT
*
3127590 ATAATAATAATATATA
1 ATAATAACAATAT-TA
3127606 ATAATAACAATATTA
1 ATAATAACAATATTA
*
3127621 AAAATAACA
1 ATAATAACA
3127630 CTTTCCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAATAACAATATTA
Found at i:3127623 original size:44 final size:41
Alignment explanation
Indices: 3127517--3127623 Score: 96
Period size: 44 Copynumber: 2.5 Consensus size: 41
3127507 ATATGTTTCT
3127517 AATAATAATAA-AAAATTAATAATGATAATAAATATATATAA
1 AATAATAATAACAAAATTAA-AATGATAATAAATATATATAA
* *
3127558 AATAATAGTAACAGCAA-TAAAAT-A-AATACAATATAATAATAA
1 AATAATAATAACA-AAATTAAAATGATAATA-AATAT-AT-ATAA
*
3127600 TATATAATAATAACAATATTAAAA
1 -A-ATAATAATAACAAAATTAAAA
3127624 ATAACACTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 4 0.08
40 6 0.11
41 15 0.28
42 8 0.15
43 4 0.08
44 16 0.30
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (41 bp):
AATAATAATAACAAAATTAAAATGATAATAAATATATATAA
Found at i:3127875 original size:24 final size:24
Alignment explanation
Indices: 3127843--3127892 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
3127833 TTTTTTTGTA
*
3127843 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
3127867 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
3127891 GG
1 GG
3127893 GATGGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:3127956 original size:17 final size:16
Alignment explanation
Indices: 3127875--3127958 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 16
3127865 GTGGCAAGTG
*
3127875 GGGTAATGGAGTTAGT
1 GGGTGATGGAGTTAGT
* *
3127891 -GG-GATGG-TTTAAT
1 GGGTGATGGAGTTAGT
3127904 GGGGTGATGGAGTTAGT
1 -GGGTGATGGAGTTAGT
3127921 GGAGTGAT----TTAGT
1 GG-GTGATGGAGTTAGT
3127934 GGGGTGATGGAGTTAGT
1 -GGGTGATGGAGTTAGT
3127951 GAGGTGAT
1 G-GGTGAT
3127959 TTAGTAGGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 21
0.67 0.06 0.27
Matches are distributed among these distances:
13 14 0.27
14 6 0.12
15 4 0.08
16 8 0.15
17 20 0.38
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (16 bp):
GGGTGATGGAGTTAGT
Found at i:3127962 original size:30 final size:29
Alignment explanation
Indices: 3127847--3127969 Score: 139
Period size: 30 Copynumber: 4.3 Consensus size: 29
3127837 TTTGTAGGCA
*
3127847 AGTGGGGTGATGGAGTTAGT-GG-CA---
1 AGTGGGGTGATGGAGTTAGTGGGTGATTT
* *
3127871 AGTGGGGTAATGGAGTTAGTGGGATGGTTT
1 AGTGGGGTGATGGAGTTAGTGGG-TGATTT
*
3127901 AATGGGGTGATGGAGTTAGTGGAGTGATTT
1 AGTGGGGTGATGGAGTTAGTGG-GTGATTT
3127931 AGTGGGGTGATGGAGTTAGTGAGGTGATTT
1 AGTGGGGTGATGGAGTTAGTG-GGTGATTT
*
3127961 AGTAGGGTG
1 AGTGGGGTG
3127970 TGGGGGTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
24 19 0.23
25 2 0.02
30 60 0.72
31 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.47, T:0.31
Consensus pattern (29 bp):
AGTGGGGTGATGGAGTTAGTGGGTGATTT
Found at i:3127985 original size:30 final size:31
Alignment explanation
Indices: 3127905--3127985 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
3127895 TGGTTTAATG
* * *
3127905 GGGTGATGGAGTTAGTGGA-GTGATTTAGTG
1 GGGTGATGGAGGTAATGGAGGTGATTTAGTA
* *
3127935 GGGTGATGGAGTTAGT-GAGGTGATTTAGTA
1 GGGTGATGGAGGTAATGGAGGTGATTTAGTA
*
3127965 GGGTG-TGGGGGTAATGGAGGT
1 GGGTGATGGAGGTAATGGAGGT
3127986 AGTGGATGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 9 0.20
30 36 0.80
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (31 bp):
GGGTGATGGAGGTAATGGAGGTGATTTAGTA
Found at i:3129667 original size:29 final size:31
Alignment explanation
Indices: 3129617--3129678 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
3129607 AAAATTTTCT
3129617 AAATAATTTTTTGCTAATTTTTAT-ATTTTTA
1 AAATAATTTTTTGCTAATTTTT-TCATTTTTA
*
3129648 AAATAA-TTTTTGC-CATTTTTTCATTTTTA
1 AAATAATTTTTTGCTAATTTTTTCATTTTTA
3129677 AA
1 AA
3129679 TATTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.52
30 7 0.24
31 6 0.21
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (31 bp):
AAATAATTTTTTGCTAATTTTTTCATTTTTA
Found at i:3130553 original size:3 final size:3
Alignment explanation
Indices: 3130545--3130574 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3130535 TATCGAATTT
*
3130545 TTC TTC TTC TTC TTC TTC TTC TGC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3130575 ATATTATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:3137514 original size:28 final size:28
Alignment explanation
Indices: 3137482--3137536 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3137472 TAATTAGATG
*
3137482 AATAGTCTATTTTGTTGACTTAGTAACT
1 AATAGTCTATTTTGTTGACTCAGTAACT
3137510 AATAGTCTATTTTGTTGACTCAGTAAC
1 AATAGTCTATTTTGTTGACTCAGTAAC
3137537 GAATGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (28 bp):
AATAGTCTATTTTGTTGACTCAGTAACT
Found at i:3138781 original size:17 final size:17
Alignment explanation
Indices: 3138739--3138782 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3138729 AAAATATACA
*
3138739 AAAAATGTATAAAACAT
1 AAAAATTTATAAAACAT
* * *
3138756 AAGATTTTATAAAATAT
1 AAAAATTTATAAAACAT
3138773 AAAAATTTAT
1 AAAAATTTAT
3138783 GTATCTTTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAAATTTATAAAACAT
Found at i:3145021 original size:6 final size:6
Alignment explanation
Indices: 3145010--3145036 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3145000 CGTCGGCCAT
3145010 GGCGGA GGCGGA GGCGGA GGCGGA GGC
1 GGCGGA GGCGGA GGCGGA GGCGGA GGC
3145037 TTCGAACGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.67, T:0.00
Consensus pattern (6 bp):
GGCGGA
Found at i:3146883 original size:130 final size:129
Alignment explanation
Indices: 3146528--3146898 Score: 413
Period size: 130 Copynumber: 2.8 Consensus size: 129
3146518 ATGTTCGGCG
* * * *
3146528 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGCTCAAAATAATCGAGTTT
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATAT
* * ** * * *
3146593 TCCTTCAAAATTTCATTCATATCTTTTAAAATCCCTTAAATGAAGATGAGATTAGATGTTTGACA
66 CCCTTCAAAATTTCACTC-GGTCTTTTAAAATCCCTAAAACGAAGATGAGATTAGATATTTGACA
*
3146658 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGTTCAAAATAATCGAATAT
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATAT
* * ** ** * * *
3146723 CACTTTAAAATTTTGCTCGTGTCTTTTAAAATTTCTAAAACGAAGGTGATATGT-GATATTTGGC
66 CCCTTCAAAATTTCACTCG-GTCTTTTAAAATCCCTAAAACGAAGATGAGAT-TAGATATTTGAC
3146787 A
129 A
* * * * *
3146788 ATTCGCGGGATCGTGCCCTAATGTGTTGGGTAGCAATTTCCCGA-TTGTTTAAAATAATCAAATA
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCC-ATTTGTTCAAAATAATCGAATA
* *
3146852 TCCCTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTTTAAAACGAA
65 TCCCTTCAAAATTTCACTCGG-TCTT-TTAAAATCC-CTAAAACGAA
3146899 AGCTATATAC
Statistics
Matches: 201, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.00
130 183 0.91
131 8 0.04
132 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (129 bp):
ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATAT
CCCTTCAAAATTTCACTCGGTCTTTTAAAATCCCTAAAACGAAGATGAGATTAGATATTTGACA
Found at i:3151231 original size:18 final size:18
Alignment explanation
Indices: 3151208--3151263 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
3151198 AACTTCAATT
3151208 TTTTAAAGGATAATATAA
1 TTTTAAAGGATAATATAA
* *
3151226 TTTTAAA--ATAAACCAAAA
1 TTTTAAAGGAT-AA-TATAA
3151244 TATTTAAAGGATAATATAA
1 T-TTTAAAGGATAATATAA
3151263 T
1 T
3151264 AAAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 11 0.38
19 10 0.34
20 2 0.07
21 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (18 bp):
TTTTAAAGGATAATATAA
Found at i:3151264 original size:19 final size:19
Alignment explanation
Indices: 3151209--3151264 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
3151199 ACTTCAATTT
3151209 TTTAAAGGATAATATAAT-
1 TTTAAAGGATAATATAATA
* *
3151227 TTTAAA--ATAAACCAAAATA
1 TTTAAAGGAT-AA-TATAATA
3151246 TTTAAAGGATAATATAATA
1 TTTAAAGGATAATATAATA
3151265 AAAATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 10 0.34
19 11 0.38
20 2 0.07
21 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (19 bp):
TTTAAAGGATAATATAATA
Found at i:3153820 original size:10 final size:10
Alignment explanation
Indices: 3153800--3153848 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
3153790 CTATTTTTGA
3153800 AATTTTCATTT
1 AATTTT-ATTT
*
3153811 ATTTTTATTT
1 AATTTTATTT
*
3153821 AATTTAATTT
1 AATTTTATTT
3153831 AATTTTAATTTT
1 AATTTT-A-TTT
3153843 AATTTT
1 AATTTT
3153849 TAAAATGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 17 0.53
11 6 0.19
12 9 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
AATTTTATTT
Found at i:3162444 original size:19 final size:19
Alignment explanation
Indices: 3162414--3162459 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
3162404 TAATAAGATG
3162414 GTTAGCTCATAACCT-TTTTA
1 GTTAG-TCATAA-CTGTTTTA
3162434 GTTAGTCATAACTGTTTTA
1 GTTAGTCATAACTGTTTTA
3162453 GTTAGTC
1 GTTAGTC
3162460 GGTTGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (19 bp):
GTTAGTCATAACTGTTTTA
Found at i:3167707 original size:15 final size:14
Alignment explanation
Indices: 3167664--3167709 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
3167654 TACATAATTT
3167664 AAAATTAAATATTG
1 AAAATTAAATATTG
*
3167678 AAAATTTAAACATTG
1 AAAA-TTAAATATTG
*
3167693 AAAACTTAAGTATTG
1 AAAA-TTAAATATTG
3167708 AA
1 AA
3167710 TTTAAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (14 bp):
AAAATTAAATATTG
Found at i:3176190 original size:22 final size:22
Alignment explanation
Indices: 3176164--3176207 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3176154 TAAACTAAAA
3176164 ATATTCCAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
*
3176186 ATATTCTAAATTTTAAGTACCT
1 ATATTCCAAATTTTAAGTACCT
3176208 TTAATCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATTCCAAATTTTAAGTACCT
Found at i:3177770 original size:27 final size:26
Alignment explanation
Indices: 3177740--3177895 Score: 108
Period size: 25 Copynumber: 6.0 Consensus size: 26
3177730 ATTCTAAATT
* *
3177740 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATATTTT-AATA
* *
3177767 CTATTTTATGTATATAT-CTTTAATA
1 CTATATTATGTATATATATTTTAATA
* **
3177792 CTATATTATTTATATATATATTTTTCTA
1 CTATATTA--TGTATATATATTTTAATA
* *
3177820 C-ATGTTATCTTATGTATATATTTT-A-A
1 CTATATTAT-GTA--TATATATTTTAATA
* *
3177846 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTTAATA
*
3177871 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATTTTAATA
3177896 TTATCACGTA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 34 0.33
26 9 0.09
27 34 0.33
28 16 0.16
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATTTTAATA
Found at i:3177837 original size:28 final size:28
Alignment explanation
Indices: 3177762--3177879 Score: 104
Period size: 28 Copynumber: 4.3 Consensus size: 28
3177752 TATATATTTT
*
3177762 CTATACTATTTTATGTATATATCTTTAATA
1 CTATATTA-TTTATGTATATAT-TTTAATA
* **
3177792 CTATATTATTTATATATATATTTTTCTA
1 CTATATTATTTATGTATATATTTTAATA
*
3177820 C-ATGTTATCTTATGTATATATTTT-A-A
1 CTATATTAT-TTATGTATATATTTTAATA
* *
3177846 CTATATTATGTATG--TAT-TTTTAACA
1 CTATATTATTTATGTATATATTTTAATA
3177871 CTATATTAT
1 CTATATTAT
3177880 GTACATATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
23 4 0.05
24 4 0.05
25 10 0.13
26 6 0.08
27 12 0.16
28 20 0.27
29 12 0.16
30 7 0.09
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
CTATATTATTTATGTATATATTTTAATA
Found at i:3178066 original size:16 final size:15
Alignment explanation
Indices: 3178042--3178089 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3178032 TAATTATTAT
*
3178042 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3178058 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3178073 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3178089 T
1 T
3178090 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3178077 original size:7 final size:8
Alignment explanation
Indices: 3178042--3178093 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3178032 TAATTATTAT
*
3178042 TATTCTAA
1 TATTTTAA
*
3178050 TATTTTGA
1 TATTTTAA
3178058 TATTTTAA
1 TATTTTAA
3178066 TATTTT-A
1 TATTTTAA
3178073 TATTTTATA
1 TATTTTA-A
*
3178082 TATTTTAT
1 TATTTTAA
3178090 TATT
1 TATT
3178094 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3188586 original size:75 final size:75
Alignment explanation
Indices: 3188421--3188974 Score: 800
Period size: 75 Copynumber: 7.5 Consensus size: 75
3188411 TTCCGTTTTC
* ** * *
3188421 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACATGTTGA-GTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3188485 TGTCTTTCAA
66 TGTCTTTCAA
* * *
3188495 AAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTAAAAACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3188560 TGTCTTTCAA
66 TGTCTTTCAA
* *
3188570 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGATATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3188635 TGTCTTTCAA
66 TGTCTTTCAA
** *
3188645 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3188710 TGTCTTTCAA
66 TGTCTTTCAA
3188720 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
3188784 CTGT-TTTC--
65 CTGTCTTTCAA
*
3188792 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
3188857 TGTCTTTC-A
66 TGTCTTTCAA
** * * * * *
3188866 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGATACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
**
3188931 TGT-TGTAAAA
66 TGTCT-TTCAA
* *
3188941 AAAAATCAACTCGTATTGCGA-AAGGTGAGTTGAG
1 AAAAATCAACTCATATTGCGAGAA-ATGAGTTGAG
3188975 TCTCGGGCCA
Statistics
Matches: 438, Mismatches: 34, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
71 5 0.01
72 61 0.14
73 5 0.01
74 109 0.25
75 253 0.58
76 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTCAA
Found at i:3189045 original size:14 final size:15
Alignment explanation
Indices: 3189010--3189042 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3189000 TCAAATTCCG
*
3189010 TTTTCAATTTCTGCT
1 TTTTCAATTTATGCT
3189025 TTTTCAATTTATGCT
1 TTTTCAATTTATGCT
3189040 TTT
1 TTT
3189043 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:3189061 original size:103 final size:104
Alignment explanation
Indices: 3188939--3189181 Score: 346
Period size: 103 Copynumber: 2.3 Consensus size: 104
3188929 TCTGTTGTAA
* *
3188939 AAAAAAATCAACTCGTATTGCGAAAGGTGAGTTGAGTCTCGGGCCACACACCGAGGTCTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACACCGAGGTCTTTTCAA
* *
3189004 ATTCCGTTTTCAATTTCTGCTTTTTCAATTTATG-CTTTT
66 ATTCCATTTTCAATTTCT-ATTTTTCAATTTATGTCTTTT
* **
3189043 -CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACACCGAGGTCTTTTCAA
* * * * * *
3189107 ATTCTATTTTTAGTTTCTATTTTTTAATTTCTGTGTTTT
66 ATTCCATTTTCAATTTCTATTTTTCAATTTATGTCTTTT
3189146 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
3189182 CCTTAGCTCA
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
102 12 0.10
103 77 0.63
104 34 0.28
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (104 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACACCGAGGTCTTTTCAA
ATTCCATTTTCAATTTCTATTTTTCAATTTATGTCTTTT
Found at i:3189385 original size:192 final size:192
Alignment explanation
Indices: 3189054--3189480 Score: 703
Period size: 192 Copynumber: 2.2 Consensus size: 192
3189044 AAAAATCAAC
*** *
3189054 TCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAATTCTATTTTTA
1 TCATATTGCGAGAAACGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTATTTTTA
* *
3189119 GTTTCTATTTTTTAATTTCTGTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GTTTCCATTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
3189184 TTAGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTAAAT
131 TTAGCTCACGTGCTAAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTAAAT
* * *
3189246 TCATATTGTGAGAAACGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTTAAATTCTGTTTTTA
1 TCATATTGCGAGAAACGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTATTTTTA
*
3189311 GTTTCCGTTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GTTTCCATTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
3189376 TTGGCTCACGTGCTAAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTCAAT
131 TTAGCTCACGTGCTAAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTAAAT
* *
3189438 TCATATTGCGAGAAATGAGTTGAG-CTCAGGATCACATGCCGAG
1 TCATATTGCGAGAAACGAGTTGAGTCTCAGG-CCACATGCCGAG
3189481 TAAAGAATAA
Statistics
Matches: 218, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
191 6 0.03
192 212 0.97
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (192 bp):
TCATATTGCGAGAAACGAGTTGAGTCTCAGGCCACATGCCGAGGTCTTTTCAAATTCTATTTTTA
GTTTCCATTTTTTAATTTCTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TTAGCTCACGTGCTAAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTTAAAGAGTAAAT
Found at i:3190563 original size:2 final size:2
Alignment explanation
Indices: 3190556--3190607 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3190546 CACCCCCTCC
3190556 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3190598 CT CT CT CT CT
1 CT CT CT CT CT
3190608 TTGTTATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3190639 original size:23 final size:23
Alignment explanation
Indices: 3190612--3190655 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3190602 CTCTCTTTGT
3190612 TATTATTATATT-TCTTAATATTA
1 TATTA-TATATTCTCTTAATATTA
*
3190635 TATTATATATTCTTTTAATAT
1 TATTATATATTCTCTTAATAT
3190656 ATTAGGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATATATTCTCTTAATATTA
Found at i:3190656 original size:20 final size:21
Alignment explanation
Indices: 3190615--3190669 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
3190605 TCTTTGTTAT
*
3190615 TATTATAT-TTCTTAATATTA
1 TATTATATATTCTTAATAATA
*
3190635 TATTATATATTCTT-TTAATA
1 TATTATATATTCTTAATAATA
3190655 TATTAGGTATATTCT
1 TATTA--TATATTCT
3190670 AAATTCTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 5 0.17
22 8 0.27
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTATATATTCTTAATAATA
Found at i:3190715 original size:25 final size:25
Alignment explanation
Indices: 3190675--3190825 Score: 112
Period size: 25 Copynumber: 5.9 Consensus size: 25
3190665 ATTCTAAATT
*
3190675 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATA-TTT-TATA
* * *
3190702 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTTATA
* *
3190727 CTATATTATTTATATATATTTTTCTA
1 CTATATTATGTATATATA-TTTTATA
* *
3190753 C-ATGTTATCTTATATATATATTT-TAA
1 CTATATTAT-GTATATATAT-TTTAT-A
* *
3190779 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTT-ATA
*
3190804 CTATATTATGTACATAT-TTTTA
1 CTATATTATGTATATATATTTTA
3190826 ATATTATCAC
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
24 4 0.04
25 47 0.47
26 29 0.29
27 21 0.21
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTTATA
Found at i:3190999 original size:16 final size:15
Alignment explanation
Indices: 3190975--3191022 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3190965 TAATTATTAT
*
3190975 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3190991 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3191006 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3191022 T
1 T
3191023 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3191010 original size:7 final size:8
Alignment explanation
Indices: 3190975--3191026 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3190965 TAATTATTAT
*
3190975 TATTCTAA
1 TATTTTAA
*
3190983 TATTTTGA
1 TATTTTAA
3190991 TATTTTAA
1 TATTTTAA
3190999 TATTTT-A
1 TATTTTAA
3191006 TATTTTATA
1 TATTTTA-A
*
3191015 TATTTTAT
1 TATTTTAA
3191023 TATT
1 TATT
3191027 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3193231 original size:20 final size:20
Alignment explanation
Indices: 3193208--3193257 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3193198 AAATCCAAAT
3193208 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
3193228 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGGA
3193248 TAAGAATACT
1 TAA-AATACT
3193258 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 4 0.15
22 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:3193878 original size:7 final size:7
Alignment explanation
Indices: 3193862--3193908 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
3193852 GTATGAGGCA
*
3193862 CATGTAG
1 CATGTGG
3193869 CATGTGG
1 CATGTGG
3193876 CATGTGG
1 CATGTGG
3193883 CATGTGG
1 CATGTGG
3193890 CATGTGG
1 CATGTGG
3193897 CATGTGG
1 CATGTGG
3193904 CATGT
1 CATGT
3193909 CACTATTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.17, C:0.15, G:0.38, T:0.30
Consensus pattern (7 bp):
CATGTGG
Found at i:3199226 original size:25 final size:25
Alignment explanation
Indices: 3199179--3199226 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3199169 ACTTATTTTT
* *
3199179 TATAATTTTTATTATTTTTTAAAAA
1 TATAATTTTTATAATTTTATAAAAA
3199204 TATAATTTTTA-AATGTTTATAAA
1 TATAATTTTTATAAT-TTTATAAA
3199227 TATTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TATAATTTTTATAATTTTATAAAAA
Found at i:3207125 original size:57 final size:57
Alignment explanation
Indices: 3207037--3207151 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
3207027 AAGAACAAAA
3207037 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
1 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
*
3207094 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGCGAACAATATTTACCT
1 AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
3207151 A
1 A
3207152 CACACCTAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (57 bp):
AAAGTAAGATCTTTGGAGTGAGAAATTGGGTTATTTGAAAGAGAACAATATTTACCT
Found at i:3211119 original size:16 final size:17
Alignment explanation
Indices: 3211098--3211142 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
3211088 AAAAAAAGGC
*
3211098 AAAT-AATTGTTTTATA
1 AAATAAATTATTTTATA
3211114 AAATAAATTATTTTATATA
1 AAATAAATTA-TTT-TATA
3211133 AAATAAATTA
1 AAATAAATTA
3211143 ATATTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 3 0.12
19 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATAAATTATTTTATA
Found at i:3222608 original size:13 final size:13
Alignment explanation
Indices: 3222590--3222615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3222580 AAGTTTGACT
3222590 CATTTACTTTATA
1 CATTTACTTTATA
3222603 CATTTACTTTATA
1 CATTTACTTTATA
3222616 GCACAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CATTTACTTTATA
Found at i:3229784 original size:90 final size:90
Alignment explanation
Indices: 3229647--3229817 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 90
3229637 ATCCACAAAC
* * * * * *
3229647 TTACTGGCAACTTTTATATACAAACCCGTTGTGTATTCATAACTACTGGTAGTGTATTAACCTAC
1 TTACTGGCAAATTTTATATACAAACCCATTGTGTATTCACAAATACTGGCAGCGTATTAACCTAC
3229712 AACACTGGTGGTTCATCCATGATGT
66 AACACTGGTGGTTCATCCATGATGT
* * * * **
3229737 TTACTGGCAAATTTTGTCTACAAACCCATTGTGTGTTCACAAATACTGGCAGCGTATTAACTTGG
1 TTACTGGCAAATTTTATATACAAACCCATTGTGTATTCACAAATACTGGCAGCGTATTAACCTAC
*
3229802 AACACTTGTGGTTCAT
66 AACACTGGTGGTTCAT
3229818 TCATAAACTG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (90 bp):
TTACTGGCAAATTTTATATACAAACCCATTGTGTATTCACAAATACTGGCAGCGTATTAACCTAC
AACACTGGTGGTTCATCCATGATGT
Found at i:3230484 original size:14 final size:14
Alignment explanation
Indices: 3230465--3230493 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3230455 ATAGGTTAAT
3230465 TAAATCTGAATCGG
1 TAAATCTGAATCGG
3230479 TAAATCTGAATCGG
1 TAAATCTGAATCGG
3230493 T
1 T
3230494 TGTTGACAAC
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:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TAAATCTGAATCGG
Found at i:3236224 original size:30 final size:32
Alignment explanation
Indices: 3236179--3236237 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
3236169 TAAAAATATT
3236179 AATTTAGGCCATCAACATTT-AAAAAAAGTTG
1 AATTTAGGCCATCAACATTTCAAAAAAAGTTG
* *
3236210 AATTTA-GCCGTCAACCTTTCAAAAAAAG
1 AATTTAGGCCATCAACATTTCAAAAAAAG
3236238 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (32 bp):
AATTTAGGCCATCAACATTTCAAAAAAAGTTG
Found at i:3237073 original size:19 final size:19
Alignment explanation
Indices: 3237049--3237086 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3237039 TACGTTTATC
3237049 TGTGATTAGTATTAAAATA
1 TGTGATTAGTATTAAAATA
3237068 TGTGATTAGTATTAAAATA
1 TGTGATTAGTATTAAAATA
3237087 GCGGTGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TGTGATTAGTATTAAAATA
Found at i:3237284 original size:78 final size:78
Alignment explanation
Indices: 3237155--3237311 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
3237145 TAAACATACC
*
3237155 ACACTACACCTTACTGCATATCCAAATCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTT
1 ACACTACACCTTACCGCATATCCAAATCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTT
3237220 CATATATATATAT
66 CATATATATATAT
*
3237233 ACACTACACCTTACCGCATATCCAAAATCCACCCTT-AATTCTTAAACAAAACCATGTTATTTGT
1 ACACTACACCTTACCGCATATCC-AAATCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGT
3237297 TCATATATATATAT
65 TCATATATATATAT
3237311 A
1 A
3237312 TATATGGAGG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 64 0.84
79 12 0.16
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (78 bp):
ACACTACACCTTACCGCATATCCAAATCCACCCTTAAATTCTTAAACAAAACCAGGTTATTTGTT
CATATATATATAT
Found at i:3239277 original size:19 final size:19
Alignment explanation
Indices: 3239253--3239291 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
3239243 TATATAAAAA
3239253 ATAAAAAAATAGAAAT-TT
1 ATAAAAAAATAGAAATGTT
*
3239271 ATAAAAAATTAGAAATGTT
1 ATAAAAAAATAGAAATGTT
3239290 AT
1 AT
3239292 TTCACCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
ATAAAAAAATAGAAATGTT
Found at i:3240828 original size:26 final size:24
Alignment explanation
Indices: 3240799--3240852 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 24
3240789 GTAAATTAAA
3240799 TTTATATAAAATTTTTGAAAAATAT
1 TTTATATAAAATTTTT-AAAAATAT
*
3240824 CTTTATATAAAATTTTTAAAATTAT
1 -TTTATATAAAATTTTTAAAAATAT
3240849 TTTA
1 TTTA
3240853 CTAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 4 0.15
25 7 0.26
26 16 0.59
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTATATAAAATTTTTAAAAATAT
Found at i:3242683 original size:17 final size:17
Alignment explanation
Indices: 3242661--3242697 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3242651 ACTTACACAT
3242661 AATAAAACTTAAATTAA
1 AATAAAACTTAAATTAA
* *
3242678 AATAAAATTTGAATTAA
1 AATAAAACTTAAATTAA
3242695 AAT
1 AAT
3242698 CCACAGGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAAAACTTAAATTAA
Found at i:3246314 original size:54 final size:54
Alignment explanation
Indices: 3246255--3246361 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
3246245 AGCCTGACCT
3246255 TTTGCATTAATTGAAAAAAGAAAAAATAAGTTTGAATGTTTCCATATGTGAAAC
1 TTTGCATTAATTGAAAAAAGAAAAAATAAGTTTGAATGTTTCCATATGTGAAAC
3246309 TTTGCATTAATTGAAAAAAGAAAAAATAAGTTTGAATGTTTCCATATGTGAAA
1 TTTGCATTAATTGAAAAAAGAAAAAATAAGTTTGAATGTTTCCATATGTGAAA
3246362 TTATATTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.34
Consensus pattern (54 bp):
TTTGCATTAATTGAAAAAAGAAAAAATAAGTTTGAATGTTTCCATATGTGAAAC
Found at i:3252130 original size:7 final size:7
Alignment explanation
Indices: 3252118--3252146 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
3252108 AGTGACAGGA
3252118 AGCAAGG
1 AGCAAGG
3252125 AGCAAGG
1 AGCAAGG
3252132 AGCAAGG
1 AGCAAGG
3252139 AGCAAGG
1 AGCAAGG
3252146 A
1 A
3252147 AAGAAGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.41, T:0.00
Consensus pattern (7 bp):
AGCAAGG
Found at i:3252446 original size:22 final size:22
Alignment explanation
Indices: 3252420--3252467 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
3252410 TCAGTTTTAT
*
3252420 AATTCAAGTCTAGTATTTATTA
1 AATTCAAGTCCAGTATTTATTA
3252442 AATTCAAGTCCAGTATTTATTA
1 AATTCAAGTCCAGTATTTATTA
3252464 AATT
1 AATT
3252468 TAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
AATTCAAGTCCAGTATTTATTA
Found at i:3261250 original size:123 final size:123
Alignment explanation
Indices: 3261030--3261300 Score: 406
Period size: 123 Copynumber: 2.2 Consensus size: 123
3261020 TTTAAACAGA
** * *
3261030 TTCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTACACCGGCACTTAGCCTGCTAGA
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGCCTGAATCAGTACACCGGCACTTAGCCTGCTAGA
*
3261095 CATATAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATA-
66 CATAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATAC
*
3261152 TATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT-A-TATCACCGGCA-TTAAGCCTGC
1 T-TCACCGGCATTAAGCCTGCTAGACTTAAAGCCTG-AATCAGTA-CACCGGCACTT-AGCCTGC
* *
3261214 TAGACTTAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
62 TAGACATAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATAC
3261276 TTCACCGGCATTAAGCCTGCTAGAC
1 TTCACCGGCATTAAGCCTGCTAGAC
3261301 GTAACGTCCG
Statistics
Matches: 136, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
122 5 0.04
123 128 0.94
124 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (123 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGCCTGAATCAGTACACCGGCACTTAGCCTGCTAGA
CATAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATAC
Found at i:3261316 original size:41 final size:41
Alignment explanation
Indices: 3261031--3261300 Score: 368
Period size: 41 Copynumber: 6.6 Consensus size: 41
3261021 TTAAACAGAT
** * *
3261031 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATT-A-TA
* * * *
3261073 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAATTATA
*
3261113 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
*
3261154 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATATA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
* *
3261195 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
3261236 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTACT-
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTA-TA
3261277 TCACCGGCATTAAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGAC
3261301 GTAACGTCCG
Statistics
Matches: 210, Mismatches: 13, Indels: 11
0.90 0.06 0.05
Matches are distributed among these distances:
40 4 0.02
41 201 0.96
42 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTATA
Found at i:3262889 original size:13 final size:13
Alignment explanation
Indices: 3262871--3262895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3262861 CAATCAAATG
3262871 CACACAAAATAAA
1 CACACAAAATAAA
3262884 CACACAAAATAA
1 CACACAAAATAA
3262896 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:3277458 original size:140 final size:138
Alignment explanation
Indices: 3277168--3277464 Score: 319
Period size: 138 Copynumber: 2.1 Consensus size: 138
3277158 TTCTACTTAC
* * * *
3277168 ATTTATATCTTTTATTTCATGTTGCTTCAAGCTTTTTAAATCTTTAGTTAATGTTTTTAACATAT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTT--ATCTTTAATTAATATTTTTAACATAT
* ** ** *
3277233 TAGTTCTTTGGTTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTTGATTCCTC
64 TAGTCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTC
* **
3277298 TTCGACTCAT
129 TTAGAAACAT
*
3277308 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTT-TTTTTAAATTAATATTTTTAACATATT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTATCTTT-AATTAATATTTTTAACATATT
* * * * * * * *
3277372 AGCTCCTTTCATTAGATGGTTAGATAATTGCGATTAC-ATCCTTGAGTTTGAGGTTCCATTATTT
65 AG-TCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTC
*
3277436 TTATAAACAT
129 TTAGAAACAT
3277446 ATTAATGTATTTTTTATTT
1 ATT--TGTATTTTTTATTT
3277465 TTAACTTTTA
Statistics
Matches: 130, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.03
138 49 0.38
139 28 0.22
140 49 0.38
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.50
Consensus pattern (138 bp):
ATTTGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTATCTTTAATTAATATTTTTAACATATTA
GTCCTTTCATTAGATGGCTAAATAATTGCAATTACAATCCTTGAGTCTCAAGTTCCATTACTCTT
AGAAACAT
Found at i:3277566 original size:16 final size:16
Alignment explanation
Indices: 3277545--3277595 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
3277535 TAATATGCTT
3277545 ATAAAAATAATTAAAA
1 ATAAAAATAATTAAAA
*
3277561 ATAAAAAT-ATATATTAA
1 ATAAAAATAAT-TA-AAA
3277578 ATAAAAAATAATTAAAA
1 AT-AAAAATAATTAAAA
3277595 A
1 A
3277596 ATCATCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
17 7 0.24
18 8 0.28
19 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAAATAATTAAAA
Found at i:3277597 original size:18 final size:17
Alignment explanation
Indices: 3277547--3277595 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
3277537 ATATGCTTAT
3277547 AAAAATAATTAAAAATA
1 AAAAATAATTAAAAATA
3277564 AAAATATATATT--AAATA
1 AAAA-ATA-ATTAAAAATA
3277581 AAAAATAATTAAAAA
1 AAAAATAATTAAAAA
3277596 ATCATCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 16 0.57
18 3 0.11
19 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAATTAAAAATA
Found at i:3280530 original size:17 final size:17
Alignment explanation
Indices: 3280510--3280542 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3280500 ATTTAATTAA
3280510 AAAAAATTAAAAATTTT
1 AAAAAATTAAAAATTTT
3280527 AAAAAATTAAAAATTT
1 AAAAAATTAAAAATTT
3280543 GAGTTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTAAAAATTTT
Found at i:3285109 original size:23 final size:24
Alignment explanation
Indices: 3285082--3285128 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
3285072 TTCCCCCTCT
*
3285082 TCTTCCATA-ATACTCTTT-CTTTC
1 TCTT-CATATATAATCTTTACTTTC
3285105 TCTTCATATATAATCTTTACTTTC
1 TCTTCATATATAATCTTTACTTTC
3285129 AAACACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTCATATATAATCTTTACTTTC
Found at i:3289655 original size:20 final size:20
Alignment explanation
Indices: 3289630--3289669 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3289620 TCCAGATATA
3289630 ATTATAGTGAGTCTATCAAT
1 ATTATAGTGAGTCTATCAAT
3289650 ATTATAGTGAGTCTATCAAT
1 ATTATAGTGAGTCTATCAAT
3289670 TAGGAGTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTATAGTGAGTCTATCAAT
Found at i:3294439 original size:131 final size:130
Alignment explanation
Indices: 3294160--3294640 Score: 450
Period size: 132 Copynumber: 3.7 Consensus size: 130
3294150 AAAATACGAA
* * * * * * *
3294160 TGAAATTCCGAAGAGACACTCGATTATTTTGAACAAACG-GAAAATTGCAACCCAGCATGATAGG
1 TGAAATT-CGAAGGGATATTCGATTATTTTGAGCAAACGAG-AAATTACAACCCAACACGATAGG
* * * * * * *
3294224 GCACTG-TTCCCCGAATCGCCAAACATCGAATATTTCTTTCGTTTTAAAGGGTTTTTAGAAAACG
64 GCA-TGATT-CCCGAATTGCCAAACACCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACA
3294288 TGAG
127 TGAG
* * *
3294292 TGAAATTCCGAA-GGATATTCGATTGTTTTGAAG-AAACGAGAAATCACAACCCAGCACGATAGG
1 TGAAATT-CGAAGGGATATTCGATTATTTTG-AGCAAACGAGAAATTACAACCCAACACGATAGG
* * * *
3294355 GCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTGAAGGATTTTTGGAAGACATG
64 GCATGATTCCCGAATTGCCAAACACCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATG
3294420 AG
129 AG
* * * *
3294422 TGAAATCTCGAAGGGATATTTGATTATTTTGAGTAAACGAGAAATTGCAACCCAACACGTTAGGG
1 TGAAAT-TCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGATAGGG
* * * * * * * * *
3294487 CACGACTCCGCAAATTGCCAAATATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGGCAT
65 CATGATTCC-CGAATTGCCAAACACCGAA-TATTGCCTTCGTTTTAAAGGATTTTTAGAAGACAT
3294551 GAG
128 GAG
* * * * *
3294554 TGAAAGTTTGAAGGGATATTTGATTATTTCGAGCAAACGCGAAATTACAACCCAACACGTTAGGG
1 TGAAA-TTCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGATAGGG
** *
3294619 CACAATTCCGCAAATTGCCAAA
65 CATGATTCC-CGAATTGCCAAA
3294641 TATCGAATCT
Statistics
Matches: 295, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
130 62 0.21
131 95 0.32
132 136 0.46
133 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (130 bp):
TGAAATTCGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGATAGGGC
ATGATTCCCGAATTGCCAAACACCGAATATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAG
Found at i:3297580 original size:46 final size:44
Alignment explanation
Indices: 3297476--3297583 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
3297466 TGTCTTTGAC
** * * *
3297476 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
3297520 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
3297566 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
3297584 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:3307552 original size:46 final size:46
Alignment explanation
Indices: 3307500--3307773 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
3307490 AGTGTGCTCT
3307500 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
3307546 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
3307592 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
3307638 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
3307684 GTGATATGAAATGAACAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
3307730 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
3307774 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 211 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:3312760 original size:16 final size:16
Alignment explanation
Indices: 3312739--3312769 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3312729 AAGAAACGAT
*
3312739 AAATATGTATATATAA
1 AAATATGTACATATAA
3312755 AAATATGTACATATA
1 AAATATGTACATATA
3312770 TATGGGTGTA
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:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:3313303 original size:2 final size:2
Alignment explanation
Indices: 3313298--3313332 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3313288 TCGTAAAAAA
*
3313298 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3313333 AAGATACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3313454 original size:3 final size:3
Alignment explanation
Indices: 3313446--3313498 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
3313436 GAAATATAGA
* * *
3313446 AAT AAT AAT AAT AAT AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3313494 AAT AA
1 AAT AA
3313499 AATTGCTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3314325 original size:21 final size:20
Alignment explanation
Indices: 3314301--3314340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3314291 TATTTTGCAC
3314301 TGTTTGTGTCTCTGCCTTGCG
1 TGTTTGTGTCTCT-CCTTGCG
*
3314322 TGTTTGTTTCTCTCCTTGC
1 TGTTTGTGTCTCTCCTTGC
3314341 AGGTGGAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.00, C:0.25, G:0.23, T:0.53
Consensus pattern (20 bp):
TGTTTGTGTCTCTCCTTGCG
Found at i:3315004 original size:43 final size:43
Alignment explanation
Indices: 3314945--3315230 Score: 153
Period size: 44 Copynumber: 6.6 Consensus size: 43
3314935 TTTAATCCAT
* * * *
3314945 TCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGC
1 TCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTCAATCTGC
* *
3314988 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAA-CTCAGGGAGATAAGATCACTGGCTTCAATCTGC
* * *** *
3315032 TCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGT
1 TCCACTGTAA-CTCAGGGAGATAAGATC---ACTGGCTTCAATCTGC
* * *
3315078 TCCACTGTAATCTCAGGGAGATAAGA-C-CT-GATGT-GATCTTC
1 TCCACTGTAA-CTCAGGGAGATAAGATCACTGGCT-TCAATCTGC
* * *
3315119 TCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCGC
1 TCCACTGTAAC-TCAGGGAGATAAGATCACTGGCTTCAATCTGC
* * * ** **
3315158 TCCATTGTAATCTCAAGGGAGATAGGATTACTATCTTTGATCTGC
1 TCCACTGTAA-CTC-AGGGAGATAAGATCACTGGCTTCAATCTGC
*
3315203 TCCGCTGTAATCTCAGGGAGATAAGATC
1 TCCACTGTAA-CTCAGGGAGATAAGATC
3315231 TGAAATTCTT
Statistics
Matches: 190, Mismatches: 38, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
39 15 0.08
40 14 0.07
41 30 0.16
42 4 0.02
43 23 0.12
44 53 0.28
45 18 0.09
46 32 0.17
47 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
TCCACTGTAACTCAGGGAGATAAGATCACTGGCTTCAATCTGC
Found at i:3315096 original size:46 final size:45
Alignment explanation
Indices: 3314976--3315274 Score: 241
Period size: 46 Copynumber: 6.8 Consensus size: 45
3314966 TAGGATAGTG
* * *
3314976 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
3315019 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
3315066 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
3315109 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * *
3315147 -CTTTAATCCGCTCCATTGTAATCTCAAGGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTC-AGGGAGATAAGATCTGAAT
*
3315190 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
3315237 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
3315275 CCTGTATATG
Statistics
Matches: 203, Mismatches: 36, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
39 16 0.08
40 13 0.06
41 29 0.14
44 50 0.25
45 22 0.11
46 70 0.34
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:3327568 original size:17 final size:15
Alignment explanation
Indices: 3327537--3327566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3327527 AAGAAACGAT
3327537 AAATATGTATATATA
1 AAATATGTATATATA
*
3327552 AAATATGTACATATA
1 AAATATGTATATATA
3327567 TATGGGTGTA
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:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
AAATATGTATATATA
Found at i:3328102 original size:2 final size:2
Alignment explanation
Indices: 3328097--3328135 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3328087 CGTAAAAAAA
*
3328097 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3328136 AAGATACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3328255 original size:3 final size:3
Alignment explanation
Indices: 3328247--3328308 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
3328237 GAAATATAGA
* *
3328247 AAT AAT AAT AAT AAT AAT AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3328295 AAT AAT ACT AAT AA
1 AAT AAT AAT AAT AA
3328309 AATTGCTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3329142 original size:21 final size:20
Alignment explanation
Indices: 3329118--3329157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3329108 TATTTTGCAC
3329118 TGTTTGTGTCTCTGCCTTGCG
1 TGTTTGTGTCTCT-CCTTGCG
*
3329139 TGTTTGTTTCTCTCCTTGC
1 TGTTTGTGTCTCTCCTTGC
3329158 AGGTGGAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.00, C:0.25, G:0.23, T:0.53
Consensus pattern (20 bp):
TGTTTGTGTCTCTCCTTGCG
Found at i:3334515 original size:17 final size:18
Alignment explanation
Indices: 3334478--3334515 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3334468 TTGGTCTTAA
3334478 TAAGTTAGTTGACTATTT
1 TAAGTTAGTTGACTATTT
* *
3334496 TAAGTTA-TTTACTTTTT
1 TAAGTTAGTTGACTATTT
3334513 TAA
1 TAA
3334516 AAAATGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
TAAGTTAGTTGACTATTT
Found at i:3334963 original size:30 final size:28
Alignment explanation
Indices: 3334896--3334964 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 28
3334886 TAATAGCCTA
* *
3334896 TAATTTTATTATTTTTAAATAAATAAATT
1 TAATTTTA-TAATTTTAAATAAATAAATG
3334925 TAATTTTTATAATTTTAAA-AAGATTAAAATG
1 TAA-TTTTATAATTTTAAATAA-A-T-AAATG
3334956 TAATTTTAT
1 TAATTTTAT
3334965 GTTTATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 13 0.38
30 12 0.35
31 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TAATTTTATAATTTTAAATAAATAAATG
Found at i:3340830 original size:30 final size:31
Alignment explanation
Indices: 3340767--3340833 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
3340757 TTTAATACTC
*
3340767 AAACTTGACACTTTTTCCTAATTTGATACCT
1 AAACTTGACACTTTTTCCTAAGTTGATACCT
* * *
3340798 AAACTTGACAC-TTTTCTTAAGTTGGTATCT
1 AAACTTGACACTTTTTCCTAAGTTGATACCT
3340828 AAACTT
1 AAACTT
3340834 TTTGGGAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (31 bp):
AAACTTGACACTTTTTCCTAAGTTGATACCT
Found at i:3351276 original size:44 final size:43
Alignment explanation
Indices: 3351226--3351314 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 43
3351216 CTTCAAATGA
3351226 ATTTGGACATCTATTCATTATGGACTTTGAATGTTTATATACAT
1 ATTTGGACATCTATTCATTATGGAC-TTGAATGTTTATATACAT
*
3351270 ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATATAT
1 ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATACAT
3351313 AT
1 AT
3351315 ATATATATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 19 0.43
44 25 0.57
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (43 bp):
ATTTGGACATCTATTCATTATGGACTTGAATGTTTATATACAT
Found at i:3351672 original size:9 final size:9
Alignment explanation
Indices: 3351658--3351703 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
3351648 CCTAATTCTA
3351658 AAAATACAT
1 AAAATACAT
3351667 AAAATA-A-
1 AAAATACAT
*
3351674 AAAATATAT
1 AAAATACAT
3351683 AAAATACAT
1 AAAATACAT
3351692 AAAATACAT
1 AAAATACAT
3351701 AAA
1 AAA
3351704 TTTATTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 26 0.76
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATACAT
Found at i:3351678 original size:16 final size:17
Alignment explanation
Indices: 3351657--3351703 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
3351647 TCCTAATTCT
3351657 AAAAATACATAAAATA-
1 AAAAATACATAAAATAC
*
3351673 AAAAATATATAAAATAC
1 AAAAATACATAAAATAC
3351690 ATAAAATACATAAA
1 A-AAAATACATAAA
3351704 TTTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 15 0.56
17 1 0.04
18 11 0.41
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATACATAAAATAC
Found at i:3353115 original size:29 final size:29
Alignment explanation
Indices: 3353066--3353127 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
3353056 GCAATTAATT
* *
3353066 AATTTTTTTAAAATTTATAAAATTA-TAA
1 AATTTTTTTAAAAATTATAAAACTATTAA
3353094 AATTTATTTTAAAAAATT-TAAAACTATTAA
1 AATTT-TTTT-AAAAATTATAAAACTATTAA
3353124 AATT
1 AATT
3353128 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 11 0.38
30 13 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTTTTTTAAAAATTATAAAACTATTAA
Found at i:3353894 original size:14 final size:14
Alignment explanation
Indices: 3353875--3353902 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3353865 GCTTCAACCT
3353875 TTTAATATTTTTAA
1 TTTAATATTTTTAA
3353889 TTTAATATTTTTAA
1 TTTAATATTTTTAA
3353903 CATATTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATATTTTTAA
Found at i:3356302 original size:24 final size:24
Alignment explanation
Indices: 3356275--3356326 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
3356265 TTAGTAAGTC
*
3356275 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
3356299 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
3356323 AAAT
1 AAAT
3356327 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:3358270 original size:24 final size:24
Alignment explanation
Indices: 3358243--3358294 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
3358233 TTAGTAAGTC
*
3358243 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
3358267 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
3358291 AAAT
1 AAAT
3358295 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:3360238 original size:24 final size:24
Alignment explanation
Indices: 3360211--3360262 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
3360201 TTAGTAAGTC
*
3360211 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
3360235 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
3360259 AAAT
1 AAAT
3360263 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:3363974 original size:17 final size:16
Alignment explanation
Indices: 3363952--3363984 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
3363942 GGGTACACTA
3363952 AAATATTTAAAATAAAT
1 AAATATTTAAAA-AAAT
3363969 AAATATTTAAAAAAAT
1 AAATATTTAAAAAAAT
3363985 GACACATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:3378866 original size:19 final size:19
Alignment explanation
Indices: 3378824--3378868 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3378814 AACTTACAAA
* *
3378824 AAAAATCAAAAATATTTTT
1 AAAAATTAAAAATATTTAT
*
3378843 TAAAATTAAAAATATTTAT
1 AAAAATTAAAAATATTTAT
3378862 AAAAATT
1 AAAAATT
3378869 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTAAAAATATTTAT
Found at i:3382294 original size:14 final size:14
Alignment explanation
Indices: 3382264--3382298 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
3382254 GCTGGGTTTT
3382264 ATTCGTGTAGCAAA
1 ATTCGTGTAGCAAA
3382278 ATTGCGTGTAG-AAA
1 ATT-CGTGTAGCAAA
3382292 ATTCGTG
1 ATTCGTG
3382299 CATGCAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 9 0.45
15 7 0.35
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (14 bp):
ATTCGTGTAGCAAA
Found at i:3382410 original size:14 final size:15
Alignment explanation
Indices: 3382393--3382424 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3382383 ATTTTAATTA
3382393 TTAATTT-TTCTATT
1 TTAATTTCTTCTATT
3382407 TTAATTTCTTCTATT
1 TTAATTTCTTCTATT
3382422 TTA
1 TTA
3382425 TAAAAACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTTCTTCTATT
Found at i:3383809 original size:14 final size:14
Alignment explanation
Indices: 3383790--3383817 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3383780 AAATAAATTT
3383790 TTAATTAATTAAAA
1 TTAATTAATTAAAA
3383804 TTAATTAATTAAAA
1 TTAATTAATTAAAA
3383818 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAATTAAAA
Found at i:3384181 original size:14 final size:14
Alignment explanation
Indices: 3384162--3384191 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3384152 TCCTCTTAAA
3384162 ATTAAAATTTTTTT
1 ATTAAAATTTTTTT
*
3384176 ATTAAAGTTTTTTT
1 ATTAAAATTTTTTT
3384190 AT
1 AT
3384192 AGTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
ATTAAAATTTTTTT
Found at i:3406828 original size:16 final size:16
Alignment explanation
Indices: 3406807--3406840 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3406797 ACTCGAACCC
3406807 ACGTCCTCCTACATTG
1 ACGTCCTCCTACATTG
3406823 ACGTCCTCCTACATTG
1 ACGTCCTCCTACATTG
3406839 AC
1 AC
3406841 AACAATATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.12, T:0.29
Consensus pattern (16 bp):
ACGTCCTCCTACATTG
Found at i:3423837 original size:23 final size:23
Alignment explanation
Indices: 3423808--3423855 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3423798 AGAAAAAAAA
3423808 AAACAATGCACCTCTTTTAGTGC
1 AAACAATGCACCTCTTTTAGTGC
3423831 AAACAATGCACCTCTTTTAGTGC
1 AAACAATGCACCTCTTTTAGTGC
3423854 AA
1 AA
3423856 TTTTTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (23 bp):
AAACAATGCACCTCTTTTAGTGC
Found at i:3425038 original size:31 final size:32
Alignment explanation
Indices: 3424975--3425038 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
3424965 TTCGTCAAAT
* *
3424975 TAATTTTTTAAATTCAATAATTTTAATTAAAA
1 TAATTGTTTAAATTCAATAACTTTAATTAAAA
* *
3425007 TAATTGTTTAAATT-AATCACTTTCATTAAAA
1 TAATTGTTTAAATTCAATAACTTTAATTAAAA
3425038 T
1 T
3425039 TACTGTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (32 bp):
TAATTGTTTAAATTCAATAACTTTAATTAAAA
Done.