Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 7 of 50
Found at i:3950353 original size:11 final size:11
Alignment explanation
Indices: 3950309--3950345 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3950299 AAAATATTGT
3950309 TATTTATAATA
1 TATTTATAATA
*
3950320 TATTTAT--CA
1 TATTTATAATA
3950329 TATTTATAATA
1 TATTTATAATA
3950340 TATTTA
1 TATTTA
3950346 AATGATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTTATAATA
Found at i:3956080 original size:744 final size:743
Alignment explanation
Indices: 3954771--3956258 Score: 2645
Period size: 744 Copynumber: 2.0 Consensus size: 743
3954761 GAACCTACTT
3954771 AATTTAAAATTTTGACATTTGTATTATAATTAAATTAATGATTTTACAAACATATTAGTCATCAC
1 AATTTAAAATTTTGACATTTGTATTATAATTAAATTAATGATTTTACAAACATATTAGTCATCAC
*
3954836 ACCAGTTTTTATAACATAACAAAAGGATGATAAAATATATCTAGTTACCAATTTTGCTAATAAGT
66 ACCAATTTTTATAACATAACAAAAGGATGATAAAATATATCTAGTTACCAATTTTGCTAATAAGT
3954901 CTTGTTTTTATTATTTGTTTCTAGCTATTAACTTAATTTTTTTAATTTTCTCATACTTTTGTTGT
131 CTTGTTTTTATTATTTGTTTCTAGCTATTAACTTAATTTTTTTAATTTTCTCATACTTTTGTTGT
3954966 AAAAAAAGTATATAATTAATTATATTTTGCTAAAAAAAATGAGATAAGCCGTTAAAAAGTCTATC
196 AAAAAAAGTATATAATTAATTATATTTTGCTAAAAAAAATGAGATAAGCCGTTAAAAAGTCTATC
3955031 AATTATATTGACATACATTAAGGTTGCTTTTGAAAAGAAAAACTATTTTTTTTTTGAAAAGGCTT
261 AATTATATTGACATACATTAAGGTTGCTTTTGAAAAGAAAAACTATTTTTTTTTTGAAAAGGCTT
*
3955096 TTTTCCATTAGAGCCCCATATTTAGCATGCTATTACTGTTGGTATATGCCTTTAAGCAAATTGAA
326 TTTTCCATTAGAGCCCCATATTTAGCATGCTATTACTGTTGGTATATGCCTTTAAGCAAATTAAA
* *
3955161 TTGATCAAAGAATATATATTATTATTTAATACATATTTAATCGCATAAATATATGGGATTGAGAT
391 TTGATCAAAGAATATATATTATTATTTAATACATATTTAATCGCATAAATATATGCGATAGAGAT
* * * * * *
3955226 TTTTTTTTCTGTTAGTGTAATAATAAGGAGTTATTAAGTACTAATTGGATTAAGCTCATAGAACA
456 TTTCTTTCCTGTTAATGCAATAATAAGGAGTTATTAAATACTAATTGAATTAAGCTCATAGAACA
*
3955291 TAAAAGCCTTGTAAGAGAATTATAAAGTTTTTGCAATTATGAGATCACCATGCATCAAAGTCATA
521 TAAAAGCCTTGTAAGAGAATTATAAAGTTTTTACAATTATGAGATCACCATGCATCAAAGTCATA
*
3955356 TTCCTAAAATTATTCCTGATCATTGTATTGTCAAGACAAGACATTGACAATACTTAAATACTAGT
586 TTCCTAAAATTATTCCTGATCATTGCATTGTCAAGACAAGACATTGACAATACTTAAATACTAGT
* * *
3955421 GCATGTTAAGCCCTCTTACTTGAGAAATAAGTAATCGATCTTATAGATTGAAGTATATGGGATGC
651 GCATGTTAAGCCCCCTTACTTGAGAAATAAGTAATCGATCTTATAGATTAAAGTATATGGGATAC
*
3955486 TTGAGGACAACATGTGGGTGTTTGTTAA
716 TTGAGGACAACATGTGGGTATTTGTTAA
3955514 AATTTAAAATTTTGACATTTGTATTATAATTAAATTAATGATTTTACAAACATATTAGTCATCAC
1 AATTTAAAATTTTGACATTTGTATTATAATTAAATTAATGATTTTACAAACATATTAGTCATCAC
3955579 ACCAATTTTTATAACATAACAAAAGGATGATAAAATATATCTAGTTACCAATTTTGCTAATAAGT
66 ACCAATTTTTATAACATAACAAAAGGATGATAAAATATATCTAGTTACCAATTTTGCTAATAAGT
*
3955644 CTTGTTTTTATTATTTGTTTCTTGCTATTAACTTAATTTTTTTAATTTTCTCATACTTTTGTTGT
131 CTTGTTTTTATTATTTGTTTCTAGCTATTAACTTAATTTTTTTAATTTTCTCATACTTTTGTTGT
* ** *
3955709 -AAAGAAGTATATAATTAATTATATTTTGCTAAAAAAAATGAGATAAGTTGTTAAAAAGTTTATC
196 AAAAAAAGTATATAATTAATTATATTTTGCTAAAAAAAATGAGATAAGCCGTTAAAAAGTCTATC
3955773 AATTATATTGACATACATTAAGGTTGCTTTTGAAAAGAAAAACTATTATTTTTTTTGGAAAAGGC
261 AATTATATTGACATACATTAAGGTTGCTTTTGAAAAGAAAAACTATT-TTTTTTTT-GAAAAGGC
* * *
3955838 TTTTTTCTATTAGAGCCCCATATTTAGCTTGCTGTTACTGTTGGTATATGCCTTTAAGCAAATTA
324 TTTTTTCCATTAGAGCCCCATATTTAGCATGCTATTACTGTTGGTATATGCCTTTAAGCAAATTA
3955903 AATTGATCAAAGAATATATATTATTATTTAATACATATTTAATCGCATAAATATATGCGATAGAG
389 AATTGATCAAAGAATATATATTATTATTTAATACATATTTAATCGCATAAATATATGCGATAGAG
*
3955968 ATTTTCTTTCCTGTTAATGCAATAATAAGGAGTTATTAAATACTAATTGAATTAAGCTCATGGAA
454 ATTTTCTTTCCTGTTAATGCAATAATAAGGAGTTATTAAATACTAATTGAATTAAGCTCATAGAA
* * * *
3956033 CATAAAGGCTTTGTAAGAGAATTGTAAAGTTTTTACGATTATGAGATCACCATGCATCAAAGTCA
519 CATAAAAGCCTTGTAAGAGAATTATAAAGTTTTTACAATTATGAGATCACCATGCATCAAAGTCA
* * **
3956098 TATTCCTAAAATTGTTCCTGATCATTGCATTGTCAGGACAAGACATTGACAATGTTTAAATACTA
584 TATTCCTAAAATTATTCCTGATCATTGCATTGTCAAGACAAGACATTGACAATACTTAAATACTA
3956163 GTGCATGTTAAGCCCCCTTACTTGAGAAATAAGTAATCGATCTTATAGATTAAAGTATATGGGAT
649 GTGCATGTTAAGCCCCCTTACTTGAGAAATAAGTAATCGATCTTATAGATTAAAGTATATGGGAT
*
3956228 ACTTGAGGACAACGTGTGGGTATTTGTTAA
714 ACTTGAGGACAACATGTGGGTATTTGTTAA
3956258 A
1 A
3956259 TAATAAGTTC
Statistics
Matches: 709, Mismatches: 34, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
742 107 0.15
743 201 0.28
744 401 0.57
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (743 bp):
AATTTAAAATTTTGACATTTGTATTATAATTAAATTAATGATTTTACAAACATATTAGTCATCAC
ACCAATTTTTATAACATAACAAAAGGATGATAAAATATATCTAGTTACCAATTTTGCTAATAAGT
CTTGTTTTTATTATTTGTTTCTAGCTATTAACTTAATTTTTTTAATTTTCTCATACTTTTGTTGT
AAAAAAAGTATATAATTAATTATATTTTGCTAAAAAAAATGAGATAAGCCGTTAAAAAGTCTATC
AATTATATTGACATACATTAAGGTTGCTTTTGAAAAGAAAAACTATTTTTTTTTTGAAAAGGCTT
TTTTCCATTAGAGCCCCATATTTAGCATGCTATTACTGTTGGTATATGCCTTTAAGCAAATTAAA
TTGATCAAAGAATATATATTATTATTTAATACATATTTAATCGCATAAATATATGCGATAGAGAT
TTTCTTTCCTGTTAATGCAATAATAAGGAGTTATTAAATACTAATTGAATTAAGCTCATAGAACA
TAAAAGCCTTGTAAGAGAATTATAAAGTTTTTACAATTATGAGATCACCATGCATCAAAGTCATA
TTCCTAAAATTATTCCTGATCATTGCATTGTCAAGACAAGACATTGACAATACTTAAATACTAGT
GCATGTTAAGCCCCCTTACTTGAGAAATAAGTAATCGATCTTATAGATTAAAGTATATGGGATAC
TTGAGGACAACATGTGGGTATTTGTTAA
Found at i:3959646 original size:2 final size:2
Alignment explanation
Indices: 3959587--3959629 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
3959577 AATATAAAGA
3959587 AG AG AG AG AG AG AG A- AG ACG -G AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG
3959628 AG
1 AG
3959630 GGCAAAGGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 35 0.92
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3971236 original size:2 final size:2
Alignment explanation
Indices: 3971229--3971266 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3971219 TGCCGCTTGG
3971229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3971267 CAATCATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3972263 original size:2 final size:2
Alignment explanation
Indices: 3972256--3972323 Score: 97
Period size: 2 Copynumber: 35.0 Consensus size: 2
3972246 TAATTTTCTG
3972256 AT AT AT AT AT A- AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3972296 AT AT AGT AT AT A- AT AT AT AA AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
3972324 CTACATATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 3 0.05
2 55 0.92
3 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3972276 original size:15 final size:14
Alignment explanation
Indices: 3972256--3972323 Score: 97
Period size: 13 Copynumber: 5.0 Consensus size: 14
3972246 TAATTTTCTG
3972256 ATATATATATA-AT
1 ATATATATATATAT
3972269 ATATATATATATAT
1 ATATATATATATAT
3972283 A-ATATATATATAT
1 ATATATATATATAT
3972296 ATATAGTATATA-AT
1 ATATA-TATATATAT
*
3972310 ATATAAATATATAT
1 ATATATATATATAT
3972324 CTACATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
13 29 0.58
14 15 0.30
15 6 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:3972278 original size:17 final size:17
Alignment explanation
Indices: 3972256--3972323 Score: 113
Period size: 17 Copynumber: 4.1 Consensus size: 17
3972246 TAATTTTCTG
3972256 ATATATATATAATATAT
1 ATATATATATAATATAT
3972273 ATATATATATAATATAT
1 ATATATATATAATATAT
*
3972290 ATATATATATAGTATAT
1 ATATATATATAATATAT
3972307 A-ATATATA-AATATAT
1 ATATATATATAATATAT
3972322 AT
1 AT
3972324 CTACATATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
15 7 0.15
16 7 0.15
17 34 0.71
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (17 bp):
ATATATATATAATATAT
Found at i:3972824 original size:2 final size:2
Alignment explanation
Indices: 3972819--3972856 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3972809 TTTTAGATAA
3972819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3972857 GTATGTAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3973633 original size:22 final size:22
Alignment explanation
Indices: 3973601--3973657 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
3973591 TAATCACCGT
*
3973601 GTGACTAGTTTTTAGTCATTAC
1 GTGACTAGTTTTTAGGCATTAC
* *
3973623 GTGA-TTGGTTTTAGGCATTAC
1 GTGACTAGTTTTTAGGCATTAC
3973644 GTGACTAGTTTTTA
1 GTGACTAGTTTTTA
3973658 TACATTGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.46
Consensus pattern (22 bp):
GTGACTAGTTTTTAGGCATTAC
Found at i:3973663 original size:22 final size:21
Alignment explanation
Indices: 3973601--3973679 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
3973591 TAATCACCGT
3973601 GTGACTAGTTTTTAGTCATTAC
1 GTGACTAGTTTTTA-TCATTAC
* * *
3973623 GTGA-TTGGTTTTAGGCATTAC
1 GTGACTAGTTTTTA-TCATTAC
*
3973644 GTGACTAGTTTTTATACATTGC
1 GTGACTAGTTTTTAT-CATTAC
* *
3973666 ATGACTAATTTTTA
1 GTGACTAGTTTTTA
3973680 AATAATGCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.39
22 28 0.61
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (21 bp):
GTGACTAGTTTTTATCATTAC
Found at i:3973731 original size:23 final size:24
Alignment explanation
Indices: 3973698--3973875 Score: 111
Period size: 26 Copynumber: 7.5 Consensus size: 24
3973688 CTAAGTAGCA
3973698 CAATGCCTTA-CGAACTAGTCACG
1 CAATGCCTTATCGAACTAGTCACG
* * *
3973721 CAATGCTTTA-CTAACAAGTCACG
1 CAATGCCTTATCGAACTAGTCACG
*
3973744 CAATGCC-TATC-AACTAGTCATG
1 CAATGCCTTATCGAACTAGTCACG
*
3973766 CAATGCCTAATCTGAAACTAGTCACG
1 CAATGCCTTATC-G-AACTAGTCACG
* ** *
3973792 CAATGTCTTATAAAAAAGTAGTCACG
1 CAATGCCTTAT--CGAACTAGTCACG
* * * *
3973818 CAAT-AC---TCAAAGTTAGTCACA
1 CAATGCCTTATCGAA-CTAGTCACG
*
3973839 CAATGTCTTATCAGAAACTAGTCACG
1 CAATGCCTTATC-G-AACTAGTCACG
3973865 CAATGCCTTAT
1 CAATGCCTTAT
3973876 AAAAAACTAA
Statistics
Matches: 119, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
20 3 0.03
21 11 0.09
22 20 0.17
23 30 0.25
25 3 0.03
26 50 0.42
27 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (24 bp):
CAATGCCTTATCGAACTAGTCACG
Found at i:3973768 original size:22 final size:24
Alignment explanation
Indices: 3973698--3973796 Score: 100
Period size: 23 Copynumber: 4.2 Consensus size: 24
3973688 CTAAGTAGCA
*
3973698 CAATGCCT-TACGAACTAGTCACG
1 CAATGCCTATACTAACTAGTCACG
* *
3973721 CAATG-CTTTACTAACAAGTCACG
1 CAATGCCTATACTAACTAGTCACG
*
3973744 CAATGCCTAT-C-AACTAGTCATG
1 CAATGCCTATACTAACTAGTCACG
3973766 CAATGCCTA-ATCTGAAACTAGTCACG
1 CAATGCCTATA-CT--AACTAGTCACG
3973792 CAATG
1 CAATG
3973797 TCTTATAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
22 20 0.32
23 25 0.40
24 3 0.05
26 15 0.24
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (24 bp):
CAATGCCTATACTAACTAGTCACG
Found at i:3973813 original size:26 final size:26
Alignment explanation
Indices: 3973780--3973991 Score: 112
Period size: 26 Copynumber: 8.7 Consensus size: 26
3973770 GCCTAATCTG
3973780 AAACTAGTCACGCAATGTCTTATAAA
1 AAACTAGTCACGCAATGTCTTATAAA
* * *
3973806 AAAGTAGTCACGCAAT-AC---T-CA
1 AAACTAGTCACGCAATGTCTTATAAA
** * * *
3973827 AAGTTAGTCACACAATGTCTTATCAG
1 AAACTAGTCACGCAATGTCTTATAAA
*
3973853 AAACTAGTCACGCAATGCCTTATAAA
1 AAACTAGTCACGCAATGTCTTATAAA
* * *
3973879 AAACTAATCACGCAGTGTC----CAA
1 AAACTAGTCACGCAATGTCTTATAAA
** *
3973901 AGTC-AGTCACGCAATGCCTTATAAA
1 AAACTAGTCACGCAATGTCTTATAAA
* * *
3973926 AAACTAATCACGCAGTGTC----CAA
1 AAACTAGTCACGCAATGTCTTATAAA
** *
3973948 AGTC-AGTCACGCAATGCCTTATAAA
1 AAACTAGTCACGCAATGTCTTATAAA
* *
3973973 AAACTAATCACGCAGTGTC
1 AAACTAGTCACGCAATGTC
3973992 CAAAGTCAGT
Statistics
Matches: 129, Mismatches: 42, Indels: 30
0.64 0.21 0.15
Matches are distributed among these distances:
21 36 0.28
22 10 0.08
25 10 0.08
26 73 0.57
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (26 bp):
AAACTAGTCACGCAATGTCTTATAAA
Found at i:3973856 original size:73 final size:73
Alignment explanation
Indices: 3973779--3973944 Score: 208
Period size: 73 Copynumber: 2.3 Consensus size: 73
3973769 TGCCTAATCT
* * *
3973779 GAAACTAGTCACGCAATGTCTTATAAAAAAGTAGTCACGCAATACT-CAAAGTTAGTCACACAAT
1 GAAACTAGTCACGCAATGTCTTATAAAAAACTAATCACGCAAT-CTCCAAAGTCAGTCACACAAT
* *
3973843 GTCTTATCA
65 GCCTTATAA
* * * *
3973852 GAAACTAGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTCAGTCACGCAATG
1 GAAACTAGTCACGCAATGTCTTATAAAAAACTAATCACGCAATCTCCAAAGTCAGTCACACAATG
3973917 CCTTATAA
66 CCTTATAA
* * *
3973925 AAAACTAATCACGCAGTGTC
1 GAAACTAGTCACGCAATGTC
3973945 CAAAGTCAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 1 0.01
73 78 0.99
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.23
Consensus pattern (73 bp):
GAAACTAGTCACGCAATGTCTTATAAAAAACTAATCACGCAATCTCCAAAGTCAGTCACACAATG
CCTTATAA
Found at i:3973909 original size:47 final size:47
Alignment explanation
Indices: 3973858--3974013 Score: 312
Period size: 47 Copynumber: 3.3 Consensus size: 47
3973848 ATCAGAAACT
3973858 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
1 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
3973905 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
1 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
3973952 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
1 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
3973999 AGTCACGCAATGCCT
1 AGTCACGCAATGCCT
3974014 ATTAACTAGT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.21
Consensus pattern (47 bp):
AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTC
Found at i:3974090 original size:69 final size:69
Alignment explanation
Indices: 3973952--3974095 Score: 164
Period size: 69 Copynumber: 2.1 Consensus size: 69
3973942 GTCCAAAGTC
* ** * * * **
3973952 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAGTGTCCAAAGTCAGTCACGCAATGCCTATT
1 AGTCACGCAATGCCTTATAAAAAACTAATCACGCAATACCCAAAGTCAATAACGCAATACCTAAA
3974017 AACT
66 AACT
* * * *
3974021 AGTCACGCAATGCTTTATAAAAAA-TCAGTCACGTAATACCCAAAGTCAATAACGCAATACTTAA
1 AGTCACGCAATGCCTTATAAAAAACT-AATCACGCAATACCCAAAGTCAATAACGCAATACCTAA
3974085 AAACT
65 AAACT
3974090 AGTCAC
1 AGTCAC
3974096 ATAATTTTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
68 1 0.02
69 61 0.98
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.23
Consensus pattern (69 bp):
AGTCACGCAATGCCTTATAAAAAACTAATCACGCAATACCCAAAGTCAATAACGCAATACCTAAA
AACT
Found at i:3987862 original size:20 final size:21
Alignment explanation
Indices: 3987825--3987863 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3987815 TCCCACTTGT
* *
3987825 TTTTTTCTTTCTCTTGCGACC
1 TTTTTTCTTTATCATGCGACC
3987846 TTTTTTCTTTAT-ATGCGA
1 TTTTTTCTTTATCATGCGA
3987864 TAGAGGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTTTCTTTATCATGCGACC
Found at i:3989479 original size:70 final size:69
Alignment explanation
Indices: 3989366--3989508 Score: 234
Period size: 70 Copynumber: 2.0 Consensus size: 69
3989356 TTGAAGAATA
3989366 AAACTAATTATTAAAAAAAATTATTTTAAAAGCNCCATTAAAAATATATAAAATAAATAAAATTG
1 AAACTAATTATTAAAAAAAATTATTTTAAAAGC-CCATTAAAAATATATAAAATAAATAAAATTG
3989431 TATTG
65 TATTG
* *
3989436 AAACTAATTATTAAACAAAAAATTATTTTGAAAG-CCATTAAAAATATATATAATAAATAAAATT
1 AAACTAATTATT-AA-AAAAAATTATTTTAAAAGCCCATTAAAAATATATAAAATAAATAAAATT
3989500 GTATTG
64 GTATTG
3989506 AAA
1 AAA
3989509 GAAATATAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
70 50 0.72
71 2 0.03
72 17 0.25
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (69 bp):
AAACTAATTATTAAAAAAAATTATTTTAAAAGCCCATTAAAAATATATAAAATAAATAAAATTGT
ATTG
Found at i:3989894 original size:15 final size:16
Alignment explanation
Indices: 3989849--3989897 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
3989839 AACATATGTG
*
3989849 TAAATAA-AATAGAAA
1 TAAATAATAATATAAA
3989864 TAAATGAATAAATATAAA
1 TAAAT-AAT-AATATAAA
3989882 T-AATAATAATATAAA
1 TAAATAATAATATAAA
3989897 T
1 T
3989898 TAAAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 14 0.47
16 5 0.17
17 3 0.10
18 8 0.27
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAAATAATAATATAAA
Found at i:3991610 original size:2 final size:2
Alignment explanation
Indices: 3991603--3991627 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3991593 TTCAGACAAT
3991603 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3991628 TATTGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3991746 original size:24 final size:24
Alignment explanation
Indices: 3991719--3991764 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3991709 GCTCATACAA
3991719 ATATTAATTGCTTGGAATTAATTT
1 ATATTAATTGCTTGGAATTAATTT
* *
3991743 ATATTAATTGGTTGGCATTAAT
1 ATATTAATTGCTTGGAATTAAT
3991765 GTCTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
ATATTAATTGCTTGGAATTAATTT
Found at i:4007138 original size:9 final size:9
Alignment explanation
Indices: 4007124--4007161 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
4007114 CCATCCCGAT
4007124 TTTTTTTTA
1 TTTTTTTTA
4007133 TTTTTTTTA
1 TTTTTTTTA
4007142 -TTTTTTTA
1 TTTTTTTTA
*
4007150 TTTTATTTA
1 TTTTTTTTA
4007159 TTT
1 TTT
4007162 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4007147 original size:17 final size:17
Alignment explanation
Indices: 4007125--4007161 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4007115 CATCCCGATT
*
4007125 TTTTTTTATTTTTTTTA
1 TTTTTTTATTTTATTTA
4007142 TTTTTTTATTTTATTTA
1 TTTTTTTATTTTATTTA
4007159 TTT
1 TTT
4007162 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTATTTTATTTA
Found at i:4007153 original size:22 final size:21
Alignment explanation
Indices: 4007123--4007171 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
4007113 GCCATCCCGA
* *
4007123 TTTTTTTTTATTTTTTTTATT
1 TTTTTTTTTATTTATTTAATT
4007144 TTTTTATTTTATTTATTTAATT
1 TTTTT-TTTTATTTATTTAATT
4007166 TTTTTT
1 TTTTTT
4007172 AATTTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTATTTATTTAATT
Found at i:4007174 original size:10 final size:10
Alignment explanation
Indices: 4007122--4007176 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
4007112 AGCCATCCCG
*
4007122 ATTTTTTTTT
1 ATTTTTTTTA
4007132 ATTTTTTTT-
1 ATTTTTTTTA
4007141 A-TTTTTTTA
1 ATTTTTTTTA
*
4007150 TTTTATTTATTTA
1 -ATT-TTT-TTTA
4007163 ATTTTTTTTA
1 ATTTTTTTTA
4007173 ATTT
1 ATTT
4007177 ATGTGTCTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.18
9 1 0.03
10 17 0.45
11 4 0.11
12 5 0.13
13 4 0.11
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:4009079 original size:22 final size:22
Alignment explanation
Indices: 4009048--4009108 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
4009038 AGTATTGTGA
4009048 GACTGATTTTTAGGCATTACGT
1 GACTGATTTTTAGGCATTACGT
* *
4009070 GATTG-GTTTTAGGCATTACGT
1 GACTGATTTTTAGGCATTACGT
*
4009091 GACTGATTTTTACGCATT
1 GACTGATTTTTAGGCATT
4009109 GCTTAAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (22 bp):
GACTGATTTTTAGGCATTACGT
Found at i:4009144 original size:23 final size:23
Alignment explanation
Indices: 4009114--4009247 Score: 155
Period size: 23 Copynumber: 5.7 Consensus size: 23
4009104 GCATTGCTTA
**
4009114 AGTCACACAATGGTTTACTAACT
1 AGTCACACAATGCCTTACTAACT
4009137 AGTCACACAATGCCTTACTAACT
1 AGTCACACAATGCCTTACTAACT
* *
4009160 AGTCACGCAATGCCTTACTAACA
1 AGTCACACAATGCCTTACTAACT
*
4009183 AGTCACGCAATGCC-TA-TCAACT
1 AGTCACACAATGCCTTACT-AACT
* *
4009205 AGTCACACAATGCTTTATCAGAAACT
1 AGTCACACAATGCCTTA-C--TAACT
4009231 AGTCACACAATGCCTTA
1 AGTCACACAATGCCTTA
4009248 TCAAAAACTA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.01
22 17 0.18
23 58 0.60
26 20 0.21
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (23 bp):
AGTCACACAATGCCTTACTAACT
Found at i:4009181 original size:46 final size:46
Alignment explanation
Indices: 4009114--4009251 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 46
4009104 GCATTGCTTA
*
4009114 AGTCACACAATGGTTTACTAACTAGTCACACAATGCCTTA-CTAACT
1 AGTCACACAATGCTTTACTAACTAGTCACACAATGCCTTATC-AACT
* * * *
4009160 AGTCACGCAATGCCTTACTAACAAGTCACGCAATGCC-TATCAACT
1 AGTCACACAATGCTTTACTAACTAGTCACACAATGCCTTATCAACT
*
4009205 AGTCACACAATGCTTTATCAGAAACTAGTCACACAATGCCTTATCAA
1 AGTCACACAATGCTTTA-C--TAACTAGTCACACAATGCCTTATCAA
4009252 AAACTAGTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
45 21 0.27
46 34 0.44
48 16 0.21
49 6 0.08
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.25
Consensus pattern (46 bp):
AGTCACACAATGCTTTACTAACTAGTCACACAATGCCTTATCAACT
Found at i:4009230 original size:26 final size:26
Alignment explanation
Indices: 4009133--4009263 Score: 129
Period size: 23 Copynumber: 5.4 Consensus size: 26
4009123 ATGGTTTACT
*
4009133 AACTAGTCACACAATGCCTTA-C--T
1 AACTAGTCACACAATGCCTTATCAAA
* *
4009156 AACTAGTCACGCAATGCCTTA-C--T
1 AACTAGTCACACAATGCCTTATCAAA
* *
4009179 AACAAGTCACGCAATGCC-TATC---
1 AACTAGTCACACAATGCCTTATCAAA
* *
4009201 AACTAGTCACACAATGCTTTATCAGA
1 AACTAGTCACACAATGCCTTATCAAA
4009227 AACTAGTCACACAATGCCTTATCAAA
1 AACTAGTCACACAATGCCTTATCAAA
4009253 AACTAGTCACA
1 AACTAGTCACA
4009264 AACTAGTCAC
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
22 17 0.18
23 44 0.46
26 35 0.36
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (26 bp):
AACTAGTCACACAATGCCTTATCAAA
Found at i:4009291 original size:21 final size:21
Alignment explanation
Indices: 4009267--4009368 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 21
4009257 AGTCACAAAC
4009267 TAGTCACGCAATGTCCAAAGT
1 TAGTCACGCAATGTCCAAAGT
* **
4009288 TAGTCACGTAATGTCTTATCAAAAAC
1 TAGTCACGCAATGTC----C-AAAGT
**
4009314 TAGTCACGCAATACCCAAAGT
1 TAGTCACGCAATGTCCAAAGT
* *
4009335 CAGTCACGCAATGTCCATAGT
1 TAGTCACGCAATGTCCAAAGT
* *
4009356 CAGTAACGCAATG
1 TAGTCACGCAATG
4009369 CCTAAAAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 46 0.73
22 1 0.02
25 1 0.02
26 15 0.24
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (21 bp):
TAGTCACGCAATGTCCAAAGT
Found at i:4009615 original size:51 final size:50
Alignment explanation
Indices: 4009487--4009617 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 50
4009477 AACGAATATG
*
4009487 AATGCTCAAAAT-ATTCAAAAGTTTTTCTTCATATATCAAAAATCACTCCAA
1 AATGCTCAAAATGCTT-AAAA-TTTTTCTTCATATATCAAAAATCACTCCAA
* * * **
4009538 AATGCTTAAAAATGCTCACAGGTTTTCTTCATATATCAAAAA-CTACTCCAA
1 AATGC-TCAAAATGCTTAAAATTTTTCTTCATATATCAAAAATC-ACTCCAA
4009589 AATGCTCAAAATGCTTAAATATTTTTCTT
1 AATGCTCAAAATGCTTAAA-ATTTTTCTT
4009618 TCTGGTAAGG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
50 12 0.18
51 44 0.68
52 8 0.12
53 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (50 bp):
AATGCTCAAAATGCTTAAAATTTTTCTTCATATATCAAAAATCACTCCAA
Found at i:4012258 original size:9 final size:9
Alignment explanation
Indices: 4012244--4012282 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
4012234 ACACGATTAA
*
4012244 TAACACGTT
1 TAACACGAT
4012253 TAACACGAT
1 TAACACGAT
*
4012262 TAACACGTT
1 TAACACGAT
4012271 TAACACGAT
1 TAACACGAT
4012280 TAA
1 TAA
4012283 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (9 bp):
TAACACGAT
Found at i:4012267 original size:18 final size:18
Alignment explanation
Indices: 4012244--4012282 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4012234 ACACGATTAA
4012244 TAACACGTTTAACACGAT
1 TAACACGTTTAACACGAT
4012262 TAACACGTTTAACACGAT
1 TAACACGTTTAACACGAT
4012280 TAA
1 TAA
4012283 ATAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (18 bp):
TAACACGTTTAACACGAT
Found at i:4013072 original size:63 final size:61
Alignment explanation
Indices: 4012934--4013072 Score: 170
Period size: 63 Copynumber: 2.2 Consensus size: 61
4012924 CACGGCATGA
* * * *
4012934 TTAACACGTTTTACACGTTTATTAAACGTGTCAATATACGACACGACACGATTAANACACG
1 TTAACACGATTAACACGTTTATTAAACGTGTCAATATACGACACGACACGATTAAAACAAG
** * *
4012995 ACACGACACAATTAACACGTTTATTAAACGTGTTAATATACGACACGACACGATTAATAACAAG
1 TTA--ACACGATTAACACGTTTATTAAACGTGTCAATATACGACACGACACGATTAA-AACAAG
4013059 TTTAACACGATTAA
1 -TTAACACGATTAA
4013073 ATAAATATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
61 1 0.02
63 57 0.90
64 4 0.06
65 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (61 bp):
TTAACACGATTAACACGTTTATTAAACGTGTCAATATACGACACGACACGATTAAAACAAG
Found at i:4013157 original size:20 final size:21
Alignment explanation
Indices: 4013129--4013179 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4013119 ATCTATAATT
* *
4013129 ATAAAAATAATTATAACA-AA
1 ATAATAATAATAATAACATAA
4013149 ATAATAATAATAATAACATTAA
1 ATAATAATAATAATAACA-TAA
4013171 AT-ATAATAA
1 ATAATAATAA
4013180 AATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 16 0.59
21 7 0.26
22 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATAATAATAATAACATAA
Found at i:4013178 original size:15 final size:15
Alignment explanation
Indices: 4013158--4013198 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4013148 AATAATAATA
4013158 ATAATAACATTAAAT
1 ATAATAACATTAAAT
* *
4013173 ATAATAAAATTTAAT
1 ATAATAACATTAAAT
4013188 ATAAATAACAT
1 AT-AATAACAT
4013199 ACATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAACATTAAAT
Found at i:4013386 original size:10 final size:10
Alignment explanation
Indices: 4013371--4013402 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
4013361 CACGATTAAG
4013371 TAAACGTGTT
1 TAAACGTGTT
4013381 TAAACGTGTTT
1 TAAACGTG-TT
4013392 TAAACGTGTT
1 TAAACGTGTT
4013402 T
1 T
4013403 GTCGTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (10 bp):
TAAACGTGTT
Found at i:4013395 original size:11 final size:11
Alignment explanation
Indices: 4013371--4013402 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
4013361 CACGATTAAG
4013371 TAAACGTG-TT
1 TAAACGTGTTT
4013381 TAAACGTGTTT
1 TAAACGTGTTT
4013392 TAAACGTGTTT
1 TAAACGTGTTT
4013403 GTCGTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (11 bp):
TAAACGTGTTT
Found at i:4016082 original size:61 final size:63
Alignment explanation
Indices: 4015976--4016093 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 63
4015966 GTAGGCACCC
* * *
4015976 AAAAATTTTTAAATTTTTAAAACATATCTTTATTTTTTTAAAA-TTTATAATTTTACTCTTCT
1 AAAAATTTTTAAATTTTTAAAACATATCTTTAATTTCTTAAAATTTTATAATGTTACTCTTCT
** **
4016038 AAAAA-TTTTAAATTTTTTTAACATATCTTTAATTTCTTGGAATTTTATAATGTTAC
1 AAAAATTTTTAAATTTTTAAAACATATCTTTAATTTCTTAAAATTTTATAATGTTAC
4016094 CCCTACAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 31 0.65
62 17 0.35
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (63 bp):
AAAAATTTTTAAATTTTTAAAACATATCTTTAATTTCTTAAAATTTTATAATGTTACTCTTCT
Found at i:4016086 original size:62 final size:62
Alignment explanation
Indices: 4015976--4016093 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
4015966 GTAGGCACCC
* * *
4015976 AAAAATTTTTAAATTTTTAAAACATATCTTTATTTTTTTAAAATTTATAATTTTACTCTTCT
1 AAAAATTTTTAAATTTTTAAAACATATCTTTATTTCTTGAAAATTTATAATGTTACTCTTCT
** * *
4016038 AAAAA-TTTTAAATTTTTTTAACATATCTTTAATTTCTTGGAATTTTATAATGTTAC
1 AAAAATTTTTAAATTTTTAAAACATATCTTT-ATTTCTTGAAAATTTATAATGTTAC
4016094 CCCTACAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 23 0.48
62 25 0.52
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (62 bp):
AAAAATTTTTAAATTTTTAAAACATATCTTTATTTCTTGAAAATTTATAATGTTACTCTTCT
Found at i:4016939 original size:15 final size:15
Alignment explanation
Indices: 4016919--4016947 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4016909 ATTTATGTAA
4016919 TTTTCATATAAATTT
1 TTTTCATATAAATTT
4016934 TTTTCATATAAATT
1 TTTTCATATAAATT
4016948 ACTTTAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTCATATAAATTT
Found at i:4017020 original size:32 final size:32
Alignment explanation
Indices: 4016984--4017049 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
4016974 CTTCTTATTG
* *
4016984 ACTGTTTTATAGACATTGTCTTCGCCCCAAAC
1 ACTGTTTTATAGACATTGTCATAGCCCCAAAC
* *
4017016 ACTGTTTTATAGATATTGTCATAGTCCCAAAC
1 ACTGTTTTATAGACATTGTCATAGCCCCAAAC
4017048 AC
1 AC
4017050 GAAATCATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (32 bp):
ACTGTTTTATAGACATTGTCATAGCCCCAAAC
Found at i:4026572 original size:2 final size:2
Alignment explanation
Indices: 4026565--4026592 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4026555 TTAACCCCCT
4026565 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4026593 CTATAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4029934 original size:17 final size:17
Alignment explanation
Indices: 4029912--4029945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4029902 ACATTTGGTT
*
4029912 TCAATCATTATCAAAAG
1 TCAATCAATATCAAAAG
4029929 TCAATCAATATCAAAAG
1 TCAATCAATATCAAAAG
4029946 CAAGAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (17 bp):
TCAATCAATATCAAAAG
Found at i:4032269 original size:45 final size:45
Alignment explanation
Indices: 4032127--4032269 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 45
4032117 ATTTTTCCGA
*
4032127 CCCAAAAAAGCCCAATTAAACCCAGATTCTTTAGGTTGAATTAGG
1 CCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGG
* * * * * *** *** **
4032172 CCCAAAAGA-TCCAATTATAGCCCATTAATC-TATCCTCTGTGCTAAA
1 CCCAAAAAAGCCCAATTA-AACCCA-GATTCTTAAGGT-TGAATTAGG
4032218 CCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGG
1 CCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGG
4032263 CCCAAAA
1 CCCAAAA
4032270 GATCCAATTA
Statistics
Matches: 66, Mismatches: 27, Indels: 10
0.64 0.26 0.10
Matches are distributed among these distances:
44 7 0.11
45 29 0.44
46 23 0.35
47 7 0.11
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (45 bp):
CCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGG
Found at i:4032279 original size:44 final size:44
Alignment explanation
Indices: 4032138--4032279 Score: 115
Period size: 46 Copynumber: 3.2 Consensus size: 44
4032128 CCAAAAAAGC
*
4032138 CCAATTAAACCCAGATTCTTTAGGTTGAATTAGGCCCAAAAGAT
1 CCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGAT
* * * *** *** ** * *
4032182 CCAATTATAGCCCATTAATC-TATCCTCTGTGCTAAACCCAAAAAAGC
1 CCAATTA-AACCCA-GATTCTTAAGGT-TGAATTAGGCCCAAAAGA-T
4032229 CCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGAT
1 CCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGAT
4032273 CCAATTA
1 CCAATTA
4032280 CAGCCCAATA
Statistics
Matches: 66, Mismatches: 27, Indels: 10
0.64 0.26 0.10
Matches are distributed among these distances:
44 14 0.21
45 22 0.33
46 23 0.35
47 7 0.11
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (44 bp):
CCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGAT
Found at i:4032285 original size:91 final size:91
Alignment explanation
Indices: 4032126--4032311 Score: 327
Period size: 91 Copynumber: 2.0 Consensus size: 91
4032116 AATTTTTCCG
* *
4032126 ACCCAAAAAAGCCCAATTAAACCCAGATTCTTTAGGTTGAATTAGGCCCAAAAGATCCAATTATA
1 ACCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGATCCAATTACA
* * *
4032191 GCCCATTAATCTATCCTCTGTGCTAA
66 GCCCAATAATCGATCCTCTCTGCTAA
4032217 ACCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGATCCAATTACA
1 ACCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGATCCAATTACA
4032282 GCCCAATAATCGATCCTCTCTGCTAA
66 GCCCAATAATCGATCCTCTCTGCTAA
4032308 ACCC
1 ACCC
4032312 TAGAGAGAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (91 bp):
ACCCAAAAAAGCCCAATTAAACCCAGATTCTTAAGGTTGAATTAGGCCCAAAAGATCCAATTACA
GCCCAATAATCGATCCTCTCTGCTAA
Found at i:4046343 original size:2 final size:2
Alignment explanation
Indices: 4046336--4046406 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
4046326 ATAAGATTGT
4046336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4046378 TA TA TA TA TA TA NA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4046407 GATGTCATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4055084 original size:54 final size:53
Alignment explanation
Indices: 4054971--4055122 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 53
4054961 AAAATTACCT
*
4054971 TAGGGGTATTCCAAGTGTGGAAGAGCCT-AGGGGAGTTCCAAGCGAGGAAGCACC
1 TAGGGGTATTCCAAGCGTGG-A-AGCCTCAGGGGAGTTCCAAGCGAGGAAGCACC
* * * ***
4055025 CAGGGGTATTCCAAGCATGGAAGCTCTCAAGGGAGTTCCAAGCGAGGAAGTGTC
1 TAGGGGTATTCCAAGCGTGGAAGC-CTCAGGGGAGTTCCAAGCGAGGAAGCACC
** * * *
4055079 TAGGGGCGTTCCAAGCGTGAAAGCGCCCAGGGGCGTTCCAAGCG
1 TAGGGGTATTCCAAGCGTGGAAGC-CTCAGGGGAGTTCCAAGCG
4055123 TAGAAACAAC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.04
53 3 0.04
54 74 0.93
ACGTcount: A:0.26, C:0.22, G:0.36, T:0.16
Consensus pattern (53 bp):
TAGGGGTATTCCAAGCGTGGAAGCCTCAGGGGAGTTCCAAGCGAGGAAGCACC
Found at i:4055123 original size:27 final size:27
Alignment explanation
Indices: 4054979--4055123 Score: 130
Period size: 27 Copynumber: 5.4 Consensus size: 27
4054969 CTTAGGGGTA
* * *
4054979 TTCCAAGTGTGGAAGAGCCTAGGGGAG
1 TTCCAAGCGTGGAAGCGCCCAGGGGAG
* *
4055006 TTCCAAGCGAGGAAGCACCCAGGGGTA-
1 TTCCAAGCGTGGAAGCGCCCAGGGG-AG
* * * *
4055033 TTCCAAGCATGGAAGCTCTCAAGGGAG
1 TTCCAAGCGTGGAAGCGCCCAGGGGAG
* * * * *
4055060 TTCCAAGCGAGGAAGTGTCTAGGGGCG
1 TTCCAAGCGTGGAAGCGCCCAGGGGAG
* *
4055087 TTCCAAGCGTGAAAGCGCCCAGGGGCG
1 TTCCAAGCGTGGAAGCGCCCAGGGGAG
4055114 TTCCAAGCGT
1 TTCCAAGCGT
4055124 AGAAACAACC
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
26 1 0.01
27 90 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.35, T:0.17
Consensus pattern (27 bp):
TTCCAAGCGTGGAAGCGCCCAGGGGAG
Found at i:4055802 original size:43 final size:43
Alignment explanation
Indices: 4055751--4055838 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
4055741 TTGCAACACG
4055751 TCCTCCTTCCCTAACCAAAAAGAACCCTCTACAAACACCAATA
1 TCCTCCTTCCCTAACCAAAAAGAACCCTCTACAAACACCAATA
4055794 TCCTCCTTCCCTAACCAAAAAGAACCCTCTACAAACACCAATA
1 TCCTCCTTCCCTAACCAAAAAGAACCCTCTACAAACACCAATA
4055837 TC
1 TC
4055839 AATATTGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.39, C:0.40, G:0.02, T:0.19
Consensus pattern (43 bp):
TCCTCCTTCCCTAACCAAAAAGAACCCTCTACAAACACCAATA
Found at i:4058365 original size:18 final size:18
Alignment explanation
Indices: 4058330--4058367 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4058320 TATAGCATTC
*
4058330 TATATATTTACTATATAT
1 TATATATTTACTACATAT
4058348 TATAT-TTTACTACCATAT
1 TATATATTTACTA-CATAT
4058366 TA
1 TA
4058368 CTTTTACAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATATTTACTACATAT
Found at i:4061194 original size:7 final size:7
Alignment explanation
Indices: 4061182--4061206 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4061172 TAATCTCGGA
4061182 TTTTCTT
1 TTTTCTT
4061189 TTTTCTT
1 TTTTCTT
4061196 TTTTCTT
1 TTTTCTT
4061203 TTTT
1 TTTT
4061207 TTTGAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:4064036 original size:2 final size:2
Alignment explanation
Indices: 4064029--4064143 Score: 130
Period size: 2 Copynumber: 59.0 Consensus size: 2
4064019 ACCAACAGAA
4064029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** ** * * *
4064071 AT AT AT A- AT AT -T AT NNN NN AC AG AA AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
4064111 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4064144 GTTATTACAA
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
1 4 0.04
2 97 0.96
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4069931 original size:11 final size:12
Alignment explanation
Indices: 4069898--4069938 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
4069888 ATTAGTTTGA
4069898 TTTATTGTTTAT
1 TTTATTGTTTAT
*
4069910 TTT-TTGGTTAT
1 TTTATTGTTTAT
4069921 TTTATT-TTTAT
1 TTTATTGTTTAT
4069932 TTGTATT
1 TT-TATT
4069939 CCAGGCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTATTGTTTAT
Found at i:4078932 original size:2 final size:2
Alignment explanation
Indices: 4078925--4078978 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
4078915 CCTCCCCTCC
4078925 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
*
4078967 CT CT CT CC CT CT
1 CT CT CT CT CT CT
4078979 GTCTTTACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4086370 original size:24 final size:25
Alignment explanation
Indices: 4086343--4086402 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
4086333 GGTTTTTCAC
4086343 TCTTTTTTTTTTTC-CTTTTTCTG-T
1 TCTTTTTTTTTTTCTCTTTTT-TGAT
* *
4086367 TC-TTCTTTCTTTCTCTTTTTTGAT
1 TCTTTTTTTTTTTCTCTTTTTTGAT
*
4086391 TCTTTTGTTTTT
1 TCTTTTTTTTTT
4086403 CTGTCAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 11 0.39
24 11 0.39
25 6 0.21
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (25 bp):
TCTTTTTTTTTTTCTCTTTTTTGAT
Found at i:4086403 original size:24 final size:23
Alignment explanation
Indices: 4086347--4086404 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
4086337 TTTCACTCTT
4086347 TTTTTTTTTC-CTTTTTCTGTTC
1 TTTTTTTTTCTCTTTTTCTGTTC
*
4086369 TTCTTTCTTTCTCTTTTT-TGATTC
1 TT-TTTTTTTCTCTTTTTCTG-TTC
4086393 TTTTGTTTTTCT
1 TTTT-TTTTTCT
4086405 GTCAATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 11 0.37
24 17 0.57
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (23 bp):
TTTTTTTTTCTCTTTTTCTGTTC
Found at i:4099874 original size:55 final size:55
Alignment explanation
Indices: 4099790--4099955 Score: 332
Period size: 55 Copynumber: 3.0 Consensus size: 55
4099780 AAGACCCAAT
4099790 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
1 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
4099845 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
1 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
4099900 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
1 GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
4099955 G
1 G
4099956 AACAAAGATT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 111 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (55 bp):
GCCTTGGAGTTTGAGTGTGGGCCTGAAGGTAAATGGAATCTCAAATAGGCCTAAA
Found at i:4107565 original size:12 final size:12
Alignment explanation
Indices: 4107548--4107579 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4107538 ATCTATGCAC
*
4107548 TCTCTCTCTCTT
1 TCTCTCTCTCTG
4107560 TCTCTCTCTCTG
1 TCTCTCTCTCTG
4107572 TCTCTCTC
1 TCTCTCTC
4107580 GCTCTAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (12 bp):
TCTCTCTCTCTG
Found at i:4110172 original size:21 final size:21
Alignment explanation
Indices: 4110141--4110191 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4110131 GTCATTTGCT
4110141 GGGGTTCTTTTTTGTATGTGGA
1 GGGG-TCTTTTTTGTATGTGGA
*
4110163 TGGGTCTTTTTTGTATGTGGA
1 GGGGTCTTTTTTGTATGTGGA
4110184 GGGGTCTT
1 GGGGTCTT
4110192 GCATGGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.08, C:0.06, G:0.37, T:0.49
Consensus pattern (21 bp):
GGGGTCTTTTTTGTATGTGGA
Found at i:4137361 original size:20 final size:20
Alignment explanation
Indices: 4137336--4137374 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4137326 TGGCAACATA
4137336 GTTTGTTGGTGAGCATGGCG
1 GTTTGTTGGTGAGCATGGCG
*
4137356 GTTTGTTGGTGAGTATGGC
1 GTTTGTTGGTGAGCATGGC
4137375 AGCGGATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.08, G:0.44, T:0.38
Consensus pattern (20 bp):
GTTTGTTGGTGAGCATGGCG
Found at i:4144315 original size:18 final size:17
Alignment explanation
Indices: 4144290--4144335 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
4144280 CAATTATTTC
4144290 ATAATTTTTAAATTAAG
1 ATAATTTTTAAATTAAG
*
4144307 ATAACTTTTTATATTAAAAG
1 ATAA-TTTTTAAATT--AAG
4144327 ATAATTTTT
1 ATAATTTTT
4144336 TTTATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 5 0.20
20 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
ATAATTTTTAAATTAAG
Found at i:4144329 original size:20 final size:21
Alignment explanation
Indices: 4144304--4144346 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
4144294 TTTTTAAATT
4144304 AAGATAACTTTTTATA-TTAA
1 AAGATAACTTTTTATATTTAA
* *
4144324 AAGATAATTTTTTTTATTTAA
1 AAGATAACTTTTTATATTTAA
4144345 AA
1 AA
4144347 AATACACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
AAGATAACTTTTTATATTTAA
Found at i:4157918 original size:26 final size:25
Alignment explanation
Indices: 4157875--4157923 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4157865 AAGAGCGAGA
4157875 AGAGAAAGAGAAACGAAAGGAGAAGG
1 AGAGAAAGAGAAACGAAA-GAGAAGG
*
4157901 AGAGAAAG-GAGAAGGAAAGAGAA
1 AGAGAAAGAGA-AACGAAAGAGAA
4157924 CGTGAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.59, C:0.02, G:0.39, T:0.00
Consensus pattern (25 bp):
AGAGAAAGAGAAACGAAAGAGAAGG
Found at i:4170404 original size:13 final size:13
Alignment explanation
Indices: 4170386--4170413 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4170376 TATCATATAC
4170386 TGTCCTTGCCAAA
1 TGTCCTTGCCAAA
4170399 TGTCCTTGCCAAA
1 TGTCCTTGCCAAA
4170412 TG
1 TG
4170414 CATGTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTCCTTGCCAAA
Found at i:4175953 original size:18 final size:18
Alignment explanation
Indices: 4175930--4175975 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4175920 ACACGTTTAC
4175930 TTAATCGTGTTATAGTGT
1 TTAATCGTGTTATAGTGT
* *
4175948 TTAATCGTATTATCGTGT
1 TTAATCGTGTTATAGTGT
*
4175966 TTAAACGTGT
1 TTAATCGTGT
4175976 ATACGTGACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.48
Consensus pattern (18 bp):
TTAATCGTGTTATAGTGT
Found at i:4175982 original size:18 final size:18
Alignment explanation
Indices: 4175930--4175982 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
4175920 ACACGTTTAC
4175930 TTAATCGTGTTATA-GTGT
1 TTAATCGTG-TATACGTGT
*
4175948 TTAATCGTAT-TATCGTGT
1 TTAATCGTGTATA-CGTGT
*
4175966 TTAAACGTGTATACGTG
1 TTAATCGTGTATACGTG
4175983 ACACATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 2 0.07
17 1 0.03
18 24 0.83
19 2 0.07
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (18 bp):
TTAATCGTGTATACGTGT
Found at i:4178349 original size:63 final size:63
Alignment explanation
Indices: 4178247--4178498 Score: 427
Period size: 63 Copynumber: 4.0 Consensus size: 63
4178237 ACTATTATTA
*
4178247 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGACACCAATGGTGCTGACCCATTACAAGAC
1 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAATGGTGCTGACCCATTACAAGAC
*
4178310 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAATGGTGCTGACCCATTTCAAGAC
1 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAATGGTGCTGACCCATTACAAGAC
*
4178373 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCCATGGTGCTGACCCATTACAAGAC
1 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAATGGTGCTGACCCATTACAAGAC
* * *
4178436 TTTTTGATAAATGAAGAAAATGCTGCACTAA-ATGCACC-ATCGGGGCAGACCCATTACAAGAC
1 TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAAT-GGTGCTGACCCATTACAAGAC
4178498 T
1 T
4178499 GTGCTAAAAG
Statistics
Matches: 181, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
61 2 0.01
62 26 0.14
63 153 0.85
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (63 bp):
TTTTTGATAAATGAAGAAAATGCTGCACTAAGAGGCACCAATGGTGCTGACCCATTACAAGAC
Found at i:4185654 original size:20 final size:20
Alignment explanation
Indices: 4185629--4185673 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
4185619 TGTGAAGGAA
4185629 GCATAAAGCAACAATAAAAG
1 GCATAAAGCAACAATAAAAG
4185649 GCATAAAGCAACAATAAAAG
1 GCATAAAGCAACAATAAAAG
4185669 GCATA
1 GCATA
4185674 TCTCATCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (20 bp):
GCATAAAGCAACAATAAAAG
Found at i:4192644 original size:25 final size:26
Alignment explanation
Indices: 4192616--4192665 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
4192606 ACAACTTTTT
4192616 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
*
4192641 AATAAAGTATTAATATTTAAATTAT
1 AATAAAATATTAATATTTAAATTAT
4192666 CAATTNTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:4192860 original size:16 final size:16
Alignment explanation
Indices: 4192841--4192878 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
4192831 TAAAATAAAA
4192841 ATTTAATCATAATAAT
1 ATTTAATCATAATAAT
4192857 ATTTAATCATAATAAT
1 ATTTAATCATAATAAT
4192873 ATTTAA
1 ATTTAA
4192879 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATCATAATAAT
Found at i:4192900 original size:24 final size:27
Alignment explanation
Indices: 4192869--4192930 Score: 103
Period size: 24 Copynumber: 2.4 Consensus size: 27
4192859 TTAATCATAA
4192869 TAATATTTAAATTAAA-T-TAAA-TAT
1 TAATATTTAAATTAAATTCTAAATTAT
4192893 TAATATTTAAATTAAATTCTAAATTAT
1 TAATATTTAAATTAAATTCTAAATTAT
4192920 TAATATTTAAA
1 TAATATTTAAA
4192931 AAATATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 16 0.46
25 1 0.03
26 4 0.11
27 14 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATATTTAAATTAAATTCTAAATTAT
Found at i:4192906 original size:12 final size:11
Alignment explanation
Indices: 4192873--4192918 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
4192863 TCATAATAAT
4192873 ATTTAAATTAA
1 ATTTAAATTAA
*
4192884 ATTAAATATTAA
1 ATTTAA-ATTAA
4192896 TATTTAAATTAA
1 -ATTTAAATTAA
4192908 ATTCTAAATTA
1 ATT-TAAATTA
4192919 TTAATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 8 0.27
12 17 0.57
13 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:4192942 original size:27 final size:25
Alignment explanation
Indices: 4192869--4192938 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
4192859 TTAATCATAA
4192869 TAATATTTAAATTAAA-T-TAAATAT
1 TAATATTTAAA-TAAATTATAAATAT
*
4192893 TAATATTTAAATTAAATTCTAAATTAT
1 TAATATTTAAA-TAAATTATAAA-TAT
4192920 TAATATTTAAA-AAA-TATAA
1 TAATATTTAAATAAATTATAA
4192939 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 20 0.48
25 4 0.10
26 4 0.10
27 14 0.33
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATATTTAAATAAATTATAAATAT
Found at i:4194901 original size:14 final size:14
Alignment explanation
Indices: 4194882--4194909 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4194872 GATGATTTTT
4194882 GTTTCTATGAGAAG
1 GTTTCTATGAGAAG
4194896 GTTTCTATGAGAAG
1 GTTTCTATGAGAAG
4194910 TAACTGACCT
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
GTTTCTATGAGAAG
Found at i:4223522 original size:20 final size:20
Alignment explanation
Indices: 4223491--4223528 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4223481 GTATTAATGC
4223491 TTCAAATAAAATTTTAAATTA
1 TTCAAATAAAA-TTTAAATTA
4223512 TTCAAAT-AAATTTAAAT
1 TTCAAATAAAATTTAAAT
4223529 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTCAAATAAAATTTAAATTA
Found at i:4223564 original size:28 final size:29
Alignment explanation
Indices: 4223521--4223575 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
4223511 ATTCAAATAA
* *
4223521 ATTTAAATAAATTTTTAT-TTTTTATTAT
1 ATTTAAATAAAATTTTATATTTATATTAT
*
4223549 ATTTAATTAAAATTTTATATTTATATT
1 ATTTAAATAAAATTTTATATTTATATT
4223576 TTGTGTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTAAATAAAATTTTATATTTATATTAT
Found at i:4223857 original size:30 final size:29
Alignment explanation
Indices: 4223821--4223924 Score: 129
Period size: 30 Copynumber: 3.6 Consensus size: 29
4223811 AATTATTAAT
4223821 TATAAAAATTTATTTAGTTTAAAATAAAAA
1 TATAAAAATTTATTTA-TTTAAAATAAAAA
4223851 TATAAAAATTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTT-ATTTAAAATAAAAA
*** ** *
4223881 TATAAGTTTTTATTTAAATATAAT-AAAA
1 TATAAAAATTTATTTATTTAAAATAAAAA
4223909 TATAAAAATTTATTTA
1 TATAAAAATTTATTTA
4223925 ATTTTTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 17 0.27
29 6 0.09
30 40 0.62
31 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TATAAAAATTTATTTATTTAAAATAAAAA
Found at i:4228840 original size:35 final size:34
Alignment explanation
Indices: 4228794--4228862 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
4228784 CAGTTTTATA
**
4228794 TTTAATAAAAGATGTTAGAGAATCATGACAGATAT
1 TTTAATAAAAGATAAT-GAGAATCATGACAGATAT
* *
4228829 TTTAATGAAAGATAATGAGGATCATGACAGATAT
1 TTTAATAAAAGATAATGAGAATCATGACAGATAT
4228863 GCTCCTTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (34 bp):
TTTAATAAAAGATAATGAGAATCATGACAGATAT
Found at i:4230491 original size:45 final size:45
Alignment explanation
Indices: 4230427--4230517 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
4230417 TACTATGCTA
4230427 GTACATGTTGTGGGCCAAGTAAATCTTGGGCCCAATTTAACCATG
1 GTACATGTTGTGGGCCAAGTAAATCTTGGGCCCAATTTAACCATG
*
4230472 GTACATGTTGTGGGCCAAGTGAATCTTGGGCCCAATTTAACCATG
1 GTACATGTTGTGGGCCAAGTAAATCTTGGGCCCAATTTAACCATG
4230517 G
1 G
4230518 ATAAAGTTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (45 bp):
GTACATGTTGTGGGCCAAGTAAATCTTGGGCCCAATTTAACCATG
Found at i:4236650 original size:24 final size:24
Alignment explanation
Indices: 4236618--4236665 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4236608 ATTCAAAGCA
*
4236618 CTGATGTGAACTATGTTTTACCAT
1 CTGATGTGAACAATGTTTTACCAT
4236642 CTGATGTGAACAATGTTTTACCAT
1 CTGATGTGAACAATGTTTTACCAT
4236666 GGTAATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (24 bp):
CTGATGTGAACAATGTTTTACCAT
Found at i:4257842 original size:33 final size:33
Alignment explanation
Indices: 4257802--4257869 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
4257792 CCGAGAGCTC
4257802 GATCTCAAAAACGAACGCAATAATCAAAATCTT
1 GATCTCAAAAACGAACGCAATAATCAAAATCTT
4257835 GATCTCAAAAACGAACGCAATAATCAAAATCTT
1 GATCTCAAAAACGAACGCAATAATCAAAATCTT
4257868 GA
1 GA
4257870 CGCACGAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (33 bp):
GATCTCAAAAACGAACGCAATAATCAAAATCTT
Found at i:4258119 original size:6 final size:6
Alignment explanation
Indices: 4258108--4258137 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4258098 ATTAAAACAG
4258108 TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC
1 TGGCTC TGGCTC TGGCTC TGGCTC TGGCTC
4258138 GGGGTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCTC
Found at i:4268836 original size:36 final size:36
Alignment explanation
Indices: 4268789--4268872 Score: 168
Period size: 36 Copynumber: 2.3 Consensus size: 36
4268779 TATCTGTGTA
4268789 GCTTCAGCCCATCAGTCCCTTAGTCCATAGCTTCAG
1 GCTTCAGCCCATCAGTCCCTTAGTCCATAGCTTCAG
4268825 GCTTCAGCCCATCAGTCCCTTAGTCCATAGCTTCAG
1 GCTTCAGCCCATCAGTCCCTTAGTCCATAGCTTCAG
4268861 GCTTCAGCCCAT
1 GCTTCAGCCCAT
4268873 TCGTTCATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.19, C:0.37, G:0.17, T:0.27
Consensus pattern (36 bp):
GCTTCAGCCCATCAGTCCCTTAGTCCATAGCTTCAG
Found at i:4270854 original size:16 final size:16
Alignment explanation
Indices: 4270833--4270864 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4270823 GGCAGACACC
4270833 GGTGCTTGCTTAGGGA
1 GGTGCTTGCTTAGGGA
4270849 GGTGCTTGCTTAGGGA
1 GGTGCTTGCTTAGGGA
4270865 CTTTGGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.44, T:0.31
Consensus pattern (16 bp):
GGTGCTTGCTTAGGGA
Found at i:4272200 original size:33 final size:33
Alignment explanation
Indices: 4272152--4272234 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
4272142 TTAATAACAC
4272152 CGGAACAATATTGACGAAAAGAAGCAAAAAGAG
1 CGGAACAATATTGACGAAAAGAAGCAAAAAGAG
* * * *
4272185 CGGAACAGTACTGACGACAAGAAGCAAAACGAG
1 CGGAACAATATTGACGAAAAGAAGCAAAAAGAG
4272218 CGGAACAATATTGACGA
1 CGGAACAATATTGACGA
4272235 GTGGCAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.17, G:0.25, T:0.10
Consensus pattern (33 bp):
CGGAACAATATTGACGAAAAGAAGCAAAAAGAG
Found at i:4272354 original size:30 final size:30
Alignment explanation
Indices: 4272320--4272378 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4272310 GTAGTCGTCA
*
4272320 TTTTTCTTCTACTTTCTTTTTCTCTTTTTT
1 TTTTTCTTCTACTTTCTTTCTCTCTTTTTT
* *
4272350 TTTTTCTTTTCCTTTCTTTCTCTCTTTTT
1 TTTTTCTTCTACTTTCTTTCTCTCTTTTT
4272379 CTTCTCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTTCTTCTACTTTCTTTCTCTCTTTTTT
Found at i:4272355 original size:14 final size:15
Alignment explanation
Indices: 4272332--4272378 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
4272322 TTTCTTCTAC
4272332 TTTCTTTTTCTCTTT
1 TTTCTTTTTCTCTTT
4272347 TTT-TTTTTCT-TTT
1 TTTCTTTTTCTCTTT
*
4272360 CCTTTCTTTCTCTCTTT
1 --TTTCTTTTTCTCTTT
4272377 TT
1 TT
4272379 CTTCTCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 8 0.30
16 6 0.22
17 3 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTCTCTTT
Found at i:4272379 original size:14 final size:14
Alignment explanation
Indices: 4272332--4272381 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
4272322 TTTCTTCTAC
4272332 TTTCTTTTTCTCTT
1 TTTCTTTTTCTCTT
* *
4272346 TTTTTTTTTCTTTT
1 TTTCTTTTTCTCTT
*
4272360 CCTTTCTTTCTCTCTT
1 --TTTCTTTTTCTCTT
4272376 TTTCTT
1 TTTCTT
4272382 CTCCTTTCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 18 0.62
16 11 0.38
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTCTCTT
Found at i:4272402 original size:38 final size:38
Alignment explanation
Indices: 4272360--4272432 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
4272350 TTTTTCTTTT
4272360 CCTTTCTTTCTCTCTTT-TTCTTCTCCTTTCAGCTGGTA
1 CCTTTCTTTCTCTCTTTCTT-TTCTCCTTTCAGCTGGTA
*
4272398 CCTTTCTTTCTTTCTTTCTTTTCTCCTTTCAGCTG
1 CCTTTCTTTCTCTCTTTCTTTTCTCCTTTCAGCTG
4272433 CTACTATGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.04, C:0.32, G:0.07, T:0.58
Consensus pattern (38 bp):
CCTTTCTTTCTCTCTTTCTTTTCTCCTTTCAGCTGGTA
Found at i:4272598 original size:21 final size:23
Alignment explanation
Indices: 4272572--4272621 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
4272562 CACGTAACAA
**
4272572 AGGAAACAAAAGTAAA-AAGAGG
1 AGGAAACAAAAAAAAAGAAGAGG
4272594 A-GAAA-AAAAAAAAAGAAGAGG
1 AGGAAACAAAAAAAAAGAAGAGG
4272615 AGGAAAC
1 AGGAAAC
4272622 TGCATCCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.68, C:0.04, G:0.26, T:0.02
Consensus pattern (23 bp):
AGGAAACAAAAAAAAAGAAGAGG
Found at i:4273785 original size:16 final size:15
Alignment explanation
Indices: 4273750--4273788 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
4273740 GTAAAAGTAA
4273750 CAAAAAGAAATCTTT
1 CAAAAAGAAATCTTT
4273765 CAAAAAGAAATCTTT
1 CAAAAAGAAATCTTT
4273780 CAAAAAGAA
1 CAAAAAGAA
4273789 GGCTCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (15 bp):
CAAAAAGAAATCTTT
Found at i:4281361 original size:109 final size:110
Alignment explanation
Indices: 4281237--4281483 Score: 336
Period size: 109 Copynumber: 2.3 Consensus size: 110
4281227 ATATTAATAA
* * * *
4281237 TTAAATTATACATAAAATATTAATATTTAAATTATAAATTATTAAATATTTTAAATATATTATGA
1 TTAAATTATAAATAAAATATTAATATTTAAATTATAAATTATT-AATATTTTAAAGAAATTATAA
* *
4281302 ATTATTCATATTTAAAAAAT-AAA-AACAAATAATCATAATAACAT
65 ATAATTCATATTTAAAAAATAAAATAAAAAATAATCATAATAACAT
* * *
4281346 TTAAATTATAAATAAAGTATTAATATTTAAATTATCAATTATTAGTATTTTAAAGAAATTATAAA
1 TTAAATTATAAATAAAATATTAATATTTAAATTATAAATTATTAATATTTTAAAGAAATTATAAA
* * *
4281411 TAATTGATATTTAAAAAATAAAATAAAAAATAATCATAATAGCTT
66 TAATTCATATTTAAAAAATAAAATAAAAAATAATCATAATAACAT
* * *
4281456 TTAAATTGTAAATAAAATAATAGTATTT
1 TTAAATTATAAATAAAATATTAATATTT
4281484 TATAATGTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
108 35 0.29
109 43 0.36
110 42 0.35
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (110 bp):
TTAAATTATAAATAAAATATTAATATTTAAATTATAAATTATTAATATTTTAAAGAAATTATAAA
TAATTCATATTTAAAAAATAAAATAAAAAATAATCATAATAACAT
Found at i:4281421 original size:27 final size:25
Alignment explanation
Indices: 4281374--4281436 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 25
4281364 ATTAATATTT
* *
4281374 AAATTATCAATTATTAGTATTTTAAA
1 AAATTATAAATAATTAGTA-TTTAAA
4281400 GAAATTATAAATAATT-GATATTTAAA
1 -AAATTATAAATAATTAG-TATTTAAA
4281426 AAA-TA-AAATAA
1 AAATTATAAATAA
4281437 AAAATAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 6 0.18
24 2 0.06
25 3 0.09
26 7 0.21
27 15 0.45
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (25 bp):
AAATTATAAATAATTAGTATTTAAA
Found at i:4282853 original size:37 final size:37
Alignment explanation
Indices: 4282803--4282876 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
4282793 GATCAAGCGG
*
4282803 AAAATACAGAAGAGGTGATTTCAACAGTGATTTGCAA
1 AAAATACAGAAGAGGTGATTTCAACACTGATTTGCAA
*
4282840 AAAATAGAGAAGAGGTGATTTCAACACTGATTTGCAA
1 AAAATACAGAAGAGGTGATTTCAACACTGATTTGCAA
4282877 CTTTGCCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (37 bp):
AAAATACAGAAGAGGTGATTTCAACACTGATTTGCAA
Found at i:4283848 original size:54 final size:54
Alignment explanation
Indices: 4283697--4283861 Score: 199
Period size: 54 Copynumber: 3.1 Consensus size: 54
4283687 CTCAAAAGAA
*
4283697 TGAAATTAGG-AAGAAATCCTTAGACACTACAAAGATTTCTCCAATTTC-AATAT
1 TGAAATT-GGAAAGAAATCCTTAGACACTGCAAAGATTTCTCCAATTTCAAATAT
* * ** * *
4283750 CTGAAAATGGAAAGAAATCTTTAGAGGCTGTAAAAATTTCTCCAATTTCAAATAT
1 -TGAAATTGGAAAGAAATCCTTAGACACTGCAAAGATTTCTCCAATTTCAAATAT
* * * *
4283805 TGAAATTGGAAAGAAATCCGTAAACACTGCAAAGATTTTTCCAATTTCAGATAT
1 TGAAATTGGAAAGAAATCCTTAGACACTGCAAAGATTTCTCCAATTTCAAATAT
4283859 TGA
1 TGA
4283862 GAACGTTCAA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.02
54 85 0.92
55 5 0.05
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (54 bp):
TGAAATTGGAAAGAAATCCTTAGACACTGCAAAGATTTCTCCAATTTCAAATAT
Found at i:4285598 original size:61 final size:61
Alignment explanation
Indices: 4285501--4285618 Score: 184
Period size: 61 Copynumber: 1.9 Consensus size: 61
4285491 TTTGACTTAG
4285501 TACTTTTTTAAACACTTATTTTGGAACATCGATTTAGATAAATAAGAGTTAAAATTAATGC
1 TACTTTTTTAAACACTTATTTTGGAACATCGATTTAGATAAATAAGAGTTAAAATTAATGC
* * * *
4285562 TACTTTTTTAAAGCACTTGTTTTGGACCAT-GTTTTAGATAAATAAGTGTTAAAATTA
1 TACTTTTTTAAA-CACTTATTTTGGAACATCGATTTAGATAAATAAGAGTTAAAATTA
4285619 CTGCAATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 37 0.71
62 15 0.29
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (61 bp):
TACTTTTTTAAACACTTATTTTGGAACATCGATTTAGATAAATAAGAGTTAAAATTAATGC
Found at i:4285939 original size:14 final size:13
Alignment explanation
Indices: 4285920--4285949 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
4285910 AAAAATGATT
4285920 AATTATTTGAATAA
1 AATTATTTGAA-AA
4285934 AATTATTTGAAAA
1 AATTATTTGAAAA
4285947 AAT
1 AAT
4285950 AGTGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (13 bp):
AATTATTTGAAAA
Found at i:4286051 original size:27 final size:26
Alignment explanation
Indices: 4286006--4286060 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
4285996 GAAAGTATCA
*
4286006 ATACATTTAAAACATAAACCATTATTG
1 ATACATTTAAAACAGAAACCATT-TTG
*
4286033 ATACATTTAAGACAGAAACCATTTTG
1 ATACATTTAAAACAGAAACCATTTTG
4286059 AT
1 AT
4286061 TTGAAAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (26 bp):
ATACATTTAAAACAGAAACCATTTTG
Found at i:4286390 original size:21 final size:23
Alignment explanation
Indices: 4286366--4286410 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4286356 TCCAAATATC
4286366 GATAC-TTAC-ACAAAAAGTATT
1 GATACATTACAACAAAAAGTATT
*
4286387 GATACAGTTTCAACAAAAAGTATT
1 GATACA-TTACAACAAAAAGTATT
4286411 TTAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
23 3 0.15
24 12 0.60
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (23 bp):
GATACATTACAACAAAAAGTATT
Found at i:4294400 original size:15 final size:16
Alignment explanation
Indices: 4294380--4294421 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4294370 CAGCTTTCTG
4294380 TTTCTTCTTGT-CCTT
1 TTTCTTCTTGTCCCTT
*
4294395 TTTCTTGCTTTTCCCTT
1 TTTCTT-CTTGTCCCTT
4294412 TCTTCTTCTT
1 T-TTCTTCTT
4294422 CCTGACCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 8 0.35
18 5 0.22
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTCTTCTTGTCCCTT
Found at i:4314776 original size:32 final size:32
Alignment explanation
Indices: 4314740--4314806 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
4314730 TTACTTACAG
4314740 TTTTATGAATTATTCAATTTAATTAATTAAAT
1 TTTTATGAATTATTCAATTTAATTAATTAAAT
4314772 TTTTATGAATTATTCAATTTAATTAATTAAAT
1 TTTTATGAATTATTCAATTTAATTAATTAAAT
4314804 TTT
1 TTT
4314807 CATTTTCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTTATGAATTATTCAATTTAATTAATTAAAT
Found at i:4343515 original size:30 final size:28
Alignment explanation
Indices: 4343479--4343543 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
4343469 ATACATGTAG
** *
4343479 TTAATTAAATAATATTTTATTTTTATTT
1 TTAATTAAATAATAAATTATATTTATTT
4343507 CTATAATTAAATAATAAATTATATTTATTT
1 -T-TAATTAAATAATAAATTATATTTATTT
4343537 TTAATTA
1 TTAATTA
4343544 CTAACTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 24 0.75
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAATTAAATAATAAATTATATTTATTT
Found at i:4343553 original size:36 final size:37
Alignment explanation
Indices: 4343484--4343554 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
4343474 TGTAGTTAAT
*
4343484 TAAATAATATTTTATTTTTATTTCTATAATTAAATAA
1 TAAATAATATTTTATTTTTATTACTATAATTAAATAA
* *
4343521 TAAATTATA-TTTATTTTTAATTACTA-ACTTAAAT
1 TAAATAATATTTTATTTTT-ATTACTATAATTAAAT
4343555 GTTTGTACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (37 bp):
TAAATAATATTTTATTTTTATTACTATAATTAAATAA
Found at i:4375200 original size:19 final size:19
Alignment explanation
Indices: 4375176--4375214 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4375166 GGCTCTGTGG
4375176 ACAGGATAAGTTAACAGAA
1 ACAGGATAAGTTAACAGAA
*
4375195 ACAGGATAATTTAACAGAA
1 ACAGGATAAGTTAACAGAA
4375214 A
1 A
4375215 GAAATTGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.18, T:0.18
Consensus pattern (19 bp):
ACAGGATAAGTTAACAGAA
Found at i:4377314 original size:21 final size:21
Alignment explanation
Indices: 4377286--4377335 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4377276 ACCGAACCTG
4377286 GATA-GGGCCCGCAGTTGTAT
1 GATATGGGCCCGCAGTTGTAT
4377306 GATATGGGCCCGCAGTTGTAT
1 GATATGGGCCCGCAGTTGTAT
4377327 GATATGGGC
1 GATATGGGC
4377336 TGTTTTCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (21 bp):
GATATGGGCCCGCAGTTGTAT
Found at i:4383903 original size:14 final size:14
Alignment explanation
Indices: 4383884--4383972 Score: 74
Period size: 14 Copynumber: 6.4 Consensus size: 14
4383874 GCAAAATTAG
*
4383884 ATATACATACATAC
1 ATATACATACATAT
4383898 ATATAC--ACATAT
1 ATATACATACATAT
* * *
4383910 ATGTATATATATAT
1 ATATACATACATAT
4383924 ATATACATACATAT
1 ATATACATACATAT
* * *
4383938 ATATATACACATAC
1 ATATACATACATAT
*
4383952 ATACGTATATACATAT
1 ATA--TACATACATAT
4383968 ATATA
1 ATATA
4383973 TATATATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
12 9 0.15
14 38 0.64
16 12 0.20
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.36
Consensus pattern (14 bp):
ATATACATACATAT
Found at i:4383918 original size:2 final size:2
Alignment explanation
Indices: 4383906--4383981 Score: 71
Period size: 2 Copynumber: 38.0 Consensus size: 2
4383896 ACATATACAC
* * * * *
4383906 AT AT AT GT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
4383948 AT AC AT AC GT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4383982 TGTTGCGTAC
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (2 bp):
AT
Found at i:4383927 original size:18 final size:18
Alignment explanation
Indices: 4383884--4383980 Score: 90
Period size: 18 Copynumber: 5.5 Consensus size: 18
4383874 GCAAAATTAG
*
4383884 ATATACATACATACATAT
1 ATATATATACATACATAT
* * ** *
4383902 ACACATATATGTATATAT
1 ATATATATACATACATAT
4383920 ATATATATACATACATAT
1 ATATATATACATACATAT
*
4383938 ATATATACACATAC--AT
1 ATATATATACATACATAT
** *
4383954 ACGTATATACATATATAT
1 ATATATATACATACATAT
4383972 ATATATATA
1 ATATATATA
4383981 TTGTTGCGTA
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
16 12 0.20
18 47 0.80
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.37
Consensus pattern (18 bp):
ATATATATACATACATAT
Found at i:4383968 original size:8 final size:8
Alignment explanation
Indices: 4383884--4383978 Score: 82
Period size: 8 Copynumber: 11.6 Consensus size: 8
4383874 GCAAAATTAG
4383884 ATATACAT
1 ATATACAT
*
4383892 ACATACAT
1 ATATACAT
*
4383900 ATACACAT
1 ATATACAT
**
4383908 ATATGTAT
1 ATATACAT
*
4383916 ATATATAT
1 ATATACAT
4383924 ATATACAT
1 ATATACAT
*
4383932 ACATATATAT
1 --ATATACAT
*
4383942 ATACACAT
1 ATATACAT
* *
4383950 ACATACGT
1 ATATACAT
4383958 ATATACAT
1 ATATACAT
*
4383966 ATATATAT
1 ATATACAT
4383974 ATATA
1 ATATA
4383979 TATTGTTGCG
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
8 61 0.90
10 7 0.10
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:4394404 original size:2 final size:2
Alignment explanation
Indices: 4394397--4394435 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4394387 GATCGGTATG
4394397 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4394436 CACATATCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4402701 original size:30 final size:30
Alignment explanation
Indices: 4402662--4402725 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
4402652 GATACTGCTA
* *
4402662 CAGTGTCAACGAGTTTCCCTTTCCCCTTAT
1 CAGTATCAACCAGTTTCCCTTTCCCCTTAT
* *
4402692 CAGTATCAACCAGTTTTCCTTTCCCTTTAT
1 CAGTATCAACCAGTTTCCCTTTCCCCTTAT
4402722 CAGT
1 CAGT
4402726 CCTGCTCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (30 bp):
CAGTATCAACCAGTTTCCCTTTCCCCTTAT
Found at i:4405348 original size:1 final size:1
Alignment explanation
Indices: 4405344--4405375 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
4405334 TTTGTTTTGA
*
4405344 GGGGGGAGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
4405376 CTTGGTGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:4407589 original size:15 final size:16
Alignment explanation
Indices: 4407561--4407593 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4407551 TTTTTAATTT
4407561 TAAATAATTAAAATAA
1 TAAATAATTAAAATAA
4407577 TAAATAA-TAAAATAA
1 TAAATAATTAAAATAA
4407592 TA
1 TA
4407594 TTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAATAATTAAAATAA
Found at i:4415146 original size:7 final size:7
Alignment explanation
Indices: 4415116--4415186 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
4415106 ATCAACAAAA
4415116 AAATCTT
1 AAATCTT
*
4415123 AACTCTT
1 AAATCTT
*
4415130 ATA-CTCT
1 AAATCT-T
4415137 AAATCTT
1 AAATCTT
4415144 AAAT-TT
1 AAATCTT
4415150 AAATCTT
1 AAATCTT
*
4415157 AAATTTT
1 AAATCTT
* *
4415164 GAATGTT
1 AAATCTT
4415171 AAAT-TCT
1 AAATCT-T
4415178 AAAT-TT
1 AAATCTT
4415184 AAA
1 AAA
4415187 ATAAATAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
6 13 0.25
7 37 0.71
8 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (7 bp):
AAATCTT
Found at i:4415174 original size:14 final size:14
Alignment explanation
Indices: 4415136--4415186 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
4415126 TCTTATACTC
4415136 TAAATCTTAAA-TT
1 TAAATCTTAAATTT
4415149 TAAATCTTAAATTT
1 TAAATCTTAAATTT
* * *
4415163 TGAATGTTAAATTC
1 TAAATCTTAAATTT
4415177 TAAAT-TTAAA
1 TAAATCTTAAA
4415187 ATAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 16 0.48
14 17 0.52
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (14 bp):
TAAATCTTAAATTT
Found at i:4415188 original size:14 final size:14
Alignment explanation
Indices: 4415134--4415186 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 14
4415124 ACTCTTATAC
4415134 TCTAAATCTTAAAT
1 TCTAAATCTTAAAT
4415148 T-TAAATCTTAAAT
1 TCTAAATCTTAAAT
* * *
4415161 TTTGAATGTTAAAT
1 TCTAAATCTTAAAT
4415175 TCTAAAT-TTAAA
1 TCTAAATCTTAAA
4415187 ATAAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 18 0.53
14 16 0.47
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (14 bp):
TCTAAATCTTAAAT
Found at i:4430799 original size:12 final size:12
Alignment explanation
Indices: 4430782--4430821 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
4430772 AGCTGGAAAT
4430782 AGCGCCAGCGCG
1 AGCGCCAGCGCG
4430794 AGCGCCAGCGCG
1 AGCGCCAGCGCG
* *
4430806 AGCACCAGCGCT
1 AGCGCCAGCGCG
4430818 AGCG
1 AGCG
4430822 GCGTGACGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.40, G:0.38, T:0.03
Consensus pattern (12 bp):
AGCGCCAGCGCG
Found at i:4443922 original size:2 final size:2
Alignment explanation
Indices: 4443909--4443946 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4443899 TATCATGCAT
*
4443909 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4443947 CTTTTTTCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Done.