Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 117 of 206
Found at i:34816917 original size:21 final size:21
Alignment explanation
Indices: 34816892--34816940 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
34816882 GCCTGTGTGG
34816892 CCCACACGGCCTGG-CACAAAA
1 CCCACACGGCCTGGAC-CAAAA
34816913 CCCACACGGCCTGGACCAAAA
1 CCCACACGGCCTGGACCAAAA
34816934 CCCACAC
1 CCCACAC
34816941 ACCCGTGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.47, G:0.16, T:0.04
Consensus pattern (21 bp):
CCCACACGGCCTGGACCAAAA
Found at i:34817116 original size:29 final size:29
Alignment explanation
Indices: 34817083--34817141 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
34817073 GGCCACATGC
*
34817083 CCTTGTGGTGCAGACAGACACACCTGGTA
1 CCTTGTGGTGCAAACAGACACACCTGGTA
34817112 CCTTGTGGTGCAAACAGACACACCTGGTA
1 CCTTGTGGTGCAAACAGACACACCTGGTA
34817141 C
1 C
34817142 AGTTTGATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (29 bp):
CCTTGTGGTGCAAACAGACACACCTGGTA
Found at i:34818799 original size:10 final size:10
Alignment explanation
Indices: 34818784--34818808 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34818774 TCCAGCAACC
34818784 CTCTCCAAAA
1 CTCTCCAAAA
34818794 CTCTCCAAAA
1 CTCTCCAAAA
34818804 CTCTC
1 CTCTC
34818809 AACATGGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (10 bp):
CTCTCCAAAA
Found at i:34821230 original size:17 final size:18
Alignment explanation
Indices: 34821205--34821238 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34821195 TATCTTAATC
*
34821205 TCCCTCTAA-CCACTAAA
1 TCCCACTAACCCACTAAA
34821222 TCCCACTAACCCACTAA
1 TCCCACTAACCCACTAA
34821239 CTCTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (18 bp):
TCCCACTAACCCACTAAA
Found at i:34827081 original size:25 final size:26
Alignment explanation
Indices: 34827022--34827133 Score: 76
Period size: 25 Copynumber: 4.5 Consensus size: 26
34827012 GTACATGTAT
*
34827022 GCTCATACGAGC--AATAAACGGTAA
1 GCTCATACGAGCTGAATAAATGGTAA
* *
34827046 GCTCCTCCGAGCTGAAT-AATGGTAA
1 GCTCATACGAGCTGAATAAATGGTAA
* *
34827071 GCTCATACGAGTTG--TGAATCGGTAA
1 GCTCATACGAGCTGAATAAAT-GGTAA
** ** *
34827096 AATCCCACGAGCT-AA-AATTGGTAA
1 GCTCATACGAGCTGAATAAATGGTAA
34827120 GCTCATACGAGCTG
1 GCTCATACGAGCTG
34827134 TGGTGTGTCA
Statistics
Matches: 64, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
23 1 0.02
24 27 0.42
25 33 0.52
26 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (26 bp):
GCTCATACGAGCTGAATAAATGGTAA
Found at i:34829612 original size:45 final size:44
Alignment explanation
Indices: 34829487--34829617 Score: 124
Period size: 45 Copynumber: 2.9 Consensus size: 44
34829477 CTATACTCCT
* * *
34829487 AAAATGAGTAAGATCATAGCTAAAAGACGTTATAGCATTATGACA
1 AAAATGACTAAGACCATAGCTAAAAGACG-TATGGCATTATGACA
* * * *
34829532 AAAATGAGTAAGACCATGGCTGAAAGATGTCATGGC-TTCATAGA-A
1 AAAATGACTAAGACCATAGCTAAAAGACGT-ATGGCATT-AT-GACA
34829577 AACAA-GACTAAGACCATAGCTAAAAGACGCTATGGCATTAT
1 AA-AATGACTAAGACCATAGCTAAAAGACG-TATGGCATTAT
34829618 TTGACATTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
44 3 0.04
45 61 0.86
46 7 0.10
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (44 bp):
AAAATGACTAAGACCATAGCTAAAAGACGTATGGCATTATGACA
Found at i:34829911 original size:27 final size:27
Alignment explanation
Indices: 34829881--34829944 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
34829871 GACATCAAAA
34829881 ATAGTCTGACGAGACATTAAACACGGG
1 ATAGTCTGACGAGACATTAAACACGGG
* *
34829908 ATAG-CTCAATGAGACATTAAACACGGG
1 ATAGTCT-GACGAGACATTAAACACGGG
*
34829935 GTAGTCTGAC
1 ATAGTCTGAC
34829945 AGGATGTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
ATAGTCTGACGAGACATTAAACACGGG
Found at i:34830009 original size:27 final size:27
Alignment explanation
Indices: 34829924--34830002 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
34829914 CAATGAGACA
* *
34829924 TTAAACACGGGGTAGTCTGACAGGATG
1 TTAAACACGAGGTAGTCTGAAAGGATG
* *
34829951 TTAAACACGTGGTAGTCCGAAAGGATG
1 TTAAACACGAGGTAGTCTGAAAGGATG
*
34829978 TTAAACACGAGGTAGTCTGATAGGA
1 TTAAACACGAGGTAGTCTGAAAGGA
34830003 CGATAAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
TTAAACACGAGGTAGTCTGAAAGGATG
Found at i:34833189 original size:23 final size:23
Alignment explanation
Indices: 34833145--34833194 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
34833135 AGATAGATTG
* *
34833145 TAGTAACAACAAAGATAAGAGAA
1 TAGTAACAAAAAAAATAAGAGAA
*
34833168 TAGTAAGAAAAAAAATATGAGAGAA
1 TAGTAACAAAAAAAATA--AGAGAA
34833193 TA
1 TA
34833195 TAAGACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (23 bp):
TAGTAACAAAAAAAATAAGAGAA
Found at i:34834450 original size:3 final size:3
Alignment explanation
Indices: 34834410--34834435 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34834400 CAACAACAAC
34834410 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
34834436 AAGCTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34840484 original size:17 final size:17
Alignment explanation
Indices: 34840457--34840499 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34840447 TTATAGGATT
34840457 TTTTTACAAT-ATTTATTA
1 TTTTTA-AATAATTT-TTA
34840475 TTTTTAAATAATTTTTA
1 TTTTTAAATAATTTTTA
*
34840492 ATTTTAAA
1 TTTTTAAA
34840500 AAGTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATAATTTTTA
Found at i:34840753 original size:16 final size:17
Alignment explanation
Indices: 34840703--34840760 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
34840693 TTTAAATTAA
*
34840703 AAATA-TAT-AAAATAT
1 AAATATTATAAAAAAAT
* *
34840718 AAATATTTTAAAATACAT
1 AAATATTATAAAA-AAAT
34840736 AAAT-TTATAAAAAAAT
1 AAATATTATAAAAAAAT
34840752 AAATATTAT
1 AAATATTAT
34840761 TTCATGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 5 0.14
16 9 0.26
17 14 0.40
18 7 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTATAAAAAAAT
Found at i:34840936 original size:18 final size:19
Alignment explanation
Indices: 34840886--34840959 Score: 52
Period size: 19 Copynumber: 4.0 Consensus size: 19
34840876 ATTAAAAAAA
*
34840886 ATAAAATC-TAAAAATTCAT
1 ATAAAATCATAAATATT-AT
34840905 -TAAAAAT-ATAAAATATT-T
1 AT-AAAATCAT-AAATATTAT
34840923 -TAAAATACATAAAT-TTAT
1 ATAAAAT-CATAAATATTAT
*
34840941 ATAAAATTATAAATATTAT
1 ATAAAATCATAAATATTAT
34840960 TTCATGTTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
17 7 0.16
18 14 0.31
19 18 0.40
20 6 0.13
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATCATAAATATTAT
Found at i:34840959 original size:19 final size:18
Alignment explanation
Indices: 34840903--34840960 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
34840893 CTAAAAATTC
*
34840903 ATTAAAAATATAAAATATT
1 ATTAAAATTAT-AAATATT
*
34840922 -TTAAAATACATAAAT-TT
1 ATTAAAAT-TATAAATATT
34840939 ATATAAAATTATAAATATT
1 AT-TAAAATTATAAATATT
34840958 ATT
1 ATT
34840961 TCATGTTGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 2 0.06
18 18 0.56
19 12 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAAAATTATAAATATT
Found at i:34841140 original size:29 final size:29
Alignment explanation
Indices: 34841078--34841152 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
34841068 ATTATTTTAA
*
34841078 AATTAAAAATATATAAAATCTAAAAAAATC
1 AATTAAAAATATAT-AAATTTAAAAAAATC
*
34841108 -ATTAAAAATATATAAATTTATCAAAAA-C
1 AATTAAAAATATATAAATTTA-AAAAAATC
*
34841136 AATTATAAAT-TA-AAATT
1 AATTAAAAATATATAAATT
34841153 AAATATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.12
28 9 0.22
29 26 0.65
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AATTAAAAATATATAAATTTAAAAAAATC
Found at i:34842526 original size:21 final size:20
Alignment explanation
Indices: 34842500--34842554 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
34842490 TTTTACACTA
34842500 TTGTGGATAAACCACTCATCG
1 TTGTGGATAAACCACTC-TCG
**
34842521 TTGTGGACGAACCA--CTCG
1 TTGTGGATAAACCACTCTCG
34842539 TTGTGGATAAACCACT
1 TTGTGGATAAACCACT
34842555 AATAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
21 12 0.43
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
TTGTGGATAAACCACTCTCG
Found at i:34842713 original size:21 final size:22
Alignment explanation
Indices: 34842666--34842714 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
34842656 AGTTGCTAGT
*
34842666 ACGGTGTGGTTAAACCACTCAA
1 ACGGTGTGGATAAACCACTCAA
34842688 ACGGTGTGGATAAACCACTC-A
1 ACGGTGTGGATAAACCACTCAA
34842709 ACGGTG
1 ACGGTG
34842715 CAAATAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
ACGGTGTGGATAAACCACTCAA
Found at i:34842721 original size:21 final size:22
Alignment explanation
Indices: 34842676--34842723 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
34842666 ACGGTGTGGT
***
34842676 TAAACCACTCAAACGGTGTGGA
1 TAAACCACTCAAACGGTGCAAA
34842698 TAAACCACTC-AACGGTGCAAA
1 TAAACCACTCAAACGGTGCAAA
34842719 TAAAC
1 TAAAC
34842724 TGCTCAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (22 bp):
TAAACCACTCAAACGGTGCAAA
Found at i:34842872 original size:34 final size:34
Alignment explanation
Indices: 34842834--34842898 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
34842824 CACTATGGAA
* *
34842834 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCTTATAATAGATTCATTCAGTG
*
34842868 GCAATTATTATGCTTATAATAGATTCATTCA
1 GCAATCATTATGCTTATAATAGATTCATTCA
34842899 ATAACAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (34 bp):
GCAATCATTATGCTTATAATAGATTCATTCAGTG
Found at i:34844255 original size:19 final size:21
Alignment explanation
Indices: 34844217--34844255 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34844207 ATTATATATT
*
34844217 AAATATATATTATTTTTAATC
1 AAATATATATTATTTGTAATC
34844238 AAATATATA-TA-TTGTAAT
1 AAATATATATTATTTGTAAT
34844256 AGGCCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATATATATTATTTGTAATC
Found at i:34846177 original size:3 final size:3
Alignment explanation
Indices: 34846169--34846223 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
34846159 GTTTCATTAC
* * *
34846169 ATT ATT ATT ATT ATTT ATGT AGT ATT ATT ATA ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
34846216 ATT TTT AT
1 ATT ATT AT
34846224 AAATCTGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34850522 original size:55 final size:55
Alignment explanation
Indices: 34850460--34850583 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
34850450 AAAGGCTCAG
*
34850460 ATCAAAAAAGGAAAGAA-AAATAAA-AAAAATCAA-AGTCAAAATGAAAATGAA-AAAA
1 ATCAAAAAA-AAAAGAACAAA-AAATAAAAATCAAGA-TCAAAATGAAAAT-AAGAAAA
*
34850515 ATCAAAAAAAAAAGAACAAAAAATCAAAATCAAGATCAAAATGAAAATAAGAAAA
1 ATCAAAAAAAAAAGAACAAAAAATAAAAATCAAGATCAAAATGAAAATAAGAAAA
* *
34850570 A-GAAAGAAAAAAGA
1 ATCAAAAAAAAAAGA
34850584 GAAATCTAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
54 22 0.36
55 38 0.62
56 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.10, T:0.10
Consensus pattern (55 bp):
ATCAAAAAAAAAAGAACAAAAAATAAAAATCAAGATCAAAATGAAAATAAGAAAA
Found at i:34850527 original size:27 final size:27
Alignment explanation
Indices: 34850476--34850570 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
34850466 AAAGGAAAGA
***
34850476 AAAATAAAAAAAATCAAAGTCAAAATG
1 AAAATAAAAAAAATCAAAAAAAAAATG
*
34850503 AAAATGAAAAAAATCAAAAAAAAAA-G
1 AAAATAAAAAAAATCAAAAAAAAAATG
* **
34850529 AACAA-AAAATCAAAATCAAGATCAAAATG
1 AA-AATAAAA--AAAATCAAAAAAAAAATG
*
34850558 AAAATAAGAAAAA
1 AAAATAAAAAAAA
34850571 GAAAGAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
26 6 0.11
27 27 0.50
28 15 0.28
29 6 0.11
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (27 bp):
AAAATAAAAAAAATCAAAAAAAAAATG
Found at i:34852780 original size:43 final size:43
Alignment explanation
Indices: 34852700--34852828 Score: 215
Period size: 43 Copynumber: 3.0 Consensus size: 43
34852690 TCAGTGAATA
* *
34852700 CGGCGGATCTTATCTT-CCCAGGAGTAGGGAAATAGATCTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
34852742 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
* *
34852785 CGGCGAATCTTATTTTCCCCAGGAGTAGGGAAACAGATTTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
34852828 C
1 C
34852829 CACAAGTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
42 15 0.18
43 67 0.82
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (43 bp):
CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
Found at i:34853197 original size:45 final size:45
Alignment explanation
Indices: 34853135--34853261 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 45
34853125 TCACATCACG
* * *
34853135 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CTAAG-TAAGCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGATAACCA-A
* * * *
34853179 TCTTATC-CCGACTGAAGTTGCAGTGGGGTAGATCGAAGATGACCAA
1 TCTTATCTCC--CTGAAGTTACAGTGGAGCAGATCGAAGATAACCAA
*
34853225 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAG
34853262 CCGATAATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
43 2 0.03
44 7 0.10
45 41 0.61
46 11 0.16
47 6 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGATAACCAA
Found at i:34853285 original size:44 final size:44
Alignment explanation
Indices: 34852963--34853286 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 44
34852953 AAGCCACGAG
* * * * * **
34852963 TCTTATCCCCCTGAGGTCACAGTGGGGCAGACTGAAGAAGCA-AA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCG-ATAA
*
34853007 TCTTATCTCCCTGAAGTTATAGTGGAGCAGATTG-AGCCGATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
* * ** * * **
34853050 TCCTATCTCCCTTAAGTTGTAGTGGAGCGGATTAAAG-TAATAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATA-A
* * * * * *
34853094 TCTTAGCTCTCTGAAGTTGCAGT--AG-AG--TGGATCAC-ATCACG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGC-CGAT-A-A
* **
34853135 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAG-C-A-GG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-T-TG-AAGCCGATAA
* * * * ** *
34853179 TCTTATC-CCGACTGAAGTTGCAGTGGGGTAGATCGAAGATGACCAA
1 TCTTATCTCC--CTGAAGTTACAGTGGAGCAGATTGAAGCCGA-TAA
34853225 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
*
34853269 TCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTT
34853287 GTAGTAGAGT
Statistics
Matches: 210, Mismatches: 49, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 22 0.10
42 6 0.03
43 42 0.20
44 80 0.38
45 43 0.20
46 7 0.03
47 4 0.02
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
Found at i:34853338 original size:44 final size:44
Alignment explanation
Indices: 34853006--34853331 Score: 184
Period size: 44 Copynumber: 7.5 Consensus size: 44
34852996 GAAGAAGCAA
** * **
34853006 ATCTTATCTCCCTGAAGTTATAGTGGAGCAGATT-GAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATAG
* * * *
34853049 ATCCTATCTCCCTTAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
* * * ** * * * *
34853093 ATCTTAGCTCTCTGAAGTTGCAGTAGAGTGGATCACA-TCA-CG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
* * *
34853135 -TCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGTAAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-TAG
* * * ** **
34853178 GTCTTATC-CCGACTGAAGTTGCAGTGGGGTAGATCGAAGATGACCA-
1 ATCTTATCTCC--CTGAAGTTGCAGTGGAGCAGATTAAAG-T-AATAG
* * **
34853224 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAATAG
* * * **
34853268 ATCCTATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
*
34853312 ATCTTATCTCTCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTG
34853332 TAGTAGACCA
Statistics
Matches: 214, Mismatches: 56, Indels: 25
0.73 0.19 0.08
Matches are distributed among these distances:
40 1 0.00
41 27 0.13
42 1 0.00
43 41 0.19
44 87 0.41
45 41 0.19
46 10 0.05
47 5 0.02
48 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
Found at i:34855040 original size:19 final size:17
Alignment explanation
Indices: 34855016--34855058 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
34855006 ATAGTCATTG
*
34855016 TTATTATCATTATTTTTA
1 TTATTAT-ATTATTTATA
34855034 TTTATTAATATTATTTATA
1 -TTATT-ATATTATTTATA
34855053 TTATTA
1 TTATTA
34855059 CTCTAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 14 0.64
20 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATATTATTTATA
Found at i:34855114 original size:3 final size:3
Alignment explanation
Indices: 34855106--34855163 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
34855096 GTTTCATTAC
* * *
34855106 ATT ATT ATT ATT ATTT ATGT AGT ATT ATT ATA ATT ATT ATT ATT TTT
1 ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
34855153 ATT ATT TTT AT
1 ATT ATT ATT AT
34855164 AAATTTGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.89
4 5 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34856493 original size:11 final size:11
Alignment explanation
Indices: 34856476--34856514 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
34856466 TTTTTAATCA
34856476 AATATATATTT
1 AATATATATTT
* *
34856487 TATATATATTA
1 AATATATATTT
34856498 AATATATATTT
1 AATATATATTT
34856509 AATATA
1 AATATA
34856515 GGCCAGGCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AATATATATTT
Found at i:34856955 original size:20 final size:19
Alignment explanation
Indices: 34856932--34856971 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34856922 TCAAAAAAAA
34856932 TTATATATTATTAACTATTT
1 TTATATATTATTAA-TATTT
* *
34856952 TTATATTTTTTTAATATTT
1 TTATATATTATTAATATTT
34856971 T
1 T
34856972 AGTTATTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTATTAATATTT
Found at i:34872597 original size:20 final size:20
Alignment explanation
Indices: 34872572--34872637 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
34872562 ATAAATGAGT
34872572 AAATTTCTAGAATTTCAGCA
1 AAATTTCTAGAATTTCAGCA
*
34872592 AAATTTCTAAAATTTCAGCA
1 AAATTTCTAGAATTTCAGCA
*
34872612 TAATTTCTAGAATTTCAGCA
1 AAATTTCTAGAATTTCAGCA
*
34872632 TAATTT
1 AAATTT
34872638 TTCAATTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (20 bp):
AAATTTCTAGAATTTCAGCA
Found at i:34880214 original size:86 final size:85
Alignment explanation
Indices: 34880069--34880230 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 85
34880059 TTGCAATTTT
* * * *
34880069 TGCCACTTGTTGTGGGTACACAACATATTTGCAGATTAAACAAACTACCACTTGGTTCATGATCG
1 TGCCACTTGTTGTGAGTACACAACATATTTGCAGATTAAACAAACTACCACTTGATTCATAATCA
*
34880134 AACCATATATTAGCAGTTAC
66 AACCACATATTAGCAGTTAC
* * *
34880154 TGCCACTTGTTGTGAGTGCACAATATATTTGACGGATTAAACAAACTACCACTTGATTCATAATC
1 TGCCACTTGTTGTGAGTACACAACATATTTG-CAGATTAAACAAACTACCACTTGATTCATAATC
34880219 AAACCACATATT
65 AAACCACATATT
34880231 TATGGATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
85 28 0.41
86 40 0.59
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (85 bp):
TGCCACTTGTTGTGAGTACACAACATATTTGCAGATTAAACAAACTACCACTTGATTCATAATCA
AACCACATATTAGCAGTTAC
Found at i:34882982 original size:43 final size:44
Alignment explanation
Indices: 34882921--34883016 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 44
34882911 ACGCTTTCAC
** *
34882921 ACCTTTAGCGGTGCTTTTCCCACAAAAGCCGCTATAGACCAT-A
1 ACCTTTAGCGACGCTTTTCCCACAAAAGCCGCTAAAGACCATGA
* *
34882964 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGATCATGA
1 ACCTTTAGCGACGCTTTTCCCACAAAAGCCGCTAAAGACCATGA
34883008 A-CTTTAGCG
1 ACCTTTAGCG
34883017 GCACTTCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 45 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (44 bp):
ACCTTTAGCGACGCTTTTCCCACAAAAGCCGCTAAAGACCATGA
Found at i:34883078 original size:41 final size:41
Alignment explanation
Indices: 34882966--34883083 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 41
34882956 AGACCATAAC
*
34882966 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGATCATGAA
1 CTTTAGCGACGCTTTT-TCACAAACGCCGCTAAAGAT-ATGAA
* *
34883009 CTTTAGCGGCACTTCTATT-ACAAACGCCGCTATAAGAT-TG-A
1 CTTTAGCGACGCTT-T-TTCACAAACGCCGCTA-AAGATATGAA
*
34883050 CTTTTAGCGACGCTTTTTCACAAGCGCCGCTAAA
1 C-TTTAGCGACGCTTTTTCACAAACGCCGCTAAA
34883084 AACATAACTT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
40 4 0.06
41 15 0.23
42 13 0.20
43 25 0.39
44 6 0.09
45 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (41 bp):
CTTTAGCGACGCTTTTTCACAAACGCCGCTAAAGATATGAA
Found at i:34887297 original size:22 final size:22
Alignment explanation
Indices: 34887249--34887316 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
34887239 TCTTTCATAT
*
34887249 AAATTTTAAATAAATAATTATT
1 AAATTTTAAATAAATAATTATA
* *
34887271 AAATTTTAAGT-AATATTTATA
1 AAATTTTAAATAAATAATTATA
*
34887292 AGAA--TTAGAT-AA-AATTATA
1 A-AATTTTAAATAAATAATTATA
34887311 AAATTT
1 AAATTT
34887317 AGTTTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 2 0.05
19 7 0.19
20 7 0.19
21 9 0.24
22 12 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATTTTAAATAAATAATTATA
Found at i:34887717 original size:7 final size:7
Alignment explanation
Indices: 34887705--34887795 Score: 53
Period size: 7 Copynumber: 12.9 Consensus size: 7
34887695 ACCCCTGAAT
34887705 CCCTAAA
1 CCCTAAA
34887712 CCCTAAA
1 CCCTAAA
34887719 TCCCT-AA
1 -CCCTAAA
* *
34887726 CTCTTAA
1 CCCTAAA
*
34887733 CCCTTAA
1 CCCTAAA
*
34887740 CCTCTAAC
1 CC-CTAAA
*
34887748 CCCTAAC
1 CCCTAAA
34887755 CCCTAAA
1 CCCTAAA
*
34887762 CCTTAAA
1 CCCTAAA
34887769 TCCC--AA
1 -CCCTAAA
34887775 CCCTTAAA
1 CCC-TAAA
* *
34887783 CCATAAT
1 CCCTAAA
34887790 CCCTAA
1 CCCTAA
34887796 TCCATAATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.04
6 5 0.07
7 44 0.66
8 15 0.22
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAA
Found at i:34887763 original size:15 final size:15
Alignment explanation
Indices: 34887695--34887763 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 15
34887685 CCCTAACTCG
* *
34887695 ACCCCTGAATCCCTA
1 ACCCCTAAACCCCTA
* *
34887710 AACCCTAAATCCCTA
1 ACCCCTAAACCCCTA
* * *
34887725 A-CTCTTAACCCTTA
1 ACCCCTAAACCCCTA
*
34887739 ACCTCT-AACCCCTA
1 ACCCCTAAACCCCTA
34887753 ACCCCTAAACC
1 ACCCCTAAACC
34887764 TTAAATCCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 22 0.50
15 22 0.50
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (15 bp):
ACCCCTAAACCCCTA
Found at i:34887800 original size:14 final size:14
Alignment explanation
Indices: 34887783--34887824 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
34887773 AACCCTTAAA
34887783 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
34887797 CCATAATTCCTAAAT
1 CCATAATCCCT-AAT
*
34887812 CCATACTCCCTAA
1 CCATAATCCCTAA
34887825 ACCTTACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:34887812 original size:15 final size:15
Alignment explanation
Indices: 34887779--34887825 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
34887769 TCCCAACCCT
34887779 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
34887793 T-AATCCATAATTCC
1 TAAATCCATAATCCC
*
34887807 TAAATCCATACTCCC
1 TAAATCCATAATCCC
34887822 TAAA
1 TAAA
34887826 CCTTACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:34888486 original size:41 final size:41
Alignment explanation
Indices: 34888209--34888491 Score: 359
Period size: 41 Copynumber: 6.9 Consensus size: 41
34888199 AAATGTTTTT
* * * *
34888209 GCGGCGCTTTTTTTAGAAACGCCGCTAAATCCCTGAGCATTA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
34888251 GCGGCGCTTTTTCAAAAAAGCAGCTAAACCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * **
34888292 GCGACGTTTTTTCAAAAACGCCGCTAAATTCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
34888333 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
34888374 GCAGCACCTTTTCAAAAACGCTGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
34888415 GCGGCGCTTTTCCAAAAAACGCCGCTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCCGAGCATTA
* *
34888457 GCGGCGCTTTTCCAAAAACACCGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
34888492 AAGGTAAAAA
Statistics
Matches: 209, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
41 163 0.78
42 46 0.22
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:34888584 original size:40 final size:41
Alignment explanation
Indices: 34888526--34888610 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
34888516 CAATGCTAAT
34888526 TTTTAGCGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
1 TTTTAGCGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
* * * *
34888567 TTTTA-CGTAAAGTGCCGCTAATGCTCGATTTTTAGCGGTG
1 TTTTAGCGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
34888607 TTTT
1 TTTT
34888611 TTGTCTAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCG
Found at i:34889756 original size:18 final size:18
Alignment explanation
Indices: 34889735--34889920 Score: 61
Period size: 20 Copynumber: 10.2 Consensus size: 18
34889725 TTATTAAGAT
34889735 ATTATAAAAAATTATAAA
1 ATTATAAAAAATTATAAA
*
34889753 ATTAT--AAAACTATAAA
1 ATTATAAAAAATTATAAA
*
34889769 CATTAT-TAAAATTATAAA
1 -ATTATAAAAAATTATAAA
* *
34889787 TATTATTAATATATTATGAAA
1 -ATTA-TAAAAAATTAT-AAA
* * *
34889808 AATGTGAAAGAATTATATAA
1 ATTAT-AAAAAATTATA-AA
*
34889828 ATGT-TAGAAAAATTTTAGAA
1 AT-TATA-AAAAATTATA-AA
*
34889848 ATTATATAAAAA-AATAAA
1 ATTATA-AAAAATTATAAA
*
34889866 ATGT-TATAAAATT-T---
1 AT-TATAAAAAATTATAAA
* *
34889880 ATTTTAAAAATTTATAAA
1 ATTATAAAAAATTATAAA
34889898 ATTTATTAAAAATATTA-AAA
1 A-TTA-TAAAAA-ATTATAAA
34889918 ATT
1 ATT
34889921 GTTATTTTGA
Statistics
Matches: 124, Mismatches: 24, Indels: 39
0.66 0.13 0.21
Matches are distributed among these distances:
13 1 0.01
14 9 0.07
15 1 0.01
16 10 0.08
17 10 0.08
18 26 0.21
19 12 0.10
20 48 0.39
21 7 0.06
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (18 bp):
ATTATAAAAAATTATAAA
Found at i:34889787 original size:7 final size:8
Alignment explanation
Indices: 34889742--34889792 Score: 66
Period size: 8 Copynumber: 6.0 Consensus size: 8
34889732 GATATTATAA
34889742 AAAATTAT
1 AAAATTAT
34889750 AAAATTAT
1 AAAATTAT
*
34889758 AAAACTAT
1 AAAATTAT
34889766 AAACATTATT
1 AAA-ATTA-T
34889776 AAAATTAT
1 AAAATTAT
34889784 AAATATTAT
1 AAA-ATTAT
34889793 TAATATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
8 22 0.58
9 12 0.32
10 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:34889803 original size:46 final size:47
Alignment explanation
Indices: 34889719--34889808 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 47
34889709 TATTTAAGCC
34889719 TAAACATTATTAAGATATTATAAAAAATTATAAAATTAT-AAAACTA
1 TAAACATTATTAAGATATTATAAAAAATTATAAAATTATGAAAACTA
*
34889765 TAAACATTATTAA-A-ATTAT-AAATATTATTAATATATTATGAAAA
1 TAAACATTATTAAGATATTATAAAAAATTA-TAA-A-ATTATGAAAA
34889809 ATGTGAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 7 0.18
44 8 0.21
45 2 0.05
46 18 0.46
47 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (47 bp):
TAAACATTATTAAGATATTATAAAAAATTATAAAATTATGAAAACTA
Found at i:34889888 original size:22 final size:20
Alignment explanation
Indices: 34889862--34889920 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
34889852 TATAAAAAAA
34889862 TAAAATGTTATAAAATTTATTT
1 TAAAAT-TTATAAAATTTA-TT
34889884 TAAAAATTTATAAAATTTATT
1 T-AAAATTTATAAAATTTATT
*
34889905 AAAAATATTA-AAAATT
1 TAAAAT-TTATAAAATT
34889921 GTTATTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 13 0.38
23 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATTTATAAAATTTATT
Found at i:34891638 original size:19 final size:19
Alignment explanation
Indices: 34891614--34891667 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
34891604 ATTTTCCAAG
* *
34891614 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAA
34891633 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
*
34891652 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
34891668 AGATAAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:34892558 original size:24 final size:24
Alignment explanation
Indices: 34892529--34892643 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 24
34892519 GTATTGTATA
*
34892529 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* *
34892553 TTATTATTTGT-AATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
34892576 TTATTATTTTAAATTCAT--TGTT
1 TTATTATTTTAAATTTATCATGTT
**
34892598 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
34892622 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
34892644 TAATATTTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
22 2 0.03
23 34 0.47
24 34 0.47
25 3 0.04
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:34892649 original size:24 final size:23
Alignment explanation
Indices: 34892530--34892676 Score: 93
Period size: 23 Copynumber: 6.3 Consensus size: 23
34892520 TATTGTATAT
* * **
34892530 TATTATTTTAGATTTATCATGTTT
1 TATTATTTCAAATTTATCAT-TAA
** * *
34892554 TATTATTTGTAATTTATCAATAT
1 TATTATTTCAAATTTATCATTAA
* * **
34892577 TATTATTTTAAATTCATTGTTAA
1 TATTATTTCAAATTTATCATTAA
* *
34892600 CATTATTTTAAATTTATCATGT-A
1 TATTATTTCAAATTTATCAT-TAA
34892623 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTCAAATTTATCATTAA
* *
34892647 TA-T-TTTCAAATTTATTATATAC
1 TATTATTTCAAATTTATCAT-TAA
34892669 TATTATTT
1 TATTATTT
34892677 TGGATTTATC
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
21 14 0.14
22 5 0.05
23 39 0.40
24 39 0.40
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATTTCAAATTTATCATTAA
Found at i:34892655 original size:21 final size:23
Alignment explanation
Indices: 34892603--34892661 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
34892593 TTGTTAACAT
34892603 TATTTT-AAATTTATCATGTATA
1 TATTTTCAAATTTATCATGTATA
*
34892625 TCTATTTCAAATTTATCAT-TA-A
1 TAT-TTTCAAATTTATCATGTATA
34892647 TATTTTCAAATTTAT
1 TATTTTCAAATTTAT
34892662 TATATACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 12 0.36
22 5 0.15
23 5 0.15
24 11 0.33
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTTCAAATTTATCATGTATA
Found at i:34892778 original size:24 final size:23
Alignment explanation
Indices: 34892720--34892778 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
34892710 CATCAGAATT
34892720 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
34892743 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
34892768 TTGTAAATTAT
1 TT-TAAATTAT
34892779 CCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:34892852 original size:23 final size:23
Alignment explanation
Indices: 34892825--34892869 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34892815 AATTGTACAT
*
34892825 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
34892848 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
34892870 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:34896652 original size:16 final size:15
Alignment explanation
Indices: 34896618--34896653 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34896608 AAGTCTAAAG
*
34896618 AAAATTGAATATTGT
1 AAAAATGAATATTGT
*
34896633 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
34896648 AAAAAT
1 AAAAAT
34896654 CTTGGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:34897603 original size:20 final size:18
Alignment explanation
Indices: 34897559--34897642 Score: 55
Period size: 20 Copynumber: 4.4 Consensus size: 18
34897549 TAATTATTTG
* *
34897559 TAAAATTTAATTTCAATA
1 TAAAATTAAATTTAAATA
34897577 TATAAATTAAATATTAAATA
1 TA-AAATTAAAT-TTAAATA
34897597 TTAAAATT--ATTTAAAATA
1 -TAAAATTAAATTT-AAATA
*
34897615 TAACCATTACAAATTTAAATA
1 TAA-AATT--AAATTTAAATA
*
34897636 TATAATT
1 TAAAATT
34897643 TTATATATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
17 5 0.10
18 12 0.23
19 8 0.15
20 14 0.27
21 9 0.17
22 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTAAATTTAAATA
Found at i:34897966 original size:41 final size:41
Alignment explanation
Indices: 34897873--34897974 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
34897863 GCGTTTGGAC
* * * *
34897873 CAAAAACGCCGC-AAAAGATCTAACAGTAGCGGCGTTTTTCT
1 CAAAAACGCCGCAAAAAG-TCTAACAGCAGCGACGTTTATCA
* * *
34897914 CATAAATGCCGCAAAAAGTCTAACAGCAGCGACGTTTATGA
1 CAAAAACGCCGCAAAAAGTCTAACAGCAGCGACGTTTATCA
*
34897955 GAAAAACGCCGCAAAAAGTC
1 CAAAAACGCCGCAAAAAGTC
34897975 AAGCATTAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 45 0.90
42 5 0.10
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
CAAAAACGCCGCAAAAAGTCTAACAGCAGCGACGTTTATCA
Found at i:34903456 original size:43 final size:43
Alignment explanation
Indices: 34903395--34903554 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
34903385 CCTTGGTCGA
* * *
34903395 GGAAAGCGCCGCTAAAGGTCATGTTTTATAGTGGCGTTTATGG
1 GGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGG
* * *
34903438 GGAAAGCACCGTTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
1 GGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGG
* * * *** *
34903481 GAAAAGCGCCACTAAAGGTCATGTTCTATAGCGATATTTTTGTG
1 GGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATG-G
*
34903525 AGAAA-CACCGCTAAAGGTCATGTTCTATAG
1 GGAAAGCACCGCTAAAGGTCATGTTCTATAG
34903555 TGGTATTTTT
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 93 0.96
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
GGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCGTTTATGG
Found at i:34909891 original size:13 final size:13
Alignment explanation
Indices: 34909873--34909899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34909863 TTTCGGTTTA
34909873 ATTTAAACAATAT
1 ATTTAAACAATAT
34909886 ATTTAAACAATAT
1 ATTTAAACAATAT
34909899 A
1 A
34909900 GTTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:34910102 original size:97 final size:97
Alignment explanation
Indices: 34909987--34910219 Score: 448
Period size: 97 Copynumber: 2.4 Consensus size: 97
34909977 AATTATGTAT
* *
34909987 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTGCAT
1 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTGCAA
34910052 ATTTTAATTAAAATATAATTCGGTACTTATAC
66 ATTTTAATTAAAATATAATTCGGTACTTATAC
34910084 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTGCAA
1 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTGCAA
34910149 ATTTTAATTAAAATATAATTCGGTACTTATAC
66 ATTTTAATTAAAATATAATTCGGTACTTATAC
34910181 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
34910220 TGTTATTAAA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 134 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (97 bp):
AAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTGCAA
ATTTTAATTAAAATATAATTCGGTACTTATAC
Found at i:34910292 original size:23 final size:23
Alignment explanation
Indices: 34910257--34910301 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34910247 CCTTATTTAA
**
34910257 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
34910280 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
34910302 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:34913613 original size:92 final size:90
Alignment explanation
Indices: 34913450--34913657 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 90
34913440 TGATTTTAGT
* *
34913450 AAATTCATATAAAAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATA
1 AAATTCATATAAAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
* * *
34913515 TTTAAT-ATTAATTATTTTAAATTGTAT
64 TGTAATAATT-ATTATTTTAAATTATAC
* *
34913542 AATTTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTAT
1 AAATTCATATAA-AAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTAT
34913606 ATGTAATAATTATTATTTTAAATTATAC
63 ATGTAATAATTATTATTTTAAATTATAC
34913634 AAATTCATA-AAATATAATTTATTA
1 AAATTCATATAAA-A-AATTTATTA
34913658 GTTATAATTA
Statistics
Matches: 102, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
90 2 0.02
91 31 0.30
92 63 0.62
93 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (90 bp):
AAATTCATATAAAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATATG
TAATAATTATTATTTTAAATTATAC
Found at i:34913620 original size:24 final size:25
Alignment explanation
Indices: 34913585--34913632 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
34913575 TTATGAAATT
34913585 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
34913609 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
34913633 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:34913786 original size:66 final size:64
Alignment explanation
Indices: 34913711--34913920 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 64
34913701 AAATATATTT
34913711 AATATTAATTATTTCAAATTTTCATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
34913776 G
64 G
* * * * **
34913777 AATATTAATTATTAAGAATTTTA-TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
34913831 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCGTATA
1 AATATTAATTAT-TTAAATTT-TA-TTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
34913895 AG
63 AG
*
34913897 AATATTAATTATTAAGAATTTTAT
1 AATATTAATTATTTA-AATTTTAT
34913921 AAAATTATAT
Statistics
Matches: 111, Mismatches: 16, Indels: 35
0.69 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.12
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 7 0.06
66 32 0.29
67 5 0.05
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:34913815 original size:120 final size:120
Alignment explanation
Indices: 34913680--34913965 Score: 470
Period size: 120 Copynumber: 2.4 Consensus size: 120
34913670 TTAAATTATT
* * *
34913680 TTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTACAG
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
34913742 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
34913800 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
*
34913865 CATATATTATGATTTGAGTAAATTCGTATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
* *
34913920 TAAAATTATATATTTTAATTATAGTATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
34913966 TAAATATGAT
Statistics
Matches: 157, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
119 6 0.04
120 149 0.95
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:34913833 original size:15 final size:15
Alignment explanation
Indices: 34913798--34913849 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
34913788 TTAAGAATTT
*
34913798 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34913812 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34913826 TATTTAATAATAAT-
1 TATTTAATTATAATA
34913840 TATGTTAATT
1 TAT-TTAATT
34913850 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34914082 original size:19 final size:19
Alignment explanation
Indices: 34914060--34914103 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
34914050 AATTTCTGCT
34914060 AATTATAAGAATTTTATTA
1 AATTATAAGAATTTTATTA
* *
34914079 AATTAT-ATATTTTTATTA
1 AATTATAAGAATTTTATTA
*
34914097 AAATATA
1 AATTATA
34914104 TTTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTATAAGAATTTTATTA
Found at i:34914082 original size:156 final size:157
Alignment explanation
Indices: 34913902--34914217 Score: 535
Period size: 156 Copynumber: 2.0 Consensus size: 157
34913892 ATAAGAATAT
* *
34913902 TAATTATTAAGAATTTTATAAAATTATATATTTTAATTATAGTATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATAAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
** * *
34913967 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
34914032 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
* *
34914059 TAATTA-TAAGAATTTTATTAAATTATATATTTTTATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATAAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
34914123 AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
34914188 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
34914215 TAA
1 TAA
34914218 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
156 143 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATAAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:34914104 original size:16 final size:17
Alignment explanation
Indices: 34914071--34914106 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
34914061 ATTATAAGAA
34914071 TTTTATTAAATTATATAT
1 TTTTATTAAA-TATATAT
34914089 TTTTATTAAA-ATATAT
1 TTTTATTAAATATATAT
34914105 TT
1 TT
34914107 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:34914361 original size:16 final size:16
Alignment explanation
Indices: 34914340--34914375 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34914330 GATTTGCTAT
34914340 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34914356 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34914372 TACA
1 TACA
34914376 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34915196 original size:19 final size:20
Alignment explanation
Indices: 34915174--34915214 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
34915164 TAAAAAAACT
* *
34915174 AAAATTAATTCAAAA-ATAA
1 AAAATAAATCCAAAAGATAA
34915193 AAAATAAATCCAAAAGATAA
1 AAAATAAATCCAAAAGATAA
34915213 AA
1 AA
34915215 TAAGTGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATAAATCCAAAAGATAA
Found at i:34915833 original size:15 final size:16
Alignment explanation
Indices: 34915813--34915842 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34915803 ATAATGGCGC
34915813 GAACCCATA-AGGTGT
1 GAACCCATACAGGTGT
34915828 GAACCCATACAGGTG
1 GAACCCATACAGGTG
34915843 AACTATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (16 bp):
GAACCCATACAGGTGT
Found at i:34927324 original size:33 final size:33
Alignment explanation
Indices: 34927287--34927353 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
34927277 TTTCTCATCG
34927287 AACAGATAGTGGTGCCAAATTTTTAACGCAAAC
1 AACAGATAGTGGTGCCAAATTTTTAACGCAAAC
34927320 AACAGATAGTGGTGCCAAATTTTTAACGCAAAC
1 AACAGATAGTGGTGCCAAATTTTTAACGCAAAC
34927353 A
1 A
34927354 CAATCGCTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (33 bp):
AACAGATAGTGGTGCCAAATTTTTAACGCAAAC
Found at i:34934614 original size:37 final size:37
Alignment explanation
Indices: 34934573--34934653 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
34934563 ATGTTGTGGC
*
34934573 AATATAACTAATCTTGGCTTTAAAAATCCTTAAGTTT
1 AATATAACTAATCTTGGCTTTAAAAATCCCTAAGTTT
34934610 AATATAACTAATCTTGGCTTTAAAAATCCCTAAGTTT
1 AATATAACTAATCTTGGCTTTAAAAATCCCTAAGTTT
*
34934647 AGTATAA
1 AATATAA
34934654 GATACTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (37 bp):
AATATAACTAATCTTGGCTTTAAAAATCCCTAAGTTT
Found at i:34943060 original size:26 final size:25
Alignment explanation
Indices: 34943008--34943064 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
34942998 CCATAATTAT
* *
34943008 ATATATTATATAATAAGACCCATGC
1 ATATATTACATAATAAGACCCACGC
*
34943033 ATATATGTACATAGTAAGACCCACGC
1 ATATAT-TACATAATAAGACCCACGC
34943059 ATATAT
1 ATATAT
34943065 ATATATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (25 bp):
ATATATTACATAATAAGACCCACGC
Found at i:34947234 original size:12 final size:12
Alignment explanation
Indices: 34947217--34947241 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34947207 TGAAATGGTG
34947217 AGTAAATAAATA
1 AGTAAATAAATA
34947229 AGTAAATAAATA
1 AGTAAATAAATA
34947241 A
1 A
34947242 AATAGATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AGTAAATAAATA
Found at i:34949004 original size:31 final size:30
Alignment explanation
Indices: 34948946--34949004 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
34948936 ACCAAATATT
* *
34948946 TAAAATATAAATTTATATTTAAAAATAACA
1 TAAAATATAAATTTAAAATTAAAAATAACA
*
34948976 TAAAATATATAATTTAAAATTAATAATAA
1 TAAAATATA-AATTTAAAATTAAAAATAA
34949005 TAACACATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
TAAAATATAAATTTAAAATTAAAAATAACA
Found at i:34950237 original size:11 final size:12
Alignment explanation
Indices: 34950208--34950241 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
34950198 TATTTTAAAT
34950208 TAAAATTTAATA
1 TAAAATTTAATA
34950220 TAAAATTTAATA
1 TAAAATTTAATA
34950232 -AAAATTTAAT
1 TAAAATTTAAT
34950242 TTTAGTGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATTTAATA
Found at i:34953857 original size:60 final size:58
Alignment explanation
Indices: 34953784--34953909 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 58
34953774 TATTTTTTAT
* * *
34953784 TTTTTTGGTCACTCAACTATAAAAAGTTACAAAATGGTCACCCAACTATTAGTAATTTTC
1 TTTTTTAGTCACTCAACTATAAAAAGATACAAAATGATCACCCAACTATT--TAATTTTC
* * *
34953844 TTTTTTAGTCACTCAACTATGAAAAGATACAAAATGATTACCCAACTATTTAATTTTG
1 TTTTTTAGTCACTCAACTATAAAAAGATACAAAATGATCACCCAACTATTTAATTTTC
34953902 TCTTTTTA
1 T-TTTTTA
34953910 TGGTCACCGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 8 0.14
59 6 0.10
60 45 0.76
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (58 bp):
TTTTTTAGTCACTCAACTATAAAAAGATACAAAATGATCACCCAACTATTTAATTTTC
Found at i:34954429 original size:126 final size:125
Alignment explanation
Indices: 34954181--34954422 Score: 335
Period size: 126 Copynumber: 1.9 Consensus size: 125
34954171 TTAAGAAAGA
* * *
34954181 TTTCAAAATTTTAAAAATAAATTTACTTGTTTGGGTAAAAATATTGGAAAATTTTAAAACTTGTG
1 TTTCAAAATTCTAAAAATAAATTTACTTGTTTAGGTAAAAATATTGGAAAATTTCAAAACTTGTG
* * * * **
34954246 AGTAATTTCGAAAGGGGATTTCAATAGTTCAATTTTTTGTTCCAAATTCTAACTAAAGGT
66 AGTAATTTCAAAACGAGATTTCAAAAGAACAATTTTTTGTTCCAAATTCTAACTAAAGGT
*
34954306 TTTCAAAAATTCTAAAAATGAAA-TTACTTTTTTAGGTAAAAATATTGGAAAATTTCAAAACTTG
1 TTTC-AAAATTCTAAAAAT-AAATTTACTTGTTTAGGTAAAAATATTGGAAAATTTCAAAACTTG
* *
34954370 TGAGTAATTTCAAAACGAGATTTCAAAAGAAGAATTTTCTT-TTTCAAATTCTA
64 TGAGTAATTTCAAAACGAGATTTCAAAAGAACAATTTT-TTGTTCCAAATTCTA
34954423 CTTAAAGAGG
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
125 4 0.04
126 93 0.91
127 5 0.05
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (125 bp):
TTTCAAAATTCTAAAAATAAATTTACTTGTTTAGGTAAAAATATTGGAAAATTTCAAAACTTGTG
AGTAATTTCAAAACGAGATTTCAAAAGAACAATTTTTTGTTCCAAATTCTAACTAAAGGT
Found at i:34954533 original size:20 final size:19
Alignment explanation
Indices: 34954504--34954552 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
34954494 AAAACTTCAA
*
34954504 AAATAAATTTTATTTAATT
1 AAATATATTTTATTTAATT
*
34954523 ATAATATATTTTATTTTATT
1 A-AATATATTTTATTTAATT
*
34954543 AAAAATATTT
1 AAATATATTT
34954553 ATACATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATATATTTTATTTAATT
Found at i:34961603 original size:24 final size:24
Alignment explanation
Indices: 34961576--34961627 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34961566 TTAGTAAGTC
*
34961576 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34961600 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34961624 AAAT
1 AAAT
34961628 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:34963572 original size:24 final size:24
Alignment explanation
Indices: 34963545--34963596 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34963535 TTAGTAAGTC
*
34963545 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34963569 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34963593 AAAT
1 AAAT
34963597 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:34967701 original size:42 final size:42
Alignment explanation
Indices: 34967642--34967721 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
34967632 ATGTACTTAA
34967642 ACTAGACTTTTTTTAATGATTAAGTAGTAAAAAATAACCATT
1 ACTAGACTTTTTTTAATGATTAAGTAGTAAAAAATAACCATT
34967684 ACTAGACTTTTTTTAATGATTAAGTAGTAAAAAATAAC
1 ACTAGACTTTTTTTAATGATTAAGTAGTAAAAAATAAC
34967722 TATTTTGGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (42 bp):
ACTAGACTTTTTTTAATGATTAAGTAGTAAAAAATAACCATT
Found at i:34969562 original size:5 final size:5
Alignment explanation
Indices: 34969552--34969576 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34969542 AGCTTGTAAT
34969552 AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC
34969577 TATTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAC
Found at i:34975781 original size:33 final size:33
Alignment explanation
Indices: 34975699--34975790 Score: 87
Period size: 33 Copynumber: 2.7 Consensus size: 33
34975689 TGGTCCAACC
* * ** *
34975699 ATGGTCTTACGTTCAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* *
34975732 ATGGTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAACCCAGCT
34975765 ATGGTCTTACATTTAAACACTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
34975791 GGTCGAACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.09
33 33 0.70
34 4 0.09
35 6 0.13
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:34981981 original size:33 final size:33
Alignment explanation
Indices: 34981944--34982009 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34981934 GTTATGAATA
34981944 TCTTATTAAGTGGATGTCCATCATGATCAAGAT
1 TCTTATTAAGTGGATGTCCATCATGATCAAGAT
34981977 TCTTATTAAGTGGATGTCCATCATGATCAAGAT
1 TCTTATTAAGTGGATGTCCATCATGATCAAGAT
34982010 AAAGTTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
TCTTATTAAGTGGATGTCCATCATGATCAAGAT
Found at i:34982486 original size:19 final size:19
Alignment explanation
Indices: 34982462--34982500 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34982452 TGACTCTTGA
34982462 TTTAATTTTAACCAATTAT
1 TTTAATTTTAACCAATTAT
*
34982481 TTTAATTTTAATCAATTAT
1 TTTAATTTTAACCAATTAT
34982500 T
1 T
34982501 AAAAGTTTCA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATTTTAACCAATTAT
Found at i:34991429 original size:5 final size:5
Alignment explanation
Indices: 34991419--34991447 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
34991409 CACAATTCAT
34991419 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
34991448 GAGAAACTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:35007850 original size:13 final size:13
Alignment explanation
Indices: 35007832--35007857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35007822 TTCTCTATTC
35007832 TTTACATCACTTT
1 TTTACATCACTTT
35007845 TTTACATCACTTT
1 TTTACATCACTTT
35007858 ACATCACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATCACTTT
Found at i:35023618 original size:24 final size:23
Alignment explanation
Indices: 35023591--35023648 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
35023581 TATTTTCTTT
* *
35023591 CTTTTCTTTTCATTTTTAGATTAG
1 CTTTTCTTTTC-TTTCTAGAATAG
35023615 CTTTTCTCTTTCTTTCTAGAATAG
1 CTTTTCT-TTTCTTTCTAGAATAG
* *
35023639 ATTTTGTTTT
1 CTTTTCTTTT
35023649 TTTTTGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 22 0.76
25 4 0.14
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.62
Consensus pattern (23 bp):
CTTTTCTTTTCTTTCTAGAATAG
Found at i:35027748 original size:18 final size:19
Alignment explanation
Indices: 35027721--35027770 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
35027711 TAAAAATATT
* *
35027721 AATATGTATACATA-CATA
1 AATATATATACATAGAATA
*
35027739 TATATATATACA-AGAATA
1 AATATATATACATAGAATA
35027757 AATATATATACATA
1 AATATATATACATA
35027771 TATAGATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (19 bp):
AATATATATACATAGAATA
Found at i:35027887 original size:22 final size:22
Alignment explanation
Indices: 35027825--35027892 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
35027815 ATTGTTCAAA
* **
35027825 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
35027847 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
35027869 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
35027891 CA
1 CA
35027893 ATTAAATATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:35034132 original size:16 final size:16
Alignment explanation
Indices: 35034111--35034144 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35034101 TTCACAAAAG
35034111 AGTTCTTGCTATTTCT
1 AGTTCTTGCTATTTCT
*
35034127 AGTTCTTGTTATTTCT
1 AGTTCTTGCTATTTCT
35034143 AG
1 AG
35034145 GCTAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (16 bp):
AGTTCTTGCTATTTCT
Found at i:35041642 original size:25 final size:25
Alignment explanation
Indices: 35041577--35041663 Score: 65
Period size: 25 Copynumber: 3.5 Consensus size: 25
35041567 ATACACATAT
* *
35041577 ATATATACAAGAATAAATAT-ATATAC
1 ATATATA-AAAAATAAAAATAAT-TAC
* **
35041603 ATATATAGATTATAAAAATAATTAC
1 ATATATAAAAAATAAAAATAATTAC
35041628 ATATATAAAAAAT---AATAATTAC
1 ATATATAAAAAATAAAAATAATTAC
35041650 ATTATATTAAAAAA
1 A-TATA-TAAAAAA
35041664 ATATGCGCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 10 0.20
23 4 0.08
24 7 0.14
25 21 0.41
26 9 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATATAAAAAATAAAAATAATTAC
Found at i:35041666 original size:22 final size:21
Alignment explanation
Indices: 35041611--35041666 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
35041601 ACATATATAG
*
35041611 ATTATAAAAATAATTACATAT
1 ATTAAAAAAATAATTACATAT
*
35041632 ATAAAAAATAATAATTACATTAT
1 ATTAAAAA-AATAATTACA-TAT
35041655 ATTAAAAAAATA
1 ATTAAAAAAATA
35041667 TGCGCATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 14 0.47
23 10 0.33
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTAAAAAAATAATTACATAT
Found at i:35044106 original size:13 final size:14
Alignment explanation
Indices: 35044085--35044117 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
35044075 AAATACCCTT
35044085 GGCCC-ATACACC-
1 GGCCCAATACACCA
35044097 GGCCCAATACACCA
1 GGCCCAATACACCA
35044111 GGCCCAA
1 GGCCCAA
35044118 ACCCTAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 7 0.37
14 7 0.37
ACGTcount: A:0.30, C:0.45, G:0.18, T:0.06
Consensus pattern (14 bp):
GGCCCAATACACCA
Found at i:35044392 original size:11 final size:11
Alignment explanation
Indices: 35044378--35044403 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35044368 TAAAAAATAG
35044378 AAAGAAAAGAA
1 AAAGAAAAGAA
35044389 AAAGAAAAGAA
1 AAAGAAAAGAA
35044400 AAAG
1 AAAG
35044404 CAGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:35045109 original size:3 final size:3
Alignment explanation
Indices: 35045095--35045138 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
35045085 ATCTGTCATT
*
35045095 TTA TTAA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35045139 ACCTATAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:35045319 original size:27 final size:24
Alignment explanation
Indices: 35045263--35045319 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
35045253 TATATGTATG
35045263 TATATACATTTATATTTTATAATA
1 TATATACATTTATATTTTATAATA
* *
35045287 TTTATACATTGTCCATATTTTATAATC
1 TATATACATT-T--ATATTTTATAATA
35045314 TATATA
1 TATATA
35045320 TATGTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
27 17 0.63
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATACATTTATATTTTATAATA
Found at i:35045618 original size:17 final size:17
Alignment explanation
Indices: 35045581--35045618 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35045571 AAAATTCACT
*
35045581 TATATATCATATATATA
1 TATATATCATATACATA
*
35045598 TATATATCATATACATG
1 TATATATCATATACATA
35045615 TATA
1 TATA
35045619 ATTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (17 bp):
TATATATCATATACATA
Found at i:35051302 original size:14 final size:14
Alignment explanation
Indices: 35051283--35051327 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
35051273 TGAAAAAATG
35051283 TGAAAAAATGAAAA
1 TGAAAAAATGAAAA
35051297 TG-AAAAATGAAAAA
1 TGAAAAAATG-AAAA
*
35051311 TGGAAAAAATAAAAA
1 T-GAAAAAATGAAAA
35051326 TG
1 TG
35051328 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 6 0.22
16 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
TGAAAAAATGAAAA
Found at i:35051316 original size:15 final size:16
Alignment explanation
Indices: 35051276--35051329 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
35051266 GATGATGTGA
35051276 AAAAATGTGAAAAAATG
1 AAAAATG-GAAAAAATG
35051293 -AAAAT-G-AAAAATG
1 AAAAATGGAAAAAATG
35051306 AAAAATGGAAAAAAT-
1 AAAAATGGAAAAAATG
35051321 AAAAATGGA
1 AAAAATGGA
35051330 GAGGCTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 10 0.29
16 11 0.32
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
AAAAATGGAAAAAATG
Found at i:35051324 original size:6 final size:7
Alignment explanation
Indices: 35051286--35051327 Score: 52
Period size: 6 Copynumber: 6.0 Consensus size: 7
35051276 AAAAATGTGA
35051286 AAAAATG
1 AAAAATG
35051293 -AAAATG
1 AAAAATG
35051299 AAAAATG
1 AAAAATG
35051306 AAAAATGG
1 AAAAAT-G
35051314 AAAAAAT-
1 -AAAAATG
35051321 AAAAATG
1 AAAAATG
35051328 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 1 0.03
9 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:35052808 original size:100 final size:100
Alignment explanation
Indices: 35052674--35053271 Score: 894
Period size: 100 Copynumber: 6.0 Consensus size: 100
35052664 CTTTGACATT
* * *
35052674 GCAATTAAAAATATTGAAGCCACAGCGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
*
35052739 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAAC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
** *
35052774 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACGGTGTAGTAGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
*
35052839 GAAGTCACAACGGCAGAT-TCGGTTTCCCCAACAGC
66 GAAGTCACAACGGCAGATCT-GGTTTCCCCGACAGC
*
35052874 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGTAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
* *
35052939 GAAGTCACAACGACAGATCTGGTTTCCCCGATAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
35052974 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
*
35053039 GAAGTCACAACGGCAGATTTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * *
35053074 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTGGCGGTGCAGTGAAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
* * *
35053139 GAAGTCACAATGGCGGATCTGGTTTCCCCGATAGC
66 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
* * * * * * * *
35053174 GTAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACCTCCTTAGCGGTGCAGTTGAACAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
* * * *
35053239 TAAG-CTACGACGGCAGATCTTGTTTCCTCGACA
66 GAAGTC-ACAACGGCAGATCTGGTTTCCCCGACA
35053272 TTGTAACTGG
Statistics
Matches: 455, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 452 0.99
101 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATT
GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
Found at i:35053188 original size:50 final size:50
Alignment explanation
Indices: 35052734--35053208 Score: 342
Period size: 50 Copynumber: 9.5 Consensus size: 50
35052724 GTAGTGGAGC
* * *
35052734 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAACGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
*** ** * * * * **
35052784 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACGGTG-TAGTAGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTA-AAA
* * *
35052834 AGATTGAAGTCACAACGGCAGAT-TCGGTTTCCCCAACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCT-GGTTTCCCCGACAGCGCAATTAAAA
*** * * * * * ** **
35052884 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
* * * *
35052934 AGATTGAAGTCACAACGACAGATCTGGTTTCCCCGATAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
*** * * * * * * ** **
35052984 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
* * *
35053034 AGATTGAAGTCACAACGGCAGATTTGGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
** * * * * * * **
35053084 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGGCGGTGCAGTGAAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
* * * *
35053134 AGATTGAAGTCACAATGGCGGATCTGGTTTCCCCGATAGCGTAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
*
35053184 AGATTGAAGCCACAACGGTGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
35053209 TACCTCCTTA
Statistics
Matches: 301, Mismatches: 120, Indels: 8
0.70 0.28 0.02
Matches are distributed among these distances:
49 4 0.01
50 293 0.97
51 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAA
Found at i:35053238 original size:50 final size:50
Alignment explanation
Indices: 35052784--35053259 Score: 176
Period size: 50 Copynumber: 9.5 Consensus size: 50
35052774 GCAATTAAAA
* * * * * *
35052784 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTAACGGTGTAGTAGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACCTCCATAGCGGTGCAGTTGAAC
* * * * * * * *
35052834 AGATTGAAGTCACAACGGCAGATTCGGTTTCC-CCA-A-CAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGA-TC--TTACCTCCATAGCGGTGCAGTTGAAC
* * * * *
35052884 AGATTGAAGCCACAACGGCGGATCTTACTTCCCT-GACGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACCTCCATAG-CGGTGCAGTTGAAC
* * * * * * *
35052934 AGATTGAAGTCACAACGACAGATCTGGTTTCC-CCGATAGC---GCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATC---TTACCTCC-ATAGCGGTGCAGTTGAAC
* * * * * *
35052984 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACCTCCATAGCGGTGCAGTTGAAC
* * * * * * * *
35053034 AGATTGAAGTCACAACGGCAGATTTGGTTTCC-CCGACAGC---GCAATTAAAA
1 AGATTGAAGCCACAACGGCGGA--T-CTTACCTCC-ATAGCGGTGCAGTTGAAC
** * *
35053084 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGGCGGTGCAG-TGAAGC
1 AGATTGAAGCCACAACGGCGGATCTTACCTCCATAGCGGTGCAGTTGAA-C
* * * * * *
35053134 AGATTGAAGTCACAATGGCGGATCTGGTTTCC-CCGATAGC-GT--AATTAAAA
1 AGATTGAAGCCACAACGGCGGATC---TTACCTCC-ATAGCGGTGCAGTTGAAC
* *
35053184 AGATTGAAGCCACAACGGTGGATCTTACCTCCTTAGCGGTGCAGTTGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACCTCCATAGCGGTGCAGTTGAAC
* * * *
35053234 AGATTTAAGCTACGACGGCAGATCTT
1 AGATTGAAGCCACAACGGCGGATCTT
35053260 GTTTCCTCGA
Statistics
Matches: 292, Mismatches: 100, Indels: 68
0.63 0.22 0.15
Matches are distributed among these distances:
47 21 0.07
48 11 0.04
49 5 0.02
50 219 0.75
51 6 0.02
52 11 0.04
53 18 0.06
54 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACCTCCATAGCGGTGCAGTTGAAC
Found at i:35054729 original size:3 final size:3
Alignment explanation
Indices: 35054715--35054749 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
35054705 ATCTGTCATT
35054715 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35054750 ACCTATAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:35054932 original size:27 final size:24
Alignment explanation
Indices: 35054876--35054932 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
35054866 TTTATGTATG
35054876 TATATACATTTATATTTTATAATA
1 TATATACATTTATATTTTATAATA
* *
35054900 TTTATACATTGTCCATATTTTATAATC
1 TATATACATT-T--ATATTTTATAATA
35054927 TATATA
1 TATATA
35054933 TATGTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
27 17 0.63
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATACATTTATATTTTATAATA
Found at i:35055207 original size:2 final size:2
Alignment explanation
Indices: 35055194--35055229 Score: 54
Period size: 2 Copynumber: 17.0 Consensus size: 2
35055184 AAAATTCACT
35055194 TA TA TA TCA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA
35055230 CATGTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 28 0.88
3 4 0.12
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:35055237 original size:23 final size:23
Alignment explanation
Indices: 35055194--35055237 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35055184 AAAATTCACT
*
35055194 TATATATCATATATATATATATA
1 TATATATCATATACATATATATA
*
35055217 TATATATCATATACATGTATA
1 TATATATCATATACATATATA
35055238 ATTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (23 bp):
TATATATCATATACATATATATA
Found at i:35057266 original size:5 final size:5
Alignment explanation
Indices: 35057256--35057287 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
35057246 CGAGTTTAGG
35057256 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GA
35057288 AGGTTATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:35063877 original size:18 final size:18
Alignment explanation
Indices: 35063848--35063893 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
35063838 AGAGTAAACA
35063848 AAAATGTGAAAAAGAAAAT
1 AAAAT-TGAAAAAGAAAAT
*
35063867 AAAATTGAAAAAGAAATT
1 AAAATTGAAAAAGAAAAT
*
35063885 GAAATTGAA
1 AAAATTGAA
35063894 GAGAGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (18 bp):
AAAATTGAAAAAGAAAAT
Found at i:35070396 original size:21 final size:20
Alignment explanation
Indices: 35070370--35070408 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
35070360 TTAAAACTTG
35070370 ATGAGTATCGATACTTTTTAA
1 ATGAGTATCGATA-TTTTTAA
35070391 ATGAGTATCGATATTTTT
1 ATGAGTATCGATATTTTT
35070409 CAGAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (20 bp):
ATGAGTATCGATATTTTTAA
Found at i:35070417 original size:20 final size:20
Alignment explanation
Indices: 35070372--35070423 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
35070362 AAAACTTGAT
35070372 GAGTATCGATACTTTTTAAA
1 GAGTATCGATACTTTTTAAA
35070392 TGAGTATCGATA-TTTTTCAGAA
1 -GAGTATCGATACTTTTT-A-AA
35070414 -AGTATCGATA
1 GAGTATCGATA
35070424 AAATAGTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.52
21 12 0.41
22 2 0.07
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
GAGTATCGATACTTTTTAAA
Found at i:35070966 original size:13 final size:13
Alignment explanation
Indices: 35070948--35070974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35070938 TGATTCAAAG
35070948 TGTTAATAAATTC
1 TGTTAATAAATTC
35070961 TGTTAATAAATTC
1 TGTTAATAAATTC
35070974 T
1 T
35070975 AGAACTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TGTTAATAAATTC
Found at i:35085987 original size:29 final size:29
Alignment explanation
Indices: 35085954--35086011 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35085944 CCTTGGAAAT
*
35085954 CTGTAACAAAAGAACAAAGAGAAAATTTG
1 CTGTAACAAAAGAACAAAAAGAAAATTTG
35085983 CTGTAACAAAAGAACAAAAAGAAAATTTG
1 CTGTAACAAAAGAACAAAAAGAAAATTTG
35086012 AGTTATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.17
Consensus pattern (29 bp):
CTGTAACAAAAGAACAAAAAGAAAATTTG
Found at i:35087139 original size:15 final size:15
Alignment explanation
Indices: 35087119--35087147 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35087109 ATTTGATCCT
35087119 ATGATCCAAAATCTC
1 ATGATCCAAAATCTC
35087134 ATGATCCAAAATCT
1 ATGATCCAAAATCT
35087148 GTATTGGTTC
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:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (15 bp):
ATGATCCAAAATCTC
Found at i:35095063 original size:12 final size:12
Alignment explanation
Indices: 35095048--35095083 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
35095038 TTGAACACAA
35095048 TTTTTTTTCAAT
1 TTTTTTTTCAAT
35095060 TTTTTTTTCAAT
1 TTTTTTTTCAAT
*
35095072 TTTTTTTACAAT
1 TTTTTTTTCAAT
35095084 CTCGTAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:35110345 original size:15 final size:15
Alignment explanation
Indices: 35110325--35110357 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35110315 CAGAGAAAGT
35110325 TTTAGATCCAATGCG
1 TTTAGATCCAATGCG
35110340 TTTAGATCCAATGCG
1 TTTAGATCCAATGCG
35110355 TTT
1 TTT
35110358 GCCAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (15 bp):
TTTAGATCCAATGCG
Found at i:35115861 original size:6 final size:7
Alignment explanation
Indices: 35115840--35115882 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
35115830 CTCTGAGTCA
35115840 GAAAATAT
1 GAAAA-AT
35115848 GAAAAAT
1 GAAAAAT
35115855 G-AAAAT
1 GAAAAAT
35115861 GAAAAAT
1 GAAAAAT
35115868 GAAAAAT
1 GAAAAAT
35115875 GAAAAAT
1 GAAAAAT
35115882 G
1 G
35115883 GAGAGGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.18
7 23 0.68
8 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
GAAAAAT
Found at i:35115871 original size:20 final size:21
Alignment explanation
Indices: 35115840--35115879 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
35115830 CTCTGAGTCA
35115840 GAAAATATGAAAAATGAAAAT
1 GAAAATATGAAAAATGAAAAT
35115861 GAAAA-ATGAAAAATGAAAA
1 GAAAATATGAAAAATGAAAA
35115880 ATGGAGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
GAAAATATGAAAAATGAAAAT
Done.