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 160 of 206
Found at i:48437084 original size:24 final size:24
Alignment explanation
Indices: 48437034--48437086 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
48437024 CACGTGATTT
*
48437034 TATATTTTTTAATTTATTAAATAA
1 TATATTTTTTAATTTATCAAATAA
48437058 TATATTTTTATAA-TT-TCAAAT-A
1 TATATTTTT-TAATTTATCAAATAA
48437080 TATATTT
1 TATATTT
48437087 AAACTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 5 0.19
24 11 0.41
25 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTTTTTAATTTATCAAATAA
Found at i:48437858 original size:35 final size:35
Alignment explanation
Indices: 48437818--48437889 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
48437808 TAAAAAAGTC
48437818 ATTTTTTA-TAATAA-TGTAAATATTAAATTATAATT
1 ATTTTTTACTAATAATTGT-AA-ATTAAATTATAATT
*
48437853 ATTTTTTACTGATAATTGTAAATTAAATTATAATT
1 ATTTTTTACTAATAATTGTAAATTAAATTATAATT
48437888 AT
1 AT
48437890 CACAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 24 0.71
36 7 0.21
37 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (35 bp):
ATTTTTTACTAATAATTGTAAATTAAATTATAATT
Found at i:48439979 original size:13 final size:13
Alignment explanation
Indices: 48439961--48439985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48439951 GATTTTTGGT
48439961 CCCTTTTGATCAC
1 CCCTTTTGATCAC
48439974 CCCTTTTGATCA
1 CCCTTTTGATCA
48439986 ATAAAGTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (13 bp):
CCCTTTTGATCAC
Found at i:48440123 original size:25 final size:23
Alignment explanation
Indices: 48440063--48440124 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
48440053 ATAACAAATG
*
48440063 TAAATTA-AATTATAACTATTTT
1 TAAATTATAATTATAACAATTTT
* *
48440085 TAAATGTGTAATTATCACAATTTT
1 TAAAT-TATAATTATAACAATTTT
48440109 ACTAAATTATAATTAT
1 --TAAATTATAATTAT
48440125 TTTAAATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
24 13 0.41
25 8 0.25
26 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (23 bp):
TAAATTATAATTATAACAATTTT
Found at i:48441147 original size:15 final size:16
Alignment explanation
Indices: 48441117--48441150 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48441107 TTTTAATACT
48441117 TAAAATAATAAATAAA
1 TAAAATAATAAATAAA
*
48441133 TAAAAT-ATTAATAAA
1 TAAAATAATAAATAAA
48441148 TAA
1 TAA
48441151 TAAAAGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAATAATAAATAAA
Found at i:48443496 original size:28 final size:28
Alignment explanation
Indices: 48443456--48443519 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
48443446 GAGGGTTTTT
*
48443456 TACTCAAATAGGGTAG-AAAAAAATTATG
1 TACTGAAATAGGGT-GCAAAAAAATTATG
*
48443484 TACTGAAATAGGGTGTCAAAAAAATTATT
1 TACTGAAATAGGGTG-CAAAAAAATTATG
48443513 TAC-GAAA
1 TACTGAAA
48443520 ATGGGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.53
29 14 0.44
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (28 bp):
TACTGAAATAGGGTGCAAAAAAATTATG
Found at i:48443686 original size:27 final size:27
Alignment explanation
Indices: 48443655--48443723 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
48443645 CGTCTATCTC
*
48443655 AGAGGCGCCAATGGTAGTGCCTAT-GTG
1 AGAGGCGCCAATGGTAGTGCC-ATCCTG
* * * *
48443682 AGAGGCGCCATTAGTGGTGTCATCCTG
1 AGAGGCGCCAATGGTAGTGCCATCCTG
48443709 AGAGGCGCCAATGGT
1 AGAGGCGCCAATGGT
48443724 CTGATTTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (27 bp):
AGAGGCGCCAATGGTAGTGCCATCCTG
Found at i:48445210 original size:19 final size:20
Alignment explanation
Indices: 48445171--48445210 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48445161 ATATAATAAT
**
48445171 AAAAATAATGAATAGTGATA
1 AAAAATAATGAATAGCAATA
48445191 AAAAATAAT-AATAGCAATA
1 AAAAATAATGAATAGCAATA
48445210 A
1 A
48445211 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAAATAATGAATAGCAATA
Found at i:48446085 original size:14 final size:14
Alignment explanation
Indices: 48446066--48446110 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
48446056 CGAATACAAA
48446066 TTTCTTTTTTTGTT
1 TTTCTTTTTTTGTT
*
48446080 TTTCTTTTTCTCTGCT
1 TTTCTTTTT-T-TGTT
*
48446096 TTTCTTTTGTTGTT
1 TTTCTTTTTTTGTT
48446110 T
1 T
48446111 GTTTGTGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.50
15 2 0.08
16 11 0.42
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTTTGTT
Found at i:48449822 original size:6 final size:6
Alignment explanation
Indices: 48449799--48449846 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
48449789 GTAGTTTCAT
* * * *
48449799 CTCTGG CACTAG CACTGG CTCTGG CTCTGG CTCTGG CTCTAG CTCTGG
1 CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG CTCTGG
48449847 TGCATGATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.08, C:0.33, G:0.29, T:0.29
Consensus pattern (6 bp):
CTCTGG
Found at i:48451595 original size:29 final size:31
Alignment explanation
Indices: 48451557--48451615 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
48451547 GGAGGTGGGA
* *
48451557 TGGGAAGGGA-ATAAAAGTTTAGGGGAAAAG
1 TGGGAAGGGAGAAAAAAATTTAGGGGAAAAG
*
48451587 TGGG-AGGGAGAAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAGAAAAAAATTTAGGGGAAAA
48451616 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (31 bp):
TGGGAAGGGAGAAAAAAATTTAGGGGAAAAG
Found at i:48451761 original size:30 final size:31
Alignment explanation
Indices: 48451720--48451780 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
48451710 GGGTTGGGAG
* *
48451720 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
48451751 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
48451781 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:48451843 original size:9 final size:9
Alignment explanation
Indices: 48451828--48451864 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48451818 TATAGTTTGA
48451828 TATTCGAAT
1 TATTCGAAT
*
48451837 GATTCGAAT
1 TATTCGAAT
*
48451846 TATTCGAGT
1 TATTCGAAT
48451855 TATTCGAAT
1 TATTCGAAT
48451864 T
1 T
48451865 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48451934 original size:9 final size:9
Alignment explanation
Indices: 48451917--48451947 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48451907 TTGAGTTGAT
48451917 TCGAATAAC
1 TCGAATAAC
*
48451926 TCGATTAAC
1 TCGAATAAC
48451935 TCGAATAAC
1 TCGAATAAC
48451944 TCGA
1 TCGA
48451948 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:48452755 original size:16 final size:15
Alignment explanation
Indices: 48452724--48452760 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
48452714 ACAAAATCAA
48452724 ATAAAATTAAATTAT
1 ATAAAATTAAATTAT
*
48452739 ATAAAAGTTACATTAT
1 ATAAAA-TTAAATTAT
48452755 ATAAAA
1 ATAAAA
48452761 ACTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAAAATTAAATTAT
Found at i:48453059 original size:19 final size:19
Alignment explanation
Indices: 48453058--48453246 Score: 161
Period size: 19 Copynumber: 9.4 Consensus size: 19
48453048 CATTCAAAAT
*
48453058 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
48453077 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
48453096 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
48453117 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
48453135 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
48453158 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
48453178 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
48453197 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
48453216 TACAAAAAAAATTAGAATATTCA
1 TAC----AAAATTACAATATTCA
48453239 TACAAAAT
1 TACAAAAT
48453247 ACTAATCCGA
Statistics
Matches: 141, Mismatches: 12, Indels: 34
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.02
18 7 0.05
19 68 0.48
20 12 0.09
21 21 0.15
22 5 0.04
23 23 0.16
25 2 0.01
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:48453069 original size:27 final size:27
Alignment explanation
Indices: 48453037--48453114 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
48453027 ATATCCCGAA
*
48453037 ATTACAATATTCATTCAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
48453064 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
48453091 ATT-C-ATA--CA-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
48453112 ATT
1 ATT
48453115 CATACAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
21 14 0.28
22 1 0.02
23 2 0.04
25 3 0.06
26 1 0.02
27 29 0.58
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:48453209 original size:61 final size:59
Alignment explanation
Indices: 48453058--48453246 Score: 197
Period size: 61 Copynumber: 3.1 Consensus size: 59
48453048 CATTCAAAAT
* * *
48453058 TACAATATTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCATAAAAAATTACAATATTCATAAAAAAAATTACAATATTCA
* * * * *
48453117 TACAAAA-TACTA-ATCCA-AAACTATAAATACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAAATTACAATATTCATAAA--A-AATTACAATA-TTCA-TA-AAAAAAATTACAATATTCA
*
48453178 TACAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAAATTAGAATATTCA
1 TACAAAATTACAATATTCATAAAAAATTACAATATTCAT--AAAAAAAATTACAATATTCA
48453239 TACAAAAT
1 TACAAAAT
48453247 ACTAATCCGA
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
56 2 0.02
57 4 0.04
58 6 0.06
59 16 0.15
60 3 0.03
61 59 0.57
62 7 0.07
63 4 0.04
64 3 0.03
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (59 bp):
TACAAAATTACAATATTCATAAAAAATTACAATATTCATAAAAAAAATTACAATATTCA
Found at i:48453306 original size:122 final size:120
Alignment explanation
Indices: 48453058--48453281 Score: 333
Period size: 120 Copynumber: 1.8 Consensus size: 120
48453048 CATTCAAAAT
* *
48453058 TACAATATTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAA
1 TACAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAA
* * * *
48453123 ATACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTCA
66 ATACTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAA
*
48453178 TACAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAAATTAGAATATTCATACA
1 TACAAAATTACAATATTCATAAAAAATTACAATATTCATAC--AAAAAATTACAATATTCATACA
*
48453243 AAATACTAATCC-GAACTATAAACACTAAATATAGATAAT
64 AAATACTAATCCAAAACTATAAACAC-AAATATA-ATAAT
48453282 TTATAATTAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
120 39 0.42
121 11 0.12
122 39 0.42
123 4 0.04
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (120 bp):
TACAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACAATATTCATACAAA
ATACTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAA
Found at i:48453685 original size:22 final size:21
Alignment explanation
Indices: 48453655--48453707 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
48453645 TATTTTTATT
*
48453655 TAATTTTTTTTAAAAATAAAAA
1 TAATATTTTTTAAAAA-AAAAA
**
48453677 TAATA--TTTTAATTAAAAAA
1 TAATATTTTTTAAAAAAAAAA
48453696 TAATATTTTTTA
1 TAATATTTTTTA
48453708 TTCATTGGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 5 0.19
22 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATTTTTTAAAAAAAAAA
Found at i:48453687 original size:20 final size:19
Alignment explanation
Indices: 48453662--48453704 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
48453652 ATTTAATTTT
48453662 TTTTAAAAATAAAAATAATA
1 TTTTAAAAA-AAAAATAATA
**
48453682 TTTTAATTAAAAAATAATA
1 TTTTAAAAAAAAAATAATA
48453701 TTTT
1 TTTT
48453705 TTATTCATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTAAAAAAAAAATAATA
Found at i:48455184 original size:13 final size:13
Alignment explanation
Indices: 48455166--48455203 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
48455156 AAATTATTCA
*
48455166 ACCCAACCTAATT
1 ACCCAACCCAATT
48455179 ACCCAACCCAATT
1 ACCCAACCCAATT
48455192 ACCCAACCCAAT
1 ACCCAACCCAAT
48455204 AAAACTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:48455221 original size:16 final size:16
Alignment explanation
Indices: 48455200--48455231 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48455190 TTACCCAACC
48455200 CAATAAAACTAAAACT
1 CAATAAAACTAAAACT
48455216 CAATAAAACTAAAACT
1 CAATAAAACTAAAACT
48455232 AAAGTCTACC
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:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (16 bp):
CAATAAAACTAAAACT
Found at i:48455479 original size:9 final size:9
Alignment explanation
Indices: 48455465--48455504 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
48455455 GTATTGATTC
*
48455465 AATTCGGAT
1 AATTCGGTT
*
48455474 AATTCGGGT
1 AATTCGGTT
48455483 AATTCGGTT
1 AATTCGGTT
48455492 AATTCGGTT
1 AATTCGGTT
48455501 AATT
1 AATT
48455505 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48469973 original size:19 final size:19
Alignment explanation
Indices: 48469949--48469995 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
48469939 CTTTAGACTT
* *
48469949 GGTTAATTGTCTGTATTTA
1 GGTTAATTGTCTATATTCA
48469968 GGTTAATTGTCTATATTCA
1 GGTTAATTGTCTATATTCA
*
48469987 GGTGAATTG
1 GGTTAATTG
48469996 AGTTGCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (19 bp):
GGTTAATTGTCTATATTCA
Found at i:48475956 original size:229 final size:229
Alignment explanation
Indices: 48475549--48476008 Score: 875
Period size: 229 Copynumber: 2.0 Consensus size: 229
48475539 TGATCATTGT
*
48475549 CAGAGAACATGCAATTTATCTAAGAGACACGAAATGCCATTGTAAAATATTTTGGAGATTGATTT
1 CAGAGAACATGCAATTTATCTAAGAGACACGAAATGCCATTGTAAAATATTTTGGAGATTAATTT
* *
48475614 GTTTGATGTTTGGGGAATTGACTTTTTGGGTCCATTTCCACCATCATTTGACAATATCTACATAC
66 GTTTGATGTTTGGGGAATCGACTTTATGGGTCCATTTCCACCATCATTTGACAATATCTACATAC
*
48475679 TTGTGGTAGTGGACAATGTCTTTAAGTGGGTCGAGGTGATATCCCTAGCTACAAATGATTCCAAG
131 TTGTGGTAGTGGACAATGTCTTTAAGTGGGTCGAGGTGATATCCCTAGCTACAAATGATGCCAAG
48475744 TCAGTGCTAAAGTTTCTACACAAGAACATTTTCA
196 TCAGTGCTAAAGTTTCTACACAAGAACATTTTCA
*
48475778 CAGAGGACATGCAATTTATCTAAGAGACACGAAATGCCATTGTAAAATATTTTGGAGATTAATTT
1 CAGAGAACATGCAATTTATCTAAGAGACACGAAATGCCATTGTAAAATATTTTGGAGATTAATTT
48475843 GTTTGATGTTTGGGGAATCGACTTTATGGGTCCATTTCCACCATCATTTGACAATATCTACATAC
66 GTTTGATGTTTGGGGAATCGACTTTATGGGTCCATTTCCACCATCATTTGACAATATCTACATAC
48475908 TTGTGGTAGTGGACAATGTCTTTAAGTGGGTCGAGGTGATATCCCTAGCTACAAATGATGCCAAG
131 TTGTGGTAGTGGACAATGTCTTTAAGTGGGTCGAGGTGATATCCCTAGCTACAAATGATGCCAAG
48475973 TCAGTGCTAAAGTTTCTACACAAGAACATTTTCA
196 TCAGTGCTAAAGTTTCTACACAAGAACATTTTCA
48476007 CA
1 CA
48476009 AGATTTGGGA
Statistics
Matches: 226, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 226 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (229 bp):
CAGAGAACATGCAATTTATCTAAGAGACACGAAATGCCATTGTAAAATATTTTGGAGATTAATTT
GTTTGATGTTTGGGGAATCGACTTTATGGGTCCATTTCCACCATCATTTGACAATATCTACATAC
TTGTGGTAGTGGACAATGTCTTTAAGTGGGTCGAGGTGATATCCCTAGCTACAAATGATGCCAAG
TCAGTGCTAAAGTTTCTACACAAGAACATTTTCA
Found at i:48494142 original size:22 final size:22
Alignment explanation
Indices: 48494117--48494163 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48494107 CTAAGAGTAG
* * *
48494117 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCCA
*
48494139 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCCA
48494161 TAA
1 TAA
48494164 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCCA
Found at i:48494225 original size:32 final size:32
Alignment explanation
Indices: 48494155--48494264 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 32
48494145 GAATGGCTAC
* ** *
48494155 AAGCCATAAGTA-CAGTAATATGATTGGCATA
1 AAGCCATCAGTAGCAGTAATATGAACGGCACA
** *
48494186 AAGCCATCAGTAGCAGTGGTATGAACTGCACA
1 AAGCCATCAGTAGCAGTAATATGAACGGCACA
* * *
48494218 CAA-CCATCAGTAACGGTAATATGATCGGCACA
1 -AAGCCATCAGTAGCAGTAATATGAACGGCACA
48494250 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
48494265 TCGCAGCAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
31 13 0.21
32 46 0.75
33 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGAACGGCACA
Found at i:48494476 original size:24 final size:24
Alignment explanation
Indices: 48494381--48494492 Score: 102
Period size: 24 Copynumber: 4.7 Consensus size: 24
48494371 CCATGCTCAG
** *
48494381 AATCAGTCATACACATCACAAACA
1 AATCAGTCATTTACATCACAGACA
*
48494405 AATCAGT-A-ATACCAATCACAGACA
1 AATCAGTCATTTA-C-ATCACAGACA
* * *
48494429 AATCAGTCATTTAAATAATAGACA
1 AATCAGTCATTTACATCACAGACA
*
48494453 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATTTACATCACAGACA
**
48494477 AATCAACCATTTACAT
1 AATCAGTCATTTACAT
48494493 TGGAGGGGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 65 0.90
25 1 0.01
26 2 0.03
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.23
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:48494567 original size:27 final size:27
Alignment explanation
Indices: 48494508--48494639 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 27
48494498 GGGTAAAATA
* * *
48494508 GTCA-TTTACCCTCCAGGGGCATTATG
1 GTCATTTTAACCTACAGGGGCATTACG
* * *
48494534 ATCATTTTAACTTACAGGGGTATTACG
1 GTCATTTTAACCTACAGGGGCATTACG
* ** *
48494561 GTTA-TTTAACCTTATGGGGGTATTACG
1 GTCATTTTAACC-TACAGGGGCATTACG
* * *
48494588 GTCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTAACCTACAGGGGCATTACG
* *
48494615 GTCATTTTACCCTACGGGGGCATTA
1 GTCATTTTAACCTACAGGGGCATTA
48494640 TAGTTATTTT
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
26 9 0.11
27 69 0.82
28 6 0.07
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTAACCTACAGGGGCATTACG
Found at i:48494610 original size:81 final size:81
Alignment explanation
Indices: 48494508--48494685 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
48494498 GGGTAAAATA
** * * * * *
48494508 GTCA-TTTACCCTCCAGGGGCATTATGATCATTTTAACTTACAGGGGTATTACGGTTA-TTTAAC
1 GTCATTTTACCCTATAGAGGCATTACGATCATTTTAACCTACAGGGGCATTACAGTTATTTTAAC
48494571 CTTATGGGGGTATTACG
66 CTT-TGGGGGTATTACG
* * * * *
48494588 GTCATTTTACCCTATAGAGGCATTACGGTCATTTTACCCTACGGGGGCATTATAGTTATTTTACC
1 GTCATTTTACCCTATAGAGGCATTACGATCATTTTAACCTACAGGGGCATTACAGTTATTTTAAC
* *
48494653 CTTTGGGGGTTTTTCG
66 CTTTGGGGGTATTACG
48494669 GTCATTTTACCCTATAG
1 GTCATTTTACCCTATAG
48494686 GGGTATTTCG
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.05
81 70 0.85
82 8 0.10
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (81 bp):
GTCATTTTACCCTATAGAGGCATTACGATCATTTTAACCTACAGGGGCATTACAGTTATTTTAAC
CTTTGGGGGTATTACG
Found at i:48494660 original size:27 final size:27
Alignment explanation
Indices: 48494550--48494707 Score: 109
Period size: 27 Copynumber: 5.9 Consensus size: 27
48494540 TTAACTTACA
* * * * *
48494550 GGGGTATTACGGTTATTTAACCTTATG
1 GGGGCATTACAGTCATTTTACCCTATG
* * *
48494577 GGGGTATTACGGTCATTTTACCCTATA
1 GGGGCATTACAGTCATTTTACCCTATG
* * *
48494604 GAGGCATTACGGTCATTTTACCCTACG
1 GGGGCATTACAGTCATTTTACCCTATG
* * *
48494631 GGGGCATTATAGTTATTTTACCCTTTG
1 GGGGCATTACAGTCATTTTACCCTATG
** * * *
48494658 GGGGTTTTTCGGTCATTTTACCCTATA
1 GGGGCATTACAGTCATTTTACCCTATG
* * * *
48494685 GGGGTATTTCGGTAATTTTACCC
1 GGGGCATTACAGTCATTTTACCC
48494708 ATTGGGAGTA
Statistics
Matches: 107, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGGCATTACAGTCATTTTACCCTATG
Found at i:48494703 original size:54 final size:54
Alignment explanation
Indices: 48494550--48494894 Score: 241
Period size: 54 Copynumber: 6.4 Consensus size: 54
48494540 TTAACTTACA
* * * * * * * * *
48494550 GGGGTATTACGGTTATTTAACCTTATGGGGGTATTACGGTCATTTTACCCTATA
1 GGGGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTTTG
* * * * * * * * *
48494604 GAGGCATTACGGTCATTTTACCCTACGGGGGCATTAT-AGTTATTTTACCCTTTG
1 GGGGTATTTCGATAATTTTACCCTATGGGGGTATT-TCGGTAATTTTACCCTTTG
* * * * *
48494658 GGGGTTTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTAATTTTACCCATTG
1 GGGGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTTTG
* * * * *
48494712 GGAGTATTTTGATAACTTTACCC-ATCGGAGGTATTTCGGTAATTTTACCCATTG
1 GGGGTATTTCGATAATTTTACCCTAT-GGGGGTATTTCGGTAATTTTACCCTTTG
* * * *
48494766 GGAGTATTTTGATAATTTTTCCC-ATCGGGGGTATTTCGGTAATTTTA-CCTATTA
1 GGGGTATTTCGATAATTTTACCCTAT-GGGGGTATTTCGGTAATTTTACCCT-TTG
* * ** * * *
48494820 AGGGTATTTCGATAATTTTTCCC-ATCTAGGGTATTTTGGTAATTTTACCCATCG
1 GGGGTATTTCGATAATTTTACCCTAT-GGGGGTATTTCGGTAATTTTACCCTTTG
* *
48494874 AGGGTATTTCAATAATTTTAC
1 GGGGTATTTCGATAATTTTAC
48494895 GACTTCCTAA
Statistics
Matches: 240, Mismatches: 46, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
53 5 0.02
54 233 0.97
55 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGGTATTTCGATAATTTTACCCTATGGGGGTATTTCGGTAATTTTACCCTTTG
Found at i:48494718 original size:27 final size:26
Alignment explanation
Indices: 48494645--48494894 Score: 230
Period size: 27 Copynumber: 9.3 Consensus size: 26
48494635 CATTATAGTT
* * *
48494645 ATTTTACCCTTTGGGGGTTTTTCGGTC
1 ATTTTACCCATT-GGGGTATTTCGGTA
*
48494672 ATTTTACCCTATAGGGGTATTTCGGTA
1 ATTTTACCC-ATTGGGGTATTTCGGTA
* *
48494699 ATTTTACCCATTGGGAGTATTTTGATA
1 ATTTTACCCATTGGG-GTATTTCGGTA
* *
48494726 ACTTTACCCATCGGAGGTATTTCGGTA
1 ATTTTACCCATTGG-GGTATTTCGGTA
* *
48494753 ATTTTACCCATTGGGAGTATTTTGATA
1 ATTTTACCCATTGGG-GTATTTCGGTA
* *
48494780 ATTTTTCCCATCGGGGGTATTTCGGTA
1 ATTTTACCCAT-TGGGGTATTTCGGTA
* * *
48494807 ATTTTACCTATTAAGGGTATTTCGATA
1 ATTTTACCCATT-GGGGTATTTCGGTA
* * *
48494834 ATTTTTCCCATCTAGGGTATTTTGGTA
1 ATTTTACCCAT-TGGGGTATTTCGGTA
* **
48494861 ATTTTACCCATCGAGGGTATTTCAATA
1 ATTTTACCCATTG-GGGTATTTCGGTA
48494888 ATTTTAC
1 ATTTTAC
48494895 GACTTCCTAA
Statistics
Matches: 181, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.03
27 169 0.93
28 6 0.03
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTTTACCCATTGGGGTATTTCGGTA
Found at i:48494732 original size:81 final size:81
Alignment explanation
Indices: 48494565--48494894 Score: 274
Period size: 81 Copynumber: 4.1 Consensus size: 81
48494555 ATTACGGTTA
* * * * * * *
48494565 TTTAACCTTATGGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCATTTTACCC-TA
1 TTTACCCTT-TGGGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTTTACCCAT-
* * *
48494629 CGGGGGCATTAT-AGTTAT
64 CGGGGGTATTTTGA-TAAT
* * *
48494647 TTTACCCTTTGGGGGTTTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTAATTTTACCCATTG
1 TTTACCCTTTGGGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTTTACCCATCG
* *
48494712 GGAGTATTTTGATAAC
66 GGGGTATTTTGATAAT
* * * * * * *
48494728 TTTACCCATCGGAGGTATTTCGGTAATTTTACCC-ATTGGGAGTATTTTGATAATTTTTCCCATC
1 TTTACCCTTTGGGGGTATTTCGGTAATTTTACCCTATAGGG-GTATTTCGGTAATTTTACCCATC
* *
48494792 GGGGGTATTTCGGTAAT
65 GGGGGTATTTTGATAAT
** * * * *
48494809 TTTA-CCTATTAAGGGTATTTCGATAATTTTTCCCATCTA-GGGTATTTTGGTAATTTTACCCAT
1 TTTACCCT-TTGGGGGTATTTCGGTAATTTTACCC-TATAGGGGTATTTCGGTAATTTTACCCAT
* **
48494872 CGAGGGTATTTCAATAAT
64 CGGGGGTATTTTGATAAT
48494890 TTTAC
1 TTTAC
48494895 GACTTCCTAA
Statistics
Matches: 200, Mismatches: 41, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
80 7 0.04
81 180 0.90
82 12 0.06
83 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (81 bp):
TTTACCCTTTGGGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTTTACCCATCG
GGGGTATTTTGATAAT
Found at i:48495139 original size:19 final size:17
Alignment explanation
Indices: 48495098--48495149 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
48495088 CACCCGTGTT
* *
48495098 GGCCCACAAGCCCATTG
1 GGCCCACAGGCCCATTC
48495115 GGCCCACACGGCCCATTTC
1 GGCCCACA-GGCCCA-TTC
48495134 GGCCCAACAAGGCCCA
1 GGCCC-AC-AGGCCCA
48495150 GAACAGCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 7 0.24
20 8 0.28
21 1 0.03
ACGTcount: A:0.23, C:0.44, G:0.23, T:0.10
Consensus pattern (17 bp):
GGCCCACAGGCCCATTC
Found at i:48495950 original size:21 final size:21
Alignment explanation
Indices: 48495926--48495965 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48495916 AAAACACCAA
48495926 AAAACTGGCATAAAAGAAAAT
1 AAAACTGGCATAAAAGAAAAT
*
48495947 AAAATTGGCATAAAAGAAA
1 AAAACTGGCATAAAAGAAA
48495966 GCAACTGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAACTGGCATAAAAGAAAAT
Found at i:48497926 original size:9 final size:9
Alignment explanation
Indices: 48497903--48497936 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
48497893 AAAAGGAAAT
48497903 ATAAAATAA
1 ATAAAATAA
48497912 AT-AAATAA
1 ATAAAATAA
48497920 ATAAAATAA
1 ATAAAATAA
*
48497929 AGAAAATA
1 ATAAAATA
48497937 GGGAAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:48498808 original size:16 final size:16
Alignment explanation
Indices: 48498787--48498819 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48498777 AATTTTTTTT
*
48498787 TTATTTTTAAAATTAA
1 TTATTTTTAAAAATAA
48498803 TTATTTTTAAAAATAA
1 TTATTTTTAAAAATAA
48498819 T
1 T
48498820 ATGAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTTTTAAAAATAA
Found at i:48502953 original size:357 final size:357
Alignment explanation
Indices: 48502315--48503005 Score: 938
Period size: 357 Copynumber: 1.9 Consensus size: 357
48502305 TAGTTCATAG
* * * * *
48502315 TCCTGATTAGAAACATCTCATAGTCAGAAAAACCACAACACATAAAGAAACTCAATAAAATTTTG
1 TCCTGAATAGAAACATCTAAAAGTCAGAAAAACCACAACACATAAAGAAACTCAATAAAATCTTC
* * * * * *
48502380 AAAGAAATTAAAAGGAGGTCTTCAATCTTGATGGAGATCCGCTTCCGAGTTGATTCTGATGGTCT
66 AAAGAAATTAAAAGAAGGTCTTCAATCTTAATGAAGATCCACTTCCAAGTTGATTCCGATGGTCT
* * *
48502445 TCTTCGAGTGTTTTCTCCGATCTTCTCTGATTGTCCCCTTATGTCTTCTTTTAATGGGTATTAAT
131 TCTTCGAGTGTTTTCTCCAATATTCTCTGATTGTCCCCTTATGTCTTATTTTAATGGGTATTAAT
* * * *
48502510 AGAATTTAGAATGCTTAGAGACCCTAAAAATTGGGTTTTCCACATATTTGGGAAGTAGGGTGTGA
196 AGAATTTAGAATGCTCAGAAACCCTAAAAATTGGGTTTTCCACATATTTAGGAAGTAGGGTGCGA
* * **
48502575 AATCAGCACCGGCTAGCACATGGGCATGTAT-CTAGCCCGTGTGGAAATGCCCAGGTTGTGTGGA
261 AATCAGCACAGGCTAGCACATGGGCATGTATGC-AGCCCGTATGGAAATGCCCAGGCCGTGTGGA
48502639 TCCTGAAAACAACTCTAGGGAATAAGTTTGAAA
325 TCCTGAAAACAACTCTAGGGAATAAGTTTGAAA
*
48502672 TCCTGAATAGAAACATCTAAAAGTCAGAAAAACCACAAGACATAAAGAAACTCAATAAAA-CTTC
1 TCCTGAATAGAAACATCTAAAAGTCAGAAAAACCACAACACATAAAGAAACTCAATAAAATCTTC
* *
48502736 AAATGAAATTAAAAGAAGGTCTTCAATCTTAATGAAGATCTACTTCCAAGTTGATTCCGATGGTG
66 AAA-GAAATTAAAAGAAGGTCTTCAATCTTAATGAAGATCCACTTCCAAGTTGATTCCGATGGTC
* * * ** *
48502801 TTTTTCTAGTGTTTTCTTCAATATTCTCTGATTG-CCCCTTATGTCTTATTTTAATTTGTATTTA
130 TTCTTCGAGTGTTTTCTCCAATATTCTCTGATTGTCCCCTTATGTCTTATTTTAATGGGTATTAA
* * * * * *** *
48502865 TAGACTTTAGAATTCTCAGAAACCGTAAAAATTAGGTTTTTTCGTGTCTTTAGGAAGTAGGGTGC
195 TAGAATTTAGAATGCTCAGAAACCCTAAAAATT-GGGTTTTCCACATATTTAGGAAGTAGGGTGC
* * * *
48502930 GAAATCGGCACAGGTTGGCACATGGGCATGTATGCAGCCCGTATGGAAATGCCTAGGCCGTGTGG
259 GAAATCAGCACAGGCTAGCACATGGGCATGTATGCAGCCCGTATGGAAATGCCCAGGCCGTGTGG
48502995 ATCCTGAAAAC
324 ATCCTGAAAAC
48503006 TACTTTATTT
Statistics
Matches: 287, Mismatches: 44, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
356 59 0.21
357 227 0.79
358 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (357 bp):
TCCTGAATAGAAACATCTAAAAGTCAGAAAAACCACAACACATAAAGAAACTCAATAAAATCTTC
AAAGAAATTAAAAGAAGGTCTTCAATCTTAATGAAGATCCACTTCCAAGTTGATTCCGATGGTCT
TCTTCGAGTGTTTTCTCCAATATTCTCTGATTGTCCCCTTATGTCTTATTTTAATGGGTATTAAT
AGAATTTAGAATGCTCAGAAACCCTAAAAATTGGGTTTTCCACATATTTAGGAAGTAGGGTGCGA
AATCAGCACAGGCTAGCACATGGGCATGTATGCAGCCCGTATGGAAATGCCCAGGCCGTGTGGAT
CCTGAAAACAACTCTAGGGAATAAGTTTGAAA
Found at i:48518887 original size:46 final size:46
Alignment explanation
Indices: 48518820--48518911 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
48518810 ACCGATCACC
48518820 AGGTTTGAGCAACGGATTGCCACATCTGTTGTTGGAGCAACTATGT
1 AGGTTTGAGCAACGGATTGCCACATCTGTTGTTGGAGCAACTATGT
48518866 AGGTTTGAGCAACGGATTGCCACATCTGTTGTTGGAGCAACTATGT
1 AGGTTTGAGCAACGGATTGCCACATCTGTTGTTGGAGCAACTATGT
48518912 TATACCTAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (46 bp):
AGGTTTGAGCAACGGATTGCCACATCTGTTGTTGGAGCAACTATGT
Found at i:48520289 original size:12 final size:12
Alignment explanation
Indices: 48520272--48520296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48520262 AAACAAACGA
48520272 ATTCACTTTTCC
1 ATTCACTTTTCC
48520284 ATTCACTTTTCC
1 ATTCACTTTTCC
48520296 A
1 A
48520297 ACTAAAGATA
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:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTCACTTTTCC
Found at i:48521793 original size:22 final size:22
Alignment explanation
Indices: 48521742--48521793 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
48521732 CCTAATCTCA
* *
48521742 TCGCGACGACATACATTCAATG
1 TCGCGACAACATACACTCAATG
** *
48521764 TCATGACAACATACACTCGATG
1 TCGCGACAACATACACTCAATG
48521786 TCGCGACA
1 TCGCGACA
48521794 TGACATCCTG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (22 bp):
TCGCGACAACATACACTCAATG
Found at i:48525606 original size:87 final size:86
Alignment explanation
Indices: 48525461--48525623 Score: 236
Period size: 87 Copynumber: 1.9 Consensus size: 86
48525451 GTACATGCTA
* *
48525461 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTAGATGGTCATATTGAGATGAACT
1 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
48525526 TAATGAATTCATCGACATGTG
66 TAATGAATTCATCGACATGTG
* * * * * *
48525547 AGGTTAAGTTTCTTACTCTTAATGAGTTCATATCCTAAAGTTTGGGTGGTCCTAATGAGATGGAC
1 AGGTTAAG-TTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAAC
*
48525612 TTGATGAATTCA
65 TTAATGAATTCA
48525624 CCGAATTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 8 0.12
87 59 0.88
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.37
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
TAATGAATTCATCGACATGTG
Found at i:48527325 original size:12 final size:12
Alignment explanation
Indices: 48527308--48527346 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
48527298 TTAAAATGTT
48527308 TTTAAATTTATA
1 TTTAAATTTATA
*
48527320 TTTAAATTT-TT
1 TTTAAATTTATA
48527331 TTTATAATTTATA
1 TTTA-AATTTATA
48527344 TTT
1 TTT
48527347 TCTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 14 0.61
13 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAAATTTATA
Found at i:48527334 original size:17 final size:19
Alignment explanation
Indices: 48527314--48527352 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
48527304 TGTTTTTAAA
48527314 TTTAT-ATTTAAATTTT-T
1 TTTATAATTTAAATTTTCT
*
48527331 TTTATAATTTATATTTTCT
1 TTTATAATTTAAATTTTCT
48527350 TTT
1 TTT
48527353 TAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATAATTTAAATTTTCT
Found at i:48527353 original size:24 final size:23
Alignment explanation
Indices: 48527297--48527346 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
48527287 ATAAAAAATC
* *
48527297 TTTAAAATGTTTTTAAATTTATA
1 TTTAAATTTTTTTTAAATTTATA
48527320 TTTAAATTTTTTTTATAATTTATA
1 TTTAAATTTTTTTTA-AATTTATA
48527344 TTT
1 TTT
48527347 TCTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAAATTTTTTTTAAATTTATA
Found at i:48529602 original size:18 final size:18
Alignment explanation
Indices: 48529576--48529611 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48529566 AAACATTTTC
*
48529576 AAAAAATATATTAAGTTT
1 AAAAAATATATAAAGTTT
*
48529594 AAAATATATATAAAGTTT
1 AAAAAATATATAAAGTTT
48529612 GCATTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
AAAAAATATATAAAGTTT
Found at i:48531852 original size:20 final size:20
Alignment explanation
Indices: 48531800--48531857 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
48531790 GAGGTACGAT
* * *
48531800 AGTGCAATCAAAGGCACCAG
1 AGTGCAAACAGAGACACCAG
48531820 AGTGCAAACAGAGACACCAG
1 AGTGCAAACAGAGACACCAG
* *
48531840 AGTGCAAATAGAGTCACC
1 AGTGCAAACAGAGACACC
48531858 GAAGTACAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.10
Consensus pattern (20 bp):
AGTGCAAACAGAGACACCAG
Found at i:48533886 original size:16 final size:16
Alignment explanation
Indices: 48533844--48533922 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 16
48533834 AGAAACACAA
*
48533844 TTATTCTAAA-AACAAG
1 TTATTCTAAACAA-TAG
* *
48533860 TTGTTCCAAACAATAG
1 TTATTCTAAACAATAG
48533876 TTATTCTAAAC-ATAG
1 TTATTCTAAACAATAG
*
48533891 TTATTCCTAAA-ACTTCA-
1 TTATT-CTAAACA-AT-AG
48533908 TTATTCTAAACAATA
1 TTATTCTAAACAATA
48533923 ATTGTTCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.20
16 30 0.60
17 9 0.18
18 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (16 bp):
TTATTCTAAACAATAG
Found at i:48534443 original size:88 final size:88
Alignment explanation
Indices: 48534294--48534471 Score: 356
Period size: 88 Copynumber: 2.0 Consensus size: 88
48534284 AATAAAACAA
48534294 TTATATACTAGTAAGAAAAATTCATGTTGTGTAGGAAAAGAAGAAAAAAGTTGTTTTTCCCACTT
1 TTATATACTAGTAAGAAAAATTCATGTTGTGTAGGAAAAGAAGAAAAAAGTTGTTTTTCCCACTT
48534359 TGTTTTCCCTGCATTAATTTTTG
66 TGTTTTCCCTGCATTAATTTTTG
48534382 TTATATACTAGTAAGAAAAATTCATGTTGTGTAGGAAAAGAAGAAAAAAGTTGTTTTTCCCACTT
1 TTATATACTAGTAAGAAAAATTCATGTTGTGTAGGAAAAGAAGAAAAAAGTTGTTTTTCCCACTT
48534447 TGTTTTCCCTGCATTAATTTTTG
66 TGTTTTCCCTGCATTAATTTTTG
48534470 TT
1 TT
48534472 TTGATGAGAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (88 bp):
TTATATACTAGTAAGAAAAATTCATGTTGTGTAGGAAAAGAAGAAAAAAGTTGTTTTTCCCACTT
TGTTTTCCCTGCATTAATTTTTG
Found at i:48539490 original size:20 final size:20
Alignment explanation
Indices: 48539436--48539493 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 20
48539426 CCGTGTCAAC
48539436 GTATTTTAACAATG-T--TA
1 GTATTTTAACAATGTTGGTA
* *
48539453 GTATTATACCAA-GTTGGTA
1 GTATTTTAACAATGTTGGTA
48539472 GTATTTTAACAATGTTGGTA
1 GTATTTTAACAATGTTGGTA
48539492 GT
1 GT
48539494 CAATGCCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
19 12 0.36
20 9 0.27
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (20 bp):
GTATTTTAACAATGTTGGTA
Found at i:48541653 original size:71 final size:71
Alignment explanation
Indices: 48541537--48541672 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
48541527 CTTGATAGGC
* * * *
48541537 TTGTCCGACAACAAAATTCCTTTTACCATATAAAGCATTTGAGCTCTAACATATCAATCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
48541602 ACAAAT
66 ACAAAT
* *
48541608 TTGTCCGACAACAACATTCATCTTACCATCTAAAGCATTCGAGCTCTAACATATCAACCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
48541673 CTTCACAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (71 bp):
TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
ACAAAT
Found at i:48549091 original size:18 final size:18
Alignment explanation
Indices: 48549068--48549122 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
48549058 AAAGTTCCCT
*
48549068 AACCTGAATCCGAATCGG
1 AACCTGAATCCGAATCCG
* *
48549086 AACCTGAACCCGAACCCG
1 AACCTGAATCCGAATCCG
* *
48549104 AACCAGAATCGGAATCCG
1 AACCTGAATCCGAATCCG
48549122 A
1 A
48549123 TTTACGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.33, G:0.20, T:0.11
Consensus pattern (18 bp):
AACCTGAATCCGAATCCG
Found at i:48550632 original size:14 final size:14
Alignment explanation
Indices: 48550609--48550642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
48550599 TGGTATGGGT
48550609 TTAT-GGGTTTTAG
1 TTATAGGGTTTTAG
*
48550622 TTATAGGGTTTTGG
1 TTATAGGGTTTTAG
48550636 TTATAGG
1 TTATAGG
48550643 CAAATGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTAG
Found at i:48554485 original size:42 final size:42
Alignment explanation
Indices: 48554413--48554539 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 42
48554403 CATGTTATCA
* * * *
48554413 CATATCGATGCCATTGTCCCAGACTGGGTCTTATATGAAAT-T
1 CATATCGATGCCAATGTCCCAAACT-GGTCTTACACGAAATCT
*
48554455 -ATATACGATGCCAATGTCCCAAACATGGTCTTACACGTAATCT
1 CATAT-CGATGCCAATGTCCCAAAC-TGGTCTTACACGAAATCT
* *
48554498 CATATTGATGCCAATGTCTCAAACCTGGTCTTACACGAAATC
1 CATATCGATGCCAATGTCCCAAA-CTGGTCTTACACGAAATC
48554540 ACACCTCGAG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.06
42 29 0.40
43 34 0.47
44 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCGATGCCAATGTCCCAAACTGGTCTTACACGAAATCT
Found at i:48561735 original size:43 final size:42
Alignment explanation
Indices: 48561680--48561833 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 42
48561670 TGTCATATCT
* *
48561680 CAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCC
1 CAGAT-TGGTCTTACATGTAATCACATATCGATGCCAATGTCC
* * **
48561723 CAGATTGAGTCTTATATGAAATCATGTA-CGATGCCAATGTCC
1 CAGATTG-GTCTTACATGTAATCACATATCGATGCCAATGTCC
* * * * *
48561765 CAGACATGGTCTTACACGTAATCTCATATTGATGCCAATGTCT
1 CAGA-TTGGTCTTACATGTAATCACATATCGATGCCAATGTCC
* * * *
48561808 CAAACGTGGTCTTACACGAAATCACA
1 CAGA-TTGGTCTTACATGTAATCACA
48561834 CCTCGAGAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 33 0.37
43 56 0.63
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
CAGATTGGTCTTACATGTAATCACATATCGATGCCAATGTCC
Found at i:48567031 original size:17 final size:17
Alignment explanation
Indices: 48567009--48567042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48566999 TTAAAAAATA
48567009 ATTATTAGTTTTATTTT
1 ATTATTAGTTTTATTTT
* *
48567026 ATTATTATTTTTGTTTT
1 ATTATTAGTTTTATTTT
48567043 GAACTACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
ATTATTAGTTTTATTTT
Found at i:48577995 original size:25 final size:25
Alignment explanation
Indices: 48577941--48577995 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48577931 GTCACATGGC
* * *
48577941 CGTGTCACATGCCCGTGTGCTAGGT
1 CGTGTCACACGCCCGTGTGCCAGCT
48577966 CGTGTCACACGCCCGTGTGCCATGCT
1 CGTGTCACACGCCCGTGTGCCA-GCT
48577992 -GTGT
1 CGTGT
48577996 AACTCTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.11, C:0.31, G:0.31, T:0.27
Consensus pattern (25 bp):
CGTGTCACACGCCCGTGTGCCAGCT
Found at i:48578804 original size:40 final size:39
Alignment explanation
Indices: 48578757--48578939 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
48578747 ACCGGAGTTT
*
48578757 AAACAGGGCATGCATGTGCATTCAGGGGTACCGAAGTAC
1 AAACAGGGCACGCATGTGCATTCAGGGGTACCGAAGTAC
* * *
48578796 AAATCAGGGCAAGTATGTGCATTTAGGGGTACCGAAGT-C
1 AAA-CAGGGCACGCATGTGCATTCAGGGGTACCGAAGTAC
** * *
48578835 AAACAGGGGCACAAATGTGCATTTATGGGTACC-AGAGTAC
1 AAACA-GGGCACGCATGTGCATTCAGGGGTACCGA-AGTAC
* * *
48578875 AAATAAGGGCATC-TATGTGCATTCAGGGGTACCAAAGTAC
1 AAA-CAGGGCA-CGCATGTGCATTCAGGGGTACCGAAGTAC
*
48578915 AAACAGGGGCACGTATGTGCATTCA
1 AAACA-GGGCACGCATGTGCATTCA
48578940 TACAATAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.02
39 35 0.28
40 82 0.67
41 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (39 bp):
AAACAGGGCACGCATGTGCATTCAGGGGTACCGAAGTAC
Found at i:48578853 original size:79 final size:80
Alignment explanation
Indices: 48578770--48578939 Score: 236
Period size: 79 Copynumber: 2.1 Consensus size: 80
48578760 CAGGGCATGC
* * * *
48578770 ATGTGCATTCAGGGGTACC-GAAGTACAAATCAGGGCAAGTATGTGCATTTAGGGGTACCGAAGT
1 ATGTGCATTCAGGGGTACCAG-AGTACAAATAAGGGCAACTATGTGCATTCAGGGGTACCAAAGT
48578834 -CAAACAGGGGCACAA
65 ACAAACAGGGGCACAA
* * *
48578849 ATGTGCATTTATGGGTACCAGAGTACAAATAAGGGCATCTATGTGCATTCAGGGGTACCAAAGTA
1 ATGTGCATTCAGGGGTACCAGAGTACAAATAAGGGCAACTATGTGCATTCAGGGGTACCAAAGTA
**
48578914 CAAACAGGGGCACGT
66 CAAACAGGGGCACAA
48578929 ATGTGCATTCA
1 ATGTGCATTCA
48578940 TACAATAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 55 0.70
80 24 0.30
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (80 bp):
ATGTGCATTCAGGGGTACCAGAGTACAAATAAGGGCAACTATGTGCATTCAGGGGTACCAAAGTA
CAAACAGGGGCACAA
Found at i:48579285 original size:32 final size:32
Alignment explanation
Indices: 48579223--48579291 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
48579213 CATCTTTTAT
48579223 TTAATTAACATTTAACTAAATTATCAAATTAC-
1 TTAATTAACATTTAAC-AAATTATCAAATTACA
* *
48579255 TTAATTAACCTTTTAA-AAATTTTCATAATTACA
1 TTAATTAA-CATTTAACAAATTATCA-AATTACA
48579288 TTAA
1 TTAA
48579292 AACTTATCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 8 0.25
32 14 0.44
33 10 0.31
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (32 bp):
TTAATTAACATTTAACAAATTATCAAATTACA
Found at i:48584029 original size:38 final size:32
Alignment explanation
Indices: 48583952--48584018 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
48583942 TTAGAGGTAA
48583952 TATGTATGTGAATTAATGATTTATGTTATGTT
1 TATGTATGTGAATTAATGATTTATGTTATGTT
48583984 TATGTATGTGAATTAATGATTTATGTTATGTT
1 TATGTATGTGAATTAATGATTTATGTTATGTT
48584016 TAT
1 TAT
48584019 ATTAATGTAT
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:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (32 bp):
TATGTATGTGAATTAATGATTTATGTTATGTT
Found at i:48585643 original size:34 final size:34
Alignment explanation
Indices: 48585605--48585674 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
48585595 TTACAGTGTT
* * *
48585605 ATTTGGTGTGCTGGATGGATTTGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
*
48585639 ATTTGGTGTGCTGGATGGGCTGGCTCATACAAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
48585673 AT
1 AT
48585675 CTAGTGTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
Found at i:48585682 original size:34 final size:34
Alignment explanation
Indices: 48585610--48585682 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
48585600 GTGTTATTTG
* * * * *
48585610 GTGTGCTGGATGGATTTGCTCATACGAGCATTTG
1 GTGTGCTGGATGGACTGGCTCATACAAGCATCTA
*
48585644 GTGTGCTGGATGGGCTGGCTCATACAAGCATCTA
1 GTGTGCTGGATGGACTGGCTCATACAAGCATCTA
48585678 GTGTG
1 GTGTG
48585683 TTGGCTGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (34 bp):
GTGTGCTGGATGGACTGGCTCATACAAGCATCTA
Found at i:48589961 original size:16 final size:17
Alignment explanation
Indices: 48589923--48589961 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
48589913 CATAGGCTTG
*
48589923 TGCTCGAAATTTTTCCA
1 TGCTCAAAATTTTTCCA
48589940 TGCTCAAAATTTTTCCA
1 TGCTCAAAATTTTTCCA
48589957 T-CTCA
1 TGCTCA
48589962 TTCAACTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.41
Consensus pattern (17 bp):
TGCTCAAAATTTTTCCA
Found at i:48602497 original size:14 final size:14
Alignment explanation
Indices: 48602474--48602505 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48602464 ACTCTCTCTC
48602474 GATT-TATAAACCT
1 GATTCTATAAACCT
48602487 GATTCTATAAACCT
1 GATTCTATAAACCT
48602501 GATTC
1 GATTC
48602506 ACACCCTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (14 bp):
GATTCTATAAACCT
Found at i:48606633 original size:3 final size:3
Alignment explanation
Indices: 48606625--48606669 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
48606615 GTTATAGTAT
48606625 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48606670 CGTATAGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48607289 original size:34 final size:34
Alignment explanation
Indices: 48607204--48607273 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
48607194 TTTTCTTAAG
*
48607204 TTCTTATTAATATTTTTACGAAGGTTGCAAGATA
1 TTCTTATTAATATTTTTACAAAGGTTGCAAGATA
48607238 TTCTTATTAATATTTTTACAAAGGTTGCAAGATA
1 TTCTTATTAATATTTTTACAAAGGTTGCAAGATA
48607272 TT
1 TT
48607274 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (34 bp):
TTCTTATTAATATTTTTACAAAGGTTGCAAGATA
Found at i:48607915 original size:18 final size:18
Alignment explanation
Indices: 48607887--48607931 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
48607877 CGTTCGTTCC
*
48607887 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
48607904 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
48607923 CAAAACGTT
1 CAAAACGTT
48607932 TTTTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:48614019 original size:25 final size:26
Alignment explanation
Indices: 48613977--48614035 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
48613967 TTAAGTGTTT
* *
48613977 TCAGTATA-GTCTATCTATAGTAGTC
1 TCAGTATATGTCTACCTATAGCAGTC
*
48614002 TCAGTATATG-CTACCTATAGCAGTT
1 TCAGTATATGTCTACCTATAGCAGTC
*
48614027 TCAGGATAT
1 TCAGTATAT
48614036 ACTATCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (26 bp):
TCAGTATATGTCTACCTATAGCAGTC
Found at i:48614134 original size:14 final size:14
Alignment explanation
Indices: 48614115--48614145 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48614105 TAAAAAACAT
48614115 TTAGAAATCAGTTC
1 TTAGAAATCAGTTC
48614129 TTAGAAATCAGTTC
1 TTAGAAATCAGTTC
48614143 TTA
1 TTA
48614146 AAAAAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (14 bp):
TTAGAAATCAGTTC
Found at i:48614358 original size:18 final size:18
Alignment explanation
Indices: 48614335--48614374 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48614325 AATCGTGTCG
*
48614335 TTCATTTCCAAAACATTA
1 TTCATTTACAAAACATTA
* *
48614353 TTCATTTACAAATCGTTA
1 TTCATTTACAAAACATTA
48614371 TTCA
1 TTCA
48614375 ATTTTCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (18 bp):
TTCATTTACAAAACATTA
Found at i:48620890 original size:12 final size:12
Alignment explanation
Indices: 48620867--48620898 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
48620857 TTTTTTTATT
48620867 TTTAGTTTAATTA
1 TTTAG-TTAATTA
48620880 TTTAGTTAATTA
1 TTTAGTTAATTA
48620892 TTTAGTT
1 TTTAGTT
48620899 TTTAGATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (12 bp):
TTTAGTTAATTA
Found at i:48620946 original size:13 final size:13
Alignment explanation
Indices: 48620928--48620964 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
48620918 TCAACATATT
48620928 TTTAGTTTAATTA
1 TTTAGTTTAATTA
48620941 TTTAG-TTAATTA
1 TTTAGTTTAATTA
*
48620953 TTTAGTGTAATT
1 TTTAGTTTAATT
48620965 GATCACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (13 bp):
TTTAGTTTAATTA
Found at i:48624560 original size:45 final size:46
Alignment explanation
Indices: 48624501--48624598 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 46
48624491 TCTTTTCATT
* * *
48624501 TCCATTT-TGAGAAAATTACATTCATTT-TGAAATG-ATTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCTG-AATGTATTCCATTTC
* *
48624545 TCCATTTCGGAGAAAATCATAATCATTTCTGAATGTTTTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCTGAATGTATTCCATTTC
*
48624591 TCTATTTC
1 TCCATTTC
48624599 TATTCATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.16
45 20 0.44
46 18 0.40
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (46 bp):
TCCATTTCGGAGAAAATCACAATCATTTCTGAATGTATTCCATTTC
Found at i:48625220 original size:17 final size:17
Alignment explanation
Indices: 48625198--48625233 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48625188 AATCAAATTC
48625198 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
48625215 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
48625232 AT
1 AT
48625234 GTTATCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTAATTTTATCT
Found at i:48627620 original size:50 final size:50
Alignment explanation
Indices: 48627549--48627728 Score: 184
Period size: 50 Copynumber: 3.6 Consensus size: 50
48627539 TTAAAGGAAT
*
48627549 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
48627599 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * * * *
48627649 GAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACAAGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGA
* ** *
48627698 AACATCCCATGTAAGACTATGTCTGGGACAT
1 GAGGTCCCATGTAAGACCATGTCTGGGACAT
48627729 AGCTTTGGAA
Statistics
Matches: 106, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 28 0.26
50 77 0.73
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:48631912 original size:42 final size:42
Alignment explanation
Indices: 48631865--48631953 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
48631855 ACTGTCACAT
* *
48631865 TGCTCCTAAGCACAAGCCTAAGCAATTCATCCAAAATGTTGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
*
48631907 TGCTCCTAAGCACAAGCCTAAACAGTTCATCCAAAATGATGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
48631949 TGCTC
1 TGCTC
48631954 TTAAACATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
Found at i:48637782 original size:21 final size:20
Alignment explanation
Indices: 48637752--48637794 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
48637742 ATCTCACTGC
48637752 TAATTTTAATCTCACCATTA
1 TAATTTTAATCTCACCATTA
*
48637772 TAATATTTAATCTCACCTTTA
1 TAAT-TTTAATCTCACCATTA
48637793 TA
1 TA
48637795 GTAACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTTTAATCTCACCATTA
Found at i:48643352 original size:6 final size:6
Alignment explanation
Indices: 48643341--48643374 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
48643331 CTAATGACAA
48643341 CCCCAC CCCCAC CCCCAC CCCCACC CCCCAC CCC
1 CCCCAC CCCCAC CCCCAC CCCCA-C CCCCAC CCC
48643375 TTTAATGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCAC
Found at i:48647146 original size:16 final size:16
Alignment explanation
Indices: 48647125--48647158 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48647115 CTTCTCTATG
48647125 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
48647141 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
48647157 GA
1 GA
48647159 GTGAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
GAACTTTTAATTTTTA
Found at i:48649675 original size:128 final size:128
Alignment explanation
Indices: 48649502--48649736 Score: 382
Period size: 128 Copynumber: 1.8 Consensus size: 128
48649492 ATGTTAGTTA
48649502 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
* ** * *
48649567 ATGAATTCTAATGAGTTGATGTAGTGTGCAATAAATTACTTGCACACTAATGAATAAAATGGG
66 ATGAATCCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGGG
* *
48649630 TCTATAATTGAATAAAATGAGTCTTTTTATGATGTTTCT-TGACCAATTAGTCCAATTTGAGCCT
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTT-TGTGACCAATTAGGCCAATTTGAGCCT
*
48649694 AATGAATCCTAACAAGTTGTTGTAGTATGCAAGAAATTACTTG
65 AATGAATCCTAACAAGTTGATGTAGTATGCAAGAAATTACTTG
48649737 AACCAAATAA
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 97 0.99
129 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (128 bp):
TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
ATGAATCCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGGG
Found at i:48653700 original size:2 final size:2
Alignment explanation
Indices: 48653695--48653734 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
48653685 GGAGGAAAAA
48653695 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
48653735 GAATATTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48655239 original size:101 final size:101
Alignment explanation
Indices: 48655124--48655314 Score: 287
Period size: 102 Copynumber: 1.9 Consensus size: 101
48655114 TGATGGTCAT
*
48655124 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAAT-G-ATGGGTCGCATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGG-ATGGAAT-GGTCACATGTGTAGTACTA
* *
48655187 TGTGCAGGCTACTATGCGTACCGGGTTGCTTCGATCAC
64 TATGCAGGCTACTATGCGAACCGGGTTGCTTCGATCAC
*
48655225 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCACATGTGTAGTACTAT
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGG-AATGGTCACATGTGTAGTACTAT
* *
48655290 ATGTAGGCTACTATGTGAACCGGGT
65 ATGCAGGCTACTATGCGAACCGGGT
48655315 ACCATTGACT
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
100 2 0.02
101 37 0.46
102 40 0.49
103 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGAATGGTCACATGTGTAGTACTATA
TGCAGGCTACTATGCGAACCGGGTTGCTTCGATCAC
Found at i:48655281 original size:51 final size:49
Alignment explanation
Indices: 48655125--48655302 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 49
48655115 GATGGTCATG
* * *
48655125 TGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAATGATGGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGATCGGTCACA
* * * * * * *
48655175 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGGTTGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGATG-ATCGGTCACA
48655226 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-G--ATCGGTCACA
* *
48655277 TGTGTAGTACTATATGTAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
48655303 TGTGAACCGG
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
50 35 0.34
51 68 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATCGGTCACA
Found at i:48655385 original size:44 final size:45
Alignment explanation
Indices: 48655308--48655406 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 45
48655298 TACTATGTGA
* *
48655308 ACCGGGTACCATTGACTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAGTATCATTGACTATAAAGGTGGTTGCTATGTGCTGATTCC
* *
48655353 ACCGAGTATCATTGATTAT-AATGTGGTTGCTATGTGCTGATTCC
1 ACCGAGTATCATTGACTATAAAGGTGGTTGCTATGTGCTGATTCC
*
48655397 ACCGTGTATC
1 ACCGAGTATC
48655407 TGTTATTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 33 0.67
45 16 0.33
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (45 bp):
ACCGAGTATCATTGACTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:48661451 original size:20 final size:21
Alignment explanation
Indices: 48661418--48661456 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48661408 CGGCGCCGAT
48661418 TCTGTAAGTGTTTT-AAAAAC
1 TCTGTAAGTGTTTTGAAAAAC
48661438 TCTGATAAGT-TTTTGAAAA
1 TCTG-TAAGTGTTTTGAAAA
48661457 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (21 bp):
TCTGTAAGTGTTTTGAAAAAC
Found at i:48673477 original size:6 final size:6
Alignment explanation
Indices: 48673466--48673492 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48673456 AGGTTTCCAA
48673466 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
48673493 CTTGCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:48673707 original size:25 final size:25
Alignment explanation
Indices: 48673636--48673709 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
48673626 TATTTTCTTG
* **
48673636 AAATTTTACAAGGGGTAAAATCATCA
1 AAATTTTACTA-GGGTAAAATTGTCA
*
48673662 AAATTTTATTAAGGGTAAAATTGTCA
1 AAATTTTACT-AGGGTAAAATTGTCA
48673688 AAATTTTACTAGGGTAAAATTG
1 AAATTTTACTAGGGTAAAATTG
48673710 GGGTGAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.29
26 29 0.69
27 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATTGTCA
Found at i:48686852 original size:11 final size:10
Alignment explanation
Indices: 48686834--48686919 Score: 55
Period size: 11 Copynumber: 7.9 Consensus size: 10
48686824 ACAAGACGAA
48686834 ACACCACCAT
1 ACACCACCAT
48686844 ACAACCACCAT
1 AC-ACCACCAT
48686855 ATCACCACCAT
1 A-CACCACCAT
**
48686866 ACGACCAGTAT
1 AC-ACCACCAT
*
48686877 AGCACCACCACA
1 A-CACCACCA-T
*
48686889 ACACCACCGT
1 ACACCACCAT
*
48686899 ACCACCATCCTT
1 A-CACCA-CCAT
*
48686911 GCACCACCA
1 ACACCACCA
48686920 CCAAAACTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
10 6 0.10
11 47 0.80
12 6 0.10
ACGTcount: A:0.36, C:0.47, G:0.06, T:0.12
Consensus pattern (10 bp):
ACACCACCAT
Found at i:48686861 original size:22 final size:22
Alignment explanation
Indices: 48686835--48686886 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
48686825 CAAGACGAAA
*
48686835 CACCACCATACAACCACCATAT
1 CACCACCATACAACCACCATAG
* **
48686857 CACCACCATACGACCAGTATAG
1 CACCACCATACAACCACCATAG
48686879 CACCACCA
1 CACCACCA
48686887 CAACACCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.44, G:0.06, T:0.12
Consensus pattern (22 bp):
CACCACCATACAACCACCATAG
Found at i:48691952 original size:37 final size:37
Alignment explanation
Indices: 48691911--48692021 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
48691901 CGCGCCAGTC
*
48691911 GCTCATAAGAGCTAATCCACCCGGTAACACGCCAAAT
1 GCTCATAAGAGCTAATCCACCCGATAACACGCCAAAT
48691948 GCTCATAAGAGCTAATCCACCCGATAACACGCCAAAT
1 GCTCATAAGAGCTAATCCACCCGATAACACGCCAAAT
* * *
48691985 GCTTATAAGAGCTAATCCACCCGATAGCACACCAAAT
1 GCTCATAAGAGCTAATCCACCCGATAACACGCCAAAT
48692022 TAGGGTAGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.17
Consensus pattern (37 bp):
GCTCATAAGAGCTAATCCACCCGATAACACGCCAAAT
Found at i:48699776 original size:31 final size:31
Alignment explanation
Indices: 48699738--48699809 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
48699728 GCATGGTGAG
48699738 GTTTTTGAACCCCGTTTTTAATGATTTTTAT
1 GTTTTTGAACCCCGTTTTTAATGATTTTTAT
*
48699769 GTTTTTGAACCCCGTTTTTAATGGTTTTTAT
1 GTTTTTGAACCCCGTTTTTAATGATTTTTAT
48699800 GTTTTTGAAC
1 GTTTTTGAAC
48699810 TCGTTTTAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.54
Consensus pattern (31 bp):
GTTTTTGAACCCCGTTTTTAATGATTTTTAT
Found at i:48701899 original size:8 final size:8
Alignment explanation
Indices: 48701888--48701912 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48701878 TATTTTCATT
48701888 TAAATTAA
1 TAAATTAA
48701896 TAAATTAA
1 TAAATTAA
48701904 TAAATTAA
1 TAAATTAA
48701912 T
1 T
48701913 GATGTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATTAA
Found at i:48703700 original size:55 final size:55
Alignment explanation
Indices: 48703606--48703727 Score: 199
Period size: 55 Copynumber: 2.2 Consensus size: 55
48703596 TCAATTTTAA
*
48703606 AATCACATCTCAAACCATCATCTACTCACACTATGCTCATGCCATATTACATGATTC
1 AATC-CAT-TCAAACCATCATCTACTCACACTATACTCATGCCATATTACATGATTC
* *
48703663 AATCCATTCAAATCATCATCTACTCACAGTATACTCATGCCATATTACATGATTC
1 AATCCATTCAAACCATCATCTACTCACACTATACTCATGCCATATTACATGATTC
48703718 AATCCATTCA
1 AATCCATTCA
48703728 GATATTACAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
55 55 0.89
56 3 0.05
57 4 0.06
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (55 bp):
AATCCATTCAAACCATCATCTACTCACACTATACTCATGCCATATTACATGATTC
Found at i:48707626 original size:24 final size:24
Alignment explanation
Indices: 48707555--48707626 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
48707545 GAAAAATTTT
*
48707555 TTCAGCCATACCAAATACGGTTTA
1 TTCAGCCATACCAAATATGGTTTA
* * ** *
48707579 TT----CATACTAAAAATTTTTTT
1 TTCAGCCATACCAAATATGGTTTA
48707599 TTCAGCCATACCAAATATGGTTTA
1 TTCAGCCATACCAAATATGGTTTA
48707623 TTCA
1 TTCA
48707627 TACTATGCTT
Statistics
Matches: 33, Mismatches: 11, Indels: 8
0.63 0.21 0.15
Matches are distributed among these distances:
20 14 0.42
24 19 0.58
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (24 bp):
TTCAGCCATACCAAATATGGTTTA
Found at i:48716710 original size:15 final size:15
Alignment explanation
Indices: 48716686--48716719 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
48716676 GATGTACATC
48716686 TTTA-TTTTGATAAT
1 TTTAGTTTTGATAAT
48716700 TTTAGTTTTGATAAT
1 TTTAGTTTTGATAAT
48716715 TTTAG
1 TTTAG
48716720 AAAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTAGTTTTGATAAT
Found at i:48720195 original size:30 final size:29
Alignment explanation
Indices: 48720138--48720198 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
48720128 ATTTTTGCCC
*
48720138 TTATTGTTGTTTGTCTATTATTCTGTTTA
1 TTATTGTTATTTGTCTATTATTCTGTTTA
*
48720167 TTATTGTTTATTTGTGTATTTATT-TGTTTA
1 TTATTG-TTATTTGTCTA-TTATTCTGTTTA
48720197 TT
1 TT
48720199 CTCTTGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 17 0.61
31 5 0.18
ACGTcount: A:0.15, C:0.03, G:0.13, T:0.69
Consensus pattern (29 bp):
TTATTGTTATTTGTCTATTATTCTGTTTA
Found at i:48725046 original size:25 final size:23
Alignment explanation
Indices: 48725010--48725063 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
48725000 AGATCCAATC
48725010 AAAAAATATTTCAAA-AAAAATAA
1 AAAAAATATTTCAAATAAAAA-AA
48725033 AAAAAATATTTTTCAAATAAAAAAA
1 AAAAAATA--TTTCAAATAAAAAAA
*
48725058 GAAAAA
1 AAAAAA
48725064 GGAGAAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
25 14 0.52
26 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAATATTTCAAATAAAAAAA
Found at i:48726064 original size:15 final size:14
Alignment explanation
Indices: 48726027--48726065 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48726017 TTTAAATCCT
*
48726027 AAAAAAAATGGGAA
1 AAAAAAAAAGGGAA
*
48726041 AAAATAAAAGGGAA
1 AAAAAAAAAGGGAA
48726055 AAAAGAAAAAG
1 AAAA-AAAAAG
48726066 AAAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAGGGAA
Found at i:48727674 original size:177 final size:178
Alignment explanation
Indices: 48727283--48727720 Score: 558
Period size: 177 Copynumber: 2.5 Consensus size: 178
48727273 TGGATTGAAG
48727283 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAT-TCTATCTC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCT-TATCTC
* * ** * * * * *
48727347 CTTGACGTTGTAGTGGAGCGGATTAAAGTTATAAGTCTTATATCCCTGAAGTTGCAGTGGAGGAG
65 CCTGAAGTTACAGTAGAGCGGATTAAAGTTACAAGTCTTATATCCCTAAAATTGCAGTGGAGCAG
* ** *
48727412 ACTAAAGAAAGCAAGTCTTAATCCCCTGAAGTTTTAGTGAGGCAGACTG
130 ACTAAAGAAAGCAAGTCTTAATCCCCTAAAGTTGCAGTGAGGCAGACTA
*** *
48727461 AAGATGATAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCC
* * * *
48727526 CTGAAGTTACAGTAGAG-TGATTGAAGTTACAAGTCTTATCTCCCTAAAATTGTAGTGGAGCAGA
66 CTGAAGTTACAGTAGAGCGGATTAAAGTTACAAGTCTTATATCCCTAAAATTGCAGTGGAGCAGA
* * * *
48727590 CTGAAGATAGCGAGTCTT-ATGCCCCTAAAGTTGCAGTGGGGCAGACTA
131 CTAAAGAAAGCAAGTCTTAAT-CCCCTAAAGTTGCAGTGAGGCAGACTA
** * *
48727638 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAATCCTATCTCC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCC
* *
48727703 CTGAAGTTTCAGTGGAGC
66 CTGAAGTTACAGTAGAGC
48727721 AGACTGAAGA
Statistics
Matches: 222, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
176 2 0.01
177 148 0.67
178 71 0.32
179 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (178 bp):
AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCC
CTGAAGTTACAGTAGAGCGGATTAAAGTTACAAGTCTTATATCCCTAAAATTGCAGTGGAGCAGA
CTAAAGAAAGCAAGTCTTAATCCCCTAAAGTTGCAGTGAGGCAGACTA
Found at i:48727730 original size:134 final size:133
Alignment explanation
Indices: 48727514--48727758 Score: 332
Period size: 134 Copynumber: 1.8 Consensus size: 133
48727504 TAAAGCCAAT
* ** *
48727514 AATCTTATCTCCCTGAAGTTACAGTAGAGTGATTGAAGTTACAAGTCTTATCTCCCTAAAATTGT
1 AATCTTATCTCCCTGAAGTTACAGTAGAGTGATTAAAGCAACAAGTCCTATCTCCCTAAAATTGT
*
48727579 AGTGGAGCAGACTGAAGATAGCGAGTCTTATGCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATG
66 AGTGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATG
48727644 GCG
131 GCG
* * * * *
48727647 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAA-TCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTACAGTAGAGT-GATTAAAG-CAACAAGTCCTATCTCCCTAAAATT
** *
48727711 -TCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
64 GT-AGTGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCA
48727759 ATGGAATAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
133 28 0.29
134 64 0.67
135 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (133 bp):
AATCTTATCTCCCTGAAGTTACAGTAGAGTGATTAAAGCAACAAGTCCTATCTCCCTAAAATTGT
AGTGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATG
GCG
Found at i:48727884 original size:181 final size:181
Alignment explanation
Indices: 48727647--48728091 Score: 633
Period size: 181 Copynumber: 2.5 Consensus size: 181
48727637 AAAGATGGCG
**
48727647 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAATCCTATCTCCCTGAAGTT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
* * * *
48727711 TCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAATAGATTGAGGC
66 T-AGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATTAAAGC
* *
48727776 TATAAATAATAGATCTCATCTCTCTGAAGTTTTAGTAGAGCAGATAATGGAA
130 TATAAATAATAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGATAATGGAA
* * ** * * *
48727828 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGTTATA-AGTCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ACAATCCTATCTCCCTGAAGTT
*
48727892 GTAGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATTAAAGC
* * * **
48727957 TATAAATCATAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATGGCG
130 TATAAATAATAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGATAATGGAA
* *
48728009 GATCTTATCTCCGTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
* *
48728074 TAGTGGAGCGGATTGAAG
66 TAGTGGAGCAGACTGAAG
48728092 TCAAGTCTTA
Statistics
Matches: 229, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
180 1 0.00
181 226 0.99
182 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (181 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
TAGTGGAGCAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCT
ATAAATAATAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGATAATGGAA
Found at i:48728282 original size:223 final size:225
Alignment explanation
Indices: 48727793--48728626 Score: 667
Period size: 223 Copynumber: 3.7 Consensus size: 225
48727783 AATAGATCTC
* ** * * * *
48727793 ATCTCTCTGAAGTTTTAGTAGAGCAGA-T--AATGGAAAATCTTATCTCCCTGAATTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTATCTCCCTGAAGTTGTAGTGG
* * *
48727855 AGCAGATTGAAGTTATAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCGAAT
66 AGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
*
48727920 CTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCATAGATCTTATCTCTCTAAA
131 CTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAA
* * * ** *
48727985 GTTGTAGTAGAGCAGATCATGGCGGATCTT
196 GTTGCAGTAGAGAAGATCATAGCAAACCTT
* * *** *
48728015 ATCTCCGTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTATCTCCCTGAAGTTGTAGTGG
* * *
48728080 AGCGGATTGAAG-T-CAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAAT
66 AGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
* * * * *
48728143 CTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
131 CTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAA
*
48728208 GTTGCAGTAGAGAAGATCATATCAAACCTT
196 GTTGCAGTAGAGAAGATCATAGCAAACCTT
**
48728238 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTATAC-CTTTGAAGTTGTAGTA
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTAT-CTCCCTGAAG-T-T-GTA
* * * **** * * * * **
48728302 GGTCGGATCAAATTCACCAAAGCCAAGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGA
62 -GT-GGAGCAGATTGA--AGTTACAAGTCTTATCCCCCTAAAGTTGTAGTGGAGCAGACTGAAGA
** * * * * *
48728367 TATAAAACCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGC--T--A-C-TA-ATCTTAT
123 TAGCAAATCTCAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCACAGATCTTAT
* * * * * *
48728424 CTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCTACTAATCTT
187 CTCTCTAAAGTTGCAGTAGAGAAGA-TCATAGC-A--AACCTT
* * * * ** *
48728466 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATTTATGAATCCTATAC-CTCTGAAGTTGTAGTA
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTAT-CTCCCTGAAGTTGTAGT-
* * * * *
48728530 GG-TCAGATTAAATCTACCATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGA
64 GGAGCAGATT-GA---A--GTTACAAGTCTTATCCCCCTAAAGTTGTAGTGGAGCAGACTGAAGA
* * * * *
48728594 TATCAAACCTTATCTCCCTGAAGTTGCACTGGA
123 TAGCAAATCTCATTTCCCTGAAGTTGCAGTGGA
48728627 GCAGGTTGAA
Statistics
Matches: 501, Mismatches: 88, Indels: 41
0.80 0.14 0.07
Matches are distributed among these distances:
222 22 0.04
223 180 0.36
224 8 0.02
225 74 0.15
226 9 0.02
227 70 0.14
228 63 0.13
230 2 0.00
232 71 0.14
233 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (225 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATGAAAAATCCTATCTCCCTGAAGTTGTAGTGG
AGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
CTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTAAA
GTTGCAGTAGAGAAGATCATAGCAAACCTT
Found at i:48728441 original size:89 final size:89
Alignment explanation
Indices: 48727292--48728770 Score: 608
Period size: 89 Copynumber: 16.4 Consensus size: 89
48727282 GAAGATGGCG
* * * * * *
48727292 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAT-TCTATCTCCTTGACGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCT-TATCTCCCTGAAGTT
* * * *
48727356 GTAGTGGAGCGGATTAAAGTTAT-A
65 GCAGTGGAGCAGATTGAAGATATAA
* * * * * * **
48727380 AGTCTTATATCCCTGAAGTTGCAGTGGAGGAGACTAAAGAAAGC-AAGTCTTAATC-CCCTGAAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAA-TCTT-ATCTCCCTGAAG
** *
48727443 TTTTAGT-GAGGCAGACTGAAGATGAT-A
63 TTGCAGTGGA-GCAGATTGAAGAT-ATAA
* * * * * *
48727470 AATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTG
* *
48727535 CAGTAGAG-TGATTGAAG-T-TACA
66 CAGTGGAGCAGATTGAAGATATA-A
* * * * * * * *
48727557 AGTCTTATCTCCCTAAAATTGTAGTGGAGCAGACTGAAGATAGCGAGTCTTATGC-CCCTAAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAATCTTAT-CTCCCTGAAGT
* * * ****
48727621 TGCAGTGGGGCAGACTAAAGATGGCG
64 TGCAGTGGAGCAGATTGAAGATATAA
* ** * * *
48727647 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAAC-AATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-CTACTAATCTTATCTCCCTGAAGTT
* * ***
48727711 TCAGTGGAGCAGACTGAAGATAGCG
65 GCAGTGGAGCAGATTGAAGATATAA
* * * ** * * * *
48727736 AATCTTATTTCCCTGAAGTTGCAATGGAATAGATTGAGGCTATAAATAATAGATCTCATCTCTCT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC------TACTA-ATCTTATCTCCCT
** * **
48727801 GAAGTTTTAGTAGAGCAGA-T--A-ATGGAA
59 GAAGTTGCAGTGGAGCAGATTGAAGATATAA
* * * *
48727828 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGTTA-TAAGTCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAA-TCTTATCTCCCTGAAGTT
* * ***
48727892 GTAGTGGAGCAGACTGAAGATAGCG
65 GCAGTGGAGCAGATTGAAGATATAA
* * * * * *
48727917 AATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCATAGATCTTATCTCTCT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC--T--A-C-TA-ATCTTATCTCCCT
* * * * ****
48727982 AAAGTTGTAGTAGAGCAGA-T---CATGGCG
59 GAAGTTGCAGTGGAGCAGATTGAAGATATAA
* * * * * *
48728009 GATCTTATCTCCGTGAAGTTGCAGTGGAGCAGATTAAAGCCAAC-AATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-CTACTAATCTTATCTCCCTGAAGTT
* * *
48728073 GTAGTGGAGCGGATTGAAG---TCA
65 GCAGTGGAGCAGATTGAAGATATAA
* * * * * * * * *
48728095 AGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAATCTTATCTCCCTGAAGTT
* ** *
48728160 GTAGTGGAATAGATTAAAGCTATAAATTACA
65 GCAGTGGAGCAGATTGAAG--AT--A-TA-A
* * * * * * * *
48728191 GATCTTATCTCTCTGAAGTTGCAGTAGAGAAGA-T-CA--TATCAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAATCTTATCTCCCTGAAGTT
* *
48728252 GCAGTAGAGCAGATT-AAAATGA-AA
65 GCAGTGGAGCAGATTGAAGAT-ATAA
* ** * * * * * * * * *
48728276 AATCCTATAC-CTTTGAAGTTGTAGTAGGTCGGATCAAATT-CACCAAAGCCAAGTCTTGTCTCC
1 AATCTTAT-CTCCCTAAAG-T-T-GCA-GT-GGAGCAGATTGAAGC-TA-CTAA-TCTTATCTCC
*
48728339 CTGAAGTTGCAGTGGAGCAGGTTGAAGATATAA
57 CTGAAGTTGCAGTGGAGCAGATTGAAGATATAA
* * *
48728372 AACCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTG
*
48728437 CAGTGGAGCAGATTGAAGCTACT--
66 CAGTGGAGCAGATTGAAGATA-TAA
* * * ** * *
48728460 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATTTA-TGAATCCTATAC-CTCTGAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACT-AATCTTAT-CTCCCTGAAGT
* * * * *
48728523 TGTAGTAGG-TCAGATTAAATCTACCATTACA
64 TGCAGT-GGAGCAGATTGAA--GA-TA-TA-A
* * * * *
48728554 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAATCTTATCTCCCTGAAGTT
* * *
48728619 GCACTGGAGCAGGTTGAAGATA-CA
65 GCAGTGGAGCAGATTGAAGATATAA
* * *
48728643 AATCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGATTGAAACTAC-AAGTCTTGTCTCCCTGAAGT
1 AATCTTATCT-CCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAA-TCTTATCTCCCTGAAGT
* * * * ***
48728706 TGTAGCGGAGTAGACTGAAGATGGCA
64 TGCAGTGGAGCAGATTGAAGATATAA
* * *
48728732 AATCTCATTTCCTTAAAGTTGCAGTGGAGCAGATTGAAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
48728771 TTATAAATTA
Statistics
Matches: 1066, Mismatches: 237, Indels: 175
0.72 0.16 0.12
Matches are distributed among these distances:
84 1 0.00
85 71 0.07
86 41 0.04
87 72 0.07
88 176 0.17
89 271 0.25
90 88 0.08
91 18 0.02
92 113 0.11
93 6 0.01
94 45 0.04
95 62 0.06
96 101 0.09
97 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGATATAA
Found at i:48728621 original size:45 final size:45
Alignment explanation
Indices: 48727292--48728965 Score: 785
Period size: 44 Copynumber: 37.3 Consensus size: 45
48727282 GAAGATGGCG
*
48727292 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ATATCA
* * * * * * *
48727337 ATTC-TATCTCCTTGACGTTGTAGTGGAGCGGATTAAAGTTAT-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * * *
48727380 AGTCTTATATCCCTGAAGTTGCAGTGGAGGAGACTAAAGAAAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* ** *
48727425 AGTCTTAATC-CCCTGAAGTTTTAGT-GAGGCAGACTGAAGATGAT-A
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGAT-ATCA
* *
48727470 AATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCA-AT--
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ATATCA
* * * *
48727514 AATCTTATCTCCCTGAAGTTACAGTAGAG-TGATTGAAGTTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * * *
48727557 AGTCTTATCTCCCTAAAATTGTAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * ** *
48727602 AGTCTTATGC-CCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
** * ** *
48727647 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * *
48727691 AATCCTATCTCCCTGAAGTTTCAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * ** * *
48727736 AATCTTATTTCCCTGAAGTTGCAATGGAATAGATTGAGGCTATAAATAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ATCA
* * ** * *
48727785 TAGATCTCATCTCTCTGAAGTTTTAGTAGAGCAGA-T-AATG-GA--A
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GATATCA
* *
48727828 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGTTAT-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * *
48727872 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * *
48727917 AATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ATCA
* * * * * ** *
48727966 TAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGA-T---CATGGCG
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * ** *
48728009 GATCTTATCTCCGTGAAGTTGCAGTGGAGCAGATTAAAGCCAAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * *
48728053 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAG---TCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * *
48728095 AGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * ** *
48728140 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTATAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A-T-CA
* * * **
48728191 GATCTTATCTCTCTGAAGTTGCAGT--AG-AGA-AGATCATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * *
48728232 AACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAAATGA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATCA
* ** * * * * ** * *
48728276 AATCCTATAC-CTTTGAAGTTGTAGTAGGTCGGATCAAATTCACCAAAGCCA
1 AATCTTAT-CTCCCTGAAG-T-T-GCA-GT-GGAGCAGATTGAAGATA-TCA
* * * *
48728327 AGTCTTGTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATATAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * *
48728372 AACCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* *
48728416 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * ** *
48728460 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAATTTAT-G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * * * *
48728504 AATCCTATAC-CTCTGAAGTTGTAGTAGG-TCAGATTAAATCTACCATTACA
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAA--GA-TA-T-CA
* * *
48728554 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * *
48728599 AACCTTATCTCCCTGAAGTTGCACTGGAGCAGGTTGAAGATA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* *
48728643 AATCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGATTGAA-ACTA-CA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TATCA
* * * * * * **
48728687 AGTCTTGTCTCCCTGAAGTTGTAGCGGAGTAGACTGAAGATGGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * * *
48728732 AATCTCATTTCCTTAAAGTTGCAGTGGAGCAGATTGAAGTTATAAATTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ATCA
* * * * * * *
48728781 TATATCTTAACTCTCTAAATTTGCAGT--AG-AG-TAG-AGCACAGCA
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATATCA
* * * * * * ** *
48728824 TACCCTACCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * *
48728868 AACCTTATCTCCCTGAAG-TGCAGTGAAGCAGGTTGAAG-T-T-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
* * * *
48728909 AGTCTTATCT-CCTCGAAGTTGCAGTGGAGCAGATTAAAGATAGCG
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGATATCA
*
48728954 AGTCTTATCTCC
1 AATCTTATCTCC
48728966 TCGGAGCTGT
Statistics
Matches: 1224, Mismatches: 306, Indels: 197
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.00
41 109 0.09
42 56 0.05
43 67 0.05
44 415 0.34
45 364 0.30
46 24 0.02
47 18 0.01
48 11 0.01
49 21 0.02
50 35 0.03
51 101 0.08
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCA
Found at i:48730348 original size:3 final size:3
Alignment explanation
Indices: 48730340--48730387 Score: 51
Period size: 3 Copynumber: 14.3 Consensus size: 3
48730330 ATCAAACTTA
48730340 TAT TAT TATT TATT TATT TATT TACT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TA-T TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT
48730387 T
1 T
48730388 TTAATTTGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
3 25 0.58
4 18 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:48734592 original size:24 final size:23
Alignment explanation
Indices: 48734541--48734596 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
48734531 TGTAAAAATT
* *
48734541 AAATAAATTAAGTTAAATAAAAC
1 AAATGAATTAAGTAAAATAAAAC
*
48734564 TAATGGAATTAAGTAAAATAACAA-
1 AAAT-GAATTAAGTAAAATAA-AAC
48734588 AAATGAATT
1 AAATGAATT
48734597 TCACCATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.27
Consensus pattern (23 bp):
AAATGAATTAAGTAAAATAAAAC
Found at i:48741025 original size:43 final size:43
Alignment explanation
Indices: 48740972--48741197 Score: 294
Period size: 43 Copynumber: 5.3 Consensus size: 43
48740962 TTTTCGAAAT
* *
48740972 AAACACCGCTATATACCATGACCTTTAGCGGCGCTTTTCCAAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCAAC
* * * * *
48741015 AAACGCCGCTATAAACCACGATCTTTGGCGGCGCTTTTCCAAG
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCAAC
*
48741058 AAACGCCGCTATAGACC-TCGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCAT-GACCTTTAGCGGCGCTTTTCCAAC
* * *
48741101 AAACGCCGCTATAGACCACGACCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCAAC
* * *
48741144 AAACGCCGCTATAGATCATGACCTTTAACAGCGCTTTTCGCAA-
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTC-CAAC
48741187 AAACGCCGCTA
1 AAACGCCGCTA
48741198 AAAACATAAC
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
43 158 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCAAC
Found at i:48750209 original size:18 final size:17
Alignment explanation
Indices: 48750176--48750214 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48750166 TTGTATAAAT
48750176 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
48750194 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
48750211 TGTG
1 TGTG
48750215 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:48750346 original size:8 final size:8
Alignment explanation
Indices: 48750333--48750361 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48750323 CACTAGAGAC
48750333 CAGTGTTA
1 CAGTGTTA
48750341 CAGTGTTA
1 CAGTGTTA
48750349 CAGTGTTA
1 CAGTGTTA
48750357 CAGTG
1 CAGTG
48750362 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:48750474 original size:23 final size:23
Alignment explanation
Indices: 48750448--48750500 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
48750438 AGTGTTATTG
48750448 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48750471 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48750494 ATCAGTG
1 ATCAGTG
48750501 TGGCACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48757668 original size:8 final size:8
Alignment explanation
Indices: 48757655--48757683 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48757645 CACTAGAGAC
48757655 CAGTGTTA
1 CAGTGTTA
48757663 CAGTGTTA
1 CAGTGTTA
48757671 CAGTGTTA
1 CAGTGTTA
48757679 CAGTG
1 CAGTG
48757684 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:48757796 original size:23 final size:23
Alignment explanation
Indices: 48757770--48757822 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
48757760 AGTGTTATTG
48757770 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48757793 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
48757816 ATCAGTG
1 ATCAGTG
48757823 TGGCACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:48763135 original size:17 final size:18
Alignment explanation
Indices: 48763088--48763152 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 18
48763078 ATAATTTTCC
48763088 AAGAAATTATCCCCTAAATGGA
1 AAGAAATTATCCCCT-AA---A
*
48763110 AAAAAATTATCCCCT-AA
1 AAGAAATTATCCCCTAAA
48763127 AAGAAATTATCCCCTAAA
1 AAGAAATTATCCCCTAAA
48763145 AAGAAATT
1 AAGAAATT
48763153 TTCCAAGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 15 0.38
18 10 0.25
20 1 0.03
22 14 0.35
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (18 bp):
AAGAAATTATCCCCTAAA
Found at i:48763162 original size:12 final size:12
Alignment explanation
Indices: 48763145--48763177 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
48763135 ATCCCCTAAA
48763145 AAGAAATTTTCC
1 AAGAAATTTTCC
48763157 AAGAAATTTTCC
1 AAGAAATTTTCC
*
48763169 AAGCAATTT
1 AAGAAATTT
48763178 GAAGCATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (12 bp):
AAGAAATTTTCC
Found at i:48765741 original size:20 final size:20
Alignment explanation
Indices: 48765716--48765756 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48765706 CAAAAATGAC
48765716 TAAATTGAAATAAAGTAAAT
1 TAAATTGAAATAAAGTAAAT
48765736 TAAATTGAAATAAAGTAAAT
1 TAAATTGAAATAAAGTAAAT
48765756 T
1 T
48765757 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (20 bp):
TAAATTGAAATAAAGTAAAT
Found at i:48767854 original size:99 final size:99
Alignment explanation
Indices: 48767683--48767879 Score: 349
Period size: 99 Copynumber: 2.0 Consensus size: 99
48767673 AATTGGTTGA
*
48767683 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACAGCCTAAGACACGGGTGTGTGTCTTA
1 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACAGCCTAAGACAAGGGTGTGTGTCTTA
48767748 GCCGTGTGTGACACAGGGCCATGAGACACGGTCG
66 GCCGTGTGTGACACAGGGCCATGAGACACGGTCG
** *
48767782 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACATGGCCTAAGATAAGGGTGTGTGTCTTA
1 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACAGCCTAAGACAAGGGTGTGTGTCTTA
*
48767847 GCCGTGTGTGACACAGGGCCATGTGACACGGTC
66 GCCGTGTGTGACACAGGGCCATGAGACACGGTC
48767880 ATGTCTCCCC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (99 bp):
AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACAGCCTAAGACAAGGGTGTGTGTCTTA
GCCGTGTGTGACACAGGGCCATGAGACACGGTCG
Found at i:48774505 original size:88 final size:87
Alignment explanation
Indices: 48774360--48774599 Score: 239
Period size: 88 Copynumber: 2.7 Consensus size: 87
48774350 TATAATCTCC
* * * * * * * **
48774360 TTAGAGTTTCTTCAATTGAAA-AAGTTCATGAGAGAGGACTTATAGTTTAAAAATATTTTTATAT
1 TTAGAGTTTCTTC-ATTTAAAGAAATTAATAAGAGAGGGCTTATAATTCAAAGTTATTTTTATAT
*
48774424 ACCACACTATTTGCATGAGCTTT
65 ACCACACTATTTGCATGAGCTCT
* * * * * *
48774447 TTAGAGTTTTTTTCATTTAAAGAAATTAATGAGTGAGGGCTTATAGTTCGAAGTTATTTTTATAC
1 TTAGAG-TTTCTTCATTTAAAGAAATTAATAAGAGAGGGCTTATAATTCAAAGTTATTTTTATAT
* **
48774512 ACCTCACTATTTTTATGAGCTCT
65 ACCACACTATTTGCATGAGCTCT
* * * * *
48774535 TTAGAGTTTCTTCATTTGAAGAAATTCATAAGAGAGGTCTTATAATTTAAAGTTATTTATATATA
1 TTAGAGTTTCTTCATTTAAAGAAATTAATAAGAGAGGGCTTATAATTCAAAGTTATTTTTATATA
48774600 ATATGATATA
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
87 60 0.48
88 65 0.52
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (87 bp):
TTAGAGTTTCTTCATTTAAAGAAATTAATAAGAGAGGGCTTATAATTCAAAGTTATTTTTATATA
CCACACTATTTGCATGAGCTCT
Done.