Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 84 of 186
Found at i:27405431 original size:27 final size:26
Alignment explanation
Indices: 27405394--27405473 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
27405384 AGCATGGGTG
* *
27405394 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAAAGCCA
*
27405420 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGA-ACAGATATTGTGACAAAGCCA
*
27405447 CCAGAACAGATAATGTGGA-AAAGCCA
1 CCAGAACAGATATTGT-GACAAAGCCA
27405473 C
1 C
27405474 TTAACAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 23 0.49
27 24 0.51
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAAAGCCA
Found at i:27406152 original size:27 final size:27
Alignment explanation
Indices: 27406122--27406858 Score: 685
Period size: 27 Copynumber: 27.3 Consensus size: 27
27406112 GGGACAAAAT
* *
27406122 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
27406149 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
27406176 GGT-ATTTCTACCATACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
27406203 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * *
27406230 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
27406257 -G-AGATTTCTACCCTACAAGGGTATTTC
1 GGTA-ATTT-TACCCTACAAGGGTATTTC
*
27406284 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
27406311 GAT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
27406338 GGTAATTCTT-CCCTACAAGGGTATTTT
1 GGTAATT-TTACCCTACAAGGGTATTTC
* *
27406365 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
27406392 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
27406419 GGT-ATTTCTACCTTACAAAGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
27406446 AGTAATTCTACCCGT--AGGGGTATTTC
1 GGTAATTTTACCC-TACAAGGGTATTTC
* * *
27406472 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
27406499 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
27406526 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
27406553 -ATTATTTCTACCTTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
27406580 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
27406607 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
27406634 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
27406661 AGT-ATTTCTACCCTATAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
27406688 GGT-ATTTCTACCTTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
27406715 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
27406742 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
27406769 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
27406796 GGTATTTTTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
27406823 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
27406850 AATAATTTT
1 GGTAATTTT
27406859 GTAAACCGAG
Statistics
Matches: 610, Mismatches: 79, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.00
26 42 0.07
27 544 0.89
28 21 0.03
29 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:27406194 original size:54 final size:54
Alignment explanation
Indices: 27406122--27406849 Score: 850
Period size: 54 Copynumber: 13.5 Consensus size: 54
27406112 GGGACAAAAT
* * * *
27406122 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * * *
27406176 GGTATTTCTACCATACAAGGGTATTTCAGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
** * *
27406230 AATAATTCTACCCTACAGGGGTATTTCGAG-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCG-GTAATTCTACCCTACAAGGGTATTTC
* * * * *
27406284 GATATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* **
27406338 GGTAATTCTTCCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
27406392 GGTATTTCTACCCTACAAGGGTATTTTGGTATTTCTACCTTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * *
27406446 AGTAATTCTACCCGT--AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCC-TACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * *
27406499 GGAAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
** * * * * *
27406553 ATTATTTCTACCTTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
27406607 AGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * * *
27406661 AGTATTTCTACCCTATAAGGGTATTTTGGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
27406715 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * *
27406769 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* *
27406823 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
27406850 AATAATTTTG
Statistics
Matches: 576, Mismatches: 93, Indels: 10
0.85 0.14 0.01
Matches are distributed among these distances:
52 1 0.00
53 42 0.07
54 531 0.92
55 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:27406264 original size:81 final size:81
Alignment explanation
Indices: 27406123--27406856 Score: 875
Period size: 81 Copynumber: 9.1 Consensus size: 81
27406113 GGACAAAATG
* * *
27406123 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
27406188 ATACAAGGGTATTTCA
66 CTACAAGGGTATTTCA
* * * **
27406204 GTAATTCTATCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGAG-ATTTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG-GTATTTCTAC
27406268 CCTACAAGGGTATTTC-
65 CCTACAAGGGTATTTCA
* * * * * * *
27406284 GATATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTTGGTAATTCTTC
1 G-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
*
27406349 CCTACAAGGGTATTTTA
65 CCTACAAGGGTATTTCA
* * *
27406366 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* *
27406431 TTACAAAGGTATTTCA
66 CTACAAGGGTATTTCA
* * * *
27406447 GTAATTCTACCCGT--AGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGAAATTCTAC
1 GTAATTCTACCC-TACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
* *
27406510 CCTACAGGGGTATTTCG
65 CCTACAAGGGTATTTCA
* ** * * * *
27406527 GTATTTCTACCCTACAAGGGTATTTCATTATTTCTACCTTATAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
27406592 CTACAGGGGTATTTCA
66 CTACAAGGGTATTTCA
* * **
27406608 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* **
27406673 CTATAAGGGTATTTTG
66 CTACAAGGGTATTTCA
* * *
27406689 GTATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTT-TAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTAC
* * *
27406753 CCTATAGGGGTATTTCG
65 CCTACAAGGGTATTTCA
* * * * * * *
27406770 GTATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTATAAGGGTATTTCGATAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
27406835 CTACAGGGGTATTTCA
66 CTACAAGGGTATTTCA
*
27406851 ATAATT
1 GTAATT
27406857 TTGTAAACCG
Statistics
Matches: 566, Mismatches: 78, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.00
80 73 0.13
81 485 0.86
82 7 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
CTACAAGGGTATTTCA
Found at i:27406871 original size:27 final size:27
Alignment explanation
Indices: 27406841--27407047 Score: 134
Period size: 27 Copynumber: 7.7 Consensus size: 27
27406831 TACCCTACAG
* *
27406841 GGGTATTTCAATAATTTTGTAAACCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * * *
27406868 GGGTAAAAT-GGTAATTCTGTAAATCGG
1 GGGT-ATTTCAGTAATTTTGTAAATCGA
* ** *
27406895 GGGTACTTTGA-TAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTGTAAATCGA
**
27406922 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*
27406949 GGGTATTTTAGTAATTTTGTAAA-CTGA
1 GGGTATTTCAGTAATTTTGTAAATC-GA
* **
27406976 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* ** * * * *
27407003 GGATATTTGGGTAATTTTATATACCGG
1 GGGTATTTCAGTAATTTTGTAAATCGA
27407030 GGGTACTTT-AGTAATTTT
1 GGGTA-TTTCAGTAATTTT
27407048 ACAACTGGGG
Statistics
Matches: 141, Mismatches: 32, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
26 6 0.04
27 129 0.91
28 6 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:27406926 original size:81 final size:81
Alignment explanation
Indices: 27406841--27407010 Score: 191
Period size: 81 Copynumber: 2.1 Consensus size: 81
27406831 TACCCTACAG
** * *
27406841 GGGTATTTCAATAATTTTGTAAACCGAGGGTAAAATGGTAATTCTGTAAA-TCGGGGGTACTTT-
1 GGGTATTTCAATAATTTTACAAACCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTA-TTTC
*
27406904 GATAATTTTACAAGTCGA
64 GATAATTTTACAAATCGA
* * *** * *
27406922 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAACTGAGGGTATTTCGG
1 GGGTATTTCAATAATTTTACAAACCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTATTTCGA
27406987 TAATTTTACAAATCGA
66 TAATTTTACAAATCGA
*
27407003 GGATATTT
1 GGGTATTT
27407011 GGGTAATTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
80 3 0.04
81 70 0.95
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (81 bp):
GGGTATTTCAATAATTTTACAAACCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTATTTCGA
TAATTTTACAAATCGA
Found at i:27406946 original size:54 final size:54
Alignment explanation
Indices: 27406920--27407080 Score: 184
Period size: 54 Copynumber: 3.0 Consensus size: 54
27406910 TTTACAAGTC
*
27406920 GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAACT
1 GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTGAGTAATTTTGTAAACT
* * * * * *
27406974 GAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATATACC
1 GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTGAGTAATTTTGTAAACT
* * * *
27407028 GGGGGTACTTT-AGTAATTTTACAACT-G-GGGATATTTTAGTAATTTGGTAAACT
1 GAGGGTA-TTTCAGTAATTTTACAAATCGAGGG-TATTTGAGTAATTTTGTAAACT
27407081 AAAGTATCTA
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 17 0.19
54 66 0.75
55 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTGAGTAATTTTGTAAACT
Found at i:27410061 original size:33 final size:31
Alignment explanation
Indices: 27410022--27410099 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
27410012 ACAAACATAC
*
27410022 AAAGTAATAATTAAATAATACATGATATACAAA
1 AAAGTAATAA-TAAATAATACATGACATAC-AA
*
27410055 AAAGTAAT-A-AAATAATGCATGACATACAA
1 AAAGTAATAATAAATAATACATGACATACAA
27410084 AAAG-AATAATACAATA
1 AAAGTAATAATA-AATA
27410100 TCAATGTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 7 0.17
30 17 0.43
31 4 0.10
32 1 0.03
33 8 0.20
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (31 bp):
AAAGTAATAATAAATAATACATGACATACAA
Found at i:27410916 original size:16 final size:16
Alignment explanation
Indices: 27410866--27410909 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
27410856 TTTTTAAAAA
* *
27410866 AATAAAACAATATCTAC
1 AATAAAA-AATATATAT
27410883 ATATAAAAAATATATAT
1 A-ATAAAAAATATATAT
27410900 AATAAAAAAT
1 AATAAAAAAT
27410910 GAATATAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 9 0.38
18 6 0.25
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAAAAATATATAT
Found at i:27412907 original size:209 final size:209
Alignment explanation
Indices: 27412481--27413282 Score: 1009
Period size: 209 Copynumber: 3.9 Consensus size: 209
27412471 AAATCTTCTT
* * * * *
27412481 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTATAACAAT-CAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * ** * * * *
27412546 GTGAAA-ACTAAATTAGCTATGTCTTCGATTTGCTCCTTG--TAAGCACA-AG-GAT--G-CCAA
65 GTGAAAGTC-AAATTAGCTATATCTTCGATCTGCTCCCCGCCGAA-TACAGAGAGATAAGATC-T
* * * * * ** *
27412603 ATCATCTTGGATCTTGTTTCAGTC-TAATCGTCTGAAGGTCAGATCTGCTATGTATCT-ACTCTC
127 GTCATCTTGGATC-TGCTTCAG-CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCT-TC
* ** ** *
27412666 TATTGAAGTAGAGATACCAGA
189 CATCAAAGCGGAAATACCAGA
*
27412687 CTTCGATTTGTTC-ACTGAA-AATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGT-AAC
1 CTTCGATTTGTTCTA-T-AACAAT-CAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAAC
* * *
27412749 ACGTGAAAGTCAAATAAACTATATCTTCGATCTGCTCCCCACCGAATACAGAGAGATAAGATCTG
63 ACGTGAAAGTCAAATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTG
27412814 TCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATC
128 TCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATC
*
27412879 AAAGCGGAAATCCCAGA
193 AAAGCGGAAATACCAGA
*
27412896 CTTCGATTTGTTCTATAACAATCAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACACG
1 CTTCGATTTGTTCTATAACAATCAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACG
* *
27412961 TGAAAGCCAAATTAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTCA
66 TGAAAGTCAAATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCA
* * * *
27413026 TATTGGATCTACTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACA
131 TCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAA
* **
27413091 GGGGAAATGTCAGA
196 GCGGAAATACCAGA
*
27413105 CTTCGATTTGTTCTATAACAATCAGAGGCGACAAATCATCTTAGATTTGCTTCATCGTAAACACG
1 CTTCGATTTGTTCTATAACAATCAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACG
* *
27413170 TGAAAGTCAAATCAGCTATATCTTCGATCTGCCCCCCGCCGAATACAGAGAGATAAGATCTGTCA
66 TGAAAGTCAAATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCA
27413235 TCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGC
131 TCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGC
27413283 TGCGGCTTAT
Statistics
Matches: 529, Mismatches: 52, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
205 33 0.06
206 57 0.11
207 5 0.01
208 40 0.08
209 377 0.71
210 16 0.03
211 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (209 bp):
CTTCGATTTGTTCTATAACAATCAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACG
TGAAAGTCAAATTAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCA
TCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAA
GCGGAAATACCAGA
Found at i:27414155 original size:12 final size:12
Alignment explanation
Indices: 27414138--27414163 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27414128 GGCCTCTCTG
27414138 TTTTTTTTGTTT
1 TTTTTTTTGTTT
27414150 TTTTTTTTGTTT
1 TTTTTTTTGTTT
27414162 TT
1 TT
27414164 AAATCTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:27421657 original size:19 final size:19
Alignment explanation
Indices: 27421635--27421700 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
27421625 TTTTCTCAAA
*
27421635 ATTATTATTTTTTATATGT
1 ATTATTATTTTTTATATAT
27421654 ATTATTATATTTTT-TCATAT
1 ATTATTAT-TTTTTAT-ATAT
*
27421674 ATTATATATTTATTTATACAT
1 ATTAT-TATTT-TTTATATAT
27421695 ATTATT
1 ATTATT
27421701 TTTACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.22
20 16 0.40
21 14 0.35
22 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTTTTTATATAT
Found at i:27421699 original size:41 final size:37
Alignment explanation
Indices: 27421619--27421700 Score: 92
Period size: 41 Copynumber: 2.1 Consensus size: 37
27421609 ATAATTTATA
**
27421619 TATTAATTTTCTCAAAATTATTATTTTTTATATGTAT
1 TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
* *
27421656 TATTATATTTTTTCATATATTATATATTTATTTATACATAT
1 TATTA-ATTTTCTCA-AAATTAT-TATTT-TTTATACATAT
27421697 TATT
1 TATT
27421701 TTTACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 8 0.22
39 6 0.16
40 5 0.14
41 13 0.35
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (37 bp):
TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
Found at i:27421824 original size:18 final size:18
Alignment explanation
Indices: 27421775--27421821 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
27421765 ATACAATATT
27421775 TATTATGTATTATTTTTA
1 TATTATGTATTATTTTTA
27421793 TATTACT-TATTATTTTTA
1 TATTA-TGTATTATTTTTA
27421811 TATATATGTAT
1 TAT-TATGTAT
27421822 ATTACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TATTATGTATTATTTTTA
Found at i:27426706 original size:7 final size:7
Alignment explanation
Indices: 27426694--27426719 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27426684 ATATTCTTGT
27426694 TATTATA
1 TATTATA
27426701 TATTATA
1 TATTATA
27426708 TATTATA
1 TATTATA
27426715 TATTA
1 TATTA
27426720 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:27438634 original size:119 final size:119
Alignment explanation
Indices: 27438475--27439190 Score: 1042
Period size: 119 Copynumber: 6.0 Consensus size: 119
27438465 TAGGCCGCAG
* * *
27438475 TATAGCAAATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTCTG
1 TATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
27438540 TTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
* *
27438594 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
27438659 TTTACAAGAAAAAAATTGAGGACATAGCAGATTTGACTCTCAGACATTCTC-AG
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
*
27438712 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * *
27438777 TTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTTAGACGTTCTCAGA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
** *
27438831 TATAGCAGATCTAAAC-TTCAGATGTTTATACTGAAATAGATCCAAGATGATTTAGTATTCTTGT
1 TATAGCAGATCT-AACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * *
27438895 GTTTACAAGAAACAAATCGAGGACTTAGCAAATTTGACTCTCAGACGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
*
27438950 TATAGTAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
1 TATAGCAGATCT-AACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * *
27439014 GTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA-A-A
* * * * * * **
27439071 CATGGCAAATCTAACCTTCAGATGTTTATAATGAAGCCAGATCCAATATGATTTGACATTCTTGT
1 TATAGCAGATCTAACTTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
* * *
27439136 GTTTACAAGAAACAAATCGAGGACATAGTAGATTTGACTATCAGATGTTCTCAAA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
27439191 CAGACTCCAA
Statistics
Matches: 544, Mismatches: 47, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
118 111 0.20
119 324 0.60
120 6 0.01
121 29 0.05
122 74 0.14
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (119 bp):
TATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
Found at i:27438891 original size:237 final size:236
Alignment explanation
Indices: 27438472--27439180 Score: 1080
Period size: 237 Copynumber: 3.0 Consensus size: 236
27438462 TAATAGGCCG
*
27438472 CAGTATAGCAAATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTT
1 CAGTATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTT
* * * *
27438537 CTGTTTACAAGAAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAG
66 GTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAG
*
27438602 ATCT-AGCTTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAA
131 ATCTAAAC-TTCAGATGTTTATACTGAAACAGATCCAAGATGATTT-GTATTCTTGTGTTTACAA
* *
27438666 GAAAAAAATTGAGGACATAGCAGATTTGACTCTCAGACATTCT
194 GAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCT
27438709 CAGTATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTT
1 CAGTATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTT
* *
27438774 GTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTTAGACGTTCTCAGATATAGCAG
66 GTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAG
*
27438839 ATCTAAACTTCAGATGTTTATACTGAAATAGATCCAAGATGATTTAGTATTCTTGTGTTTACAAG
131 ATCTAAACTTCAGATGTTTATACTGAAACAGATCCAAGATGATTT-GTATTCTTGTGTTTACAAG
* * *
27438904 AAACAAATCGAGGACTTAGCAAATTTGACTCTCAGACGTTCT
195 AAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCT
* *
27438946 CAGATATAGTAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
1 CAG-TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
* * *
27439010 TTGTGTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATG
64 TTGTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAG--ATATA
* * * * * *
27439075 GCAAATCTAACCTTCAGATGTTTATAATGAAGCCAGATCCAATATGATTTGACATTCTTGTGTTT
127 GCAGATCTAAACTTCAGATGTTTATACTGAA-ACAGATCCAAGATGATTTG-TATTCTTGTGTTT
* *
27439140 ACAAGAAACAAATCGAGGACATAGTAGATTTGACTATCAGA
190 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
27439181 TGTTCTCAAA
Statistics
Matches: 432, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
237 222 0.51
238 112 0.26
239 2 0.00
240 32 0.07
241 64 0.15
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (236 bp):
CAGTATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTT
GTGTTTACAAGAAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGATATAGCAG
ATCTAAACTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGTATTCTTGTGTTTACAAGA
AACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCT
Found at i:27441028 original size:19 final size:19
Alignment explanation
Indices: 27441006--27441071 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
27440996 TTTTCTCAAA
*
27441006 ATTATTATTTTTTATATGT
1 ATTATTATTTTTTATATAT
27441025 ATTATTATATTTTT-TCATAT
1 ATTATTAT-TTTTTAT-ATAT
*
27441045 ATTATATATTTATTTATACAT
1 ATTAT-TATTT-TTTATATAT
27441066 ATTATT
1 ATTATT
27441072 TTTACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.22
20 16 0.40
21 14 0.35
22 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTTTTTATATAT
Found at i:27441070 original size:41 final size:37
Alignment explanation
Indices: 27440990--27441071 Score: 92
Period size: 41 Copynumber: 2.1 Consensus size: 37
27440980 ATAATTTATA
**
27440990 TATTAATTTTCTCAAAATTATTATTTTTTATATGTAT
1 TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
* *
27441027 TATTATATTTTTTCATATATTATATATTTATTTATACATAT
1 TATTA-ATTTTCTCA-AAATTAT-TATTT-TTTATACATAT
27441068 TATT
1 TATT
27441072 TTTACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 8 0.22
39 6 0.16
40 5 0.14
41 13 0.35
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (37 bp):
TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
Found at i:27441195 original size:18 final size:18
Alignment explanation
Indices: 27441146--27441192 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
27441136 ATACAATATT
27441146 TATTATGTATTATTTTTA
1 TATTATGTATTATTTTTA
27441164 TATTACT-TATTATTTTTA
1 TATTA-TGTATTATTTTTA
27441182 TATATATGTAT
1 TAT-TATGTAT
27441193 ATTACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TATTATGTATTATTTTTA
Found at i:27441262 original size:21 final size:21
Alignment explanation
Indices: 27441228--27441267 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27441218 TATGTTTATA
*
27441228 TTGTATATATATTAGTTAAAAT
1 TTGTAAATATATTA-TTAAAAT
27441250 TTGTAAAT-TATTATTAAA
1 TTGTAAATATATTATTAAA
27441268 TTACATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TTGTAAATATATTATTAAAAT
Found at i:27446126 original size:93 final size:93
Alignment explanation
Indices: 27445967--27446137 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27445957 GGATGGTTGA
* * *
27445967 GCATCCAAACTCGTTGAGTTGTGTCCGAGTTCACCTATGGATGCGAATGTCCGTACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGTACTCGTTGAGT
*
27446032 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
27446060 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGTA-CTCGTTGAG
27446124 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
27446138 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGTACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27446140 original size:46 final size:45
Alignment explanation
Indices: 27445975--27446142 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 45
27445965 GAGCATCCAA
* * * *
27445975 ACTCGTTGAGTTGTGTCCGAGTTCACCTATGGATGCGAATGTCCG
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* * * *
27446020 TACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 -ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCG
27446067 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 -ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
27446113 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 A-CTCGTTGAGTTGAGTCCGAGTTCACTTA
27446143 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 53 0.54
47 26 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (45 bp):
ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
Found at i:27447778 original size:17 final size:17
Alignment explanation
Indices: 27447758--27447805 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
27447748 CTTTGAGTAT
27447758 TCTCTCTTTGTAAACAC
1 TCTCTCTTTGTAAACAC
27447775 TCTCTCTTTGTAAACAC
1 TCTCTCTTTGTAAACAC
27447792 TCTCTCTTTGTAAA
1 TCTCTCTTTGTAAA
27447806 AACCTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.44
Consensus pattern (17 bp):
TCTCTCTTTGTAAACAC
Found at i:27450173 original size:16 final size:16
Alignment explanation
Indices: 27450140--27450172 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27450130 TATACAAATC
*
27450140 AAGGAATTATTAGAAA
1 AAGGAATTAATAGAAA
27450156 AAGG-ATTAATAGAAA
1 AAGGAATTAATAGAAA
27450171 AA
1 AA
27450173 ACTAATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGAATTAATAGAAA
Found at i:27461901 original size:17 final size:17
Alignment explanation
Indices: 27461836--27461911 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
27461826 TTATAACCAA
*
27461836 AATATATAATAATATAT
1 AATATATAATAAAATAT
* *
27461853 ACCATATGATAAATAATATAAA
1 A--ATAT-AT-AATAAAAT-AT
*
27461875 AATATATAATAAAATGT
1 AATATATAATAAAATAT
*
27461892 AATATGTAATAAAATAT
1 AATATATAATAAAATAT
27461909 AAT
1 AAT
27461912 GAAATATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
17 19 0.40
18 7 0.15
19 6 0.12
20 6 0.12
21 8 0.17
22 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:27461918 original size:39 final size:38
Alignment explanation
Indices: 27461834--27461910 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
27461824 ACTTATAACC
* *
27461834 AAAATATATAATAATATATACCATATGATAAATAATATA
1 AAAATATATAATAAAATATA-CATATGATAAAAAATATA
*
27461873 AAAATATATAATAAAATGTA-ATATG-TAATAAAATATA
1 AAAATATATAATAAAATATACATATGATAA-AAAATATA
27461910 A
1 A
27461911 TGAAATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.09
37 13 0.38
39 18 0.53
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (38 bp):
AAAATATATAATAAAATATACATATGATAAAAAATATA
Found at i:27462054 original size:27 final size:25
Alignment explanation
Indices: 27461995--27462054 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
27461985 TATACAATCA
27461995 ATGAGTAATAATACATAATAAAAAAT
1 ATGA-TAATAATACATAATAAAAAAT
* * *
27462021 ATAATAATATTATATATATAATAAAAT
1 ATGATAATAATACATA-ATAA-AAAAT
27462048 ATGATAA
1 ATGATAA
27462055 CATGTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 10 0.36
26 7 0.25
27 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
ATGATAATAATACATAATAAAAAAT
Found at i:27462067 original size:27 final size:27
Alignment explanation
Indices: 27462012--27462101 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
27462002 ATAATACATA
*
27462012 ATAA-AAAATATAATAATATTATATAT
1 ATAATAAAATATAATAACATTATATAT
* *
27462038 ATAATAAAATATGATAACATGTA-ATTT
1 ATAATAAAATATAATAACAT-TATATAT
* *
27462065 ATAAATAAATAATAATAATAAAATAATATAAT
1 AT-AAT-AA-AAT-ATAATAACATTATAT-AT
27462097 ATAAT
1 ATAAT
27462102 GAATGTTACA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
26 4 0.08
27 18 0.37
28 5 0.10
29 2 0.04
30 4 0.08
31 13 0.27
32 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (27 bp):
ATAATAAAATATAATAACATTATATAT
Found at i:27466926 original size:137 final size:137
Alignment explanation
Indices: 27466640--27466926 Score: 522
Period size: 137 Copynumber: 2.1 Consensus size: 137
27466630 GAGTAGTCTC
27466640 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
27466705 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27466770 CTTGTTA
131 CTTGTTA
*
27466777 CCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
27466842 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27466907 AC-TGTTA
131 -CTTGTTA
**
27466914 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27466927 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
137 143 0.99
138 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
CTTGTTA
Found at i:27472766 original size:33 final size:33
Alignment explanation
Indices: 27472724--27472790 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
27472714 GACCTATAGA
27472724 GATTGGCATGAGAAGTTACCGTTTGCACTCCTG
1 GATTGGCATGAGAAGTTACCGTTTGCACTCCTG
*
27472757 GATTGGCATGAGAAGTTACTGTTTGCACTCCTG
1 GATTGGCATGAGAAGTTACCGTTTGCACTCCTG
27472790 G
1 G
27472791 CTTATCGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (33 bp):
GATTGGCATGAGAAGTTACCGTTTGCACTCCTG
Found at i:27474569 original size:207 final size:207
Alignment explanation
Indices: 27474208--27475175 Score: 1584
Period size: 207 Copynumber: 4.7 Consensus size: 207
27474198 GATCTGGCTA
* * *
27474208 AAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTTCAAGGAAC-AAATCAAAGACATAGCTGA
1 AAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGA
*
27474272 TTTGGCTTTCACGTGCTTAGGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
65 TTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
* *
27474337 AACAAATCGAAGTTTGGCATCTCCATATTCAACGGAGAGCAGACACATAGCAGATCCAGCCTTCA
130 AACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAGCCTTCA
*
27474402 TATGTTTATAGTG
195 TATGTTTATATTG
* *
27474415 AAGCAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTAAT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGAT
27474480 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * *
27474545 ACAAATTGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCAT
131 ACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAGCCTTCAT
27474610 ATGTTTATATTG
196 ATGTTTATATTG
27474622 AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGAT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGAT
27474687 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * *
27474752 ACAAATCAAAGTTTGGCGCCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCAT
131 ACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAGCCTTCAT
27474817 ATGTTTATATTG
196 ATGTTTATATTG
* *
27474829 AAGCAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGTAGACATAGCTGAT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGAT
27474894 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * * * * *
27474959 ACAAATTGAAGTTTGCCGTCTTCATATTCGAA-AGAGGGCAGACACATAGCAGATCTAACCTTTA
131 ACAAATCGAAGTTTGGCGTCTCCATATTC-AACGGAGAGCAGACACATAGCAGATCTAGCCTTCA
* * * *
27475023 GATGATTAGACTG
195 TATGTTTATATTG
* *
27475036 AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAAC-AAATCGAA-ATCATAGCTCA
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGA-CATAGCTGA
* *
27475099 TTTAGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
65 TTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
27475164 AACAAATCGAAG
130 AACAAATCGAAG
27475176 AAGCAGATTT
Statistics
Matches: 717, Mismatches: 41, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
205 1 0.00
206 126 0.18
207 589 0.82
208 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (207 bp):
AAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAATCGAAGACATAGCTGAT
TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAGCCTTCAT
ATGTTTATATTG
Found at i:27475486 original size:20 final size:20
Alignment explanation
Indices: 27475461--27475498 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27475451 ACACAGGCCC
* *
27475461 AAAAAACTTTCAAACCCAAA
1 AAAAAAATTTAAAACCCAAA
27475481 AAAAAAATTTAAAACCCA
1 AAAAAAATTTAAAACCCA
27475499 GCAGCCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.21, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAATTTAAAACCCAAA
Found at i:27476737 original size:28 final size:28
Alignment explanation
Indices: 27476706--27476761 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
27476696 TTTCTAATTA
* *
27476706 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATCCTTTATATATTTT
* * *
27476734 AATTTACTTTAAATGCTTTATATATTTT
1 AATTCAATTTAAATCCTTTATATATTTT
27476762 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATCCTTTATATATTTT
Found at i:27476808 original size:17 final size:17
Alignment explanation
Indices: 27476788--27476821 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27476778 TATATTACTA
27476788 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
27476805 TTATTATCATATATTTT
1 TTATTATCATATATTTT
27476822 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:27481338 original size:18 final size:17
Alignment explanation
Indices: 27481292--27481340 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
27481282 AATCCAATCC
*
27481292 AAATAATTAATTTAATT
1 AAATAAATAATTTAATT
*
27481309 ATA-AAATCAATTTATATT
1 AAATAAAT-AATTTA-ATT
27481327 AAATAAATAATTTA
1 AAATAAATAATTTA
27481341 GTAAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 11 0.42
19 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAATAATTTAATT
Found at i:27483868 original size:32 final size:33
Alignment explanation
Indices: 27483831--27483906 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
27483821 TAGTCCAACG
27483831 ATGGTCTTACACATGCATTGCCATGG-CCTACC
1 ATGGTCTTACACATGCATTGCCATGGCCCTACC
* *
27483863 ATGGTCTCACACATGCATTGCCATGGCCCTGCC
1 ATGGTCTTACACATGCATTGCCATGGCCCTACC
27483896 ATGGTCTTACA
1 ATGGTCTTACA
27483907 TTCATAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.28
Consensus pattern (33 bp):
ATGGTCTTACACATGCATTGCCATGGCCCTACC
Found at i:27484004 original size:105 final size:101
Alignment explanation
Indices: 27483894--27484110 Score: 285
Period size: 105 Copynumber: 2.1 Consensus size: 101
27483884 CATGGCCCTG
* **
27483894 CCATGGTCTTACATTCATA-GTTTCATAACCCAGTTATGGTCTTATCATT-TGATTGTCATAGCC
1 CCATGGTCTTACATTCA-AGGTGTCATAACCCAGTTATGGTCTTATCATTAAAATT-TCATAGCC
* * *
27483957 CAACTATGGTCTTACACATGTATATATACTGCCATGGTCTAA
64 CAACTATGGTCTT--ACAT-T-TAAACACTGCCATGGTCCAA
* *
27483999 CCATGGTCTTACGTTCAAGGTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTTCATAGCCCA
1 CCATGGTCTTACATTCAAGGTGTCATAACCCAGTTATGGTCTTATCATTAAAATTTCATAGCCCA
*
27484064 GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
66 ACTATGGTCTTACATTTAAACACTGCCATGGTCCAA
27484100 CCATGGTCTTA
1 CCATGGTCTTA
27484111 TCCATCAATT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
101 28 0.28
102 1 0.01
103 4 0.04
104 1 0.01
105 64 0.63
106 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (101 bp):
CCATGGTCTTACATTCAAGGTGTCATAACCCAGTTATGGTCTTATCATTAAAATTTCATAGCCCA
ACTATGGTCTTACATTTAAACACTGCCATGGTCCAA
Found at i:27485432 original size:97 final size:97
Alignment explanation
Indices: 27485310--27485586 Score: 518
Period size: 97 Copynumber: 2.9 Consensus size: 97
27485300 ACAAAAAAAA
* * *
27485310 TTGATGAAGAATTTTCTAAAATTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
1 TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
27485375 ATTTTTATTTTTAAATTATATCATACCTAAAT
66 ATTTTTATTTTTAAATTATATCATACCTAAAT
27485407 TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
1 TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
27485472 ATTTTTATTTTTAAATTATATCATACCTAAAT
66 ATTTTTATTTTTAAATTATATCATACCTAAAT
*
27485504 TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTACTTTCACTAATTTACC
1 TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
27485569 ATTTTTATTTTTAAATTA
66 ATTTTTATTTTTAAATTA
27485587 AAAGTCTCAA
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 176 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (97 bp):
TTGATGAAGACTTGTCTAAATTTCAATTTGGTCACTTGTTTTATTTTTAATTTCACTAATTTACC
ATTTTTATTTTTAAATTATATCATACCTAAAT
Found at i:27492404 original size:26 final size:26
Alignment explanation
Indices: 27492375--27492482 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27492365 TGGTACAAAT
27492375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27492401 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27492427 TGATAATGGGTAAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27492453 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27492479 TGAT
1 TGAT
27492483 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27493990 original size:26 final size:26
Alignment explanation
Indices: 27493926--27494001 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
27493916 AAAAGCAACT
* * *
27493926 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-GTGAA
* *
27493954 AAATTATTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGAA
27493980 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
27494002 GTTAATTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.57
27 1 0.02
28 17 0.40
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGAA
Found at i:27494145 original size:27 final size:26
Alignment explanation
Indices: 27494105--27494299 Score: 255
Period size: 27 Copynumber: 7.2 Consensus size: 26
27494095 AGGAAGCGTC
* *
27494105 CTGGTGGCTATGCCCCAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
27494132 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
27494159 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
27494186 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
27494213 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
27494240 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
27494267 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
27494294 CTGGTG
1 CTGGTG
27494300 ACTTCGTCAC
Statistics
Matches: 149, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.08
27 133 0.89
28 4 0.03
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:27494187 original size:54 final size:54
Alignment explanation
Indices: 27494105--27494299 Score: 338
Period size: 54 Copynumber: 3.6 Consensus size: 54
27494095 AGGAAGCGTC
* *
27494105 CTGGTGGCTATGCCCCAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
27494159 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
27494213 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
27494267 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
27494300 ACTTCGTCAC
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
53 7 0.05
54 129 0.95
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:27499083 original size:38 final size:38
Alignment explanation
Indices: 27499038--27499138 Score: 121
Period size: 38 Copynumber: 2.7 Consensus size: 38
27499028 ACTTTAAACT
* * *
27499038 CAGATATAATACCAGCACTAGGCCTGCGGGATTTGACC
1 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
* *
27499076 CAGATATATTACTAGCACGAAGCCTGCGGGATTTAACC
1 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
* * * *
27499114 CGGATATAATTCCAACACGTAGCCT
1 CAGATATAATACCAGCACGAAGCCT
27499139 ACGGACCTCA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (38 bp):
CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
Found at i:27499176 original size:39 final size:38
Alignment explanation
Indices: 27499133--27499241 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 38
27499123 TTCCAACACG
* * * *
27499133 TAGCCTACGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATAT-TTTCCAGCATA
* *
27499172 TAGCCTGCGGGTTTCATGTCCGGATATTTTTCCAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATA-TTTTCCAGCATA
*
27499211 TAGCCTGCGGATCTCATGTCCAGATATTTTC
1 TAGCCTGCGGATCTCATGTCCGGATATTTTC
27499242 AATCTCATAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
38 5 0.08
39 54 0.90
40 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (38 bp):
TAGCCTGCGGATCTCATGTCCGGATATTTTCCAGCATA
Found at i:27500360 original size:27 final size:26
Alignment explanation
Indices: 27500325--27500432 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
27500315 ATCATGGATG
* *
27500325 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
27500351 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
27500379 CCAGAACAGAAATATGTGGGAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
27500406 CCAGATCAGATGATTGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
27500433 TCAGGACGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 46 0.67
28 18 0.26
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27501882 original size:24 final size:24
Alignment explanation
Indices: 27501855--27501923 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
27501845 AGATTTCCTA
**
27501855 CCTTATCTGCTCCTAAATCCTATC
1 CCTTATCAACTCCTAAATCCTATC
27501879 CCTTATCAACTCCTAAATCCTATC
1 CCTTATCAACTCCTAAATCCTATC
27501903 CCTTATCAACTCCTAAATCCT
1 CCTTATCAACTCCTAAATCCT
27501924 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
CCTTATCAACTCCTAAATCCTATC
Found at i:27505797 original size:6 final size:6
Alignment explanation
Indices: 27505788--27505812 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27505778 TCGACCTCGA
27505788 CCATTT CCATTT CCATTT CCATTT C
1 CCATTT CCATTT CCATTT CCATTT C
27505813 TGCCCCTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CCATTT
Found at i:27508242 original size:28 final size:27
Alignment explanation
Indices: 27508187--27508271 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
27508177 AGCATGGATG
* *
27508187 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
27508213 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
27508241 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
27508268 CCAG
1 CCAG
27508272 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:27508416 original size:25 final size:24
Alignment explanation
Indices: 27508368--27508427 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
27508358 TTTCAGACAA
*
27508368 AATTAACCCTAGGGGCATATTGGT
1 AATTTACCCTAGGGGCATATTGGT
* *
27508392 CATTTACACCTAGGGGTATCA-TGGT
1 AATTTAC-CCTAGGGGCAT-ATTGGT
27508417 AATTTACCCTA
1 AATTTACCCTA
27508428 CATAAGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 9 0.30
25 20 0.67
26 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
AATTTACCCTAGGGGCATATTGGT
Found at i:27509717 original size:24 final size:24
Alignment explanation
Indices: 27509690--27509760 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
27509680 CTAGATTTCC
*
27509690 TCCCTTATCTACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
27509714 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
27509738 TCCATTATCAACTCATAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
27509761 CTCCTAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:27513545 original size:24 final size:24
Alignment explanation
Indices: 27513513--27513562 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
27513503 ACGAATTGCT
27513513 TATCTTAATCATTTAACAAATACA
1 TATCTTAATCATTTAACAAATACA
27513537 TATCTTAATCATTTAACAAATACA
1 TATCTTAATCATTTAACAAATACA
27513561 TA
1 TA
27513563 AATTAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (24 bp):
TATCTTAATCATTTAACAAATACA
Found at i:27513568 original size:24 final size:24
Alignment explanation
Indices: 27513517--27513569 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
27513507 ATTGCTTATC
**
27513517 TTAATCATTTAACAAATACATATC
1 TTAATCATTTAACAAATACATAAA
27513541 TTAATCATTTAACAAATACATAAA
1 TTAATCATTTAACAAATACATAAA
27513565 TTAAT
1 TTAAT
27513570 ATGAAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAATCATTTAACAAATACATAAA
Found at i:27513717 original size:31 final size:31
Alignment explanation
Indices: 27513682--27513743 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27513672 AACTTAAAAT
27513682 ACAACATGAATTCATATTCTAATTTATCACC
1 ACAACATGAATTCATATTCTAATTTATCACC
27513713 ACAACATGAATTCATATTCTAATTTATCACC
1 ACAACATGAATTCATATTCTAATTTATCACC
27513744 TTACTCCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (31 bp):
ACAACATGAATTCATATTCTAATTTATCACC
Found at i:27522149 original size:46 final size:46
Alignment explanation
Indices: 27522082--27522946 Score: 1687
Period size: 46 Copynumber: 18.8 Consensus size: 46
27522072 TGTAACCCGC
* * *
27522082 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
27522128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522404 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522588 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522634 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522680 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522726 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522772 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522818 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
27522910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27522947 TGCTCAACCA
Statistics
Matches: 815, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
45 2 0.00
46 813 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27528862 original size:3 final size:3
Alignment explanation
Indices: 27528854--27528891 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27528844 GGTTTTAAAA
27528854 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
27528892 AGAGAAAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27528897 original size:9 final size:10
Alignment explanation
Indices: 27528853--27528919 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 10
27528843 GGGTTTTAAA
27528853 AAAGAAGAAG
1 AAAGAAGAAG
27528863 -AAGAAGAAG
1 AAAGAAGAAG
27528872 -AAGAAGAAG
1 AAAGAAGAAG
27528881 -AAGAAGAAG
1 AAAGAAGAAG
27528890 AAAG-AGAAAGG
1 AAAGAAG-AA-G
27528901 AAGAGAAGAGAG
1 AA-AGAAGA-AG
27528913 AAAGAAG
1 AAAGAAG
27528920 CCAAGTAGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
9 29 0.57
10 5 0.10
11 8 0.16
12 6 0.12
13 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:27528938 original size:19 final size:17
Alignment explanation
Indices: 27528892--27528938 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
27528882 AGAAGAAGAA
*
27528892 AGAGAAAGGAAGAGAAG
1 AGAGAAAGGAAGACAAG
*
27528909 AGAGAAA-GAAGCCAAG
1 AGAGAAAGGAAGACAAG
27528925 TAGAGAAAGTGAAG
1 -AGAGAAAG-GAAG
27528939 GAGTAAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
19 4 0.16
ACGTcount: A:0.55, C:0.04, G:0.36, T:0.04
Consensus pattern (17 bp):
AGAGAAAGGAAGACAAG
Found at i:27533757 original size:14 final size:14
Alignment explanation
Indices: 27533725--27533759 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
27533715 ATATTTATAT
27533725 TAATTTTTAATAAA
1 TAATTTTTAATAAA
*
27533739 T-ATTTTTATTAAA
1 TAATTTTTAATAAA
27533752 TAATTTTT
1 TAATTTTT
27533760 GTATTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTTTTAATAAA
Found at i:27535341 original size:51 final size:51
Alignment explanation
Indices: 27535265--27535367 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
27535255 CAATTTAGTG
*
27535265 ATTGTTGGAGCCATCAATATCAATACCAAGGGAATTTTATCAATGCTAAAT
1 ATTGTTGGAGCCATCAATATCAATACCAAGGGAATGTTATCAATGCTAAAT
27535316 ATTGTTGGAGCCATCAATATCAATACCAAGGGAATGTTATCAATGCTAAAT
1 ATTGTTGGAGCCATCAATATCAATACCAAGGGAATGTTATCAATGCTAAAT
27535367 A
1 A
27535368 AAAGGTAACA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (51 bp):
ATTGTTGGAGCCATCAATATCAATACCAAGGGAATGTTATCAATGCTAAAT
Found at i:27535608 original size:134 final size:132
Alignment explanation
Indices: 27535367--27535609 Score: 310
Period size: 134 Copynumber: 1.8 Consensus size: 132
27535357 AATGCTAAAT
* * *
27535367 AAAAGGTAACAATACCGTATCGATACTTGATAAAACTTTGAAATTCAAAATGCCAATTTCGTATC
1 AAAAGGTAACAATACCGTACCAATACTTGATAAAACTTTGAAAATCAAAATGCCAATTTCGTATC
* * *
27535432 GATACCGAAAAAGGTATCGATAAAAGTGTACCACTATTGATACTTGAAAAATTTTATTGATACCA
66 GATACCAAAAAAGGTATCAATAAAAGTGTA-CACTATCGATACTTGAAAAATTTTATTGATACCA
27535497 AGC
130 AGC
* * * * *
27535500 AAAAGGTATCGATACCGTACCAATACTTGATAAATACTTTGAAAAAT-AGAATGCCATTTTGGTA
1 AAAAGGTAACAATACCGTACCAATACTTGATAAA-ACTTTG-AAAATCAAAATGCCAATTTCGTA
* *
27535564 TCGATACTAAAAAAGGTATCAATAAAATTGTGA-ATCTATCGATACT
64 TCGATACCAAAAAAGGTATCAATAAAAGTGT-ACA-CTATCGATACT
27535610 CAACTAAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
133 31 0.33
134 57 0.61
135 5 0.05
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (132 bp):
AAAAGGTAACAATACCGTACCAATACTTGATAAAACTTTGAAAATCAAAATGCCAATTTCGTATC
GATACCAAAAAAGGTATCAATAAAAGTGTACACTATCGATACTTGAAAAATTTTATTGATACCAA
GC
Found at i:27535989 original size:19 final size:19
Alignment explanation
Indices: 27535965--27536022 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
27535955 ATGCTTAGAA
27535965 AAATTTGTCATTCATTTTC
1 AAATTTGTCATTCATTTTC
*
27535984 AAATTTGGCATTCATTTTC
1 AAATTTGTCATTCATTTTC
*
27536003 AAATTGGTCATTCATTTTC
1 AAATTTGTCATTCATTTTC
27536022 A
1 A
27536023 GTTAAAGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.48
Consensus pattern (19 bp):
AAATTTGTCATTCATTTTC
Found at i:27538496 original size:68 final size:69
Alignment explanation
Indices: 27538407--27538534 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 69
27538397 TATTTAATAT
* * * *
27538407 TAAATTTAATTTGATACTTATCATGAT-AGTATTTTATTAATTTAATTTTAAAGTGATTATCTTA
1 TAAATTTAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAGTGATTATCTTA
27538471 GTGC
66 GTGC
* *
27538475 TAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATTA
1 TAAATTTAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAGTGATTA
27538535 AGTTTAATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
68 23 0.43
69 30 0.57
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.49
Consensus pattern (69 bp):
TAAATTTAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAGTGATTATCTTA
GTGC
Found at i:27540766 original size:25 final size:25
Alignment explanation
Indices: 27540738--27540790 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
27540728 AGAACTAAAA
*
27540738 TAAGAAAT-GCACATTAACATTCTAT
1 TAAGAAATAGCA-ATCAACATTCTAT
27540763 TAAGAAATACGCAATCAACATTCTAT
1 TAAGAAATA-GCAATCAACATTCTAT
27540789 TA
1 TA
27540791 CTATTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 8 0.32
26 14 0.56
27 3 0.12
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (25 bp):
TAAGAAATAGCAATCAACATTCTAT
Found at i:27541425 original size:13 final size:13
Alignment explanation
Indices: 27541407--27541431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27541397 TAAATAAGGT
27541407 TATTTTAATTTTC
1 TATTTTAATTTTC
27541420 TATTTTAATTTT
1 TATTTTAATTTT
27541432 TATCTTTTTT
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTAATTTTC
Found at i:27549103 original size:28 final size:29
Alignment explanation
Indices: 27549048--27549104 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
27549038 GGCACAGGAC
* *
27549048 TAAAATTGACTAATTTGAAAAGTATAATAT
1 TAAAATTGACCAAATT-AAAAGTATAATAT
27549078 TAAAATTGACCAAATT-AAAGTATAATA
1 TAAAATTGACCAAATTAAAAGTATAATA
27549105 ACTAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
30 14 0.56
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (29 bp):
TAAAATTGACCAAATTAAAAGTATAATAT
Found at i:27549111 original size:28 final size:27
Alignment explanation
Indices: 27549066--27549121 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
27549056 ACTAATTTGA
* *
27549066 AAAGTATAATATTAAAATTGACCAAATT
1 AAAGTATAATACTAAAATTCA-CAAATT
27549094 AAAGTATAATAACT-AAATTCACAAATT
1 AAAGTATAAT-ACTAAAATTCACAAATT
27549121 A
1 A
27549122 CATAGAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 16 0.64
29 2 0.08
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAGTATAATACTAAAATTCACAAATT
Found at i:27561551 original size:8 final size:8
Alignment explanation
Indices: 27561538--27561562 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27561528 TAATTTTTCT
27561538 CCCACTAA
1 CCCACTAA
27561546 CCCACTAA
1 CCCACTAA
27561554 CCCACTAA
1 CCCACTAA
27561562 C
1 C
27561563 TCACAACCAT
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:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (8 bp):
CCCACTAA
Found at i:27564397 original size:42 final size:43
Alignment explanation
Indices: 27564336--27564435 Score: 157
Period size: 42 Copynumber: 2.3 Consensus size: 43
27564326 CGCAAAAAAT
27564336 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTGCCCACAAAC
1 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTGCCCACAAAC
* * * *
27564379 -TCGCTAAAGGTCTTGACCTTTAGTGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTGCCCACAAAC
27564421 GCCGCTAAAGGTCAT
1 GCCGCTAAAGGTCAT
27564436 CGCTAAAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 38 0.76
43 12 0.24
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTGCCCACAAAC
Found at i:27564441 original size:13 final size:13
Alignment explanation
Indices: 27564423--27564448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27564413 CCACAAACGC
27564423 CGCTAAAGGTCAT
1 CGCTAAAGGTCAT
27564436 CGCTAAAGGTCAT
1 CGCTAAAGGTCAT
27564449 GACCTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CGCTAAAGGTCAT
Found at i:27564465 original size:56 final size:56
Alignment explanation
Indices: 27564379--27564491 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
27564369 GCCCACAAAC
* *
27564379 TCGCTAAAGGTCTTGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGGTCA
1 TCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCA
*
27564435 TCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGTTCA
1 TCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCA
27564491 T
1 T
27564492 GAAATTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (56 bp):
TCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCA
Found at i:27569876 original size:14 final size:14
Alignment explanation
Indices: 27569857--27569885 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27569847 TCATAAGTAA
27569857 ACACACACACACAG
1 ACACACACACACAG
27569871 ACACACACACACAG
1 ACACACACACACAG
27569885 A
1 A
27569886 AATACCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.41, G:0.07, T:0.00
Consensus pattern (14 bp):
ACACACACACACAG
Found at i:27570504 original size:16 final size:16
Alignment explanation
Indices: 27570473--27570503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27570463 TTAAATATTA
27570473 AATTTTTAAGTTTTTT
1 AATTTTTAAGTTTTTT
27570489 AATTTTTAA-TTTTTT
1 AATTTTTAAGTTTTTT
27570504 TTGAAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AATTTTTAAGTTTTTT
Found at i:27570883 original size:37 final size:37
Alignment explanation
Indices: 27570830--27570930 Score: 157
Period size: 37 Copynumber: 2.7 Consensus size: 37
27570820 CTATGCAGCA
* *
27570830 GATGCACAGGGCGAAGGCGATAGAGGAGATGGGTTGT
1 GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
* *
27570867 GATGCACTGGGTGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
*
27570904 GATGCACGGGGCGAAGGCGATGGAGGA
1 GATGCACAGGGCGAAGGCGATGGAGGA
27570931 AAACGTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.12, G:0.49, T:0.15
Consensus pattern (37 bp):
GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
Found at i:27571397 original size:18 final size:16
Alignment explanation
Indices: 27571374--27571415 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
27571364 TTTCTCTTAA
27571374 ATAATTTAAACTATATT
1 ATAATTTAAA-TATATT
*
27571391 CATAATTTTAATATATT
1 -ATAATTTAAATATATT
27571408 A-AATTTAA
1 ATAATTTAA
27571416 TATTATCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATTTAAATATATT
Found at i:27571509 original size:21 final size:21
Alignment explanation
Indices: 27571483--27571547 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
27571473 AATTAATCTA
*
27571483 AACCCTAAAACCCTAACCCCT
1 AACCCTAAAACCCTAAACCCT
* *
27571504 AACCCTTAACCCCTAAACCCT
1 AACCCTAAAACCCTAAACCCT
* *
27571525 AAGCCATAAAA-CATAAACCCT
1 AA-CCCTAAAACCCTAAACCCT
27571546 AA
1 AA
27571548 ACTTCTACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.43, C:0.40, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCTAAAACCCTAAACCCT
Found at i:27571513 original size:14 final size:15
Alignment explanation
Indices: 27571485--27571524 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
27571475 TTAATCTAAA
27571485 CCCTAAAACCC-TAAC
1 CCCT-AAACCCTTAAC
27571500 CCCT-AACCCTTAAC
1 CCCTAAACCCTTAAC
27571514 CCCTAAACCCT
1 CCCTAAACCCT
27571525 AAGCCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (15 bp):
CCCTAAACCCTTAAC
Found at i:27571534 original size:14 final size:14
Alignment explanation
Indices: 27571480--27571572 Score: 64
Period size: 14 Copynumber: 6.5 Consensus size: 14
27571470 ACTAATTAAT
*
27571480 CTAAACCCTAAAACC
1 CTAACCCCT-AAACC
27571495 CTAACCCCT-AACC
1 CTAACCCCTAAACC
27571508 CTTAACCCCTAAACC
1 C-TAACCCCTAAACC
* * *
27571523 CTAAGCCATAAAAC
1 CTAACCCCTAAACC
* * *
27571537 ATAAACCCTAAACTT
1 CTAACCCCTAAAC-C
*
27571552 CT-ACCCCTTAACC
1 CTAACCCCTAAACC
27571565 TCTAACCC
1 -CTAACCC
27571573 TTACCCTCGT
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.08
14 37 0.62
15 18 0.30
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.19
Consensus pattern (14 bp):
CTAACCCCTAAACC
Found at i:27571548 original size:7 final size:7
Alignment explanation
Indices: 27571480--27571549 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
27571470 ACTAATTAAT
27571480 CTAAACC
1 CTAAACC
27571487 CTAAAACC
1 CT-AAACC
*
27571495 CTAACCC
1 CTAAACC
27571502 CT-AACC
1 CTAAACC
*
27571508 CTTAACCC
1 C-TAAACC
27571516 CTAAACC
1 CTAAACC
*
27571523 CTAAGCC
1 CTAAACC
* *
27571530 ATAAAAC
1 CTAAACC
*
27571537 ATAAACC
1 CTAAACC
27571544 CTAAAC
1 CTAAAC
27571550 TTCTACCCCT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
6 4 0.08
7 35 0.70
8 11 0.22
ACGTcount: A:0.43, C:0.40, G:0.01, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:27571874 original size:15 final size:15
Alignment explanation
Indices: 27571851--27571901 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
27571841 CTACCCATGG
*
27571851 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
27571866 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
27571881 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
27571895 CCTTAAA
1 CCATAAA
27571902 TATTAAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:27571918 original size:7 final size:7
Alignment explanation
Indices: 27571854--27571917 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
27571844 CCCATGGCCA
27571854 TTAAACC
1 TTAAACC
27571861 TTAAACC
1 TTAAACC
*
27571868 ATAAAACC
1 -TTAAACC
*
27571876 CTAAACC
1 TTAAACC
* *
27571883 ATAGACC
1 TTAAACC
27571890 TTAAACC
1 TTAAACC
**
27571897 TTAAATA
1 TTAAACC
27571904 TTAAACC
1 TTAAACC
*
27571911 CTAAACC
1 TTAAACC
27571918 CAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:27572120 original size:47 final size:47
Alignment explanation
Indices: 27572022--27572147 Score: 216
Period size: 48 Copynumber: 2.7 Consensus size: 47
27572012 CCATATGATG
*
27572022 TTTTTTGGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGTAT
1 TTTTTTAGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGTAT
27572069 TTTTTTAGGGTTTAGAGGTTTTAGGGGTTATAGATTAGTGTTTAGTAT
1 TTTTTTAGGGTTTAG-GGTTTTAGGGGTTATAGATTAGTGTTTAGTAT
* *
27572117 TTTTTTAGAGTTTAGGATTTTAGGGGTTATA
1 TTTTTTAGGGTTTAGGGTTTTAGGGGTTATA
27572148 TGACTTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
47 29 0.39
48 46 0.61
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (47 bp):
TTTTTTAGGGTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAGTAT
Found at i:27572129 original size:18 final size:18
Alignment explanation
Indices: 27572103--27572137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27572093 GGGTTATAGA
* *
27572103 TTAGTGTTTAGTATTTTT
1 TTAGAGTTTAGGATTTTT
27572121 TTAGAGTTTAGGATTTT
1 TTAGAGTTTAGGATTTT
27572138 AGGGGTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (18 bp):
TTAGAGTTTAGGATTTTT
Found at i:27572321 original size:80 final size:81
Alignment explanation
Indices: 27572172--27572342 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 81
27572162 CGTTTTGAGA
* * * ** * *
27572172 AAAAATGCCGCTATTGCTTTGTTTTTTAGCGGCGTTTGACCAAAAATGCCGCTATTGCTCCGTTT
1 AAAAACGCCGCTATTGC-TTCTTTTTTAGCGGCATTTGACCAAAAACACCACTATTGCTCCGTTG
27572237 TTTAGCAGCGTTTGACC
65 TTTAGCAGCGTTTGACC
* *
27572254 AAAAACGCCGCTATTGC-TCTTTTTTAGCGGCATTTTACCAAAAAACACCACTATTGCTCTG-TG
1 AAAAACGCCGCTATTGCTTCTTTTTTAGCGGCATTTGACC-AAAAACACCACTATTGCTCCGTTG
* *
27572317 TTTAGCGGCGTTTTACC
65 TTTAGCAGCGTTTGACC
27572334 AAAAACGCC
1 AAAAACGCC
27572343 ACTAATGTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 44 0.57
81 17 0.22
82 16 0.21
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (81 bp):
AAAAACGCCGCTATTGCTTCTTTTTTAGCGGCATTTGACCAAAAACACCACTATTGCTCCGTTGT
TTAGCAGCGTTTGACC
Found at i:27572346 original size:40 final size:41
Alignment explanation
Indices: 27572152--27572342 Score: 219
Period size: 41 Copynumber: 4.7 Consensus size: 41
27572142 GTTATATGAC
** * *
27572152 TTTTTT-GCGGCGTTTTGAGAAAAAATGCCGCTATTGCTTTG
1 TTTTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTG
* * *
27572193 TTTTTTAGCGGCGTTTGACCAAAAATGCCGCTATTGCTCCG
1 TTTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG
* *
27572234 TTTTTTAGCAGCGTTTGACCAAAAACGCCGCTATTGCTC--
1 TTTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG
* * *
27572273 TTTTTTAGCGGCATTTTACCAAAAAACACCACTATTGCTCTG
1 TTTTTTAGCGGCGTTTTACC-AAAAACGCCGCTATTGCTCTG
*
27572315 -TGTTTAGCGGCGTTTTACCAAAAACGCC
1 TTTTTTAGCGGCGTTTTACCAAAAACGCC
27572343 ACTAATGTAT
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
39 17 0.13
40 25 0.19
41 80 0.61
42 9 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (41 bp):
TTTTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG
Found at i:27574897 original size:85 final size:83
Alignment explanation
Indices: 27574740--27574993 Score: 319
Period size: 85 Copynumber: 3.0 Consensus size: 83
27574730 CAAACAAGTG
* * * * * *
27574740 GTGGCTCATCCATAAAACCCAATGGCAATTTGTTTAATGTGCAAATATGTTGTGCACTCACAATA
1 GTGGCTCGTCCA-CAAACCCAATGACAGTTTGTTTAAT-CGC-AATATGTTGTGCACTCACAACA
*
27574805 AGTGGTAGTAACTTCAAATAT
63 AGTGGTAGTAACTGCAAATAT
* *
27574826 GTGGCTCGTCCACAAACCTAGTGACAGTTTGTTTAATACGCGAATATGTTGTGCACTCACAACAA
1 GTGGCTCGTCCACAAACCCAATGACAGTTTGTTTAAT-CGC-AATATGTTGTGCACTCACAACAA
27574891 GTGGTAGTAACTGCAAATAT
64 GTGGTAGTAACTGCAAATAT
* * * *
27574911 GTGGCTCGTCCATAAACCCAATGGCAGTTTGTTTAATCTACAACCATGTTGTGCACTCACAACAA
1 GTGGCTCGTCCACAAACCCAATGACAGTTTGTTTAATC-GCAA-TATGTTGTGCACTCACAACAA
*
27574976 GTAGTAGTAACTGCAAAT
64 GTGGTAGTAACTGCAAAT
27574994 GTTTTTATCT
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
84 3 0.02
85 134 0.91
86 11 0.07
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (83 bp):
GTGGCTCGTCCACAAACCCAATGACAGTTTGTTTAATCGCAATATGTTGTGCACTCACAACAAGT
GGTAGTAACTGCAAATAT
Found at i:27580444 original size:31 final size:31
Alignment explanation
Indices: 27580384--27580444 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
27580374 TGATATTTTC
* * *
27580384 ATCTTGTTTCAACATCTTCCCAATCTATTGA
1 ATCTTGCTTCAACATCTTCACAATATATTGA
27580415 ATCTTGCTTCAACATCTTCTAC-ATATATTG
1 ATCTTGCTTCAACATCTTC-ACAATATATTG
27580445 TACAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.43
Consensus pattern (31 bp):
ATCTTGCTTCAACATCTTCACAATATATTGA
Found at i:27584375 original size:26 final size:26
Alignment explanation
Indices: 27584339--27584394 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
27584329 TGAAATTCCA
27584339 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27584365 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27584391 ATCA
1 ATCA
27584395 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27592114 original size:12 final size:12
Alignment explanation
Indices: 27592097--27592126 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27592087 TCTTACATGC
27592097 CCGTGTGCTAGG
1 CCGTGTGCTAGG
27592109 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
27592121 CTGTGT
1 CCGTGT
27592127 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:27595282 original size:25 final size:25
Alignment explanation
Indices: 27595243--27595315 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
27595233 CATGAGTTGT
*
27595243 GAATC-GTAAGCTCATATGAGCTGA
1 GAATCGGTAAGCTCATAAGAGCTGA
* *
27595267 GAATCGGTAAGCTCATAAAAGTTGA
1 GAATCGGTAAGCTCATAAGAGCTGA
*
27595292 AAATCGGTAAGCTCATAAGAGCTG
1 GAATCGGTAAGCTCATAAGAGCTG
27595316 TGTTGTGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 5 0.12
25 37 0.88
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (25 bp):
GAATCGGTAAGCTCATAAGAGCTGA
Found at i:27596373 original size:14 final size:15
Alignment explanation
Indices: 27596339--27596377 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
27596329 TGTATATTTT
27596339 TTTTATTAAATTGAA
1 TTTTATTAAATTGAA
* *
27596354 TGTTATTATA-TGAA
1 TTTTATTAAATTGAA
27596368 TTTTATTAAA
1 TTTTATTAAA
27596378 AGTGAATCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
TTTTATTAAATTGAA
Found at i:27596394 original size:30 final size:29
Alignment explanation
Indices: 27596339--27596398 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
27596329 TGTATATTTT
* *
27596339 TTTTATTAAATTGAATGTTATTATATGAA
1 TTTTATTAAAGTGAATGATATTATATGAA
27596368 TTTTATTAAAAGTGAATCGATATATATATGA
1 TTTTATT-AAAGTGAAT-GATAT-TATATGA
27596399 TATTATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 8 0.31
31 4 0.15
32 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (29 bp):
TTTTATTAAAGTGAATGATATTATATGAA
Found at i:27601501 original size:18 final size:19
Alignment explanation
Indices: 27601480--27601515 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27601470 TCTAGAATAT
27601480 TTTTA-GAAAATCTTAAAA
1 TTTTATGAAAATCTTAAAA
*
27601498 TTTTATGAAAATTTTAAA
1 TTTTATGAAAATCTTAAA
27601516 TAATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (19 bp):
TTTTATGAAAATCTTAAAA
Found at i:27604700 original size:13 final size:13
Alignment explanation
Indices: 27604682--27604707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27604672 GTTAACAAAA
27604682 AAAAATAATAAAG
1 AAAAATAATAAAG
27604695 AAAAATAATAAAG
1 AAAAATAATAAAG
27604708 GGAAAATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAATAATAAAG
Found at i:27606374 original size:31 final size:28
Alignment explanation
Indices: 27606276--27606406 Score: 156
Period size: 28 Copynumber: 4.5 Consensus size: 28
27606266 ACTTTTTTCT
27606276 AATTTGGTACCTAAACTTTTTTTGTCCC
1 AATTTGGTACCTAAACTTTTTTTGTCCC
* *
27606304 AATTTGGTACCTGAACTTTTTTTGGCCC
1 AATTTGGTACCTAAACTTTTTTTGTCCC
* *
27606332 AATTTGGTACCTGAACTTTACACTTTT-TCCT
1 AATTTGGTACCTAAACTTT----TTTTGTCCC
* *
27606363 AATTTGATACCTAAACTTTTTTTAGGCCC
1 AATTTGGTACCTAAACTTTTTTT-GTCCC
27606392 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
27606407 TTTATTAAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
27 4 0.05
28 45 0.51
29 16 0.18
31 19 0.22
32 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTTTTTTGTCCC
Found at i:27606401 original size:60 final size:56
Alignment explanation
Indices: 27606276--27606406 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 56
27606266 ACTTTTTTCT
* *
27606276 AATTTGGTACCTAAACTTTTTTTGTCCCAATTTGGTACCTGAACTTTTTTTGGCCC
1 AATTTGGTACCTAAACTTTTTTTGTCCCAATTTGATACCTAAACTTTTTTTGGCCC
* *
27606332 AATTTGGTACCTGAACTTTACACTTTT-TCCTAATTTGATACCTAAACTTTTTTTAGGCCC
1 AATTTGGTACCTAAACTTT----TTTTGTCCCAATTTGATACCTAAACTTTTTTT-GGCCC
27606392 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
27606407 TTTATTAAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
56 18 0.28
59 24 0.37
60 23 0.35
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (56 bp):
AATTTGGTACCTAAACTTTTTTTGTCCCAATTTGATACCTAAACTTTTTTTGGCCC
Found at i:27606819 original size:60 final size:58
Alignment explanation
Indices: 27606723--27606890 Score: 194
Period size: 60 Copynumber: 2.9 Consensus size: 58
27606713 AAATGTTTGA
* * * *
27606723 CAAGTACCAAATCGAACAAAAAAAAGATTAGGTACCAAATTAGGAAAAAGAGTCAAGTT
1 CAAGTACCAAATTGGACCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGA-TCAAGTT
** * * * *
27606782 CAAGTACCAAATTGGACCCCCAAAAAGTTTAAGTACCAACTTAAGAAAAACTATCAAGTT
1 CAAGTACCAAATTGGA-CCAAAAAAAGTTTAGGTACCAAATTAGGAAAAA-GATCAAGTT
* *
27606842 TAGGTACCAAATTGGACCAAAAAAAGTTTAGGTACC-AATTAGGAAAAAG
1 CAAGTACCAAATTGGACCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAG
27606891 TAACACCCCT
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
58 10 0.11
59 31 0.35
60 47 0.53
61 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (58 bp):
CAAGTACCAAATTGGACCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGATCAAGTT
Found at i:27612686 original size:16 final size:18
Alignment explanation
Indices: 27612665--27612705 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
27612655 TTTGTTCTCA
*
27612665 AAAAAATATT-TAAAAT-
1 AAAAAATATTACAAAATC
*
27612681 AAAAAAAATTACAAAATC
1 AAAAAATATTACAAAATC
27612699 AAAAAAT
1 AAAAAAT
27612706 TATCCACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAATATTACAAAATC
Found at i:27612702 original size:18 final size:18
Alignment explanation
Indices: 27612662--27612704 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27612652 CTTTTTGTTC
*
27612662 TCAAAAAAATATTTAAAA
1 TCAAAAAAATATTCAAAA
27612680 T-AAAAAAA-ATTACAAAA
1 TCAAAAAAATATT-CAAAA
27612697 TCAAAAAA
1 TCAAAAAA
27612705 TTATCCACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 12 0.55
18 7 0.32
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (18 bp):
TCAAAAAAATATTCAAAA
Found at i:27618221 original size:15 final size:15
Alignment explanation
Indices: 27618203--27618241 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
27618193 TCCAAGATAG
27618203 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
* *
27618218 AGAAACCTAGAGTAA
1 AGAAACCCAGAATAA
27618233 AGAAACCCA
1 AGAAACCCA
27618242 AGATTCAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:27621361 original size:50 final size:49
Alignment explanation
Indices: 27621251--27621376 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 49
27621241 CTGGTACGCT
* ** ** * *
27621251 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACG
* *
27621300 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACACGACC-AACCATCCGATACACG
27621350 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
27621377 GTGATCACAG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 29 0.43
50 38 0.57
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACG
Found at i:27623076 original size:15 final size:15
Alignment explanation
Indices: 27623058--27623096 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
27623048 TCCAAGATAG
27623058 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
* *
27623073 AGAAACCTAGAGTAA
1 AGAAACCCAGAATAA
27623088 AGAAACCCA
1 AGAAACCCA
27623097 AGATTCAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.08
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:27626160 original size:49 final size:49
Alignment explanation
Indices: 27626107--27626237 Score: 226
Period size: 49 Copynumber: 2.7 Consensus size: 49
27626097 CTGGTACGCA
* *
27626107 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
27626156 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
27626205 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
27626238 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:27631243 original size:22 final size:21
Alignment explanation
Indices: 27631203--27631243 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27631193 CTCTTAACAC
**
27631203 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACGCCCATGTGGG
27631224 AGGGGCAACACGCCCATGTG
1 AGGGGC-ACACGCCCATGTG
27631244 ACATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:27634183 original size:8 final size:8
Alignment explanation
Indices: 27634170--27634196 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
27634160 ACAGCCCACA
27634170 TTTCAGCT
1 TTTCAGCT
27634178 TTTCAGCT
1 TTTCAGCT
27634186 TTTCAGCT
1 TTTCAGCT
27634194 TTT
1 TTT
27634197 GCTGTTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTCAGCT
Found at i:27640487 original size:49 final size:49
Alignment explanation
Indices: 27640423--27640638 Score: 196
Period size: 49 Copynumber: 4.5 Consensus size: 49
27640413 ATCAAAGTCA
27640423 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCG
* * * * * * *
27640472 ATGCCGTGTCCCAGACAGGCCTTACACTGGCTCTCATATATTAG-TGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTTATATA-TAGAGGCCG
* * * * * * *
27640521 ATGTCATGTCCCAGATAGGTCTTACACTGAC----ACACA-AAAAGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCG
* * * *
27640565 ATGGCATGTCCCAGACAGGTCTTACACT-AGCTTGTATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTTATATATAGAGGCCG
27640614 ATG-CATGTCCCAGACAGGTCTTACA
1 ATGCCATGTCCCAGACAGGTCTTACA
27640639 TTAGCTCTCA
Statistics
Matches: 132, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.02
44 29 0.22
45 3 0.02
48 24 0.18
49 71 0.54
50 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCG
Found at i:27640627 original size:48 final size:47
Alignment explanation
Indices: 27640427--27640735 Score: 181
Period size: 48 Copynumber: 6.5 Consensus size: 47
27640417 AAGTCAATGC
* * *
27640427 CATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTG-CTTGTATATCTCGAGGCCGATG
* * * *
27640475 CCGTGTCCCAGACAGGCCTTACACTGGCTCTCATATAT-T--AGTGTCGATG
1 -CATGTCCCAGACAGGTCTTACACT-GCT-T-GTATATCTCGAG-GCCGATG
* * *** * *
27640524 TCATGTCCCAGATAGGTCTTACACTGAC----ACA-CAAAAAGCTGATGG
1 -CATGTCCCAGACAGGTCTTACACTG-CTTGTATATCTCGAGGCCGAT-G
27640569 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACT-GCTTGTATATCTCGAGGCCGATG
* * * * ***
27640617 CATGTCCCAGACAGGTCTTACATTAGC-TCT-CA-CATCAATATCGATG
1 CATGTCCCAGACAGGTCTTACACT-GCTTGTATATC-TCGAGGCCGATG
* * * *
27640663 CATGTCCTAGACATGTCGTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACT-GCTTGTATATCTCGAGGCCGATG
* *
27640711 CATGTCCTAGACATGTCTTACACTG
1 CATGTCCCAGACAGGTCTTACACTG
27640736 GCTCTCATAA
Statistics
Matches: 201, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
43 2 0.01
44 28 0.14
45 4 0.02
46 31 0.15
47 4 0.02
48 64 0.32
49 60 0.30
50 3 0.01
51 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGCTTGTATATCTCGAGGCCGATG
Found at i:27640696 original size:94 final size:94
Alignment explanation
Indices: 27640568--27640742 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
27640558 AAAGCTGATG
* *
27640568 GCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
1 GCATGTCCCAGACAGGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
*
27640633 CTTACATTAGCTCTCACATCAATATCGAT
66 CTTACACTAGCTCTCACATCAATATCGAT
* * * * *
27640662 GCATGTCCTAGACATGTCGTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATGT
1 GCATGTCCCAGACAGGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
*
27640727 CTTACACTGGCTCTCA
66 CTTACACTAGCTCTCA
27640743 TAATGTGGTC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (94 bp):
GCATGTCCCAGACAGGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
CTTACACTAGCTCTCACATCAATATCGAT
Found at i:27640736 original size:48 final size:46
Alignment explanation
Indices: 27640568--27640783 Score: 184
Period size: 48 Copynumber: 4.6 Consensus size: 46
27640558 AAAGCTGATG
* *
27640568 GCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-TCTATA-CTCGAGGCCGAT
* * * * ***
27640616 GCATGTCCCAGACAGGTCTTACATTAGCTCT-CACATCAATATCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTATAC-TCGAGGCCGAT
* * * *
27640662 GCATGTCCTAGACATGTCGTACACTGGCTGGTATATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCT-CTATA-CTCGAGGCCGAT
* * * * *
27640710 GCATGTCCTAGACATGTCTTACACTGGCTCTCATAAT-GTGGTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCT-ATACTCGAGGCCGAT
* *
27640756 GCATGTCCAAGACATGTTTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
27640784 ACACACATAT
Statistics
Matches: 137, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 64 0.47
47 5 0.04
48 66 0.48
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTATACTCGAGGCCGAT
Found at i:27640755 original size:94 final size:93
Alignment explanation
Indices: 27640568--27640783 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 93
27640558 AAAGCTGATG
* * * *
27640568 GCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
1 GCATGTCCAAGACATGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
*
27640633 CTTACATTAGCTCTCACATCAATATCGAT
66 CTTACACTAGCTCT-ACATCAATATCGAT
* * * *
27640662 GCATGTCCTAGACATGTCGTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATGT
1 GCATGTCCAAGACATGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
* *
27640727 CTTACACTGGCTCT-CAT-AATGTGGTCGAT
66 CTTACACTAGCTCTACATCAA--T-ATCGAT
**
27640756 GCATGTCCAAGACATGTTTTACACTAGC
1 GCATGTCCAAGACATGTCGTACACTAGC
27640784 ACACACATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 3 0.03
93 1 0.01
94 99 0.94
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (93 bp):
GCATGTCCAAGACATGTCGTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACAGGT
CTTACACTAGCTCTACATCAATATCGAT
Found at i:27640778 original size:46 final size:48
Alignment explanation
Indices: 27640379--27640780 Score: 179
Period size: 48 Copynumber: 8.5 Consensus size: 48
27640369 ATGCCGACGC
* * * * *
27640379 CATGTCCCAGACATGGTCATACACTGGCTAGC---ATATCAAAGTCAATG
1 CATGTCCTAGACAT-GTCTTACACTGGCT-GCTATATATCGAGGTCGATG
* * * ** * *
27640426 CCATGTCCCAGACAGGTCTTACACTGACTTTTATATATAGAGGCCGATG
1 -CATGTCCTAGACATGTCTTACACTGGCTGCTATATATCGAGGTCGATG
* * * * *
27640475 CCGTGTCCCAGACAGGCCTTACACTGGCT-CTCATATAT-TAGTGTCGATG
1 -CATGTCCTAGACATGTCTTACACTGGCTGCT-ATATATCGAG-GTCGATG
* * * * * * ** *
27640524 TCATGTCCCAGATAGGTCTTACACTGAC-AC-ACA-A-AAAGCT-GATGG
1 -CATGTCCTAGACATGTCTTACACTGGCTGCTATATATCGAGGTCGAT-G
* * * * *
27640569 CATGTCCCAGACAGGTCTTACACTAGCTTG-TATATCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGC-TGCTATATATCGAGGTCGATG
* * * * * * * **
27640617 CATGTCCCAGACAGGTCTTACATTAGCT-CT-CACATCAATATCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTGCTATATATCGAGGTCGATG
* * * *
27640663 CATGTCCTAGACATGTCGTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTGCTATATATCGAGGTCGATG
*
27640711 CATGTCCTAGACATGTCTTACACTGGCT-CTCATA-AT-GTGGTCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTGCT-ATATATCGAGGTCGATG
* *
27640757 CATGTCCAAGACATGTTTTACACT
1 CATGTCCTAGACATGTCTTACACT
27640781 AGCACACACA
Statistics
Matches: 274, Mismatches: 62, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
44 27 0.10
45 2 0.01
46 67 0.24
47 19 0.07
48 84 0.31
49 75 0.27
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTGGCTGCTATATATCGAGGTCGATG
Found at i:27666615 original size:70 final size:70
Alignment explanation
Indices: 27666502--27666641 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
27666492 AATAATATAT
*
27666502 CGTTTTTACTTATGTTATAATATATTGTTATTATATGAGAGGTGGTTGCATATTGAATGATCACT
1 CGTTTTTACTTATGTTATAATATATTATTATTATATGAGAGGTGGTTGCATATTGAATGATCACT
27666567 TGATG
66 TGATG
*
27666572 CGTTTTTACTTATGTTATAATATTTTATTATTATATGAGAGGTGGTTGCATATTGAATGATCACT
1 CGTTTTTACTTATGTTATAATATATTATTATTATATGAGAGGTGGTTGCATATTGAATGATCACT
27666637 TGATG
66 TGATG
27666642 TAAGTTATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.46
Consensus pattern (70 bp):
CGTTTTTACTTATGTTATAATATATTATTATTATATGAGAGGTGGTTGCATATTGAATGATCACT
TGATG
Found at i:27667004 original size:51 final size:51
Alignment explanation
Indices: 27666894--27667006 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
27666884 ATGCGTACCC
* * *
27666894 GATAGCTTCGATCACAAGTGTGATACTAATTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGATCACAAATGTGATACTAATTGAAGGCCACTATGTGTAAAA
* * *
27666945 GATAGCTTTGGTCACAAATGTGGTACT-ATGTGAAGGCCACTTTGTG-AATAA
1 GATAGCTTTGATCACAAATGTGATACTAAT-TGAAGGCCACTATGTGTAA-AA
*
27666996 GGTAGCTTTGA
1 GATAGCTTTGA
27667007 CTACAAGGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
50 4 0.08
51 48 0.92
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
GATAGCTTTGATCACAAATGTGATACTAATTGAAGGCCACTATGTGTAAAA
Found at i:27669219 original size:25 final size:25
Alignment explanation
Indices: 27669185--27669405 Score: 345
Period size: 25 Copynumber: 8.8 Consensus size: 25
27669175 GACCTCAGCA
*
27669185 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
27669210 TGCTCCCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
27669235 TGCTATCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
27669260 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
27669285 TGCTCTCTGATTATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
27669310 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
27669335 TGCTCTCTGAATATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
27669360 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
27669385 TGCTCTCTG-ATATTTAGCACG
1 TGCTCTCTGAATA-TTAGCACG
27669406 TTTGTTCTCT
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
24 3 0.02
25 177 0.98
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:27669425 original size:22 final size:21
Alignment explanation
Indices: 27669397--27669464 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
27669387 CTCTCTGATA
*
27669397 TTTAGCACGTTTGTTCTCTCTG
1 TTTAGCAC-TTTGTGCTCTCTG
* *
27669419 TTTAGCACATATGTGCTCTATG
1 TTTAGCAC-TTTGTGCTCTCTG
*
27669441 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACTTT-GTGCTCTCTG
27669463 TT
1 TT
27669465 CATTAGTGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTAGCACTTTGTGCTCTCTG
Found at i:27674255 original size:18 final size:18
Alignment explanation
Indices: 27674023--27674248 Score: 236
Period size: 18 Copynumber: 12.6 Consensus size: 18
27674013 AAAATAAAGG
* *
27674023 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
*
27674041 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
* * * *
27674059 TGCTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
27674077 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
**
27674095 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
27674113 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
27674131 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
**
27674149 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
27674167 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
27674185 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
*
27674203 GACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
27674221 TACTGAATAAATAATTAT
1 TACTGAATAAATGACTGT
27674239 TACTGAATAA
1 TACTGAATAA
27674249 CTGATTAATA
Statistics
Matches: 170, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 170 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:27674262 original size:54 final size:54
Alignment explanation
Indices: 27674023--27674248 Score: 373
Period size: 54 Copynumber: 4.2 Consensus size: 54
27674013 AAAATAAAGG
* * *
27674023 TACTGAATAACTGACTGCT-ACTGAATAAATGACTATTGCTGAATAACTGATTAT
1 TACTGAATAATTGACTG-TGACTGAATAAATGACTGTTACTGAATAACTGATTAT
*
27674077 TACTGAATAATTGACTGTGGCTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
*
27674131 TACTGAATAATTGACTGTGGCTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
* *
27674185 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAAATAATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
27674239 TACTGAATAA
1 TACTGAATAA
27674249 CTGATTAATA
Statistics
Matches: 164, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
53 1 0.01
54 163 0.99
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (54 bp):
TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
Found at i:27682561 original size:9 final size:9
Alignment explanation
Indices: 27682549--27682573 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27682539 AATTATATAT
27682549 ATATTTTAA
1 ATATTTTAA
27682558 ATATTTTAA
1 ATATTTTAA
27682567 ATATTTT
1 ATATTTT
27682574 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:27683046 original size:11 final size:11
Alignment explanation
Indices: 27683030--27683060 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27683020 ATACCCATAC
27683030 CCCATACCTTG
1 CCCATACCTTG
*
27683041 CCCATACCTTT
1 CCCATACCTTG
27683052 CCCATACCT
1 CCCATACCT
27683061 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:27696345 original size:77 final size:76
Alignment explanation
Indices: 27696260--27696419 Score: 198
Period size: 77 Copynumber: 2.1 Consensus size: 76
27696250 AATTAAAGGT
* * ** * *
27696260 AAATAAAATTTGTTTCGGGATTGATTTTCGTCATTTAAC-GATTTATTCCAAATTTT-ATTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATT--AAATTTTGATTTATT
*
27696323 TCCAAAAATGAGTA
64 GCCAAAAATGAG-A
*
27696337 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTGTTGC
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
27696402 CAAAAATGAGA
66 CAAAAATGAGA
*
27696413 AATTAAA
1 AAATAAA
27696420 TTAAATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 14 0.19
77 50 0.69
78 8 0.11
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (76 bp):
AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
CAAAAATGAGA
Done.