Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 15 of 356
Found at i:5225624 original size:177 final size:178
Alignment explanation
Indices: 5225242--5225651 Score: 660
Period size: 177 Copynumber: 2.3 Consensus size: 178
5225232 GCCACTTCAG
* * * * *
5225242 GGAGATGAGACTCACCATTTTCGATCTTCTCTATAGCCGATACATGGAGATAAGATCTGTAATTT
1 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCCGTAATTT
* * *** *
5225307 TTAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACTTGCTATCTTCAACTTGCTCTTTTGCTACC
66 TCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACTTGCTATCTTCAACCTGCTCCACTGCAACC
*
5225372 TCAGAGAGATAAGGCTGGTGGCTAAAATCTAATCCATAGCCGATACAT
131 TCAGAGAGATAAGGCTGGTAGCTAAAATCTAATCCATAGCCGATACAT
5225420 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCCGTAATTT
1 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCCGTAATTT
* *
5225485 TCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAACCTGCTCCACTGCAACT
66 TCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACTTGCTATCTTCAACCTGCTCCACTGCAACC
**
5225549 TCAGAGAGATAAGGCTGGTAGCTAAAATCTGCTCCATAGCCGATACAT
131 TCAGAGAGATAAGGCTGGTAGCTAAAATCTAATCCATAGCCGATACAT
*
5225597 GGAGATAAGACTCGCCATTTCCGATCTGCTCCATAGCCGATACATGGAGATAAGA
1 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGA
5225652 AAACGACAGG
Statistics
Matches: 215, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
177 119 0.55
178 96 0.45
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (178 bp):
GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCCGTAATTT
TCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACTTGCTATCTTCAACCTGCTCCACTGCAACC
TCAGAGAGATAAGGCTGGTAGCTAAAATCTAATCCATAGCCGATACAT
Found at i:5245170 original size:3 final size:3
Alignment explanation
Indices: 5245162--5245204 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
5245152 ATTGGAGGAA
* * * *
5245162 CTG CTG CTG CTG CTG CTG CTG TTG TTG TTG TTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
5245205 AAAAGCATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.42
Consensus pattern (3 bp):
CTG
Found at i:5247663 original size:15 final size:15
Alignment explanation
Indices: 5247643--5247678 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
5247633 AACCAACAAC
5247643 CAAATATA-CGGTAAA
1 CAAATATACCGG-AAA
5247658 CAAATATACCGGAAA
1 CAAATATACCGGAAA
5247673 CAAATA
1 CAAATA
5247679 AACAAGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.17
Consensus pattern (15 bp):
CAAATATACCGGAAA
Found at i:5249560 original size:21 final size:21
Alignment explanation
Indices: 5249536--5249602 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
5249526 ATTTAATCTT
5249536 AAACTCTAAACCTTAAAATCC
1 AAACTCTAAACCTTAAAATCC
* * *
5249557 AAACTCTAAATCAT-AAATCTT
1 AAACTCTAAACCTTAAAATC-C
*
5249578 AAACAT-TAAACCTTAAATTCC
1 AAAC-TCTAAACCTTAAAATCC
5249599 AAAC
1 AAAC
5249603 ATCGAATCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 5 0.14
21 26 0.72
22 5 0.14
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACTCTAAACCTTAAAATCC
Found at i:5255059 original size:19 final size:18
Alignment explanation
Indices: 5255030--5255066 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
5255020 TTCTCCTCCT
5255030 TTAATTTTTCTCATTTAA
1 TTAATTTTTCTCATTTAA
*
5255048 TTAATCTTTTCTCGTTTAA
1 TTAAT-TTTTCTCATTTAA
5255067 AAATTTGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.14, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAATTTTTCTCATTTAA
Found at i:5255630 original size:19 final size:19
Alignment explanation
Indices: 5255603--5255657 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
5255593 ATTAATTTGC
*
5255603 AATTCAAATATTTATTATA
1 AATTTAAATATTTATTATA
5255622 AATTTAAATATTTATTAT-
1 AATTTAAATATTTATTATA
*
5255640 AATTTTAATATTT-TTATA
1 AATTTAAATATTTATTATA
5255658 GTTATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 4 0.12
18 12 0.36
19 17 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTAAATATTTATTATA
Found at i:5257007 original size:19 final size:19
Alignment explanation
Indices: 5256983--5257031 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
5256973 TATCGAAAAA
5256983 TATATTTTTAAA-TATTTTT
1 TATATTTTTAAAGT-TTTTT
*
5257002 TTTATTTTTAAAGTTTTTT
1 TATATTTTTAAAGTTTTTT
*
5257021 TAAATTTTTAA
1 TATATTTTTAA
5257032 GAACCAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATATTTTTAAAGTTTTTT
Found at i:5257742 original size:21 final size:22
Alignment explanation
Indices: 5257718--5257768 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
5257708 ATCTTTCCAT
*
5257718 TTTTGTTTTC-AGGTATATTTC
1 TTTTGTTTTCGAGGTAGATTTC
* *
5257739 TTTTGTTTCCGAGTTAGATTTC
1 TTTTGTTTTCGAGGTAGATTTC
5257761 -TTTGTTTT
1 TTTTGTTTT
5257769 GTTGTTGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.12, C:0.10, G:0.16, T:0.63
Consensus pattern (22 bp):
TTTTGTTTTCGAGGTAGATTTC
Found at i:5258813 original size:27 final size:27
Alignment explanation
Indices: 5258741--5258815 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
5258731 TGGACAAGGG
*
5258741 TCTGAAAATGCTGAAAAGAAATCTCAT
1 TCTGATAATGCTGAAAAGAAATCTCAT
* * * * **
5258768 TCTAATAAGGATGACAAGAAATCTGGT
1 TCTGATAATGCTGAAAAGAAATCTCAT
5258795 TCTGATAATGCTGAAAAGAAA
1 TCTGATAATGCTGAAAAGAAA
5258816 GGAGATGAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (27 bp):
TCTGATAATGCTGAAAAGAAATCTCAT
Found at i:5259094 original size:159 final size:159
Alignment explanation
Indices: 5258843--5259401 Score: 881
Period size: 159 Copynumber: 3.5 Consensus size: 159
5258833 CAGGACTTAT
* * * * * *
5258843 GGGGATAAGGTTGATAAAAATGATGACAA--GGTGTCGGATAAACGCTCAGCT-GATCAGGTGAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGT-TC-GATAAAAGCTCTGATAG-TCAAGTG--
*
5258905 AAAGAAGAGTTCAAATGAAGATTCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATC
61 AAA-AAGAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATC
5258970 AGGTGAAAAAGAGCTCAAATGAAGTTTTCCCTAAA
125 AGGTGAAAAAGAGCTCAAATGAAGTTTTCCCTAAA
5259005 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
*
5259070 GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAATAGCTTTGATGATCAGGTGA
66 GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
5259135 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
131 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
* *
5259164 GTGGATAAGGTTGACAAAAATAATGACAATGTGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
* *
5259229 GAGTTCAAATGAAGATGCCCCAAAAGGCGATAAGGTGTTTGATAAAAGCTCTGATGATCAGGTGA
66 GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
*
5259294 AAAAGAGCTCAAAAGAAGTTTTCCCTAAA
131 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
* * * *
5259323 GGGGATAAGGTTGACAAAAGTAATGCCAATGTGTTCGATAAAAGCTCTGGTAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
*
5259388 GAGCTCAAATGAAG
66 GAGTTCAAATGAAG
5259402 TTTTCCCATC
Statistics
Matches: 375, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
159 321 0.86
160 3 0.01
162 45 0.12
163 3 0.01
164 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (159 bp):
GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
AAAAGAGCTCAAATGAAGTTTTCCCTAAA
Found at i:5263222 original size:3 final size:3
Alignment explanation
Indices: 5263214--5263247 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5263204 GGCCTTTAGT
5263214 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5263248 CCTTTAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:5267331 original size:32 final size:32
Alignment explanation
Indices: 5267295--5267357 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
5267285 GAGATGGGGT
5267295 CTACAAAGGCACCAGGAGAGGATGGATTTCCC
1 CTACAAAGGCACCAGGAGAGGATGGATTTCCC
* *
5267327 CTACAAATGCACCAGGAGATGATGGATTTCC
1 CTACAAAGGCACCAGGAGAGGATGGATTTCC
5267358 AGCCCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (32 bp):
CTACAAAGGCACCAGGAGAGGATGGATTTCCC
Found at i:5271901 original size:46 final size:46
Alignment explanation
Indices: 5271833--5272197 Score: 511
Period size: 46 Copynumber: 8.0 Consensus size: 46
5271823 GCTTTCTGAA
* * *
5271833 ATGAAATGCATAAGACCGTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
5271879 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5271925 ATGAAA-GAATAAGACCATGTTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
5271970 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
5272016 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5272062 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5272108 ATGAAAAT-AATAAGACCGTGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
5272154 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
5272198 TCAAAGATAA
Statistics
Matches: 291, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 46 0.16
46 241 0.83
47 4 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:5276692 original size:46 final size:46
Alignment explanation
Indices: 5276640--5276913 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
5276630 AGTGTGCTCT
5276640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5276686 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5276732 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5276778 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
5276824 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
5276870 ATGGCA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
5276914 TCACACCAAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:5278553 original size:42 final size:42
Alignment explanation
Indices: 5278502--5278585 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
5278492 ACATTATTAA
5278502 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
1 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
5278544 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
1 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
5278586 ATGTAACAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (42 bp):
TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
Found at i:5286431 original size:29 final size:29
Alignment explanation
Indices: 5286380--5286451 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
5286370 GTATGAGTAA
5286380 AACTCCAAC-AATTAAAAAACGCCTATGT
1 AACTCCAACAAATTAAAAAACGCCTATGT
5286408 AACTCCAACAAATTAAAAAACGCCTATGT
1 AACTCCAACAAATTAAAAAACGCCTATGT
5286437 AACTCCAACAAATTA
1 AACTCCAACAAATTA
5286452 CACGTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 9 0.21
29 34 0.79
ACGTcount: A:0.49, C:0.25, G:0.06, T:0.21
Consensus pattern (29 bp):
AACTCCAACAAATTAAAAAACGCCTATGT
Found at i:5287796 original size:29 final size:29
Alignment explanation
Indices: 5287763--5287820 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
5287753 GTGTTGGTTT
5287763 GGGATCTGAAGGGCAGCCATTGGCGTTGG
1 GGGATCTGAAGGGCAGCCATTGGCGTTGG
5287792 GGGATCTGAAGGGCAGCCATTGGCGTTGG
1 GGGATCTGAAGGGCAGCCATTGGCGTTGG
5287821 ACATACCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (29 bp):
GGGATCTGAAGGGCAGCCATTGGCGTTGG
Found at i:5290727 original size:27 final size:29
Alignment explanation
Indices: 5290693--5290761 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
5290683 ATGCCTTATT
*
5290693 GGTGTGTTTGGGAGGA-TATATTATACC-
1 GGTGTGTTTGGGAGGATTATAATATACCG
*
5290720 GGTGTGTTAT-GGAGGATTTATAATATTCCG
1 GGTGTGTT-TGGGAGGA-TTATAATATACCG
5290750 GGTGTGTTTGGG
1 GGTGTGTTTGGG
5290762 TTGGATATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 14 0.40
28 1 0.03
29 10 0.29
30 10 0.29
ACGTcount: A:0.19, C:0.06, G:0.36, T:0.39
Consensus pattern (29 bp):
GGTGTGTTTGGGAGGATTATAATATACCG
Found at i:5295437 original size:131 final size:129
Alignment explanation
Indices: 5295199--5295493 Score: 396
Period size: 131 Copynumber: 2.3 Consensus size: 129
5295189 TAATTATTCA
* *
5295199 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTACCCTACC
1 TTTAAAAATTCTTTAAAAC-AAGGAAATGTTCGATGTTTCGCAATTCGGGAAATCGTACCCTACC
* * * *
5295264 ATGCTGGGTTGCAATATCCCGTTTGTTCAAAATGATCGAATATCCCTTTGGAATTTCACTCATGT
65 ATGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCATTTAGAATTTCACTCATGT
* * * *
5295329 CTTTAAAAATTCTTTAAAACAAAGGGAATGTTTGATGTTTCGCAATTCGGGAAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAAC-AAGGAAATGTTCGATGTTTCGCAATTCGGGAAATCGTACCCTAC
* * *
5295394 CGTGCTGGGTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCATTTAGAATTTCACTCATG
64 CATGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCATTTAGAATTTCACTCATG
5295459 T
129 T
** * *
5295460 TTTCTAAATTC--TAAAACAAGGCAATGTTCAATGT
1 TTTAAAAATTCTTTAAAACAAGGAAATGTTCGATGT
5295494 CTAGAAATTC
Statistics
Matches: 145, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
127 14 0.10
128 6 0.04
130 9 0.06
131 116 0.80
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAAACAAGGAAATGTTCGATGTTTCGCAATTCGGGAAATCGTACCCTACCA
TGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCATTTAGAATTTCACTCATGT
Found at i:5296304 original size:21 final size:21
Alignment explanation
Indices: 5296280--5296321 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
5296270 AAAGATCCTA
*
5296280 TTTTACCATATATT-TTGTTT
1 TTTTTCCATATATTATTGTTT
* *
5296300 TTTTTTCATCTATTATTGTTT
1 TTTTTCCATATATTATTGTTT
5296321 T
1 T
5296322 ATATACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTCCATATATTATTGTTT
Found at i:5299344 original size:75 final size:75
Alignment explanation
Indices: 5299203--5299377 Score: 217
Period size: 75 Copynumber: 2.3 Consensus size: 75
5299193 TAATGATGTG
* * * *
5299203 GCACCCCGTGCCTAGCCGGATTAACCGATGATAATGAAAGTGAGCCCAGCTCTAGTTGGATTAAC
1 GCACCCAGTG-CTAGTCGGATTAACCGACGATAATGAAAGTGAGCCCAGCTCTAGTTGGATAAAC
*
5299268 CAACAATATTT
65 CAACAATAATT
*** *
5299279 GCACCCAGTGCTAGTCGGA-TATACCGACGATAATGATTTTGAGCCCAGCTTTAGTTGGATAAAC
1 GCACCCAGTGCTAGTCGGATTA-ACCGACGATAATGAAAGTGAGCCCAGCTCTAGTTGGATAAAC
*
5299343 CAACAGTAATT
65 CAACAATAATT
* *
5299354 GCGCCCAGTGCTAATCGGATTAAC
1 GCACCCAGTGCTAGTCGGATTAAC
5299378 AAATGGTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
74 2 0.02
75 72 0.85
76 11 0.13
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (75 bp):
GCACCCAGTGCTAGTCGGATTAACCGACGATAATGAAAGTGAGCCCAGCTCTAGTTGGATAAACC
AACAATAATT
Found at i:5312117 original size:21 final size:21
Alignment explanation
Indices: 5312077--5312119 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5312067 ATTACAGGTC
* * *
5312077 ATTTTGAATTTTATTTATTTT
1 ATTTTGAATTTAAATCATTTT
5312098 ATTTTGAATTTAAATCATTTT
1 ATTTTGAATTTAAATCATTTT
5312119 A
1 A
5312120 AGATTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTGAATTTAAATCATTTT
Found at i:5319530 original size:13 final size:13
Alignment explanation
Indices: 5319512--5319549 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5319502 AAAATAAATC
*
5319512 TAAAAATTTAAAA
1 TAAAAAATTAAAA
*
5319525 TAAAAAATTAATA
1 TAAAAAATTAAAA
5319538 TAAAAAA-TAAAA
1 TAAAAAATTAAAA
5319550 AATCAAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:5331563 original size:35 final size:35
Alignment explanation
Indices: 5331517--5331595 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
5331507 TGTTTTATAC
* *
5331517 TTAATTTTTATGGTT-CTTTATGATTATCCTGCCCA
1 TTAATTTTTAT-GTTGCATTATGATTACCCTGCCCA
5331552 TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
1 TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
*
5331587 TCAATTTTT
1 TTAATTTTT
5331596 TTCATGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 3 0.08
35 37 0.93
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.51
Consensus pattern (35 bp):
TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
Found at i:5336118 original size:34 final size:33
Alignment explanation
Indices: 5336066--5336170 Score: 201
Period size: 33 Copynumber: 3.2 Consensus size: 33
5336056 TATTAACATG
5336066 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
5336099 TTATAACTTAAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTT-AAATAAGGTTGCTTTAAAATGCAT
5336133 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
5336166 TTATA
1 TTATA
5336171 GTGCCAATAG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 38 0.54
34 33 0.46
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (33 bp):
TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
Found at i:5351290 original size:29 final size:29
Alignment explanation
Indices: 5351244--5351299 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
5351234 TAACATCATT
* * * *
5351244 TTATATTTATATATTACATACATAAATAA
1 TTATATTTATACAATACAAAAATAAATAA
*
5351273 TTATATTTATCCAATACAAAAATAAAT
1 TTATATTTATACAATACAAAAATAAAT
5351300 TAATGTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (29 bp):
TTATATTTATACAATACAAAAATAAATAA
Found at i:5353938 original size:27 final size:27
Alignment explanation
Indices: 5353885--5353935 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5353875 ATTTATAAAC
5353885 ATTTTATATATTTAAAATTTAATTTCT
1 ATTTTATATATTTAAAATTTAATTTCT
* *
5353912 ATTTT-TATTTTTAAAATTTTATTT
1 ATTTTATATATTTAAAATTTAATTT
5353936 TCTTTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATATATTTAAAATTTAATTTCT
Found at i:5354250 original size:11 final size:11
Alignment explanation
Indices: 5354234--5354265 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
5354224 CATTTTAAAA
5354234 CTTTAAAATAT
1 CTTTAAAATAT
5354245 CTTT-AAATAT
1 CTTTAAAATAT
5354255 CTTTAAAATAT
1 CTTTAAAATAT
5354266 GAAACTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTTAAAATAT
Found at i:5354260 original size:21 final size:19
Alignment explanation
Indices: 5354227--5354265 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
5354217 TTCTTTTCAT
5354227 TTTAAAACTTTAAAATATC
1 TTTAAAACTTTAAAATATC
5354246 TTTAAATATCTTTAAAATAT
1 TTTAAA-A-CTTTAAAATAT
5354266 GAAACTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAACTTTAAAATATC
Found at i:5356341 original size:44 final size:44
Alignment explanation
Indices: 5356279--5356363 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
5356269 ACGAAAACTT
* * *
5356279 CGAGCTTATCCTTGAAAGAAATGGAACAAAGGGCTTCTAGACTG
1 CGAGATTATCCTTAAAAGAAATGGAACAAAGGACTTCTAGACTG
*
5356323 CGAGATTATCTTTAAAAGAAATGGAACAAAGGACTTCTAGA
1 CGAGATTATCCTTAAAAGAAATGGAACAAAGGACTTCTAGA
5356364 TATGAAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (44 bp):
CGAGATTATCCTTAAAAGAAATGGAACAAAGGACTTCTAGACTG
Found at i:5360162 original size:21 final size:22
Alignment explanation
Indices: 5360136--5360182 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5360126 CTCTGCTCAA
*
5360136 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
5360157 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
5360179 ACTC
1 ACTC
5360183 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:5365730 original size:16 final size:16
Alignment explanation
Indices: 5365699--5365732 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5365689 CCATTAACCT
**
5365699 TTGTTTTTTTTTCAAA
1 TTGTTTTTTTAACAAA
5365715 TTGTTTTTTTAACAAA
1 TTGTTTTTTTAACAAA
5365731 TT
1 TT
5365733 TGATGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTGTTTTTTTAACAAA
Found at i:5366060 original size:62 final size:65
Alignment explanation
Indices: 5365990--5366112 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 65
5365980 AAGAGTTAAT
*
5365990 TTTTCTTAGATAA-TTACGTTTATTTTCTTT-AATTAAGAGTT-TTT-TTTAATTTAATGTAGAA
1 TTTTCTTAGATAAGTAAC-TTTATTTTCTTTAAATTAAGAGTTGTTTCTTTAATTTAATGTAGAA
5366051 A
65 A
*
5366052 TTTTCTTAGATAAGTAACTTTATTTTTTTTAAATTAAGAGTTGTTTCTTTAATTTAATGTA
1 TTTTCTTAGATAAGTAACTTTATTTTCTTTAAATTAAGAGTTGTTTCTTTAATTTAATGTA
5366113 TTATTTATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
62 24 0.44
63 14 0.25
64 3 0.05
65 14 0.25
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (65 bp):
TTTTCTTAGATAAGTAACTTTATTTTCTTTAAATTAAGAGTTGTTTCTTTAATTTAATGTAGAAA
Found at i:5368707 original size:30 final size:30
Alignment explanation
Indices: 5368636--5368707 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
5368626 CTACCCCAAG
* * *
5368636 TTTTTGAAAATTTTAGTTATACCCTTAAAC
1 TTTTTGAAAATTTTAATTAGACCCTCAAAC
*
5368666 TTTTCTG-AAATTTTAATTAGGCCCCTCAAA-
1 TTTT-TGAAAATTTTAATTA-GACCCTCAAAC
5368696 TTTTTGAAAATT
1 TTTTTGAAAATT
5368708 ATTATTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 24 0.69
31 9 0.26
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (30 bp):
TTTTTGAAAATTTTAATTAGACCCTCAAAC
Found at i:5371484 original size:19 final size:19
Alignment explanation
Indices: 5371448--5371485 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5371438 AGAACTTGAA
*
5371448 CTTATAAATTTTGAAAATT
1 CTTATAAATATTGAAAATT
5371467 CTTAT-AATATTGATAAATT
1 CTTATAAATATTGA-AAATT
5371486 GTGGTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
CTTATAAATATTGAAAATT
Found at i:5373383 original size:23 final size:24
Alignment explanation
Indices: 5373341--5373386 Score: 76
Period size: 23 Copynumber: 1.9 Consensus size: 24
5373331 TTGTGGCACA
5373341 AAAAATTTGATTTTTTTTTCTTCAC
1 AAAAATTTGA-TTTTTTTTCTTCAC
5373366 AAAAATTTGA-TTTTTTTCTTC
1 AAAAATTTGATTTTTTTTCTTC
5373387 TAAGGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.52
25 10 0.48
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (24 bp):
AAAAATTTGATTTTTTTTCTTCAC
Found at i:5376542 original size:186 final size:186
Alignment explanation
Indices: 5376228--5376575 Score: 491
Period size: 186 Copynumber: 1.9 Consensus size: 186
5376218 ACTAATGATC
** *****
5376228 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTTTTTGTTGCCTCTG
1 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTCGTAACAACCTCTG
* *
5376293 TTGTTCCAACAATATTCACCAATATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
66 TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
*
5376358 AAACATAATCATTCATTCATTATTATTATCATAATTAGTTTTTTTTAATGGCGTTT
131 AAACATAATCATTCATTCATTATTATCATCATAATTAGTTTTTTTTAATGGCGTTT
*
5376414 ATAACATTCTAATGATTCAAGGCCATTGCATGCATATATTTGATAAGCTCTCGTAACAACCTCTG
1 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTCGTAACAACCTCTG
* * * * ** *
5376479 TCGTTTCAACGATATTCACCAAAATAGACACTTGCTGTCT-TATCTTTGTTGCTGTAAATGCATG
66 TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCT-TCTTCATAGCTGTAAATGCATG
* * *
5376543 CAAACATGATCATTTATTCTTTATTATCATCAT
130 CAAACATAATCATTCATTCATTATTATCATCAT
5376576 CATCAATTTT
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
185 1 0.01
186 139 0.99
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (186 bp):
ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTCGTAACAACCTCTG
TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
AAACATAATCATTCATTCATTATTATCATCATAATTAGTTTTTTTTAATGGCGTTT
Found at i:5386187 original size:12 final size:12
Alignment explanation
Indices: 5386170--5386194 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5386160 TGTGAAAAAT
5386170 AAAATAAAATAA
1 AAAATAAAATAA
5386182 AAAATAAAATAA
1 AAAATAAAATAA
5386194 A
1 A
5386195 GAACAGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:5388123 original size:8 final size:8
Alignment explanation
Indices: 5388110--5388141 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
5388100 TTATGTTTTA
5388110 TATTATAT
1 TATTATAT
5388118 TATTATAT
1 TATTATAT
5388126 TATTATAT
1 TATTATAT
5388134 TATTATAT
1 TATTATAT
5388142 ATATGACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:5388211 original size:40 final size:40
Alignment explanation
Indices: 5388154--5388249 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
5388144 ATGACAAAGA
5388154 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
5388195 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5388235 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
5388250 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:5388805 original size:29 final size:30
Alignment explanation
Indices: 5388746--5388803 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5388736 TCCGAGCCTT
*
5388746 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5388776 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5388804 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5389228 original size:44 final size:45
Alignment explanation
Indices: 5389133--5389265 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 45
5389123 ACAGGACAGA
* *
5389133 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5389179 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5389223 ACAGGAATAATTCATGTAAGTCCATGTTAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGG
5389266 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
44 37 0.49
45 12 0.16
46 26 0.35
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5393491 original size:21 final size:21
Alignment explanation
Indices: 5393465--5393521 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
5393455 ATTTAAAAAA
*
5393465 TATTATATATTATAATTATGT
1 TATTATATATTATAATTATAT
5393486 T-TT-TATATTATATTATTATAT
1 TATTATATATTATA--ATTATAT
5393507 TATTATATTATTATA
1 TATTATA-TATTATA
5393522 TATATACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 8 0.27
22 2 0.07
23 2 0.07
24 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATATATTATAATTATAT
Found at i:5393502 original size:8 final size:8
Alignment explanation
Indices: 5393465--5393522 Score: 65
Period size: 8 Copynumber: 8.0 Consensus size: 8
5393455 ATTTAAAAAA
5393465 TATTATA-
1 TATTATAT
5393472 TATTATA-
1 TATTATAT
*
5393479 -ATTATGT
1 TATTATAT
5393486 T-TT-TA-
1 TATTATAT
5393491 TATTATAT
1 TATTATAT
5393499 TATTATAT
1 TATTATAT
5393507 TATTATAT
1 TATTATAT
5393515 TATTATAT
1 TATTATAT
5393523 ATATACATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
5 1 0.02
6 8 0.18
7 11 0.25
8 24 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:5393517 original size:13 final size:13
Alignment explanation
Indices: 5393464--5393509 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5393454 TATTTAAAAA
5393464 ATATTATA-TATT
1 ATATTATATTATT
* *
5393476 ATAATTATGTTTTT
1 AT-ATTATATTATT
5393490 ATATTATATTATT
1 ATATTATATTATT
5393503 ATATTAT
1 ATATTAT
5393510 TATATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 2 0.07
13 21 0.75
14 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:5393555 original size:16 final size:16
Alignment explanation
Indices: 5393531--5393581 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
5393521 ATATATACAT
*
5393531 AAAAAAAGAAAGAAAG
1 AAAAGAAGAAAGAAAG
* *
5393547 AAAAGAAGAAAAAAAC
1 AAAAGAAGAAAGAAAG
* *
5393563 AGAAGAAGAGAGAAAG
1 AAAAGAAGAAAGAAAG
5393579 AAA
1 AAA
5393582 GAAACAGAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAAGAAAG
Found at i:5393571 original size:24 final size:25
Alignment explanation
Indices: 5393531--5393589 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
5393521 ATATATACAT
*
5393531 AAAAAAAGA-AAGAAAGAAA-AGAAG
1 AAAAAAACAGAAGAAAGAAAGA-AAG
*
5393555 AAAAAAACAGAAG-AAGAGAGAAAG
1 AAAAAAACAGAAGAAAGAAAGAAAG
*
5393579 AAAGAAACAGA
1 AAAAAAACAGA
5393590 GAGCAAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (25 bp):
AAAAAAACAGAAGAAAGAAAGAAAG
Found at i:5393598 original size:36 final size:38
Alignment explanation
Indices: 5393536--5393632 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 38
5393526 TACATAAAAA
5393536 AAGAAAGAAAGAAAAGAAGAAAAAAACAG-A-AGAA-G
1 AAGAAAGAAAGAAAAGAAGAAAAAAACAGCAGAGAAGG
** *
5393571 AGAGAAAGAAAGAAACAG-AGAGCAAAACGGCAGAGAAGG
1 A-AGAAAGAAAGAAA-AGAAGAAAAAAACAGCAGAGAAGG
5393610 AAGGAAAGAAAG-AAA-AAGAAAAA
1 AA-GAAAGAAAGAAAAGAAGAAAAA
5393633 GGGAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
35 1 0.02
36 22 0.44
37 9 0.18
38 7 0.14
39 11 0.22
ACGTcount: A:0.68, C:0.05, G:0.27, T:0.00
Consensus pattern (38 bp):
AAGAAAGAAAGAAAAGAAGAAAAAAACAGCAGAGAAGG
Found at i:5394162 original size:29 final size:30
Alignment explanation
Indices: 5394103--5394160 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5394093 TCCGAGCCTT
*
5394103 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5394133 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5394161 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5394584 original size:44 final size:45
Alignment explanation
Indices: 5394489--5394622 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
5394479 ACAGGACAGA
* *
5394489 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5394535 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
5394579 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5394623 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5396998 original size:12 final size:12
Alignment explanation
Indices: 5396981--5397005 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5396971 ATCTCTTCTG
5396981 GGTATTCTATAT
1 GGTATTCTATAT
5396993 GGTATTCTATAT
1 GGTATTCTATAT
5397005 G
1 G
5397006 CTCTTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (12 bp):
GGTATTCTATAT
Found at i:5398923 original size:8 final size:8
Alignment explanation
Indices: 5398910--5398941 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
5398900 TTATGTTTTA
5398910 TATTATAT
1 TATTATAT
5398918 TATTATAT
1 TATTATAT
5398926 TATTATAT
1 TATTATAT
5398934 TATTATAT
1 TATTATAT
5398942 ATATGACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:5398988 original size:17 final size:17
Alignment explanation
Indices: 5398966--5399030 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
5398956 GAAAGAAAAG
5398966 AAACAGAGAGCAAAACA
1 AAACAGAGAGCAAAACA
* *
5398983 AAACAGAGAAGGAGAAAGAAA
1 AAACAGAG-A-G-CAAA-ACA
*
5399004 GAAACAGAGAGCAAAACG
1 -AAACAGAGAGCAAAACA
5399022 AAACAGAGA
1 AAACAGAGA
5399031 AGGAAGTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 17 0.45
18 2 0.05
19 4 0.11
20 4 0.11
21 3 0.08
22 8 0.21
ACGTcount: A:0.63, C:0.12, G:0.25, T:0.00
Consensus pattern (17 bp):
AAACAGAGAGCAAAACA
Found at i:5399010 original size:39 final size:40
Alignment explanation
Indices: 5398954--5399048 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 40
5398944 ATGACAAAGA
5398954 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5398995 -AGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5399034 AAGTAAGGAAAGAAA
1 AAG-AAAGAAAGAAA
5399049 GAAAGAAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 32 0.64
40 8 0.16
41 10 0.20
ACGTcount: A:0.64, C:0.08, G:0.26, T:0.01
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:5399601 original size:29 final size:30
Alignment explanation
Indices: 5399542--5399599 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5399532 TCCGAGCCTT
*
5399542 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5399572 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5399600 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5399985 original size:45 final size:44
Alignment explanation
Indices: 5399929--5400060 Score: 158
Period size: 45 Copynumber: 3.0 Consensus size: 44
5399919 ACAGGACAGA
*
5399929 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGC-TTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5399974 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* ** * *
5400018 ACAGGAATAATTCATGTAAGTCCATGTTAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAA-ATATGGCATTGG
5400061 CAGGATATTG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
43 8 0.11
44 30 0.40
45 37 0.49
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5403053 original size:30 final size:30
Alignment explanation
Indices: 5403019--5403078 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5403009 GAAATTAACA
5403019 AAATTATATGAAAATATTCAGGGACATACT
1 AAATTATATGAAAATATTCAGGGACATACT
5403049 AAATTATATGAAAATATTCAGGGACATACT
1 AAATTATATGAAAATATTCAGGGACATACT
5403079 GCAAACTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (30 bp):
AAATTATATGAAAATATTCAGGGACATACT
Found at i:5405232 original size:35 final size:36
Alignment explanation
Indices: 5405160--5405232 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
5405150 TCTTGAGTCC
* *
5405160 AAATCAATTTTTTATATATTGAATTGCACAGAGTCA
1 AAATCAATTTTTTATATATTGAATTGCACAAAATCA
*
5405196 AAATC-ATTTTTTATATATTGAATTGTACAAAATCA
1 AAATCAATTTTTTATATATTGAATTGCACAAAATCA
5405231 AA
1 AA
5405233 GGTTACTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (36 bp):
AAATCAATTTTTTATATATTGAATTGCACAAAATCA
Found at i:5407570 original size:29 final size:29
Alignment explanation
Indices: 5407537--5407594 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
5407527 AAAATGGTAA
*
5407537 ACAAAATTTTAATTGTTTGGTTGGAGCCT
1 ACAAAATTTTAATTGTTTGGTTAGAGCCT
5407566 ACAAAATTTTAATTGTTTGGTTAGAGCCT
1 ACAAAATTTTAATTGTTTGGTTAGAGCCT
5407595 TATACAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (29 bp):
ACAAAATTTTAATTGTTTGGTTAGAGCCT
Found at i:5422799 original size:3 final size:3
Alignment explanation
Indices: 5422793--5422818 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5422783 CTACTATTCA
5422793 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
5422819 AACCTGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5424271 original size:26 final size:24
Alignment explanation
Indices: 5424241--5424290 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
5424231 AAATAAAAAA
*
5424241 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
5424267 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
5424291 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:5424310 original size:21 final size:21
Alignment explanation
Indices: 5424261--5424319 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
5424251 ATAATAAATC
*
5424261 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
5424281 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
5424303 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
5424320 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:5425806 original size:90 final size:89
Alignment explanation
Indices: 5425695--5425880 Score: 239
Period size: 90 Copynumber: 2.1 Consensus size: 89
5425685 CATTTGACTG
* * * * * * *
5425695 CTTGAACTTTCATAATGTATTAGAAAGACCTTTAAATTTTTTTAAAAAAGCAATTAAGCTC-CTG
1 CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCTCTCT-
*
5425759 TTTTTATTTTTGCACTAAATTGGGTA
65 TTTTT-TTTTTGCACTAAATTGGATA
* * *
5425785 CTTGAACTTTTAAAATATATTAAAAAGGCCCTCAAACTTTTTCAGAAAAGCAATTAAGCTCTCTT
1 CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCTCTCTT
*
5425850 TTTTTTTTTGCACTCAATTGGATA
66 TTTTTTTTTGCACTAAATTGGATA
5425874 CTTGAAC
1 CTTGAAC
5425881 CACACCTAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 25 0.30
90 56 0.67
91 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (89 bp):
CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCTCTCTT
TTTTTTTTTGCACTAAATTGGATA
Found at i:5425984 original size:19 final size:20
Alignment explanation
Indices: 5425962--5426004 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5425952 AAAAAATCAC
5425962 TAAAAGTT-ATAAAAATAAT
1 TAAAAGTTAATAAAAATAAT
** *
5425981 TAAATTTTAATAAAAATATT
1 TAAAAGTTAATAAAAATAAT
5426001 TAAA
1 TAAA
5426005 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAAGTTAATAAAAATAAT
Found at i:5425993 original size:20 final size:20
Alignment explanation
Indices: 5425970--5426017 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5425960 ACTAAAAGTT
5425970 ATAAAAATAATTAAATTTTA
1 ATAAAAATAATTAAATTTTA
*
5425990 ATAAAAATATTTAAATTTTA
1 ATAAAAATAATTAAATTTTA
*
5426010 TTAAAAAT
1 ATAAAAAT
5426018 TAGAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATAATTAAATTTTA
Found at i:5426057 original size:19 final size:20
Alignment explanation
Indices: 5426026--5426069 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
5426016 ATTAGAAGAG
5426026 AAAATTATAAAAATTGTT-TA
1 AAAATTATAAAAATT-TTATA
5426046 AAAATTAT-AAAATTTTATA
1 AAAATTATAAAAATTTTATA
5426065 AAAAT
1 AAAAT
5426070 CTTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTATAAAAATTTTATA
Found at i:5426140 original size:32 final size:32
Alignment explanation
Indices: 5426045--5426141 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
5426035 AAAATTGTTT
*
5426045 AAAAATTATAAAATTTTATAAAAATCTTAA-AA
1 AAAAATTATAAAATTTTAT-AAAATCATAAGAA
* *
5426077 AAAAATT-TATAATATATATAGAAAT-AT-AGAA
1 AAAAATTATAAAAT-TTTATA-AAATCATAAGAA
* *
5426108 AAAAATTATAAAATTTTATAAAGTCGTAAGAA
1 AAAAATTATAAAATTTTATAAAATCATAAGAA
5426140 AA
1 AA
5426142 TTATAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
30 4 0.08
31 22 0.42
32 26 0.50
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (32 bp):
AAAAATTATAAAATTTTATAAAATCATAAGAA
Found at i:5427213 original size:15 final size:15
Alignment explanation
Indices: 5427195--5427224 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5427185 AAATTTTAAT
*
5427195 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
5427210 TTTTTATAATTTATA
1 TTTTTATAATTTATA
5427225 AATAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:5431114 original size:82 final size:82
Alignment explanation
Indices: 5430977--5431141 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 82
5430967 TAGTTATGCC
5430977 AGCTTATGGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTCA
1 AGCTTATGGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTCA
5431042 TACACCTAATGTCCTTT
66 TACACCTAATGTCCTTT
5431059 AGCTTATGGTTGTTTGAAGACCC-TCTCATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTC
1 AGCTTATGGTTGTTTGAAGACCCTTCT-ATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTC
5431123 ATACACCTAATGTCCTTT
65 ATACACCTAATGTCCTTT
5431141 A
1 A
5431142 ATAGTGTTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
81 3 0.04
82 79 0.96
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (82 bp):
AGCTTATGGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTCA
TACACCTAATGTCCTTT
Found at i:5435591 original size:2 final size:2
Alignment explanation
Indices: 5435584--5435610 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5435574 GTTGTGAATG
5435584 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
5435611 TATATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5463576 original size:18 final size:18
Alignment explanation
Indices: 5463553--5463592 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5463543 TATAATTTTA
*
5463553 AAAAATAC-ATAATACATC
1 AAAAATACTA-AAAACATC
5463571 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
5463589 AAAA
1 AAAA
5463593 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:5463711 original size:30 final size:30
Alignment explanation
Indices: 5463675--5463737 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
5463665 ACTTAACAAG
5463675 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
5463705 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
5463735 CAA
1 CAA
5463738 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:5463792 original size:22 final size:22
Alignment explanation
Indices: 5463766--5463814 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5463756 ATATCTAAAC
5463766 AATAACAACAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * * *
5463788 TATAATAATAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
5463810 AATAA
1 AATAA
5463815 GAAGAAAGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:5465044 original size:25 final size:25
Alignment explanation
Indices: 5465016--5465064 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
5465006 ATATATAAAA
5465016 TTAATTTAAAATTTTCATTGACCGG
1 TTAATTTAAAATTTTCATTGACCGG
*
5465041 TTAATTTAAAATTTTTATTGACCG
1 TTAATTTAAAATTTTCATTGACCG
5465065 AGTTGGTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (25 bp):
TTAATTTAAAATTTTCATTGACCGG
Found at i:5466961 original size:19 final size:18
Alignment explanation
Indices: 5466937--5466980 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
5466927 ACTTGAAAAC
*
5466937 AATTTTTACATTTAAACTT
1 AATTTTTACATCTAAA-TT
**
5466956 AATTTTTTTATCTAAATT
1 AATTTTTACATCTAAATT
5466974 AATTTTT
1 AATTTTT
5466981 GAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTACATCTAAATT
Found at i:5467029 original size:24 final size:24
Alignment explanation
Indices: 5467001--5467046 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5466991 AAATTAATCT
* * *
5467001 TTAAATTTGATAATTTTTCTTATC
1 TTAAACTTGACAAATTTTCTTATC
5467025 TTAAACTTGACAAATTTTCTTA
1 TTAAACTTGACAAATTTTCTTA
5467047 CAATGACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAACTTGACAAATTTTCTTATC
Found at i:5473969 original size:8 final size:8
Alignment explanation
Indices: 5473956--5473980 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5473946 AAAATAAAAA
5473956 TCTTGCTC
1 TCTTGCTC
5473964 TCTTGCTC
1 TCTTGCTC
5473972 TCTTGCTC
1 TCTTGCTC
5473980 T
1 T
5473981 TCATCCACCG
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:0.00, C:0.36, G:0.12, T:0.52
Consensus pattern (8 bp):
TCTTGCTC
Found at i:5475955 original size:48 final size:48
Alignment explanation
Indices: 5475884--5475979 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
5475874 CGTCTTGTTT
5475884 TTAGCTATTGTTATATACTCTGGAAAATGGAATTGAGAACTCTGTCGG
1 TTAGCTATTGTTATATACTCTGGAAAATGGAATTGAGAACTCTGTCGG
5475932 TTAGCTATTGTTATATACTCTGGAAAATGGAATTGAGAACTCTGTCGG
1 TTAGCTATTGTTATATACTCTGGAAAATGGAATTGAGAACTCTGTCGG
5475980 ATCGATATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (48 bp):
TTAGCTATTGTTATATACTCTGGAAAATGGAATTGAGAACTCTGTCGG
Found at i:5489664 original size:15 final size:15
Alignment explanation
Indices: 5489629--5489670 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5489619 TTAAGAATTT
*
5489629 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5489643 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5489657 TATTTAATAATAAT
1 TATTTAATTATAAT
5489671 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5489906 original size:45 final size:44
Alignment explanation
Indices: 5489804--5489913 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
5489794 TTTTCCATTA
5489804 TACTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
* * ***
5489843 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGA-T
* *
5489888 TGCTATTACACTTCTATTCCAATACA
1 TACTATTACACCTCTATTCCAATACA
5489914 CCTCTAATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 17 0.30
40 1 0.02
44 16 0.28
45 23 0.40
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (44 bp):
TACTATTACACCTCTATTCCAATACATTCAACCAAACACAAGAT
Found at i:5489919 original size:16 final size:16
Alignment explanation
Indices: 5489894--5489947 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
5489884 GATTTGCTAT
*
5489894 TACACTTCTATTCCAA
1 TACACCTCTATTCCAA
* *
5489910 TACACCTCTAATCTAA
1 TACACCTCTATTCCAA
*
5489926 TACACTTCTATTCCAA
1 TACACCTCTATTCCAA
5489942 TACACC
1 TACACC
5489948 AATACAGCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACCTCTATTCCAA
Found at i:5503795 original size:25 final size:26
Alignment explanation
Indices: 5503761--5503809 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5503751 TCATACATTA
5503761 TAAAAG-AAAATACAAAAAAAAAAAG
1 TAAAAGAAAAATACAAAAAAAAAAAG
* **
5503786 TAAAGGAAAAATGTAAAAAAAAAA
1 TAAAAGAAAAATACAAAAAAAAAA
5503810 TGAAAATCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (26 bp):
TAAAAGAAAAATACAAAAAAAAAAAG
Found at i:5503815 original size:12 final size:13
Alignment explanation
Indices: 5503774--5503815 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
5503764 AAGAAAATAC
*
5503774 AAAAAAAAAAAGT
1 AAAAAAAAAATGT
**
5503787 AAAGGAAAAATGT
1 AAAAAAAAAATGT
5503800 AAAAAAAAAATG-
1 AAAAAAAAAATGT
5503812 AAAA
1 AAAA
5503816 TCGGTTGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAAAAAAATGT
Found at i:5507533 original size:22 final size:21
Alignment explanation
Indices: 5507499--5507558 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
5507489 TCAGTCATAT
5507499 ATTTTTTCGTTTTAAATAATTTA
1 ATTTTTT--TTTTAAATAATTTA
* *
5507522 ATTTTTTATTTTATATTATTTTA
1 ATTTTTT-TTTTA-AATAATTTA
*
5507545 ACTTTTTTTTTAAA
1 ATTTTTTTTTTAAA
5507559 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 10 0.32
23 20 0.65
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTTTTTTAAATAATTTA
Found at i:5507562 original size:23 final size:25
Alignment explanation
Indices: 5507518--5507570 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
5507508 TTTTAAATAA
* *
5507518 TTTAA-TTTTTTATTTTATATT-AT
1 TTTAACTTTTTTATTTAAAATTAAT
5507541 TTTAACTTTTTT-TTTAAAATTAAT
1 TTTAACTTTTTTATTTAAAATTAAT
5507565 TTTAAC
1 TTTAAC
5507571 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTAACTTTTTTATTTAAAATTAAT
Found at i:5515140 original size:14 final size:13
Alignment explanation
Indices: 5515115--5515139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5515105 ATTCAATCGA
5515115 GAGGTTTTTTTTG
1 GAGGTTTTTTTTG
5515128 GAGGTTTTTTTT
1 GAGGTTTTTTTT
5515140 TATTTTCATA
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:0.08, C:0.00, G:0.28, T:0.64
Consensus pattern (13 bp):
GAGGTTTTTTTTG
Found at i:5521812 original size:42 final size:42
Alignment explanation
Indices: 5521766--5521846 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
5521756 TAGAAAAGTT
*
5521766 ACAGAGAGCAAACGAGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGAGAGAAAGAAAGAAAGAAAGAAAGACTA
* *
5521808 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGAGAGAAAGAAAGAAAGAAAGAAAGA
5521847 AAGAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.59, C:0.09, G:0.28, T:0.04
Consensus pattern (42 bp):
ACAGAGAGCAAACGAGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:5521833 original size:4 final size:4
Alignment explanation
Indices: 5521824--5521856 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
5521814 AGCAAACGTG
*
5521824 AGAA AGAA AGAA GGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
5521857 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:5531634 original size:19 final size:20
Alignment explanation
Indices: 5531597--5531639 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
5531587 AATAATTTTT
* *
5531597 TTATAATAATTAATTATTAA
1 TTATAATAACTAATCATTAA
5531617 TTATAAT-ACTAATCATTAA
1 TTATAATAACTAATCATTAA
5531636 TTAT
1 TTAT
5531640 TACTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATAATAACTAATCATTAA
Found at i:5532165 original size:30 final size:29
Alignment explanation
Indices: 5532124--5532199 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
5532114 AAATTTTAAA
* * *
5532124 TTAATAATAATAAAATTATATTTTAATTTT
1 TTAAAAATAATAAAATT-TAATTTAATTAT
5532154 TTAAAAATAATAAAAATTTAATTTAATTAT
1 TTAAAAATAAT-AAAATTTAATTTAATTAT
*
5532184 TTAAAAATTATAAAAT
1 TTAAAAATAATAAAAT
5532200 ATAAACTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 5 0.12
30 30 0.73
31 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAAAATAATAAAATTTAATTTAATTAT
Found at i:5534387 original size:13 final size:14
Alignment explanation
Indices: 5534349--5534379 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5534339 AAATTCTATT
*
5534349 ATATATTATTTCTA
1 ATATATTATTTTTA
5534363 ATATATTATTTTTA
1 ATATATTATTTTTA
5534377 ATA
1 ATA
5534380 GTTATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATTATTTTTA
Found at i:5535476 original size:38 final size:38
Alignment explanation
Indices: 5535425--5535500 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
5535415 ATTGATCATC
*
5535425 ATGTCATATTATCACATAGG-TTCAGATATTTACATATT
1 ATGTCATACTATCACAT-GGATTCAGATATTTACATATT
* *
5535463 ATGTCATGCTATCACATGGATTTAGATATTTACATATT
1 ATGTCATACTATCACATGGATTCAGATATTTACATATT
5535501 TTTAATTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 32 0.94
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (38 bp):
ATGTCATACTATCACATGGATTCAGATATTTACATATT
Found at i:5540083 original size:53 final size:53
Alignment explanation
Indices: 5539998--5540153 Score: 192
Period size: 53 Copynumber: 3.0 Consensus size: 53
5539988 GACGAAAAAT
* * * *
5539998 ATGTGATAAGTGTG-C-CCGTTTAAGACCGTAGCTGGGTTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
* * *
5540050 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGATATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
* *
5540103 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTA
5540154 TGATATGTGA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 76 0.84
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTACA
Found at i:5552476 original size:45 final size:45
Alignment explanation
Indices: 5552291--5552632 Score: 172
Period size: 45 Copynumber: 7.6 Consensus size: 45
5552281 TATCATCAGC
*
5552291 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAA-A-ACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * * * *** **
5552334 CTTATCTTCACTGAGTAGGAGTGAAGCAGATCGAATTTTGATGA-AT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAAACAT-ACCAGAT
* * * * * * *
5552380 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAG--GCTAAACATACCAGAT
5552424 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* ** **
5552469 CTTATCTTCACTGAGCAGGAGTGAAGCAGG-TCAAATTTTGGCA-AGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-CATACCAGA-T
* * * * * ** * * * *
5552515 CTTATCTCCA-TGTATC-GACAATAGAGCAGATTTCAGC-CACCAG-C
1 CTTATCTTCACTG-AGCAG-GAGTGGAGCAG-GCTAAACATACCAGAT
5552559 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
*
5552604 CTTATCTTCACTGAGCAGGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
5552633 ATCAAATTTT
Statistics
Matches: 216, Mismatches: 58, Indels: 48
0.67 0.18 0.15
Matches are distributed among these distances:
42 6 0.03
43 29 0.13
44 51 0.24
45 78 0.36
46 42 0.19
47 9 0.04
48 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
Found at i:5552522 original size:135 final size:135
Alignment explanation
Indices: 5552287--5552774 Score: 727
Period size: 135 Copynumber: 3.6 Consensus size: 135
5552277 CAGATATCAT
* *
5552287 CAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAA-A-ACCAGATCTTATCTTCACTGAGT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
* * * * *
5552350 AGGAGTGAAGCAGATCGAATTTTGATG-AA-TCTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 AGGAGTGAAGCAGATCAAATTTTG--GCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* *
5552413 CAATCAT
129 CAACCAC
5552420 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
* * *
5552485 AGGAGTGAAGCAGGTCAAATTTTGGCAAGTCTTATCTCCATGTATCGACAATAGAGCAGATTTCA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
*
5552550 GCCAC
131 ACCAC
5552555 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
*
5552620 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA
66 AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
*
5552685 GCCAC
131 ACCAC
* * **
5552690 CAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATA-CAGATCTTATCTTCGCTGATT
1 CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
*
5552754 AGAAGT-AGAGCAGATCAAATT
66 AGGAGTGA-AGCAGATCAAATT
5552775 ACAGCAGACC
Statistics
Matches: 328, Mismatches: 22, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
133 40 0.12
134 39 0.12
135 249 0.76
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (135 bp):
CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGC
AGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCA
ACCAC
Found at i:5562454 original size:22 final size:22
Alignment explanation
Indices: 5562412--5562454 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5562402 ATAAAGTATG
*
5562412 TTATATATTATTTTTTATAATA
1 TTATATATTATATTTTATAATA
5562434 TTATATATTATGATTTT-TAAT
1 TTATATATTAT-ATTTTATAAT
5562455 TCATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATATATTATATTTTATAATA
Found at i:5562569 original size:26 final size:25
Alignment explanation
Indices: 5562536--5562586 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
5562526 AATTATTTAT
*
5562536 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
5562562 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
5562587 GAATAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:5562741 original size:16 final size:15
Alignment explanation
Indices: 5562705--5562747 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
5562695 GGTTATAGTT
*
5562705 TTATTCTATTACAAC
1 TTATTCAATTACAAC
5562720 TCTATTCAATTACAAC
1 T-TATTCAATTACAAC
*
5562736 ATTATTCCATTA
1 -TTATTCAATTA
5562748 TAGTGAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (15 bp):
TTATTCAATTACAAC
Found at i:5567009 original size:28 final size:28
Alignment explanation
Indices: 5566977--5567034 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
5566967 GGTTAAAGTA
5566977 ATCAATTATTGAGGTTCATGTAAAATCG
1 ATCAATTATTGAGGTTCATGTAAAATCG
5567005 ATCAATTATTGAGGTTCATGTAAAATCG
1 ATCAATTATTGAGGTTCATGTAAAATCG
5567033 AT
1 AT
5567035 GTATGTGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (28 bp):
ATCAATTATTGAGGTTCATGTAAAATCG
Found at i:5569740 original size:33 final size:33
Alignment explanation
Indices: 5569698--5569766 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
5569688 TCATAAGCTG
5569698 TTTGTGACAGCAATGCCTGACCTTATTTTTGGT
1 TTTGTGACAGCAATGCCTGACCTTATTTTTGGT
*
5569731 TTTGTGACAGCAGTGCCTGACCTTATTTTTGGT
1 TTTGTGACAGCAATGCCTGACCTTATTTTTGGT
5569764 TTT
1 TTT
5569767 CTTTCTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (33 bp):
TTTGTGACAGCAATGCCTGACCTTATTTTTGGT
Found at i:5578160 original size:18 final size:19
Alignment explanation
Indices: 5578125--5578160 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5578115 CAATTTAATT
*
5578125 TTTTCTTTTTATTTCTTTA
1 TTTTCCTTTTATTTCTTTA
5578144 TTTTCCTTTTA-TTCTTT
1 TTTTCCTTTTATTTCTTT
5578161 CCCTTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCCTTTTATTTCTTTA
Found at i:5591915 original size:25 final size:28
Alignment explanation
Indices: 5591886--5591943 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
5591876 TTTTTTATAA
*
5591886 AAAAGCTTTA-GATG-AA-TGGTAAATT
1 AAAAGCTTTACAATGCAATTGGTAAATT
*
5591911 AAAAGTTTTACTAATGCAATTGGTAAATT
1 AAAAGCTTTAC-AATGCAATTGGTAAATT
5591940 AAAA
1 AAAA
5591944 AGATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.33
27 3 0.11
28 2 0.07
29 13 0.48
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (28 bp):
AAAAGCTTTACAATGCAATTGGTAAATT
Found at i:5595657 original size:87 final size:87
Alignment explanation
Indices: 5595521--5595698 Score: 338
Period size: 87 Copynumber: 2.0 Consensus size: 87
5595511 CCAGCAGCAG
5595521 CAGCAGCATAACTCCGTCGTCCTTTCTCTTTATCACTCTCGTGTTCGGCCTTAGACGCCACTGAA
1 CAGCAGCATAACTCCGTCGTCCTTTCTCTTTATCACTCTCGTGTTCGGCCTTAGACGCCACTGAA
*
5595586 GTACCTCTCTCCTGTCCAGTTC
66 GTACCTCTCTCCTGTCCAGCTC
*
5595608 CAGCAGCATAACTCCGTCGTCCTTTCTCTTTATCACTCTCGTGTTCGGCCTTAGACGCCATTGAA
1 CAGCAGCATAACTCCGTCGTCCTTTCTCTTTATCACTCTCGTGTTCGGCCTTAGACGCCACTGAA
5595673 GTACCTCTCTCCTGTCCAGCTC
66 GTACCTCTCTCCTGTCCAGCTC
5595695 CAGC
1 CAGC
5595699 TCCAGCCCCA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.31
Consensus pattern (87 bp):
CAGCAGCATAACTCCGTCGTCCTTTCTCTTTATCACTCTCGTGTTCGGCCTTAGACGCCACTGAA
GTACCTCTCTCCTGTCCAGCTC
Found at i:5598630 original size:14 final size:14
Alignment explanation
Indices: 5598611--5598640 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5598601 GGAGTCTAGC
5598611 TAGTACCACAGTAG
1 TAGTACCACAGTAG
*
5598625 TAGTACCTCAGTAG
1 TAGTACCACAGTAG
5598639 TA
1 TA
5598641 AGCATCTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (14 bp):
TAGTACCACAGTAG
Found at i:5602638 original size:15 final size:15
Alignment explanation
Indices: 5602618--5602647 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5602608 CAATTAATTT
*
5602618 ATATTAATTTGTGAG
1 ATATTAATTTATGAG
5602633 ATATTAATTTATGAG
1 ATATTAATTTATGAG
5602648 TCAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
ATATTAATTTATGAG
Found at i:5604183 original size:56 final size:56
Alignment explanation
Indices: 5604036--5604183 Score: 138
Period size: 55 Copynumber: 2.6 Consensus size: 56
5604026 CCCCTTAAAG
* * * * * *
5604036 GACTCCTAAAAG-ATACAACTCTCGCACCATCCTAAGGGTTTACTCTCCTAAAGGTAC
1 GACTCCTAAAGGTATA-AA-TCTCACACCCTCCTAAGGATTCACTCTCCTAAAAGTAC
* * * * * * * *
5604093 AACT-CTTAAGGTCTAACTTTTACACCCTCTTAAGGATTCACTCTCCTAAAAGTAT
1 GACTCCTAAAGGTATAAATCTCACACCCTCCTAAGGATTCACTCTCCTAAAAGTAC
5604148 GACTCCTAAAGGTATAAATCTCACACCCTCCTAAGG
1 GACTCCTAAAGGTATAAATCTCACACCCTCCTAAGG
5604184 GATTGCTCTG
Statistics
Matches: 68, Mismatches: 21, Indels: 5
0.72 0.22 0.05
Matches are distributed among these distances:
55 32 0.47
56 31 0.46
57 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (56 bp):
GACTCCTAAAGGTATAAATCTCACACCCTCCTAAGGATTCACTCTCCTAAAAGTAC
Found at i:5605517 original size:6 final size:7
Alignment explanation
Indices: 5605490--5605516 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5605480 AAATCTTTTG
5605490 TAAAAAA
1 TAAAAAA
5605497 TAAAAAA
1 TAAAAAA
5605504 TAAAAAA
1 TAAAAAA
5605511 TAAAAA
1 TAAAAA
5605517 TTCAATGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:5613820 original size:27 final size:27
Alignment explanation
Indices: 5613788--5613842 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
5613778 GGATAATTCA
5613788 GAGGAGAAACTGGTTTCTGAGTCAGTT
1 GAGGAGAAACTGGTTTCTGAGTCAGTT
*
5613815 GAGGAGAAAGTGGTTTCTGAGTCAGTT
1 GAGGAGAAACTGGTTTCTGAGTCAGTT
5613842 G
1 G
5613843 GGGTTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.29
Consensus pattern (27 bp):
GAGGAGAAACTGGTTTCTGAGTCAGTT
Found at i:5618330 original size:7 final size:7
Alignment explanation
Indices: 5618319--5618348 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5618309 TCTGTACTCG
*
5618319 TTTAAGG
1 TTTAAGA
5618326 TTTAAGA
1 TTTAAGA
5618333 TTTAAGA
1 TTTAAGA
5618340 TTTAAGA
1 TTTAAGA
5618347 TT
1 TT
5618349 CGACTTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (7 bp):
TTTAAGA
Found at i:5625403 original size:59 final size:59
Alignment explanation
Indices: 5625306--5625487 Score: 215
Period size: 67 Copynumber: 2.9 Consensus size: 59
5625296 CAGCTCCAAT
* *
5625306 ATTAC-CAAAACATTACAAAAGCTGTAATAATTTGTGTAATTGGATAATGTTTTGT-ATA
1 ATTACACAAAACATTAC-AAAGTTGTAATAATTTGTGTAATTGGGTAATGTTTTGTCATA
5625364 ATTACACAAAACATTACGAAAGTTGTAATAATTTGTGTAATTGGGTAATGCTTTGTGGGATTGCA
1 ATTACACAAAACATTAC-AAAGTTGTAATAATTTGTGTAATTGGGTAATG-TTT-T--G--T-CA
5625429 TA
58 TA
* *
5625431 ATTACACAATACATTACAAATGTTGTAATAATTTGTATAATTGGGTAATTGTTTTGT
1 ATTACACAAAACATTACAAA-GTTGTAATAATTTGTGTAATTGGGTAA-TGTTTTGT
5625488 GTAGTAGAAG
Statistics
Matches: 108, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
58 5 0.05
59 41 0.38
60 3 0.03
61 1 0.01
62 1 0.01
63 1 0.01
64 1 0.01
65 1 0.01
66 4 0.04
67 48 0.44
68 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (59 bp):
ATTACACAAAACATTACAAAGTTGTAATAATTTGTGTAATTGGGTAATGTTTTGTCATA
Found at i:5645815 original size:30 final size:30
Alignment explanation
Indices: 5645779--5645836 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
5645769 TGGCAAGAAG
5645779 AATTTCCTCAGAAAGCTTATCACTTTGAAC
1 AATTTCCTCAGAAAGCTTATCACTTTGAAC
*
5645809 AATTTCCTCAGAAAGCTTATCAGTTTGA
1 AATTTCCTCAGAAAGCTTATCACTTTGA
5645837 CATTTACCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (30 bp):
AATTTCCTCAGAAAGCTTATCACTTTGAAC
Found at i:5655623 original size:15 final size:15
Alignment explanation
Indices: 5655603--5655659 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
5655593 CGATGAATTT
*
5655603 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
5655618 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
5655633 ATTGAAATTATATTG
1 ATTGAAATTATATTG
5655648 ATTG-AATTATAT
1 ATTGAAATTATAT
5655660 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:5656062 original size:23 final size:23
Alignment explanation
Indices: 5656032--5656118 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
5656022 GCTTTATCAA
* *
5656032 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
5656055 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
5656076 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCATGTGTCGTATT
* * *
5656097 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
5656119 ACTAATTAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
21 32 0.60
23 20 0.38
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:5656079 original size:21 final size:22
Alignment explanation
Indices: 5656044--5656093 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
5656034 AGGCACTTTA
5656044 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
5656067 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
5656088 TGTGTC
1 TGTGTC
5656094 ATTTTAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:5673009 original size:11 final size:11
Alignment explanation
Indices: 5672989--5673019 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5672979 ACCTAATTAC
*
5672989 ATCAATCATGA
1 ATCAAACATGA
5673000 ATCAAACATGA
1 ATCAAACATGA
5673011 ATCAAACAT
1 ATCAAACAT
5673020 AGTTCTAAAT
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:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (11 bp):
ATCAAACATGA
Found at i:5679231 original size:23 final size:23
Alignment explanation
Indices: 5679201--5679287 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
5679191 GCTTTACTGA
* *
5679201 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
5679224 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
5679245 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
5679267 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
5679288 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:5681699 original size:73 final size:72
Alignment explanation
Indices: 5681612--5681758 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 72
5681602 CATACAATGT
5681612 TGTGTTACAGCCTGCCATAGGTGTAAACTAGTGGAATTTAAATTTAATGAAATTGTAATTTGACT
1 TGTGTTACAGCCTGCCATAGGTGTAAACTAGTGGAATTTAAATTTAATGAAATTGTAATTTGACT
5681677 AACCCCAC
66 AA-CCCAC
5681685 TGTGTTACAGCCTGCCATAGGTGTAAACTAGTGGAATTTAAATTTAATGAAATTGTAATTTGACT
1 TGTGTTACAGCCTGCCATAGGTGTAAACTAGTGGAATTTAAATTTAATGAAATTGTAATTTGACT
5681750 AACCCAC
66 AACCCAC
5681757 TG
1 TG
5681759 GACACTTATC
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 7 0.09
73 67 0.91
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
TGTGTTACAGCCTGCCATAGGTGTAAACTAGTGGAATTTAAATTTAATGAAATTGTAATTTGACT
AACCCAC
Found at i:5686794 original size:20 final size:21
Alignment explanation
Indices: 5686769--5686808 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5686759 CATCGTCCGG
*
5686769 TTTTCTTTTTCTTTT-TTTGC
1 TTTTCTATTTCTTTTCTTTGC
*
5686789 TTTTCTATTTGTTTTCTTTG
1 TTTTCTATTTCTTTTCTTTG
5686809 TTTCCGGCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTCTATTTCTTTTCTTTGC
Found at i:5687462 original size:16 final size:17
Alignment explanation
Indices: 5687441--5687476 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
5687431 CAACATTTTC
5687441 TTTAATATATTT-AAAT
1 TTTAATATATTTAAAAT
5687457 TTTAATATATTTAAAAT
1 TTTAATATATTTAAAAT
5687474 TTT
1 TTT
5687477 TAAGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAATATATTTAAAAT
Found at i:5687661 original size:19 final size:18
Alignment explanation
Indices: 5687634--5687678 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
5687624 TAAAATTAGT
*
5687634 TATACTTAACAAATTTTAA
1 TATATTTAA-AAATTTTAA
5687653 TATATTT-AAAATTTTAA
1 TATATTTAAAAATTTTAA
5687670 TATATTTAA
1 TATATTTAA
5687679 TTTTTTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.67
18 2 0.08
19 6 0.25
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TATATTTAAAAATTTTAA
Done.