Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008048.1 Hibiscus syriacus cultivar Beakdansim tig00110540_pilon, whole genome shotgun sequence
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: 541079
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:270998 original size:35 final size:35
Alignment explanation
Indices: 270951--271036 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
270941 AAAACAGTCA
* * *
270951 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
270986 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
271021 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
271037 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:271030 original size:21 final size:21
Alignment explanation
Indices: 271005--271047 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
270995 TTCTAAACCC
271005 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
271026 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
271047 T
1 T
271048 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:271202 original size:16 final size:18
Alignment explanation
Indices: 271170--271203 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
271160 TATTAATGTA
271170 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
271188 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
271204 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:271872 original size:130 final size:130
Alignment explanation
Indices: 271669--271916 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
271659 AATTTTCTTC
* **
271669 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
*
271734 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
271799 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTACTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
271864 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
271917 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:275331 original size:39 final size:39
Alignment explanation
Indices: 275251--275331 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
275241 GAGTATATAT
***
275251 ATTTAAATTAAATATATAAATATTAAATATATATTTTTA
1 ATTTAAATTAAATATATAAATATTAAATATATATAAATA
* * *
275290 ATTTAAATTAAATTTATTAATATTATATATATATAAATA
1 ATTTAAATTAAATATATAAATATTAAATATATATAAATA
275329 ATT
1 ATT
275332 ATTTTTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
ATTTAAATTAAATATATAAATATTAAATATATATAAATA
Found at i:284987 original size:2 final size:2
Alignment explanation
Indices: 284974--285037 Score: 92
Period size: 2 Copynumber: 32.0 Consensus size: 2
284964 CAAAATTGAC
* * * *
284974 AT AT AT AC AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
285016 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
285038 GCTTCTCTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:284991 original size:12 final size:12
Alignment explanation
Indices: 284974--285037 Score: 105
Period size: 12 Copynumber: 5.5 Consensus size: 12
284964 CAAAATTGAC
284974 ATATATACATAT
1 ATATATACATAT
284986 ATATATAC--AT
1 ATATATACATAT
284996 ATATATACATAT
1 ATATATACATAT
285008 ATATATACATAT
1 ATATATACATAT
*
285020 ATATATATATAT
1 ATATATACATAT
285032 ATATAT
1 ATATAT
285038 GCTTCTCTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
10 10 0.20
12 39 0.80
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATATACATAT
Found at i:285002 original size:22 final size:22
Alignment explanation
Indices: 284974--285036 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
284964 CAAAATTGAC
284974 ATATATACATATATATATACAT
1 ATATATACATATATATATACAT
284996 ATATATACATATATATATACAT
1 ATATATACATATATATATACAT
*
285018 ATATATATATATATATATA
1 ATATATACATATATATATA
285037 TGCTTCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATATACATATATATATACAT
Found at i:285326 original size:10 final size:10
Alignment explanation
Indices: 285311--285350 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
285301 TAAATAATAG
285311 ACGAACATAA
1 ACGAACATAA
*
285321 ACGAACGTAA
1 ACGAACATAA
*
285331 ACGAACAAAA
1 ACGAACATAA
285341 ACGAACATAA
1 ACGAACATAA
285351 TAAATGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.60, C:0.20, G:0.12, T:0.07
Consensus pattern (10 bp):
ACGAACATAA
Found at i:285401 original size:23 final size:23
Alignment explanation
Indices: 285328--285401 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
285318 TAAACGAACG
* * *
285328 TAAACGAACAAAAACGAACATAA
1 TAAACTAACATAAACGAACACAA
* * *
285351 TAAA-TGAATATAAAAGAACACGA
1 TAAACT-AACATAAACGAACACAA
285374 TAAACTAACATAAACGAACACAA
1 TAAACTAACATAAACGAACACAA
*
285397 AAAAC
1 TAAAC
285402 AAACTTATTC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (23 bp):
TAAACTAACATAAACGAACACAA
Found at i:285735 original size:14 final size:14
Alignment explanation
Indices: 285716--285757 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
285706 AACATAAATG
*
285716 AACATAAATGAATA
1 AACATAAATGAACA
*
285730 AACATAAATGAACG
1 AACATAAATGAACA
*
285744 AACATAAACGAACA
1 AACATAAATGAACA
285758 TATAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACA
Found at i:285757 original size:24 final size:24
Alignment explanation
Indices: 285704--285759 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
285694 GTCCTCTGTT
*
285704 CGAACATAAATGAACATAAATGAA
1 CGAACATAAATGAACATAAATAAA
** *
285728 TAAACATAAATGAACGA-ACATAAA
1 CGAACATAAATGAAC-ATAAATAAA
285752 CGAACATA
1 CGAACATA
285760 TAATAAAACG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (24 bp):
CGAACATAAATGAACATAAATAAA
Found at i:285896 original size:21 final size:21
Alignment explanation
Indices: 285870--285913 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
285860 GGATCGGGAG
285870 AAAGAATCTCTAAAGATAATT
1 AAAGAATCTCTAAAGATAATT
285891 AAAGAATCTCTAAAGATAATT
1 AAAGAATCTCTAAAGATAATT
285912 AA
1 AA
285914 GAACGATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAGAATCTCTAAAGATAATT
Found at i:294157 original size:3 final size:3
Alignment explanation
Indices: 294151--294211 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
294141 AAAAAATATG
* * **
294151 TAA TAA TAAA TAA TAA T-A CAA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
294195 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
294212 CGATAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 39 0.85
4 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:294188 original size:29 final size:30
Alignment explanation
Indices: 294156--294218 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
294146 ATATGTAATA
*
294156 ATAAATAATAAT-ACAATAATAAGATAACG
1 ATAAATAATAATAACAATAATAAAATAACG
*
294185 AT-AATAATAATAATAATAATAAAATAACG
1 ATAAATAATAATAACAATAATAAAATAACG
294214 ATAAA
1 ATAAA
294219 AAAACCCGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 9 0.30
29 19 0.63
30 2 0.07
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (30 bp):
ATAAATAATAATAACAATAATAAAATAACG
Found at i:294434 original size:43 final size:43
Alignment explanation
Indices: 294370--294704 Score: 228
Period size: 43 Copynumber: 7.9 Consensus size: 43
294360 TGGTGGGGAC
* ** *
294370 GACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGGT
*** *
294413 GACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAA--AT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGGT
* ** *
294453 GACACGACTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGGT
*
294496 GACACGGCTCATACGTGATGAAGAGATCTGG---TCT-GGGGAT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGG-T
* * * * * *
294536 GACACGGTTCCTACATGATGAGGACG-GCTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGA-GATCTGGTCATCT-AAGG-G-T
* * * * * * * *
294582 AACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGTT
1 GACACGGCTCATACGTGATGAAGA-GATCTGGTCATCTAAGGGT
* * *
294625 GACACGGCTCCTACGTGATGAGGAGATCTGG---TCT-GGGGAAT
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGG--T
*
294666 GACACGGCTCATACGTGATGAGGAGATCTGGTCATCTAA
1 GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAA
294705 AGGAGTTATG
Statistics
Matches: 234, Mismatches: 40, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.02
40 61 0.26
41 34 0.15
42 3 0.01
43 87 0.37
44 3 0.01
45 5 0.02
46 36 0.15
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
GACACGGCTCATACGTGATGAAGAGATCTGGTCATCTAAGGGT
Found at i:294509 original size:83 final size:83
Alignment explanation
Indices: 294377--294541 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
294367 GACGACACTG
294377 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
294442 GGTC-GGGAAATGACACGA
66 GGTCTGGG-AATGACACGA
294460 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
*
294525 GGTCTGGGGATGACACG
66 GGTCTGGGAATGACACG
294542 GTTCCTACAT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 77 0.96
84 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.21
Consensus pattern (83 bp):
CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
GGTCTGGGAATGACACGA
Found at i:294604 original size:46 final size:43
Alignment explanation
Indices: 294537--294648 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 43
294527 TCTGGGGATG
*
294537 ACACGGTTCCTACATGATGAGGACGGCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT-AAGGT--TA
** * *
294583 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGTTA
*
294626 ACACGGCTCCTACGTGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
294649 GATCTGGTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 23 0.38
45 4 0.07
46 33 0.55
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGTTA
Found at i:294853 original size:63 final size:62
Alignment explanation
Indices: 294785--294902 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 62
294775 TTTCAAAAGC
*
294785 AACTGTCTCAAAAGAGACAAAATTTTGTTTCAAA-GGAAATGA-CTCAAAGATTGTTTAAAGGAA
1 AACTGTCTCAAAAGAGACAAAA-TTCGTTT-AAAGGGAAATGATCTCAAAGA-TGTTTAAAGGAA
* *
294848 AACTGTCTCGAATGAGACAAAATTCGTTTAAAGGGAAATGATCTCAAAGATGTTT
1 AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGGGAAATGATCTCAAAGATGTTT
294903 GTTTTGTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
61 3 0.06
62 19 0.38
63 28 0.56
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (62 bp):
AACTGTCTCAAAAGAGACAAAATTCGTTTAAAGGGAAATGATCTCAAAGATGTTTAAAGGAA
Found at i:295107 original size:37 final size:36
Alignment explanation
Indices: 295061--295176 Score: 104
Period size: 37 Copynumber: 3.3 Consensus size: 36
295051 TCAAAGATTT
295061 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
1 TTTCAAAAGAAA-TATCTTAAGAGAGACAAAATTTTG
* **
295098 TTTCCAAAG-AA-A-C-----AGACTCAAAGATTTTTG
1 TTTCAAAAGAAATATCTTAAGAGAGACAAA-A-TTTTG
295128 TTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTG
1 TTTCAAAAGAAA-TATCTTAAGAGAGACAAAATTTTG
*
295165 TTTCCAAAGAAA
1 TTTCAAAAGAAA
295177 CAAACTCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
28 7 0.11
29 1 0.02
30 13 0.21
31 2 0.03
33 2 0.03
34 2 0.03
36 2 0.03
37 24 0.39
38 1 0.02
39 7 0.11
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (36 bp):
TTTCAAAAGAAATATCTTAAGAGAGACAAAATTTTG
Found at i:295124 original size:29 final size:28
Alignment explanation
Indices: 295088--295221 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 28
295078 TTAAGAGAGA
295088 CAAA-ATTTTGTTTCCAAAGAAACAGACT
1 CAAAGATTTTGTTTCCAAAGAAACA-ACT
* *
295116 CAAAGATTTTTGTTTCAAAAGAAACTATCTT
1 CAAAGA-TTTTGTTTCCAAAGAAAC-AAC-T
*
295147 AAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACT
1 CA-A-AG-----ATTTTGTTTCCAAAGAAAC-AACT
295183 CAAAGATTTT-TTTCCGAAAGAAACAATCT
1 CAAAGATTTTGTTTCC-AAAGAAACAA-CT
295212 CAAAGATTTT
1 CAAAGATTTT
295222 TTCACAAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
28 11 0.13
29 26 0.30
30 18 0.21
31 3 0.03
32 1 0.01
33 2 0.02
34 2 0.02
35 1 0.01
36 2 0.02
37 19 0.22
38 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (28 bp):
CAAAGATTTTGTTTCCAAAGAAACAACT
Found at i:295148 original size:67 final size:66
Alignment explanation
Indices: 294999--295211 Score: 265
Period size: 67 Copynumber: 3.3 Consensus size: 66
294989 AAAGATTTAC
* * * * * *
294999 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTTAT-TTT--AAGAAAAACAGATTCAAAGA--T
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTT-TGTTTCCAA-AGAAACAGACTCAAAGATTT
295059 TTT
64 TTT
*
295062 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
295127 GT
66 -T
*
295129 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
295194 T
66 T
* * *
295195 TCCGAAAGAAACAATCT
1 TTCAAAAGAAACTATCT
295212 CAAAGATTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.01
63 32 0.24
64 15 0.11
65 2 0.02
66 18 0.14
67 64 0.48
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
T
Found at i:295197 original size:28 final size:29
Alignment explanation
Indices: 295155--295223 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
295145 TTAAGAGAGA
295155 CAAA-ATTTTGTTTCC-AAAGAAACAAACT
1 CAAAGATTTT-TTTCCGAAAGAAACAAACT
*
295183 CAAAGATTTTTTTCCGAAAGAAACAATCT
1 CAAAGATTTTTTTCCGAAAGAAACAAACT
295212 CAAAGATTTTTT
1 CAAAGATTTTTT
295224 CACAAAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 9 0.24
29 29 0.76
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (29 bp):
CAAAGATTTTTTTCCGAAAGAAACAAACT
Found at i:295340 original size:26 final size:25
Alignment explanation
Indices: 295311--295421 Score: 96
Period size: 28 Copynumber: 4.1 Consensus size: 25
295301 CAAAACTTTG
* *
295311 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
295337 TTTCAAAAGAAACAACTCAAAGATATT
1 TTTCAAAAGAAACAACTCAAAG--ATT
* *
295364 TATTCAAAAGGAACAAACTCCAAGATTT
1 T-TTCAAAAGAAAC-AACTCAAAGA-TT
* *
295392 TATTTAAAAGGAACTAACTCAAAGATT
1 T-TTCAAAAGAAAC-AACTCAAAGATT
295419 TTT
1 TTT
295422 TTTCAAGAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
25 8 0.11
26 14 0.19
27 8 0.11
28 35 0.48
29 8 0.11
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:295378 original size:28 final size:29
Alignment explanation
Indices: 295326--295427 Score: 115
Period size: 28 Copynumber: 3.7 Consensus size: 29
295316 AAATAAATAG
*
295326 ACTCAAAG--ATTT-TTCAAAAGAAAC-A
1 ACTCAAAGATATTTATTCAAAAGGAACAA
295351 ACTCAAAGATATTTATTCAAAAGGAACAA
1 ACTCAAAGATATTTATTCAAAAGGAACAA
* * *
295380 ACTCCAAGAT-TTTATTTAAAAGGAACTA
1 ACTCAAAGATATTTATTCAAAAGGAACAA
* *
295408 ACTCAAAGATTTTTTTTCAA
1 ACTCAAAGATATTTATTCAA
295428 GAGAAACTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
25 8 0.12
27 4 0.06
28 36 0.55
29 17 0.26
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (29 bp):
ACTCAAAGATATTTATTCAAAAGGAACAA
Found at i:295769 original size:28 final size:28
Alignment explanation
Indices: 295733--295787 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
295723 AAAGTTTGTT
295733 TTTGAGAAAACGATCTCAAGTGAGACAG
1 TTTGAGAAAACGATCTCAAGTGAGACAG
*
295761 TTTGTGAAAACGATCTCAAGTGAGACA
1 TTTGAGAAAACGATCTCAAGTGAGACA
295788 AAAATTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (28 bp):
TTTGAGAAAACGATCTCAAGTGAGACAG
Found at i:296031 original size:21 final size:21
Alignment explanation
Indices: 295970--296031 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
295960 TGTGGAAAAA
*
295970 TGTCTCAAGCGAGACATAATT
1 TGTCTCAAGCGAGACAAAATT
* * * *
295991 TGTTTTAA---AGA-GAAAGT
1 TGTCTCAAGCGAGACAAAATT
296008 TGTCTCAAGCGAGACAAAATT
1 TGTCTCAAGCGAGACAAAATT
296029 TGT
1 TGT
296032 TTTTAAGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 8
0.62 0.20 0.18
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (21 bp):
TGTCTCAAGCGAGACAAAATT
Found at i:296048 original size:36 final size:36
Alignment explanation
Indices: 295964--296058 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 36
295954 AAAGTTTGTG
*
295964 GAAAAATGTCTCAAGCGAGACATAATTTGTTTTAAA
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTAAA
* *
296000 GAGAAAGTTGTCTCAAGCGAGACAAAATTTGTTTTTAA
1 GA-AAA-ATGTCTCAAGCGAGACAAAATTTGTTTTAAA
* * *
296038 GAAAACTGTCTCTAGTGAGAC
1 GAAAAATGTCTCAAGCGAGAC
296059 GACACTTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
36 15 0.29
37 6 0.12
38 30 0.59
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTAAA
Found at i:297645 original size:12 final size:11
Alignment explanation
Indices: 297626--297696 Score: 76
Period size: 12 Copynumber: 6.5 Consensus size: 11
297616 TTCTCTTTGC
297626 TTTTCTTTGAT
1 TTTTCTTTGAT
297637 TTTTGCTTTGAT
1 TTTT-CTTTGAT
*
297649 TTTTCTCT--T
1 TTTTCTTTGAT
**
297658 TGCTCTTTG-T
1 TTTTCTTTGAT
297668 TTTTCTTTGAT
1 TTTTCTTTGAT
297679 TTTTGCTTTGAT
1 TTTT-CTTTGAT
297691 TTTTCT
1 TTTTCT
297697 CTTTGCTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
9 6 0.12
10 8 0.16
11 14 0.28
12 22 0.44
ACGTcount: A:0.06, C:0.13, G:0.11, T:0.70
Consensus pattern (11 bp):
TTTTCTTTGAT
Found at i:297676 original size:17 final size:18
Alignment explanation
Indices: 297649--297718 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 18
297639 TTGCTTTGAT
297649 TTTTCTCTTTGCTCTTTG
1 TTTTCTCTTTGCTCTTTG
*
297667 TTTT-TCTTTGATTTTTGCTTTG
1 TTTTCTCTTTG----CT-CTTTG
297689 ATTTTTCTCTTTGCTCTTTG
1 --TTTTCTCTTTGCTCTTTG
297709 TTTT-TCTTTG
1 TTTTCTCTTTG
297719 GTTTGATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
17 12 0.29
18 8 0.19
20 5 0.12
21 2 0.05
22 5 0.12
24 4 0.10
25 6 0.14
ACGTcount: A:0.03, C:0.16, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTTCTCTTTGCTCTTTG
Found at i:297730 original size:42 final size:42
Alignment explanation
Indices: 297613--297718 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
297603 TCACTTTGTT
*
297613 TCTTT-CTCTTTGCTTTTCTTTGATTTTTGCTTTGATTTTTC
1 TCTTTGCTCTTTGTTTTTCTTTGATTTTTGCTTTGATTTTTC
297654 TCTTTGCTCTTTGTTTTTCTTTGATTTTTGCTTTGATTTTTC
1 TCTTTGCTCTTTGTTTTTCTTTGATTTTTGCTTTGATTTTTC
297696 TCTTTGCTCTTTGTTTTTCTTTG
1 TCTTTGCTCTTTGTTTTTCTTTG
297719 GTTTGATCTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
41 5 0.08
42 58 0.92
ACGTcount: A:0.04, C:0.16, G:0.11, T:0.69
Consensus pattern (42 bp):
TCTTTGCTCTTTGTTTTTCTTTGATTTTTGCTTTGATTTTTC
Found at i:298359 original size:26 final size:24
Alignment explanation
Indices: 298329--298399 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
298319 CAAGGTGGAA
298329 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
298353 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
298375 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
298399 A
1 A
298400 TAAAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:298384 original size:20 final size:20
Alignment explanation
Indices: 298316--298390 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
298306 AAATACAGTG
*
298316 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
298335 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
298361 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
298381 TTTCAAGGTC
1 TTTCAAGGTC
298391 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:298407 original size:46 final size:45
Alignment explanation
Indices: 298314--298407 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
298304 ATAAATACAG
* **
298314 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAAAA
*
298359 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAAAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAAAA
298405 TGT
1 TGT
298408 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAAAA
Found at i:299641 original size:31 final size:32
Alignment explanation
Indices: 299585--299646 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
299575 TGACAAAATG
299585 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
299617 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
299647 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:303218 original size:3 final size:3
Alignment explanation
Indices: 303212--303275 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
303202 AAAAAATATG
* * **
303212 TAA TAA TAAA TAA TAA T-A CAA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
303256 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
303276 CGATAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:303250 original size:32 final size:32
Alignment explanation
Indices: 303214--303281 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
303204 AAAATATGTA
*
303214 ATAATAAATAATAAT-ACAATAATAAGATAACG
1 ATAAT-AATAATAATAACAATAATAAAATAACG
*
303246 ATAATAATAATAATAATAATAATAAAATAACG
1 ATAATAATAATAATAACAATAATAAAATAACG
303278 ATAA
1 ATAA
303282 AAAAACCCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (32 bp):
ATAATAATAATAATAACAATAATAAAATAACG
Found at i:304245 original size:16 final size:18
Alignment explanation
Indices: 304221--304261 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
304211 AGAAATATTT
*
304221 TTTATTTAGG-TTAA-AA
1 TTTAATTAGGATTAATAA
304237 TTTAATTAGGTATTAATAA
1 TTTAATTAGG-ATTAATAA
304256 TTTAAT
1 TTTAAT
304262 CAGTCTAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (18 bp):
TTTAATTAGGATTAATAA
Found at i:305809 original size:60 final size:61
Alignment explanation
Indices: 305714--305839 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 61
305704 TGATCTTCCA
* * * *
305714 ACTATAGGACGTTATTTTATTTGAGTCTCTTAACTATTAAAAGTTACAAAATGGTC-CCTCG
1 ACTATAGAACGTTAATTTAGTTGAGTCTCTCAACTATTAAAAGTTACAAAATGGTCACC-CG
*
305775 ACTATAGAACGTTAATTT-GTTGAGTCTCTCAACTATTAAAAGTTATAAAATGGTCACCCG
1 ACTATAGAACGTTAATTTAGTTGAGTCTCTCAACTATTAAAAGTTACAAAATGGTCACCCG
305835 ACTAT
1 ACTAT
305840 TCATTATATT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 41 0.69
61 18 0.31
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (61 bp):
ACTATAGAACGTTAATTTAGTTGAGTCTCTCAACTATTAAAAGTTACAAAATGGTCACCCG
Found at i:308339 original size:18 final size:18
Alignment explanation
Indices: 308309--308347 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
308299 AAATCTGAAT
308309 TTTTTTTTATTTTA-TTA
1 TTTTTTTTATTTTATTTA
308326 TTTTTTTTATTTTTATTTA
1 TTTTTTTTA-TTTTATTTA
308345 TTT
1 TTT
308348 AAACTACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTATTTTATTTA
Found at i:311210 original size:88 final size:88
Alignment explanation
Indices: 311061--311237 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
311051 CATTTAAATC
311061 AGGGAAGGTTTTCTTTCACATAAAGCATTTCATTTCATGGGCTTTAATCTCATTTCTTTCGATGT
1 AGGGAAGGTTTTCTTTCACATAAAGCATTTCATTTCATGGGCTTTAATCTCATTTCTTTCGATGT
311126 TTTCTCAACTTGATCTCAATATT
66 TTTCTCAACTTGATCTCAATATT
*
311149 AGGGAAGGTTTTCTTTCACGTAAAGCATTTCATTTCATGGGCTTTAATCTCATTTCTTTCGATGT
1 AGGGAAGGTTTTCTTTCACATAAAGCATTTCATTTCATGGGCTTTAATCTCATTTCTTTCGATGT
311214 TTTCTCAACTTGATCTCAATATT
66 TTTCTCAACTTGATCTCAATATT
311237 A
1 A
311238 TCCATTCAGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (88 bp):
AGGGAAGGTTTTCTTTCACATAAAGCATTTCATTTCATGGGCTTTAATCTCATTTCTTTCGATGT
TTTCTCAACTTGATCTCAATATT
Found at i:312376 original size:18 final size:18
Alignment explanation
Indices: 312353--312389 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
312343 GTACTTCACC
312353 GGGAGAAGGATGTGCATG
1 GGGAGAAGGATGTGCATG
*
312371 GGGAGAAGGTTGTGCATG
1 GGGAGAAGGATGTGCATG
312389 G
1 G
312390 TTGTGCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.51, T:0.19
Consensus pattern (18 bp):
GGGAGAAGGATGTGCATG
Found at i:313754 original size:2 final size:2
Alignment explanation
Indices: 313747--313776 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
313737 CTCAAGACTA
313747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
313777 GTTGCGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:313861 original size:25 final size:25
Alignment explanation
Indices: 313833--313885 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
313823 TAAAATTCGG
313833 TAATGTCATGACATTGTTAATTATT
1 TAATGTCATGACATTGTTAATTATT
313858 TAATGTCATGACATTGTTAATTATT
1 TAATGTCATGACATTGTTAATTATT
313883 TAA
1 TAA
313886 CAGTAGAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (25 bp):
TAATGTCATGACATTGTTAATTATT
Found at i:317169 original size:45 final size:45
Alignment explanation
Indices: 317075--317172 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
317065 ATCTAAAGCT
* *
317075 TTTTGATTATTGGATTGTCAAAAGTAAAATCAAACGATTAGTTTA
1 TTTTGATTATTGGATTGTCAAAAGTAAAATCAAACGATTAATTCA
* * * *
317120 TTTTGATTATTGGATTGTGAGAAGTAAAATCAAAGGATTAATTCC
1 TTTTGATTATTGGATTGTCAAAAGTAAAATCAAACGATTAATTCA
317165 TTTTGATT
1 TTTTGATT
317173 TCCGTTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (45 bp):
TTTTGATTATTGGATTGTCAAAAGTAAAATCAAACGATTAATTCA
Found at i:318635 original size:135 final size:135
Alignment explanation
Indices: 318395--318661 Score: 347
Period size: 135 Copynumber: 2.0 Consensus size: 135
318385 GGGATTAGTA
* * * *
318395 GACTTGGGGGTGTCGACAATGTCCTCAGTTTCGGATTTGCTTCCCGCTTCTGAAGCAACGTCAAC
1 GACTTGGGGGTGACGACAATGTCCTCAGTTTCGGATTTGCTGCCCGCTTCTAAAGCAACGACAAC
* * * * * *
318460 TGGTCCACTAACACTTTCAGGGGTATGATCCTTGGCTTTGGTAACATTGTCGCCATCC-TCGGGT
66 TGGTCCAATAACACTTTCACGGGCATGAACCTTAGATTTGGTAACATTGTCGCCATCCTTC-GGT
318524 TTGGTT
130 TTGGTT
* * * * * *
318530 GACTTGGGTGTGACGACACTGTCCTTAGTTTTGGATTTGCTGCCCGCTTTTAAAGCAAGGACAAC
1 GACTTGGGGGTGACGACAATGTCCTCAGTTTCGGATTTGCTGCCCGCTTCTAAAGCAACGACAAC
* * *
318595 TGGTCCAATACCACTTTTACGGGCATTAACCTTAGATTTGGTAACATTGTCGCCATCCTTCGGTT
66 TGGTCCAATAACACTTTCACGGGCATGAACCTTAGATTTGGTAACATTGTCGCCATCCTTCGGTT
318660 TG
131 TG
318662 TCATCAGCCT
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
135 110 0.98
136 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (135 bp):
GACTTGGGGGTGACGACAATGTCCTCAGTTTCGGATTTGCTGCCCGCTTCTAAAGCAACGACAAC
TGGTCCAATAACACTTTCACGGGCATGAACCTTAGATTTGGTAACATTGTCGCCATCCTTCGGTT
TGGTT
Found at i:318788 original size:153 final size:153
Alignment explanation
Indices: 318631--318967 Score: 403
Period size: 153 Copynumber: 2.2 Consensus size: 153
318621 TAACCTTAGA
* * *
318631 TTTGGTAACATTGTCGCCATCCTTCGGTTTGTCATCAG-CCTTGGGTTTGGTTGACTTAGG-CCT
1 TTTGGTAACATTGTCACCATCCTTGGGTTTGTC-TCAGTCCTTGGGTTTGGTTGACTT-GGTACT
** * * *
318694 GTCAACACTGCCCTCAGTTTTGGATTTCCTGCCCAATTCTGCAGCAACTTCAACTGGT-C-TCCT
64 GTCAACACCACCCTCAGTTTTGGATTTCCTGCCCAATTCTGAAGCAACATCAACTCGTACAT--T
318757 ACCACTTTTAGAGGTATGATCCTTGGC
127 ACCACTTTTAGAGGTATGATCCTTGGC
* * *
318784 TTTGGTAACATTGTCACCATCCTTGGGTTTGTCTCCGTCCTTGGGTTTGGTTGGCTTGGTAGTGT
1 TTTGGTAACATTGTCACCATCCTTGGGTTTGTCTCAGTCCTTGGGTTTGGTTGACTTGGTACTGT
** * * * * * * *
318849 TGACGCCATCCTCAGTTTTGGATTTGCTTCCCACTTCTGAAGCAACATCGATTCGTACATTACCA
66 CAACACCACCCTCAGTTTTGGATTTCCTGCCCAATTCTGAAGCAACATCAACTCGTACATTACCA
*
318914 CTTTTAGGGGTATGATCCTTGGC
131 CTTTTAGAGGTATGATCCTTGGC
* *
318937 TTTGGTAGCAATGTCACCATCCTTGGGTTTG
1 TTTGGTAACATTGTCACCATCCTTGGGTTTG
318968 GTTGAGTTGG
Statistics
Matches: 157, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
152 5 0.03
153 150 0.96
154 1 0.01
155 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (153 bp):
TTTGGTAACATTGTCACCATCCTTGGGTTTGTCTCAGTCCTTGGGTTTGGTTGACTTGGTACTGT
CAACACCACCCTCAGTTTTGGATTTCCTGCCCAATTCTGAAGCAACATCAACTCGTACATTACCA
CTTTTAGAGGTATGATCCTTGGC
Found at i:319094 original size:138 final size:136
Alignment explanation
Indices: 318812--319216 Score: 487
Period size: 138 Copynumber: 3.0 Consensus size: 136
318802 ATCCTTGGGT
* * * * *
318812 TTGTCTCCGTCCTTGGGTTTGGTTG-GCTT-GGTAGTGTTGACGCCATCCTCAGTTTTGGATTTG
1 TTGTCACCATCCTTGGGTTTGGTTGAG-TTGGGT-GTGTCGACACCGTCCTCAGTTTTGGATTTG
* * * * * *
318875 CTTCCCACTTCTGAAG-CAACATCGATTCGTACATTACCACTTTTAGGGGTATGATCCTTGGCTT
64 CTGCCCACTTCTGAAGCCAACATCAACTGGTATACTACCACTTTTAGGGGTATGATCCTTGGCTT
318939 TGGTAGCA
129 TGGTAGCA
*
318947 ATGTCACCATCCTTGGGTTTGGTTGAGTTGGGTGTGTCGACACCGTCCTCAGTTTTGGATTTGCT
1 TTGTCACCATCCTTGGGTTTGGTTGAGTTGGGTGTGTCGACACCGTCCTCAGTTTTGGATTTGCT
319012 GCCCACTTCTGAAGCAACAACATCAACTGGTATACTACCACTTTTAGGGGTATGATCCTTGGCTT
66 GCCCACTTCTGAAGC--CAACATCAACTGGTATACTACCACTTTTAGGGGTATGATCCTTGGCTT
319077 TGGTAGCA
129 TGGTAGCA
** * * * *
319085 TTGTCACCATCCTTGGGTTTAATAGACTTGGGTGTGTCGACACTAG-CCTCAATTTTGGATTTGC
1 TTGTCACCATCCTTGGGTTTGGTTGAGTTGGGTGTGTCGACAC-CGTCCTCAGTTTTGGATTTGC
* * ** * ** * *
319149 TGCTCACTTTTG-AGCCAATGTCAACTGGTCTACTTGCAGTTTTAGGAGTATGATCCTTGGCTTT
65 TGCCCACTTCTGAAGCCAACATCAACTGGTATACTACCACTTTTAGGGGTATGATCCTTGGCTTT
319213 GGTA
130 GGTA
319217 ACAATGTCTG
Statistics
Matches: 236, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
135 112 0.47
136 4 0.02
137 3 0.01
138 116 0.49
139 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (136 bp):
TTGTCACCATCCTTGGGTTTGGTTGAGTTGGGTGTGTCGACACCGTCCTCAGTTTTGGATTTGCT
GCCCACTTCTGAAGCCAACATCAACTGGTATACTACCACTTTTAGGGGTATGATCCTTGGCTTTG
GTAGCA
Found at i:324387 original size:93 final size:90
Alignment explanation
Indices: 324146--324449 Score: 279
Period size: 93 Copynumber: 3.3 Consensus size: 90
324136 CATGAGCACG
* * * * ** * * *
324146 TGTAGATATACTCTAACTTAAATTC-GCTCACACGATTACCTTTAAGAGGAATCAAGACCGTTAC
1 TGTAGATACACACTAACTTAAATGCAGTTCACGTGATTCCCTTCAGGAGGAATCAAGACCGTTAC
* *
324210 -ACTGTATATTACCAAAATGTGCAAACT
66 GAC-GTATATTA-CAAAA-ATGCACACT
* * * * *** * *
324237 TTTAGACACACACAAACCTAAATGCAGTTTGTGTGGTTCCCTTTAGGAGGAATCAAGACCGTTAC
1 TGTAGATACACACTAACTTAAATGCAGTTCACGTGATTCCCTTCAGGAGGAATCAAGACCGTTAC
*
324302 GTCGTATATTGACAAAAACATGCACACT
66 GACGTATATT-AC-AAAA-ATGCACACT
* *
324330 TGTAGATACACACTTACTTAAATGCAGTTCACGTGATTTCCTTCAGGAGGAATCAAGACCGTTAC
1 TGTAGATACACACTAACTTAAATGCAGTTCACGTGATTCCCTTCAGGAGGAATCAAGACCGTTAC
*
324395 GCCGTATATTAACAAAAATGCACACACT
66 GACGTATATT-ACAAAAATG--CACACT
* *
324423 TGTAGATGCACACTCACTTAAATGCAG
1 TGTAGATACACACTAACTTAAATGCAG
324450 CCTGCGAGAT
Statistics
Matches: 172, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
91 21 0.12
92 42 0.24
93 109 0.63
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (90 bp):
TGTAGATACACACTAACTTAAATGCAGTTCACGTGATTCCCTTCAGGAGGAATCAAGACCGTTAC
GACGTATATTACAAAAATGCACACT
Found at i:324476 original size:93 final size:91
Alignment explanation
Indices: 324179--324486 Score: 300
Period size: 93 Copynumber: 3.3 Consensus size: 91
324169 TCGCTCACAC
* * * * * *
324179 GATTACCTTTAAGAGGAATCAAGACCGTTACACTGTATATTACCAAAATGTGCA-A-ACTTTTAG
1 GATT-CCTTTAGGAGGAATCAAGACCGTTACGCCGTATATTAACAAAA-ATGCACACACTTGTAG
* * * *
324242 ACACACACAAACCTAAATGCAGTTTGTGT
64 ATACACACTAACTTAAATGCAG-TTGCGT
* * *
324271 GGTTCCCTTTAGGAGGAATCAAGACCGTTACGTCGTATATTGACAAAAA--CATGCACACTTGTA
1 GATT-CCTTTAGGAGGAATCAAGACCGTTACGCCGTATATTAACAAAAATGCA--CACACTTGTA
* *
324334 GATACACACTTACTTAAATGCAGTTCACGT
63 GATACACACTAACTTAAATGCAGTT-GCGT
*
324364 GATTTCCTTCAGGAGGAATCAAGACCGTTACGCCGTATATTAACAAAAATGCACACACTTGTAGA
1 GA-TTCCTTTAGGAGGAATCAAGACCGTTACGCCGTATATTAACAAAAATGCACACACTTGTAGA
* * * *
324429 TGCACACTCACTTAAATGCAGCCTGCGA
65 TACACACTAACTTAAATGCAG-TTGCGT
* *
324457 GATTCCATTTAGGAAGAATCAAGACAGTTA
1 GATTCC-TTTAGGAGGAATCAAGACCGTTA
324487 GGCTGCATAT
Statistics
Matches: 178, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
89 2 0.01
92 47 0.26
93 124 0.70
94 3 0.02
95 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (91 bp):
GATTCCTTTAGGAGGAATCAAGACCGTTACGCCGTATATTAACAAAAATGCACACACTTGTAGAT
ACACACTAACTTAAATGCAGTTGCGT
Found at i:324642 original size:73 final size:73
Alignment explanation
Indices: 324521--324893 Score: 593
Period size: 73 Copynumber: 5.1 Consensus size: 73
324511 CCCGCGCGTG
* * * *
324521 TAGACACACACTCACTTCAATGTCGCTCGCGCACAATTTTAAATCTGAAGAATCAAGACCGTTAG
1 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
*
324586 ACCGCATA
66 GCCGCATA
** * *
324594 TAGACACCCCCTCACTTCAATGACGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
1 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
324659 GCCGCATA
66 GCCGCATA
* *
324667 TAGACAAACACTCACTTTAATGTCGCTCGCGCACATTTTTAAAACTGAAGAATCAAGACCGTTAG
1 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
324732 GCCGCATA
66 GCCGCATA
324740 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
1 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
324805 GCCGCATA
66 GCCGCATA
* * * *
324813 TAGACAAACACTCACTTCAATGTCACTCGCGTGCATTTTTAAATCCGAAGAATCAAGACCGTTAG
1 TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
*
324878 GCGGCATA
66 GCCGCATA
*
324886 TAAACAAA
1 TAGACAAA
324894 AACAACCACA
Statistics
Matches: 279, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 279 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (73 bp):
TAGACAAACACTCACTTCAATGTCGCTCGCGCGCATTTTTAAAACTGAAGAATCAAGACCGTTAG
GCCGCATA
Found at i:326126 original size:14 final size:14
Alignment explanation
Indices: 326107--326138 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
326097 TGTCACGTTC
326107 ATATTTTTTAAAAA
1 ATATTTTTTAAAAA
*
326121 ATATTTTTTAAAAT
1 ATATTTTTTAAAAA
326135 ATAT
1 ATAT
326139 AAAAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTTTTAAAAA
Found at i:329311 original size:16 final size:17
Alignment explanation
Indices: 329279--329312 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
329269 TAGGTTTTTA
329279 TAAATATAATATTATTT
1 TAAATATAATATTATTT
*
329296 TAAATATTAT-TTATTT
1 TAAATATAATATTATTT
329312 T
1 T
329313 TTCAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATATAATATTATTT
Found at i:331074 original size:12 final size:12
Alignment explanation
Indices: 331057--331081 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
331047 TATACGCCAC
331057 CATAATTGTTGT
1 CATAATTGTTGT
331069 CATAATTGTTGT
1 CATAATTGTTGT
331081 C
1 C
331082 GTAGACCGTC
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:0.12, G:0.16, T:0.48
Consensus pattern (12 bp):
CATAATTGTTGT
Found at i:333677 original size:20 final size:20
Alignment explanation
Indices: 333652--333690 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
333642 ATCTTCAGAT
*
333652 AGTCTGTGTTGTGGAAATTC
1 AGTCTGTGTTGTGAAAATTC
333672 AGTCTGTGTTGTGAAAATT
1 AGTCTGTGTTGTGAAAATT
333691 GCTGATGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (20 bp):
AGTCTGTGTTGTGAAAATTC
Found at i:345505 original size:18 final size:18
Alignment explanation
Indices: 345484--345518 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
345474 CCCAAACCTG
345484 CAAACTCACCCACTTTGA
1 CAAACTCACCCACTTTGA
*
345502 CAAACTCACCCAGTTTG
1 CAAACTCACCCACTTTG
345519 TTTATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.37, G:0.09, T:0.23
Consensus pattern (18 bp):
CAAACTCACCCACTTTGA
Found at i:361890 original size:32 final size:30
Alignment explanation
Indices: 361854--361939 Score: 82
Period size: 32 Copynumber: 2.8 Consensus size: 30
361844 TCATCATTTT
*
361854 AGACATGTGACACATCATCACTTATATACATG
1 AGACATGTGACACATCATCACTTAGATAC--G
* * *
361886 AGACACGTGAAACATCATCATTTTAGATACG
1 AGACATGTGACACATCATCA-CTTAGATACG
* * *
361917 TGATATGTGTCACATCATCACTT
1 AGACATGTGACACATCATCACTT
361940 TACGCAAGTG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 2 0.05
31 16 0.37
32 18 0.42
33 7 0.16
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (30 bp):
AGACATGTGACACATCATCACTTAGATACG
Found at i:365511 original size:18 final size:19
Alignment explanation
Indices: 365488--365527 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
365478 TCAATCAAAA
365488 TTTAAAATTATT-ATATAT
1 TTTAAAATTATTAATATAT
*
365506 TTTAAAATTTTTAATATAT
1 TTTAAAATTATTAATATAT
365525 TTT
1 TTT
365528 TTATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAAATTATTAATATAT
Found at i:367342 original size:12 final size:12
Alignment explanation
Indices: 367327--367352 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
367317 ATAATAAATT
367327 TAATTATTAAAA
1 TAATTATTAAAA
367339 TAATTATTAAAA
1 TAATTATTAAAA
367351 TA
1 TA
367353 TAATTTAATG
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATTATTAAAA
Found at i:368189 original size:21 final size:22
Alignment explanation
Indices: 368163--368213 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
368153 TAAGTCATTA
368163 TTTTTATTG-AATAAAAATATT
1 TTTTTATTGAAATAAAAATATT
368184 TTTTTATTGAAATAAAAATATT
1 TTTTTATTGAAATAAAAATATT
368206 TTTTTATT
1 TTTTTATT
368214 ATTTCGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTTATTGAAATAAAAATATT
Found at i:372221 original size:3 final size:3
Alignment explanation
Indices: 372213--372242 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
372203 TTGCTGAACT
372213 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
372243 TGGGAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:373620 original size:18 final size:19
Alignment explanation
Indices: 373592--373628 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
373582 CATGTGTCAC
*
373592 ATTTATATTTTTAAAAAAT
1 ATTTATATTTTAAAAAAAT
373611 ATTT-TATTTTAAAAAAAT
1 ATTTATATTTTAAAAAAAT
373629 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTATATTTTAAAAAAAT
Found at i:376760 original size:26 final size:25
Alignment explanation
Indices: 376731--376787 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
376721 ATTATCAAGC
*
376731 ATAATAACATATTAGGTAGCGCTTAG
1 ATAATAA-ATAATAGGTAGCGCTTAG
*
376757 ATAAT--GTAATAGGTAGCGCTTAG
1 ATAATAAATAATAGGTAGCGCTTAG
376780 ATAATAAA
1 ATAATAAA
376788 ATAAACATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 21 0.81
26 5 0.19
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (25 bp):
ATAATAAATAATAGGTAGCGCTTAG
Found at i:376790 original size:23 final size:23
Alignment explanation
Indices: 376743--376790 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
376733 AATAACATAT
**
376743 TAGGTAGCGCTTAGATAATGTAA
1 TAGGTAGCGCTTAGATAATAAAA
376766 TAGGTAGCGCTTAGATAATAAAA
1 TAGGTAGCGCTTAGATAATAAAA
376789 TA
1 TA
376791 AACATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (23 bp):
TAGGTAGCGCTTAGATAATAAAA
Found at i:381039 original size:201 final size:201
Alignment explanation
Indices: 380504--381488 Score: 1107
Period size: 201 Copynumber: 4.9 Consensus size: 201
380494 TAATTTTCAA
* * *
380504 AAGTATCGACACTAATTTAA-AAAGTGTCGATACATTCTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACAC-AAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGG
* *
380568 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGAGTTTTGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * **
380633 AGGATCAACACTTTTTCTAAATGTATCGACACTTTTTCGTGAACTT-GTTTGGAAAATTTATTAT
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAATACATTAT
380697 GGACATA-
195 GGACA-AC
* * * * * * **
380704 AAGTGTCGACACAAATGTATAAAGTATCGATACATTATGCATACCT-TTTT-TTA-AATAACCAA
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA-AACCGG
* * * * * * * * * *
380766 TATATTTAGACCGGCTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGATGTTTGT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * *
380831 AGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGG-AAATACATTC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAAATACATTA
*
380895 TAGACAAC
194 TGGACAAC
* * * *
380903 ATGTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTCTCTCATAAAATCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
*
380967 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
** * *
381032 GGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACAC
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTG----GTTTGGAAAATAC
381096 ATTATGGAC-AC
190 ATTATGGACAAC
** ** * * * * *
381107 AAAGTATCGGTACAAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCAT-AAACCGA
1 -AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGG
* * * * * ** * *
381171 TATATTTAGACCGATTACATTATTATTTTACCTATTACATTATAATTACGGATTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * *
381236 GGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCTTGCACTTGGTTTGG-AAATACATTC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAAATACATTA
381300 TGGACAAC
194 TGGACAAC
* *
381308 ATGTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
* *
381372 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATATTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
** * *
381437 GGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTG
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTGGTTTG
381489 TTTGGAAAAC
Statistics
Matches: 642, Mismatches: 120, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
197 2 0.00
198 96 0.15
199 68 0.11
200 117 0.18
201 191 0.30
202 4 0.01
203 1 0.00
204 100 0.16
205 61 0.10
206 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (201 bp):
AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
GGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAATACATTATG
GACAAC
Found at i:381315 original size:405 final size:404
Alignment explanation
Indices: 380506--381511 Score: 1519
Period size: 405 Copynumber: 2.5 Consensus size: 404
380496 ATTTTCAAAA
* * *
380506 GTATCGACACTAATTTAA-AAAGTGTCGATACAT-TCTGTAGACCTATTTTCTCATAAAACCGGT
1 GTATCGACAC-AAATGAATAAAGTGTCGACACATAT-TGTAGACCTATTTTCTCATAAAACCGGT
* * * *
380569 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGAGTTTTGATGTTTTTA
64 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTG
* ** * * ***
380634 GGATCAACACTTTTTCTAAATGTATCGACACTT-TTTCGTGAAC-----TTGTTTGGAAAATTTA
129 GGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACACA
* * * *
380693 TTATGGACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGCATACCTTTTTTTAA
193 TTATGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAA
* * *
380758 ATAACCAATATATTTAGACCGGCTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCG
258 ATAACCAATATATTTAGACCGACTACATTATTATGTTACCGATTACATTATAATTACGTGTTTCG
380823 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
323 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
380888 TACATTCTAGACAACAT
388 TACATTCTAGACAACAT
* *
380905 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTCTCTCATAAAATCGGTAA
1 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
380970 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
381035 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
** * * * *
381100 TGGACACAAAGTATCGGTACAAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCATA
196 TGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCT-TTTT-TCAAA
* * * *
381165 -AACCGATATATTTAGACCGATTACATTATTATTTTACCTATTACATTATAATTACG-GATTTCG
259 TAACCAATATATTTAGACCGACTACATTATTATGTTACCGATTACATTATAATTACGTG-TTTCG
* * * *
381228 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCTTGCACTTGGTTTGGAAA
323 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
*
381293 TACATTCTGGACAACAT
388 TACATTCTAGACAACAT
381310 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
1 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
*
381375 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATATTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
381440 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
*
381505 TTGACAC
196 TGGACAC
381512 TTTTGCCTTT
Statistics
Matches: 553, Mismatches: 43, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
398 5 0.01
399 145 0.26
400 4 0.01
404 63 0.11
405 333 0.60
406 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (404 bp):
GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
TGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAATA
ACCAATATATTTAGACCGACTACATTATTATGTTACCGATTACATTATAATTACGTGTTTCGATG
TTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATAC
ATTCTAGACAACAT
Found at i:383647 original size:182 final size:182
Alignment explanation
Indices: 382998--383647 Score: 847
Period size: 182 Copynumber: 3.6 Consensus size: 182
382988 ATTAAAATAC
* * * * * **
382998 CGACACTTTCAACATAACCGGTAGCGCTTTATCGGTTTTGTCATTTCGATACCGACTTTATCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * ** *
383063 TTTTTACCTATTATATTGTTATGGATCGATACATTTTCT-TAAAGTATCGACACTTTTTAGGCGC
66 TTATTACCTGTTATATTACTATGGATCGATACATTTT-TATAAAGTATCGACACCTTTTAGGCGC
* *
383127 TATAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * ** ** *
383180 CGACACTTTCAATATATTCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTCTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * * *
383245 TTATTACCAGATATATTACTATAGATCGATACATTTGTATAAACTATCGACA-CTTTTCAGGCGC
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTT-AGGCGC
383309 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
** * ** *
383362 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTTGAGACATGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * * * * *
383427 TTATTATCTGTTTTATTGCTATGGATCGACAAATTTTTATAAAGTATTGATACCTTTTAGGCGCT
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
383492 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * *
383544 CGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTATCATAAT-GACACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTATCAT
* * *
383608 ATTTTTACCTGTTATATTACTATCGATCGATATATTTTTA
65 ATTATTACCTGTTATATTACTATGGATCGATACATTTTTA
383648 ATTTGTATCG
Statistics
Matches: 407, Mismatches: 57, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
181 5 0.01
182 396 0.97
183 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (182 bp):
CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:402944 original size:31 final size:31
Alignment explanation
Indices: 402906--402979 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
402896 ATGGTTGAGG
* *
402906 GACTAAAATCGAACGGATCGATAATGTTAGA
1 GACTAAAATCAAACGGATCGATAACGTTAGA
* *
402937 GACTAAAATCAAACGGGTCGATAACGTTAGG
1 GACTAAAATCAAACGGATCGATAACGTTAGA
402968 GACTAAAATCAA
1 GACTAAAATCAA
402980 CACACTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (31 bp):
GACTAAAATCAAACGGATCGATAACGTTAGA
Found at i:410235 original size:60 final size:60
Alignment explanation
Indices: 410137--410263 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
410127 AAAATACATG
* * *
410137 AATGGTCCCCTGACTATAGGGTATTATTTTATTAAGTCCCTCGACTATTAAAAGTTACAA
1 AATGGTCCCCTGACTATAGAGTATTAATTTATTAAGTCCCTCGACTATCAAAAGTTACAA
** * * * *
410197 AATGGTCTTCTGACTATAGATTGTTAATTTATTGAGTCCTTCGACTATCAAAAGTTACAA
1 AATGGTCCCCTGACTATAGAGTATTAATTTATTAAGTCCCTCGACTATCAAAAGTTACAA
410257 AATGGTC
1 AATGGTC
410264 ACCCAACTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (60 bp):
AATGGTCCCCTGACTATAGAGTATTAATTTATTAAGTCCCTCGACTATCAAAAGTTACAA
Found at i:414746 original size:54 final size:54
Alignment explanation
Indices: 414655--414764 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
414645 TGGGAGTGGT
* * * * *
414655 GATGATAGATACGGAAGACGAGATAATTTTCGGTCACCGCCACCGAGGCCCTAC
1 GATGATAGATACGGAAGACGAGACAATTTCCGATCACCACCACCGAGGCCATAC
** *
414709 GATGATAGATACGGTGGACGAGACGATTTCCGATCACCACCACCGAGGCCATAC
1 GATGATAGATACGGAAGACGAGACAATTTCCGATCACCACCACCGAGGCCATAC
414763 GA
1 GA
414765 ATATGATTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (54 bp):
GATGATAGATACGGAAGACGAGACAATTTCCGATCACCACCACCGAGGCCATAC
Found at i:425280 original size:23 final size:24
Alignment explanation
Indices: 425240--425284 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
425230 AATAATGTAA
*
425240 TTAATTTTTTTAAATAATTTACCT
1 TTAATTTTTATAAATAATTTACCT
*
425264 TTAA-TTTTATAACTAATTTAC
1 TTAATTTTTATAAATAATTTAC
425285 AATTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAATTTTTATAAATAATTTACCT
Found at i:428132 original size:13 final size:13
Alignment explanation
Indices: 428114--428146 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
428104 GTTTATAGAT
428114 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
428127 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
*
428140 GTTAGGG
1 TTTAGGG
428147 GTAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTTTAA
Found at i:430873 original size:20 final size:21
Alignment explanation
Indices: 430848--430899 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
430838 TTTTCCCAAT
*
430848 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
430868 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
430889 TCGCAATGCGA
1 TCGCAATGCGA
430900 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:430913 original size:20 final size:20
Alignment explanation
Indices: 430888--430941 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
430878 AATTGGGAAA
430888 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
430908 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
430928 ATCGCAATGCGATA
1 ATCGCAATGCGATA
430942 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:430950 original size:61 final size:62
Alignment explanation
Indices: 430885--431002 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
430875 GCGAATTGGG
* * * *
430885 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTAC-T-ATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA-ATACATAATCGCAATGCGATAATAC
* *
430946 AAAATCGCAACGAGATATTGACTTTCGCAACGCGATAATACATAATCGCAATGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATACATAATCGCAATGCGAT
431003 TTTCAAAGCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 3 0.06
61 33 0.67
62 13 0.27
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (62 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATACATAATCGCAATGCGATAATAC
Found at i:430953 original size:41 final size:41
Alignment explanation
Indices: 430908--431002 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
430898 GATACTGACT
*
430908 ATCGCAATGCGATACTT-ACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATA-TTGACTATCGCAACGCGATAATACAAA
* * * *
430949 ATCGCAACGAGATATTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATATTGACTATCGCAACGCGATAATACAAA
430990 ATCGCAATGCGAT
1 ATCGCAATGCGAT
431003 TTTCAAAGCG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCGCAATGCGATATTGACTATCGCAACGCGATAATACAAA
Found at i:431530 original size:20 final size:20
Alignment explanation
Indices: 431476--431534 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
431466 GCGATTCTCT
**
431476 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
431496 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
431516 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
431535 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:431725 original size:25 final size:24
Alignment explanation
Indices: 431671--431725 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
431661 TGTTTATTAT
* *
431671 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
431695 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
431721 TGTTT
1 TGTTT
431726 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:432875 original size:18 final size:18
Alignment explanation
Indices: 432854--432898 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
432844 TCCACTTCGG
*
432854 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
432872 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
432890 GAGCCATCA
1 GAGCCATCA
432899 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:433434 original size:19 final size:20
Alignment explanation
Indices: 433380--433425 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
433370 TAGTTTACTT
* *
433380 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
433400 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
433420 TCGCAA
1 TCGCAA
433426 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:433441 original size:19 final size:19
Alignment explanation
Indices: 433419--433515 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
433409 GGAAATGGCT
*
433419 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
433438 ATCGTAA--CG-AA--AAA
1 ATCGCAATGCGAAATGAAA
433452 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
433471 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
433485 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
433504 ATCGCAATGCGA
1 ATCGCAATGCGA
433516 TTTGTTTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 19 0.31
15 1 0.02
16 6 0.10
17 5 0.08
18 1 0.02
19 30 0.48
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:433466 original size:33 final size:33
Alignment explanation
Indices: 433419--433510 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
433409 GGAAATGGCT
* *
433419 ATCGCAATGTGAAATGAAAATCGTAACGAAAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
433452 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
*
433485 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
433511 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:433805 original size:41 final size:41
Alignment explanation
Indices: 433709--433796 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
433699 GACTCACCTG
* * *
433709 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
433751 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
433792 TCATC
1 TCATC
433797 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:434483 original size:21 final size:21
Alignment explanation
Indices: 434417--434483 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
434407 GTGAATCGGG
*
434417 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
434437 CCTCTTTAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
434459 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
434480 CTCT
1 CTCT
434484 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:434502 original size:42 final size:42
Alignment explanation
Indices: 434456--434535 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
434446 CGATGACAGT
* * *
434456 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
434498 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
434536 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:434932 original size:91 final size:90
Alignment explanation
Indices: 434757--434941 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
434747 ATTTCAAACT
*
434757 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAGGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT-A--AATAAACAGTTTAGC
434822 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
434850 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
434914 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
434941 T
1 T
434942 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:436715 original size:19 final size:19
Alignment explanation
Indices: 436628--436792 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
436618 TCTTTTGGTT
*
436628 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
436647 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
436667 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
436685 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
436701 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
436720 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
436739 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
436756 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
436772 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
436791 GA
1 GA
436793 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
14 19 0.16
15 2 0.02
16 4 0.03
17 3 0.03
18 3 0.03
19 59 0.50
20 27 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:436741 original size:38 final size:38
Alignment explanation
Indices: 436628--436792 Score: 170
Period size: 33 Copynumber: 4.6 Consensus size: 38
436618 TCTTTTGGTT
*
436628 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAGAATCGCAACGC
**
436667 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAGAATCGCAACGC
** * *
436701 GAAATGACTATCGCAACGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAGAATCGCAACGC
436739 GAAATGAAAATCGCAA--CG--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAGAATCGCAACGC
*
436772 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
436793 TTTTGGTTTC
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
33 44 0.41
34 15 0.14
35 5 0.05
36 2 0.02
37 1 0.01
38 27 0.25
40 14 0.13
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAGAATCGCAACGC
Found at i:436756 original size:71 final size:73
Alignment explanation
Indices: 436628--436793 Score: 246
Period size: 71 Copynumber: 2.3 Consensus size: 73
436618 TCTTTTGGTT
* * * **
436628 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
436693 CGCAACGC
66 CGCAACGC
**
436701 GAAATGACTATCGCAACGCGA-AATAAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
436764 CGCAACGC
66 CGCAACGC
*
436772 GAAATGAAAATCGCAATGCGAT
1 GAAATGAAAATCGCAACGCGAT
436794 TTTGGTTTCG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 49 0.60
72 15 0.18
73 18 0.22
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (73 bp):
GAAATGAAAATCGCAACGCGATAATAAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
CGCAACGC
Found at i:436821 original size:19 final size:19
Alignment explanation
Indices: 436788--436854 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
436778 AAAATCGCAA
**
436788 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
436807 TGCGATTTTTATTTCTCGT
1 TGCGATTTTTATTTCGCGT
**
436826 TGCGATAATTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
436846 TGCGATTTT
1 TGCGATTTT
436855 CATTCTCGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 28 0.72
20 11 0.28
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:437444 original size:21 final size:21
Alignment explanation
Indices: 437420--437468 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
437410 TATTCGCATT
*
437420 GCGAATTATAAAAATCGCAAC
1 GCGAATTACAAAAATCGCAAC
** *
437441 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACAAAAATCGCAAC
437461 GCGAATTA
1 GCGAATTA
437469 GGAAAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (21 bp):
GCGAATTACAAAAATCGCAAC
Found at i:437568 original size:21 final size:22
Alignment explanation
Indices: 437516--437568 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
437506 ATTTACTTAT
437516 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
437537 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
437558 TCGCATTGCGA
1 TCGCATTGCGA
437569 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:442986 original size:17 final size:17
Alignment explanation
Indices: 442964--443006 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
442954 CTTTATTTAA
442964 TAATTTAATCTAATAAT
1 TAATTTAATCTAATAAT
442981 TAATTTAATCTAATAAT
1 TAATTTAATCTAATAAT
442998 TAATTTAAT
1 TAATTTAAT
443007 ACTGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTTAATCTAATAAT
Found at i:445482 original size:21 final size:22
Alignment explanation
Indices: 445448--445496 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
445438 AAAATTTTGG
*
445448 GTTTATTTTAAAATTTGAGTTTT-
1 GTTT-TTTTAAAATAT-AGTTTTA
445471 GTTTTTTT-AAATATAGTTTTA
1 GTTTTTTTAAAATATAGTTTTA
445492 GTTTT
1 GTTTT
445497 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 10 0.42
22 4 0.17
23 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.63
Consensus pattern (22 bp):
GTTTTTTTAAAATATAGTTTTA
Found at i:447613 original size:210 final size:213
Alignment explanation
Indices: 447242--447645 Score: 593
Period size: 210 Copynumber: 1.9 Consensus size: 213
447232 GAGAACGATA
* * * *
447242 GTTGATCGGTGTATTTCTTATAAAAGATTAAAGTTCTTTCTTTTAATATGAGAGAGAGGATGTTT
1 GTTGACCGGTGTATTTCTTATAAAAGATTAAAGTTCTTTCTTTTAATATAAGAGAGAAGATCTTT
* * * *
447307 TATTGTCTTGTCTGGAAAATAAATATCATGTCTGTGGGGTGGTTAATGTTAGATTTATGATCGTG
66 TATTGTCTCGTCTGGAAAATAAATATCATGTCTGTGGGGTCGTTAATGTCAGATTCATGATCGTG
* * *
447372 ATAATAGTTGAGTTCGTCTCTAACGAATTATGTGGAGTTGTTAGAAATCCAAGCATGGAGTTGTA
131 ATAATAGTTGAATTCGTCTCTAACGAATTATGTGGAGTTGTCAGAAACCCAAGCATGGAGTTGTA
447437 CTTGATAGGAGGACGGTT
196 CTTGATAGGAGGACGGTT
* * *
447455 GTTGACCGGTGTATTTCTTATGAAAGATTGAAGTT-TTTTTTTTAATATAAGAGAGAAGATCTTT
1 GTTGACCGGTGTATTTCTTATAAAAGATTAAAGTTCTTTCTTTTAATATAAGAGAGAAGATCTTT
* *
447519 T-TTGTCTCGTTTGGAAAAT-AATATCGTGTCTGTGGGGTCGTTAATGTCAGATTCATGA-CGGT
66 TATTGTCTCGTCTGGAAAATAAATATCATGTCTGTGGGGTCGTTAATGTCAGATTCATGATC-GT
* *
447581 GATAACT-GTTGAATTTGTCTCTAACGAATTATGTGGAGTTGTCAGAAACCCAATCATGGAGTTG
130 GATAA-TAGTTGAATTCGTCTCTAACGAATTATGTGGAGTTGTCAGAAACCCAAGCATGGAGTTG
447645 T
194 T
447646 CGTTGTAATA
Statistics
Matches: 171, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
209 1 0.01
210 95 0.56
211 17 0.10
212 26 0.15
213 32 0.19
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.39
Consensus pattern (213 bp):
GTTGACCGGTGTATTTCTTATAAAAGATTAAAGTTCTTTCTTTTAATATAAGAGAGAAGATCTTT
TATTGTCTCGTCTGGAAAATAAATATCATGTCTGTGGGGTCGTTAATGTCAGATTCATGATCGTG
ATAATAGTTGAATTCGTCTCTAACGAATTATGTGGAGTTGTCAGAAACCCAAGCATGGAGTTGTA
CTTGATAGGAGGACGGTT
Found at i:448044 original size:29 final size:29
Alignment explanation
Indices: 447997--448092 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
447987 AAAATATGTT
*
447997 TTCACCCCCTAAAATTTTATAAGTTCAAA
1 TTCATCCCCTAAAATTTTATAAGTTCAAA
*
448026 TTTATCCCCTAAAATTTTATAAGTTCAAA
1 TTCATCCCCTAAAATTTTATAAGTTCAAA
* * *
448055 TTCATCCCTTGAAATTTTAAAAGTTCAAA
1 TTCATCCCCTAAAATTTTATAAGTTCAAA
448084 TTCATCCCC
1 TTCATCCCC
448093 AATTAAGCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
TTCATCCCCTAAAATTTTATAAGTTCAAA
Found at i:450724 original size:31 final size:31
Alignment explanation
Indices: 450666--450724 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
450656 ACTGAAGGAT
* * *
450666 TAAAATTGAACAGATCGATAATATTAGGTAC
1 TAAAATCGAACAGATCAATAACATTAGGTAC
*
450697 TAAAATCGAACAGATCAATAACGTTAGG
1 TAAAATCGAACAGATCAATAACATTAGG
450725 GACCATTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (31 bp):
TAAAATCGAACAGATCAATAACATTAGGTAC
Found at i:458315 original size:54 final size:54
Alignment explanation
Indices: 458166--458340 Score: 244
Period size: 54 Copynumber: 3.2 Consensus size: 54
458156 TCTGAATGAC
* * **
458166 TTTGTTTCGGAGATGTTGGTGACGGTTCTGGCAAAACAGA-TAATTGGAGAAGAT
1 TTTGTTTCGGAGAAGTTGGTGACGGTTCTGGCAAAACAGATTCATT-GACCAGAT
*
458220 TTTGTTTCGGAGAAGTTGGTGACAGTTCTGGCAAAACAGATTCATTGACCAGAT
1 TTTGTTTCGGAGAAGTTGGTGACGGTTCTGGCAAAACAGATTCATTGACCAGAT
* * * *
458274 TTTGTTTCGGAGAACTTGGTGATGGTTCTGGCAAAACAGATTCATGGACCGGAT
1 TTTGTTTCGGAGAAGTTGGTGACGGTTCTGGCAAAACAGATTCATTGACCAGAT
*
458328 TTTGTTTTGGAGA
1 TTTGTTTCGGAGA
458341 TTCTGCATCC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 105 0.96
55 4 0.04
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (54 bp):
TTTGTTTCGGAGAAGTTGGTGACGGTTCTGGCAAAACAGATTCATTGACCAGAT
Found at i:467594 original size:54 final size:54
Alignment explanation
Indices: 467519--467903 Score: 537
Period size: 54 Copynumber: 7.2 Consensus size: 54
467509 CCCTTGGCTT
* * * * * *
467519 AGTAGTCTATAGGCTCGAATACTAGTATCCAACTCCTACATCAACCCTAGGTGA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
* *
467573 AGTAGTCTATAGGCTCAAATACTTGTATCCAACTCTTACACCGACTCTAGGTAA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
* *
467627 AGTAGTCTATAGTCTCAAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
467681 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
* * *
467735 AGTAGTCTATAGGCTCAAATACTCGTATCCAACTCTTATACCGA-TACTAGGTTA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACT-CTAGGTAA
* * * *
467789 AGTAGTCTATAGGCTTGAATACTAGTACCCAACTCTTACACCGACTCTAGGTGA
1 AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
* *
467843 AGTAG--TATAGGCTCGAATACTCGTATCCCAACTCTT-CACC-AATCCTAGGTGA
1 AGTAGTCTATAGGCTCGAATACTCGTAT-CCAACTCTTACACCGACT-CTAGGTAA
467895 AGTAGTCTA
1 AGTAGTCTA
467904 GGCATAGTAC
Statistics
Matches: 301, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.01
52 35 0.12
53 10 0.03
54 253 0.84
55 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (54 bp):
AGTAGTCTATAGGCTCGAATACTCGTATCCAACTCTTACACCGACTCTAGGTAA
Found at i:470473 original size:28 final size:29
Alignment explanation
Indices: 470437--470493 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
470427 ATTGTTTTTC
* *
470437 GAGATATGGGT-TATTGTTTTTTTATTGG
1 GAGAAATGGGTCTATTGGTTTTTTATTGG
470465 GAGAAATGGGTACCTATTGGTTTTTTATT
1 GAGAAATGGGT--CTATTGGTTTTTTATT
470494 TTGTTGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
31 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (29 bp):
GAGAAATGGGTCTATTGGTTTTTTATTGG
Found at i:471509 original size:94 final size:93
Alignment explanation
Indices: 471320--471512 Score: 228
Period size: 94 Copynumber: 2.1 Consensus size: 93
471310 CATGAAACTG
*
471320 AAAG-AAAATTTCTTTGGTGGGTCGACAGAGAAATATGCCGGTGTGTTATACGGTCTTGGTGTTG
1 AAAGAAAAATTTCTTTAGTGGGTCGACAGAGAAATATGCCGGTGTGTTATACGGTCTTGGTGTTG
*
471384 AGAACGGACAGAGTACTCCGTAACGATTC
66 AGAACGGACAGAATACTCCGTAAC-ATTC
* * * * * * *
471413 AAAGAAAAATTTCTTTAGTTGGTGGACTGAGAAATATGCTGGTTTGTTATATGGTTTTGGTTGTT
1 AAAGAAAAATTTCTTTAGTGGGTCGACAGAGAAATATGCCGGTGTGTTATACGGTCTTGG-TGTT
** * *
471478 GAGAATTGACAGAATACTTCTTAA-ATATC
65 GAGAACGGACAGAATACTCCGTAACAT-TC
471507 AAAGAA
1 AAAGAA
471513 TTATTAAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
93 6 0.07
94 55 0.65
95 23 0.27
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (93 bp):
AAAGAAAAATTTCTTTAGTGGGTCGACAGAGAAATATGCCGGTGTGTTATACGGTCTTGGTGTTG
AGAACGGACAGAATACTCCGTAACATTC
Found at i:472940 original size:46 final size:46
Alignment explanation
Indices: 472886--472980 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 46
472876 CTATCAACCA
*** * * *
472886 TAAATCTTAAATTTTAATTTATGATTTATAATTTAGGGTTTTAAGT
1 TAAATCTTAAACCCTAACTTATGATTTATAATTTAAGATTTTAAGT
472932 TAAATCTTAAACCCTAACTTATGATTTATAATTTAAGATTTTAAGT
1 TAAATCTTAAACCCTAACTTATGATTTATAATTTAAGATTTTAAGT
472978 TAA
1 TAA
472981 GGTAGGGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.47
Consensus pattern (46 bp):
TAAATCTTAAACCCTAACTTATGATTTATAATTTAAGATTTTAAGT
Found at i:475928 original size:3 final size:3
Alignment explanation
Indices: 475920--475953 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
475910 ATTCTTGTCG
475920 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
475954 GTCATTTTCT
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:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:475961 original size:11 final size:11
Alignment explanation
Indices: 475947--475971 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
475937 CTTCTTCTTC
475947 TTTTCTTGTCA
1 TTTTCTTGTCA
475958 TTTTCTTGTCA
1 TTTTCTTGTCA
475969 TTT
1 TTT
475972 GTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTCTTGTCA
Found at i:488155 original size:96 final size:96
Alignment explanation
Indices: 487991--488186 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 96
487981 ATCATAGTTT
487991 AAAATCTAAAATGATATTGTCACATTATTATCACATTAACAAAAAGATTCATCTACGTCATCGTG
1 AAAATCTAAAATGATATTGTCACATTATTATCACATTAACAAAAAGATTCATCTACGTCATCGTG
488056 TCATTATTATAATTTAATAATCACGTTAACA
66 TCATTATTATAATTTAATAATCACGTTAACA
488087 AAAATCTAAAATGATATTGTCACATTATTATCACATTAACAAAAAGATTCATCTACGTCATCGTG
1 AAAATCTAAAATGATATTGTCACATTATTATCACATTAACAAAAAGATTCATCTACGTCATCGTG
*
488152 TCATTATTATAATTTAATGATCACGTTAACA
66 TCATTATTATAATTTAATAATCACGTTAACA
488183 AAAA
1 AAAA
488187 GATTCATCTA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (96 bp):
AAAATCTAAAATGATATTGTCACATTATTATCACATTAACAAAAAGATTCATCTACGTCATCGTG
TCATTATTATAATTTAATAATCACGTTAACA
Found at i:488202 original size:55 final size:55
Alignment explanation
Indices: 488116--488232 Score: 207
Period size: 55 Copynumber: 2.1 Consensus size: 55
488106 TCACATTATT
* *
488116 ATCACATTAACAAAAAGATTCATCTACGTCATCGTGTCATTATTATAATTTAATG
1 ATCACGTTAACAAAAAGATTCATCTAAGTCATCGTGTCATTATTATAATTTAATG
*
488171 ATCACGTTAACAAAAAGATTCATCTAAGTCATCGTGTCATTATTATAGTTTAATG
1 ATCACGTTAACAAAAAGATTCATCTAAGTCATCGTGTCATTATTATAATTTAATG
488226 ATCACGT
1 ATCACGT
488233 GTTATAACAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (55 bp):
ATCACGTTAACAAAAAGATTCATCTAAGTCATCGTGTCATTATTATAATTTAATG
Found at i:488718 original size:60 final size:60
Alignment explanation
Indices: 488646--488785 Score: 244
Period size: 60 Copynumber: 2.3 Consensus size: 60
488636 CAGGTGACCC
*
488646 TTTTGTAACTTTTAATAGTCGAAGGACTCAACAAAATACCACTCTATAATTGAAGTACCA
1 TTTTATAACTTTTAATAGTCGAAGGACTCAACAAAATACCACTCTATAATTGAAGTACCA
* *
488706 TTTTATAACTTTTAATAGTCGAATGACTCAACAAAATACCACTCTATAGTTGAAGTACCA
1 TTTTATAACTTTTAATAGTCGAAGGACTCAACAAAATACCACTCTATAATTGAAGTACCA
*
488766 TTTTATAACATTTAATAGTC
1 TTTTATAACTTTTAATAGTC
488786 AAGTAACTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (60 bp):
TTTTATAACTTTTAATAGTCGAAGGACTCAACAAAATACCACTCTATAATTGAAGTACCA
Found at i:493633 original size:4 final size:4
Alignment explanation
Indices: 493624--494188 Score: 609
Period size: 4 Copynumber: 141.5 Consensus size: 4
493614 GTGTTATTAA
493624 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
493672 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
493720 TATG TATG TATG TATG TATG TATAG T-TT TTTT TAAG TATAG TA-A CATT
1 TATG TATG TATG TATG TATG TAT-G TATG TATG TATG TAT-G TATG TATG
* * * * * ** * * *
493768 TGATG TAT- T-TT TAACTT TATTT TAT- TAATTA TATT TACC TA-A AATTT
1 T-ATG TATG TATG T-A-TG TA-TG TATG T-A-TG TATG TATG TATG TA-TG
* ** ** * * * * * *
493815 TATT TATG ATAAT- TCAAA TACA AAAG TCT- TGTG TTAT- TA-A TATA
1 TATG TATG -T-ATG T-ATG TATG TATG TATG TATG -TATG TATG TATG
493859 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
493907 TATG TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
493955 TATG TATG TATG --TG TGTG TGTG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
493999 TGTG TGTG TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
494047 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
494095 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
494143 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
494189 CATGTTAACT
Statistics
Matches: 501, Mismatches: 35, Indels: 50
0.85 0.06 0.09
Matches are distributed among these distances:
2 5 0.01
3 12 0.02
4 458 0.91
5 20 0.04
6 6 0.01
ACGTcount: A:0.26, C:0.01, G:0.22, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:493914 original size:231 final size:231
Alignment explanation
Indices: 493511--493967 Score: 896
Period size: 231 Copynumber: 2.0 Consensus size: 231
493501 AGAGCCACAT
493511 TAGTTTTTTTTAAGTATAGTAACATTTGATGTATTTTTAACTTTATTTTATTAATTATATTTACC
1 TAGTTTTTTTTAAGTATAGTAACATTTGATGTATTTTTAACTTTATTTTATTAATTATATTTACC
*
493576 TAAAATTTTATTTATGATAATTCAAATACAAAAGTCTTGTGTTATTAATATGTATGTATGTATGT
66 TAAAATTTTATTTATGATAATTCAAATACAAAAGTCTTGTGTTATTAATATATATGTATGTATGT
493641 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTA
131 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTA
493706 TGTATGTATGTATGTATGTATGTATGTATGTATGTA
196 TGTATGTATGTATGTATGTATGTATGTATGTATGTA
493742 TAGTTTTTTTTAAGTATAGTAACATTTGATGTATTTTTAACTTTATTTTATTAATTATATTTACC
1 TAGTTTTTTTTAAGTATAGTAACATTTGATGTATTTTTAACTTTATTTTATTAATTATATTTACC
493807 TAAAATTTTATTTATGATAATTCAAATACAAAAGTCTTGTGTTATTAATATATATGTATGTATGT
66 TAAAATTTTATTTATGATAATTCAAATACAAAAGTCTTGTGTTATTAATATATATGTATGTATGT
*
493872 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTG
131 ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTA
493937 TGTATGTATGTATGTATGTATGTATGTATGT
196 TGTATGTATGTATGTATGTATGTATGTATGT
493968 GTGTGTGTGT
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 224 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (231 bp):
TAGTTTTTTTTAAGTATAGTAACATTTGATGTATTTTTAACTTTATTTTATTAATTATATTTACC
TAAAATTTTATTTATGATAATTCAAATACAAAAGTCTTGTGTTATTAATATATATGTATGTATGT
ATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTA
TGTATGTATGTATGTATGTATGTATGTATGTATGTA
Found at i:507023 original size:155 final size:157
Alignment explanation
Indices: 506715--507036 Score: 402
Period size: 155 Copynumber: 2.1 Consensus size: 157
506705 ATAAAAAGTG
* * *
506715 ACTTAAAATAAATCACAAATTAAATGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAA
1 ACTTAAAATAAATCACAAATTAAATGAATAAGAAGATTATGAAAAATTAAAGGAATAAATT-AAA
* *
506780 AATAAAAAAAAATTGTTATCAAAAAAGGAATTGAAAGTACACATGTATTCTACTATGGCTTAGGA
65 AATAAAAAAAAATTATTATCAAAAAAGGAATTAAAAGTACACATGTATTCTACTATGGCTTAGGA
*
506845 GCATATGGCTCAAATTTGATAAAAA-AA
130 GCATATAGCTCAAATTTGATAAAAATAA
** * *
506872 ACTTAAAATAAATGTCGAATTTAA-GAAATAAGAAGATTATGAAAAATTAAAGGAATAAATT-AA
1 ACTTAAAATAAATCACAAATTAAATG-AATAAGAAGATTATGAAAAATTAAAGGAATAAATTAAA
** * * * *
506935 AA-AATTAAAAATTATTATCAAAAAGATGAATTAAAAGTACACGTGTATTCTATTATGGTTTAGG
65 AATAAAAAAAAATTATTATCAAAAA-AGGAATTAAAAGTACACATGTATTCTACTATGGCTTAGG
* * *
506999 AGCATGTAGTTCAAATTTTG-TAAAAATAG
129 AGCATATAGCTCAAA-TTTGATAAAAATAA
507028 ACTTAAAAT
1 ACTTAAAAT
507037 GAAGGAGAAA
Statistics
Matches: 142, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
154 19 0.13
155 56 0.39
156 15 0.11
157 52 0.37
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (157 bp):
ACTTAAAATAAATCACAAATTAAATGAATAAGAAGATTATGAAAAATTAAAGGAATAAATTAAAA
ATAAAAAAAAATTATTATCAAAAAAGGAATTAAAAGTACACATGTATTCTACTATGGCTTAGGAG
CATATAGCTCAAATTTGATAAAAATAA
Found at i:508791 original size:21 final size:21
Alignment explanation
Indices: 508765--508818 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
508755 TCTTTGAGTA
508765 TTATATAAGCTTAAGAAAAGC
1 TTATATAAGCTTAAGAAAAGC
*
508786 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGAAAAGC
508807 TTATATAAGCTT
1 TTATATAAGCTT
508819 TAAACATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (21 bp):
TTATATAAGCTTAAGAAAAGC
Found at i:509350 original size:20 final size:22
Alignment explanation
Indices: 509305--509362 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
509295 GCATGGGTAG
509305 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
509329 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
509349 TGTATCGATGCACT
1 TGCATCGATGCACT
509363 TCAAAGGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:509881 original size:2 final size:2
Alignment explanation
Indices: 509834--509863 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
509824 GTTTTTGCGG
509834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
509864 GAATAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:510135 original size:12 final size:12
Alignment explanation
Indices: 510095--510136 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
510085 GCTATGAGAT
510095 TATATGAAATG-
1 TATATGAAATGA
510106 TGATATGAAAGTGTA
1 T-ATATGAAA-TG-A
510121 TATATGAAATGA
1 TATATGAAATGA
510133 TATA
1 TATA
510137 AAGATAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 13 0.48
13 4 0.15
14 8 0.30
15 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (12 bp):
TATATGAAATGA
Found at i:510289 original size:31 final size:32
Alignment explanation
Indices: 510204--510297 Score: 111
Period size: 32 Copynumber: 3.0 Consensus size: 32
510194 ATTCGAGGGT
* *
510204 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTAAGGAACATATGGACAGTA
***
510236 TTACCTATG-TCTTTCGAGACATATGGACAGTA
1 TTACCTATGTTCTAAGGA-ACATATGGACAGTA
*
510268 -TATCTATGTTCTAAGGAACATATGGACAGT
1 TTACCTATGTTCTAAGGAACATATGGACAGT
510298 TGTCGAGGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 25 0.48
32 27 0.52
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:511279 original size:43 final size:43
Alignment explanation
Indices: 511231--511411 Score: 177
Period size: 43 Copynumber: 4.2 Consensus size: 43
511221 TGTTCAAAAA
* * *
511231 AAACGCCGCAATAGGTAAAAATCTATAGCAGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCAGCGTTTTTGGAAC
* * * * *
511274 AAACGCCGCAAAATGTCGATATCTATAGCGGCGTTTCT-GATC
1 AAACGCCGCAAAAGGTCAATATCTATAGCAGCGTTTTTGGAAC
* * * * * *
511316 AGACACCGCAAAAGGTCACTATTTATAGCGGCCTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCAGCGTTTTTGGAAC
* * *
511359 AAACGCCGCAAAAGGTC-AGATCTATAGCAACGTTTTTTTGATAC
1 AAACGCCGCAAAAGGTCAATATCTATAGCAGCG-TTTTTGGA-AC
511403 AAACGCCGC
1 AAACGCCGC
511412 TAATTACCCT
Statistics
Matches: 109, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
42 42 0.39
43 56 0.51
44 11 0.10
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAATATCTATAGCAGCGTTTTTGGAAC
Found at i:511343 original size:42 final size:42
Alignment explanation
Indices: 511251--511386 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
511241 ATAGGTAAAA
* * * * *
511251 ATCTATAGCAGCGTTTTTGGAACAAACGCCGCAAAATGTCGAT
1 ATCTATAGCGGCCTTTCTGGAACAAACACCGCAAAAGGTC-AT
* * *
511294 ATCTATAGCGGCGTTTCT-GATCAGACACCGCAAAAGGTCACT
1 ATCTATAGCGGCCTTTCTGGAACAAACACCGCAAAAGGTCA-T
* * * *
511336 ATTTATAGCGGCCTTTTTGGAACAAACGCCGCAAAAGGTCAG
1 ATCTATAGCGGCCTTTCTGGAACAAACACCGCAAAAGGTCAT
511378 ATCTATAGC
1 ATCTATAGC
511387 AACGTTTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 41 0.53
43 35 0.45
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
ATCTATAGCGGCCTTTCTGGAACAAACACCGCAAAAGGTCAT
Found at i:511707 original size:27 final size:28
Alignment explanation
Indices: 511657--511713 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 28
511647 ACCTATCAAA
511657 ATAAAGCACGTCTCATGAAAGTCATCCAT
1 ATAAAGCACG-CTCATGAAAGTCATCCAT
511686 ATAAAGCACG-TCATGAAAGTCATCCAT
1 ATAAAGCACGCTCATGAAAGTCATCCAT
511713 A
1 A
511714 AATGGTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 18 0.64
29 10 0.36
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (28 bp):
ATAAAGCACGCTCATGAAAGTCATCCAT
Found at i:515677 original size:16 final size:18
Alignment explanation
Indices: 515645--515679 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
515635 ATATAAAAAC
515645 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
515663 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
515679 A
1 A
515680 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:516310 original size:37 final size:36
Alignment explanation
Indices: 516267--516368 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
516257 ATAGTAGAAC
516267 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
* *
516304 TTTATCCTATTTTTAAGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
516338 TCTATCATATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
516369 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
34 31 0.53
37 27 0.47
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Done.