Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_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: 4198033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:737544 original size:113 final size:113
Alignment explanation
Indices: 737422--738184 Score: 1222
Period size: 113 Copynumber: 6.8 Consensus size: 113
737412 AAAGGTTGGG
* * * **
737422 CAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACT-TT
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
* * * *
737486 CTCTGGCAATGTTGATCCATC-AAGTGATGAATTTAAACAAAAAGTTGAA
66 C-CTGGTAATGTTGATCCATCGAA-TGATGAATTCAAGCGAAAAGTTGAA
*
737535 CAGGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
* *
737600 CCTGGTAATGCTGATCCATCGAATGATGAATTCAAGTGAAAAGTTGAA
66 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
737648 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
* * *
737713 CCTGGTAATGCTGATCTATCGAATGATGAATTCAAGTGAAAAGTTGAA
66 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
737761 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
* * *
737826 CCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAA
66 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
* * **
737874 CATGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTT
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
*
737939 TCTGGTAATGTTGATCCATC-AA--ATG-----AAGCGAAAAGTTGAA
66 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
737979 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
738044 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
66 CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
738092 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
*
738157 CCTGGTAATGTTGATCCATTGAATGATG
66 CCTGGTAATGTTGATCCATCGAATGATG
738185 GATTTGAACT
Statistics
Matches: 608, Mismatches: 32, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
105 94 0.15
106 2 0.00
108 3 0.00
110 3 0.00
112 2 0.00
113 501 0.82
114 3 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAA
Found at i:738615 original size:22 final size:22
Alignment explanation
Indices: 738590--738644 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
738580 GATAAAGCTT
*
738590 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
738612 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
738634 TCATCTTTGAA
1 TCATCTTTGAA
738645 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:741323 original size:114 final size:114
Alignment explanation
Indices: 741123--741346 Score: 378
Period size: 114 Copynumber: 2.0 Consensus size: 114
741113 GATCATGCAG
* * *
741123 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATAATTGGTTCTAGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
*
741188 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
741237 TTCATCTTTCAAATCCAATAATTGGTT-TAAGGGTTCCTATCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATAATTGGTTCT-AGGGTTCCTACCAAACCAGATCAGATAACTCAAAG
*
741301 AACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTGTGAG
65 AACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAG
741347 AACGTGGCAC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 1 0.01
114 102 0.99
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATAATTGGTTCTAGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:743552 original size:10 final size:9
Alignment explanation
Indices: 743496--743553 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
743486 ATTTCTCCCC
743496 TTTTTCT-T
1 TTTTTCTCT
*
743504 TTTTCCTCTT
1 TTTTTCTC-T
*
743514 TTTTTTTCT
1 TTTTTCTCT
*
743523 TTTTTCTCA
1 TTTTTCTCT
743532 TTTTTC-C-
1 TTTTTCTCT
743539 TTTTTCATCT
1 TTTTTC-TCT
743549 TTTTT
1 TTTTT
743554 TTTGCTGGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
8 7 0.17
9 15 0.38
10 12 0.30
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:743552 original size:17 final size:16
Alignment explanation
Indices: 743496--743553 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
743486 ATTTCTCCCC
743496 TTTT-TCTTTTTTCC-
1 TTTTCTCTTTTTTCCT
* *
743510 TCTT-T-TTTTTTCTT
1 TTTTCTCTTTTTTCCT
*
743524 TTTTCTCATTTTTCCT
1 TTTTCTCTTTTTTCCT
743540 TTTTCATCTTTTTT
1 TTTTC-TCTTTTTT
743554 TTTGCTGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 1 0.03
16 12 0.35
17 7 0.21
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTCTTTTTTCCT
Found at i:747203 original size:14 final size:14
Alignment explanation
Indices: 747171--747222 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
747161 CATAAAAATA
* *
747171 CAAATGCAAAT-TC
1 CAAATGTAAATATG
747184 CAAATGTAAATATG
1 CAAATGTAAATATG
*
747198 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
747212 TAAATGTAAAT
1 CAAATGTAAAT
747223 TATTTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
13 10 0.30
14 23 0.70
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:750957 original size:3 final size:3
Alignment explanation
Indices: 750951--750996 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
750941 TATTTTTTAG
* *
750951 TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA -AA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
750997 AATCGGGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:750957 original size:18 final size:17
Alignment explanation
Indices: 750934--750976 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
750924 CCTGTTTCTA
* *
750934 AATAATATATTTTTTAGT
1 AATAATATAATTATTA-T
750952 AATAATAATAATTATTAT
1 AATAAT-ATAATTATTAT
750970 AATAATA
1 AATAATA
750977 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
AATAATATAATTATTAT
Found at i:750986 original size:8 final size:8
Alignment explanation
Indices: 750968--750999 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
750958 AATAATTATT
750968 ATAATAATA
1 ATAA-AATA
750977 ATAAAATA
1 ATAAAATA
750985 ATAAAATA
1 ATAAAATA
750993 ATAAAAT
1 ATAAAAT
751000 CGGGATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAAAATA
Found at i:770712 original size:19 final size:20
Alignment explanation
Indices: 770685--770722 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
770675 GTGGCATGTA
*
770685 AATCTATGCAAGT-ATACAT
1 AATCGATGCAAGTAATACAT
770704 AATCGATGCAAGTAATACA
1 AATCGATGCAAGTAATACA
770723 GTAGTGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (20 bp):
AATCGATGCAAGTAATACAT
Found at i:773561 original size:62 final size:62
Alignment explanation
Indices: 773400--773711 Score: 345
Period size: 62 Copynumber: 4.9 Consensus size: 62
773390 AAAGAACAAA
* * * * *
773400 TTTTATCTCACTTGATATAGTTTCTCTTGAAATACAAATTTTGAAATTGTTTCACTTGAAATAAA
1 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTTCA-TT--CA-AAA
773465 T
62 T
* * * * *
773466 TCTTATCTCACTTGAGATATTTTCTCTTGAAATACGAATTTTAAAATTATTTCATTCAAAAC
1 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTTCATTCAAAAT
**
773528 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTCACTCGAAACAAGA
1 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATT---TC-ATTC-A-A
773593 AAT
60 AAT
* * * * * *
773596 TTTTATCTCACTTGAGAAAATATCTCTTGAAATACGAATTTTGAAATCATTTTATTCAAAAT
1 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTTCATTCAAAAT
* * *
773658 TTTTATCTCACTTGAGACACTTTCTCTTGGAATACAAATTTTAAAATTATTTCA
1 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTTCA
773712 CTCGAAACAA
Statistics
Matches: 209, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
62 100 0.48
63 2 0.01
64 2 0.01
65 5 0.02
66 50 0.24
67 1 0.00
68 49 0.23
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (62 bp):
TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTTCATTCAAAAT
Found at i:773633 original size:130 final size:130
Alignment explanation
Indices: 773400--773739 Score: 479
Period size: 130 Copynumber: 2.6 Consensus size: 130
773390 AAAGAACAAA
* * * * *
773400 TTTTATCTCACTTGATATAGTTTCTCTTGAAATACAAATTTTGAAATTGTTTCACTTG--A-AAT
1 TTTTATCTCACTTGAGACACTTTCTCTTGAAATACAAATTTTGAAATT-ATTCACTCGAAACAAT
* * * * *
773462 AAATTCTTATCTCACTTGAGATATTTTCTCTTGAAATACGAATTTTAAAATTATTTCATTCAAAA
65 AAATTTTTATCTCACTTGAGAAAATATCTCTTGAAATACGAATTTTAAAATCATTTCATTCAAAA
773527 C
130 C
* *
773528 TTTTATCTCACTTGAGACATTTTCTCTTGAAATACAAATTTTGAAATTATTCACTCGAAACAAGA
1 TTTTATCTCACTTGAGACACTTTCTCTTGAAATACAAATTTTGAAATTATTCACTCGAAACAATA
* * *
773593 AATTTTTATCTCACTTGAGAAAATATCTCTTGAAATACGAATTTTGAAATCATTTTATTCAAAAT
66 AATTTTTATCTCACTTGAGAAAATATCTCTTGAAATACGAATTTTAAAATCATTTCATTCAAAAC
* *
773658 TTTTATCTCACTTGAGACACTTTCTCTTGGAATACAAATTTTAAAATTATTTCACTCGAAACAAT
1 TTTTATCTCACTTGAGACACTTTCTCTTGAAATACAAATTTTGAAATTA-TTCACTCGAAACAAT
*
773723 AAATGTTTATCTCACTT
65 AAATTTTTATCTCACTT
773740 AAGGTTGTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
127 7 0.04
128 45 0.24
129 1 0.01
130 106 0.56
131 30 0.16
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (130 bp):
TTTTATCTCACTTGAGACACTTTCTCTTGAAATACAAATTTTGAAATTATTCACTCGAAACAATA
AATTTTTATCTCACTTGAGAAAATATCTCTTGAAATACGAATTTTAAAATCATTTCATTCAAAAC
Found at i:784196 original size:27 final size:26
Alignment explanation
Indices: 784166--784224 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
784156 ATTCTTGTCG
*
784166 TTTTACAATATAAGGGTATTTTCATAA
1 TTTTAC-ACATAAGGGTATTTTCATAA
*
784193 TTTTACCCATAAGGGTATTTTCATAA
1 TTTTACACATAAGGGTATTTTCATAA
784219 TTTTAC
1 TTTTAC
784225 CTAACAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (26 bp):
TTTTACACATAAGGGTATTTTCATAA
Found at i:784206 original size:26 final size:26
Alignment explanation
Indices: 784175--784225 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
784165 GTTTTACAAT
784175 ATAAGGGTATTTTCATAATTTTACCC
1 ATAAGGGTATTTTCATAATTTTACCC
784201 ATAAGGGTATTTTCATAATTTTACC
1 ATAAGGGTATTTTCATAATTTTACC
784226 TAACAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (26 bp):
ATAAGGGTATTTTCATAATTTTACCC
Found at i:784245 original size:27 final size:26
Alignment explanation
Indices: 784181--784248 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
784171 CAATATAAGG
* * **
784181 GTATTTTCATAATTTTACCCATAAGG
1 GTATTTTCATAATTTTACCAACAAAA
784207 GTATTTTCATAATTTTACCTAACAAAA
1 GTATTTTCATAATTTTACC-AACAAAA
*
784234 GTATTGTCATAATTT
1 GTATTTTCATAATTT
784249 CTCATCCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 19 0.53
27 17 0.47
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (26 bp):
GTATTTTCATAATTTTACCAACAAAA
Found at i:788695 original size:27 final size:27
Alignment explanation
Indices: 788665--788724 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
788655 ATTCTTGTCT
* **
788665 TTTTACAACATAAGGGTATTTTTGTAA
1 TTTTACAACATAAGAGTATTTTCATAA
**
788692 TTTTACCCCATAAGAGTATTTTCATAA
1 TTTTACAACATAAGAGTATTTTCATAA
788719 TTTTAC
1 TTTTAC
788725 CTAGCAGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (27 bp):
TTTTACAACATAAGAGTATTTTCATAA
Found at i:788725 original size:27 final size:27
Alignment explanation
Indices: 788673--788725 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
788663 CTTTTTACAA
* **
788673 CATAAGGGTATTTTTGTAATTTTACCC
1 CATAAGAGTATTTTCATAATTTTACCC
788700 CATAAGAGTATTTTCATAATTTTACC
1 CATAAGAGTATTTTCATAATTTTACC
788726 TAGCAGAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (27 bp):
CATAAGAGTATTTTCATAATTTTACCC
Found at i:799580 original size:19 final size:18
Alignment explanation
Indices: 799552--799587 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
799542 TAAATGGTGC
*
799552 CTGAACATTTGAAACAAAA
1 CTGAAAATTTG-AACAAAA
799571 CTGAAAATTTGAACAAA
1 CTGAAAATTTGAACAAA
799588 TAAGGAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (18 bp):
CTGAAAATTTGAACAAAA
Found at i:803694 original size:28 final size:29
Alignment explanation
Indices: 803662--803716 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
803652 CTTGTACATG
803662 TGTTTGTTT-TTTTTTATT-TTGTTTTTAC
1 TGTTT-TTTATTTTTTATTGTTGTTTTTAC
*
803690 TGTTTTTTATTTTTTATTGTTTTTTTT
1 TGTTTTTTATTTTTTATTGTTGTTTTT
803717 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 3 0.12
28 14 0.58
29 7 0.29
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.82
Consensus pattern (29 bp):
TGTTTTTTATTTTTTATTGTTGTTTTTAC
Found at i:803705 original size:17 final size:16
Alignment explanation
Indices: 803678--803718 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
803668 TTTTTTTTTA
*
803678 TTTTGTTTTTACTGTT
1 TTTTTTTTTTACTGTT
*
803694 TTTTATTTTTTATTGTT
1 TTTT-TTTTTTACTGTT
803711 TTTTTTTT
1 TTTTTTTT
803719 ATTTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTACTGTT
Found at i:805763 original size:25 final size:22
Alignment explanation
Indices: 805700--805760 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
805690 CGGTAAAGTG
*
805700 CTACCGATTTTGTTATTTTTTT
1 CTACTGATTTTGTTATTTTTTT
805722 CTACTGATTTTGTTATTTTTTT
1 CTACTGATTTTGTTATTTTTTT
805744 CTACTGATTTTGTTATT
1 CTACTGATTTTGTTATT
805761 ATTGGACAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.15, C:0.11, G:0.10, T:0.64
Consensus pattern (22 bp):
CTACTGATTTTGTTATTTTTTT
Found at i:807660 original size:38 final size:38
Alignment explanation
Indices: 807618--807823 Score: 130
Period size: 38 Copynumber: 5.4 Consensus size: 38
807608 ATTACTGTTA
*
807618 TATCAGGTGACTCGTATGAGAGCACTAAATTATTACCG
1 TATCAGGTGACTCGTATGAGAGCACTAAATTATTATCG
* * * * *
807656 TATCAGGTGACTTGTATGGGAG-TCTCGAATTATTATTG
1 TATCAGGTGACTCGTATGAGAGCACT-AAATTATTATCG
* * * * * ** **
807694 TAGCAGGTGGCTCATACGGGAGCACTAAATTATCGTAA
1 TATCAGGTGACTCGTATGAGAGCACTAAATTATTATCG
* * * * * *
807732 TATCGGGTGATTCATACGAGAGCACAAAATTATTATCA
1 TATCAGGTGACTCGTATGAGAGCACTAAATTATTATCG
* * * *
807770 TAT-AGAGTGACTTGTATGAAAGC-CTTGAATTATTATTG
1 TATCAG-GTGACTCGTATGAGAGCAC-TAAATTATTATCG
*
807808 TATTAGGTGACTCGTA
1 TATCAGGTGACTCGTA
807824 CGGGAACACC
Statistics
Matches: 126, Mismatches: 37, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
37 4 0.03
38 118 0.94
39 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (38 bp):
TATCAGGTGACTCGTATGAGAGCACTAAATTATTATCG
Found at i:807665 original size:76 final size:76
Alignment explanation
Indices: 807469--807726 Score: 196
Period size: 76 Copynumber: 3.4 Consensus size: 76
807459 ATTGATGAAT
* * * * * * *
807469 CAGGTGACTCATACCAGAGCAATGAATTATTACCATATTAAGTGACTCGTACGTAAA-CCTTGAA
1 CAGGTGACTCATACGAGAGCACTAAATTATTACCGTATCAGGTGACTCGTACG-AAAGCCTCGAA
* * *
807533 TTATTATTGTAT
65 TTACTATTATAG
* * * * * *** *
807545 CATGTGATTCATAC-AGAATCGCCAAATTATTAATTTATCGGGTGACTCGTACGAAAGCCTCGAA
1 CAGGTGACTCATACGAG-AGCACTAAATTATTACCGTATCAGGTGACTCGTACGAAAGCCTCGAA
* *
807609 TTACTGTTATAT
65 TTACTATTATAG
* * * * ** *
807621 CAGGTGACTCGTATGAGAGCACTAAATTATTACCGTATCAGGTGACTTGTATGGGAGTCTCGAAT
1 CAGGTGACTCATACGAGAGCACTAAATTATTACCGTATCAGGTGACTCGTACGAAAGCCTCGAAT
* *
807686 TATTATTGTAG
66 TACTATTATAG
* *
807697 CAGGTGGCTCATACGGGAGCACTAAATTAT
1 CAGGTGACTCATACGAGAGCACTAAATTAT
807727 CGTAATATCG
Statistics
Matches: 138, Mismatches: 41, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
75 5 0.04
76 131 0.95
77 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (76 bp):
CAGGTGACTCATACGAGAGCACTAAATTATTACCGTATCAGGTGACTCGTACGAAAGCCTCGAAT
TACTATTATAG
Found at i:807687 original size:114 final size:114
Alignment explanation
Indices: 807569--807825 Score: 270
Period size: 114 Copynumber: 2.3 Consensus size: 114
807559 AGAATCGCCA
* * *
807569 AATTATTAATT-TATCGGGTGACTCGTACGAAAGC-CTCGAATTA-CTGTTATATCAGGTGACTC
1 AATTATT-ATTGTATCAGGTGACTCGTACGAAAGCACT-AAATTATC-GTAATATCAGGTGACTC
* * * * ** *
807631 GTATGAGAGCACTAAATTATTACCGTATCAG-GTGACTTGTATGGGAGTCTCG
63 ATACGAGAGCACAAAATTATTACCATAT-AGAGTGACTTGTATGAAAGCCTCG
* * * ** * *
807683 AATTATTATTGTAGCAGGTGGCTCATACGGGAGCACTAAATTATCGTAATATCGGGTGATTCATA
1 AATTATTATTGTATCAGGTGACTCGTACGAAAGCACTAAATTATCGTAATATCAGGTGACTCATA
* *
807748 CGAGAGCACAAAATTATTATCATATAGAGTGACTTGTATGAAAGCCTTG
66 CGAGAGCACAAAATTATTACCATATAGAGTGACTTGTATGAAAGCCTCG
*
807797 AATTATTATTGTATTAGGTGACTCGTACG
1 AATTATTATTGTATCAGGTGACTCGTACG
807826 GGAACACCAC
Statistics
Matches: 116, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
113 5 0.04
114 108 0.93
115 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (114 bp):
AATTATTATTGTATCAGGTGACTCGTACGAAAGCACTAAATTATCGTAATATCAGGTGACTCATA
CGAGAGCACAAAATTATTACCATATAGAGTGACTTGTATGAAAGCCTCG
Found at i:807826 original size:114 final size:114
Alignment explanation
Indices: 807617--807828 Score: 273
Period size: 114 Copynumber: 1.9 Consensus size: 114
807607 AATTACTGTT
* * * * ** *
807617 ATATCAGGTGACTCGTATGAGAGCACTAAATTATTACCGTATCAGGTGACTTGTATGGGAGTCTC
1 ATATCAGGTGACTCATACGAGAGCACAAAATTATTACCATATCAGGTGACTTGTATGAAAGCCTC
*
807682 GAATTATTATTGTAGCAGGTGGCTCATACGGGAGCACTAAATTATCGTA
66 GAATTATTATTGTAGCAGGTGACTCATACGGGAGCACTAAATTATCGTA
* * *
807731 ATATCGGGTGATTCATACGAGAGCACAAAATTATTATCATAT-AGAGTGACTTGTATGAAAGCCT
1 ATATCAGGTGACTCATACGAGAGCACAAAATTATTACCATATCAG-GTGACTTGTATGAAAGCCT
* ** *
807795 TGAATTATTATTGTATTAGGTGACTCGTACGGGA
65 CGAATTATTATTGTAGCAGGTGACTCATACGGGA
807829 ACACCACATT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
113 2 0.02
114 80 0.98
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (114 bp):
ATATCAGGTGACTCATACGAGAGCACAAAATTATTACCATATCAGGTGACTTGTATGAAAGCCTC
GAATTATTATTGTAGCAGGTGACTCATACGGGAGCACTAAATTATCGTA
Found at i:807861 original size:114 final size:114
Alignment explanation
Indices: 807626--807870 Score: 253
Period size: 114 Copynumber: 2.1 Consensus size: 114
807616 TATATCAGGT
* * * * ** *
807626 GACTCGTATGAGAGCACTAAATTATTACCGTATCAGGTGACTTGTATGGGAGTCTCGAATTATTA
1 GACTCATACGAGAGCACAAAATTATTACCATATCAGGTGACTTGTATGAAAGCCTCGAATTATTA
* * * * *
807691 TTGTAGCAGGTGGCTCATACGGGAGCACTAAATTATCGTAATATCGGGT
66 TTGTAGCAGGTGACTCATACGGGAACACCAAATTATCGTAATAGCGGGC
* * *
807740 GATTCATACGAGAGCACAAAATTATTATCATAT-AGAGTGACTTGTATGAAAGCCTTGAATTATT
1 GACTCATACGAGAGCACAAAATTATTACCATATCAG-GTGACTTGTATGAAAGCCTCGAATTATT
** * * *
807804 ATTGTATTAGGTGACTCGTACGGGAACACCACATTAT--TTATAAGCGAGGC
65 ATTGTAGCAGGTGACTCATACGGGAACACCAAATTATCGTAAT-AGCG-GGC
*
807854 GACTCATACGGGAGCAC
1 GACTCATACGAGAGCAC
807871 TAAGCTGATA
Statistics
Matches: 106, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
112 3 0.03
113 5 0.05
114 98 0.92
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (114 bp):
GACTCATACGAGAGCACAAAATTATTACCATATCAGGTGACTTGTATGAAAGCCTCGAATTATTA
TTGTAGCAGGTGACTCATACGGGAACACCAAATTATCGTAATAGCGGGC
Found at i:828700 original size:81 final size:81
Alignment explanation
Indices: 828565--828723 Score: 291
Period size: 81 Copynumber: 2.0 Consensus size: 81
828555 TGAACAAAAG
*
828565 TTGTTTACCAAAATGAGGAGTTACATGAGATGTAACTAGTAAAATGTTACTTACCTAAATAATCA
1 TTGTTCACCAAAATGAGGAGTTACATGAGATGTAACTAGTAAAATGTTACTTACCTAAATAATCA
828630 TTATCCTAAAAGACTT
66 TTATCCTAAAAGACTT
* *
828646 TTGTTCACCAAAATGAGGGGTTACATGAGATGTAACTAGTAAAGTGTTACTTACCTAAATAATCA
1 TTGTTCACCAAAATGAGGAGTTACATGAGATGTAACTAGTAAAATGTTACTTACCTAAATAATCA
828711 TTATCCTAAAAGA
66 TTATCCTAAAAGA
828724 AAAGCCAAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (81 bp):
TTGTTCACCAAAATGAGGAGTTACATGAGATGTAACTAGTAAAATGTTACTTACCTAAATAATCA
TTATCCTAAAAGACTT
Found at i:834789 original size:17 final size:17
Alignment explanation
Indices: 834767--834838 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
834757 AATTAAGAGT
834767 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
834784 TAGTTTGATGAATGGAA-
1 TAGTTTAATAAAT-GAAC
* *
834801 TAGTTTAATTATTGAAC
1 TAGTTTAATAAATGAAC
* * *
834818 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
834836 TAG
1 TAG
834839 ATGCATGAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
16 3 0.07
17 23 0.55
18 16 0.38
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:836699 original size:28 final size:28
Alignment explanation
Indices: 836659--836767 Score: 191
Period size: 28 Copynumber: 3.9 Consensus size: 28
836649 GAAGGACCAC
836659 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGAAGGACCACATAGAACACA
*
836687 TATGTCCCGAAGGACCACATAGAACAAA
1 TATGTCCCGAAGGACCACATAGAACACA
836715 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGAAGGACCACATAGAACACA
* *
836743 TATATCCCGAAGGACCACGTAGAAC
1 TATGTCCCGAAGGACCACATAGAAC
836768 CTTCGACTCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 77 1.00
ACGTcount: A:0.39, C:0.28, G:0.18, T:0.15
Consensus pattern (28 bp):
TATGTCCCGAAGGACCACATAGAACACA
Found at i:838600 original size:2 final size:2
Alignment explanation
Indices: 838595--838619 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
838585 CAATTTTTTA
838595 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
838620 ATTTTTAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:839104 original size:58 final size:57
Alignment explanation
Indices: 839031--839139 Score: 173
Period size: 58 Copynumber: 1.9 Consensus size: 57
839021 TCCTTTATTT
*
839031 TAAATTAGCCTTAAACTTTTGAAAATTCTAATTTTATCCCTAAACTATGACTCAGTC
1 TAAATTAGCCTTAAACTTTTGAAAATTCTAATTTCATCCCTAAACTATGACTCAGTC
* * *
839088 TAAATTAGTCCTTAAACTTTTGAACATTTTGATTTCATCCCTAAACTATGAC
1 TAAATTAG-CCTTAAACTTTTGAAAATTCTAATTTCATCCCTAAACTATGAC
839140 CCTCTTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 8 0.17
58 39 0.83
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.39
Consensus pattern (57 bp):
TAAATTAGCCTTAAACTTTTGAAAATTCTAATTTCATCCCTAAACTATGACTCAGTC
Found at i:839447 original size:60 final size:60
Alignment explanation
Indices: 839329--839464 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
839319 ATGAAATTAG
* * * ** * * *
839329 AATGTTCAAAAAGTTTGTGGACTAATTTATAATGAAGGTCATTGTTTGTGGATGAAATTGA
1 AATGTTC-AAAAGTTTGAGGACTAATTTAGAATGAAGATCATACTTTATAGATAAAATTGA
*
839390 AATGTTCAAAAGTTTGAGGACTAATTTAGAATGATA-ATCATACTTTATAGATAAAATTGG
1 AATGTTCAAAAGTTTGAGGACTAATTTAGAATGA-AGATCATACTTTATAGATAAAATTGA
* *
839450 AATTTTTAAAAGTTT
1 AATGTTCAAAAGTTT
839465 ACAGACCAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
60 55 0.87
61 8 0.13
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (60 bp):
AATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAGATCATACTTTATAGATAAAATTGA
Found at i:849478 original size:9 final size:8
Alignment explanation
Indices: 849436--849460 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
849426 AAATTCTTCA
849436 TTTCTTTT
1 TTTCTTTT
849444 TTTCTTTT
1 TTTCTTTT
849452 TTTCTTTT
1 TTTCTTTT
849460 T
1 T
849461 CTGATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:849987 original size:30 final size:30
Alignment explanation
Indices: 849951--850010 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
849941 GGGTGGTGAT
849951 AGTGTCTTCAACCCACTAGATATCAATATA
1 AGTGTCTTCAACCCACTAGATATCAATATA
849981 AGTGTCTTCAACCCACTAGATATCAATATA
1 AGTGTCTTCAACCCACTAGATATCAATATA
850011 GAAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (30 bp):
AGTGTCTTCAACCCACTAGATATCAATATA
Found at i:850643 original size:20 final size:20
Alignment explanation
Indices: 850618--850658 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
850608 GGTAACCCTT
850618 TATGTTTGAGCTAGTTCTGG
1 TATGTTTGAGCTAGTTCTGG
850638 TATGTTTGAGCTAGTTCTGG
1 TATGTTTGAGCTAGTTCTGG
850658 T
1 T
850659 GTGAATGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.29, T:0.46
Consensus pattern (20 bp):
TATGTTTGAGCTAGTTCTGG
Found at i:854662 original size:10 final size:10
Alignment explanation
Indices: 854644--854694 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
854634 ACCTAATATA
*
854644 AAAAGAAAAG
1 AAAATAAAAG
854654 AAAATAAAATG
1 AAAATAAAA-G
*
854665 -AAATAAAAT
1 AAAATAAAAG
854674 AAAATAAAAAG
1 AAAAT-AAAAG
854685 AAATATAAAA
1 AAA-ATAAAA
854695 AATGGAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 20 0.59
11 12 0.35
12 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:854668 original size:5 final size:5
Alignment explanation
Indices: 854644--854682 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
854634 ACCTAATATA
* * *
854644 AAAAG AAAAG AAAAT AAAAT GAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
854683 AGAAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:854677 original size:20 final size:20
Alignment explanation
Indices: 854649--854689 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
854639 ATATAAAAAG
*
854649 AAAAGAAAATAAAATGAAAT
1 AAAAGAAAATAAAAAGAAAT
*
854669 AAAATAAAATAAAAAGAAAT
1 AAAAGAAAATAAAAAGAAAT
854689 A
1 A
854690 TAAAAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAAGAAAATAAAAAGAAAT
Found at i:854811 original size:26 final size:25
Alignment explanation
Indices: 854781--854868 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 25
854771 ACAATATAAC
854781 ATGTTTTCAAATATTATATATTATAT
1 ATGTTTTCAAA-ATTATATATTATAT
*
854807 ATGTTTTCAAAAACCGTT-T-TAATA-AT
1 ATGTTTTC-AAAA---TTATATATTATAT
854833 ATGTTTTCAAAA--ACTATATTATAT
1 ATGTTTTCAAAATTA-TATATTATAT
854857 ATGTTTTCAAAA
1 ATGTTTTCAAAA
854869 CCCATTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
22 1 0.02
23 4 0.08
24 14 0.27
25 4 0.08
26 19 0.37
27 7 0.13
28 1 0.02
29 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (25 bp):
ATGTTTTCAAAATTATATATTATAT
Found at i:858657 original size:18 final size:18
Alignment explanation
Indices: 858634--858681 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
858624 GTTGTTTTTA
858634 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
*
858652 AAATAAAAAATAATAATT
1 AAATAAAAAATAAGAATT
*
858670 AATTAAACAAAT
1 AAATAAA-AAAT
858682 TAAAGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:861304 original size:21 final size:19
Alignment explanation
Indices: 861275--861329 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 19
861265 TGTTCAGAGA
861275 AAAATAAAATAAAATAAATT
1 AAAATAAAATAAAATAAA-T
861295 AAAATAAAAATAAAAATAAAT
1 AAAAT-AAAAT-AAAATAAAT
861316 AAAATGAAAATAAA
1 AAAAT-AAAATAAA
861330 GTTTGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAAAATAAAT
Found at i:861325 original size:6 final size:5
Alignment explanation
Indices: 861275--861387 Score: 68
Period size: 5 Copynumber: 21.4 Consensus size: 5
861265 TGTTCAGAGA
*
861275 AAAAT AAAAT AAAAT AAATT AAAAT AAAAAT AAAA- ATAAAT AAAAT GAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT -AAAAT
* ** * *
861327 AAAGTTT GTTAA- AAAAT AAAAT AAAAAT AAAACT AAACT AAAAT GAAAT
1 AAA--AT -AAAAT AAAAT AAAAT -AAAAT AAAA-T AAAAT AAAAT AAAAT
* *
861376 GAAAT TAAAT AA
1 AAAAT AAAAT AA
861388 TAAAAATAGA
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
4 3 0.04
5 60 0.71
6 20 0.24
7 1 0.01
8 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:864475 original size:17 final size:16
Alignment explanation
Indices: 864450--864494 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
864440 CTTAAGTTGC
*
864450 AAATGTTAAATATTATT
1 AAATATTAAATATTA-T
*
864467 AAATCTTAAATATTAT
1 AAATATTAAATATTAT
864483 -AATATTAAATAT
1 AAATATTAAATAT
864495 GCATGTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 11 0.42
16 1 0.04
17 14 0.54
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
AAATATTAAATATTAT
Found at i:864557 original size:22 final size:23
Alignment explanation
Indices: 864514--864557 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
864504 TACGTGAAAT
*
864514 ATAAATTCGACATATTTATAAAG
1 ATAAATTCGACATAGTTATAAAG
864537 ATAAATTCGAC-TAGTTATAAA
1 ATAAATTCGACATAGTTATAAA
864558 TTCAACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
ATAAATTCGACATAGTTATAAAG
Found at i:864558 original size:16 final size:16
Alignment explanation
Indices: 864537--864575 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
864527 ATTTATAAAG
*
864537 ATAAATTCGACTAGTT
1 ATAAATTCAACTAGTT
*
864553 ATAAATTCAACTATTT
1 ATAAATTCAACTAGTT
864569 ATAAATT
1 ATAAATT
864576 TGATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (16 bp):
ATAAATTCAACTAGTT
Found at i:864619 original size:11 final size:11
Alignment explanation
Indices: 864605--864656 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
864595 TCTATTTAAA
*
864605 TATTTAATAAT
1 TATTAAATAAT
864616 TATTAAATAAT
1 TATTAAATAAT
*
864627 TATTAGTAATCAT
1 TATTA--AATAAT
*
864640 TATTAAATCAT
1 TATTAAATAAT
864651 TATTAA
1 TATTAA
864657 TGATTAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 27 0.73
13 10 0.27
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (11 bp):
TATTAAATAAT
Found at i:864636 original size:21 final size:20
Alignment explanation
Indices: 864611--864678 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 20
864601 TAAATATTTA
864611 ATAATTATTAAATAATTATT
1 ATAATTATTAAATAATTATT
*
864631 AGTAATCATTATTAAATCATTA-T
1 A-T-A--ATTATTAAATAATTATT
* *
864654 -TAATGATTAAATCATTATT
1 ATAATTATTAAATAATTATT
864673 ATAATT
1 ATAATT
864679 TTATTATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 14 0.36
19 1 0.03
20 6 0.15
21 2 0.05
22 1 0.03
23 1 0.03
24 14 0.36
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (20 bp):
ATAATTATTAAATAATTATT
Found at i:864641 original size:24 final size:24
Alignment explanation
Indices: 864609--864655 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
864599 TTTAAATATT
864609 TAATAATTATTAAATAATTATTAG
1 TAATAATTATTAAATAATTATTAG
* *
864633 TAATCATTATTAAATCATTATTA
1 TAATAATTATTAAATAATTATTA
864656 ATGATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATAATTATTAAATAATTATTAG
Found at i:864718 original size:14 final size:15
Alignment explanation
Indices: 864699--864730 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
864689 TAATAATTAC
864699 TAAATCATT-AATAT
1 TAAATCATTAAATAT
864713 TAAATCATTAAATAT
1 TAAATCATTAAATAT
864728 TAA
1 TAA
864731 TAATAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATCATTAAATAT
Found at i:864730 original size:21 final size:22
Alignment explanation
Indices: 864699--864743 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
864689 TAATAATTAC
*
864699 TAAATCATTAATATTAAATCAT
1 TAAATCATTAATAATAAATCAT
864721 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATCAT
864742 TA
1 TA
864744 TTAGTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATCATTAATAATAAATCAT
Found at i:864757 original size:59 final size:58
Alignment explanation
Indices: 864619--864789 Score: 170
Period size: 59 Copynumber: 2.9 Consensus size: 58
864609 TAATAATTAT
* * *
864619 TAAATAATTATTAGTAATCATTATTAAATCA-T--TATT-AATGATTAAATCATTATTA
1 TAAATAATTATTAGTAATCATTACTAAATCATTAATATTAAATCATTAAAT-ATTATAA
* * * *
864674 TAATTTTATTATTACTAATAATTACTAAATCATTAATATTAAATCATTAAATATTAATAA
1 TAA-ATAATTATTAGTAATCATTACTAAATCATTAATATTAAATCATTAAATATT-ATAA
* * *
864734 TAAATCATTATTAGTAATCATTACCAAATCATATCAATACTAAAATCATTAAATAT
1 TAAATAATTATTAGTAATCATTACTAAATCAT-T-AATA-TTAAATCATTAAATAT
864790 AAAATCATTA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
55 3 0.03
56 23 0.24
57 1 0.01
59 31 0.33
60 17 0.18
61 4 0.04
62 15 0.16
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (58 bp):
TAAATAATTATTAGTAATCATTACTAAATCATTAATATTAAATCATTAAATATTATAA
Found at i:864794 original size:15 final size:15
Alignment explanation
Indices: 864759--864807 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
864749 AATCATTACC
*
864759 AAATCATATCAATACTA
1 AAATCAT-TAAATA-TA
864776 AAATCATTAAATATA
1 AAATCATTAAATATA
864791 AAATCATTAAATATA
1 AAATCATTAAATATA
864806 AA
1 AA
864808 GATAAATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 19 0.61
16 5 0.16
17 7 0.23
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATCATTAAATATA
Found at i:864926 original size:22 final size:23
Alignment explanation
Indices: 864882--864929 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
864872 ATGAAATGTA
*
864882 AAAAACAAATTCGACATATTTAT
1 AAAAACAAATTCGACATAGTTAT
* *
864905 AAAAATAAATTTGAC-TAGTTAT
1 AAAAACAAATTCGACATAGTTAT
864927 AAA
1 AAA
864930 TTCAACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.31
Consensus pattern (23 bp):
AAAAACAAATTCGACATAGTTAT
Found at i:864989 original size:14 final size:14
Alignment explanation
Indices: 864970--865028 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
864960 TTTATTATTA
864970 CAAATCATTAGTAT
1 CAAATCATTAGTAT
*
864984 CAAATCATTATTAT
1 CAAATCATTAGTAT
*
864998 --AAT-TTTAG--T
1 CAAATCATTAGTAT
865007 --AATCATTAGTAT
1 CAAATCATTAGTAT
865019 CAAATCATTA
1 CAAATCATTA
865029 TTATAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 3 0.08
12 4 0.11
14 21 0.58
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (14 bp):
CAAATCATTAGTAT
Found at i:865010 original size:21 final size:21
Alignment explanation
Indices: 864986--865063 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
864976 ATTAGTATCA
864986 AATCATTATTATAATTTTAGT
1 AATCATTATTATAATTTTAGT
* *
865007 AATCATTA--GT-A--TCA--
1 AATCATTATTATAATTTTAGT
865021 AATCATTATTATAATTTTAGT
1 AATCATTATTATAATTTTAGT
865042 AATCATTATTA-AATTATTAGT
1 AATCATTATTATAATT-TTAGT
865063 A
1 A
865064 TCAAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
14 8 0.18
16 3 0.07
17 1 0.02
18 1 0.02
19 3 0.07
20 4 0.09
21 25 0.56
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (21 bp):
AATCATTATTATAATTTTAGT
Found at i:865018 original size:35 final size:35
Alignment explanation
Indices: 864972--865049 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
864962 TATTATTACA
864972 AATCATTAGTATCAAATCATTATTATAATTTTAGT
1 AATCATTAGTATCAAATCATTATTATAATTTTAGT
865007 AATCATTAGTATCAAATCATTATTATAATTTTAGT
1 AATCATTAGTATCAAATCATTATTATAATTTTAGT
865042 AATCATTA
1 AATCATTA
865050 TTAAATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (35 bp):
AATCATTAGTATCAAATCATTATTATAATTTTAGT
Found at i:865178 original size:16 final size:17
Alignment explanation
Indices: 865151--865182 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
865141 ATCATTATTA
865151 ATAATCATTACTAAATG
1 ATAATCATTACTAAATG
865168 ATAAT-ATTACTAAAT
1 ATAATCATTACTAAAT
865183 CATTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATCATTACTAAATG
Found at i:865199 original size:15 final size:15
Alignment explanation
Indices: 865179--865212 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
865169 TAATATTACT
*
865179 AAATCATTAAATATA
1 AAATCATTAAAAATA
865194 AAATCATTAAAAATA
1 AAATCATTAAAAATA
865209 AAAT
1 AAAT
865213 TTTAATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATCATTAAAAATA
Found at i:865244 original size:21 final size:21
Alignment explanation
Indices: 865220--865302 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 21
865210 AATTTTAATC
865220 ATTAAATAATAAATCATTATT
1 ATTAAATAATAAATCATTATT
* *
865241 ATTATATTAGT-AATCATTATT
1 ATTA-AATAATAAATCATTATT
*
865262 AGTAATCATTAATAAATCATATCATT
1 ATTAA--A-TAATAAATCAT-T-ATT
*
865288 ACTAAAATAATAAAT
1 A-TTAAATAATAAAT
865303 TAGACTGGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
20 1 0.02
21 17 0.36
22 4 0.09
23 3 0.06
24 14 0.30
25 2 0.04
26 4 0.09
27 2 0.04
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTAAATAATAAATCATTATT
Found at i:865263 original size:13 final size:13
Alignment explanation
Indices: 865245--865272 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
865235 ATTATTATTA
865245 TATTAGTAATCAT
1 TATTAGTAATCAT
865258 TATTAGTAATCAT
1 TATTAGTAATCAT
865271 TA
1 TA
865273 ATAAATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
TATTAGTAATCAT
Found at i:865415 original size:22 final size:23
Alignment explanation
Indices: 865376--865418 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
865366 TATAAAAAAC
865376 TAAATTCGACATATTTATAAAGA
1 TAAATTCGACATATTTATAAAGA
865399 TAAATTCGAC-TATTTATAAA
1 TAAATTCGACATATTTATAAA
865419 TTCAACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (23 bp):
TAAATTCGACATATTTATAAAGA
Found at i:865419 original size:16 final size:16
Alignment explanation
Indices: 865398--865438 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
865388 ATTTATAAAG
*
865398 ATAAATTCGACTATTT
1 ATAAATTCAACTATTT
865414 ATAAATTCAACTATTT
1 ATAAATTCAACTATTT
*
865430 ATCAATTCA
1 ATAAATTCA
865439 TTATTACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (16 bp):
ATAAATTCAACTATTT
Found at i:865563 original size:12 final size:14
Alignment explanation
Indices: 865531--865567 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
865521 ATATTATTAC
865531 AAAATCATTAAATAT
1 AAAATCATT-AATAT
865546 AAAATCATTAA-A-
1 AAAATCATTAATAT
865558 AAAATCATTA
1 AAAATCATTA
865568 TTAACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 2 0.09
15 9 0.41
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATCATTAATAT
Found at i:868696 original size:17 final size:17
Alignment explanation
Indices: 868674--868732 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 17
868664 CTAATATAAA
868674 TTAAACAAAATATTTTT
1 TTAAACAAAATATTTTT
*
868691 TTAAACAACAATAAATATTT
1 TTAAACAA-AAT--ATTTTT
*
868711 TTAAACACAATA-TTTT
1 TTAAACAAAATATTTTT
868727 TTAAAC
1 TTAAAC
868733 GAGAATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 9 0.25
17 9 0.25
18 3 0.08
19 3 0.08
20 12 0.33
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACAAAATATTTTT
Found at i:869212 original size:45 final size:42
Alignment explanation
Indices: 869123--869223 Score: 139
Period size: 45 Copynumber: 2.3 Consensus size: 42
869113 GTTTAAATAC
*
869123 ACTAACAAATTAATTAAATATTTTTTACATATAATAACTTAA
1 ACTAACAAACTAATTAAATATTTTTTACATATAATAACTTAA
* * *
869165 ACTAAGAAACTAATTAACTAATTTTTTATATAATATATAACTTAA
1 ACTAACAAACTAATTAAAT-ATTTTTTACAT-ATA-ATAACTTAA
869210 ACTAACAAACTAAT
1 ACTAACAAACTAAT
869224 ATAATATAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
42 16 0.31
43 10 0.20
44 3 0.06
45 22 0.43
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (42 bp):
ACTAACAAACTAATTAAATATTTTTTACATATAATAACTTAA
Found at i:869230 original size:28 final size:28
Alignment explanation
Indices: 869199--869252 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
869189 TTTATATAAT
869199 ATATAACTTAAACTAACAAACTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
*
869227 ATATAACTTAAACTAACATACTAATA
1 ATATAACTTAAACTAACAAACTAATA
869253 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:869259 original size:28 final size:28
Alignment explanation
Indices: 869194--869259 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
869184 AATTTTTTAT
869194 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
*
869222 AT-ATAATATAACTTAAACTAACATACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
869250 ATAATTTATA
1 ATAATATATA
869260 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:869262 original size:21 final size:21
Alignment explanation
Indices: 869229--869277 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
869219 CTAATATAAT
*
869229 ATAACTTAAACTAACATACTA
1 ATAACTTAAACTAACAAACTA
* *
869250 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
869271 ATTAACT
1 A-TAACT
869278 AAATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:869526 original size:25 final size:25
Alignment explanation
Indices: 869494--869552 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
869484 GCGTTGGCGA
*
869494 GCTGCAATAAAT-TAGAGCGTTGAAG
1 GCTGCAATAAATATA-AGCGTTGAAC
*
869519 GCTGCAAT-TATATAAGCGTTGAAC
1 GCTGCAATAAATATAAGCGTTGAAC
869543 GCTGCAATAA
1 GCTGCAATAA
869553 TGCAACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTGCAATAAATATAAGCGTTGAAC
Found at i:871389 original size:11 final size:11
Alignment explanation
Indices: 871371--871403 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
871361 TTAGTTCAAA
871371 ATATTAAATAT
1 ATATTAAATAT
871382 GA-ATTAAATAT
1 -ATATTAAATAT
871393 ATATTAAATAT
1 ATATTAAATAT
871404 TAAATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:871416 original size:18 final size:18
Alignment explanation
Indices: 871384--871418 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
871374 TTAAATATGA
* *
871384 ATTAAATATATATTAAAT
1 ATTAAATACAAATTAAAT
871402 ATTAAATACAAATTAAA
1 ATTAAATACAAATTAAA
871419 AACGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAATACAAATTAAAT
Found at i:883759 original size:49 final size:49
Alignment explanation
Indices: 883692--883798 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 49
883682 CCCTACGTGG
* * * *
883692 CGTATAGCGCGAATCAGGGGGGAGCTATACCCATGTGGCGCCAGATCAC
1 CGTATAGCGCGAAGCAGGGGGGAGCTATACCCACGTGGCACCAAATCAC
** * * * *
883741 CGTATAGCGCGGGGCAGGGGTGCGCTATACCTACGTGGCACCAAATCAG
1 CGTATAGCGCGAAGCAGGGGGGAGCTATACCCACGTGGCACCAAATCAC
*
883790 CATATAGCG
1 CGTATAGCG
883799 TGGTTCAAGG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.17
Consensus pattern (49 bp):
CGTATAGCGCGAAGCAGGGGGGAGCTATACCCACGTGGCACCAAATCAC
Found at i:884596 original size:11 final size:12
Alignment explanation
Indices: 884572--884596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
884562 GGTTTATGTC
884572 TTTTAAATATTT
1 TTTTAAATATTT
884584 TTTTAAATATTT
1 TTTTAAATATTT
884596 T
1 T
884597 AAAAGGTGTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTAAATATTT
Found at i:887814 original size:20 final size:20
Alignment explanation
Indices: 887789--887831 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
887779 TTTTCTCTTG
*
887789 AAAGCAAAATTG-GATTTTGA
1 AAAGCAAAA-TGAAATTTTGA
887809 AAAGCAAAATGAAATTTTGA
1 AAAGCAAAATGAAATTTTGA
887829 AAA
1 AAA
887832 ATGATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGCAAAATGAAATTTTGA
Found at i:888871 original size:21 final size:21
Alignment explanation
Indices: 888847--888888 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
888837 GCACGTAAAA
888847 TAAACTTATAATAGTCTTTTT
1 TAAACTTATAATAGTCTTTTT
888868 TAAACTTATAATAGTCTTTTT
1 TAAACTTATAATAGTCTTTTT
888889 CTTTCACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
TAAACTTATAATAGTCTTTTT
Found at i:889271 original size:17 final size:17
Alignment explanation
Indices: 889231--889271 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
889221 TGTATTGTTC
*
889231 CTTTCATTGTACTATAT
1 CTTTTATTGTACTATAT
**
889248 CCCTTATTGTACTATAT
1 CTTTTATTGTACTATAT
889265 CTTTTAT
1 CTTTTAT
889272 AATATTGTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.05, T:0.54
Consensus pattern (17 bp):
CTTTTATTGTACTATAT
Found at i:889573 original size:19 final size:19
Alignment explanation
Indices: 889549--889700 Score: 74
Period size: 19 Copynumber: 7.7 Consensus size: 19
889539 AACTAATAAA
*
889549 GCACATATAGTGCCATATT
1 GCACATAAAGTGCCATATT
*
889568 GCACATAAAGTGCCAGATAAT
1 GCACATAAAGTGCC--ATATT
*
889589 GCACACATAATGTG--ATATT
1 G--CACATAAAGTGCCATATT
* * *
889608 GCATATAAAGTGCTGAATAAT
1 GCACATAAAGTGC--CATATT
* * * *
889629 GCACACATAGTTCTATATT
1 GCACATAAAGTGCCATATT
** *
889648 GCACATAAAGTGTTGGATAAT
1 GCACATAAAGTG--CCATATT
* * *
889669 GCACACATAGTGCCAAATT
1 GCACATAAAGTGCCATATT
889688 GCACATAAAGTGC
1 GCACATAAAGTGC
889701 ATGACAAATG
Statistics
Matches: 96, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
17 9 0.09
19 45 0.47
21 32 0.33
23 10 0.10
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (19 bp):
GCACATAAAGTGCCATATT
Found at i:889607 original size:40 final size:40
Alignment explanation
Indices: 889544--889700 Score: 174
Period size: 40 Copynumber: 3.9 Consensus size: 40
889534 CATGAAACTA
* * *
889544 ATAAAGCACATATAGTGCCATATTGCACATAAAGTGCCAG
1 ATAATGCACACATAGTGTCATATTGCACATAAAGTGCCAG
* * * *
889584 ATAATGCACACATAATGTGATATTGCATATAAAGTG-CTG
1 ATAATGCACACATAGTGTCATATTGCACATAAAGTGCCAG
***
889623 AATAATGCACACATAGT-TCTATATTGCACATAAAGTGTTGG
1 -ATAATGCACACATAGTGTC-ATATTGCACATAAAGTGCCAG
* *
889664 ATAATGCACACATAGTGCCAAATTGCACATAAAGTGC
1 ATAATGCACACATAGTGTCATATTGCACATAAAGTGC
889701 ATGACAAATG
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.95
41 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (40 bp):
ATAATGCACACATAGTGTCATATTGCACATAAAGTGCCAG
Found at i:889676 original size:80 final size:80
Alignment explanation
Indices: 889543--889700 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 80
889533 TCATGAAACT
* ** *
889543 AATAAAGCACATATAGTGCCATATTGCACATAAAGTGCCAGATAATGCACACATAATGTGATATT
1 AATAAAGCACACATAGTGCCATATTGCACATAAAGTGCCAGATAATGCACACATAATGCCAAATT
*
889608 GCATATAAAGTGCTG
66 GCACATAAAGTGCTG
* * * *** *
889623 AATAATGCACACATAGTTCTATATTGCACATAAAGTGTTGGATAATGCACACATAGTGCCAAATT
1 AATAAAGCACACATAGTGCCATATTGCACATAAAGTGCCAGATAATGCACACATAATGCCAAATT
889688 GCACATAAAGTGC
66 GCACATAAAGTGC
889701 ATGACAAATG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (80 bp):
AATAAAGCACACATAGTGCCATATTGCACATAAAGTGCCAGATAATGCACACATAATGCCAAATT
GCACATAAAGTGCTG
Found at i:905091 original size:17 final size:17
Alignment explanation
Indices: 905069--905104 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
905059 ATTAAATATG
* *
905069 AATTAAATATATATTAA
1 AATTAAATACAAATTAA
905086 AATTAAATACAAATTAA
1 AATTAAATACAAATTAA
905103 AA
1 AA
905105 ATGAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAAATACAAATTAA
Found at i:910729 original size:8 final size:7
Alignment explanation
Indices: 910701--910727 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
910691 CCAAAGGACC
910701 AAAAAAT
1 AAAAAAT
910708 AAAAAAT
1 AAAAAAT
910715 AAAAAAT
1 AAAAAAT
910722 AAAAAA
1 AAAAAA
910728 ATGAAACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:916641 original size:3 final size:3
Alignment explanation
Indices: 916633--916669 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
916623 GTAATAAATT
916633 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
916670 TCATGGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:917108 original size:137 final size:136
Alignment explanation
Indices: 916867--917307 Score: 559
Period size: 137 Copynumber: 3.2 Consensus size: 136
916857 TAGTTTGTTC
* * * * *
916867 CACTCTTCTTTTAGGGGAGATCAGACTTGATCTGTTCCTCTTTTTCAGG-AATTCAAATCAACT-
1 CACTATTCTTTCAGGGGAGATCAGACTTGA-CTGTTCCTCTTTTTCGGGTAGTT-AGATCAA-TG
* * ** **
916930 TTGGAAGACGAGTATGCTCAACTCTTCTTTCAATGAGATAAGACTCGAGAAATCTTTGGAAGAAA
63 TTGGAAGACGAGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACG
916995 AGTATG-TT
128 AGTATGCTT
* *
917003 CCACTATTATTTCAGGGGAGATTAGACTTGACATGTTCCTCTTTTTCGGGTAGTTAGATCAATGT
1 -CACTATTCTTTCAGGGGAGATCAGACTTGAC-TGTTCCTCTTTTTCGGGTAGTTAGATCAATGT
*
917068 TGGAAGACGAGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACGG
64 TGGAAGACGAGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACGA
917133 GTATGCTT
129 GTATGCTT
* * * * *
917141 CACTCTTCTTTCAGGGAAGATCTA-ACTAGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATGT
1 CACTATTCTTTCAGGGGAGATC-AGACTTGA-CTGTTCCTCTTTTTCGGGTAGTTAGATCAATGT
* * *
917205 TGGAAGATGAGTCTAG-TCCACACTTTTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACG
64 TGGAAGACGAGTCT-GCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACG
917269 AGTATGCTT
128 AGTATGCTT
* *
917278 CACTATTCTTTTAAGGGAGATCAGACTTGA
1 CACTATTCTTTCAGGGGAGATCAGACTTGA
917308 GAAATATTTG
Statistics
Matches: 266, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
136 3 0.01
137 256 0.96
138 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (136 bp):
CACTATTCTTTCAGGGGAGATCAGACTTGACTGTTCCTCTTTTTCGGGTAGTTAGATCAATGTTG
GAAGACGAGTCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGGAAGACGAGT
ATGCTT
Found at i:917352 original size:56 final size:54
Alignment explanation
Indices: 917204--917368 Score: 177
Period size: 56 Copynumber: 2.9 Consensus size: 54
917194 CAGATCAATG
* * * * *
917204 TTGGAAGATGAGTCTAGTCCACACTTTTTTCAGGGAGATAAGACTCGAGAAATCT
1 TTGGAAGATGAGTCTACTCCATA-TTTTTTCAGGGAGATCAGACTTGAGAAATAT
* * * * *
917259 TTGGAAGACGAGTATGCTTCACTATTCTTTTAAGGGAGATCAGACTTGAGAAATAT
1 TTGGAAGATGAGTCTACTCCA-TATT-TTTTCAGGGAGATCAGACTTGAGAAATAT
*
917315 TTGGAAGATGGGTCTACTCCATTATTTTTTCATGGGAGATCAGACTTTGAGAAA
1 TTGGAAGATGAGTCTACTCCA-TATTTTTTCA-GGGAGATCAGAC-TTGAGAAA
917369 AAATTGAGCA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
55 23 0.26
56 58 0.65
57 8 0.09
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (54 bp):
TTGGAAGATGAGTCTACTCCATATTTTTTCAGGGAGATCAGACTTGAGAAATAT
Found at i:921205 original size:54 final size:54
Alignment explanation
Indices: 921112--921659 Score: 626
Period size: 54 Copynumber: 10.1 Consensus size: 54
921102 GGTAATCACA
* * * *
921112 GAATACATCATATATTGATGAATAACCGTTTCGGTACTAAGTGTACAAAGTACG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
* * *
921166 GAATTCATCATCTGTTAATGAATAACCGTTTCAGCACTAAGTGTGCAAAGTACG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
* * *
921220 AAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTTTGC-AATTCACG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGT-ACG
* * *
921274 GAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGC-AATTCATG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGT-ACG
* * * * *
921328 AAATTCATCATATGTTGATGAGTAACCGTTTTGGCGCTAAGTGTGCAAAGTACA
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
* * * *
921382 GAATTCATCATACGTTGATGAATATCCGTTTCGTG-ACTAAGTGTGCAAATTACA
1 GAATTCATCATATGTTGATGAATAACCGTTTCG-GCACTAAGTGTGCAAAGTACG
* *
921436 TAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAAAGTACG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
* * * * *
921490 AAATTCATCATATGTTGATAAATAATCGTTTTGGCACTAAGTGTACAAAGTA-G
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
* * *
921543 GTAATTCATCATATGTTAATGAATAACCGTTTTGGCACTATA-TGTGCAACCCGT--G
1 G-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTA-AGTGTGCAA--AGTACG
* * * ***
921598 TAATTCATCATATGTTGATGAATAACCGTTTAGGCTCTATA-TGTGCAACCCACG
1 GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTA-AGTGTGCAAAGTACG
921652 GAATTCAT
1 GAATTCAT
921660 AATGAGTTTA
Statistics
Matches: 431, Mismatches: 53, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
52 1 0.00
53 5 0.01
54 417 0.97
55 6 0.01
56 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (54 bp):
GAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAAGTACG
Found at i:925564 original size:23 final size:23
Alignment explanation
Indices: 925544--925592 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
925534 GTTTTAAAGT
925544 TATT-TTGAATTAATTAATAAAA
1 TATTATTGAATTAATTAATAAAA
* *
925566 TATTATTTAATTAATTCAATTAAA
1 TATTATTGAATTAATT-AATAAAA
925590 TAT
1 TAT
925593 ACATTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 10 0.43
24 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTATTGAATTAATTAATAAAA
Found at i:930279 original size:2 final size:2
Alignment explanation
Indices: 930267--930296 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
930257 CAAATCAAAC
930267 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
930297 CATGTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:931108 original size:23 final size:23
Alignment explanation
Indices: 931088--931136 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
931078 GTTTTAAAGT
931088 TATT-TTGAATTAATTAATAAAA
1 TATTATTGAATTAATTAATAAAA
* *
931110 TATTATTTAATTAATTAAATTAAA
1 TATTATTGAATTAATT-AATAAAA
931134 TAT
1 TAT
931137 ACATTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 10 0.43
24 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTATTGAATTAATTAATAAAA
Found at i:935872 original size:75 final size:76
Alignment explanation
Indices: 935732--935885 Score: 285
Period size: 75 Copynumber: 2.0 Consensus size: 76
935722 TGTGATTCTT
935732 AGATTTAAATGTTCTTGGAAGATTTTAGGTGTTTTAAGAAGCTAAATAAAGTAAAGTCAGTATGG
1 AGATTTAAATGTTCTTGGAAGATTTTAGGTGTTTTAAGAAGCTAAATAAAGTAAAGTCAGTATGG
935797 ATA-GATAAAGA
66 ATATG-TAAAGA
935808 AGATTTAAATGTTCTTGGAAGATTTTAGGTG-TTTAAGAAGCTAAATAAAGTAAAGTCAGTATGG
1 AGATTTAAATGTTCTTGGAAGATTTTAGGTGTTTTAAGAAGCTAAATAAAGTAAAGTCAGTATGG
935872 ATATGTAAAGA
66 ATATGTAAAGA
935883 AGA
1 AGA
935886 GTTTTATAGT
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
75 45 0.58
76 32 0.42
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (76 bp):
AGATTTAAATGTTCTTGGAAGATTTTAGGTGTTTTAAGAAGCTAAATAAAGTAAAGTCAGTATGG
ATATGTAAAGA
Found at i:936476 original size:15 final size:15
Alignment explanation
Indices: 936453--936516 Score: 101
Period size: 15 Copynumber: 4.3 Consensus size: 15
936443 GTGCATTTAA
936453 TTATGTAACTATATG
1 TTATGTAACTATATG
*
936468 TTTTGTAACTATATG
1 TTATGTAACTATATG
* *
936483 GTGTGTAACTATATG
1 TTATGTAACTATATG
936498 TTATGTAACTATATG
1 TTATGTAACTATATG
936513 TTAT
1 TTAT
936517 ACTAGTCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (15 bp):
TTATGTAACTATATG
Found at i:936651 original size:54 final size:54
Alignment explanation
Indices: 936568--937056 Score: 586
Period size: 54 Copynumber: 9.1 Consensus size: 54
936558 TTACCAAATA
* **
936568 GGCACTAAGTGTGC-AA-TTCACTGAATTCATCATATGTTGATGAATAAGTGTTTC
1 GGCACTAAGTGTGCAAAGTACA-T-AATTCATCATATGTTGATGAATAACCGTTTC
* *
936622 AGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCATTTC
1 GGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
936676 GGCACT-A-TGT--AAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
936726 GGCACTAAGTGTGC-TATTCACAAAATTCATCATATGTTGATGAATAACCATTTT
1 GGCACTAAGTGTGCAAAGT-ACATAATTCATCATATGTTGATGAATAACCGTTTC
* *
936780 GGCACTAAGTGTGC-AATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGT-ACATAATTCATCATATGTTGATGAATAACCGTTTC
* * ** *
936834 GGCACTAAGTGTGCAAACTACGTAATTCATCATATGTTGATGAATAATTGTTTT
1 GGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
936888 GGCAATAAGTGTGCAAAGTACGA-AATTCGTCATATGTTGAAGAATAATCATTTC
1 GGCACTAAGTGTGCAAAGTAC-ATAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
936942 GGCACTAAGTGTGCAAAGTACAAAATTCATCATATTTTGAAGAATAACTGTTTT
1 GGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
*
936996 GGCACTAAGGGTGCAAAGTACGA-AATGT-ATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTAC-ATAAT-TCATCATATGTTGATGAATAACCGTTTC
937050 GGCACTA
1 GGCACTA
937057 TAAGTGCAAC
Statistics
Matches: 381, Mismatches: 42, Indels: 24
0.85 0.09 0.05
Matches are distributed among these distances:
50 45 0.12
51 1 0.00
52 6 0.02
53 4 0.01
54 314 0.82
55 8 0.02
56 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:937109 original size:108 final size:108
Alignment explanation
Indices: 936568--937118 Score: 588
Period size: 108 Copynumber: 5.1 Consensus size: 108
936558 TTACCAAATA
* ** *
936568 GGCACTAAGTGTGC-AATTCACTG-AATTCATCATATGTTGATGAATAAGTGTTTCAGCACTAAG
1 GGCACTAAGTGTGCAAAGT-AC-GAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
** * * *
936631 TGTGCAAAGTACATAATTCATCATATGTTGATGAATAACCATTTC
64 TGTGCAAACCACAAAATTCATCATATGTTGATGAATAACTATTTT
936676 GGCACT-A-TGT--AAAGTAC-ATAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGT
1 GGCACTAAGTGTGCAAAGTACGA-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGT
* ** *
936736 GTGCTATTCACAAAATTCATCATATGTTGATGAATAACCATTTT
65 GTGCAAACCACAAAATTCATCATATGTTGATGAATAACTATTTT
*
936780 GGCACTAAGTGTGC-AATTCAC-AGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
1 GGCACTAAGTGTGCAAAGT-ACGA-AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAG
* ** * *
936843 TGTGCAAACTACGTAATTCATCATATGTTGATGAATAATTGTTTT
64 TGTGCAAACCACAAAATTCATCATATGTTGATGAATAACTATTTT
* * * * *
936888 GGCAATAAGTGTGCAAAGTACGAAATTCGTCATATGTTGAAGAATAATCATTTCGGCACTAAGTG
1 GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
** * * *
936953 TGCAAAGTACAAAATTCATCATATTTTGAAGAATAACTGTTTT
66 TGCAAACCACAAAATTCATCATATGTTGATGAATAACTATTTT
*
936996 GGCACTAAGGGTGCAAAGTACGAAATGT-ATCATATGTTGATGAATAACCGTTTCGGCACTATA-
1 GGCACTAAGTGTGCAAAGTACGAAAT-TCATCATATGTTGATGAATAACCGTTTCGGCACTA-AG
* * ** * * *
937059 AGTGCAACCCACGGAATTCATAATGA-GTTTATGAATAACTATATAT
64 TGTGCAAACCACAAAATTCATCAT-ATGTTGATGAATAACTAT-TTT
*
937105 -GCACTACGTGTGCA
1 GGCACTAAGTGTGCA
937119 TCGTAACGAA
Statistics
Matches: 376, Mismatches: 53, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
104 84 0.22
105 4 0.01
106 6 0.02
107 4 0.01
108 269 0.72
109 9 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (108 bp):
GGCACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
TGCAAACCACAAAATTCATCATATGTTGATGAATAACTATTTT
Found at i:937118 original size:162 final size:160
Alignment explanation
Indices: 936591--937118 Score: 533
Period size: 162 Copynumber: 3.3 Consensus size: 160
936581 CAATTCACTG
* * *
936591 AATTCATCATATGTTGATGAATAAGTGTT-TCAGCACTAAGTGTGCAAAGTACATAATTCATCAT
1 AATTCATCATATGTTGATGAATAACTATTAT--GCACTAAGTGTGCAAAGTACAAAATTCATCAT
* *
936655 ATGTTGATGAATAACCATTTCGGCACT-A--TGTAAAGTAC-ATAATTCATCATATGTTGATGAA
64 ATGTTGATGAATAACCGTTTCGGCACTAAGGTGCAAAGTACGA-AATTCATCATATGTTGATGAA
* * ** *
936716 TAACCGTTTCGGCACTA-AGTGTGCTATTCACAA
128 TAACCGTTTCGGCACTATA-AGTGCAAACCACGA
* * * *
936749 AATTCATCATATGTTGATGAATAACCATTTTGGCACTAAGTGTGC-AATTCACAGAATTCATCAT
1 AATTCATCATATGTTGATGAATAACTATTAT-GCACTAAGTGTGCAAAGT-ACAAAATTCATCAT
* *
936813 ATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAAACTACGTAATTCATCATATGTTGATGAA
64 ATGTTGATGAATAACCGTTTCGGCACTAAG-GTGCAAAGTACGAAATTCATCATATGTTGATGAA
** * **
936878 TAATTGTTTTGGCA--ATAAGTGTGCAAAGTACGA
128 TAACCGTTTCGGCACTATAA--GTGCAAACCACGA
* *
936911 AATTCGTCATATGTTGAAGAATAA-TCATT-TCGGCACTAAGTGTGCAAAGTACAAAATTCATCA
1 AATTCATCATATGTTGATGAATAACT-ATTAT--GCACTAAGTGTGCAAAGTACAAAATTCATCA
* * * *
936974 TATTTTGAAGAATAACTGTTTTGGCACTAAGGGTGCAAAGTACGAAATGT-ATCATATGTTGATG
63 TATGTTGATGAATAACCGTTTCGGCACTAA-GGTGCAAAGTACGAAAT-TCATCATATGTTGATG
* *
937038 AATAACCGTTTCGGCACTATAAGTGCAACCCACGG
126 AATAACCGTTTCGGCACTATAAGTGCAAACCACGA
* * *
937073 AATTCATAATGA-GTTTATGAATAACTATATATGCACTACGTGTGCA
1 AATTCATCAT-ATGTTGATGAATAACTAT-TATGCACTAAGTGTGCA
937119 TCGTAACGAA
Statistics
Matches: 307, Mismatches: 42, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
157 3 0.01
158 78 0.25
159 2 0.01
160 1 0.00
161 2 0.01
162 208 0.68
163 8 0.03
164 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (160 bp):
AATTCATCATATGTTGATGAATAACTATTATGCACTAAGTGTGCAAAGTACAAAATTCATCATAT
GTTGATGAATAACCGTTTCGGCACTAAGGTGCAAAGTACGAAATTCATCATATGTTGATGAATAA
CCGTTTCGGCACTATAAGTGCAAACCACGA
Found at i:950411 original size:12 final size:12
Alignment explanation
Indices: 950370--950412 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
950360 GTAATGTAAT
950370 TAATAATAATTA
1 TAATAATAATTA
*
950382 -AGTAATAAATT-
1 TAATAAT-AATTA
950393 TAATAATAATTA
1 TAATAATAATTA
950405 TAATAATA
1 TAATAATA
950413 TCATGGGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:967488 original size:19 final size:20
Alignment explanation
Indices: 967447--967488 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
967437 TAATATCATT
* *
967447 TATTTAATATTATTTTTTTA
1 TATTTAATATTATTTTATAA
967467 TATTT-ATATTATTTTATAA
1 TATTTAATATTATTTTATAA
967486 TAT
1 TAT
967489 ATATGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTAATATTATTTTATAA
Found at i:973866 original size:30 final size:31
Alignment explanation
Indices: 973830--973889 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
973820 CTTAGCTTTA
**
973830 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
973860 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
973890 GGCAGCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:974829 original size:20 final size:19
Alignment explanation
Indices: 974787--974833 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
974777 CGGCTGAGAG
* *
974787 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATCAAAAT
974806 CATGTATTTTCATCAAATAT
1 CATGTATTTTCATCAAA-AT
974826 CATGTATT
1 CATGTATT
974834 CTCAAAGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (19 bp):
CATGTATTTTCATCAAAAT
Found at i:977157 original size:30 final size:31
Alignment explanation
Indices: 977123--977184 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
977113 TTACTTAGCT
**
977123 TTTATTATGTTTACATATGTTTTAGAT-TCA
1 TTTATTATGTTTACATATCATTTAGATATCA
*
977153 TTTATTATGTTTGCATATCATTTAGATATCA
1 TTTATTATGTTTACATATCATTTAGATATCA
977184 T
1 T
977185 GGCAGCATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TTTATTATGTTTACATATCATTTAGATATCA
Found at i:978118 original size:19 final size:20
Alignment explanation
Indices: 978094--978144 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
978084 CGGCCAAGAG
* *
978094 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
978113 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
978133 CATGTATTTTCA
1 CATGTATTTTCA
978145 AAAGGGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:978915 original size:23 final size:23
Alignment explanation
Indices: 978889--978946 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
978879 AAAAACGTGC
978889 CATAAAGGCAAAACAA-GACATGA
1 CATAAAGGCAAAACAATG-CATGA
* * * *
978912 CATAATGGCAGAAGAATGCATGC
1 CATAAAGGCAAAACAATGCATGA
978935 CATAAA-GCAAAA
1 CATAAAGGCAAAA
978947 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.52, C:0.17, G:0.19, T:0.12
Consensus pattern (23 bp):
CATAAAGGCAAAACAATGCATGA
Found at i:978969 original size:8 final size:8
Alignment explanation
Indices: 978953--978984 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
978943 AAAATTATTT
*
978953 AAAAGAAA
1 AAAATAAA
978961 AAAATAAA
1 AAAATAAA
978969 AAAATAAA
1 AAAATAAA
978977 AAAATAAA
1 AAAATAAA
978985 GATATGCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:979099 original size:4 final size:4
Alignment explanation
Indices: 979090--979114 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
979080 GAAAAAAGAC
979090 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
979115 GTGTCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:986085 original size:16 final size:16
Alignment explanation
Indices: 986064--986101 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
986054 CTAACCAAAA
986064 TTGGCACTTGGACAAT
1 TTGGCACTTGGACAAT
986080 TTGGCACTTGGACAAT
1 TTGGCACTTGGACAAT
986096 TTGGCA
1 TTGGCA
986102 TACGGTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (16 bp):
TTGGCACTTGGACAAT
Found at i:989708 original size:21 final size:21
Alignment explanation
Indices: 989666--989708 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
989656 GAATATTTTG
*
989666 TTTAAGATGCTAATACGGTGT
1 TTTAAGATGCTAATACAGTGT
*
989687 TTTAATGATG-TAATACATTGT
1 TTTAA-GATGCTAATACAGTGT
989708 T
1 T
989709 GACTCTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (21 bp):
TTTAAGATGCTAATACAGTGT
Found at i:990953 original size:20 final size:21
Alignment explanation
Indices: 990913--990958 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
990903 AAGGTATTAG
*
990913 TACCATAGTATGGTGTATCGA
1 TACCATAGTAAGGTGTATCGA
*
990934 TACCATGGTAAGGT-TATCGA
1 TACCATAGTAAGGTGTATCGA
990954 TACCA
1 TACCA
990959 GGCAACATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (21 bp):
TACCATAGTAAGGTGTATCGA
Found at i:991026 original size:94 final size:94
Alignment explanation
Indices: 990834--991037 Score: 266
Period size: 94 Copynumber: 2.2 Consensus size: 94
990824 GACGAGGTAG
*
990834 TATCGATACCATGGTAAGGGTATCGATACCATGCAACATCGAATCTAAAATTGGTATCGATACCG
1 TATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATCGATACCG
* ***
990899 AAAAAAGGTATTAGTACCATAGTATGGTG
66 AAAAAAGGTATCAGTACCATAGTATGAAA
* * *
990928 TATCGATACCATGGTAAGGTTATCGATACCAGGCAACATCGAATTTAAAATTGGTATCGATACTG
1 TATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATCGATACCG
*** *
990993 -AAGGGGGTATCAGTATCATAGTATAGAAA
66 AAAAAAGGTATCAGTACCATAGTAT-GAAA
* *
991022 TATCGGTACCAGGGTA
1 TATCGATACCATGGTA
991038 GTAGTATCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
93 19 0.20
94 76 0.80
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (94 bp):
TATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATCGATACCG
AAAAAAGGTATCAGTACCATAGTATGAAA
Found at i:991532 original size:54 final size:55
Alignment explanation
Indices: 991377--991532 Score: 226
Period size: 55 Copynumber: 2.8 Consensus size: 55
991367 ACCAAATGGA
*
991377 ACTAAATGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGC
1 ACTATATGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGC
* * *
991434 ATTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGC
1 ACTATATGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGC
*
991489 ACTATATGTGCGAAA-TAAGAAATTCATA-TCAAGTGTATGAATTT
1 ACTATATGTGCAAAACTAAGAAATTCATACT-AAGTGTATGAATTT
991533 CTATATAGGA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 27 0.30
55 50 0.56
56 5 0.06
57 7 0.08
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (55 bp):
ACTATATGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGC
Found at i:991552 original size:54 final size:55
Alignment explanation
Indices: 991382--991552 Score: 195
Period size: 55 Copynumber: 3.1 Consensus size: 55
991372 ATGGAACTAA
** *
991382 ATGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCATTTTG
1 ATGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGG-AAATAG
* * *
991440 -TGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTAT
1 ATGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGAAATAG
* * * *
991494 ATGTGCGAAA-TAAGAAATTCATA-TCAAGTGTATGAATTTCTATATAGGAAATAG
1 ATGTGCAAAACTAAGAAATTCATACT-AAGTGTATGAATTTTTGTATGGGAAATAG
991548 ATGTG
1 ATGTG
991553 AAATTGTCAG
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 42 0.42
55 46 0.46
56 5 0.05
57 5 0.05
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (55 bp):
ATGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGAAATAG
Found at i:991829 original size:68 final size:69
Alignment explanation
Indices: 991717--991904 Score: 274
Period size: 68 Copynumber: 2.8 Consensus size: 69
991707 AAAGATTAAT
* * *
991717 AGGCCTAACTGTTCATTTGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAAG-CTAATTGCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCCTAAATGCC
*
991781 TTTG
66 TTTC
*
991785 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATG-AAAGCCTAAATGCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCCTAAATGCC
991849 TTTC
66 TTTC
* * *
991853 AGGCCTAACTGTGCAGTTGGA-AGAAAGGTGCCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCA-TTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
991905 CGGTTAAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
67 4 0.04
68 99 0.92
69 5 0.05
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (69 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCCTAAATGCC
TTTC
Found at i:991989 original size:81 final size:81
Alignment explanation
Indices: 991854--992015 Score: 272
Period size: 81 Copynumber: 2.0 Consensus size: 81
991844 ATGCCTTTCA
*
991854 GGCCTAACTGTGCAGTTGGAAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATATCGT
1 GGCCTAACTATGCAGTTGGAAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATATCGT
991919 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
991935 GGCCTAACTATGCATTTGGCAAG-AAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATATCG
1 GGCCTAACTATGCAGTTGG-AAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATATCG
991999 TTGAGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
992016 AGACTAGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 73 0.96
82 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (81 bp):
GGCCTAACTATGCAGTTGGAAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATATCGT
TGAGTAAAAGAATAAT
Found at i:992033 original size:81 final size:82
Alignment explanation
Indices: 991869--992095 Score: 262
Period size: 81 Copynumber: 2.8 Consensus size: 82
991859 AACTGTGCAG
* *
991869 TTGG-AAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
1 TTGGCAAGAAAGGTGTCAATTATGCAAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
* * *
991933 ATGGCCTAACTATGCAT
66 ATAGACTAACTATACAT
*
991950 TTGGCAAG-AAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
1 TTGGCAAGAAAGGTGTCAATTATGCAAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
** * *
992014 ATAGACTAGTTGTATAT
66 ATAGACTAACTATACAT
* * * * * * * * *
992031 TTGAC-AGAAAAGTGTCAAATATGCAAGTTAGATGAAAGGCTAATTACCTTTGGGTAAAAGAATA
1 TTGGCAAGAAAGGTGTCAATTATGCAAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
992095 A
66 A
992096 AGGAATTATA
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 120 0.96
82 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (82 bp):
TTGGCAAGAAAGGTGTCAATTATGCAAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATA
ATAGACTAACTATACAT
Found at i:995728 original size:17 final size:16
Alignment explanation
Indices: 995703--995737 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
995693 GTTGGTCCTT
995703 GTAACCTTAAGGAATAG
1 GTAACCTTAAGGAA-AG
*
995720 GTAAGCTTAAGGAAAG
1 GTAACCTTAAGGAAAG
995736 GT
1 GT
995738 TATATGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (16 bp):
GTAACCTTAAGGAAAG
Found at i:996340 original size:95 final size:95
Alignment explanation
Indices: 996172--996368 Score: 279
Period size: 95 Copynumber: 2.1 Consensus size: 95
996162 ACCAGTGAGA
*
996172 TAGTATCGATACAATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTAGTATCGATA
1 TAGTATCGATACAATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATA
* * *
996237 CCGAAAGGGGGTATCGTTACTATAGTATGG
66 CAGAAAGGGGGTATCGGTACCATAGTATGG
* * *
996267 TAGTGTCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATCGATA
1 TAGTATCGATACAATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATA
* * *
996332 TTAG-AAGGGGGTATTGGTACCATAGTATAG
66 -CAGAAAGGGGGTATCGGTACCATAGTATGG
*
996362 AAGTATC
1 TAGTATC
996369 AGTGCTAGGG
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 88 0.99
96 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (95 bp):
TAGTATCGATACAATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATA
CAGAAAGGGGGTATCGGTACCATAGTATGG
Found at i:996388 original size:95 final size:95
Alignment explanation
Indices: 996173--996393 Score: 241
Period size: 95 Copynumber: 2.3 Consensus size: 95
996163 CCAGTGAGAT
* * * *
996173 AGTATCGATACAATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTAGTATCGATAC
1 AGTATCGATACCAGGGTAAGAGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATAC
* * * * *
996238 CGAAAGGGGGTATCGTTACTATAGTATGGT
66 AGAAAGGGGGTATCGGTACCATAGTATAGA
* * * *
996268 AGTGTCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATCGATAT
1 AGTATCGATACCAGGGTAAGAGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATA-
* *
996333 TAG-AAGGGGGTATTGGTACCATAGTATAGA
65 CAGAAAGGGGGTATCGGTACCATAGTATAGA
* *
996363 AGTATC-AGTGCTAGGGT-AGTAGTATCGATAC
1 AGTATCGA-TACCAGGGTAAG-AGTATCGATAC
996394 TATTGAGCTT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
94 3 0.03
95 103 0.96
96 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGAGTATCGATACCAGGAAACATCGAATCTAAAATTAGTATCGATAC
AGAAAGGGGGTATCGGTACCATAGTATAGA
Found at i:996869 original size:54 final size:55
Alignment explanation
Indices: 996751--996878 Score: 177
Period size: 54 Copynumber: 2.3 Consensus size: 55
996741 GAAATTCATA
* * * * *
996751 GTATGAATTTCTGTATGGGTACTTTGTGTGCAAAACTAAGAAATTCATACTAGGT
1 GTATGAATTTCTATATGGGCACTATGTGTGCAAAACTAAGAAATTCATACCAAGT
* * *
996806 GTATGAATTTCCATATGGGCACTATGTGTGCGAAA-TAAGAAATTTATACCAAGT
1 GTATGAATTTCTATATGGGCACTATGTGTGCAAAACTAAGAAATTCATACCAAGT
996860 GTATGAATTTCTATATGGG
1 GTATGAATTTCTATATGGG
996879 AAATATATGT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
54 34 0.53
55 30 0.47
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (55 bp):
GTATGAATTTCTATATGGGCACTATGTGTGCAAAACTAAGAAATTCATACCAAGT
Found at i:997248 original size:68 final size:68
Alignment explanation
Indices: 997052--997239 Score: 270
Period size: 68 Copynumber: 2.8 Consensus size: 68
997042 AAATATTAAT
* * *
997052 AGGCCTAATTGTGCATTTGACAGAAAGGTGTAATTTATGCTAGTTAGATGAAAGGCTAAGA-GCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAA-ATGCC
997116 TTTG
65 TTTG
* *
997120 AGGCCTACCTGTGCATTTGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATGCCT
997185 TTG
66 TTG
* * * * *
997188 AGGCTTAACTGTGTATTTGGCAGAAATGTGTCAGTTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
997240 CAGTTAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
67 1 0.01
68 106 0.99
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATGCCT
TTG
Found at i:997328 original size:81 final size:81
Alignment explanation
Indices: 997193--997362 Score: 286
Period size: 81 Copynumber: 2.1 Consensus size: 81
997183 CTTTGAGGCT
* * *
997193 TAACTGTGTATTTGGCAGAAATGTGTCAGTTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
1 TAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
*
997258 TAAAAGAATAATGGTC
66 TAAAAGAATAATGGCC
* *
997274 TAACTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
1 TAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
997339 TAAAAGAATAATGGCC
66 TAAAAGAATAATGGCC
997355 TAACTGTG
1 TAACTGTG
997363 TACTTGAATG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (81 bp):
TAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
TAAAAGAATAATGGCC
Found at i:997381 original size:81 final size:81
Alignment explanation
Indices: 997193--997401 Score: 276
Period size: 81 Copynumber: 2.6 Consensus size: 81
997183 CTTTGAGGCT
* * * * *
997193 TAACTGTGTATTTGGCAGAAATGTGTCAGTTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
1 TAACTGTGCACTTGGAATAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
*
997258 TAAAAGAATAATGGTC
66 TAAAAGAATAATGGCC
* * * *
997274 TAACTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
1 TAACTGTGCACTTGGAATAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
997339 TAAAAGAATAATGGCC
66 TAAAAGAATAATGGCC
* * * *
997355 TAACTGTGTACTT-GAATGGAATGTGTCATTTATGCTAGTTAGATGAA
1 TAACTGTGCACTTGGAAT-AAATGTGTCAATTATGCCAGTTAGATGAA
997402 AGGCTAAGTG
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 3 0.03
81 111 0.97
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (81 bp):
TAACTGTGCACTTGGAATAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAG
TAAAAGAATAATGGCC
Found at i:997546 original size:68 final size:68
Alignment explanation
Indices: 997351--997537 Score: 241
Period size: 68 Copynumber: 2.8 Consensus size: 68
997341 AAAGAATAAT
* * * *
997351 GGCCTAACTGTGTACTT-GAATGGAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAACTGTGTACTTGGCA-GAAATGTGTCATTTATGCAAGTTAGATGAAAGGCTAAATGCCT
997415 TTGA
65 TTGA
* * * * * *
997419 GGCCAAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAATGCTAAATGCCTT
1 GGCCTAACTGTGTACTTGGCAGAAATGTGTCATTTATGCAAGTTAGATGAAAGGCTAAATGCCTT
997484 TGA
66 TGA
* * *
997487 GGCCTAACTGTGTACTTGGCAGAAAGGTGTCAATTATGAAAGTTAGATGAA
1 GGCCTAACTGTGTACTTGGCAGAAATGTGTCATTTATGCAAGTTAGATGAA
997538 CAGTTAAATA
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 100 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (68 bp):
GGCCTAACTGTGTACTTGGCAGAAATGTGTCATTTATGCAAGTTAGATGAAAGGCTAAATGCCTT
TGA
Found at i:997602 original size:80 final size:81
Alignment explanation
Indices: 997487--997698 Score: 268
Period size: 80 Copynumber: 2.6 Consensus size: 81
997477 ATGCCTTTGA
* *
997487 GGCCTAACTGTGTACTTGGCAGAAAGGTGTCAATTATGAAAGTTAGATGAACAG-TTAAATAACA
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGAAAGTTAGATGAAC-GTTTAAATAACA
997551 TTGAGTAAAA-AATAAT
65 TTGAGTAAAATAATAAT
* * * * * *
997567 TGCCTAACCGTGCATTTGGTAGAAAGGTGTCAATTATGCCAA-TTAGATGAACGTTTAAATACCG
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATG-AAAGTTAGATGAACGTTTAAATAACA
997631 TTGAGTAAAATAATAAT
65 TTGAGTAAAATAATAAT
* * * * *
997648 GGCCTAATTGTACATTTGACAGAAAGGTGTCATTTATGACAGTTAGATGAA
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGAAAGTTAGATGAA
997699 AGGATAAGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 62 0.56
81 48 0.43
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (81 bp):
GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGAAAGTTAGATGAACGTTTAAATAACAT
TGAGTAAAATAATAAT
Done.