Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 78
Found at i:4143750 original size:46 final size:43
Alignment explanation
Indices: 4143697--4143802 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 43
4143687 TGCACACACC
* * * *
4143697 ATGCATCGATGCACTGGGGATTTTATGAAAATATCGAATGCATTTG
1 ATGCATCGATGCACTGGCGA-TTT-TG-AAACATCGAATACACTTG
*
4143743 ATGCATCGATGCACTCTGGCGATTTTGATACATCGAATACACTTG
1 ATGCATCGATGCA--CTGGCGATTTTGAAACATCGAATACACTTG
4143788 ATGCATCGATGCACT
1 ATGCATCGATGCACT
4143803 CTTAGTGCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
43 2 0.04
45 27 0.51
46 15 0.28
47 3 0.06
48 6 0.11
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
ATGCATCGATGCACTGGCGATTTTGAAACATCGAATACACTTG
Found at i:4150064 original size:11 final size:11
Alignment explanation
Indices: 4150044--4150126 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
4150034 GTTAGATAAG
4150044 AAATAATAAAT
1 AAATAATAAAT
*
4150055 AAATATTAAAT
1 AAATAATAAAT
*
4150066 AAATTAAGGGAAA-
1 AAA-TAA--TAAAT
*
4150079 AAATAA-AATT
1 AAATAATAAAT
*
4150089 AAATAAAAAAT
1 AAATAATAAAT
*
4150100 AAA-AATAGCA-
1 AAATAATA-AAT
4150110 AAA-AATAAAT
1 AAATAATAAAT
4150120 AAATAAT
1 AAATAAT
4150127 TGAAAACAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
9 3 0.05
10 19 0.34
11 23 0.41
12 5 0.09
13 3 0.05
14 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:4150089 original size:18 final size:17
Alignment explanation
Indices: 4150062--4150103 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4150052 AATAAATATT
*
4150062 AAAT-AAATTAAGGGAAA
1 AAATAAAATTAA-AGAAA
*
4150079 AAATAAAATTAAATAAA
1 AAATAAAATTAAAGAAA
4150096 AAATAAAA
1 AAATAAAA
4150104 ATAGCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (17 bp):
AAATAAAATTAAAGAAA
Found at i:4152595 original size:2 final size:2
Alignment explanation
Indices: 4152590--4152628 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4152580 GGAGAGAAAC
4152590 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4152629 TATTGATCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4152789 original size:4 final size:4
Alignment explanation
Indices: 4152773--4152817 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
4152763 GGGCCTTGCA
4152773 AAAT AAA- AAAT AAAT -AAT -AAT -AAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4152817 A
1 A
4152818 TTATAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 12 0.31
4 27 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:4152800 original size:17 final size:17
Alignment explanation
Indices: 4152774--4152806 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4152764 GGCCTTGCAA
4152774 AATAAAAAATAAATAAT
1 AATAAAAAATAAATAAT
*
4152791 AATAATAAATAAATAA
1 AATAAAAAATAAATAA
4152807 ATAAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAAAATAAATAAT
Found at i:4152823 original size:17 final size:15
Alignment explanation
Indices: 4152773--4152817 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
4152763 GGGCCTTGCA
*
4152773 AAATAAAAAATAAAT
1 AAATAAATAATAAAT
4152788 -AAT-AATAATAAAT
1 AAATAAATAATAAAT
4152801 AAATAAATAAATAAAT
1 AAATAAAT-AATAAAT
4152817 A
1 A
4152818 TTATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.35
14 6 0.23
15 3 0.12
16 8 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:4158923 original size:25 final size:26
Alignment explanation
Indices: 4158895--4158947 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
4158885 TTTAACCCTT
*
4158895 TTTTAATTTTTATATTTT-ATTCTTA
1 TTTTAATTTTTATATTTTCATTATTA
** *
4158920 TTTTGGTTTTTTTATTTTCATTATTA
1 TTTTAATTTTTATATTTTCATTATTA
4158946 TT
1 TT
4158948 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTTAATTTTTATATTTTCATTATTA
Found at i:4158954 original size:25 final size:24
Alignment explanation
Indices: 4158901--4158957 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4158891 CCTTTTTTAA
*
4158901 TTTTTATATTTTATTCTTATTTTGG
1 TTTTTATATTTTATTATTATTTT-G
*
4158926 TTTTTTTATTTTCATTATTATTATT-
1 TTTTTATATTTT-ATTATTATT-TTG
4158951 TTTTTAT
1 TTTTTAT
4158958 TAAATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 17 0.63
26 8 0.30
27 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTATATTTTATTATTATTTTG
Found at i:4158984 original size:4 final size:4
Alignment explanation
Indices: 4158975--4159025 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
4158965 TATGTATCTC
* *
4158975 TATT TATT TATT TAGT TATT TATT TATT T-TAT TA-T TA-T TATT TTTT
1 TATT TATT TATT TATT TATT TATT TATT TAT-T TATT TATT TATT TATT
4159021 TATT T
1 TATT T
4159026 TTGAGTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 7 0.17
4 33 0.82
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:4159009 original size:16 final size:16
Alignment explanation
Indices: 4158975--4159025 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
4158965 TATGTATCTC
4158975 TATTTATTTA-TTTAGT
1 TATTTATTTATTTTA-T
4158991 TATTTATTTATTTTAT
1 TATTTATTTATTTTAT
*
4159007 TA-TTA-TTATTTTTT
1 TATTTATTTATTTTAT
4159021 TATTT
1 TATTT
4159026 TTGAGTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.31
15 5 0.16
16 13 0.41
17 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TATTTATTTATTTTAT
Found at i:4159022 original size:22 final size:22
Alignment explanation
Indices: 4158926--4159071 Score: 97
Period size: 22 Copynumber: 6.5 Consensus size: 22
4158916 CTTATTTTGG
4158926 TTTTTTTATTTTCATTATTATTA
1 TTTTTTTATTTT-ATTATTATTA
**
4158949 TTTTTTTATTAAATT-TTATGTA
1 TTTTTTTATTTTATTATTAT-TA
*
4158971 TCTCTATTTA-TTTA-T-TTAGTTA
1 T-T-TTTTTATTTTATTATTA-TTA
*
4158993 TTTATTTATTTTATTATTATTA
1 TTTTTTTATTTTATTATTATTA
*
4159015 TTTTTTTATTTT-TGAGTTATTCA
1 TTTTTTTATTTTATTA-TTATT-A
* * **
4159038 TTTTTAT-TTTTATTCTCCTTA
1 TTTTTTTATTTTATTATTATTA
4159059 TTTTTTTTATTTT
1 -TTTTTTTATTTT
4159072 TTTCTCTCTT
Statistics
Matches: 98, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
20 6 0.06
21 12 0.12
22 46 0.47
23 29 0.30
24 5 0.05
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTTTTATTTTATTATTATTA
Found at i:4159059 original size:25 final size:23
Alignment explanation
Indices: 4159031--4159077 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
4159021 TATTTTTGAG
4159031 TTATTCATTTTTATTTTTATTCTCC
1 TTATT-ATTTTTATTTTT-TTCTCC
*
4159056 TTATTTTTTTTATTTTTTTCTC
1 TTATTATTTTTATTTTTTTCTC
4159078 TCTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTATTTTTATTTTTTTCTCC
Found at i:4159065 original size:24 final size:26
Alignment explanation
Indices: 4159038--4159102 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 26
4159028 GAGTTATTCA
4159038 TTTTTATTTTTATTCTC-C-TT-ATTT
1 TTTTTATTTTT-TTCTCTCTTTAATTT
4159062 TTTTTATTTTTTTCTCTCTTTAATTT
1 TTTTTATTTTTTTCTCTCTTTAATTT
4159088 TTTTTAATTCTTTTT
1 TTTTT-ATT-TTTTT
4159103 TTTTTCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.14
24 12 0.33
25 2 0.06
26 9 0.25
27 3 0.08
28 5 0.14
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTATTTTTTTCTCTCTTTAATTT
Found at i:4159211 original size:3 final size:3
Alignment explanation
Indices: 4159205--4159231 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4159195 AATGATAATA
4159205 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4159232 TTGTTCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4160738 original size:14 final size:14
Alignment explanation
Indices: 4160719--4160752 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4160709 GTAGACTCAA
*
4160719 CAGAGAGTGAAAAG
1 CAGAGAGTGAAAAC
4160733 CAGAGAGTGAAAAC
1 CAGAGAGTGAAAAC
4160747 CAGAGA
1 CAGAGA
4160753 TGCAGCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.32, T:0.06
Consensus pattern (14 bp):
CAGAGAGTGAAAAC
Found at i:4161970 original size:96 final size:95
Alignment explanation
Indices: 4161843--4162096 Score: 357
Period size: 96 Copynumber: 2.6 Consensus size: 95
4161833 TATATATATT
4161843 TACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGAT
1 TACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGAT
* *
4161908 TCAGCTAGCCTGATAAAGGTGATTATTAATA
66 TCACCTAGCCTAATAAAGGTGATTA-TAATA
* * *
4161939 TACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAATAT
1 TACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGAT
4162004 TCACCTAGCCTAATAAAGGTGATTATAATA
66 TCACCTAGCCTAATAAAGGTGATTATAATA
* * * * * *
4162034 T-CTATACAATGATATTAAGCTATCACTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGAT
1 TACAATA-AA-G--CTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGAT
4162097 CCAGCTAGCT
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
94 4 0.03
95 8 0.06
96 86 0.61
98 43 0.30
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (95 bp):
TACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAGAT
TCACCTAGCCTAATAAAGGTGATTATAATA
Found at i:4163109 original size:85 final size:85
Alignment explanation
Indices: 4162975--4164090 Score: 1428
Period size: 85 Copynumber: 13.1 Consensus size: 85
4162965 TAGTATCCAG
* * * *
4162975 TACATCATAACTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGATTACATTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* *
4163040 GTTCAAAGGCATATCAAATT
66 GCTCAAAGGCACATCAAATT
* * ** *
4163060 TACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAGTAAAGACCTTCGAGTTCGATTACATTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
4163125 GCTCAAAGGCACATCAAATT
66 GCTCAAAGGCACATCAAATT
** *
4163145 TATTGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCAAGTTCGATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* * *
4163210 GCTCAAAGGAATATCATATT
66 GCTCAAAGGCACATCAAATT
* * * * * * *
4163230 TACAACATAACTCAAGGTGAGAAGAGTTATCTATCAACCAAGACCTTCAAGTTCGATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
4163295 GCTCAAAGGCACATCAAATT
66 GCTCAAAGGCACATCAAATT
* *
4163315 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCATCAAAGACCTTCGAGTTCGATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* *
4163380 ACTCAAAGACACATCAAATT
66 GCTCAAAGGCACATCAAATT
* * * *
4163400 TACAGC-TAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCAATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
*
4163464 GCTCAAAAGCACATCAAATT
66 GCTCAAAGGCACATCAAATT
* ** * * *
4163484 TACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCATTAAAGGCCTTTGAGTTCAATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
*
4163549 GCTCAAAGGAACATCAAATT
66 GCTCAAAGGCACATCAAATT
* * * *
4163569 TACAACAAAACTCAAGGCGAGAAGGGTTATCTGTCAACTAAGACCTTCGAGTTCGATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
*
4163634 ACTCAAAGGCACATCAAATT
66 GCTCAAAGGCACATCAAATT
* *
4163654 TACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCATCAAAGACCTTCGAGTTCGATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
*
4163719 GCTCAAAGGCACCTCAAATT
66 GCTCAAAGGCACATCAAATT
* * * * **
4163739 TACTGCATAGCTCAAGGCGAGAAGGGCTATCTGTCATCAAAGACCTTAGAGTTATATTACACTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* * *
4163804 GCTTAAAGACACATCGAATT
66 GCTCAAAGGCACATCAAATT
* * * * *
4163824 CACAGCATAGCTCAAGGCGAGAA-GGTATATATGTCAACCAATACCTTCGAGTTCGATTACATTC
1 TACAGCATAGCTCAAGGCGAGAAGGGT-TATCTGTCAACAAAGACCTTCGAGTTCGATTACACTC
* *
4163888 AGTTCAAAGGCATATCAAATT
65 AGCTCAAAGGCACATCAAATT
* * * * * * *
4163909 CACAGCATAACTCAAGGCAAGAAGGGCTATCTGTTAACCAAGACCTTCGAGTTCGATTACATTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* *
4163974 GTTCAAATGG-ATATCAAATT
66 GCTCAAA-GGCACATCAAATT
* * * * * *
4163994 TACAACATAGCTCGAGGCAAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTCCATTCA
1 TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
* * ***
4164059 ACTCAAGGGCGTGTCAAATT
66 GCTCAAAGGCACATCAAATT
*
4164079 TATAGCATAGCT
1 TACAGCATAGCT
4164091 TAAGTTGAGA
Statistics
Matches: 903, Mismatches: 123, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
84 79 0.09
85 820 0.91
86 4 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
TACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCAAATT
Found at i:4165358 original size:3 final size:3
Alignment explanation
Indices: 4165352--4165446 Score: 72
Period size: 3 Copynumber: 31.0 Consensus size: 3
4165342 TTTTTTTTTC
* *
4165352 ATT ATT ATT ATT ATT ATTT ATT A-A ATT -TT ATGT ATCT -CT ATTT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT-T AT-T ATT A-TT ATT
* *
4165398 -TAT ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT TTT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
4165444 ATT
1 ATT
4165447 TTTTTCTTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.07
3 56 0.76
4 13 0.18
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4165493 original size:36 final size:35
Alignment explanation
Indices: 4165426--4165494 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
4165416 ATTATTATTA
**
4165426 TTATTATTATTTATTTTTATTTTTTTCTTTTTGAG
1 TTATTATTATTTATTTTTATTTCCTTCTTTTTGAG
* *
4165461 TTATTCATTTTTTATTTTTATTCTCCTTTTTTTT
1 TTATT-ATTATTTATTTTTATT-TCCTTCTTTTT
4165495 TCTCTCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.18
36 15 0.54
37 8 0.29
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.75
Consensus pattern (35 bp):
TTATTATTATTTATTTTTATTTCCTTCTTTTTGAG
Found at i:4165589 original size:3 final size:3
Alignment explanation
Indices: 4165583--4165624 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
4165573 CCTTTCTGAT
*
4165583 TTA TTA TT- TTA TTTA TTTA TAA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
4165625 GAATTGCCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 26 0.74
4 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4165609 original size:48 final size:46
Alignment explanation
Indices: 4165520--4165609 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 46
4165510 TATTCAATTC
*
4165520 TTTTTTTCTTTTGACTTATTTATTTATTTATTTAGATTTATTTTCT
1 TTTTTTTCTTTTGACTTATTTATTTATTTATTTAGAATTATTTTCT
* *
4165566 TTTTTTTCCTTTCTGATTTA-TTATTTTATTTATTTATAATTATT
1 TTTTTTT-CTTT-TGACTTATTTA-TTTATTTATTTAGAATTATT
4165610 ATTATTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 7 0.18
47 7 0.18
48 24 0.63
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (46 bp):
TTTTTTTCTTTTGACTTATTTATTTATTTATTTAGAATTATTTTCT
Found at i:4165831 original size:3 final size:3
Alignment explanation
Indices: 4165823--4165869 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4165813 GTCAACTAAT
4165823 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4165870 TTGTTTTTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4166446 original size:14 final size:14
Alignment explanation
Indices: 4166403--4166434 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4166393 GAGCTAATGT
4166403 ATCAGAATAAATCC
1 ATCAGAATAAATCC
4166417 ATCAGAATAAATCC
1 ATCAGAATAAATCC
4166431 ATCA
1 ATCA
4166435 TAAAAATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (14 bp):
ATCAGAATAAATCC
Found at i:4169020 original size:23 final size:23
Alignment explanation
Indices: 4168994--4169058 Score: 105
Period size: 23 Copynumber: 2.8 Consensus size: 23
4168984 AATATATATG
4168994 TTTATATCATCATAAACTTAACT
1 TTTATATCATCATAAACTTAACT
*
4169017 TTTATATCATCGTAAACTTAACT
1 TTTATATCATCATAAACTTAACT
4169040 TTTATATCAT-AGTAAACTT
1 TTTATATCATCA-TAAACTT
4169059 TATAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTATATCATCATAAACTTAACT
Found at i:4175955 original size:11 final size:11
Alignment explanation
Indices: 4175939--4175970 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4175929 AAACATACAA
4175939 TTAATTTATTT
1 TTAATTTATTT
4175950 TTAATTTATTT
1 TTAATTTATTT
4175961 TTAATTTATT
1 TTAATTTATT
4175971 ATGAACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTAATTTATTT
Found at i:4176030 original size:20 final size:20
Alignment explanation
Indices: 4175996--4176047 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4175986 TTAATTATAT
*
4175996 ATATAATTTTA-ATATTTAAA
1 ATAT-ATTTTATATATTAAAA
4176016 ATATATTTTATATATTAAAA
1 ATATATTTTATATATTAAAA
*
4176036 ATAAATTTTATA
1 ATATATTTTATA
4176048 AAATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTTTATATATTAAAA
Found at i:4184099 original size:13 final size:14
Alignment explanation
Indices: 4184083--4184112 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4184073 TTGGAAAACC
4184083 ATATTTGAAAAT-A
1 ATATTTGAAAATCA
4184096 ATATTTGAAAATCA
1 ATATTTGAAAATCA
4184110 ATA
1 ATA
4184113 CACGTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (14 bp):
ATATTTGAAAATCA
Found at i:4192292 original size:31 final size:31
Alignment explanation
Indices: 4192254--4192345 Score: 132
Period size: 31 Copynumber: 3.0 Consensus size: 31
4192244 GAGTCGAGGG
* *
4192254 TTACCTATGTCTTTCGGGATATATGGATAGT
1 TTACCTATGTCTTTCGGGACATATGGACAGT
4192285 TTACCTATGTCTTTCGGGACATATGGACAGT
1 TTACCTATGTCTTTCGGGACATATGGACAGT
* *
4192316 TAACCTATGT-TCTTCGAGACATATGGACAG
1 TTACCTATGTCT-TTCGGGACATATGGACAG
4192346 ATTATTATAC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
30 1 0.02
31 55 0.98
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGT
Found at i:4194710 original size:20 final size:20
Alignment explanation
Indices: 4194687--4194729 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4194677 AATCCACCAC
*
4194687 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGATTCTAA
* *
4194707 ATGCATCTATATGATTCTAA
1 ATGCAACTAAATGATTCTAA
4194727 ATG
1 ATG
4194730 GTCTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGATTCTAA
Found at i:4201312 original size:20 final size:20
Alignment explanation
Indices: 4201289--4201331 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4201279 AATCCACCAC
*
4201289 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGATTCTAA
* *
4201309 ATGCATCTATATGATTCTAA
1 ATGCAACTAAATGATTCTAA
4201329 ATG
1 ATG
4201332 GTCTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGATTCTAA
Found at i:4204215 original size:22 final size:20
Alignment explanation
Indices: 4204184--4204229 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4204174 CAAAAATTAA
*
4204184 TATATAAAAATATATATTATGT
1 TATATAAAAAT-CAT-TTATGT
*
4204206 TATATCAAAATCATTTATGT
1 TATATAAAAATCATTTATGT
4204226 TATA
1 TATA
4204230 GCATAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 10 0.45
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATAAAAATCATTTATGT
Found at i:4206082 original size:15 final size:15
Alignment explanation
Indices: 4206062--4206090 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4206052 TTTTTTAAGT
4206062 TATTTTATAAAATTA
1 TATTTTATAAAATTA
4206077 TATTTTATAAAATT
1 TATTTTATAAAATT
4206091 TTGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTTATAAAATTA
Found at i:4209193 original size:36 final size:36
Alignment explanation
Indices: 4209151--4209318 Score: 302
Period size: 36 Copynumber: 4.7 Consensus size: 36
4209141 ATATGAAGTA
4209151 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
4209187 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
4209223 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
*
4209259 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACGT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
* *
4209295 TTAAGTTTTTACCT-AAGTTAAAGT
1 TTAAGCTTTTACCTAAAGCTAAAGT
4209319 GGATGTAATT
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
35 9 0.07
36 120 0.93
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (36 bp):
TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACTT
Found at i:4222123 original size:19 final size:19
Alignment explanation
Indices: 4222099--4222135 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4222089 TCAAATTCGG
4222099 TTGCAACCTAAATTCTCAA
1 TTGCAACCTAAATTCTCAA
*
4222118 TTGCAACCTAATTTCTCA
1 TTGCAACCTAAATTCTCA
4222136 TTTCCAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (19 bp):
TTGCAACCTAAATTCTCAA
Found at i:4222534 original size:22 final size:21
Alignment explanation
Indices: 4222509--4222550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4222499 TTATAATAGA
*
4222509 GGAACCGATTCCCCTGCTACAG
1 GGAACCGA-TACCCTGCTACAG
*
4222531 GGAATCGATACCCTGCTACA
1 GGAACCGATACCCTGCTACA
4222551 TTACTGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.19
Consensus pattern (21 bp):
GGAACCGATACCCTGCTACAG
Found at i:4223377 original size:22 final size:22
Alignment explanation
Indices: 4223352--4223412 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4223342 GGCATATGAA
4223352 ATTTGTCCCGAAGGACCTA-TGT
1 ATTTGTCCCGAAGGACC-ACTGT
*
4223374 ATTTGTCTCGAAGGACCACTGT
1 ATTTGTCCCGAAGGACCACTGT
* *
4223396 ATATGTCCTGAAGGACC
1 ATTTGTCCCGAAGGACC
4223413 GCGTAGACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCACTGT
Found at i:4229434 original size:19 final size:19
Alignment explanation
Indices: 4229410--4229446 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4229400 ACAAAACCGG
4229410 TTGCAACCTAAATTCTCAA
1 TTGCAACCTAAATTCTCAA
*
4229429 TTGCAACCTAATTTCTCA
1 TTGCAACCTAAATTCTCA
4229447 TTTCCAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (19 bp):
TTGCAACCTAAATTCTCAA
Found at i:4229463 original size:25 final size:25
Alignment explanation
Indices: 4229429--4229479 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
4229419 AAATTCTCAA
4229429 TTGCAACCTAAT-TTCTCATTTCCAG
1 TTGCAACCTAATATT-TCATTTCCAG
*
4229454 TTGCAACCTAATATTTGATTTCCAG
1 TTGCAACCTAATATTTCATTTCCAG
4229479 T
1 T
4229480 ATCAAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (25 bp):
TTGCAACCTAATATTTCATTTCCAG
Found at i:4237966 original size:16 final size:17
Alignment explanation
Indices: 4237927--4237969 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
4237917 CCCTACTAAG
4237927 TAAATATTTAATAAATT
1 TAAATATTTAATAAATT
** *
4237944 TTTATATTT-TTAAATT
1 TAAATATTTAATAAATT
4237960 TAAATATTTA
1 TAAATATTTA
4237970 TTTTTCACAT
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATATTTAATAAATT
Found at i:4240488 original size:16 final size:16
Alignment explanation
Indices: 4240464--4240498 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4240454 AAATGAGAAA
4240464 AAATCAATTTAAATTT
1 AAATCAATTTAAATTT
* *
4240480 AAATTAATTTAATTTT
1 AAATCAATTTAAATTT
4240496 AAA
1 AAA
4240499 ATAAAGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATCAATTTAAATTT
Found at i:4242171 original size:14 final size:14
Alignment explanation
Indices: 4242130--4242163 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4242120 CGCTGGGCAT
* *
4242130 CCGAGGCCATCCAA
1 CCGAGGGCATCCGA
4242144 CCGAGGGCATCCGA
1 CCGAGGGCATCCGA
4242158 CCGAGG
1 CCGAGG
4242164 TTATCCGAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.38, G:0.32, T:0.06
Consensus pattern (14 bp):
CCGAGGGCATCCGA
Found at i:4244231 original size:2 final size:2
Alignment explanation
Indices: 4244224--4244252 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4244214 TGTATGTATG
4244224 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4244253 GCTTTACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4250779 original size:18 final size:18
Alignment explanation
Indices: 4250756--4250792 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4250746 TACACATATA
4250756 TTATCATTATCAATAATC
1 TTATCATTATCAATAATC
*
4250774 TTATCATTATCATTAATC
1 TTATCATTATCAATAATC
4250792 T
1 T
4250793 CATTCATCAT
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:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATCATTATCAATAATC
Found at i:4253341 original size:115 final size:115
Alignment explanation
Indices: 4253139--4253368 Score: 451
Period size: 115 Copynumber: 2.0 Consensus size: 115
4253129 TAAAGCTTTC
4253139 CTTAAGCTTTCTTAACACTCTAAGAATCAAAACCAACTTTAAATTGAAAGAAATAATCAATAGAA
1 CTTAAGCTTTCTTAACACTCTAAGAATCAAAACCAACTTTAAATTGAAAGAAATAATCAATAGAA
4253204 AATATACTCACCTTAGCGAAGCACTCACGTAGACAGGAGGAAGAAAAGAT
66 AATATACTCACCTTAGCGAAGCACTCACGTAGACAGGAGGAAGAAAAGAT
*
4253254 CTTAAGTTTTCTTAACACTCTAAGAATCAAAACCAACTTTAAATTGAAAGAAATAATCAATAGAA
1 CTTAAGCTTTCTTAACACTCTAAGAATCAAAACCAACTTTAAATTGAAAGAAATAATCAATAGAA
4253319 AATATACTCACCTTAGCGAAGCACTCACGTAGACAGGAGGAAGAAAAGAT
66 AATATACTCACCTTAGCGAAGCACTCACGTAGACAGGAGGAAGAAAAGAT
4253369 GGAGAAAGGA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (115 bp):
CTTAAGCTTTCTTAACACTCTAAGAATCAAAACCAACTTTAAATTGAAAGAAATAATCAATAGAA
AATATACTCACCTTAGCGAAGCACTCACGTAGACAGGAGGAAGAAAAGAT
Found at i:4256351 original size:6 final size:6
Alignment explanation
Indices: 4256342--4256381 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
4256332 ATACACATAT
*
4256342 ATTATC ATTATC ATTATC AATAATC -TTATC ATTATC ATTA
1 ATTATC ATTATC ATTATC -ATTATC ATTATC ATTATC ATTA
4256382 ATCTCAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.13
6 21 0.70
7 5 0.17
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTATC
Found at i:4256372 original size:18 final size:18
Alignment explanation
Indices: 4256349--4256407 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
4256339 TATATTATCA
4256349 TTATCATTATCAATAATC
1 TTATCATTATCAATAATC
*
4256367 TTATCATTATCATTAATC
1 TTATCATTATCAATAATC
*
4256385 TCAATCATTAT-ATATAATC
1 T-TATCATTATCA-ATAATC
4256404 TTAT
1 TTAT
4256408 ACTTATCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATCATTATCAATAATC
Found at i:4256390 original size:24 final size:24
Alignment explanation
Indices: 4256342--4256395 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
4256332 ATACACATAT
4256342 ATTATCATTATCATTATCAATAATC
1 ATTATCATTATCATTATC-ATAATC
4256367 -TTATCATTATCATTAATC-TCAATC
1 ATTATCATTATCATT-ATCAT-AATC
4256391 ATTAT
1 ATTAT
4256396 ATATAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 1 0.04
24 18 0.69
25 7 0.27
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTATCATTATCATTATCATAATC
Found at i:4258182 original size:2 final size:2
Alignment explanation
Indices: 4258139--4258163 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4258129 CTACAATTCC
4258139 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
4258164 CACAATTTAG
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:4259169 original size:19 final size:22
Alignment explanation
Indices: 4259127--4259177 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
4259117 TCCCAATACA
*
4259127 GTATCGATACTACTCTTCTATG
1 GTATCGATACTACTCTCCTATG
4259149 GTATCGATACT-C-CTCCT-TG
1 GTATCGATACTACTCTCCTATG
*
4259168 GTACCGATAC
1 GTATCGATAC
4259178 CAGTTTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 1 0.04
22 11 0.41
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (22 bp):
GTATCGATACTACTCTCCTATG
Found at i:4262706 original size:6 final size:6
Alignment explanation
Indices: 4262695--4262741 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
4262685 CTCGTACTCC
* * *
4262695 TCCTCT TCCTCT TCTTCT TCTTCT TCCACT TCCTCT TCCTCT TCCTC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTC
4262742 CTCCAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (6 bp):
TCCTCT
Found at i:4262726 original size:12 final size:12
Alignment explanation
Indices: 4262699--4262746 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
4262689 TACTCCTCCT
**
4262699 CTTCCTCTTCTT
1 CTTCCTCTTCCA
*
4262711 CTTCTTCTTCCA
1 CTTCCTCTTCCA
*
4262723 CTTCCTCTTCCT
1 CTTCCTCTTCCA
*
4262735 CTTCCTCCTCCA
1 CTTCCTCTTCCA
4262747 ACAATGGAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.04, C:0.48, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCCTCTTCCA
Found at i:4264784 original size:20 final size:20
Alignment explanation
Indices: 4264759--4264797 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4264749 AAATCCCATA
4264759 TAGGATCATATAGATGCATT
1 TAGGATCATATAGATGCATT
*
4264779 TAGGATCATATAGTTGCAT
1 TAGGATCATATAGATGCAT
4264798 GTGGTGGATA
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:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TAGGATCATATAGATGCATT
Found at i:4268192 original size:21 final size:21
Alignment explanation
Indices: 4268153--4268193 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4268143 TAAAAAATTA
*
4268153 ATTTCAAAATACAAGAAAGAT
1 ATTTCAAAATACAAAAAAGAT
**
4268174 ATTTCAAAATTGAAAAAAGA
1 ATTTCAAAATACAAAAAAGA
4268194 AAATGATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (21 bp):
ATTTCAAAATACAAAAAAGAT
Found at i:4272202 original size:21 final size:21
Alignment explanation
Indices: 4272177--4272277 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 21
4272167 GTAATTTGCA
*
4272177 CCGAAGTACCACATAATTGTC
1 CCGAAGGACCACATAATTGTC
** *
4272198 CCGAAGGACCATGTAGGTT-TGC
1 CCGAAGGACCACATA-ATTGT-C
* *
4272220 ATCGAAGTG-CCACATATTTGTC
1 -CCGAAG-GACCACATAATTGTC
*
4272242 CTGAAGGACCACATAATTGTC
1 CCGAAGGACCACATAATTGTC
*
4272263 CCGAAAGACCACATA
1 CCGAAGGACCACATA
4272278 GACCCTCAAC
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.02
21 42 0.69
22 6 0.10
23 11 0.18
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (21 bp):
CCGAAGGACCACATAATTGTC
Found at i:4273060 original size:55 final size:55
Alignment explanation
Indices: 4273000--4273144 Score: 193
Period size: 55 Copynumber: 2.6 Consensus size: 55
4272990 TCATACTTGG
* * *
4273000 GGGTATCAATACACTCCTCAGTGTATTGATACACAAAT-AGCACTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACTGATACACAAATGA-CACTCAATGTTTTGA
* * *
4273055 GGGTATCGATACACTCCTCAATATACTGATACACAAATGACATTCAATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACTGATACACAAATGACACTCAATGTTTTGA
* * *
4273110 GGATATCGATTCACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACTGATACACA
4273145 CTCAAACAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 77 0.99
56 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACTGATACACAAATGACACTCAATGTTTTGA
Found at i:4276953 original size:55 final size:55
Alignment explanation
Indices: 4276869--4277013 Score: 211
Period size: 55 Copynumber: 2.6 Consensus size: 55
4276859 TTATACTTGG
* *
4276869 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATAGCACTCGATGTTTTGA
1 GGGTATCGATACACTCTTCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
* *
4276924 GGGTATCGATACACTCTTCAGTGTACCGATATACAAATAACATTCGATGTTTTGA
1 GGGTATCGATACACTCTTCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
* * *
4276979 GGATATCGATACACT-TCGCAGTGTAGCGATACACA
1 GGGTATCGATACACTCT-TCAGTGTACCGATACACA
4277014 CTCAAACAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 1 0.01
55 80 0.99
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (55 bp):
GGGTATCGATACACTCTTCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
Found at i:4277474 original size:23 final size:23
Alignment explanation
Indices: 4277448--4277500 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
4277438 CTTAAGCTTA
4277448 TATACCATCCAAACTACCATTAC
1 TATACCATCCAAACTACCATTAC
4277471 TATACCATCCAAACTACCATTAC
1 TATACCATCCAAACTACCATTAC
*
4277494 TAAACCA
1 TATACCA
4277501 AAAACTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.25
Consensus pattern (23 bp):
TATACCATCCAAACTACCATTAC
Found at i:4278359 original size:21 final size:22
Alignment explanation
Indices: 4278335--4278388 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
4278325 CCCTTTATAG
4278335 GTATCGATACAACTTT-AACGT
1 GTATCGATACAACTTTGAACGT
** *
4278356 GTATCGATACCCTCTTTGAATGT
1 GTATCGATA-CAACTTTGAACGT
4278379 GTATCGATAC
1 GTATCGATAC
4278389 CCCTTGATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.32
22 6 0.21
23 13 0.46
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (22 bp):
GTATCGATACAACTTTGAACGT
Found at i:4278789 original size:34 final size:30
Alignment explanation
Indices: 4278751--4278819 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
4278741 TTGATATAAC
*
4278751 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTATTTGGACTT-AATTG
4278785 AATTT-ACAAAATGTATTTGGACTTAATTG
1 AATTTAACAAAATGTATTTGGACTTAATTG
4278814 AATTTA
1 AATTTA
4278820 TTCAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (30 bp):
AATTTAACAAAATGTATTTGGACTTAATTG
Found at i:4278827 original size:31 final size:31
Alignment explanation
Indices: 4278760--4278819 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
4278750 CAATTTAAGG
*
4278760 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
4278791 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
4278820 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:4279038 original size:21 final size:21
Alignment explanation
Indices: 4279012--4279053 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4279002 ATTTGAATAT
*
4279012 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4279033 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
4279054 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:4279115 original size:21 final size:21
Alignment explanation
Indices: 4279082--4279121 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4279072 TTTTTGCAGA
*
4279082 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4279104 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4279122 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4279376 original size:34 final size:32
Alignment explanation
Indices: 4279337--4279406 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4279327 TTTTGTAAAG
*
4279337 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
4279371 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4279403 GGGA
1 GGGA
4279407 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4280889 original size:15 final size:15
Alignment explanation
Indices: 4280866--4280897 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4280856 AATGTTAAAC
*
4280866 TTGTTTGTTTTGGAT
1 TTGTGTGTTTTGGAT
4280881 TTGTGTGTTTTGGAT
1 TTGTGTGTTTTGGAT
4280896 TT
1 TT
4280898 TGGATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (15 bp):
TTGTGTGTTTTGGAT
Found at i:4287264 original size:20 final size:20
Alignment explanation
Indices: 4287235--4287273 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4287225 AAAGCCCATA
*
4287235 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
4287255 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
4287274 GTGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:4289966 original size:21 final size:20
Alignment explanation
Indices: 4289942--4289989 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
4289932 ACTATAGTAC
* *
4289942 CGATACTACCCCTTATTGTAT
1 CGATACTACCCCCTA-GGTAT
4289963 CGATACT-CCCCCTAGGTAT
1 CGATACTACCCCCTAGGTAT
4289982 CGATACTA
1 CGATACTA
4289990 TTTTAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (20 bp):
CGATACTACCCCCTAGGTAT
Found at i:4292320 original size:108 final size:111
Alignment explanation
Indices: 4292131--4292330 Score: 259
Period size: 108 Copynumber: 1.8 Consensus size: 111
4292121 TATATATAAA
* * * *
4292131 TAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGACAGCTCTCTTC
1 TAAGATATTTACTTATTCAGAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAACTCTCTTA
* *
4292196 TTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTCGATATTAAAAAATAAATATCAAAAACATTTTATTTTAATATAG
* *
4292242 TAAGATATTTA-TT-TTCA-AAATATCAGAAAATGGCTTCTAGGTGCCTT-A-ACAACTCT-TTA
1 TAAGATATTTACTTATTCAGAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAACTCTCTT-
4292301 ATTCGATATTAAAATAAATAAATATCAAAA
65 ATTCGATATT-AAA-AAATAAATATCAAAA
4292331 TATTATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
105 2 0.03
106 15 0.19
107 3 0.04
108 42 0.54
109 3 0.04
110 2 0.03
111 11 0.14
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (111 bp):
TAAGATATTTACTTATTCAGAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAACTCTCTTA
TTCGATATTAAAAAATAAATATCAAAAACATTTTATTTTAATATAG
Found at i:4293414 original size:20 final size:18
Alignment explanation
Indices: 4293388--4293432 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
4293378 TGGTCTGTTG
4293388 GTTGTTGTCTCTGT-TCTTT
1 GTTGTTGTC-CT-TCTCTTT
4293407 GCTTGTTGTCCTTCTCTTT
1 G-TTGTTGTCCTTCTCTTT
4293426 GTTGTTG
1 GTTGTTG
4293433 CGTTGGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.00, C:0.18, G:0.22, T:0.60
Consensus pattern (18 bp):
GTTGTTGTCCTTCTCTTT
Found at i:4293988 original size:3 final size:3
Alignment explanation
Indices: 4293980--4294034 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
4293970 TAATATTTAT
* *
4293980 TAA TAA TAA TAA TGTA TAA TAA TGAA TAA TAA TTAA TAA CAAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA -TAA TAA -TAA TAA TAA
4294029 TAA TAA
1 TAA TAA
4294035 AAGCAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 34 0.77
4 10 0.23
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4293998 original size:10 final size:10
Alignment explanation
Indices: 4293980--4294032 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
4293970 TAATATTTAT
4293980 TAAT-AATAA
1 TAATGAATAA
*
4293989 TAATGTATAA
1 TAATGAATAA
4293999 TAATGAATAA
1 TAATGAATAA
*
4294009 TAATTAATAA
1 TAATGAATAA
*
4294019 CAAAT-AATAA
1 -TAATGAATAA
4294029 TAAT
1 TAAT
4294033 AAAAGCAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.19
10 27 0.73
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (10 bp):
TAATGAATAA
Found at i:4294018 original size:20 final size:20
Alignment explanation
Indices: 4293980--4294032 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
4293970 TAATATTTAT
4293980 TAATAATAATAATGTATAA-
1 TAATAATAATAATGTATAAC
4293999 TAATGAATAATAAT-TAATAAC
1 TAAT-AATAATAATGT-ATAAC
*
4294020 AAATAATAATAAT
1 TAATAATAATAAT
4294033 AAAAGCAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
TAATAATAATAATGTATAAC
Found at i:4294458 original size:151 final size:151
Alignment explanation
Indices: 4294159--4294555 Score: 659
Period size: 151 Copynumber: 2.7 Consensus size: 151
4294149 TGTTGAAAAC
*
4294159 CATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTTG-AAACATCAAAAAGCTCCCGAAGGC-
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCGAAGGCT
* *
4294221 TTTTGGAAACATCATGCACTGTAGGACTT-C--A-GACCCGAAGGTTTTGAAAACATCAAAAGCT
65 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCT
4294282 CCCGAAGGCTTTTTGGAAACAT
130 CCCGAAGGCTTTTTGGAAACAT
4294304 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
4294369 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
66 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
4294434 CCCGAAGGCTTTTTGG-AACAT
130 CCCGAAGGCTTTTTGGAAACAT
4294455 CATGCACTGAAGGGCTTACAG-TGACCCGAAGGCTTTGAAAAACATCAAAAAGCTCCCGAAGGCT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTG-AAAACATCAAAAAGCTCCCGAAGGC-
*
4294519 TTTTTGGAAACATCATGCACTGAAGGGCTTACAGATG
64 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
4294556 TGGGAAATAG
Statistics
Matches: 238, Mismatches: 4, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
145 32 0.13
146 28 0.12
147 28 0.12
148 1 0.00
150 17 0.07
151 73 0.31
152 59 0.25
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (151 bp):
CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAGCTC
CCGAAGGCTTTTTGGAAACAT
Found at i:4294580 original size:75 final size:76
Alignment explanation
Indices: 4294159--4294555 Score: 652
Period size: 76 Copynumber: 5.3 Consensus size: 76
4294149 TGTTGAAAAC
*
4294159 CATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTTG-AAACATCAAAAAGCTCCCGAAGGC-
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCGAAGGCT
4294221 TTTTGGAAACAT
65 TTTTGGAAACAT
* * *
4294233 CATGCACTGTAGGACTT-C--A-GACCCGAAGGTTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
4294293 TTTGGAAACAT
66 TTTGGAAACAT
4294304 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
4294369 TTTGGAAACAT
66 TTTGGAAACAT
*
4294380 CATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
4294445 TTTGG-AACAT
66 TTTGGAAACAT
4294455 CATGCACTGAAGGGCTTACAG-TGACCCGAAGGCTTTGAAAAACATCAAAAAGCTCCCGAAGGCT
1 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTG-AAAACATCAAAAAGCTCCCGAAGGC-
4294519 TTTTTGGAAACAT
64 TTTTTGGAAACAT
4294532 CATGCACTGAAGGGCTTACAGATG
1 CATGCACTGAAGGGCTTACAGATG
4294556 TGGGAAATAG
Statistics
Matches: 304, Mismatches: 7, Indels: 20
0.92 0.02 0.06
Matches are distributed among these distances:
70 26 0.09
71 39 0.13
72 1 0.00
73 1 0.00
74 32 0.11
75 72 0.24
76 105 0.35
77 26 0.09
78 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
TTTGGAAACAT
Found at i:4295746 original size:53 final size:55
Alignment explanation
Indices: 4295629--4295739 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 55
4295619 AGAATAACAG
*** *
4295629 GTTCGT-AAAACATTTGACAGTGCATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGATCAGAT
*
4295683 GTTCGTAAAAACATTTGACAACACATTCAT-TTTT-TTGTGGCTTCTGATCAGAT
1 GTTCGTAAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGATCAGAT
4295736 GTTC
1 GTTC
4295740 TCAAAAATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
53 21 0.41
54 10 0.20
55 20 0.39
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (55 bp):
GTTCGTAAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGATCAGAT
Found at i:4298079 original size:115 final size:115
Alignment explanation
Indices: 4297878--4298317 Score: 767
Period size: 115 Copynumber: 3.8 Consensus size: 115
4297868 GATCATGCAG
* * * * *
4297878 TTCATATTTCAATTCCAATGATCGGTTCTGTAG-TTCCTACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
*
4297942 AACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAAGAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
4297992 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATATCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
*
4298057 AACACTTTC-AGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAAG-AGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
4298107 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
4298172 AACACTTCCAAGAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAAGAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
**
4298222 TTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
4298287 AACACTTCCAAGAGATGCTATTGAGTCTCCT
66 AACACTTCCAAGAGATGCTATTGAGTCTCCT
4298318 CTTCCAAATT
Statistics
Matches: 311, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
114 30 0.10
115 279 0.90
116 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAAGAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:4298501 original size:174 final size:174
Alignment explanation
Indices: 4298211--4298748 Score: 1049
Period size: 174 Copynumber: 3.1 Consensus size: 174
4298201 CTTATTTCTA
4298211 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
4298276 ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
66 ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
4298341 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
4298385 CTATGAGAAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
*
4298450 ATAACTCAAAGAACACTTCCAGGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
66 ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
4298515 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
4298559 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
4298624 ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
66 ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
4298689 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
4298733 CTATGAGCACATTCAT
1 CTATGAGCAAATTCAT
4298749 TTGTTCCAGT
Statistics
Matches: 359, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 359 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (174 bp):
CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAAGAGATGCTATTGAGTCTCCTCTTCCAAATTCAATGATTGATTT
TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:4305576 original size:17 final size:16
Alignment explanation
Indices: 4305538--4305595 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
4305528 ATTCTTGAAT
*
4305538 ATAATAAATAAATAA-A
1 ATAAAAAAT-AATAATA
4305554 AT-AAAAATAATAATA
1 ATAAAAAATAATAATA
4305569 TATAAAAAATAATAAGTA
1 -ATAAAAAATAATAA-TA
4305587 ATAAAAAAT
1 ATAAAAAAT
4305596 TTGAAAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 5 0.14
15 6 0.16
16 4 0.11
17 20 0.54
18 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAAAAATAATAATA
Found at i:4305579 original size:14 final size:14
Alignment explanation
Indices: 4305535--4305582 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
4305525 TTAATTCTTG
4305535 AATATAATAAATAAAT
1 AATAT-ATAAA-AAAT
*
4305551 AAAATA-AAAATAAT
1 AATATATAAAA-AAT
4305565 AATATATAAAAAAT
1 AATATATAAAAAAT
4305579 AATA
1 AATA
4305583 AGTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 18 0.64
15 5 0.18
16 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATATATAAAAAAT
Found at i:4307985 original size:3 final size:3
Alignment explanation
Indices: 4307977--4308033 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
4307967 AATATTTATT
* * *
4307977 TAA TAA TAA TAA TGTA TAA TAA TGA TAA TAA TAA TTAA TAA CAAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA -TAA TAA -TAA TAA
4308025 TAA TAA TAA
1 TAA TAA TAA
4308034 AAGCAAACTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 38 0.84
4 7 0.16
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4307998 original size:16 final size:14
Alignment explanation
Indices: 4307977--4308032 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 14
4307967 AATATTTATT
*
4307977 TAATAATAATAATG
1 TAATAATAATAATA
*
4307991 T-ATAATAATGATAA
1 TAATAATAATAAT-A
*
4308005 TAATAATTAATAACA
1 TAATAA-TAATAATA
4308020 -AATAATAATAATA
1 TAATAATAATAATA
4308033 AAAGCAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 17 0.50
14 7 0.21
15 5 0.15
16 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:4308015 original size:10 final size:11
Alignment explanation
Indices: 4307980--4308031 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
4307970 ATTTATTTAA
4307980 TAATAATAATG
1 TAATAATAATG
4307991 T-ATAATAATG
1 TAATAATAATG
4308001 ATAATAATAAT-
1 -TAATAATAATG
* *
4308012 TAATAACAA-A
1 TAATAATAATG
4308022 TAATAATAAT
1 TAATAATAAT
4308032 AAAAGCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 25 0.71
11 2 0.06
12 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
TAATAATAATG
Found at i:4312406 original size:3 final size:3
Alignment explanation
Indices: 4312398--4312459 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
4312388 ATATTGTTAA
*
4312398 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* *
4312444 -TT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
4312460 ATTATAATCC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 47 0.92
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:4313006 original size:36 final size:36
Alignment explanation
Indices: 4312960--4313116 Score: 114
Period size: 36 Copynumber: 4.5 Consensus size: 36
4312950 TTTTAGGGAT
4312960 AATTTGTTTCAAGAGAAAATGTCTCAAGCGAGACAA
1 AATTTGTTTCAAGAGAAAATGTCTCAAGCGAGACAA
* * * **
4312996 AATTTTTTTCAAGGGAAACA-ATCTCAA--TTG----
1 AATTTGTTTCAAGAGAAA-ATGTCTCAAGCGAGACAA
* ** *
4313026 -TTTATGTTTCAAGAGAAGTTGTCTCAAGAGAGACAA
1 AATT-TGTTTCAAGAGAAAATGTCTCAAGCGAGACAA
* * *
4313062 AACTTTATTTCAAGATAAACTGTCTCAAGCGAGACAA
1 AA-TTTGTTTCAAGAGAAAATGTCTCAAGCGAGACAA
*
4313099 AATTTGTTTCAAGGGAAA
1 AATTTGTTTCAAGAGAAA
4313117 CAATCTCAAT
Statistics
Matches: 88, Mismatches: 22, Indels: 22
0.67 0.17 0.17
Matches are distributed among these distances:
29 2 0.02
30 17 0.19
32 1 0.01
34 1 0.01
36 35 0.40
37 30 0.34
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (36 bp):
AATTTGTTTCAAGAGAAAATGTCTCAAGCGAGACAA
Found at i:4313145 original size:103 final size:102
Alignment explanation
Indices: 4312960--4313182 Score: 347
Period size: 103 Copynumber: 2.2 Consensus size: 102
4312950 TTTTAGGGAT
* *
4312960 AATTTGTTTCAAGAGAAAATGTCTCAAGCGAGACAAAATTTTTTTCAAGGGAAACAATCTCAATT
1 AATTTATTTCAAGAGAAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATT
* **
4313025 GTTTATGTTTCAAGAGAAGTTGTCTCAAGAGAGACAA
66 GTTTATGTTTCAAGAGAAATCATCTCAAGAGAGACAA
* *
4313062 AACTTTATTTCAAGATAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAT
1 AA-TTTATTTCAAGAGAAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAT
*
4313127 TGTTTATGTTTCAAGAGAAATCATCTCAAGCGAGACAA
65 TGTTTATGTTTCAAGAGAAATCATCTCAAGAGAGACAA
* *
4313165 AATTTGTTTCAATAGAAA
1 AATTTATTTCAAGAGAAA
4313183 CAATCTCAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 15 0.14
103 94 0.86
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (102 bp):
AATTTATTTCAAGAGAAAATGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATT
GTTTATGTTTCAAGAGAAATCATCTCAAGAGAGACAA
Found at i:4313154 original size:66 final size:66
Alignment explanation
Indices: 4313069--4313324 Score: 306
Period size: 66 Copynumber: 3.9 Consensus size: 66
4313059 CAAAACTTTA
* * *
4313069 TTTCAAGATAAA-CTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTTA
1 TTTCAAGATAAATC-ATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAATGTTTA
4313133 TG
65 TG
* *
4313135 TTTCAAGAGAAATCATCTCAAGCGAGACAAAATTTGTTTCAATAGAAACAATCTCAAACT-TTTA
1 TTTCAAGATAAATCATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAA-TGTTTA
4313199 TG
65 TG
** * * *
4313201 TTTCAAGATAAATTGTCTCAAGCGAGATAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTGT
1 TTTCAAGATAAATCATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAATGTTTAT
4313266 G
66 G
* * * *
4313267 TTTCCAA-ATAAA-CTATCTCAAGCGAGATC-AATTTTGTTTCAAGTGAAAAAATTTCAAA
1 TTT-CAAGATAAATC-ATCTCAAGCGAGA-CAAAATTTGTTTCAAGAGAAACAATCTCAAA
4313325 ATTTGTGGTA
Statistics
Matches: 165, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
66 160 0.97
67 5 0.03
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (66 bp):
TTTCAAGATAAATCATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAATGTTTAT
G
Found at i:4313235 original size:132 final size:132
Alignment explanation
Indices: 4313069--4313308 Score: 360
Period size: 132 Copynumber: 1.8 Consensus size: 132
4313059 CAAAACTTTA
* **
4313069 TTTCAAGATAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTTAT
1 TTTCAAGATAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
4313134 GTTT-CAAGAGAAA-TCATCTCAAGCGAGA-CAAAATTTGTTTCAATAGAAACAATCTCAAACTT
66 GTTTCCAA-AGAAACT-ATCTCAAGCGAGATC-AAATTTGTTTCAATAGAAACAATCTCAAACTT
4313196 TTATG
128 TTATG
* * *
4313201 TTTCAAGATAAATTGTCTCAAGCGAGATAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTGT
1 TTTCAAGATAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
* *
4313266 GTTTCCAAATAAACTATCTCAAGCGAGATCAATTTTGTTTCAA
66 GTTTCCAAAGAAACTATCTCAAGCGAGATCAAATTTGTTTCAA
4313309 GTGAAAAAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
132 92 0.95
133 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (132 bp):
TTTCAAGATAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
GTTTCCAAAGAAACTATCTCAAGCGAGATCAAATTTGTTTCAATAGAAACAATCTCAAACTTTTA
TG
Found at i:4321446 original size:15 final size:15
Alignment explanation
Indices: 4321428--4321457 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4321418 CCACGGTGCT
4321428 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
4321443 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
4321458 TATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:4324006 original size:32 final size:33
Alignment explanation
Indices: 4323960--4324026 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 33
4323950 GATGATCTCG
4323960 GAACATATCTTGGTATGCCAGTTATGCACAAAA
1 GAACATATCTTGGTATGCCAGTTATGCACAAAA
4323993 GAAC-TATCTTGGTATGCCAGTTATGCACAAAA
1 GAACATATCTTGGTATGCCAGTTATGCACAAAA
4324025 GA
1 GA
4324027 GCAACGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (33 bp):
GAACATATCTTGGTATGCCAGTTATGCACAAAA
Found at i:4325366 original size:17 final size:17
Alignment explanation
Indices: 4325344--4325377 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4325334 AAATTGGCTT
4325344 GTTGGTTTTAATAAGGC
1 GTTGGTTTTAATAAGGC
4325361 GTTGGTTTTAATAAGGC
1 GTTGGTTTTAATAAGGC
4325378 TATTGGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (17 bp):
GTTGGTTTTAATAAGGC
Found at i:4327051 original size:21 final size:20
Alignment explanation
Indices: 4327012--4327050 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4327002 AACCATATGT
*
4327012 TTCTATATATTTACTTTTTC
1 TTCTATATATTGACTTTTTC
4327032 TTCTATAATATTGA-TTTTT
1 TTCTAT-ATATTGACTTTTT
4327051 TTCAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (20 bp):
TTCTATATATTGACTTTTTC
Found at i:4336931 original size:14 final size:14
Alignment explanation
Indices: 4336912--4336938 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4336902 TACATTTTCA
4336912 TTCTTCATTCTTTG
1 TTCTTCATTCTTTG
4336926 TTCTTCATTCTTT
1 TTCTTCATTCTTT
4336939 ACATTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (14 bp):
TTCTTCATTCTTTG
Found at i:4340432 original size:8 final size:8
Alignment explanation
Indices: 4340419--4340512 Score: 67
Period size: 8 Copynumber: 12.0 Consensus size: 8
4340409 AAAAAAAATG
4340419 AATGAAAA
1 AATGAAAA
4340427 AATGAAAA
1 AATGAAAA
*
4340435 AGTG-AAA
1 AATGAAAA
4340442 AA-GAAAA
1 AATGAAAA
*
4340449 AATAAAAAA
1 AAT-GAAAA
4340458 AATGAAAA
1 AATGAAAA
4340466 AA--AAAA
1 AATGAAAA
4340472 AA--AAAA
1 AATGAAAA
*
4340478 AGA-AAAAA
1 A-ATGAAAA
4340486 ATGATGAAAAA
1 A--ATG-AAAA
4340497 AATGAAAA
1 AATGAAAA
4340505 AATGAAAA
1 AATGAAAA
4340513 GAAAAAAGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
6 12 0.16
7 10 0.14
8 34 0.47
9 12 0.16
11 5 0.07
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (8 bp):
AATGAAAA
Found at i:4340474 original size:39 final size:39
Alignment explanation
Indices: 4340446--4340525 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
4340436 GTGAAAAAGA
4340446 AAAAAT-AAAAAAAATG-AAAAAAA-AAAAAAAAAAGAA
1 AAAAATGAAAAAAAATGAAAAAAAAGAAAAAAAAAAGAA
*
4340482 AAAAATGATGAAAAAAATG-AAAAAATGAAAAGAAAAAAGAA
1 AAAAATGA--AAAAAAATGAAAAAAAAGAAAA-AAAAAAGAA
4340523 AAA
1 AAA
4340526 GGAGGGTTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
36 6 0.16
37 1 0.03
39 15 0.39
40 4 0.11
41 12 0.32
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (39 bp):
AAAAATGAAAAAAAATGAAAAAAAAGAAAAAAAAAAGAA
Found at i:4340506 original size:1 final size:1
Alignment explanation
Indices: 4340439--4340486 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
4340429 TGAAAAAGTG
* * ** *
4340439 AAAAAGAAAAAATAAAAAAAATGAAAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4340487 TGATGAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.04
Consensus pattern (1 bp):
A
Found at i:4340506 original size:31 final size:30
Alignment explanation
Indices: 4340406--4340506 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 30
4340396 GTACTATGCT
*
4340406 TGAAAAAAAAATGAATGAAAAAATG-AAAAAG
1 TGAAAAAAAAA-GAAT-AAAAAATGAAAAAAA
4340437 TGAAAAAGAAAA-AATAAAAAAAATGAAAAAAA
1 TGAAAAA-AAAAGAAT--AAAAAATGAAAAAAA
*
4340469 -AAAAAAAAAAGAA-AAAAATGATGAAAAAAA
1 TGAAAAAAAAAGAATAAAAA--ATGAAAAAAA
4340499 TGAAAAAA
1 TGAAAAAA
4340507 TGAAAAGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
28 5 0.08
30 17 0.29
31 28 0.47
32 9 0.15
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (30 bp):
TGAAAAAAAAAGAATAAAAAATGAAAAAAA
Found at i:4341932 original size:105 final size:105
Alignment explanation
Indices: 4341435--4341917 Score: 840
Period size: 105 Copynumber: 4.6 Consensus size: 105
4341425 TCAACAACAA
4341435 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* * *
4341500 CCTAAAGGAGAAGGTTCGCAATGAGAAGAACTTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
4341540 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAATTCGT
1 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
4341605 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
4341645 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAATTCGT
1 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
4341710 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* *
4341750 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
4341815 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * ** *
4341855 TCAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
4341918 ATTCGACAAA
Statistics
Matches: 364, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 364 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (105 bp):
TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
Found at i:4341961 original size:20 final size:20
Alignment explanation
Indices: 4341897--4341962 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
4341887 TTTCCAGAAG
4341897 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * **
4341917 CA-TTCGACAA-AAGAAGAAGA
1 -AGTTC-ATAATGAGAAGAACT
4341937 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
4341957 TGTTCA
1 AGTTCA
4341963 ACCTTAGCTC
Statistics
Matches: 33, Mismatches: 9, Indels: 7
0.67 0.18 0.14
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:4345174 original size:9 final size:9
Alignment explanation
Indices: 4345160--4345184 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4345150 TGATATTTTT
4345160 ATTGAATTA
1 ATTGAATTA
4345169 ATTGAATTA
1 ATTGAATTA
4345178 ATTGAAT
1 ATTGAAT
4345185 AAAGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (9 bp):
ATTGAATTA
Found at i:4347429 original size:27 final size:24
Alignment explanation
Indices: 4347402--4347499 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 24
4347392 ATGTTCGTTT
*
4347402 ATTTAT-TGTTCGCGAACATGTTC
1 ATTTATATGTTCACGAACATGTTC
*
4347425 ATTTATATGTTCACGAACGTGTTC
1 ATTTATATGTTCACGAACATGTTC
** * *
4347449 ATTTA-GCGTTTACGAACGTGTTC
1 ATTTATATGTTCACGAACATGTTC
** * *
4347472 ATTTA-GCGTTTACGAACGTGTTC
1 ATTTATATGTTCACGAACATGTTC
4347495 ATTTA
1 ATTTA
4347500 GCATTCATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 49 0.71
24 20 0.29
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTTATATGTTCACGAACATGTTC
Found at i:4347467 original size:23 final size:23
Alignment explanation
Indices: 4347414--4347501 Score: 131
Period size: 23 Copynumber: 3.8 Consensus size: 23
4347404 TTATTGTTCG
* ** *
4347414 CGAACATGTTCATTTATATGTTCA
1 CGAACGTGTTCATTTA-GCGTTTA
4347438 CGAACGTGTTCATTTAGCGTTTA
1 CGAACGTGTTCATTTAGCGTTTA
4347461 CGAACGTGTTCATTTAGCGTTTA
1 CGAACGTGTTCATTTAGCGTTTA
4347484 CGAACGTGTTCATTTAGC
1 CGAACGTGTTCATTTAGC
4347502 ATTCATTTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 45 0.75
24 15 0.25
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (23 bp):
CGAACGTGTTCATTTAGCGTTTA
Found at i:4349800 original size:25 final size:25
Alignment explanation
Indices: 4349766--4349815 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4349756 TTTACTAGGT
4349766 TTTTTTAATTGACACATTATAATTA
1 TTTTTTAATTGACACATTATAATTA
* **
4349791 TTTTTTAATTGTCTGATTATAATTA
1 TTTTTTAATTGACACATTATAATTA
4349816 GTGGTCACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTTTAATTGACACATTATAATTA
Found at i:4353332 original size:20 final size:20
Alignment explanation
Indices: 4353307--4353361 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
4353297 CAAGTAAAAA
*
4353307 TATGACAAACCCGGTTTAAT
1 TATGACAAAACCGGTTTAAT
*
4353327 TATGACAAAATCGGTTTAAT
1 TATGACAAAACCGGTTTAAT
*
4353347 TATGAAAAAACCGGT
1 TATGACAAAACCGGT
4353362 AAAGCGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (20 bp):
TATGACAAAACCGGTTTAAT
Found at i:4353638 original size:182 final size:181
Alignment explanation
Indices: 4353327--4353946 Score: 921
Period size: 182 Copynumber: 3.4 Consensus size: 181
4353317 CCGGTTTAAT
* * * * *
4353327 TATGACAAAATCGGT-T-TAATTATGAAAAAACCGGTAAAGCGCTACCGAATATGTTGAAAGTAT
1 TATGACAAAATCGGTCTCGAA--ATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGT
* * * * *
4353390 TGATTAGATTGAA-ATAAGTATCGACA-TTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTA
64 CGA-TA-CTTTAATATAAGTATCGACACTTTAG-GAATTTAAAAGAGAAACAGTAATAGCGCCTA
4353453 TAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATGATATAACAGGTAAAAA
126 TAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAA-GATATAACAGGTAAAAA
*
4353510 TATGACAAAATCGGTCTCGAAATGACAAAGCCGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
1 TATGACAAAATCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
*
4353575 ATACTTTAATATAAGTATCGACACTTTAGGAATTTCAAAGAGAAACAGTAATAGCGCCTATAAAG
66 ATACTTTAATATAAGTATCGACACTTTAGGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAG
* *
4353640 TGTTGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAATA
131 TGTCGATACTTTATAAAAATGTATCGATCCATAA-GATATAACAGGTAAAAA
*
4353692 TATGACAAAATCGGTCTCGAAATGACAAAATCGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
1 TATGACAAAATCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
* * *
4353757 ATACTTTCATATAAGTATCGACACTTTGGGAATTTAAAAGAGAAACAATAATAGCGCCTATAAAG
66 ATACTTTAATATAAGTATCGACACTTTAGGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAG
* * *
4353822 TGTCGATACTGTATAAAAATGTATCGATCCATAACA-AT-ATAGGTAAAAA
131 TGTCGATACTTTATAAAAATGTATCGATCCATAAGATATAACAGGTAAAAA
*
4353871 TATGATAAAA-CAGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTC
1 TATGACAAAATC-GGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTC
4353935 GATACTTTAATA
65 GATACTTTAATA
4353947 AGTACGCGTA
Statistics
Matches: 403, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
178 1 0.00
179 80 0.20
180 2 0.00
181 5 0.01
182 254 0.63
183 58 0.14
184 1 0.00
185 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (181 bp):
TATGACAAAATCGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
ATACTTTAATATAAGTATCGACACTTTAGGAATTTAAAAGAGAAACAGTAATAGCGCCTATAAAG
TGTCGATACTTTATAAAAATGTATCGATCCATAAGATATAACAGGTAAAAA
Found at i:4355962 original size:22 final size:23
Alignment explanation
Indices: 4355912--4355966 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4355902 GTTTTTGTTT
*
4355912 TTTTA-TATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
4355934 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
4355957 TTTTATTATA
1 TTTTATTATA
4355967 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 5 0.18
24 14 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:4356220 original size:9 final size:9
Alignment explanation
Indices: 4356206--4356239 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4356196 AAAAGAAGGT
4356206 AGAGGAGGC
1 AGAGGAGGC
*
4356215 AGAGGAGGT
1 AGAGGAGGC
*
4356224 AGAGCAGGC
1 AGAGGAGGC
4356233 AGAGGAG
1 AGAGGAG
4356240 AAGAAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.53, T:0.03
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:4356225 original size:18 final size:18
Alignment explanation
Indices: 4356202--4356239 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4356192 ATTGAAAAGA
*
4356202 AGGTAGAGGAGGCAGAGG
1 AGGTAGAGCAGGCAGAGG
4356220 AGGTAGAGCAGGCAGAGG
1 AGGTAGAGCAGGCAGAGG
4356238 AG
1 AG
4356240 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.53, T:0.05
Consensus pattern (18 bp):
AGGTAGAGCAGGCAGAGG
Found at i:4358250 original size:19 final size:19
Alignment explanation
Indices: 4358226--4358274 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4358216 AATGTAGGGT
4358226 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4358245 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
4358264 TAATTTTGTAT
1 TAATTTTGTAT
4358275 GTGAATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4359074 original size:201 final size:200
Alignment explanation
Indices: 4358722--4359889 Score: 1913
Period size: 201 Copynumber: 5.8 Consensus size: 200
4358712 GTAAGCAGAT
*
4358722 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
4358787 TGTAATTTTCAATGTAACCGGCATAAATATACCGATTTTATGAGAGAATAGGTCTACATAATGTA
66 GGTAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
4358852 TCAACACCTTTTAAATTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACAC
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACGC
4358917 ATAAA
196 ATAAA
* * * *
4358922 GTGTAGATACATTTATAAAATGTATCGATACCAAAAACATTGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
4358987 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAA-TTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
4359052 ATCGACATTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
4359117 CATAAA
195 CATAAA
* **
4359123 GTGTCGATACATTTATGAAAAGTATCGATCCCAAAAACATCGAAACTTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
4359188 GGTAAATTTTCAATATAACCAGTATAAATATATCGGTTTTAAGAGAGAATAGATCTACATAATGT
66 GGT-AATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
4359253 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
4359318 CATAAA
195 CATAAA
*
4359324 GTTTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
4359389 GGTAATTTTTCAATGTAACCGGTATAAATATATCAGTTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAA-TTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
4359454 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
4359519 CATAAA
195 CATAAA
* *
4359525 GTGTCAATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
4359590 GGTAATTTTCAATGTAATCGGTATAAATATACCAGTTTTATGAGAGAATAGGCCTACATAATGTA
66 GGTAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* *
4359655 TCGACACTTTTTAAATTTGTGTCGATACTTTTCGTCCAGAATGAATACCCAAACTAGGTGCACGC
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACGC
4359720 ATAAA
196 ATAAA
* * *
4359725 GTGTCGATACATTTATAAAAAAATATCGATCCCAAAAACATCGAAACCGATAATTAAAATGTAAT
1 GTGTCGATACATTTAT-AAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * *
4359790 AGGTAAATTTCTAATGTAACCAGTATAAATATACCGGTTTTAAGAGAGAATAGGTCTACATAATT
65 AGGTAATTTTC-AATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
4359855 TATCGACACTTTTTAAATTTGTGTCGATACTTTTT
129 TATCGACACTTTTTAAATTTGTGTCGATACTTTTT
4359890 AAATTTTGCG
Statistics
Matches: 904, Mismatches: 59, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
200 206 0.23
201 615 0.68
202 83 0.09
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACGC
ATAAA
Found at i:4360918 original size:33 final size:33
Alignment explanation
Indices: 4360881--4360946 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4360871 AGAGGGAGCA
4360881 TCAATTTCAACTTCACTACCATATGGATGTGTC
1 TCAATTTCAACTTCACTACCATATGGATGTGTC
4360914 TCAATTTCAACTTCACTACCATATGGATGTGTC
1 TCAATTTCAACTTCACTACCATATGGATGTGTC
4360947 ATCACCTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (33 bp):
TCAATTTCAACTTCACTACCATATGGATGTGTC
Found at i:4364671 original size:198 final size:199
Alignment explanation
Indices: 4364106--4365891 Score: 2274
Period size: 198 Copynumber: 9.0 Consensus size: 199
4364096 TTCAGTAATC
* * * *
4364106 TCCAGAATAAATGCCCAATCGAGGTGCATGAATAAAGTGTCGATACATTTATTAAAA-GCATCGA
1 TCCAGAATGAATGCCTAA-CGAGGTGCACGAATAAAGTGTCGATACATTTA-TAAAATGTATCGA
* *
4364170 TCCCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAT
64 TCCCAAAAACATCGAA-ACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAA
* *
4364234 ATATACCTGTTAATTAGAAAATAGGTCTACATAATATATCGACACTTTTTAAA-TTGTGTCGATA
128 ATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATA
*
4364298 CTTTTTT
193 CTTTTTG
* * * * * *
4364305 TCTAGAATAAATGACC-AACCGAGGTGTACGAATAAAGTCTTGATACATTTATAAAAAGTATCGA
1 TCCAGAATGAATG-CCTAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGA
* * *
4364369 TCCCAAAAAACATCGAATA-AGATAATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGA
64 TCCC-AAAAACATCGAA-ACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGA
*
4364433 AATATACCGATTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGAT
127 AATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGAT
*
4364498 ACATTTTG
192 ACTTTTTG
* * * ** * *
4364506 ACCAGAATGAATGCCCAACGAGGTGTACGAATAAAGTGTCGATATGTTTATAAAACGTATTGATC
1 TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGATC
** * * *
4364571 CCAAAAA-ATCGAAACCAATAAATATAATGTAATAGGTAAATTTCCAATGTAACTGGTAGAAATA
66 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * **
4364635 TACCGGTTAATTAGACAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATACTT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
4364700 TTTG
196 TTTG
* * *
4364704 TCCAGAATGAATGCCTAA-AAGAGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGAT
1 TCCAGAATGAATGCCTAACGAG-GTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGAT
*
4364767 CCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAT
65 CCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * *
4364832 ATATCGGTTAATTAGAAAATAGGTCTACATCATGTATTGAAACTTGTGT-AATTTGTGTCGATAC
130 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TTTAAATTTGTGTCGATAC
4364896 TTTTTG
194 TTTTTG
* *
4364902 TCCAGAATGAATGCCTAA-AAGAGTGCAC-ATATAAAGTGTCGATACATTTA-AAATTGTATCGA
1 TCCAGAATGAATGCCTAACGAG-GTGCACGA-ATAAAGTGTCGATACATTTATAAAATGTATCGA
* * *
4364964 TCCCAAAAACATCGAAACTAATAATTATAATTTAATAGGTAACTTTACAATGTAACCGGTAGAAA
64 TCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
*
4365029 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGATACTTTTTAAATTTGTGTCGATAC
129 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
*
4365094 GTTTTG
194 TTTTTG
* * * * * * * * *
4365100 ACCAGAAAGAATGCCCAACGGGGTGTACGAATAAAGTGTCAACACATTTATAAAACGTATTGATC
1 TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGATC
* * * * *
4365165 CCATAAACATCAAAACCGATAAATATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATA
66 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * * * * ** *
4365230 TATCGGTTAATTAGAGAATAGGTCTACATCATGTATTGATACTTATGGATTTTGTGTCGATACTT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
4365295 TTTG
196 TTTG
* * *
4365299 TCAAGAATGAATGCCTAA-AAGAGTGCAC-ACATAAAGTGTCGATACATTTA-AAATTGTATCGA
1 TCCAGAATGAATGCCTAACGAG-GTGCACGA-ATAAAGTGTCGATACATTTATAAAATGTATCGA
* * *
4365361 -CCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTATAATGTAACCGGGAGAAA
64 TCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
* * * **
4365425 TATACCGGTTAATTAGAAAACAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATAC
129 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
4365490 TTTTTG
194 TTTTTG
** * * *
4365496 TCCAGAATGAATGCCTAAAAAAGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGATC
1 TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGATC
* * * * *
4365560 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTGTACAATATAACCAGTATAAATA
66 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * * *
4365625 TACCTGTTAATTAGAAACTAGGTATACATAGTGTATCGACACTTTTTAAATTTGTGTCGATACAT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
4365690 TTTG
196 TTTG
* * * * * *
4365694 ACTAGAAAGAATGCCTAACGGGGTGTACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
1 TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGATC
* * * * * *
4365759 CGATAAACATCGAAACTGATAAATATAATGTAATAGGTAAATTTCCAATGTAACCAGTAAAAATA
66 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * *
4365824 TACCAGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTGTTTAAAGTTGTATCGATACTT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
4365889 TTT
196 TTT
4365892 AAAATTACCC
Statistics
Matches: 1398, Mismatches: 169, Indels: 40
0.87 0.11 0.02
Matches are distributed among these distances:
197 198 0.14
198 665 0.48
199 353 0.25
200 154 0.11
201 28 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAATGTATCGATC
CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
TTTG
Found at i:4365881 original size:21 final size:21
Alignment explanation
Indices: 4365855--4365894 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4365845 GTCTACATAA
4365855 TGTATCGACACTGTTTAAAGT
1 TGTATCGACACTGTTTAAAGT
* *
4365876 TGTATCGATACTTTTTAAA
1 TGTATCGACACTGTTTAAA
4365895 ATTACCCGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGACACTGTTTAAAGT
Found at i:4365891 original size:594 final size:594
Alignment explanation
Indices: 4364137--4365866 Score: 2632
Period size: 594 Copynumber: 2.9 Consensus size: 594
4364127 AGGTGCATGA
* * *
4364137 ATAAAGTGTCGATACATTTATTAAA-AGCATCGATCCCAAAAACATCGAATA-AGATAATTATAA
1 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAA-ACTGATAATTATAA
* * *
4364200 TGTAATAGGTAAATTTACAATGTAACCGGTAGATATATACCTGTTAATTAGAAAATAGGTCTACA
63 TGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACA
* * * * * * * ** *
4364265 TAATATATCGACACTT-TTTAAATTGTGTCGATACTTTTTTTCTAGAATAAATGACC-AACCGAG
128 TCATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCTAA-AAAA
* * * ** *
4364328 GTGTACGAATAAAGTCTTGATACATTTATAAAAAGTATCGATCCCAAAAAACATCGAATA-AGAT
191 GTGCACGAATAAAGTGTCGATACATTTA-AAATTGTATCGATCCC-AAAAACATCGAA-ACTGAT
*
4364392 AATTATAATGTAATAGGTCAA-TTTCCAATGTAACCGGTAGAAATATACCGATTAATTAGAAAAT
253 AATTATAATGTAATAGGT-AACTTTACAATGTAACCGGTAGAAATATACCG-TTAATTAGAAAAT
*
4364456 AGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACCAGAATGAATGCC
316 AGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACCAGAAAGAATGCC
* ** *
4364521 CAACGAGGTGTACGAATAAAGTGTCGATATGTTTATAAAACGTATTGATCCCA-AAAAATCGAAA
381 CAACGGGGTGTACGAATAAAGTGTCGATACATTTATAAAACGTATTGATCCCATAAACATCGAAA
* *
4364585 CCAATAAATATAATGTAATAGGTAAATTTCCAATGTAACTGGTAGAAATATACCGGTTAATTAGA
446 CCGATAAATATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGA
* * *
4364650 CAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAA
511 AAATAGGTCTACATCATGTATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCAAGAATGAA
*
4364715 TGCCTAAAAGAGTGCACGC
576 TGCCTAAAAGAGTGCACAC
4364734 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
*
4364799 AATAGGTAACTTTACAATGTAACCGGTAGAAATATATCGGTTAATTAGAAAATAGGTCTACATCA
66 AATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATCA
* * *
4364864 TGTATTGAAACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAGAGTGCA
131 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAAAGTGCA
*
4364929 C-ATATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTAATAATTATA
196 CGA-ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATA
*
4364993 ATTTAATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTAC
260 ATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATACC-GTTAATTAGAAAATAGGTCTAC
* *
4365058 ATAATGTATCGATACTTTTTAAATTTGTGTCGATACGTTTTGACCAGAAAGAATGCCCAACGGGG
324 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACCAGAAAGAATGCCCAACGGGG
* * *
4365123 TGTACGAATAAAGTGTCAACACATTTATAAAACGTATTGATCCCATAAACATCAAAACCGATAAA
389 TGTACGAATAAAGTGTCGATACATTTATAAAACGTATTGATCCCATAAACATCGAAACCGATAAA
* *
4365188 TATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATATCGGTTAATTAGAGAATAGGT
454 TATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGT
* * *
4365253 CTACATCATGTATTGATACTTATGGATTTTGTGTCGATACTTTTTGTCAAGAATGAATGCCTAAA
519 CTACATCATGTATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCAAGAATGAATGCCTAAA
4365318 AGAGTGCACAC
584 AGAGTGCACAC
4365329 ATAAAGTGTCGATACATTTAAAATTGTATCGA-CCCAAAAACATCGAAACTGATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
* * *
4365393 AATAGGTAACTTTATAATGTAACCGGGAGAAATATACCGGTTAATTAGAAAACAGGTCTACATCA
66 AATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATCA
*
4365458 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAAAGTGCA
131 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAAAGTGCA
*
4365523 CGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAA
196 CGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAA
* * * * * *
4365588 TGTAATAGGTAACTGTACAATATAACCAGTATAAATATACCTGTTAATTAGAAACTAGGTATACA
261 TGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATACC-GTTAATTAGAAAATAGGTCTACA
* * *
4365653 TAGTGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACTAGAAAGAATGCCTAACGGGGT
325 TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACCAGAAAGAATGCCCAACGGGGT
* * * *
4365718 GTACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCGATAAACATCGAAACTGATAAAT
390 GTACGAATAAAGTGTCGATACATTTATAAAACGTATTGATCCCATAAACATCGAAACCGATAAAT
* * *
4365783 ATAATGTAATAGGTAAATTTCCAATGTAACCAGTAAAAATATACCAGTTAATTAGAAAATAGGTC
455 ATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTC
*
4365848 TACATAATGTATCGACACT
520 TACATCATGTATCGACACT
4365867 GTTTAAAGTT
Statistics
Matches: 1036, Mismatches: 87, Indels: 23
0.90 0.08 0.02
Matches are distributed among these distances:
593 3 0.00
594 648 0.63
595 200 0.19
596 131 0.13
597 54 0.05
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (594 bp):
ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
AATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATCA
TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCTAAAAAAGTGCA
CGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAA
TGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATACCGTTAATTAGAAAATAGGTCTACAT
AATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGACCAGAAAGAATGCCCAACGGGGTG
TACGAATAAAGTGTCGATACATTTATAAAACGTATTGATCCCATAAACATCGAAACCGATAAATA
TAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCT
ACATCATGTATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCAAGAATGAATGCCTAAAAG
AGTGCACAC
Found at i:4366730 original size:19 final size:19
Alignment explanation
Indices: 4366706--4366753 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
4366696 ATGTAGGGGA
4366706 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
4366725 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
4366744 AATTTTGTAT
1 AATTTTGTAT
4366754 GTTAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:4369820 original size:199 final size:198
Alignment explanation
Indices: 4369400--4369895 Score: 593
Period size: 199 Copynumber: 2.5 Consensus size: 198
4369390 AAGATTTGTC
* * * *
4369400 GATACATTTTCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAA
1 GATACA-TTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTAA
* * * * *
4369465 ATTAACAATGCAACCGATATAAATATACCGATTAATTAAAAACAGGTAAACATAATGTATCGATA
65 ATTTACAATGTAACCGGTATAAATATACCGATTAATGAAAAACAGGTAAACATAATGTATCGACA
* * * *
4369530 CTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAATTCCCAAACGAGGTGCACTCATAAAG
130 CTTGTGAAATATGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
4369595 TGCT
195 TGCT
* * * *
4369599 GATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATGATATAATATGTAA
1 GATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTAA
* * * * * * *
4369664 ATTTACAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATATGTCAACATAATGTATCGA
65 ATTTACAATGTAACCGGTATAAATATA-CCGATTAATGA-AAAACAGGTAAACATAATGTATCGA
* * * * *
4369729 CACTTTTTAAATATGTGTCGATACTTTTTTTCCAGATTGAATGCCC-AACGAGGTGCACGCATAA
128 CACTTGTGAAATATGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAA
4369793 AGTG-T
193 AGTGCT
* * *
4369798 CGATACATTTA-AAATTGTATCGATCTCAAAAACATCAAAACCGATAATTATAATGTAATAAGTA
1 -GATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTA
* * * *
4369862 AATTTGCAATGTTACTGGTATAAATAAACCGATT
64 AATTTACAATGTAACCGGTATAAATATACCGATT
4369896 TAGTTAGAAA
Statistics
Matches: 251, Mismatches: 41, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
198 10 0.04
199 145 0.58
200 38 0.15
201 58 0.23
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (198 bp):
GATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTAAA
TTTACAATGTAACCGGTATAAATATACCGATTAATGAAAAACAGGTAAACATAATGTATCGACAC
TTGTGAAATATGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGT
GCT
Found at i:4370015 original size:87 final size:87
Alignment explanation
Indices: 4369914--4370076 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
4369904 AAATAGGTCA
* * *
4369914 ATATAAGCGCTACCTATTACATTATATATGCGTTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTTAATAATATTT
*
4369979 CCGGTTAAATGCCTATTTTATT
66 CCGGTAAAATGCCTATTTTATT
* *
4370001 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTTGATGATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTTAATAATATTT
4370066 CCGGTAAAATG
66 CCGGTAAAATG
4370077 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTTAATAATATTT
CCGGTAAAATGCCTATTTTATT
Found at i:4370048 original size:23 final size:23
Alignment explanation
Indices: 4369998--4370042 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4369988 TGCCTATTTT
*
4369998 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
4370021 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
4370043 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:4372237 original size:31 final size:31
Alignment explanation
Indices: 4372170--4372229 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4372160 ACATTTAGTT
* *
4372170 CGTTTGTAATATGGTCTCCGACGTAACCGAC
1 CGTTTGCAATATGGTCCCCGACGTAACCGAC
4372201 CGTTTGCAATATGGTCCCCGACGTAACCG
1 CGTTTGCAATATGGTCCCCGACGTAACCG
4372230 GTTGTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (31 bp):
CGTTTGCAATATGGTCCCCGACGTAACCGAC
Found at i:4375473 original size:16 final size:17
Alignment explanation
Indices: 4375447--4375478 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4375437 AAGAATAATG
4375447 AAATGATATGTATATGT
1 AAATGATATGTATATGT
4375464 AAAT-ATATGTATATG
1 AAATGATATGTATATG
4375479 AGAAGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (17 bp):
AAATGATATGTATATGT
Found at i:4375950 original size:32 final size:30
Alignment explanation
Indices: 4375871--4375958 Score: 122
Period size: 32 Copynumber: 2.9 Consensus size: 30
4375861 AAAAAAGAAT
*
4375871 ATGTGATATGTGAAAGTGAATCATATGAAA
1 ATGTGATATGTGAAAGTGAACCATATGAAA
* * *
4375901 ATGTGCTACGTGCAAGTGAACCATATGATTAA
1 ATGTGATATGTGAAAGTGAACCATATGA--AA
4375933 ATGTGATATGTGAAAGTGAACCATAT
1 ATGTGATATGTGAAAGTGAACCATAT
4375959 ATATATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
30 24 0.49
32 25 0.51
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
ATGTGATATGTGAAAGTGAACCATATGAAA
Done.