Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 43 of 199
Found at i:17191483 original size:32 final size:32
Alignment explanation
Indices: 17191442--17191508 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
17191432 CTTCAGTCAG
17191442 GATGGATTTGGATGGATGATTGGATGCGGTGC
1 GATGGATTTGGATGGATGATTGGATGCGGTGC
17191474 GATGGATTTGGATGGATGATTGGATGCGGTGC
1 GATGGATTTGGATGGATGATTGGATGCGGTGC
17191506 GAT
1 GAT
17191509 ATATTTAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.19, C:0.06, G:0.43, T:0.31
Consensus pattern (32 bp):
GATGGATTTGGATGGATGATTGGATGCGGTGC
Found at i:17204522 original size:74 final size:74
Alignment explanation
Indices: 17204438--17204585 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 74
17204428 TTATTTTAAC
* * * **
17204438 ATTGTTGTTCAAAAGTATCGTTGAGATAAAAAGTGCTTTTGGAACTATGATATTAAATGGGTAAT
1 ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
17204503 TTTTAAAGT
66 TTTTAAAGT
* * * *
17204512 ATTGTGGTTCAAAAGTATTGTTGATATAAAAAGCGCTTTTGGAACTATAATGTTAAATGAATCAT
1 ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
17204577 TTTTAAAGT
66 TTTTAAAGT
17204586 TAGAAGTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (74 bp):
ATTGTGGTTCAAAAGTATCGTTGAGATAAAAAGCGCTTTTGGAACTATAATATTAAATGAATAAT
TTTTAAAGT
Found at i:17213771 original size:23 final size:23
Alignment explanation
Indices: 17213745--17213788 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17213735 CAAATATGTC
*
17213745 TTAATTTAGTAAATTAATCTTGA
1 TTAATTAAGTAAATTAATCTTGA
*
17213768 TTAATTAAGTTAATTAATCTT
1 TTAATTAAGTAAATTAATCTT
17213789 AGTATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (23 bp):
TTAATTAAGTAAATTAATCTTGA
Found at i:17215982 original size:43 final size:43
Alignment explanation
Indices: 17215881--17215994 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
17215871 TGTGTTATCG
* * * *
17215881 TGTAATACCACGTCGGGGAAGTTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCATCGACTTGTGATTACA
*
17215924 TGTAAGACC-CAGTCTGGGACAG-TGGCATCGA-TATGTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATCGACT-TGTGATTACA
* *
17215967 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGGGAAGTTGGCAT
17215995 TGTACGAGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.05
43 53 0.90
44 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCGACTTGTGATTACA
Found at i:17217896 original size:62 final size:61
Alignment explanation
Indices: 17217822--17217940 Score: 177
Period size: 61 Copynumber: 1.9 Consensus size: 61
17217812 ACTATTTTAA
* *
17217822 TAAATTTAATTTAATATTTATCTTGATTAGTATTTTA-TAATTTTAATATTAATATGAGATAT
1 TAAATTTAATTTAATATTTATCTT-AATAGTATTTTATTAA-TTTAAAATTAATATGAGATAT
* *
17217884 TAAATTTGATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATGTGAG
1 TAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATATGAG
17217941 TAATTTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 26 0.50
62 26 0.50
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (61 bp):
TAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAAAATTAATATGAGATAT
Found at i:17221248 original size:6 final size:6
Alignment explanation
Indices: 17221237--17221261 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17221227 CCTAACTGTT
17221237 CAAAGA CAAAGA CAAAGA CAAAGA C
1 CAAAGA CAAAGA CAAAGA CAAAGA C
17221262 GGGAGCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.20, G:0.16, T:0.00
Consensus pattern (6 bp):
CAAAGA
Found at i:17227966 original size:21 final size:21
Alignment explanation
Indices: 17227942--17227986 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
17227932 GATCCAAGCT
*
17227942 CCAGATCTGCTTCCATTGATC
1 CCAGACCTGCTTCCATTGATC
17227963 CCAGACCTGCTTCCATTGATC
1 CCAGACCTGCTTCCATTGATC
17227984 CCA
1 CCA
17227987 ACTATAGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.38, G:0.13, T:0.29
Consensus pattern (21 bp):
CCAGACCTGCTTCCATTGATC
Found at i:17228018 original size:66 final size:66
Alignment explanation
Indices: 17227899--17228031 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
17227889 TCCAAGCTCT
* * * *
17227899 AGACCTGCTTCCATCGATCCTAATTATAGAGCAGATCCAAGCTCCAGATCTGCTTCCATTGATCC
1 AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
17227964 C
66 C
* * ** *
17227965 AGACCTGCTTCCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAGCTGCTCCCATTGATCC
1 AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
17228030 C
66 C
17228031 A
1 A
17228032 ATTATAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (66 bp):
AGACCTGCTTCCATCGATCCCAACTATAGAGCAGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
C
Found at i:17228024 original size:45 final size:45
Alignment explanation
Indices: 17227969--17228131 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
17227959 GATCCCAGAC
* * *
17227969 CTGCTTCCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAG
1 CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
*
17228014 CTGCTCCCATTGATCCCAATTATAGAGTGGATCCGAGCTCTAGAG
1 CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
* * * * *
17228059 -TGGCTTCCATTGACCCCAATTATAGAGCGGATCCAAGCGCTAGAA
1 CT-GCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
*
17228104 CTGCTCCGATTGATCCCAATTATAGAGC
1 CTGCTCCCATTGATCCCAATTATAGAGC
17228132 TGCTCCAGAG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 101 0.98
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
CTGCTCCCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAG
Found at i:17256604 original size:21 final size:21
Alignment explanation
Indices: 17256578--17256618 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17256568 AGACGAGCAA
* *
17256578 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17256599 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17256619 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:17262125 original size:27 final size:26
Alignment explanation
Indices: 17262074--17262126 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
17262064 GTAAAAATAA
*
17262074 TTTAAAATTCTATATAAAAGATTTTT
1 TTTAAAATTCTATATAAAACATTTTT
17262100 TTTAAAATTACTATATAAAAC-TTTTT
1 TTTAAAATT-CTATATAAAACATTTTT
17262126 T
1 T
17262127 ACTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTAAAATTCTATATAAAACATTTTT
Found at i:17299111 original size:46 final size:46
Alignment explanation
Indices: 17299047--17299315 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
17299037 TTTGAGTACT
* *
17299047 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
17299093 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
17299139 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
17299191 TCTGATCAAGTGATAAGTCAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A--C-AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
17299243 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
17299289 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
17299316 GCTACACTTA
Statistics
Matches: 201, Mismatches: 11, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
46 112 0.56
47 1 0.00
49 1 0.00
52 85 0.42
55 1 0.00
57 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:17299172 original size:52 final size:50
Alignment explanation
Indices: 17299107--17299304 Score: 278
Period size: 52 Copynumber: 4.0 Consensus size: 50
17299097 ATCAAGTGAC
17299107 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
* *
17299157 GGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGT
1 --AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
* * *
17299209 CAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC----
1 --AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
*
17299257 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
17299305 AGTGATAAGT
Statistics
Matches: 133, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
46 42 0.32
52 91 0.68
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
Found at i:17299323 original size:37 final size:37
Alignment explanation
Indices: 17299279--17299424 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
17299269 GATAGCTTTA
**
17299279 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17299316 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
17299353 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
17299390 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17299425 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:17300689 original size:46 final size:46
Alignment explanation
Indices: 17300619--17300757 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
17300609 ACAATGCTAT
*
17300619 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
* * *
17300665 AACTCAGTATGGTTTT-TGTTACTGAAATATCATACCTAGGTTTCAC
1 AACTCAGTATGGTTTTCT-TCACTGAAATACCATACCTACGTTTCAC
* *
17300711 AACTCAGTATGGTTTTCTTCACTGAAATACCATAACTACGTTCCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
17300757 A
1 A
17300758 CTTTGTCATG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 80 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
Found at i:17306194 original size:46 final size:45
Alignment explanation
Indices: 17306124--17306262 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 45
17306114 ACAATGCTAT
* * * * *
17306124 AACTCAGTATGGTTTCCTTCACTGAAATACCATATCTACTTTTCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATA-CTACGTTCCAC
17306170 AACTCAGTATAGTTTT-TGTTACTGAAATACCATACATACGTTCCAC
1 AACTCAGTATAGTTTTCT-TTACTGAAATACCATAC-TACGTTCCAC
* * *
17306216 AACTCAGTATGGTTTTCTTTACTGAATTACCATACCTACATTCCAC
1 AACTCAGTATAGTTTTCTTTACTGAAATACCATA-CTACGTTCCAC
17306262 A
1 A
17306263 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.02
46 77 0.95
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATAGTTTTCTTTACTGAAATACCATACTACGTTCCAC
Found at i:17316225 original size:3 final size:3
Alignment explanation
Indices: 17316217--17316270 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
17316207 TCCTTCCATC
17316217 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17316265 TAA TAA
1 TAA TAA
17316271 AAGTTTCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17326848 original size:18 final size:18
Alignment explanation
Indices: 17326825--17326869 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
17326815 TACATGCAAT
*
17326825 ATCTATACATCATTTATC
1 ATCTATAAATCATTTATC
* *
17326843 ATCTATAAATTATTTATA
1 ATCTATAAATCATTTATC
*
17326861 ATATATAAA
1 ATCTATAAA
17326870 AAACGAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
ATCTATAAATCATTTATC
Found at i:17330776 original size:105 final size:105
Alignment explanation
Indices: 17330583--17330777 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 105
17330573 AATGTTTAAA
* * **
17330583 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAAAAAACCATAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCTCAA
**
17330648 ACGTAAGACCATGGTTGGACCATGGTAGTATAGATACATG
66 ACGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
* * * *
17330688 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGATAAGACTATAATTGGGTTATGACA-CTACA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCT-CA
* * *
17330752 AATGTACGACCATGGCAGGGCCATGG
65 AACGTAAGACCATGGCAGGACCATGG
17330778 CAATACATGT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.03
105 74 0.97
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGACACCTCAA
ACGTAAGACCATGGCAGGACCATGGTAGTATAGATACATG
Found at i:17332133 original size:14 final size:14
Alignment explanation
Indices: 17332114--17332146 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17332104 TACAGTATCC
17332114 AAATAATAACAATA
1 AAATAATAACAATA
17332128 AAATAATAACAATA
1 AAATAATAACAATA
*
17332142 TAATA
1 AAATA
17332147 GCTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:17345675 original size:6 final size:6
Alignment explanation
Indices: 17345666--17345709 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
17345656 TAATCATAAT
17345666 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
17345710 CAAGGGCTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:17359082 original size:31 final size:32
Alignment explanation
Indices: 17359046--17359105 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
17359036 CAACCAACTA
* *
17359046 AATTAATTTTATTTT-TTAATTAAATAAATTT
1 AATTAATTTAATTTTCTAAATTAAATAAATTT
*
17359077 AATTAATTTAATTTTCTAAATTAATTAAA
1 AATTAATTTAATTTTCTAAATTAAATAAA
17359106 GGAAAATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
AATTAATTTAATTTTCTAAATTAAATAAATTT
Found at i:17369940 original size:28 final size:30
Alignment explanation
Indices: 17369909--17369971 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
17369899 TCATCAATGA
*
17369909 AATATATTAAAATGAT-TTTATATTA-AAT
1 AATATATTAAAATGATAGTTATATTAGAAT
* *
17369937 AATA-ATTAAAATTATAGTTATGTTAGAAT
1 AATATATTAAAATGATAGTTATATTAGAAT
17369966 AATATA
1 AATATA
17369972 ATAATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 10 0.34
28 11 0.38
29 7 0.24
30 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (30 bp):
AATATATTAAAATGATAGTTATATTAGAAT
Found at i:17370957 original size:17 final size:18
Alignment explanation
Indices: 17370931--17370975 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
17370921 CCATTTTTAG
17370931 TATGTAATTTTT-TATAT
1 TATGTAATTTTTATATAT
* *
17370948 TATGTTATTTTTATATGT
1 TATGTAATTTTTATATAT
*
17370966 TATGTGATTT
1 TATGTAATTT
17370976 ATAACCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (18 bp):
TATGTAATTTTTATATAT
Found at i:17382624 original size:44 final size:44
Alignment explanation
Indices: 17382561--17382650 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
17382551 TCAAATGATG
17382561 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
1 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
17382605 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
1 AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
17382649 AA
1 AA
17382651 CTCAATTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (44 bp):
AAAATAGTCAAAAGGTTTTAATTTTATCTACTAAAGGTCCAACC
Found at i:17394106 original size:42 final size:42
Alignment explanation
Indices: 17394025--17394112 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
17394015 GCGACAGCCT
* *
17394025 TGATGACGATCAACTCCAAGGCAGCGACAGCCGTAATGACGA
1 TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
* * * *
17394067 TGATGACGATCTACTCCAAAGCAGCGACAGGCATGATGACGG
1 TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
17394109 TGAT
1 TGAT
17394113 CATGATTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (42 bp):
TGATGACGATCAACTCCAAAGCAGCGACAGCCATAATGACGA
Found at i:17396626 original size:26 final size:27
Alignment explanation
Indices: 17396594--17396672 Score: 101
Period size: 26 Copynumber: 3.0 Consensus size: 27
17396584 TAATTAATTC
*
17396594 ATCTCTTTTATCCTTATGATGTATTGT
1 ATCTCTTTTTTCCTTATGATGTATTGT
* *
17396621 CT-TCTTTTTTCTCTTATTAT-TATT-T
1 ATCTCTTTTTTC-CTTATGATGTATTGT
17396646 ATCTCTTTTTTCCTTATGATGTATTGT
1 ATCTCTTTTTTCCTTATGATGTATTGT
17396673 GTACTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 9 0.21
26 25 0.58
27 9 0.21
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (27 bp):
ATCTCTTTTTTCCTTATGATGTATTGT
Found at i:17396679 original size:26 final size:26
Alignment explanation
Indices: 17396597--17396682 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
17396587 TTAATTCATC
* *
17396597 TCTTTTATCCTTATGATGTATTGTCT
1 TCTTTTTTCCTTATGATGTATTGTAT
*
17396623 TCTTTTTTCTCTTATTAT-TATT-TAT
1 TCTTTTTTC-CTTATGATGTATTGTAT
*
17396648 CTCTTTTTTCCTTATGATGTATTGTGT
1 -TCTTTTTTCCTTATGATGTATTGTAT
*
17396675 ACTTTTTT
1 TCTTTTTT
17396683 TCTTGTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 9 0.18
26 32 0.64
27 9 0.18
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (26 bp):
TCTTTTTTCCTTATGATGTATTGTAT
Found at i:17411870 original size:28 final size:29
Alignment explanation
Indices: 17411839--17411894 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
17411829 TATTATTATT
*
17411839 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
17411867 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
17411895 TATTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:17412661 original size:3 final size:3
Alignment explanation
Indices: 17412653--17412694 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17412643 GTGAGGTAAG
17412653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17412695 GAGTGGGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17412878 original size:24 final size:27
Alignment explanation
Indices: 17412846--17412904 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
17412836 CGGATTAATT
17412846 ATTG-ATTGAAAG-GTG-GAAA-AATG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
**
17412869 ATTGAATTGAAAGTGTGAGAAAGTGTG
1 ATTGAATTGAAAGTGTGAGAAAGAATG
17412896 ATTGAATTG
1 ATTGAATTG
17412905 GGATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAGTGTGAGAAAGAATG
Found at i:17423250 original size:24 final size:24
Alignment explanation
Indices: 17423223--17423274 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17423213 TTAGTAAGTC
*
17423223 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17423247 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17423271 AAAT
1 AAAT
17423275 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17425219 original size:24 final size:24
Alignment explanation
Indices: 17425192--17425243 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17425182 TTAGTAAGTC
*
17425192 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17425216 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17425240 AAAT
1 AAAT
17425244 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17427535 original size:13 final size:13
Alignment explanation
Indices: 17427517--17427542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17427507 TTAAACTTCT
17427517 ACAAAATCGTGTA
1 ACAAAATCGTGTA
17427530 ACAAAATCGTGTA
1 ACAAAATCGTGTA
17427543 GATTATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ACAAAATCGTGTA
Found at i:17431146 original size:27 final size:28
Alignment explanation
Indices: 17431066--17431147 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
17431056 AAAAATACAT
*
17431066 ATAAAAAATATTTATAAAA-ATTAAAAATC
1 ATAAAAAA-ATTTA-AAAATTTTAAAAATC
* * *
17431095 ATTAAAGATATTTAAAAATTATAAAAA-C
1 A-TAAAAAAATTTAAAAATTTTAAAAATC
17431123 ATAAAAAAATTTAAAAATTTTAAAA
1 ATAAAAAAATTTAAAAATTTTAAAA
17431148 GTTAGTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 21 0.48
28 6 0.14
29 12 0.27
30 5 0.11
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (28 bp):
ATAAAAAAATTTAAAAATTTTAAAAATC
Found at i:17434806 original size:9 final size:9
Alignment explanation
Indices: 17434755--17434928 Score: 79
Period size: 9 Copynumber: 18.9 Consensus size: 9
17434745 ATTTTCTCAT
*
17434755 TAAAAATCA
1 TAAAAATTA
17434764 TAAAAATTTA
1 TAAAAA-TTA
**
17434774 TATAAACCTA
1 TA-AAAATTA
**
17434784 TAAAACCTA
1 TAAAAATTA
17434793 T-AAAATTA
1 TAAAAATTA
17434801 TAAAAACTTA
1 TAAAAA-TTA
17434811 TAATAAATTA
1 TAA-AAATTA
*
17434821 TACAAA-TA
1 TAAAAATTA
*
17434829 GTAAAAAATA
1 -TAAAAATTA
17434839 -AAACATATTA
1 TAAA-A-ATTA
*
17434849 TAAATATT-
1 TAAAAATTA
**
17434857 TATCAATTA
1 TAAAAATTA
*
17434866 TAAATATTA
1 TAAAAATTA
* *
17434875 TAAAAAATC
1 TAAAAATTA
*
17434884 TAAAAA-TC
1 TAAAAATTA
*
17434892 TAATAATTA
1 TAAAAATTA
*
17434901 TCAATAATTA
1 T-AAAAATTA
*
17434911 TAAAACTTA
1 TAAAAATTA
17434920 TTAAAAATT
1 -TAAAAATT
17434929 CGAAACAAGT
Statistics
Matches: 128, Mismatches: 23, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
8 23 0.18
9 56 0.44
10 40 0.31
11 9 0.07
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17438681 original size:7 final size:7
Alignment explanation
Indices: 17438671--17438699 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
17438661 AAAGAAGAGG
17438671 GAGGAGT
1 GAGGAGT
17438678 GAGGAGT
1 GAGGAGT
17438685 GAGGAGT
1 GAGGAGT
17438692 GAGGAGT
1 GAGGAGT
17438699 G
1 G
17438700 TAATAGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.59, T:0.14
Consensus pattern (7 bp):
GAGGAGT
Found at i:17440829 original size:27 final size:27
Alignment explanation
Indices: 17440791--17440855 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
17440781 CAGATGCCAC
* **
17440791 AGGCTGCACCAAAGGTGCCTGTGGCAG
1 AGGCGGCACCAAAGGTGCCTGTCCCAG
* *
17440818 AGGCGGCACCAAATGTGCCTTTCCCAG
1 AGGCGGCACCAAAGGTGCCTGTCCCAG
17440845 AGGCGGCACCA
1 AGGCGGCACCA
17440856 CTCGTGTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.32, T:0.14
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTGTCCCAG
Found at i:17440949 original size:10 final size:10
Alignment explanation
Indices: 17440934--17440971 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
17440924 AGGTGCTGCC
17440934 AGAAAAAGAG
1 AGAAAAAGAG
17440944 AGAAAAAGAG
1 AGAAAAAGAG
*
17440954 AGAAAGAGAAG
1 AGAAAAAG-AG
17440965 AGAAAAA
1 AGAAAAA
17440972 AAAAGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAG
Found at i:17443372 original size:157 final size:154
Alignment explanation
Indices: 17443204--17443980 Score: 869
Period size: 157 Copynumber: 4.9 Consensus size: 154
17443194 AAAAATTAGT
* * *
17443204 AAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTCCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
17443269 TATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATT
66 TAT-ATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATT
17443334 TAGTGTGTTTTTAAATAAATTTGAAAA
130 TAGTGTGTTTTTAAATAAATTT--AAA
* * *
17443361 AAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
* * * *
17443426 TATATTATTTT-TGTATTTTATTATTTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTAT
66 TATA-TATTTTCT-AATTTTATTATTTTACATTATTTCAGTACATTATGTTTG-AA-A-TT-TAT
* * **
17443490 TAA-TTATTTCTGAATTTTTAAA-AAATTTAGT
125 TAATTTA-GTGTG--TTTTTAAATAAATTTAAA
* * *
17443521 AAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT--A-AAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTC-CCGA-ATTTTATTACTTTCAATAAA
* *
17443582 AATATTATATTTTCTAATTTTATTATTTTACATTATTTCGGTATATTATGTTTGAAATTTATTAA
64 AATA-TATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAA
17443647 TTTAGTGTGTTTTTAAATAAATTTAAAA
128 TTTAGTGTGTTTTTAAATAAATTT-AAA
* * * * *
17443675 AAAAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTTCCGAATTTTATTACTTTCAATAAAAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
* *
17443740 TATATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTAT
66 TATA-TATTTTC-TAATTTTATTATTTTACATTATTTCAGTACATTATGTTTG-AA-A-TT-TAT
** * * * **
17443804 TAATTATTTTTTAATTTTTAAA-AAAATTAGT
125 TAATT-TAGTGT-GTTTTTAAATAAATTTAAA
* * *
17443835 AAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT--A-AAA
1 AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTC-CCGA-ATTTTATTACTTTCAATAAA
* *
17443896 AATATTATATTTTCTAATTTTATTATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAA
64 AATA-TATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAA
17443961 TTTAGTGTGTTTTTTAAATA
128 TTTAGTGTG-TTTTTAAATA
17443981 TACCATTTTT
Statistics
Matches: 525, Mismatches: 61, Indels: 71
0.80 0.09 0.11
Matches are distributed among these distances:
152 8 0.02
153 32 0.06
154 53 0.10
155 10 0.02
156 52 0.10
157 111 0.21
158 98 0.19
159 10 0.02
160 82 0.16
161 47 0.09
162 14 0.03
163 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (154 bp):
AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAA
TATATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTT
AGTGTGTTTTTAAATAAATTTAAA
Found at i:17443836 original size:314 final size:315
Alignment explanation
Indices: 17443192--17443980 Score: 1341
Period size: 314 Copynumber: 2.5 Consensus size: 315
17443182 GCAATTTCAA
* * * * * *
17443192 AAAAAAATTAGTAAAAAACCCTTATTTCGGCCATTTATTCGTACTATTTTC-CCGA-ATTTTATT
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATT
*
17443255 ACTTTCAATAAAAATATCATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTT
65 ACTTT--A-AAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTT
17443320 GAAATTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTT
127 GAAATTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTT
*
17443385 GCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTAT
192 GCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTAT
17443450 TTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
257 TTTATATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
* *
17443509 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
* *
17443574 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCGGTATATTATGTTTGAAA
66 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
*
17443639 TTTATTAATTTAGTGTGTTTTTAAATAAATTT-AAAAAAAAAACTCTTATTCCTGCCCTTTGCTC
131 TTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTTGCTC
*
17443703 GTATTATTTTTCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
196 GTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
* * *
17443768 TATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTTTTAATTTTT
261 TATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
17443823 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
* *
17443888 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTTAGTGCATTATGTTTGAAA
66 CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
17443953 TTTATTAATTTAGTGTGTTTTTTAAATA
131 TTTATTAATTTAGTGTG-TTTTTAAATA
17443981 TACCATTTTT
Statistics
Matches: 447, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
314 287 0.64
315 99 0.22
316 1 0.00
317 45 0.10
318 15 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (315 bp):
AAAAAAATTAGTAAAAAACACTTACTTCGGCCCTTTGTTCGTATTTTTTTCTCCACATTTTATTA
CTTTAAAAAATATTATATTTTCTAATTTTATTATTTTACATTATTTCAGTACATTATGTTTGAAA
TTTATTAATTTAGTGTGTTTTTAAATAAATTTGAAAAAAAAAACCCTTATTCCTGCCCTTTGCTC
GTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
TATTATTTCAGTAAATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:17444268 original size:10 final size:10
Alignment explanation
Indices: 17444255--17444329 Score: 66
Period size: 10 Copynumber: 7.5 Consensus size: 10
17444245 TTTTCTTCTC
17444255 CTTTCCTTTT
1 CTTTCCTTTT
17444265 CTTTCCTTCTT
1 CTTTCCTT-TT
*
17444276 -TTTCTTTCTTT
1 CTTTC-CT-TTT
* *
17444287 CTTTCCTCTC
1 CTTTCCTTTT
17444297 CTTTCCTTTT
1 CTTTCCTTTT
*
17444307 CTTTCTTTTT
1 CTTTCCTTTT
17444317 CTTT-C-TTT
1 CTTTCCTTTT
17444325 CTTTC
1 CTTTC
17444330 TTCTCCTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
8 7 0.13
10 34 0.65
11 6 0.12
12 5 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:17444276 original size:38 final size:38
Alignment explanation
Indices: 17444230--17444340 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 38
17444220 TTCCCTCTTC
17444230 TTCTTCTTTTGTT-TTT-TTTCTTCTCCTTTCCTTTTCT
1 TTCTTCTTTT-TTCTTTCTTTCTTCTCCTTTCCTTTTCT
*
17444267 TTCCTTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCT
1 TT-CTTC--TTT-TTTCTTTCTTTCTTCTCCTTTCCTTTTCT
17444309 TTCTT-TTTCTTTCTTTCTTTCTTCTCCTTTCC
1 TTCTTCTTT-TTTCTTTCTTTCTTCTCCTTTCC
17444341 CTCTCATTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
37 2 0.03
38 30 0.45
40 5 0.08
41 7 0.11
42 22 0.33
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (38 bp):
TTCTTCTTTTTTCTTTCTTTCTTCTCCTTTCCTTTTCT
Found at i:17444283 original size:4 final size:4
Alignment explanation
Indices: 17444262--17444331 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
17444252 CTCCTTTCCT
* *
17444262 TTTC TTTC CTTC -TT- TTTC TTTC TTTC TTTCC TCTCC TTTCC TTTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTT-C -TTTC
17444308 TTTC -TT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
17444332 CTCCTTTCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 8 0.15
4 37 0.67
5 6 0.11
6 4 0.07
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:17444306 original size:42 final size:38
Alignment explanation
Indices: 17444246--17444340 Score: 145
Period size: 38 Copynumber: 2.4 Consensus size: 38
17444236 TTTTGTTTTT
17444246 TTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTC--T--TTCTTTTTCTTTCTTTC
*
17444288 TTTCCTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
1 TTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
17444326 TTTCTTCTCCTTTCC
1 TTTCTTCTCCTTTCC
17444341 CTCTCATTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 31 0.61
40 1 0.02
42 19 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTC
Found at i:17444338 original size:10 final size:9
Alignment explanation
Indices: 17444255--17444339 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 9
17444245 TTTTCTTCTC
17444255 CTTTCCTTTT
1 CTTTCC-TTT
17444265 CTTTCC-TT
1 CTTTCCTTT
*
17444273 CTTTTTCTTT
1 C-TTTCCTTT
17444283 CTTT-CTTT
1 CTTTCCTTT
*
17444291 CCTCTCCTTT
1 -CTTTCCTTT
*
17444301 CCTTTTCTTT
1 -CTTTCCTTT
*
17444311 CTTTTTCTTT
1 C-TTTCCTTT
17444321 CTTT-CTTT
1 CTTTCCTTT
17444329 CTTCTCCTTT
1 CTT-TCCTTT
17444339 C
1 C
17444340 CCTCTCATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
8 14 0.22
9 15 0.23
10 35 0.55
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (9 bp):
CTTTCCTTT
Found at i:17444878 original size:22 final size:22
Alignment explanation
Indices: 17444834--17444892 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
17444824 ATGAATGTTG
*
17444834 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
17444858 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
17444880 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
17444893 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:17449779 original size:46 final size:46
Alignment explanation
Indices: 17449679--17449953 Score: 412
Period size: 46 Copynumber: 6.0 Consensus size: 46
17449669 CATGGCAAAG
* * * *
17449679 TGTGAAACGTAGGTATGATATTTCAGTGAAGAAAA-CATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
17449724 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* *
17449770 TGTTAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
*
17449816 TGTGAAAAGTAGGTATGATGTTTCAGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* *
17449862 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
* * *
17449908 TGTGAAAAGTAGGCATG--GTATTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATGT-TTCGGTAAAGAAAACCATACTGAGT
17449953 T
1 T
17449954 ATAGCAATGT
Statistics
Matches: 212, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 55 0.26
46 156 0.74
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGATGTTTCGGTAAAGAAAACCATACTGAGT
Found at i:17450315 original size:3 final size:3
Alignment explanation
Indices: 17450307--17450358 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
17450297 GGTGTTACAG
17450307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17450355 TTA T
1 TTA T
17450359 ACTTATACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17450493 original size:13 final size:13
Alignment explanation
Indices: 17450475--17450499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17450465 TCTTCTTAGT
17450475 TTTTTATATATAG
1 TTTTTATATATAG
17450488 TTTTTATATATA
1 TTTTTATATATA
17450500 TATATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTATATATAG
Found at i:17450497 original size:15 final size:14
Alignment explanation
Indices: 17450471--17450501 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
17450461 ATTATCTTCT
17450471 TAGTTTTTTATATA
1 TAGTTTTTTATATA
17450485 TAGTTTTTATATATA
1 TAGTTTTT-TATATA
17450500 TA
1 TA
17450502 TATATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TAGTTTTTTATATA
Found at i:17450532 original size:18 final size:19
Alignment explanation
Indices: 17450504--17450541 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
17450494 TATATATATA
*
17450504 TATATATACATTTACATTT
1 TATATATACATATACATTT
17450523 TATA-ATACATATACATTT
1 TATATATACATATACATTT
17450541 T
1 T
17450542 TCCATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATACATATACATTT
Found at i:17450566 original size:26 final size:26
Alignment explanation
Indices: 17450518--17450567 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
17450508 TATACATTTA
* *
17450518 CATTTTATAATACATATACATTTTTC
1 CATTTTAAAATACATACACATTTTTC
* *
17450544 CATTTTAAAATTCATACATATTTT
1 CATTTTAAAATACATACACATTTT
17450568 CACATACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (26 bp):
CATTTTAAAATACATACACATTTTTC
Found at i:17453103 original size:27 final size:21
Alignment explanation
Indices: 17453047--17453088 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17453037 ATATGAAAAT
17453047 ATATATATATGTATACGCGTA
1 ATATATATATGTATACGCGTA
17453068 ATATATATATGTATACGCGTA
1 ATATATATATGTATACGCGTA
17453089 CTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATATATATGTATACGCGTA
Found at i:17453119 original size:3 final size:3
Alignment explanation
Indices: 17453090--17453158 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
17453080 ATACGCGTAC
* * *
17453090 TAA TAA -AA TATA TAC TAA TACA TAA TAA TAA TAA TAG TAA TAC TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
17453136 TAA TAC TAA TAA T-A TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
17453159 CAAGGATATT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17453640 original size:11 final size:12
Alignment explanation
Indices: 17453624--17453660 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
17453614 AGAAAAAAAA
17453624 GGAAGAGAG-AG
1 GGAAGAGAGAAG
17453635 GGAAGAGAGAAG
1 GGAAGAGAGAAG
17453647 GG-AGAGAGAAG
1 GGAAGAGAGAAG
17453658 GGA
1 GGA
17453661 GGGGGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:17454718 original size:40 final size:40
Alignment explanation
Indices: 17454655--17454750 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
17454645 CAAACATGCT
*
17454655 CTTAGAAATTTTGGTAAAACCTTA-AATATTATGATAAATC
1 CTTAGAAATTTTAGTAAAACCTTAGAAT-TTATGATAAATC
* ** * * *
17454695 TTTAGAAATTTTAGTAACTCCTTAGAATTTTTGGTGAATC
1 CTTAGAAATTTTAGTAAAACCTTAGAATTTATGATAAATC
*
17454735 CTTAAAAATTTTAGTA
1 CTTAGAAATTTTAGTA
17454751 TTACCAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (40 bp):
CTTAGAAATTTTAGTAAAACCTTAGAATTTATGATAAATC
Found at i:17454721 original size:20 final size:19
Alignment explanation
Indices: 17454691--17454750 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
17454681 TATTATGATA
*
17454691 AATCTTTAGAAATTTTAGT
1 AATCCTTAGAAATTTTAGT
* *
17454710 AACTCCTTAGAATTTTTGGT
1 AA-TCCTTAGAAATTTTAGT
*
17454730 GAATCCTTAAAAATTTTAGT
1 -AATCCTTAGAAATTTTAGT
17454750 A
1 A
17454751 TTACCAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (19 bp):
AATCCTTAGAAATTTTAGT
Found at i:17454797 original size:2 final size:2
Alignment explanation
Indices: 17454790--17454815 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17454780 AGAAATATTG
17454790 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17454816 TGTAAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17460390 original size:6 final size:6
Alignment explanation
Indices: 17460359--17460404 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
17460349 CCAAACACAC
* *
17460359 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAA CAGTAA AAGTAA CA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CA
17460405 ATATTCAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:17460482 original size:46 final size:45
Alignment explanation
Indices: 17460387--17460493 Score: 144
Period size: 46 Copynumber: 2.4 Consensus size: 45
17460377 AACGGTAACA
* *
17460387 GTAACAGTAAAAGTAACAATATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
* * *
17460432 GTAACAGTAACGGTAACAGTATTTCGACACACAAAGTGCCGAAT-T
1 GTAACAGTAACAGTAACAATA-TTCAACACACAAAGTGCCGAATCT
17460477 GGTAACAGTAACAGTAA
1 -GTAACAGTAACAGTAA
17460494 TCAGCACATA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 19 0.35
46 35 0.65
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
Found at i:17463088 original size:20 final size:19
Alignment explanation
Indices: 17463040--17463089 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
17463030 TAACAGAAAT
*
17463040 TTATCCGTATCAACAGTAA
1 TTATCCATATCAACAGTAA
* *
17463059 CTTATACATATCAATAGTAA
1 -TTATCCATATCAACAGTAA
17463079 TTCATCCATAT
1 TT-ATCCATAT
17463090 AATTACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (19 bp):
TTATCCATATCAACAGTAA
Found at i:17464424 original size:7 final size:7
Alignment explanation
Indices: 17464400--17464464 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
17464390 GCATCTATCT
17464400 TAAACCC
1 TAAACCC
**
17464407 TAAACAT
1 TAAACCC
17464414 TAAACCC
1 TAAACCC
*
17464421 TAAAATCC
1 T-AAACCC
17464429 TAAACCC
1 TAAACCC
*
17464436 TAAACCA
1 TAAACCC
17464443 TAAACCC
1 TAAACCC
*
17464450 TAAACCA
1 TAAACCC
17464457 T-AACCC
1 TAAACCC
17464463 TA
1 TA
17464465 GTGACTTGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
6 5 0.11
7 35 0.76
8 6 0.13
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:17464463 original size:13 final size:14
Alignment explanation
Indices: 17464400--17464464 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
17464390 GCATCTATCT
17464400 TAAACCCTAAA-CA
1 TAAACCCTAAACCA
17464413 TTAAACCCTAAAATCC-
1 -TAAACCCT-AAA-CCA
17464429 TAAACCCTAAACCA
1 TAAACCCTAAACCA
17464443 TAAACCCTAAACCA
1 TAAACCCTAAACCA
17464457 T-AACCCTA
1 TAAACCCTA
17464465 GTGACTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.19
14 26 0.55
15 11 0.23
17 1 0.02
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:17464650 original size:32 final size:31
Alignment explanation
Indices: 17464608--17464672 Score: 121
Period size: 32 Copynumber: 2.1 Consensus size: 31
17464598 TAAATTCACA
17464608 TAACTAAAGTTCGATTCTATTGATACGAACT
1 TAACTAAAGTTCGATTCTATTGATACGAACT
17464639 TAACATAAAGTTCGATTCTATTGATACGAACT
1 TAAC-TAAAGTTCGATTCTATTGATACGAACT
17464671 TA
1 TA
17464673 CCTGGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (31 bp):
TAACTAAAGTTCGATTCTATTGATACGAACT
Found at i:17465609 original size:22 final size:22
Alignment explanation
Indices: 17465584--17465676 Score: 107
Period size: 22 Copynumber: 4.1 Consensus size: 22
17465574 TGCACTAATG
17465584 AACAGAGAGCA-TAGAAGTGCTA
1 AACAGAGAGCACT-GAAGTGCTA
17465606 AACAGAGAGCACTGAAGTGCTAA
1 AACAGAGAGCACTGAAGTGCT-A
* *
17465629 TAATCAGAGAGCACAGATGTGCTA
1 -AA-CAGAGAGCACTGAAGTGCTA
* *
17465653 ACCAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
17465675 AA
1 AA
17465677 TATCAGAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 38 0.62
23 3 0.05
24 3 0.05
25 17 0.28
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:17465637 original size:47 final size:47
Alignment explanation
Indices: 17465578--17465687 Score: 152
Period size: 47 Copynumber: 2.3 Consensus size: 47
17465568 TTATTATGCA
*
17465578 CTAATGAA-CAGAGAGCATAGAAGTGCTAAACAGAGAGCACTGAAGTG
1 CTAAT-AATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
* * *
17465625 CTAATAATCAGAGAGCACAGATGTGCTAACCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
17465672 CTAA-ATATCAGAGAGC
1 CTAATA-ATCAGAGAGC
17465688 GCGCTAGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 3 0.05
47 54 0.95
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (47 bp):
CTAATAATCAGAGAGCACAGAAGTGCTAAACAGAGAGCACTGAAGTG
Found at i:17465642 original size:25 final size:24
Alignment explanation
Indices: 17465578--17465687 Score: 104
Period size: 22 Copynumber: 4.6 Consensus size: 24
17465568 TTATTATGCA
17465578 CTAATGAACAGAGAGCA-TAGAAGTG
1 CTAAT-AACAGAGAGCACT-GAAGTG
17465603 CT-A-AACAGAGAGCACTGAAGTG
1 CTAATAACAGAGAGCACTGAAGTG
* *
17465625 CTAATAATCAGAGAGCACAGATGTG
1 CTAATAA-CAGAGAGCACTGAAGTG
* *
17465650 CT-A-ACCAGAGAGCACTGACGTG
1 CTAATAACAGAGAGCACTGAAGTG
*
17465672 CTAAATATCAGAGAGC
1 CT-AATAACAGAGAGC
17465688 GCGCTAGAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 36 0.50
23 3 0.04
24 5 0.07
25 28 0.39
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (24 bp):
CTAATAACAGAGAGCACTGAAGTG
Found at i:17466765 original size:5 final size:5
Alignment explanation
Indices: 17466747--17466832 Score: 81
Period size: 5 Copynumber: 17.0 Consensus size: 5
17466737 CTGTTGTTTT
*
17466747 ATATA ATAATA ATATA ATATA ATATA ATATT ATAATA ATATA ATATA ATA-A
1 ATATA AT-ATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
*
17466798 CATACTT AT-TA AT-TA AGTA-A ATATA ATATA ATATA
1 -ATA-TA ATATA ATATA A-TATA ATATA ATATA ATATA
17466833 TATTTTAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
4 9 0.13
5 49 0.71
6 11 0.16
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:17466771 original size:21 final size:22
Alignment explanation
Indices: 17466750--17466797 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
17466740 TTGTTTTATA
17466750 TAATAATAAT-ATAATATAATA
1 TAATAATAATAATAATATAATA
*
17466771 TAAT-ATTATAATAATATAATA
1 TAATAATAATAATAATATAATA
17466792 TAATAA
1 TAATAA
17466798 CATACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 19 0.79
22 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAATAATAATATAATA
Found at i:17466797 original size:8 final size:8
Alignment explanation
Indices: 17466752--17466791 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
17466742 GTTTTATATA
17466752 ATAATAAT
1 ATAATAAT
17466760 ATAATATAAT
1 AT-A-ATAAT
*
17466770 ATAATATT
1 ATAATAAT
17466778 ATAATAAT
1 ATAATAAT
17466786 ATAATA
1 ATAATA
17466792 TAATAACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.68
9 2 0.07
10 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:17467500 original size:11 final size:11
Alignment explanation
Indices: 17467480--17467590 Score: 58
Period size: 11 Copynumber: 10.4 Consensus size: 11
17467470 TAAAAATTAA
17467480 AAAAAGTATTTT
1 AAAAA-TATTTT
17467492 AAAAATATTTT
1 AAAAATATTTT
**
17467503 --AAA-ATTAA
1 AAAAATATTTT
* * *
17467511 AAAAAAAATTA
1 AAAAATATTTT
17467522 AAAAAGTATTTT
1 AAAAA-TATTTT
*
17467534 AAAAAAATTTT
1 AAAAATATTTT
17467545 --AAA-A-TTT
1 AAAAATATTTT
17467552 AAAAA-ATTTT
1 AAAAATATTTT
17467562 AAAAAAAGTATTTT
1 --AAAAA-TATTTT
*
17467576 AAAAGTATTTT
1 AAAAATATTTT
17467587 AAAA
1 AAAA
17467591 TTAAAAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
7 3 0.04
8 4 0.05
9 10 0.13
10 6 0.08
11 29 0.37
12 22 0.28
14 5 0.06
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17467510 original size:31 final size:31
Alignment explanation
Indices: 17467472--17467537 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
17467462 AATTAAAATA
* * *
17467472 AAAATTAAAAAAAGTATTTTAAAAA-TATTTT
1 AAAATTAAAAAAA-AAATTAAAAAAGTATTTT
17467503 AAAATTAAAAAAAAAATTAAAAAAGTATTTT
1 AAAATTAAAAAAAAAATTAAAAAAGTATTTT
17467534 AAAA
1 AAAA
17467538 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAATTAAAAAAAAAATTAAAAAAGTATTTT
Found at i:17467530 original size:42 final size:43
Alignment explanation
Indices: 17467453--17467599 Score: 217
Period size: 42 Copynumber: 3.4 Consensus size: 43
17467443 ACCAAAAATT
*
17467453 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAAAATTAAAAAAAGTATTTTAAAAA
17467497 TATTTTAAAATTAAAAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAAATTAAAAAAAGTATTTTAAAAA
* * ** *
17467539 AATTTTAAAATT-TAAAAAATTTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAAATTAAAAAAAGTATTTTAAAAA
17467581 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
17467600 TAAAAAATAA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
41 8 0.09
42 57 0.61
43 22 0.24
44 6 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (43 bp):
TATTTTAAAATTAAAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:17467554 original size:31 final size:30
Alignment explanation
Indices: 17467514--17467579 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
17467504 AAATTAAAAA
*
17467514 AAAAATTAAAAAAGTATTTTAAAAAA-ATTTT
1 AAAAATTAAAAAA-T-TTTAAAAAAAGATTTT
*
17467545 AAAATTTAAAAAATTTTAAAAAAAGTATTTT
1 AAAAATTAAAAAATTTTAAAAAAAG-ATTTT
17467576 AAAA
1 AAAA
17467580 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.29
30 1 0.03
31 21 0.68
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTAAAAAATTTTAAAAAAAGATTTT
Found at i:17467836 original size:19 final size:20
Alignment explanation
Indices: 17467812--17467868 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
17467802 TTTTTTTTTA
17467812 TTTTTAAATTTTAAAATA-C
1 TTTTTAAATTTTAAAATATC
*
17467831 TTTTTAAATTTTAAAATATT
1 TTTTTAAATTTTAAAATATC
*
17467851 TTTTTAATTTTTAAAATA
1 TTTTTAAATTTTAAAATA
17467869 AATTTTTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAAATTTTAAAATATC
Found at i:17467874 original size:20 final size:20
Alignment explanation
Indices: 17467811--17467875 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
17467801 CTTTTTTTTT
17467811 ATTTTTAAATTTTAAAAT-A
1 ATTTTTAAATTTTAAAATAA
* *
17467830 CTTTTTAAATTTTAAAATAT
1 ATTTTTAAATTTTAAAATAA
* *
17467850 TTTTTTAATTTTTAAAATAA
1 ATTTTTAAATTTTAAAATAA
17467870 ATTTTT
1 ATTTTT
17467876 GGTATTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTTAAATTTTAAAATAA
Found at i:17473881 original size:59 final size:59
Alignment explanation
Indices: 17473818--17473987 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
17473808 TCAAGTTTGT
*
17473818 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
17473877 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
17473936 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
17473988 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:17474023 original size:22 final size:23
Alignment explanation
Indices: 17473988--17474050 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
17473978 ATTAACAATT
*
17473988 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* *
17474012 ATTAATTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
17474035 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
17474051 ATTTTAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.26
23 18 0.53
24 7 0.21
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:17475007 original size:19 final size:18
Alignment explanation
Indices: 17474972--17475010 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17474962 TGTATTTAGG
* *
17474972 AAAAAGAACCAAATTGAA
1 AAAAAAAACAAAATTGAA
17474990 AAAAAAAACAAAAGTTGAA
1 AAAAAAAACAAAA-TTGAA
17475009 AA
1 AA
17475011 TGGTGAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.72, C:0.08, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAAAACAAAATTGAA
Found at i:17475234 original size:48 final size:48
Alignment explanation
Indices: 17475163--17475260 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
17475153 TTGAATTTAG
17475163 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
1 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
17475211 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
1 AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
17475259 AA
1 AA
17475261 TTTTATAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (48 bp):
AAGGAATTATTAGGTTAATTGGTTTCGAAAACGAGGTATCAAGATCTC
Found at i:17483092 original size:31 final size:31
Alignment explanation
Indices: 17483054--17483132 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 31
17483044 CAAATTTCGT
17483054 TATATATATACATACATACATTTTTATAATA
1 TATATATATACATACATACATTTTTATAATA
* *
17483085 TATATATACACATACAT--ATTTTTATAATT
1 TATATATATACATACATACATTTTTATAATA
* *
17483114 TATTTATATATATACATAC
1 TATATATATACATACATAC
17483133 TTATATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 25 0.61
31 16 0.39
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (31 bp):
TATATATATACATACATACATTTTTATAATA
Found at i:17483139 original size:29 final size:29
Alignment explanation
Indices: 17483053--17483150 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 29
17483043 TCAAATTTCG
17483053 TTATATATATACATACATACATTTTTATAAT
1 TTATATATATACATACATAC--TTTTATAAT
* * *
17483084 ATATATATACACATACATATTTTTATAAT
1 TTATATATATACATACATACTTTTATAAT
* * *
17483113 TTATTTATATATATACATACTTATATATAT
1 TTATATATATACATACATACTTTTATA-AT
*
17483143 TTTTATAT
1 TTATATAT
17483151 TTTATAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
29 30 0.55
30 8 0.15
31 17 0.31
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATATATATACATACATACTTTTATAAT
Found at i:17483177 original size:12 final size:12
Alignment explanation
Indices: 17483160--17483194 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17483150 TTTTATAATT
17483160 TATATACATATC
1 TATATACATATC
*
17483172 TATATATATATC
1 TATATACATATC
*
17483184 TATATGCATAT
1 TATATACATAT
17483195 TTTTTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:17483270 original size:10 final size:10
Alignment explanation
Indices: 17483257--17483291 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
17483247 TATAATTTTT
17483257 TATATACATA
1 TATATACATA
17483267 TATATACATA
1 TATATACATA
17483277 TATATACATA
1 TATATACATA
17483287 TATAT
1 TATAT
17483292 CTTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATACATA
Found at i:17483270 original size:20 final size:20
Alignment explanation
Indices: 17483221--17483301 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
17483211 ATATATATAC
*
17483221 ATACTTATATATATTTTTCTAT
1 ATACATATATATA-TTTT-TAT
*
17483243 ATTC-TATA-AT-TTTTTAT
1 ATACATATATATATTTTTAT
** *
17483260 ATACATATATATACATATAT
1 ATACATATATATATTTTTAT
*
17483280 ATACATATATATCTTTTTAT
1 ATACATATATATATTTTTAT
17483300 AT
1 AT
17483302 TTTTATATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 2 0.04
20 24 0.51
21 4 0.09
22 3 0.06
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATACATATATATATTTTTAT
Found at i:17483355 original size:20 final size:19
Alignment explanation
Indices: 17483299--17483357 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
17483289 TATCTTTTTA
*
17483299 TATTTTTA-TATTTTTATT
1 TATTTTTATTATTATTATT
*
17483317 CATTTTT-TTATTTACTTATT
1 TATTTTTATTA-TTA-TTATT
17483337 TATTTTTATTCATTATTATT
1 TATTTTTATT-ATTATTATT
17483357 T
1 T
17483358 TAAGAGAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.24
19 2 0.06
20 17 0.52
21 5 0.15
22 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTTTTATTATTATTATT
Found at i:17483401 original size:24 final size:23
Alignment explanation
Indices: 17483374--17483418 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
17483364 AATGTTTTAT
*
17483374 TTTTATTTGCTTATAGATTTGTTA
1 TTTTATATGC-TATAGATTTGTTA
* *
17483398 TTTTGTATGCTATTGATTTGT
1 TTTTATATGCTATAGATTTGT
17483419 CCTTTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (23 bp):
TTTTATATGCTATAGATTTGTTA
Found at i:17483778 original size:73 final size:73
Alignment explanation
Indices: 17483668--17483811 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
17483658 TCTTTTCAAA
* * *
17483668 CTCAAGTTTTAAACGATCTCGGGAATTGAGAAGAGATCGTGTCCTAACTTATTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
17483733 TTTTTTTT
66 TTTTTTTT
17483741 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
17483806 TTTTTT
66 TTTTTT
17483812 AAATCCGAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (73 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTTTT
Found at i:17486178 original size:766 final size:766
Alignment explanation
Indices: 17484706--17486243 Score: 3022
Period size: 766 Copynumber: 2.0 Consensus size: 766
17484696 AGATGTGTTC
*
17484706 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTGCGGAGGTCACTTTGGC
1 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
*
17484771 CCTAAACGAACTGCTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
66 CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
17484836 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
131 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
17484901 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
196 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
17484966 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
261 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
17485031 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
326 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
17485096 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
391 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
17485161 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
456 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
17485226 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
521 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
*
17485291 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAGGG
586 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
*
17485356 ACCGCTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
651 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
17485421 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
716 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
17485472 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
1 CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
*
17485537 CCTAAACGGACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
66 CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
17485602 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
131 ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
17485667 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
196 TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
17485732 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
261 TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
17485797 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
326 TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
17485862 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
391 TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
17485927 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
456 CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
17485992 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
521 TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
*
17486057 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAATG
586 AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
17486122 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
651 ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
17486187 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
716 AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
17486238 CAGAAA
1 CAGAAA
17486244 AGGCAAGGAA
Statistics
Matches: 766, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
766 766 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (766 bp):
CAGAAATCGAGGTAACTTCTATCCTTAATTTTTGTCATGCTAAAGCTTACGGAGGTCACTTTGGC
CCTAAACGAACTACTCATAAGGTGTTAGAATGTGGGCTATGTTGGCCCACAATTTTTCGAGACGC
ATATAACTTTTGTAAGTCTTGCGATAGGTGCCAACATACAGGTAACATCACTAAACGAAATCAAA
TGCCCCTTTCCCCGATTCATGTATGCGAAATATTTGATGTATGGGGCATCGATTTCATGGGCCCA
TTTATTCCTTCATTTAGCAATGTATATATATATAATTCTTGCAATAGACTATGTTTCTAAGTGGA
TAGAAACAAAGCCTATTCACAATGATAATGCCAAAATTGCTGCGGAGTTTTTAAAATGAACTATT
TTTTTCGAGGTTGGCACACCTCGAGCCCTAATCAGTGATCGTGGCACCCACTTTTGCAATAAGGT
CATGGAGGCACTGTTGGCAAAATACGGAGTCCACCACCGTATAGCTACGGCTTATCATCCCTAAA
TGAACGGTCAAGCCGAGGTCTCGAACAGGGAAATCAATACTATTTTGGAGAAAACAGTTTGTCCC
AACCAAAAGGATTGGAGCCTTGAGCTAAATAACGCACTTTGGGCCTATCGGACTGCGTATAAAGG
ACCACTTGGCATTACCCCGTATCAACTTATTTTTGGCAAAGCTTGCCACCTTCCGGTCGACTTGG
AACATAAAGCCTATTGGGCCGTTCGACAATGTAACATGGAGTTAAAACCCG
Found at i:17486683 original size:10 final size:10
Alignment explanation
Indices: 17486658--17486695 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17486648 AGGTAACCCA
17486658 ATTTTATTTTT
1 ATTTT-TTTTT
17486669 A-TTTTTTTT
1 ATTTTTTTTT
*
17486678 GTTTTTTTTT
1 ATTTTTTTTT
17486688 ATTTTTTT
1 ATTTTTTT
17486696 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.21
10 18 0.75
11 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:17486692 original size:8 final size:8
Alignment explanation
Indices: 17486659--17486707 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
17486649 GGTAACCCAA
17486659 TTTTATTT
1 TTTTATTT
17486667 TTATT-TTT
1 TT-TTATTT
*
17486675 TTTGTTTTT
1 TTT-TATTT
17486684 TTTTATTT
1 TTTTATTT
17486692 TTTTATTT
1 TTTTATTT
*
17486700 TATTATTT
1 TTTTATTT
17486708 ATTAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 1 0.03
8 27 0.75
9 8 0.22
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:17486711 original size:7 final size:6
Alignment explanation
Indices: 17486659--17486710 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
17486649 GGTAACCCAA
* * *
17486659 TTTTAT TTTTAT TTTTTT TGTTTTT TTTTAT TTTTTT ATTTTAT TATTTAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT -TTTTAT T-TTTAT
17486710 T
1 T
17486711 AATTATTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 22 0.56
7 17 0.44
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:17488032 original size:7 final size:7
Alignment explanation
Indices: 17488020--17488085 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
17488010 TTCCTAAAGC
17488020 ATAATAA
1 ATAATAA
17488027 ATAATAA
1 ATAATAA
17488034 ATAATAA
1 ATAATAA
*
17488041 ATAAATCA
1 AT-AATAA
*
17488049 A-AATCA
1 ATAATAA
17488055 A-AATAA
1 ATAATAA
17488061 ATAA-AA
1 ATAATAA
17488067 A-AA-AA
1 ATAATAA
* *
17488072 AGAAAAA
1 ATAATAA
17488079 ATAATAA
1 ATAATAA
17488086 TTTGGGGACT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.10
6 16 0.31
7 25 0.49
8 5 0.10
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.20
Consensus pattern (7 bp):
ATAATAA
Found at i:17488660 original size:15 final size:15
Alignment explanation
Indices: 17488635--17488669 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17488625 GACTCTATTT
*
17488635 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
17488649 TAATTAATATTAAGA
1 TAATTAATATTAAGA
17488664 TAATTA
1 TAATTA
17488670 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:17493235 original size:5 final size:5
Alignment explanation
Indices: 17493172--17493226 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
17493162 TTTTTATGTT
*
17493172 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
17493221 TTATA T
1 TTATA T
17493227 AAATTAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
4 5 0.11
5 40 0.87
6 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:17503059 original size:24 final size:24
Alignment explanation
Indices: 17503044--17503095 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17503034 AATCAATGTC
17503044 AAATATATTACGCTAATAAATGCT
1 AAATATATTACGCTAATAAATGCT
*** *
17503068 AAATATATTATATTAATAAATACT
1 AAATATATTACGCTAATAAATGCT
17503092 AAAT
1 AAAT
17503096 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTACGCTAATAAATGCT
Found at i:17504272 original size:51 final size:51
Alignment explanation
Indices: 17504212--17504316 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
17504202 CCTGTGTGAA
* * *
17504212 GAGGCTTCAATCTAAAGTTGAATTTCATATAGTCCAAAACATTCATAATTT
1 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
17504263 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
1 GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
17504314 GAG
1 GAG
17504317 TCTATGCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (51 bp):
GAGGCTTCAATCCAAAGTTAAATTTCATATAGTCCAAAACATCCATAATTT
Found at i:17509529 original size:2 final size:2
Alignment explanation
Indices: 17509522--17509555 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17509512 TTCTGATAAA
17509522 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17509556 TGCTGCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17526103 original size:61 final size:61
Alignment explanation
Indices: 17526008--17526129 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
17525998 TTTGAGGAGC
17526008 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
1 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
17526069 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
1 ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
17526130 GTTAAAGGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (61 bp):
ATTACAAAGTCCAAATGGCATTACTCTCCATTGATAATGTCCACTAGGAGTACTAAAGGCT
Found at i:17529599 original size:30 final size:32
Alignment explanation
Indices: 17529539--17529602 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
17529529 CACTTATTTT
17529539 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
17529572 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
17529603 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:17529862 original size:41 final size:41
Alignment explanation
Indices: 17529817--17529972 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
17529807 ACCGGCTCTT
*
17529817 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17529858 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17529899 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17529940 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17529973 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17531508 original size:13 final size:13
Alignment explanation
Indices: 17531490--17531514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17531480 CCATCGAATG
17531490 CACACAAAATAAA
1 CACACAAAATAAA
17531503 CACACAAAATAA
1 CACACAAAATAA
17531515 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:17537196 original size:32 final size:31
Alignment explanation
Indices: 17537158--17537221 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
17537148 ACACTTATTT
17537158 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
17537190 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
17537221 T
1 T
17537222 ACATATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:17537519 original size:42 final size:42
Alignment explanation
Indices: 17537438--17537586 Score: 232
Period size: 41 Copynumber: 3.6 Consensus size: 42
17537428 ACCGGCTCTT
*
17537438 AGCCTGCTAGACTTATAGTCCG-AAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAAATGTGTCACCGGCATTA
17537479 AGCCTGCTAGACTTATAGTCTGAAAATGTGTCACCGGCATTAA
1 AGCCTGCTAGACTTATAGTCTGAAAATGTGTCACCGGCATT-A
17537522 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAA-AATGTGTCACCGGCATTA
* *
17537563 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACTTATAGTCTGAA
17537587 TTATGTCACT
Statistics
Matches: 102, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
41 44 0.43
42 29 0.28
43 26 0.25
44 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
AGCCTGCTAGACTTATAGTCTGAAAATGTGTCACCGGCATTA
Found at i:17539147 original size:13 final size:13
Alignment explanation
Indices: 17539129--17539153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17539119 CCATCGAATG
17539129 CACACAAAATAAA
1 CACACAAAATAAA
17539142 CACACAAAATAA
1 CACACAAAATAA
17539154 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:17539380 original size:15 final size:14
Alignment explanation
Indices: 17539359--17539394 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
17539349 ATAATCCTTA
*
17539359 ATAATTATCTTAAT
1 ATAATTATCCTAAT
17539373 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
17539388 ATAATTA
1 ATAATTA
17539395 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:17546031 original size:18 final size:16
Alignment explanation
Indices: 17546008--17546048 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
17545998 AAAAATTGTG
17546008 ATAATTACACATTTAAA
1 ATAATTACA-ATTTAAA
*
17546025 TATAATTATAATTTAAA
1 -ATAATTACAATTTAAA
17546042 ATAATTA
1 ATAATTA
17546049 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 7 0.32
18 8 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTACAATTTAAA
Found at i:17546047 original size:16 final size:18
Alignment explanation
Indices: 17546008--17546049 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
17545998 AAAAATTGTG
*
17546008 ATAATTACACATTTAAAT
1 ATAATTATACATTTAAAT
17546026 ATAATTATA-ATTTAAA-
1 ATAATTATACATTTAAAT
17546042 ATAATTAT
1 ATAATTAT
17546050 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATTATACATTTAAAT
Found at i:17547367 original size:39 final size:39
Alignment explanation
Indices: 17547249--17547366 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 39
17547239 GCGTTTGGAC
* * * *
17547249 AAAAAACGCCACTAAAAATAAAGCAGTAGCGACGCTTTT
1 AAAAAACGCCGCTAAAAATAAAGCATTAGCGGCGTTTTT
** ** * *
17547288 AGAAAAACGCCGCTAAAGGTCGATCATTTGCGGCGATTTTT
1 A-AAAAACGCCGCTAAAAATAAAGCATTAGCGGCG-TTTTT
17547329 AAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTT
1 AAAAAACGCCGCTAAAAATAAAGCATTAGCGGCGTTTTT
17547367 TGGAAAGCGC
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
38 5 0.08
39 12 0.19
40 40 0.65
41 5 0.08
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATAAAGCATTAGCGGCGTTTTT
Found at i:17547490 original size:41 final size:41
Alignment explanation
Indices: 17547422--17547659 Score: 304
Period size: 41 Copynumber: 5.8 Consensus size: 41
17547412 AGTTTTTTGG
*
17547422 GGTCTTTAGCGGCATTTTCTGAA-AAGCGCCGCTAATGATCA
1 GGTCTTTAGCGGCGTTTT-TGAATAAGCGCCGCTAATGATCA
* * * *
17547463 GGTCTTTAGCGGTGTTTTTGAATAAGCGCCGCCAATGCTCT
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATCA
*
17547504 GGTCTTTAGCGGCATTTTTGAATAAGCGCCGCTAAT-ACTCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGA-TCA
*
17547545 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAGTGATCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATCA
* *
17547586 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTC-
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATCA
**
17547626 -GTACCTTTAGCGGCGTTTTTTGAGGAAGCGCCGC
1 GGT--CTTTAGCGGCG-TTTTTGAATAAGCGCCGC
17547660 AAAAACATTT
Statistics
Matches: 173, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 4 0.02
41 151 0.87
42 16 0.09
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGATCA
Found at i:17547584 original size:123 final size:123
Alignment explanation
Indices: 17547422--17547659 Score: 347
Period size: 123 Copynumber: 1.9 Consensus size: 123
17547412 AGTTTTTTGG
*
17547422 GGTCTTTAGCGGCATTTTCTGAAAAGCGCCGCTAATGATCAGGTCTTTAGCGGTGTTTTTGAATA
1 GGTCTTTAGCGGCATTTTCTGAAAAGCGCCGCTAATGATCAGGTCTTTAGCGGCGTTTTTGAATA
*
17547487 AGCGCCGCCAATGCTCTGGT-CTTTAGCGGC-ATTTTTGAATAAGCGCCGCTAATACTCA
66 AGCGCCGCCAATGCTC--GTACTTTAGCGGCGATTTTTGAAGAAGCGCCGCTAATACTCA
* * *
17547545 GGTCTTTAGCGGCGTTTT-TGAATAAGCGCCGCTAGTGATCAGGTCTTTAGCGGCGTTTTTTAAT
1 GGTCTTTAGCGGCATTTTCTGAA-AAGCGCCGCTAATGATCAGGTCTTTAGCGGCGTTTTTGAAT
* * *
17547609 AAGCGCCGCTAATGCTCGTACCTTTAGCGGCGTTTTTTGAGGAAGCGCCGC
65 AAGCGCCGCCAATGCTCGTA-CTTTAGCGGCGATTTTTGAAGAAGCGCCGC
17547660 AAAAACATTT
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
121 2 0.02
122 4 0.04
123 81 0.79
124 16 0.16
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (123 bp):
GGTCTTTAGCGGCATTTTCTGAAAAGCGCCGCTAATGATCAGGTCTTTAGCGGCGTTTTTGAATA
AGCGCCGCCAATGCTCGTACTTTAGCGGCGATTTTTGAAGAAGCGCCGCTAATACTCA
Found at i:17548135 original size:20 final size:20
Alignment explanation
Indices: 17548100--17548138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17548090 TAAGGTTTAT
**
17548100 TTAGGGGTTAGGGGTTAGAG
1 TTAGGGGTTAAAGGTTAGAG
17548120 TTAGGGGTTAAAGGTTAGA
1 TTAGGGGTTAAAGGTTAGA
17548139 AGTTTAGGGT
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:0.26, C:0.00, G:0.44, T:0.31
Consensus pattern (20 bp):
TTAGGGGTTAAAGGTTAGAG
Found at i:17548250 original size:14 final size:13
Alignment explanation
Indices: 17548225--17548259 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
17548215 ATTAAATAAT
17548225 GTTTAGGGGTTAGG
1 GTTTA-GGGTTAGG
17548239 GATTTAGGGTTAGG
1 G-TTTAGGGTTAGG
17548253 GTTTAGG
1 GTTTAGG
17548260 ATTAATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (13 bp):
GTTTAGGGTTAGG
Found at i:17548317 original size:81 final size:81
Alignment explanation
Indices: 17548181--17548407 Score: 278
Period size: 82 Copynumber: 2.8 Consensus size: 81
17548171 GAATTTAGGG
* * * *
17548181 TTTAGACTAATTAATATATTTTATATTATATAATATTAAATAATGTTTAGGGGTTAGGGATTTAG
1 TTTAGATTAATTAGTGTTTTTTA-ATT-TAT-ATATTAAATAATGTTTAGGGGTTAGGGA-TTAG
* *
17548246 GGTTAGGGTTTA-GGATTA-A
62 GGGTAGAG-TTAGGGATTAGA
* *
17548265 TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGTGATTCGGGGT
1 TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAGGGGT
* *
17548330 CGAGTTAGGGTTTAGGA
66 AGAGTTAGGGATTA-GA
* *
17548347 TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGTTAGGGGTTAG
1 TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAG
17548408 TGATTTGGGG
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
79 3 0.02
80 13 0.10
81 27 0.21
82 61 0.48
83 3 0.02
84 19 0.15
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (81 bp):
TTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAGGGGT
AGAGTTAGGGATTAGA
Found at i:17548375 original size:82 final size:82
Alignment explanation
Indices: 17548174--17548444 Score: 305
Period size: 89 Copynumber: 3.2 Consensus size: 82
17548164 TAGGTTAGAA
* * * * * *
17548174 TTTAGGGTTTAGACTAATTAATATATTTTATATTATATAATATTAAATAATGTTTAGGGGTTAGG
1 TTTAGGATTTAGATTAATTAGTGTTTTTTA-ATT-TAT-ATATTAAATAATGTTTAGGGGTTAGT
* * *
17548239 GATTTAGGGTTAGGGTTTA-GG
63 GA-TTAGGGGTCGAG-TTAGGG
*
17548260 ATTA--ATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGTGAT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGTGAT
*
17548323 TCGGGGTCGAGTTAGGG
66 TAGGGGTCGAGTTAGGG
17548340 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGAGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATG--T-----TTAGGGGT
*
17548405 TAGTGATTTGGGGTCGAGTTAGGG
59 TAGTGATTAGGGGTCGAGTTAGGG
17548429 TTTAGGATTTAGATTA
1 TTTAGGATTTAGATTA
17548445 TGTAACACCC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
79 3 0.02
80 13 0.08
81 27 0.17
82 46 0.28
83 3 0.02
84 20 0.12
86 3 0.02
89 47 0.29
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.45
Consensus pattern (82 bp):
TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGTGAT
TAGGGGTCGAGTTAGGG
Found at i:17550864 original size:21 final size:21
Alignment explanation
Indices: 17550840--17550882 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17550830 AAATCCCAAA
17550840 TTTTCTTCCTTTCCTTCCCTT
1 TTTTCTTCCTTTCCTTCCCTT
* * * *
17550861 TTTTTTTCTTTTTCTTTCCTT
1 TTTTCTTCCTTTCCTTCCCTT
17550882 T
1 T
17550883 CCTTCTTTCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTTCCTTTCCTTCCCTT
Found at i:17551674 original size:15 final size:15
Alignment explanation
Indices: 17551654--17551685 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17551644 TTTAGGGGTA
*
17551654 GGTGTTTGGGGTTTT
1 GGTGTTTGGAGTTTT
17551669 GGTGTTTGGAGTTTT
1 GGTGTTTGGAGTTTT
17551684 GG
1 GG
17551686 GTTAAGGGTT
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:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (15 bp):
GGTGTTTGGAGTTTT
Found at i:17551898 original size:21 final size:20
Alignment explanation
Indices: 17551859--17551902 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
17551849 GGACAGGACC
17551859 AAAATATAAGAAAAAATAAA
1 AAAATATAAGAAAAAATAAA
17551879 AAAATATAA-AAAGGAAATAAA
1 AAAATATAAGAAA--AAATAAA
17551900 AAA
1 AAA
17551903 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAATATAAGAAAAAATAAA
Found at i:17551933 original size:21 final size:21
Alignment explanation
Indices: 17551909--17551975 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
17551899 AAAACTAAAA
17551909 TTTATAATTTTA-TCAAAAACT
1 TTTATAATTTTACT-AAAAACT
* *
17551930 TTTA-AATATTACTTAAAACT
1 TTTATAATTTTACTAAAAACT
*
17551950 TTAATAATTATTTACTAAAAA-T
1 TTTATAA-T-TTTACTAAAAACT
17551972 TTTA
1 TTTA
17551976 ATGAAAATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 15 0.42
21 7 0.19
22 5 0.14
23 9 0.25
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATAATTTTACTAAAAACT
Done.