Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 48 of 292
Found at i:13536264 original size:18 final size:18
Alignment explanation
Indices: 13536241--13536276 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13536231 GGGATGGTTG
13536241 GAGTTGATAAAAGACTAT
1 GAGTTGATAAAAGACTAT
*
13536259 GAGTTGATAATAGACTAT
1 GAGTTGATAAAAGACTAT
13536277 CACTCAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAT
Found at i:13539191 original size:46 final size:44
Alignment explanation
Indices: 13539044--13539211 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 44
13539034 TTTGTGTGCT
* * *
13539044 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCA-GATG-AAGCC
* * * * *
13539090 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CTCAGATGA-AGCC
*
13539138 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC-AGATG-AAGCC
13539184 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
13539212 GGCTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAGATGAAGCC
Found at i:13542573 original size:44 final size:41
Alignment explanation
Indices: 13542512--13542663 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 41
13542502 ATCTGAGATA
* * * *
13542512 TCGTGTAACACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCT--GATT
* *
13542555 TATGTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATT
* *
13542598 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-CTG-ATT
* *
13542641 ACAG-GTAAGACCAAGTCTGGGAC
1 TC-GTGTAAGACCATGTCTGGGAC
13542664 GTCGGCATTG
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.35
43 27 0.29
44 28 0.30
45 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATT
Found at i:13542615 original size:42 final size:42
Alignment explanation
Indices: 13542501--13542663 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 42
13542491 CGTTGACATT
* * * *
13542501 GATCTGAGATATCGTGTAACACCGTGTCTGGGACACAGGCCTC
1 GATCT-AGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
* * *
13542544 GATTTGAGATTTATGTGTAAGACCATGTCTGGGACATAGGCATC
1 GATCT-AGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATC
* *
13542588 GTATCT-GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATC
1 G-ATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
* *
13542630 GATACT-GAATTACAG-GTAAGACCAAGTCTGGGAC
1 GAT-CTAG-ATTTC-GTGTAAGACCATGTCTGGGAC
13542664 GTCGGCATTG
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.32
43 36 0.36
44 28 0.28
45 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (42 bp):
GATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
Found at i:13545085 original size:22 final size:22
Alignment explanation
Indices: 13545028--13545087 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
13545018 ATTTTTATTT
* *
13545028 AAATTTAT-TATAACAATATTTA
1 AAATTTATAT-TAATAATATTAA
13545050 AAATTTATATTAATAATATTAA
1 AAATTTATATTAATAATATTAA
13545072 AATATTTA-ATTAATAA
1 AA-ATTTATATTAATAA
13545088 ACATTATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTTATATTAATAATATTAA
Found at i:13551607 original size:40 final size:40
Alignment explanation
Indices: 13551526--13551609 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
13551516 TGAATCAAAG
13551526 TTAAATGGTTCATGTAACAAAAAGAAAAAAAAAAGAGTTAA
1 TTAAATGGTTCATGTAACAAAAAG-AAAAAAAAAGAGTTAA
*
13551567 TTAATTGGTTCATGTAACCAAAAAG-AAAAAAAAGAGTTAA
1 TTAAATGGTTCATGTAA-CAAAAAGAAAAAAAAAGAGTTAA
13551607 TTA
1 TTA
13551610 TTTCAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
40 18 0.44
41 16 0.39
42 7 0.17
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (40 bp):
TTAAATGGTTCATGTAACAAAAAGAAAAAAAAAGAGTTAA
Found at i:13556044 original size:39 final size:39
Alignment explanation
Indices: 13556001--13556080 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
13555991 ACATGGAGAA
13556001 TGAATTTATTAGTAAAGTTGAGGATAATGCGGCCGTCCG
1 TGAATTTATTAGTAAAGTTGAGGATAATGCGGCCGTCCG
13556040 TGAATTTATTAGTAAAGTTGAGGATAATGCGGCCGTCCG
1 TGAATTTATTAGTAAAGTTGAGGATAATGCGGCCGTCCG
13556079 TG
1 TG
13556081 CATGGTCAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (39 bp):
TGAATTTATTAGTAAAGTTGAGGATAATGCGGCCGTCCG
Found at i:13560038 original size:2 final size:2
Alignment explanation
Indices: 13560031--13560061 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13560021 ATGAATTGTG
13560031 AT AT AT 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 AT AT AT A
13560062 AGTTAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13579076 original size:28 final size:28
Alignment explanation
Indices: 13579010--13579108 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 28
13579000 CAAGATTGGT
* * * *
13579010 ACTAAGTGTGCGGGTTTAAAATTGTACAGC
1 ACTAAGTGTGCGAGTTT--GATTATATAGC
13579040 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATTATATAGC
*
13579068 ACTAAGTGTGCGAG-CTGAATGTATATAGC
1 ACTAAGTGTGCGAGTTTG-AT-TATATAGC
13579097 ACTAAGTGTGCG
1 ACTAAGTGTGCG
13579109 GATTCACTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.39
29 20 0.32
30 16 0.26
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATTATATAGC
Found at i:13579102 original size:29 final size:28
Alignment explanation
Indices: 13579037--13579108 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
13579027 AAAATTGTAC
*
13579037 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
13579065 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
13579094 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13579109 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:13582139 original size:64 final size:64
Alignment explanation
Indices: 13582038--13582163 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
13582028 CTGCATGTAT
* *
13582038 CATTTAGTTAGGAGTATTTGATTCATTTTGATCATAGCACCCTAATTATTTGACATAAGCATCA
1 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCATCA
* *
13582102 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCAT
13582164 GTGCATATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (64 bp):
CATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCACCCTAATTATTTGACATAAGCATCA
Found at i:13582532 original size:180 final size:180
Alignment explanation
Indices: 13582228--13583386 Score: 1552
Period size: 180 Copynumber: 6.5 Consensus size: 180
13582218 ATTGGTAAAG
* ** * ** *
13582228 ATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCCTT-GTAGATGGTGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGAT-CTTCACAAATGGTGAATCTTATCT
* * * * *
13582292 TCATGTATCAGAAATGGAGTAGATTTTACCATCAAACCTTATCTCTCTGAGGTAGCAAGAGAGCA
65 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
*
13582357 GGTTGAAGAATGAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
130 GGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * ** *
13582408 ATTGAAGATTTTATCTTCCTGAAGTTGTAGCAGAGCAGATCTTCGTAGATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* * * * *
13582473 TATGTATCAGTAATGGAGCAGATTTTACCACCAAGCCTTGTCTCTCTAAGGTGGCAAGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* *
13582538 GTTGAAGAATGAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * **
13582588 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTTCGTAAATGGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* *
13582653 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTGTCTCTCTGAGGTGGCAAGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
13582718 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
*
13582768 ATTGAAGATTTTATCTCCCTGAAGTTGCAG-ATGAGCAGATTTTCACAAATGGTGAATCTTATCT
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCA-GAGCAGATCTTCACAAATGGTGAATCTTATCT
* *
13582832 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTGTCTCTCTGAGGTAGCAAGAGAACA
65 CCATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCA
* * *
13582897 AGTTGAATAATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAGA
130 GGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* *
13582948 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAGATAGTGAATCTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* * * * * *
13583013 TATGTATCGGCAATGGAGTAGATTTTACTACCAAGCCTTATCTCTCTGAAGTAGCAGGAGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
13583078 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * * *
13583128 ATTGAAGATTTTATCTCCCTGAAGTCGTAGCGGAGTAGATATTCACAAATGGTGAATCTTATATC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
** * * * *
13583193 CATGTATTGGCAATGGAGCAGATTTTACCTCC-AGCCTCATCTCTCTGAGGTAGTAAGGGAGCAG
66 CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* * *
13583257 GTTGAAGAATGAG-----TCTTCCTGAAGTAGCAAGGAAGTAGACTGAGG
131 GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
* * * * * * ** * * *
13583302 GTTGAGGATCTTATCTCCCCGAAATGGCAGTGGAGC--ATATTGA-AAAT-G-GAATTTTATCTC
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
* *
13583362 CATGTATCGGCAATAGAGCAGATTT
66 CATGTATCAGCAATGGAGCAGATTT
13583387 AATCTCATCT
Statistics
Matches: 891, Mismatches: 85, Indels: 17
0.90 0.09 0.02
Matches are distributed among these distances:
169 33 0.04
170 1 0.00
171 4 0.00
172 6 0.01
174 56 0.06
179 43 0.05
180 747 0.84
181 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (180 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCAGATCTTCACAAATGGTGAATCTTATCTC
CATGTATCAGCAATGGAGCAGATTTTACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
GTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
Found at i:13584152 original size:24 final size:25
Alignment explanation
Indices: 13584106--13584153 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13584096 TGATTTCATT
*
13584106 TTTTTTCTCTTCTGATTTTTTTTCA
1 TTTTTTCTCTTCTGATTTATTTTCA
* *
13584131 TTTTTTCTTTTCT-CTTTATTTTC
1 TTTTTTCTCTTCTGATTTATTTTC
13584154 TTATTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTTTCTCTTCTGATTTATTTTCA
Found at i:13590190 original size:23 final size:24
Alignment explanation
Indices: 13590134--13590192 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
13590124 AAATAAATTA
* *
13590134 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
13590158 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
13590182 TTTTATTACAA
1 TTTTATTACAA
13590193 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:13591099 original size:20 final size:21
Alignment explanation
Indices: 13591076--13591114 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
13591066 AAATTTATTT
13591076 TAATAATT-TTAA-ATTTTAAA
1 TAAT-ATTCTTAATATTTTAAA
13591096 TAATATTCTTAATATTTTA
1 TAATATTCTTAATATTTTA
13591115 TTGAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATTCTTAATATTTTAAA
Found at i:13591153 original size:14 final size:15
Alignment explanation
Indices: 13591134--13591215 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 15
13591124 ATTTTATGTT
13591134 AATATTTAATA-ATA
1 AATATTTAATATATA
13591148 AATATTTATTATAATTTATA
1 AATATTTA--AT-A--TATA
*
13591168 AATATTTAGTA-ATA
1 AATATTTAATATATA
*
13591182 AATATTTTATAGTATA
1 AATATTTAATA-TATA
* *
13591198 AATA-TGAATATTTA
1 AATATTTAATATATA
13591212 AATA
1 AATA
13591216 AAATTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
14 27 0.50
15 4 0.07
16 9 0.17
17 2 0.04
18 1 0.02
20 11 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (15 bp):
AATATTTAATATATA
Found at i:13591174 original size:34 final size:33
Alignment explanation
Indices: 13591134--13591233 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 33
13591124 ATTTTATGTT
*
13591134 AATATTTAATAATAAATATTTATTATAATTTATA
1 AATATTTAATAATAAATATTTATTATAA-ATATA
* *
13591168 AATATTTAGTAATAAATATTTTATAGTATAAATATG
1 AATATTTAATAATAAATA-TTTAT--TATAAATATA
* *
13591204 AATATTTAAATAA-AATTATTTAGTATAAAT
1 AATATTT-AATAATAAATATTTATTATAAAT
13591234 TTTAATTAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
33 7 0.12
34 17 0.30
35 9 0.16
36 14 0.25
37 9 0.16
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (33 bp):
AATATTTAATAATAAATATTTATTATAAATATA
Found at i:13591198 original size:30 final size:30
Alignment explanation
Indices: 13591122--13591202 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 30
13591112 TTATTGAAAT
13591122 ATATTTTAT-GT-T-AATATTTAATAATAA
1 ATATTTTATAGTATAAATATTTAATAATAA
* *
13591149 ATATTTATTATAATTTATAAATATTTAGTAATAA
1 ATA-TT-TTAT-A-GTATAAATATTTAATAATAA
13591183 ATATTTTATAGTATAAATAT
1 ATATTTTATAGTATAAATAT
13591203 GAATATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 3 0.07
28 2 0.05
29 4 0.09
30 9 0.20
31 1 0.02
32 5 0.11
33 3 0.07
34 17 0.39
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
ATATTTTATAGTATAAATATTTAATAATAA
Found at i:13592839 original size:14 final size:14
Alignment explanation
Indices: 13592820--13592849 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13592810 AACACTTCAT
13592820 TTGAACATCTTAAC
1 TTGAACATCTTAAC
*
13592834 TTGAACTTCTTAAC
1 TTGAACATCTTAAC
13592848 TT
1 TT
13592850 ACATAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (14 bp):
TTGAACATCTTAAC
Found at i:13594124 original size:2 final size:2
Alignment explanation
Indices: 13594119--13594174 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
13594109 TTGGGAGACC
*
13594119 AT AT AT A- AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13594160 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
13594175 GGTGAAAGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13595314 original size:94 final size:94
Alignment explanation
Indices: 13595148--13595319 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 94
13595138 AGTCTGCCAG
* * * * ** **
13595148 GACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACATGGGTAGTCCATT
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
* *
13595213 GGGACAGTAAACACGGGATAATCCATCAA
66 AGAACAGTAAACACGGGATAATCCATCAA
* ** *
13595242 GACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATATAAGTAGTCCACC
1 GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
13595307 AGAACAGTAAACA
66 AGAACAGTAAACA
13595320 TGGGGTAGTC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 64 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (94 bp):
GACATTAAACATGGGATTACATATGTAAAACATTAGCTCGACTATGGCAACATAAGTAGTCCACC
AGAACAGTAAACACGGGATAATCCATCAA
Found at i:13595339 original size:94 final size:93
Alignment explanation
Indices: 13595136--13595355 Score: 217
Period size: 94 Copynumber: 2.3 Consensus size: 93
13595126 GGAAACCAAA
* * *
13595136 GTAGTCTGCCAGGACATTAAACATGGGGTTACATGTGTAAGACATTAGCTCGACTATGGCGACAT
1 GTAGTCTGCCA-GACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACAT
** *** *
13595201 GGGTAGTCCATTGGGACAGTAAACACGGG
65 AAGTAGTCCACCAGAACAGTAAACACGGG
* * * * * ** *
13595230 ATAATCCAT-CAAGACATTAAACATGGGATTACATATGTAAAACCTTAGCTCGGTTATGGCAATA
1 GTAGT-C-TGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACA
*
13595294 TAAGTAGTCCACCAGAACAGTAAACATGGG
64 TAAGTAGTCCACCAGAACAGTAAACACGGG
* *
13595324 GTAGTCTGCCGAGACAGTAAACACGGGGTTAC
1 GTAGTCTGCC-AGACATTAAACATGGGGTTAC
13595356 GTGTGGAAGA
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.02
94 91 0.93
95 3 0.03
96 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (93 bp):
GTAGTCTGCCAGACATTAAACATGGGGTTACATATGTAAAACATTAGCTCGACTATGGCAACATA
AGTAGTCCACCAGAACAGTAAACACGGG
Found at i:13603099 original size:26 final size:26
Alignment explanation
Indices: 13603070--13603153 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
13603060 TAAACAAGAA
13603070 TTAAAAAATGAATGTGAAATGGATAT
1 TTAAAAAATGAATGTGAAATGGATAT
* **
13603096 TTAAAAAAAT-AATG-AAAACAAGA-A-
1 TT-AAAAAATGAATGTGAAA-TGGATAT
*
13603120 TTAAAAAATGAATGTGAAATGGATCT
1 TTAAAAAATGAATGTGAAATGGATAT
13603146 TTAAAAAA
1 TTAAAAAA
13603154 AAACTCAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
23 7 0.16
24 8 0.18
25 7 0.16
26 16 0.36
27 7 0.16
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.26
Consensus pattern (26 bp):
TTAAAAAATGAATGTGAAATGGATAT
Found at i:13603133 original size:24 final size:25
Alignment explanation
Indices: 13603061--13603134 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
13603051 AAAAAAAATT
*
13603061 AAACAAGAATTAAAAAATGAATGTG
1 AAACAAGAATTAAAAAATGAATGTA
**
13603086 AAA-TGGATATTTAAAAAAAT-AATG-A
1 AAACAAGA-A-TT-AAAAAATGAATGTA
13603111 AAACAAGAATTAAAAAATGAATGT
1 AAACAAGAATTAAAAAATGAATGT
13603135 GAAATGGATC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
23 7 0.18
24 8 0.21
25 8 0.21
26 8 0.21
27 7 0.18
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.23
Consensus pattern (25 bp):
AAACAAGAATTAAAAAATGAATGTA
Found at i:13604766 original size:9 final size:9
Alignment explanation
Indices: 13604752--13604778 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13604742 CTAAACTGAG
13604752 GATGAGCAT
1 GATGAGCAT
13604761 GATGAGCAT
1 GATGAGCAT
13604770 GATGAGCAT
1 GATGAGCAT
13604779 CTTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (9 bp):
GATGAGCAT
Found at i:13612050 original size:23 final size:23
Alignment explanation
Indices: 13612006--13612050 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13611996 ATCAAGTCAA
*
13612006 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
13612029 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
13612051 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:13617212 original size:11 final size:11
Alignment explanation
Indices: 13617196--13617220 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13617186 TTATATATAC
13617196 TAATAAAATAA
1 TAATAAAATAA
13617207 TAATAAAATAA
1 TAATAAAATAA
13617218 TAA
1 TAA
13617221 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13617524 original size:30 final size:29
Alignment explanation
Indices: 13617490--13617557 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
13617480 CACCCTTAAA
*
13617490 ATATTTTCACTATT-AGCCCTTCAAATTTTT
1 ATATTTACACT-TTAAGCCC-TCAAATTTTT
* *
13617520 ATATTTACACTTTAATCCCTCAAATTTTG
1 ATATTTACACTTTAAGCCCTCAAATTTTT
13617549 AGTATTTAC
1 A-TATTTAC
13617558 TTTTAGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.47
Consensus pattern (29 bp):
ATATTTACACTTTAAGCCCTCAAATTTTT
Found at i:13618504 original size:14 final size:14
Alignment explanation
Indices: 13618485--13618511 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13618475 GAAAAGGCTG
13618485 AAAAGCTTTTACAA
1 AAAAGCTTTTACAA
13618499 AAAAGCTTTTACA
1 AAAAGCTTTTACA
13618512 GGTAAACAAA
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:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAAGCTTTTACAA
Found at i:13623123 original size:39 final size:39
Alignment explanation
Indices: 13623065--13623159 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
13623055 TTTTAAGCAT
* * *
13623065 ATATATCATATTACACATATAATCACGTAACATTCAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
* *
13623104 ATATATCATAATACTCATATAATCACATAACGTTTAAGC
1 ATATATCATAATACTCATATAATCACATAACATTCAAGC
*
13623143 ATATATCACAATACTCA
1 ATATATCATAATACTCA
13623160 AAATCATGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
ATATATCATAATACTCATATAATCACATAACATTCAAGC
Found at i:13626590 original size:28 final size:28
Alignment explanation
Indices: 13626554--13626679 Score: 146
Period size: 28 Copynumber: 4.5 Consensus size: 28
13626544 TCCTGAAGAT
* *
13626554 TCTTGCTTGACAGATAGTCCATGCAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* * * *
13626582 TCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
*
13626610 TCTTGCTTGAGAGATAGTCTATGTAGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
13626638 TCTTGCTTGAAAGATAGTCCATGTGGAC
1 TCTTGCTTGAGAGATAGTCCATGTAGAC
* *
13626666 TATTGCATGA-AGAT
1 TCTTGCTTGAGAGAT
13626680 TCTTACCCAA
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 4 0.05
28 80 0.95
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (28 bp):
TCTTGCTTGAGAGATAGTCCATGTAGAC
Found at i:13626619 original size:56 final size:56
Alignment explanation
Indices: 13626554--13626663 Score: 166
Period size: 56 Copynumber: 2.0 Consensus size: 56
13626544 TCCTGAAGAT
* *
13626554 TCTTGCTTGACAGATAGTCCATGCAGACTCTTACTTGAGAGATAGTCTATGTGGCC
1 TCTTGCTTGACAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
* * * *
13626610 TCTTGCTTGAGAGATAGTCTATGTAGACTCTTGCTTGAAAGATAGTCCATGTGG
1 TCTTGCTTGACAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGG
13626664 ACTATTGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (56 bp):
TCTTGCTTGACAGATAGTCCATGCAGACTCTTACTTGAAAGATAGTCCATGTGGCC
Found at i:13629200 original size:22 final size:22
Alignment explanation
Indices: 13629149--13629205 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13629139 TGCAGGGCTT
*
13629149 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGA
*
13629171 ACCCGCCCGTGTGGTCCAAGGA
1 ACACGCCCGTGTGGTCCAAGGA
* *
13629193 ACATGCCCATGTG
1 ACACGCCCGTGTG
13629206 ACCTTAGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGA
Found at i:13634384 original size:15 final size:14
Alignment explanation
Indices: 13634340--13634389 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
13634330 GTCTCTGTAC
13634340 TATATTTAATTTGG
1 TATATTTAATTTGG
* *
13634354 -ATATGT-ATTTGT
1 TATATTTAATTTGG
13634366 TATATTTCAATTTGG
1 TATATTT-AATTTGG
13634381 TATAATTTA
1 TAT-ATTTA
13634390 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
15 9 0.32
16 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (14 bp):
TATATTTAATTTGG
Found at i:13634760 original size:40 final size:40
Alignment explanation
Indices: 13634705--13634800 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
13634695 CTATTTGTTG
*
13634705 CATATAAATTGTTGAACTATCTATTTTTACTAATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
* * * * *
13634745 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
*
13634785 CATATAAATTACTGAA
1 CATATAAATTATTGAA
13634801 TTGTTGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (40 bp):
CATATAAATTATTGAACTATCTATTTTTACTAATTCTTTA
Found at i:13634811 original size:40 final size:40
Alignment explanation
Indices: 13634705--13634811 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
13634695 CTATTTGTTG
** *
13634705 CATATAAATTGTTGAACTATCT-ATTTTTACTAATTCTTTA
1 CATATAAATTACTGAAGTAT-TGATTTTTACTAATTCTTTA
* * * * *
13634745 TATATAAATTATTGAAGTATTTATTTTTATTGATTCTTTA
1 CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
* *
13634785 CATATAAATTACTGAATTGTTGATTTT
1 CATATAAATTACTGAAGTATTGATTTT
13634812 CAAGCCATCG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (40 bp):
CATATAAATTACTGAAGTATTGATTTTTACTAATTCTTTA
Found at i:13641469 original size:28 final size:29
Alignment explanation
Indices: 13641400--13641501 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
13641390 GACAAGAGTG
*
13641400 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTT-AAATTATACA
* *
13641430 GCACTAAGTGTGCGGGTTT-GATTATATA
1 GCACTAAGTGTGCGGGTTTAAATTATACA
* * * *
13641458 GCACTAAATGTGCGAG-CTGAATGTATACA
1 GCACTAAGTGTGCGGGTTTAAAT-TATACA
13641487 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
13641502 ATTCACTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 22 0.37
29 18 0.30
30 19 0.32
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAATTATACA
Found at i:13649224 original size:30 final size:28
Alignment explanation
Indices: 13649188--13649288 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
13649178 GACAAGAGTG
* *
13649188 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* * *
13649218 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* *
13649246 GCACTAAGTGTGCGAGCTGAATGTATACA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
13649275 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13649289 GATTCACTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 24 0.40
29 19 0.32
30 17 0.28
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:13659132 original size:46 final size:46
Alignment explanation
Indices: 13659065--13659336 Score: 366
Period size: 46 Copynumber: 5.9 Consensus size: 46
13659055 TTTCTGAAAT
13659065 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
*
13659111 GAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** *
13659157 GAAATGTGTAAGACCATGGTTGAAAGATAGTATGGCAACATGATAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * *
13659203 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACGTGACAT
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** * * *
13659249 GAAATGAATAAGTCCATGGTTGAAAGATACCATGACAACATGACA-
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * * *
13659294 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
13659337 TCGAAGATAA
Statistics
Matches: 202, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 201 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
Found at i:13659181 original size:21 final size:21
Alignment explanation
Indices: 13659157--13659227 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
13659147 AACATGATAC
13659157 GAAATGTGTAAGACCATGGTT
1 GAAATGTGTAAGACCATGGTT
* * *
13659178 GAAA-GATAGTATGGCAACATGATAT
1 GAAATG-T-GTA-AG-ACCATGGT-T
*
13659203 GAAATGTGTAAGACTATGGTT
1 GAAATGTGTAAGACCATGGTT
13659224 GAAA
1 GAAA
13659228 GATACCATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 8 0.22
23 2 0.05
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (21 bp):
GAAATGTGTAAGACCATGGTT
Found at i:13661100 original size:17 final size:17
Alignment explanation
Indices: 13661056--13661102 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
13661046 ATTTTATACA
* * *
13661056 ATTTATGAACATTTTAT
1 ATTTATAAATATTTAAT
*
13661073 ATTT-GAAATATTTAAT
1 ATTTATAAATATTTAAT
13661089 ATTTATAAATATTT
1 ATTTATAAATATTT
13661103 TTATATAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATAAATATTTAAT
Found at i:13661670 original size:30 final size:31
Alignment explanation
Indices: 13661598--13661674 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
13661588 ATAAAGTAAT
*
13661598 ATTTAATTCTTAAATTTGATAAATTTTATCA
1 ATTTAATCCTTAAATTTGATAAATTTTATCA
*
13661629 ATTTAATCCTTAAATTT-A-ACAATTTTTTCAA
1 ATTTAATCCTTAAATTTGATA-AATTTTATC-A
*
13661660 ATTTGA-CCTTAAATT
1 ATTTAATCCTTAAATT
13661675 AGATTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 18 0.44
31 22 0.54
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTTAATCCTTAAATTTGATAAATTTTATCA
Found at i:13664119 original size:4 final size:4
Alignment explanation
Indices: 13664110--13664148 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
13664100 ATTAATATAA
13664110 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
13664149 AAAGGGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:13669549 original size:39 final size:39
Alignment explanation
Indices: 13669504--13669604 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
13669494 ATCGTGATCT
* * * *
13669504 GAAGCCCGAAGTCTAGCTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
13669543 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
13669582 GAAGCCCGAACGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
13669605 CCATCAGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:13675402 original size:34 final size:34
Alignment explanation
Indices: 13675364--13675449 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
13675354 ACACAATCAA
13675364 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
* *
13675398 CCATCTAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCATATGAGCTAAT
*
13675432 CCATCCAGCACATCAAAT
1 CCATCCAGCACACCAAAT
13675450 AACACTGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCATATGAGCTAAT
Found at i:13680905 original size:24 final size:24
Alignment explanation
Indices: 13680869--13680918 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
13680859 CAGACACGGG
*
13680869 CTGGGACATGGCCGTGTGTTCTTA
1 CTGGGACACGGCCGTGTGTTCTTA
13680893 CTGGGACACGGCCGTGTGTTCTTA
1 CTGGGACACGGCCGTGTGTTCTTA
13680917 CT
1 CT
13680919 TCAAATGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (24 bp):
CTGGGACACGGCCGTGTGTTCTTA
Found at i:13684651 original size:16 final size:16
Alignment explanation
Indices: 13684607--13684652 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13684597 ATTTATCCAA
*
13684607 TTAT-ATTTAATGATT
1 TTATAATTTAATAATT
*
13684622 TTATAATTTTATAATT
1 TTATAATTTAATAATT
13684638 TTATTAA-TTAATAAT
1 TTA-TAATTTAATAAT
13684653 ATATTATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATAATTTAATAATT
Found at i:13688968 original size:53 final size:53
Alignment explanation
Indices: 13688827--13688977 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
13688817 ATAAGTGTGC
**
13688827 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAACGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAACGTGACT
* * *
13688880 CCATATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAACGTGACT
* *
13688933 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
13688978 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAACGTGACT
Found at i:13693935 original size:149 final size:152
Alignment explanation
Indices: 13693767--13694068 Score: 466
Period size: 153 Copynumber: 2.0 Consensus size: 152
13693757 ATAGTAATGG
* *
13693767 TTATTATTATTTTTAAAATAATTATTAATT-AAA-TT-TTTTTATATTATTATTATATTTCTAGA
1 TTATTATTATTTTTAAAATAATTACTAATTAAAATTTATTTTTATATTATTATTATATGTCTAGA
* * * *
13693829 CATAGATGGGTGTGTTAAAGAATTGATCTATACAAAATTAATTGAGTTTGACGTCACGAATTAAT
66 CACAAATGAGTGAGTTAAAGAATTGATCTATACAAAATTAATTGAGTTTGACGTCACGAATTAAT
*
13693894 TATACACCAAACAGTCTGAATA
131 TAAACACCAAACAGTCTGAATA
*
13693916 TTATTATTATTTTTAAAATAATTACTAATTAAAAATTTATTTTTATATTATTATTATATGTCTGG
1 TTATTATTATTTTTAAAATAATTACTAATT-AAAATTTATTTTTATATTATTATTATATGTCTAG
* * *
13693981 ACACAAATGAGTGAGTTAAAGAATTGATTTATACAAAATTAATTGAGTTTGACGTCACTAGTTAA
65 ACACAAATGAGTGAGTTAAAGAATTGATCTATACAAAATTAATTGAGTTTGACGTCACGAATTAA
*
13694046 TTAAACACCAAACAGTTTGAATA
130 TTAAACACCAAACAGTCTGAATA
13694069 CATCAATTAA
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
149 29 0.21
151 3 0.02
152 2 0.01
153 103 0.75
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (152 bp):
TTATTATTATTTTTAAAATAATTACTAATTAAAATTTATTTTTATATTATTATTATATGTCTAGA
CACAAATGAGTGAGTTAAAGAATTGATCTATACAAAATTAATTGAGTTTGACGTCACGAATTAAT
TAAACACCAAACAGTCTGAATA
Found at i:13701295 original size:2 final size:2
Alignment explanation
Indices: 13701288--13701321 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13701278 TGAATATTAC
13701288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13701322 TTGTATAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13702354 original size:5 final size:6
Alignment explanation
Indices: 13702337--13702361 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13702327 AACCAAAAGC
13702337 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
13702362 GTTTGGTAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:13707101 original size:65 final size:66
Alignment explanation
Indices: 13707019--13707157 Score: 237
Period size: 65 Copynumber: 2.1 Consensus size: 66
13707009 AAGCCAAAAC
13707019 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
13707084 G
66 G
* * *
13707085 ATGTC-GATCAAGAATCACAATCAGTTCTTGCCAGAGATGTAGAAATCGAATGGTGTAGGACTAG
1 ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
13707149 G
66 G
13707150 ATGT-TGAT
1 ATGTCTGAT
13707158 ATTTGTCCAT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 64 0.93
66 5 0.07
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (66 bp):
ATGTCTGATCAAGAATCACAATCAGTTCTTGCCAGAGATGCAGAAATCGAATGATGTAGGAATAG
G
Found at i:13713714 original size:17 final size:17
Alignment explanation
Indices: 13713689--13713730 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
13713679 AAATATATTA
13713689 TTTTAAA-ATTTTTATACT
1 TTTTAAATATTTTTA-A-T
13713707 TTTTAAATATTTTTAAT
1 TTTTAAATATTTTTAAT
13713724 TTTTAAA
1 TTTTAAA
13713731 AATTAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAATATTTTTAAT
Found at i:13727048 original size:43 final size:43
Alignment explanation
Indices: 13726958--13727070 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 43
13726948 TACGGAGGTG
* * * *
13726958 TGATTACATGTAAGACCATGTCTGGGTCATTGGCATTGTATTG
1 TGATTACGTGTAAGATCATGTCTGGGACATTGGCATTGTATTA
13727001 TGATTACGTGTAAGATCATGTCTGGGACATTGGCATCAT-TA-TA
1 TGATTACGTGTAAGATCATGTCTGGGACATTGGCAT--TGTATTA
* *
13727044 TGATTTCGTATAAGACTC-TGTCTGGGA
1 TGATTACGTGTAAGA-TCATGTCTGGGA
13727071 TAGTGGCACT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 56 0.92
44 4 0.07
45 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
TGATTACGTGTAAGATCATGTCTGGGACATTGGCATTGTATTA
Found at i:13728870 original size:17 final size:18
Alignment explanation
Indices: 13728848--13728888 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13728838 GACAATGTGA
*
13728848 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGATGT
*
13728865 TTATGTGTTAATGGATTT
1 TTATGTGTTAATGGATGT
13728883 TTATGT
1 TTATGT
13728889 AAGAAATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (18 bp):
TTATGTGTTAATGGATGT
Found at i:13730010 original size:22 final size:22
Alignment explanation
Indices: 13729978--13730028 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
13729968 TAATTCAAGC
13729978 AATCTTTATTTGTCGCAAATTCA
1 AATC-TTATTTGTCGCAAATTCA
13730001 AATCTTATTTGTCGCAAATTCA
1 AATCTTATTTGTCGCAAATTCA
*
13730023 AGTCTT
1 AATCTT
13730029 TCTGAGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (22 bp):
AATCTTATTTGTCGCAAATTCA
Found at i:13737695 original size:14 final size:14
Alignment explanation
Indices: 13737676--13737704 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13737666 TATGTCATAT
13737676 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
13737690 TTTTATGTTTGAGA
1 TTTTATGTTTGAGA
13737704 T
1 T
13737705 GTGACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGAGA
Found at i:13741926 original size:37 final size:37
Alignment explanation
Indices: 13741885--13741992 Score: 94
Period size: 37 Copynumber: 3.1 Consensus size: 37
13741875 TTACATTAAT
13741885 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
1 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
* *
13741922 CTTTT--TAATAC--AA-CATTT-A-TTAC--A-T-TAAT
1 CTTTTAATAA-ACTTAAGC-TTTAAGTT-CTTAGTACAAA
13741951 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
1 CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
13741988 CTTTT
1 CTTTT
13741993 TTAATACACC
Statistics
Matches: 53, Mismatches: 4, Indels: 28
0.62 0.05 0.33
Matches are distributed among these distances:
29 7 0.13
30 3 0.06
31 4 0.08
32 7 0.13
33 6 0.11
34 7 0.13
35 4 0.08
36 3 0.06
37 12 0.23
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (37 bp):
CTTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAA
Found at i:13741931 original size:66 final size:66
Alignment explanation
Indices: 13741819--13742018 Score: 328
Period size: 66 Copynumber: 3.0 Consensus size: 66
13741809 TTCTTTTTGT
* * * * *
13741819 TTTTAATAAACTTAAGCTTTTAAGTTGTTTGTAGAAACTCTTTAATACAACGTTTATTACATTAA
1 TTTTAATAAACTTAAGC-TTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAA
13741884 TC
65 TC
13741886 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
13741951 C
66 C
*
13741952 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTTAATACACCATTTATTACATTAA
1 TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAAC-TTTTTAATACAACATTTATTACATTAA
13742017 TC
65 TC
13742019 AATGTATTGT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 81 0.64
67 45 0.36
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.45
Consensus pattern (66 bp):
TTTTAATAAACTTAAGCTTTAAGTTCTTAGTACAAACTTTTTAATACAACATTTATTACATTAAT
C
Found at i:13749474 original size:19 final size:19
Alignment explanation
Indices: 13749450--13749489 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13749440 TGAAAATGTG
13749450 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
13749469 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
13749488 TA
1 TA
13749490 TGATGACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:13753504 original size:40 final size:38
Alignment explanation
Indices: 13753457--13753602 Score: 193
Period size: 40 Copynumber: 3.7 Consensus size: 38
13753447 TACTAGCTCA
* *
13753457 AAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAGTACCAGCACG
13753497 AAGCCTGCGGGATTTAACCCGGATATACGTTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATA-G-TACCAGCACG
*
13753537 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATAT--AGTACCAGCACG
* *
13753577 AAGCCTGCAGGATTTAACCTGGATAT
1 AAGCCTGCGGGATTTAACCCGGATAT
13753603 TTAATATATC
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
38 10 0.10
39 6 0.06
40 80 0.82
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAGTACCAGCACG
Found at i:13756275 original size:27 final size:27
Alignment explanation
Indices: 13756245--13756528 Score: 278
Period size: 27 Copynumber: 10.5 Consensus size: 27
13756235 GTACTCCCGA
13756245 TTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACCGTTTTACCCTCAG
* ** *
13756272 TTTATAGAATTACTATTTTACCCTCAA
1 TTTACAGAATTACCGTTTTACCCTCAG
** *
13756299 TTTGTAAAATTACCGTTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCAG
* *
13756325 ATTTATAGAATTACCGTTTTACCCTCGAT
1 -TTTACAGAATTACCGTTTTACCCTC-AG
13756354 TTGTA-A-AATTACCGTTTTACCCTC-G
1 TT-TACAGAATTACCGTTTTACCCTCAG
*
13756379 ATTTACAGAATTTCCGTTTTACCCTCAG
1 -TTTACAGAATTACCGTTTTACCCTCAG
** *
13756407 TTTACAGAATTATTGTTTTACCCT-TG
1 TTTACAGAATTACCGTTTTACCCTCAG
* *
13756433 ATTTACAAAATTACTGTTTTACCCTC-G
1 -TTTACAGAATTACCGTTTTACCCTCAG
* *
13756460 ATTTATAGAATTACCGTTTTACCCTCGAT
1 -TTTACAGAATTACCGTTTTACCCTC-AG
*
13756489 TTGTA-A-AATTACCGTTTTACCCTCAA
1 TT-TACAGAATTACCGTTTTACCCTCAG
13756515 TTTACAGAATTACC
1 TTTACAGAATTACC
13756529 AAAATACCCT
Statistics
Matches: 217, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
25 4 0.02
26 8 0.04
27 194 0.89
28 7 0.03
29 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCAG
Found at i:13756283 original size:54 final size:54
Alignment explanation
Indices: 13756211--13756528 Score: 190
Period size: 54 Copynumber: 5.9 Consensus size: 54
13756201 TACTGAAATG
* * * * *
13756211 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTAC-CCTCAATTTACAAAATTACCGTTTTA
* *** **
13756265 CCCTC-AGTTTATAGAATTACTATTTTACCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTA
**** * **
13756319 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTA
* * **** * * **
13756373 CCCTCGATTTACAGAATTTCCGTTTTACCCTCAGTTTACAGAATTATTGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTA
* * * ***** * * *
13756427 CCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTA
* * **** *
13756481 CCCTCGATTTGTAAAATTACCGTTTTACCCTCAATTTACAGAATTACC
1 CCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACC
13756529 AAAATACCCT
Statistics
Matches: 223, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
53 3 0.01
54 219 0.98
55 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (54 bp):
CCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTACAAAATTACCGTTTTA
Found at i:13756335 original size:81 final size:82
Alignment explanation
Indices: 13756242--13756527 Score: 357
Period size: 81 Copynumber: 3.5 Consensus size: 82
13756232 AAAGTACTCC
* * * * * *
13756242 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTATAGAATTACTATTTTACCCTCAATTTGTAA
1 CGATTTACAGAATTACCGTTTTACCCTCAGATTTACAAAATTACTGTTTTACCCTCGATTTATAG
13756306 AATTACCGTTTTACCCT
66 AATTACCGTTTTACCCT
* ** * *
13756323 CGATTTATAGAATTACCGTTTTACCCTC-GATTTGTAAAATTACCGTTTTACCCTCGATTTACAG
1 CGATTTACAGAATTACCGTTTTACCCTCAGATTTACAAAATTACTGTTTTACCCTCGATTTATAG
*
13756387 AATTTCCGTTTTACCCT
66 AATTACCGTTTTACCCT
** *
13756404 C-AGTTTACAGAATTATTGTTTTACCCT-TGATTTACAAAATTACTGTTTTACCCTCGATTTATA
1 CGA-TTTACAGAATTACCGTTTTACCCTCAGATTTACAAAATTACTGTTTTACCCTCGATTTATA
13756467 GAATTACCGTTTTACCCT
65 GAATTACCGTTTTACCCT
** * *
13756485 CGATTTGTAAAATTACCGTTTTACCCTCA-ATTTACAGAATTAC
1 CGATTTACAGAATTACCGTTTTACCCTCAGATTTACAAAATTAC
13756528 CAAAATACCC
Statistics
Matches: 175, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.01
81 172 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (82 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGATTTACAAAATTACTGTTTTACCCTCGATTTATAG
AATTACCGTTTTACCCT
Found at i:13756536 original size:27 final size:27
Alignment explanation
Indices: 13756506--13756645 Score: 124
Period size: 27 Copynumber: 5.2 Consensus size: 27
13756496 ATTACCGTTT
* * *
13756506 TACCCTCAATTTACAGAATTACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
** *
13756533 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
* *
13756560 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTC-AGTTTATAAAATTACCAAAA
**
13756587 TACCCTTTGTTTATAAAATTACCAAAA
1 TACCCTCAGTTTATAAAATTACCAAAA
* *
13756614 TACCCAT-GGTTTGA-AAAATTACTAAAA
1 TACCC-TCAGTTT-ATAAAATTACCAAAA
13756641 TACCC
1 TACCC
13756646 CTGTAGGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
27 90 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCAGTTTATAAAATTACCAAAA
Found at i:13756551 original size:54 final size:54
Alignment explanation
Indices: 13756244--13756528 Score: 347
Period size: 54 Copynumber: 5.3 Consensus size: 54
13756234 AGTACTCCCG
* * **
13756244 ATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTATTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACCGTTTTACCCTCA
* * * *
13756298 ATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCA
* * * * *
13756352 ATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTTCCGTTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCA
* * ** * * * *
13756406 GTTTACAGAATTATTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCA
*
13756460 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCA
*
13756514 ATTTACAGAATTACC
1 ATTTATAGAATTACC
13756529 AAAATACCCT
Statistics
Matches: 200, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 199 1.00
55 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
ATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCA
Found at i:13756564 original size:54 final size:54
Alignment explanation
Indices: 13756508--13756645 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 54
13756498 TACCGTTTTA
*
13756508 CCCTCAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
1 CCCT-AATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** * * *
13756563 CCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATAC
1 CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
* ** *
13756617 CCATGGTTTGA-AAAATTACTAAAATACCC
1 CCCTAATTT-ACAAAATTACCAAAATACCC
13756646 CTGTAGGGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
54 68 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
Found at i:13756658 original size:27 final size:27
Alignment explanation
Indices: 13756628--13756689 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
13756618 CATGGTTTGA
13756628 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
13756655 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
13756682 AAAATTAC
1 AAAATTAC
13756690 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:13756658 original size:54 final size:54
Alignment explanation
Indices: 13756522--13756672 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
13756512 CAATTTACAG
* ** * * *
13756522 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATAGTTTGAAA
* ** *
13756576 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
* **
13756630 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
13756673 TTGTGGGGTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 80 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATAGTTTGAAA
Found at i:13756674 original size:81 final size:81
Alignment explanation
Indices: 13756522--13756674 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
13756512 CAATTTACAG
* **
13756522 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
13756587 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
13756603 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTAGT-GGGTAAAATTACTAA
13756666 AATACCCTT
64 AATACCCTT
13756675 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTAGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:13757342 original size:28 final size:28
Alignment explanation
Indices: 13757310--13757368 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13757300 GCGTAGATCA
13757310 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
13757338 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
13757366 CGA
1 CGA
13757369 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:13764668 original size:40 final size:38
Alignment explanation
Indices: 13764614--13764727 Score: 111
Period size: 40 Copynumber: 2.9 Consensus size: 38
13764604 CGAATCCAGT
*
13764614 TACTAGCTCAAAGCCTGCGGAACTTTAAGCCCGGATTTAG
1 TACTAGCACAAAGCCTGCGGAA-TTTAA-CCCGGATTTAG
* * * *
13764654 TACTAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACTAGCACAAAGCCTGCGGAATTTAACCCGGAT-T-TAG
* * * *
13764694 TACCAGCACGAAGCTTGCGGGATTTAACCCGGAT
1 TACTAGCACAAAGCCTGCGGAATTTAACCCGGAT
13764728 ATACATTACC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 7 0.11
39 6 0.09
40 51 0.80
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
TACTAGCACAAAGCCTGCGGAATTTAACCCGGATTTAG
Found at i:13764728 original size:40 final size:40
Alignment explanation
Indices: 13764658--13764769 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
13764648 ATTTAGTACT
* *
13764658 AGCACTAAGCCTGCGGGATTTAACCCGGATATACATTACC
1 AGCACGAAGCTTGCGGGATTTAACCCGGATATACATTACC
13764698 AGCACGAAGCTTGCGGGATTTAACCCGGATATACATTACC
1 AGCACGAAGCTTGCGGGATTTAACCCGGATATACATTACC
*
13764738 AGCACGAAGCTTGCGGGATTTAACCTGGATAT
1 AGCACGAAGCTTGCGGGATTTAACCCGGATAT
13764770 TTAATATATC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCACGAAGCTTGCGGGATTTAACCCGGATATACATTACC
Found at i:13767158 original size:68 final size:68
Alignment explanation
Indices: 13767086--13767237 Score: 168
Period size: 67 Copynumber: 2.2 Consensus size: 68
13767076 CATCATGTGT
* * * *
13767086 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
13767149 TGTAG
64 TGTAG
* * * * *
13767154 ACAAGAGAGCTACG-G-GATATATGTAGTTAGGTTGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
13767217 GTAG
65 GTAG
13767221 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
13767238 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 22 0.31
65 3 0.04
66 3 0.04
67 27 0.39
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:13771830 original size:68 final size:64
Alignment explanation
Indices: 13771713--13771965 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 64
13771703 ATACATATGG
* ** * * *
13771713 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
13771776 ATTA
62 A-TA
* *
13771780 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
13771845 TATGTAGCTAGGTTGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
13771910 TA
63 TA
* * * *
13771912 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
13771966 CAAAATTATG
Statistics
Matches: 152, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 21 0.14
67 33 0.22
68 50 0.33
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:13777262 original size:12 final size:11
Alignment explanation
Indices: 13777229--13777264 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13777219 TATATATATT
*
13777229 TAAAAATTATA
1 TAAAAATAATA
13777240 TAAAAATAATA
1 TAAAAATAATA
13777251 TAAAAATGAATA
1 TAAAAAT-AATA
13777263 TA
1 TA
13777265 GGCGGGCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:13779190 original size:16 final size:16
Alignment explanation
Indices: 13779169--13779203 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13779159 CATGTAAGAC
13779169 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
13779185 CATGTCTGGGACATGG
1 CATGTCTGGGACATGG
13779201 CAT
1 CAT
13779204 TGGCATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (16 bp):
CATGTCTGGGACATGG
Found at i:13780455 original size:8 final size:9
Alignment explanation
Indices: 13780437--13780473 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
13780427 TCTCTTTACT
13780437 TTAGTTTAA
1 TTAGTTTAA
13780446 TTAG-TTAA
1 TTAGTTTAA
13780454 TTAGTTTAGA
1 TTAGTTTA-A
13780464 TTAGTTTAA
1 TTAGTTTAA
13780473 T
1 T
13780474 AAACAACCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (9 bp):
TTAGTTTAA
Found at i:13784600 original size:26 final size:27
Alignment explanation
Indices: 13784570--13784627 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
13784560 AAAGGCATTC
*
13784570 CTTTCATACTCTCCCA-AAAAGGTTTT
1 CTTTCATACTATCCCACAAAAGGTTTT
* * *
13784596 CTTTCATATTATGCCACAAAGGGTTTT
1 CTTTCATACTATCCCACAAAAGGTTTT
13784623 CTTTC
1 CTTTC
13784628 CAAACGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (27 bp):
CTTTCATACTATCCCACAAAAGGTTTT
Found at i:13787295 original size:315 final size:315
Alignment explanation
Indices: 13786722--13787356 Score: 1234
Period size: 315 Copynumber: 2.0 Consensus size: 315
13786712 GGTTGTGCCA
13786722 TGAATGATTTTTGAATGTTTTTGATGTTTAATGATTGATTATGAGTCCTTGTTGATAAATGAACA
1 TGAATGATTTTTGAATGTTTTTGATGTTTAATGATTGATTATGAGTCCTTGTTGATAAATGAACA
13786787 AGTTTTGTAAAATGATTTTTAATGAAAATGACATTTAGGGACTTATTTGTAAAAGTAGTAAAATT
66 AGTTTTGTAAAATGATTTTTAATGAAAATGACATTTAGGGACTTATTTGTAAAAGTAGTAAAATT
13786852 TAAAATTAAATTCATGAAATGATGGTTTGTATGAGTTGATATAGGTCCTTAATGAAATCAATTAG
131 TAAAATTAAATTCATGAAATGATGGTTTGTATGAGTTGATATAGGTCCTTAATGAAATCAATTAG
* * *
13786917 CTTGAATGATGGATGAAAATGTTTAAATTTCAATTTATGAGCTTAAGGACTAAATTTTGAAAAGT
196 CTTGAATGATAGATGAAAATGTTTAAATTTCAATTCATGAGCTTAAGGACTAAATTCTGAAAAGT
13786982 TAAAATGTTAGGGGTAAAATAGTAATTTTTCAAAAATACGAAATATGGGCTGAAT
261 TAAAATGTTAGGGGTAAAATAGTAATTTTTCAAAAATACGAAATATGGGCTGAAT
*
13787037 TGAATGATTTTTGAATGTTTTTGATGTTTAATGATTGATTATGAGTCCTTGTTGATAAATGATCA
1 TGAATGATTTTTGAATGTTTTTGATGTTTAATGATTGATTATGAGTCCTTGTTGATAAATGAACA
13787102 AGTTTTGTAAAATGATTTTTAATGAAAATGACATTTAGGGACTTATTTGTAAAAGTAGTAAAATT
66 AGTTTTGTAAAATGATTTTTAATGAAAATGACATTTAGGGACTTATTTGTAAAAGTAGTAAAATT
13787167 TAAAATTAAATTCATGAAATGATGGTTTGTATGAGTTGATATAGGTCCTTAATGAAATCAATTAG
131 TAAAATTAAATTCATGAAATGATGGTTTGTATGAGTTGATATAGGTCCTTAATGAAATCAATTAG
13787232 CTTGAATGATAGATGAAAATGTTTAAATTTCAATTCATGAGCTTAAGGACTAAATTCTGAAAAGT
196 CTTGAATGATAGATGAAAATGTTTAAATTTCAATTCATGAGCTTAAGGACTAAATTCTGAAAAGT
13787297 TAAAATGTTAGGGGTAAAATAGTAATTTTTCAAAAATACGAAATATGGGCTGAAT
261 TAAAATGTTAGGGGTAAAATAGTAATTTTTCAAAAATACGAAATATGGGCTGAAT
13787352 TGAAT
1 TGAAT
13787357 AATAGAAGTA
Statistics
Matches: 316, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
315 316 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (315 bp):
TGAATGATTTTTGAATGTTTTTGATGTTTAATGATTGATTATGAGTCCTTGTTGATAAATGAACA
AGTTTTGTAAAATGATTTTTAATGAAAATGACATTTAGGGACTTATTTGTAAAAGTAGTAAAATT
TAAAATTAAATTCATGAAATGATGGTTTGTATGAGTTGATATAGGTCCTTAATGAAATCAATTAG
CTTGAATGATAGATGAAAATGTTTAAATTTCAATTCATGAGCTTAAGGACTAAATTCTGAAAAGT
TAAAATGTTAGGGGTAAAATAGTAATTTTTCAAAAATACGAAATATGGGCTGAAT
Found at i:13806965 original size:26 final size:26
Alignment explanation
Indices: 13806914--13806984 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
13806904 CCGAAAAATA
13806914 TAATATAATTATAAAATAATTAAATTG
1 TAAT-TAATTATAAAATAATTAAATTG
* * * *
13806941 TACTTAATTATTAACAT-ATTGAATTT
1 TAATTAATTA-TAAAATAATTAAATTG
* *
13806967 TAATTAATTTTATAATAA
1 TAATTAATTATAAAATAA
13806985 ATTTTCATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 4 0.12
26 22 0.65
27 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
TAATTAATTATAAAATAATTAAATTG
Found at i:13813714 original size:93 final size:93
Alignment explanation
Indices: 13813607--13813779 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
13813597 CGCCCATAAG
* * * *
13813607 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
13813672 ACGA-TCTCGGATGCCTAGTTACATCTCA
66 ACGAGT-TCGGATGCCTAGTTACATCTCA
*
13813700 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
13813765 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
13813780 CAAATATCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:13813775 original size:46 final size:46
Alignment explanation
Indices: 13813600--13813775 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
13813590 TGTAACCCGC
* * * *
13813600 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
* * *
13813646 CCATAAGTGAACTTGGACTCAACTCAACGA-TCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGT-TCGGACG-CTAG---CAT
* *
13813696 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
*
13813739 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13813776 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.61
47 29 0.27
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTAGCAT
Found at i:13816198 original size:30 final size:30
Alignment explanation
Indices: 13816154--13816242 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
13816144 CAAAGATAAC
*
13816154 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
13816183 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
13816213 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
13816243 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:13816202 original size:15 final size:14
Alignment explanation
Indices: 13816154--13816236 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
13816144 CAAAGATAAC
*
13816154 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
13816168 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
13816183 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
13816198 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
13816213 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
13816228 AAGAAACCC
1 AAGAAACCC
13816237 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:13816242 original size:15 final size:15
Alignment explanation
Indices: 13816165--13816242 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
13816155 AGAAAACCGA
13816165 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
13816180 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
13816194 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13816209 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13816225 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13816240 ATA
1 ATA
13816243 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13819274 original size:93 final size:93
Alignment explanation
Indices: 13819162--13819333 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13819152 GCCCATAAGT
* *
13819162 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13819227 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
13819255 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13819320 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
13819334 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:13819329 original size:46 final size:46
Alignment explanation
Indices: 13819154--13819329 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
13819144 TGTAACCCGC
* *
13819154 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
13819200 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
13819250 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
13819293 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13819330 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:13824125 original size:50 final size:50
Alignment explanation
Indices: 13824007--13824282 Score: 448
Period size: 50 Copynumber: 5.5 Consensus size: 50
13823997 CCATGGCAAC
*
13824007 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGAC-AATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
13824056 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
13824106 AAGTGATAAGTGATAGCTTCGGCTACACTTA-CTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATC-TGATCAAGGACAAATGA
13824156 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
13824206 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
13824257 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
13824283 CTGATCAATG
Statistics
Matches: 212, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
49 44 0.21
50 144 0.68
51 24 0.11
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:13824300 original size:31 final size:31
Alignment explanation
Indices: 13824262--13824320 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
13824252 ATGGCAAGTA
13824262 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
13824293 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
13824321 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:13824328 original size:46 final size:46
Alignment explanation
Indices: 13824275--13824366 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
13824265 AGTGGTAGCT
*
13824275 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
* * *
13824321 TCGGCTACTTGATTAGTGAAAAATGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
13824367 GTGAATAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
Found at i:13824359 original size:31 final size:31
Alignment explanation
Indices: 13824321--13824390 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
13824311 TACCTGATCA
* * *
13824321 TCGGCTACTTGATTAGTGAAAAATGGTAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
* *
13824352 TCGGCTACCTGATCAGTGAATAGTGATAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
13824383 TCGGCTAC
1 TCGGCTAC
13824391 AAGTGACAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (31 bp):
TCGGCTACCTGATCAGTGAAAAATGATAGCT
Found at i:13830993 original size:15 final size:15
Alignment explanation
Indices: 13830973--13831002 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13830963 CCAATATCTA
13830973 TATAAAGCCCTCACT
1 TATAAAGCCCTCACT
13830988 TATAAAGCCCTCACT
1 TATAAAGCCCTCACT
13831003 ATTCATCACC
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:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
TATAAAGCCCTCACT
Found at i:13838874 original size:43 final size:44
Alignment explanation
Indices: 13838826--13838922 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
13838816 ATCACATCAG
* *
13838826 GGTCTTACATGA-AAT-TGATTATCAAAGCCAATGTCCCAGACAT
1 GGTCTTACATGATAATCTCAATA-CAAAGCCAATGTCCCAGACAT
* * * *
13838869 GGTCTTACA-CATAATCTCAATACAATGCTAATGTCCCCGACAT
1 GGTCTTACATGATAATCTCAATACAAAGCCAATGTCCCAGACAT
13838912 GGTCTTACATG
1 GGTCTTACATG
13838923 TATTCACATC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 39 0.89
44 4 0.09
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
GGTCTTACATGATAATCTCAATACAAAGCCAATGTCCCAGACAT
Found at i:13840469 original size:52 final size:52
Alignment explanation
Indices: 13840391--13840495 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
13840381 TTATCCTTAA
13840391 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
1 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
13840443 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
1 TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
13840495 T
1 T
13840496 CCAAAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (52 bp):
TTTTGCTATCATTCTGCACTAATATCGCTGCATTAGTTAATTCTAGATTGTG
Found at i:13846140 original size:17 final size:17
Alignment explanation
Indices: 13846120--13846153 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13846110 AACACCTCTA
13846120 ATACCTCTCAAAAACCT
1 ATACCTCTCAAAAACCT
*
13846137 ATACCTCTCGAAAACCT
1 ATACCTCTCAAAAACCT
13846154 CTTTTCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.35, G:0.03, T:0.24
Consensus pattern (17 bp):
ATACCTCTCAAAAACCT
Found at i:13852454 original size:28 final size:28
Alignment explanation
Indices: 13852422--13852476 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
13852412 AAAAGAAATT
13852422 AGCAAGGCTACACAAGAATTCACTATGA
1 AGCAAGGCTACACAAGAATTCACTATGA
13852450 AGCAAGGCTACACAAGAATTCACTATG
1 AGCAAGGCTACACAAGAATTCACTATG
13852477 GCAAATGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (28 bp):
AGCAAGGCTACACAAGAATTCACTATGA
Found at i:13857606 original size:27 final size:28
Alignment explanation
Indices: 13857588--13857684 Score: 171
Period size: 27 Copynumber: 3.5 Consensus size: 28
13857578 ATAGTGAGTC
13857588 CGCACACTTAGTGCTATATAATCA-ACT
1 CGCACACTTAGTGCTATATAATCAGACT
13857615 CGCACACTTAGTGCTATATAATCAG-CT
1 CGCACACTTAGTGCTATATAATCAGACT
*
13857642 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAGACT
13857670 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13857685 GTACAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 50 0.75
28 17 0.25
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAGACT
Found at i:13858170 original size:2 final size:2
Alignment explanation
Indices: 13858163--13858190 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13858153 CATACTTATG
13858163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13858191 CACATAACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13864867 original size:27 final size:28
Alignment explanation
Indices: 13864849--13864945 Score: 171
Period size: 27 Copynumber: 3.5 Consensus size: 28
13864839 ATAGTGAGTC
13864849 CGCACACTTAGTGCTATATAATCA-ACT
1 CGCACACTTAGTGCTATATAATCAGACT
13864876 CGCACACTTAGTGCTATATAATCAG-CT
1 CGCACACTTAGTGCTATATAATCAGACT
*
13864903 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAGACT
13864931 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13864946 GTACAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 50 0.75
28 17 0.25
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAGACT
Found at i:13871206 original size:20 final size:21
Alignment explanation
Indices: 13871181--13871219 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13871171 CCGAATGTAC
13871181 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
13871201 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
13871220 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:13871539 original size:43 final size:42
Alignment explanation
Indices: 13871423--13871542 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 42
13871413 CGTACATGCT
* *
13871423 ATCACATATCGATGCCGTTGTCCCAGACAAGGTCTTACACGA
1 ATCACATATCGATGCCGATGTCCCAGACATGGTCTTACACGA
* * *
13871465 ATCAAATA-CGATGCTGATGTCCCAGATATGGTCTTACACGTA
1 ATCACATATCGATGCCGATGTCCCAGACATGGTCTTACACG-A
* * * *
13871507 ATCACATATCGATGCCAACGTCTCATACATGGTCTT
1 ATCACATATCGATGCCGATGTCCCAGACATGGTCTT
13871543 GCAAAAGAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 28 0.44
42 15 0.23
43 21 0.33
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATCACATATCGATGCCGATGTCCCAGACATGGTCTTACACGA
Found at i:13873859 original size:28 final size:28
Alignment explanation
Indices: 13873828--13873904 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
13873818 TGAATTATCA
13873828 AGGATGGCACTAAGTGTGCGACAAATCC
1 AGGATGGCACTAAGTGTGCGACAAATCC
* * *
13873856 AGGATGGCACTTAGTGTGCGATACATCC
1 AGGATGGCACTAAGTGTGCGACAAATCC
* * * *
13873884 ATGAAGGCATTGAGTGTGCGA
1 AGGATGGCACTAAGTGTGCGA
13873905 AATTTCAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (28 bp):
AGGATGGCACTAAGTGTGCGACAAATCC
Found at i:13875312 original size:14 final size:15
Alignment explanation
Indices: 13875295--13875323 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13875285 TCACAAAAAT
13875295 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13875309 TTCACACATAATAAA
1 TTCACACATAATAAA
13875324 CATTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13879393 original size:71 final size:71
Alignment explanation
Indices: 13879305--13879468 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
13879295 GAGATGTATC
13879305 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
13879370 AGGACA
66 AGGACA
*
13879376 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
13879441 CGGACA
66 AGGACA
13879447 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
13879469 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:13881698 original size:17 final size:17
Alignment explanation
Indices: 13881676--13881731 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
13881666 GCCTTTAGAG
13881676 TTAGCTAATTGCTTGTA
1 TTAGCTAATTGCTTGTA
*
13881693 TTAGCTAATTTCTTGTA
1 TTAGCTAATTGCTTGTA
13881710 TTAGCTAATTGCTTGTA
1 TTAGCTAATTGCTTGTA
13881727 CTTAG
1 -TTAG
13881732 GTACATTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 32 0.89
18 4 0.11
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (17 bp):
TTAGCTAATTGCTTGTA
Found at i:13888348 original size:46 final size:44
Alignment explanation
Indices: 13888250--13888378 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 44
13888240 GGTCTTACAC
*
13888250 TAGCCGATGCCATGTCCTAGACATGGTCTTATACTGACACATCTCG
1 TAGCCGATG-CATGTCCTAGACAT-GTCTTATACTGGCACATCTCG
* *
13888296 TAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTC-TCGTC-
1 TAGCCGATGCATGTCCTAGACATGTCTTATACTGGCACATC-TCG
*
13888339 TCAATGCCGATGCATGTCCCAGACATGTCTTATACTGGCA
1 T--A-GCCGATGCATGTCCTAGACATGTCTTATACTGGCA
13888379 TTTCATAATG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.04
44 14 0.19
45 15 0.21
46 41 0.56
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
TAGCCGATGCATGTCCTAGACATGTCTTATACTGGCACATCTCG
Found at i:13888410 original size:93 final size:92
Alignment explanation
Indices: 13888252--13888421 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 92
13888242 TCTTACACTA
* * * *
13888252 GCCGATGCCATGTCCTAGACATGGTCTTATACTGACACATCTCGTAGCCGATGCATGTCCTAGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATCGTAGCCGATCCATGTCCAAGAC
13888317 ATGTCTTACACTGGCTCTCGTCTCAAT
66 ATGTCTTACACTGGCTCTCGTCTCAAT
* *
13888344 GCCGATG-CATGTCCCAGACAT-GTCTTATACTGGCATTTCATAAT-GTGGCCGATCCATGTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACA---CAT-ATCGTAGCCGATCCATGTCCA
*
13888406 AGACATTTCTTACACT
62 AGACATGTCTTACACT
13888422 AGCACCCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
90 13 0.19
91 13 0.19
92 7 0.10
93 33 0.49
94 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATCGTAGCCGATCCATGTCCAAGAC
ATGTCTTACACTGGCTCTCGTCTCAAT
Found at i:13891010 original size:15 final size:15
Alignment explanation
Indices: 13890992--13891030 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13890982 CCAGAATATA
* *
13890992 AAAATCCAACATAAG
1 AAAATCCAAAACAAG
*
13891007 AAAATACAAAACAAG
1 AAAATCCAAAACAAG
13891022 AAAATCCAA
1 AAAATCCAA
13891031 TCACGATACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.18, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAATCCAAAACAAG
Found at i:13896792 original size:50 final size:49
Alignment explanation
Indices: 13896674--13896803 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
13896664 CTGGTACGCA
* * **
13896674 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
13896723 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
*
13896773 TAGTAGCCTGCACTTAGTACTACGCACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
13896804 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 29 0.40
50 40 0.55
51 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:13896857 original size:101 final size:99
Alignment explanation
Indices: 13896674--13896860 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
13896664 CTGGTACGCA
* *
13896674 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
*
13896739 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * * *
13896773 TAGTAGCCTGCACTTAGTACTACGCACGTGATC-ACAGTTTTTGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG--TCT-GGTACACATAGTAGCCTGCAC
* *
13896837 TTAGTACTACCCATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
13896861 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
100 2 0.03
101 40 0.53
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:13899410 original size:28 final size:28
Alignment explanation
Indices: 13899345--13899416 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
13899335 ATAGTGAATC
* *
13899345 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
13899374 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
13899402 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13899417 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:13914961 original size:28 final size:28
Alignment explanation
Indices: 13914896--13914967 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
13914886 ATAGTGAATC
* *
13914896 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAGCT
13914925 CGCACACTTAGTGCTATAGA-ATCAAGCT
1 CGCACACTTAGTGCTATAGATATC-AGCT
13914953 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13914968 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAGCT
Found at i:13917179 original size:153 final size:153
Alignment explanation
Indices: 13916897--13917207 Score: 498
Period size: 153 Copynumber: 2.0 Consensus size: 153
13916887 ATTTGTATGT
13916897 ATTT-GCATTTTGGGTTGGGATTTGATTTTGGAAGTGAAGGAAAAATGATTCTACAGTTAAATTG
1 ATTTGGCATTTTGGGTTGGGATTTGATTTTGGAAGTGAAGGAAAAATGATTCTACAGTTAAATTG
**
13916961 CACTACTATTATCTAGCGATAAAACCGCAATTATGTTAGCAGCCCGACTGTTTAAAGATCATGAG
66 CACTACTATTATCTAGCGATAAAACCGCAATTATGTTAGCAGCCCGACTGCATAAAGATCATGAG
*
13917026 GCAAATGACCTTTTCATGGTGTG
131 GCAAATGACCTCTTCATGGTGTG
**
13917049 ATTTGGCATTTTGGGTTGGGATTTGATTTTGGAAGTGAAGGAAGTATGATTCTACAGTTAAATTG
1 ATTTGGCATTTTGGGTTGGGATTTGATTTTGGAAGTGAAGGAAAAATGATTCTACAGTTAAATTG
** * * * * * *
13917114 GGCTATTATTATTTAGTGATAAAACTGCAATTATGTTAGCAGCCCGACTGCATAACGGTCATGAG
66 CACTACTATTATCTAGCGATAAAACCGCAATTATGTTAGCAGCCCGACTGCATAAAGATCATGAG
13917179 GCAAATGACCTCTTCATGGTGTG
131 GCAAATGACCTCTTCATGGTGTG
13917202 ATTTGG
1 ATTTGG
13917208 TTAGATTGGT
Statistics
Matches: 145, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
152 4 0.03
153 141 0.97
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (153 bp):
ATTTGGCATTTTGGGTTGGGATTTGATTTTGGAAGTGAAGGAAAAATGATTCTACAGTTAAATTG
CACTACTATTATCTAGCGATAAAACCGCAATTATGTTAGCAGCCCGACTGCATAAAGATCATGAG
GCAAATGACCTCTTCATGGTGTG
Found at i:13926429 original size:40 final size:40
Alignment explanation
Indices: 13926302--13926431 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
13926292 TTGCTGGAAA
* * *
13926302 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
13926342 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
13926382 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
13926422 TTATATCCGG
1 TTATATCCGG
13926432 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:13934474 original size:40 final size:40
Alignment explanation
Indices: 13934347--13934476 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
13934337 TTGCTGGAAA
* * *
13934347 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
13934387 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
13934427 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
13934467 TTATATCCGG
1 TTATATCCGG
13934477 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:13939461 original size:23 final size:23
Alignment explanation
Indices: 13939435--13939479 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13939425 CAGATCTGAT
* *
13939435 AAACAATAAGCTCTATTGAGCTA
1 AAACAATAAGCTCCATCGAGCTA
*
13939458 AAACGATAAGCTCCATCGAGCT
1 AAACAATAAGCTCCATCGAGCT
13939480 GAATAGTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (23 bp):
AAACAATAAGCTCCATCGAGCTA
Found at i:13939492 original size:22 final size:24
Alignment explanation
Indices: 13939464--13939517 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
13939454 GCTAAAACGA
13939464 TAAGCTCCAT-CGAGCTG-AATAG
1 TAAGCTCCATGCGAGCTGAAATAG
* *
13939486 TAAGCT-CATGTGAGCTGAAATGG
1 TAAGCTCCATGCGAGCTGAAATAG
13939509 TAAGCTCCA
1 TAAGCTCCA
13939518 ATAAGCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 10 0.37
24 2 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (24 bp):
TAAGCTCCATGCGAGCTGAAATAG
Found at i:13939515 original size:23 final size:22
Alignment explanation
Indices: 13939441--13939515 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
13939431 TGATAAACAA
* * *
13939441 TAAGCTCTATTGAGCTAAAACGA
1 TAAGCTC-ATTGAGCTGAAATGG
* *
13939464 TAAGCTCCATCGAGCTG-AATAG
1 TAAGCT-CATTGAGCTGAAATGG
13939486 TAAGCTCATGTGAGCTGAAATGG
1 TAAGCTCAT-TGAGCTGAAATGG
13939509 TAAGCTC
1 TAAGCTC
13939516 CAATAAGCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 14 0.33
23 24 0.57
24 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (22 bp):
TAAGCTCATTGAGCTGAAATGG
Found at i:13941982 original size:15 final size:15
Alignment explanation
Indices: 13941962--13941998 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
13941952 ATACCAAGAT
13941962 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
13941977 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
*
13941992 AAGGCAA
1 GAGGCAA
13941999 CTCAGTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (15 bp):
GAGGCAAGTGATATC
Done.