Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 102 of 344
Found at i:34280495 original size:47 final size:48
Alignment explanation
Indices: 34280099--34280496 Score: 408
Period size: 47 Copynumber: 8.6 Consensus size: 48
34280089 TAATTGAATA
*
34280099 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGACATGGCCAATGTGATG
1 AATGTGAACAGTGTATATGTGTG-ATAAGGCCGA-ATGGCCAATGTGATG
*
34280148 AAAGTG-ACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
34280194 AATGTGAATAG-GTGTATGTGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
34280240 -A--TGAACA-TGTATA-GGGTGAT-AGG-CGAATGGCCAATGTGATG
1 AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34280281 AA-ATGAACAGTGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
34280328 AAAGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGGTGATG
1 AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAAT-GTGATG
* *
34280376 AATGTGAACATTG-A-ATGTTGTTGATAA-GCCGAGTGGCC-ATGTTGATG
1 AATGTGAACAGTGTATATG-TG-TGATAAGGCCGAATGGCCAATG-TGATG
* * * * *
34280423 AATGTG-AGA-TGATGTATGTGAGATAAGG-CTAATGGCCCGATGTGATG
1 AATGTGAACAGTG-TATATGTGTGATAAGGCCGAATGG-CCAATGTGATG
**
34280470 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACAGTGTATATGTGTGATAAG
34280497 TTCCCGAAGG
Statistics
Matches: 299, Mismatches: 25, Indels: 52
0.80 0.07 0.14
Matches are distributed among these distances:
40 9 0.03
41 11 0.04
42 7 0.02
43 15 0.05
44 5 0.02
45 9 0.03
46 43 0.14
47 130 0.43
48 56 0.19
49 14 0.05
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (48 bp):
AATGTGAACAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:34298259 original size:13 final size:13
Alignment explanation
Indices: 34298241--34298265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34298231 TTTAACAAAC
34298241 CAACCACCACCTT
1 CAACCACCACCTT
34298254 CAACCACCACCT
1 CAACCACCACCT
34298266 AAAACTCCTC
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:0.56, G:0.00, T:0.12
Consensus pattern (13 bp):
CAACCACCACCTT
Found at i:34299595 original size:43 final size:42
Alignment explanation
Indices: 34299548--34299671 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 42
34299538 ACATAGGATT
*
34299548 TCGATATGAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGAGATTTCATGTAAGACCA-GTCTGGGACGTTGGCA
* * * **
34299591 TCGATTTGAGATTT-ATGT---A-TAGTCAGGGACAATGGCA
1 TCGATATGAGATTTCATGTAAGACCAGTCTGGGACGTTGGCA
** *
34299628 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGAGATTTCATGTAAGACCA-GTCTGGGACGTTGGCA
34299671 T
1 T
34299672 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
37 23 0.38
38 5 0.08
39 1 0.02
41 1 0.02
42 4 0.07
43 27 0.44
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (42 bp):
TCGATATGAGATTTCATGTAAGACCAGTCTGGGACGTTGGCA
Found at i:34300441 original size:20 final size:19
Alignment explanation
Indices: 34300405--34300455 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
34300395 AAGCATTATT
*
34300405 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
34300424 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
34300444 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
34300456 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:34301302 original size:49 final size:49
Alignment explanation
Indices: 34301149--34301309 Score: 157
Period size: 49 Copynumber: 3.3 Consensus size: 49
34301139 ACATTTTGAG
* * * *
34301149 AGCCAGTGTAAGACATGTCTAGGACAT-GCATCAGCCTTGAGATATGCA
1 AGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCATTGATATATGGA
* * * ** *
34301197 AGCCAGTGTAAGGCCTGTCTGGGACATGGTATC-GACACCGATAGAT-GA
1 AGCCAGTGTAAGACCTGTCTAGGACATGGCATCAG-CATTGATATATGGA
* * *
34301245 GAGCCAGTGTAAGACCGGTCTCGGACATGGCATCAGCTTTGATATATGGA
1 -AGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCATTGATATATGGA
*
34301295 AGTCAGTGTAAGACC
1 AGCCAGTGTAAGACC
34301310 ATGTTTGGAA
Statistics
Matches: 89, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
48 26 0.29
49 60 0.67
50 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTAGGACATGGCATCAGCATTGATATATGGA
Found at i:34302195 original size:15 final size:16
Alignment explanation
Indices: 34302164--34302196 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34302154 CATTCGAGGC
*
34302164 CTCACGAGCGTGCGAA
1 CTCACGAGCGGGCGAA
34302180 CTCACGAG-GGGCGAA
1 CTCACGAGCGGGCGAA
34302195 CT
1 CT
34302197 GAGCCCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.30, G:0.33, T:0.12
Consensus pattern (16 bp):
CTCACGAGCGGGCGAA
Found at i:34303726 original size:46 final size:45
Alignment explanation
Indices: 34303632--34303718 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
34303622 TTACATCTCT
* *
34303632 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAG
*
34303678 TGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 TGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
34303719 CCTAGTGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 29 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAG
Found at i:34308350 original size:8 final size:8
Alignment explanation
Indices: 34308327--34308364 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
34308317 ATAAAATATT
*
34308327 AATAATTC
1 AATAATTA
34308335 AATAAATTA
1 AAT-AATTA
34308344 AATAATTA
1 AATAATTA
34308352 AATAATTA
1 AATAATTA
34308360 AATAA
1 AATAA
34308365 AATTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
AATAATTA
Found at i:34308363 original size:25 final size:24
Alignment explanation
Indices: 34308320--34308371 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
34308310 AATTAGTATA
*
34308320 AAATATTAATAATTCAAT-AAATT
1 AAATATTAATAATTAAATAAAATT
34308343 AAATAATTAAATAATTAAATAAAATT
1 AAAT-ATT-AATAATTAAATAAAATT
34308369 AAA
1 AAA
34308372 ATTTAGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 3 0.12
25 10 0.40
26 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTAATAATTAAATAAAATT
Found at i:34308374 original size:16 final size:15
Alignment explanation
Indices: 34308318--34308364 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
34308308 TTAATTAGTA
34308318 TAAAATATT-AATAAT
1 TAAAA-ATTAAATAAT
34308333 TCAATAAATTAAATAAT
1 T-AA-AAATTAAATAAT
34308350 TAAATAATTAAATAA
1 TAAA-AATTAAATAA
34308365 AATTAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.07
16 17 0.61
17 9 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAATTAAATAAT
Found at i:34313273 original size:48 final size:47
Alignment explanation
Indices: 34313190--34313415 Score: 178
Period size: 48 Copynumber: 4.9 Consensus size: 47
34313180 ACCATGGTTA
* * * * *
34313190 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCAGCAACAAT
1 ATGAGATCCTGTATAAGACCATATCTGGGATATGGCATCGGC-ACAAT
* * * *
34313238 ATGTGATCCTGTATAAGACCATATCAGGGATATGGCTTCGGCATCATT
1 ATGAGATCCTGTATAAGACCATATCTGGGATATGGCATCGGCA-CAAT
* * * * * *
34313286 AAGTGAT-TTCGTATAAGACCATTTTTGGGACATGGCATC-G----AT
1 ATGAGATCCT-GTATAAGACCATATCTGGGATATGGCATCGGCACAAT
* * *
34313328 ATGAGGTCCCGTATAAGACCATGTCTGGGATATGGCATCGGCACCAAT
1 ATGAGATCCTGTATAAGACCATATCTGGGATATGGCATCGGCA-CAAT
* *
34313376 ATGAGA-CTTCGTATAAAACCATATCTGGGATATGGCATCG
1 ATGAGATCCT-GTATAAGACCATATCTGGGATATGGCATCG
34313416 ATATGCGGAC
Statistics
Matches: 138, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
42 31 0.22
43 1 0.01
47 4 0.03
48 102 0.74
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (47 bp):
ATGAGATCCTGTATAAGACCATATCTGGGATATGGCATCGGCACAAT
Found at i:34313362 original size:90 final size:90
Alignment explanation
Indices: 34313248--34313461 Score: 266
Period size: 90 Copynumber: 2.4 Consensus size: 90
34313238 ATGTGATCCT
* * * * * * * * *
34313248 GTATAAGACCATATCAGGGATATGGCTTCGGCATCATTAAGTGATTTCGTATAAGACCATTTTTG
1 GTATAAGACCATGTCTGGGATATGGCTTCGGCACCAATAAGAGACTTCGTATAAAACCATATCTG
*
34313313 GGACATGGCATCGATATGAGGTCCC
66 GGACATGGCATCGATATGAGGACCC
* *
34313338 GTATAAGACCATGTCTGGGATATGGCATCGGCACCAATATGAGACTTCGTATAAAACCATATCTG
1 GTATAAGACCATGTCTGGGATATGGCTTCGGCACCAATAAGAGACTTCGTATAAAACCATATCTG
* *
34313403 GGATATGGCATCGATATGCGGACCC
66 GGACATGGCATCGATATGAGGACCC
* * * *
34313428 ATGTAAGACCATGTCTGGGACATGGCTTTGGCAC
1 GTATAAGACCATGTCTGGGATATGGCTTCGGCAC
34313462 TCTATTTGGT
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (90 bp):
GTATAAGACCATGTCTGGGATATGGCTTCGGCACCAATAAGAGACTTCGTATAAAACCATATCTG
GGACATGGCATCGATATGAGGACCC
Found at i:34313445 original size:42 final size:41
Alignment explanation
Indices: 34313295--34313453 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 41
34313285 TAAGTGATTT
* * *
34313295 CGTATAAGACCATTTTTGGGACATGGCATCGATATGAGGTCC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATG-GGACC
* * *
34313337 CGTATAAGACCATGTCTGGGATATGGCATCGGCACCAATATGAGACTT
1 CGTATAAGACCATGTCTGGGACATGGCATC-G-----ATATGGGAC-C
* * *
34313385 CGTATAAAACCATATCTGGGATATGGCATCGATATGCGGACC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATG-GGACC
* *
34313427 CATGTAAGACCATGTCTGGGACATGGC
1 CGTATAAGACCATGTCTGGGACATGGC
34313454 TTTGGCACTC
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 54 0.57
43 4 0.04
47 3 0.03
48 33 0.35
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (41 bp):
CGTATAAGACCATGTCTGGGACATGGCATCGATATGGGACC
Found at i:34315889 original size:64 final size:64
Alignment explanation
Indices: 34315794--34315931 Score: 224
Period size: 64 Copynumber: 2.2 Consensus size: 64
34315784 CACACACGCA
* *
34315794 ACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTG-CATGGTGTACACATAGTATCACCCATGCG
1 ACCTAGCTACATATATCCCGTAGCTCGCTTGTC-GACATGGTGTACACATAGTATCACCCATGCG
* *
34315858 ACCTAGCTACATATATCTCGTAGCTCGCTTGTCGACATGGTGTACTCATAGTATCACCCATGCG
1 ACCTAGCTACATATATCCCGTAGCTCGCTTGTCGACATGGTGTACACATAGTATCACCCATGCG
34315922 ACCTAGCTAC
1 ACCTAGCTAC
34315932 CTCATAATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.01
64 68 0.99
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
ACCTAGCTACATATATCCCGTAGCTCGCTTGTCGACATGGTGTACACATAGTATCACCCATGCG
Found at i:34316238 original size:38 final size:38
Alignment explanation
Indices: 34316196--34316272 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
34316186 TTCCATGTCG
34316196 AATTAATATTGAACATTTAAAACATCATAATTATACTT
1 AATTAATATTGAACATTTAAAACATCATAATTATACTT
*
34316234 AATTAATATTGAACATTTAAATCATCATAATTATACTT
1 AATTAATATTGAACATTTAAAACATCATAATTATACTT
34316272 A
1 A
34316273 CTTTCAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (38 bp):
AATTAATATTGAACATTTAAAACATCATAATTATACTT
Found at i:34322841 original size:43 final size:43
Alignment explanation
Indices: 34322720--34322862 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
34322710 ATACCACGTT
* * * *
34322720 TGGGACATTGGCATCGAT-TTAAGATTTACGTGTAAGAACATGTC
1 TGGGACATTGGCATCGATATT-TGA-TTACGTGTAAGACCCTTTC
* * *
34322764 TGGAACATTGGCATC-ATATATGATTTCGTGTAAGACCCTTTC
1 TGGGACATTGGCATCGATATTTGATTACGTGTAAGACCCTTTC
* * *
34322806 TGGGACAGTGGCATCGATATTTGATTACATGTAAGACCTCGTT-
1 TGGGACATTGGCATCGATATTTGATTACGTGTAAGACC-CTTTC
34322849 TGGGACATTGGCAT
1 TGGGACATTGGCAT
34322863 TGTACGAGCT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
42 28 0.34
43 36 0.44
44 18 0.22
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGGGACATTGGCATCGATATTTGATTACGTGTAAGACCCTTTC
Found at i:34324744 original size:24 final size:23
Alignment explanation
Indices: 34324717--34324774 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
34324707 TTTGTCTACT
* *
34324717 ATTTAGTTTTATTTTTTACTTGTA
1 ATTTAGTTTT-CTTTCTACTTGTA
*
34324741 ATTTAGGTTTTCTTTCTAGTTGTA
1 ATTTA-GTTTTCTTTCTACTTGTA
34324765 ATTTTAGTTT
1 A-TTTAGTTT
34324775 AGTTGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (23 bp):
ATTTAGTTTTCTTTCTACTTGTA
Found at i:34333904 original size:93 final size:93
Alignment explanation
Indices: 34333791--34333962 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34333781 CGCCCATAAG
* *
34333791 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
34333856 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
34333884 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34333949 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34333963 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34333959 original size:46 final size:46
Alignment explanation
Indices: 34333784--34333959 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
34333774 TGTAACCCGC
* * *
34333784 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
34333830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
34333880 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34333923 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34333960 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34336330 original size:20 final size:20
Alignment explanation
Indices: 34336305--34336343 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34336295 AACATTCAAA
34336305 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
34336325 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
34336344 ACCATATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:34337448 original size:25 final size:25
Alignment explanation
Indices: 34337420--34337510 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
34337410 TCCTGTACAT
* *
34337420 GTATTCTCACACGAGTTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
* *
34337445 GTATGCTCTCACAAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
34337470 AG-ATGCTCACACGAGCTGTAAATCA
1 -GTATGCTCACACGAGCTGTAAATCG
*
34337495 GTATACTCACACGAGC
1 GTATGCTCACACGAGC
34337511 AAGGAAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCG
Found at i:34343981 original size:18 final size:18
Alignment explanation
Indices: 34343958--34343992 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34343948 CACTGCATAT
34343958 GCTTTTGGGTTT-AAAAGC
1 GCTTTT-GGTTTCAAAAGC
34343976 GCTTTTGGTTTCAAAAG
1 GCTTTTGGTTTCAAAAG
34343993 TTGTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (18 bp):
GCTTTTGGTTTCAAAAGC
Found at i:34346019 original size:18 final size:19
Alignment explanation
Indices: 34345992--34346046 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
34345982 AATAAATTTG
34345992 TATATTTTTTGAATTTTTA
1 TATATTTTTTGAATTTTTA
* *
34346011 -ATATATTTT-AGATATTATA
1 TATATTTTTTGA-AT-TTTTA
34346030 TATATTTTTTGAATTTT
1 TATATTTTTTGAATTTT
34346047 GAGTAGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
17 1 0.04
18 10 0.36
19 6 0.21
20 10 0.36
21 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATATTTTTTGAATTTTTA
Found at i:34353106 original size:12 final size:12
Alignment explanation
Indices: 34353091--34353116 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34353081 TAGAAGAAAC
34353091 TCTTAACAATTT
1 TCTTAACAATTT
34353103 TCTTAACAATTT
1 TCTTAACAATTT
34353115 TC
1 TC
34353117 GTATCTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTTAACAATTT
Found at i:34356352 original size:20 final size:21
Alignment explanation
Indices: 34356327--34356366 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34356317 TTCTTGAAAT
34356327 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
34356347 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCCCGTGTGG
34356367 TCGTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:34363882 original size:42 final size:42
Alignment explanation
Indices: 34363815--34363919 Score: 174
Period size: 42 Copynumber: 2.5 Consensus size: 42
34363805 GAAGTCTGAA
* *
34363815 CTCAGTGAGTGGTCTGAGTTTGTGATATATGTGGCATCCGAG
1 CTCATTGAGTGGTCTGAGTTCGTGATATATGTGGCATCCGAG
*
34363857 CTCATTGAGTGGTCTGGGTTCGTGATATATGTGGCATCCGAG
1 CTCATTGAGTGGTCTGAGTTCGTGATATATGTGGCATCCGAG
*
34363899 CTCGTTGAGTGGTCTGAGTTC
1 CTCATTGAGTGGTCTGAGTTC
34363920 ATAATGGATG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.34
Consensus pattern (42 bp):
CTCATTGAGTGGTCTGAGTTCGTGATATATGTGGCATCCGAG
Found at i:34366185 original size:26 final size:27
Alignment explanation
Indices: 34366155--34366209 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
34366145 TTTCATATTT
34366155 TATAATAAGGTTAA-ATATG-TAAATTA
1 TATAAT-AGGTTAATATATGTTAAATTA
* *
34366181 TATAATATGTTAATATATGTTATATTA
1 TATAATAGGTTAATATATGTTAAATTA
34366208 TA
1 TA
34366210 ACATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 11 0.44
27 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (27 bp):
TATAATAGGTTAATATATGTTAAATTA
Found at i:34366957 original size:16 final size:17
Alignment explanation
Indices: 34366920--34366957 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
34366910 TGTATGAATT
34366920 TATATGCTGAAATTAAA
1 TATATGCTGAAATTAAA
*
34366937 T-TATG-TGAAATTATA
1 TATATGCTGAAATTAAA
34366952 TATATG
1 TATATG
34366958 AAAGTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 8 0.42
17 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (17 bp):
TATATGCTGAAATTAAA
Found at i:34377933 original size:41 final size:42
Alignment explanation
Indices: 34377833--34377944 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 42
34377823 TGTTCTCGTG
* ** * *
34377833 TAAGACCACGTCTGTTACACTGGCATCG-ATCTGTGATTACGTG
1 TAAGACCATGTCTGGGACAGTGGCATCGTAT-T-TGATTACGTA
*
34377876 TAAGACCATGTTTGGGACA-TCGGCATCGTATTTGATT-CGTA
1 TAAGACCATGTCTGGGACAGT-GGCATCGTATTTGATTACGTA
*
34377917 TAAGACCCTGTCTGGGACAGTGGCATCG
1 TAAGACCATGTCTGGGACAGTGGCATCG
34377945 ATATGAGATA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 27 0.46
42 7 0.12
43 23 0.39
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACGTA
Found at i:34381438 original size:110 final size:110
Alignment explanation
Indices: 34381245--34381464 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
34381235 TGTGACTATT
34381245 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
34381310 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
*
34381355 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
34381420 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
34381465 CCTATCCACA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (110 bp):
ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:34381857 original size:22 final size:22
Alignment explanation
Indices: 34381827--34381870 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34381817 GAAGGCATTC
* *
34381827 GTGCTGGTGTTATATCTGGGCT
1 GTGCCGGTGTTATATCCGGGCT
34381849 GTGCCGGTGTTATATCCGGGCT
1 GTGCCGGTGTTATATCCGGGCT
34381871 AAGTCCCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.36, T:0.36
Consensus pattern (22 bp):
GTGCCGGTGTTATATCCGGGCT
Found at i:34381918 original size:39 final size:40
Alignment explanation
Indices: 34381849--34381994 Score: 190
Period size: 39 Copynumber: 3.7 Consensus size: 40
34381839 TATCTGGGCT
*
34381849 GTGCCGGTGTTATATCCGGGC-TAAGTCCCGAAGGCATTC
1 GTGCTGGTGTTATATCCGGGCTTAAGTCCCGAAGGCATTC
*
34381888 GTGCTGGTGTTATATCCGGG-TTAAGCCCCGAAGGCATTC
1 GTGCTGGTGTTATATCCGGGCTTAAGTCCCGAAGGCATTC
* * * * *
34381927 TTGATGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTT
1 GTGCTGGTGTTATATCCGGGCTTAAGTCCCGAAGGCATTC
* *
34381966 GTGCTGGTATTATATACGGGCTTAAGTCC
1 GTGCTGGTGTTATATCCGGGCTTAAGTCC
34381995 AGCATGCTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 80 0.87
40 12 0.13
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (40 bp):
GTGCTGGTGTTATATCCGGGCTTAAGTCCCGAAGGCATTC
Found at i:34385909 original size:31 final size:31
Alignment explanation
Indices: 34385868--34385931 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
34385858 CCTTTTCATA
*
34385868 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
*
34385899 TTTCAAATTTCATAATACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
34385930 TT
1 TT
34385932 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:34386197 original size:23 final size:23
Alignment explanation
Indices: 34386146--34386241 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
34386136 CCTAGCCTCT
*
34386146 TTTAATAACTGGGGCAAAAGCCCC
1 TTTAATAACTGGGGCATAAG-CCC
34386170 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34386193 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
34386216 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34386239 TTT
1 TTT
34386242 TTCACTTCCT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 51 0.73
24 19 0.27
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34386320 original size:20 final size:20
Alignment explanation
Indices: 34386292--34386358 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
34386282 TTATGATTAC
*
34386292 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34386312 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
34386332 GTCATGTGCATATCTTACAT
1 ATCATGTGCATATCATACAT
*
34386352 ACCATGT
1 ATCATGT
34386359 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34386427 original size:25 final size:25
Alignment explanation
Indices: 34386395--34386442 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34386385 ATACATAAAC
* * *
34386395 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
34386420 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
34386443 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:34398797 original size:41 final size:40
Alignment explanation
Indices: 34398685--34398797 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
34398675 AACTATGATC
* *
34398685 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGCTACAAAT
1 GGCACTAAGTGTGCGATTTGAGATAGCTTCGGCTACAAAT
* * * * *
34398725 GGCAATAAGTATGC-TTGTTG-GAATAGCTTCGGCTATATGA-
1 GGCACTAAGTGTGCGAT-TTGAG-ATAGCTTCGGCTACA-AAT
34398765 GGCACTAAGTGTGCGATATTGAGATAGCTTCGG
1 GGCACTAAGTGTGCGAT-TTGAGATAGCTTCGG
34398798 TTTATTGAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.02
40 40 0.70
41 15 0.26
42 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTGAGATAGCTTCGGCTACAAAT
Found at i:34403643 original size:27 final size:26
Alignment explanation
Indices: 34403626--34403695 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
34403616 ATATTAAGTC
34403626 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
34403653 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
34403681 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
34403696 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:34403689 original size:28 final size:28
Alignment explanation
Indices: 34403626--34403723 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
34403616 ATATTAAGTC
*
34403626 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34403653 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34403681 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34403710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34403724 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34408278 original size:17 final size:18
Alignment explanation
Indices: 34408256--34408293 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34408246 GGCCTATGAC
*
34408256 TTTTTAAATTT-TGAAAG
1 TTTTTAAATTTCTCAAAG
*
34408273 TTTTTAAGTTTCTCAAAG
1 TTTTTAAATTTCTCAAAG
34408291 TTT
1 TTT
34408294 GTGAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
TTTTTAAATTTCTCAAAG
Found at i:34408645 original size:117 final size:117
Alignment explanation
Indices: 34408293--34408647 Score: 638
Period size: 117 Copynumber: 3.0 Consensus size: 117
34408283 TCTCAAAGTT
34408293 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
* *
34408358 TAAGGGACAAAGTGATTGAGATTAATGAGTTTTTTAACGATGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
* * *
34408410 TCTGAATGTTACCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTTGTAGGACCTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
34408475 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
*
34408527 TGTGATTGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
1 TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
* *
34408592 TAAGGGACAAAGTGATTGAGATGAATGGGTTTTTTAATGACGATTGTACAAA
66 TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
34408644 TGTG
1 TGTG
34408648 TGATTTATGT
Statistics
Matches: 227, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 227 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (117 bp):
TGTGAATGTTATCGGTTTAGTCCCAAACCACTTCTAAGTATGTTTTAAGGTCTCGTAGGACCTTA
TAAGGGACAAAGTGATTGAGATGAATGAGTTTTTTAATGATGATTGTACAAA
Found at i:34409775 original size:13 final size:13
Alignment explanation
Indices: 34409757--34409781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34409747 TAATGGTATA
34409757 TTGAATCCATGAC
1 TTGAATCCATGAC
34409770 TTGAATCCATGA
1 TTGAATCCATGA
34409782 AAATTTAGTA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:34410368 original size:27 final size:27
Alignment explanation
Indices: 34410333--34410511 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
34410323 TTAAATTGTA
34410333 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
34410360 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
34410387 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
34410414 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
34410442 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
34410469 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
34410496 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
34410512 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:34410449 original size:82 final size:81
Alignment explanation
Indices: 34410335--34410490 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34410325 AAATTGTATA
* *
34410335 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34410399 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
34410416 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34410481 TGCGAGTTGA
65 TGCGAATTGA
34410491 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34410502 original size:82 final size:81
Alignment explanation
Indices: 34410331--34410511 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
34410321 GATTAAATTG
* *
34410331 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34410396 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
34410412 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34410476 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
34410494 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
34410512 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34412127 original size:48 final size:48
Alignment explanation
Indices: 34412049--34412191 Score: 189
Period size: 48 Copynumber: 3.0 Consensus size: 48
34412039 ATAAACGTAG
* * * * *
34412049 TAAC-ATGCCAATGCCATATCCCAGATATGGTCTTGCGTGGGATCACG
1 TAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
** * * *
34412096 TGTCGATGCCAATGCCATGTCCTATACATGGTCTTACATGGGATCTCA
1 TAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
34412144 TAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 TAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
34412192 CATAACCCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 2 0.03
48 78 0.98
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (48 bp):
TAACGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
Found at i:34415684 original size:12 final size:12
Alignment explanation
Indices: 34415667--34415696 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
34415657 GATCACATGG
34415667 CCGTGTCCTACC
1 CCGTGTCCTACC
34415679 CCGTGTCCTACC
1 CCGTGTCCTACC
34415691 CCGTGT
1 CCGTGT
34415697 AACTTTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.47, G:0.20, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTACC
Found at i:34417976 original size:19 final size:19
Alignment explanation
Indices: 34417952--34417988 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34417942 AAATTTGTTT
*
34417952 TGTTTTACTTATTTTACTA
1 TGTTTTACTTAATTTACTA
*
34417971 TGTTTTATTTAATTTACT
1 TGTTTTACTTAATTTACT
34417989 TAAATAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (19 bp):
TGTTTTACTTAATTTACTA
Found at i:34422534 original size:37 final size:37
Alignment explanation
Indices: 34422484--34422562 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
34422474 TTATTACGAA
* *
34422484 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
34422521 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
34422558 GTCTT
1 GTCTT
34422563 TAGAGCTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:34422759 original size:47 final size:47
Alignment explanation
Indices: 34422681--34422860 Score: 288
Period size: 47 Copynumber: 3.8 Consensus size: 47
34422671 CCCTTCGGGA
* * * * * *
34422681 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34422728 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34422775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34422822 CTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC
34422861 TACTTTCACA
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 123 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34422868 original size:24 final size:24
Alignment explanation
Indices: 34422838--34422886 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34422828 ACATATATAC
34422838 ACTTTCACATTCATCACATCGGCT
1 ACTTTCACATTCATCACATCGGCT
34422862 ACTTTCACATTCATCACATCGGCT
1 ACTTTCACATTCATCACATCGGCT
34422886 A
1 A
34422887 TTAGGCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.33
Consensus pattern (24 bp):
ACTTTCACATTCATCACATCGGCT
Found at i:34426363 original size:39 final size:39
Alignment explanation
Indices: 34426309--34426385 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
34426299 TTTAGTTTGT
*
34426309 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATGA
1 GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATGA
*
34426348 GTCTTTAATTATGTCATAGTTTGCACATCAGTAATATG
1 GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATG
34426386 TGTTTTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCAGTAATATGA
Found at i:34428836 original size:27 final size:27
Alignment explanation
Indices: 34428796--34428866 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
34428786 TGAAAAATAA
* *
34428796 AAAGAAATAGAAAAAGAAAAAAAGAATG
1 AAAGAAA-ACAAAAAGAAAAAAAGAACG
*
34428824 AAAGAAAACAAAAAGAAAAAGAGAACG
1 AAAGAAAACAAAAAGAAAAAAAGAACG
* *
34428851 AAAGAGAGCAAAAAGA
1 AAAGAAAACAAAAAGA
34428867 GACTGAAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 31 0.82
28 7 0.18
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (27 bp):
AAAGAAAACAAAAAGAAAAAAAGAACG
Found at i:34428848 original size:19 final size:19
Alignment explanation
Indices: 34428787--34428848 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
34428777 AAAATCATGT
*
34428787 GAAAAATAAAAAGAAATAGA
1 GAAAAA-AAAAAGAAAAAGA
* *
34428807 AAAAGAAAAAAAGAATGAA-A
1 GAAA-AAAAAAAGAA-AAAGA
*
34428827 GAAAACAAAAAGAAAAAGA
1 GAAAAAAAAAAGAAAAAGA
34428846 GAA
1 GAA
34428849 CGAAAGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 15 0.45
21 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (19 bp):
GAAAAAAAAAAGAAAAAGA
Found at i:34436399 original size:42 final size:42
Alignment explanation
Indices: 34436353--34436447 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 42
34436343 TCCCAGACAG
* *
34436353 GGTCTTACATGAAATCA-AA-TATGATGCCAACGTCCCATACGT
1 GGTCTTACAT-AAATCATAAGT-CGATACCAACGTCCCATACGT
* *
34436395 GGTCTTACACATAAATCATAAGTCGATACCAATGTCCCATATGT
1 GGTCTT--ACATAAATCATAAGTCGATACCAACGTCCCATACGT
34436439 GGTCTTACA
1 GGTCTTACA
34436448 CGATAACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
42 9 0.20
43 6 0.13
44 29 0.64
45 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
GGTCTTACATAAATCATAAGTCGATACCAACGTCCCATACGT
Found at i:34438590 original size:34 final size:34
Alignment explanation
Indices: 34438547--34438613 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
34438537 GACTGAACTA
34438547 GCAGTTTTACTACAACCTAACAGTATAGCGGGTG
1 GCAGTTTTACTACAACCTAACAGTATAGCGGGTG
*
34438581 GCAGTTTTACTGCAACCTAACAGTATAGCGGGT
1 GCAGTTTTACTACAACCTAACAGTATAGCGGGT
34438614 TACCGCACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (34 bp):
GCAGTTTTACTACAACCTAACAGTATAGCGGGTG
Found at i:34442698 original size:20 final size:20
Alignment explanation
Indices: 34442660--34442698 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34442650 ATAAACCAAA
*
34442660 AAAAATAAAAATCCCAAAAT
1 AAAAATAAAAATCCAAAAAT
*
34442680 AAAAATAAAAATCTAAAAA
1 AAAAATAAAAATCCAAAAA
34442699 GGCCATTATT
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:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAATCCAAAAAT
Found at i:34459600 original size:29 final size:27
Alignment explanation
Indices: 34459582--34459651 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
34459572 ATATTAAGTC
34459582 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
34459609 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
34459637 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
34459652 GTACAATTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:34459645 original size:28 final size:28
Alignment explanation
Indices: 34459582--34459679 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
34459572 ATATTAAGTC
*
34459582 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34459609 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34459637 CGCACACTTAGTGCTGTACAATTGAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34459666 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34459680 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34462855 original size:41 final size:41
Alignment explanation
Indices: 34462792--34462913 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 41
34462782 TATATTTGGC
* *
34462792 TACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGAT
1 TACGTGTAAGACCCTGTCTGGGACAT-GGCATCGTATGTGAT
*
34462834 T-CGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGAT
1 TACGTGTAAGACCCTGTCTGGGACA-TGGCATCG-TATGTGAT
* *
34462876 TACATGTAAGACCAC-GTCTGGGACATTGGCATTGTATG
1 TACGTGTAAGACC-CTGTCTGGGACA-TGGCATCGTATG
34462914 ATATGTATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 28 0.41
42 14 0.20
43 26 0.38
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
TACGTGTAAGACCCTGTCTGGGACATGGCATCGTATGTGAT
Found at i:34463111 original size:18 final size:19
Alignment explanation
Indices: 34463077--34463114 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
34463067 GATGCAAATT
34463077 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
34463096 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
34463114 A
1 A
34463115 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:34480162 original size:13 final size:13
Alignment explanation
Indices: 34480144--34480168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34480134 GAATTGATAT
34480144 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34480157 GTGTGAAAATTT
1 GTGTGAAAATTT
34480169 TATTGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34487891 original size:27 final size:27
Alignment explanation
Indices: 34487858--34488036 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
34487848 ATATTGAGCC
* *
34487858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
34487885 CGTACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34487912 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34487940 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34487967 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
34487994 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
34488021 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
34488037 TACAATTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34488600 original size:13 final size:13
Alignment explanation
Indices: 34488582--34488606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34488572 TACTAAATTT
34488582 TCATGGATTCAAG
1 TCATGGATTCAAG
34488595 TCATGGATTCAA
1 TCATGGATTCAA
34488607 TTTACCATTA
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:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:34518134 original size:40 final size:40
Alignment explanation
Indices: 34518008--34518223 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
34517998 AAACCAAGTA
* *
34518008 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34518047 CCTTCGGGACTTAGCCCGGTTATAGTAACTCG-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34518086 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34518126 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34518166 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34518206 CCTT-GGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34518224 TTATCATCCG
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
39 65 0.39
40 100 0.61
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34518138 original size:79 final size:79
Alignment explanation
Indices: 34518008--34518227 Score: 331
Period size: 79 Copynumber: 2.8 Consensus size: 79
34517998 AAACCAAGTA
* *
34518008 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
34518072 TAACTCG-ACAAATG
65 TAACTCGCACAAATG
* *
34518086 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
34518151 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
34518166 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTT-GGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
34518228 CATCCGGATA
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
78 13 0.10
79 71 0.55
80 46 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
AACTCGCACAAATG
Found at i:34524135 original size:28 final size:27
Alignment explanation
Indices: 34524078--34524229 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
34524068 TAAATTGTGC
* *
34524078 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34524105 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34524133 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34524160 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
34524188 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34524215 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34524230 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34524143 original size:55 final size:55
Alignment explanation
Indices: 34524078--34524229 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
34524068 TAAATTGTGC
* *
34524078 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
34524133 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
34524188 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
34524230 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:34531508 original size:28 final size:27
Alignment explanation
Indices: 34531451--34531601 Score: 221
Period size: 27 Copynumber: 5.5 Consensus size: 27
34531441 TAAATTGTGC
* *
34531451 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34531478 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34531506 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34531533 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* * *
34531561 TGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34531588 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
34531602 AGACTTAATA
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 64 0.56
28 51 0.44
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34531516 original size:55 final size:55
Alignment explanation
Indices: 34531451--34531601 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
34531441 TAAATTGTGC
* *
34531451 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
34531506 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
34531561 TGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGC
34531602 AGACTTAATA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:34536276 original size:40 final size:40
Alignment explanation
Indices: 34536199--34536416 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
34536189 AAACCAAGTA
* *
34536199 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34536238 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34536278 CCTTCGGGACCTAGCCCGGATGTAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34536318 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34536358 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
34536398 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34536417 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 146 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34548898 original size:40 final size:40
Alignment explanation
Indices: 34548831--34549047 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 40
34548821 ACCCAAGTAT
* *
34548831 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
34548870 CTCCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
34548910 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGA
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* **** * **
34548950 TTTCTCAACATAGCCCGGATATAGCAACTCGCAGGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
34548990 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
34549030 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34549048 TTATCATCCG
Statistics
Matches: 146, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 131 0.90
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:34556829 original size:40 final size:40
Alignment explanation
Indices: 34556762--34556938 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
34556752 ACCCAAGTAT
*
34556762 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
34556801 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
34556841 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
34556881 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
34556921 CTTCAGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
34556939 TTATCATCCG
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 101 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:34560627 original size:47 final size:45
Alignment explanation
Indices: 34560574--34560694 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 45
34560564 TGGCCATGAT
34560574 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
34560621 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
*
34560666 ATGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
34560695 AAAGTGTGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 20 0.32
46 7 0.11
47 35 0.56
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:34560827 original size:39 final size:40
Alignment explanation
Indices: 34560768--34560852 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
34560758 AAATGAATTG
* * * * *
34560768 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
34560807 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
34560847 TGCTGG
1 TGCTGG
34560853 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:34562679 original size:45 final size:44
Alignment explanation
Indices: 34562515--34562690 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 44
34562505 ATTGTTGAGC
*
34562515 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
34562559 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
34562608 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
34562652 ACCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34562691 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 35 0.32
46 33 0.30
47 33 0.30
48 1 0.01
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:34566008 original size:40 final size:40
Alignment explanation
Indices: 34565950--34566267 Score: 537
Period size: 40 Copynumber: 8.0 Consensus size: 40
34565940 TGAGAGTTAG
34565950 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
*
34565990 ATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
34566030 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
*
34566070 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* * *
34566110 ATATCCGAGCTAAGTCTCGAAGAGCATTCGTGTTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* *
34566150 ACATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
*
34566190 ATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
* * *
34566230 ATATCCGGGTTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
34566268 ATGTGTATTC
Statistics
Matches: 265, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 265 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
Found at i:34569895 original size:47 final size:45
Alignment explanation
Indices: 34569842--34569962 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 45
34569832 TGGCCATGAT
34569842 ATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
34569889 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
*
34569934 ATGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
34569963 AAAGTGTGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 20 0.32
46 7 0.11
47 35 0.56
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:34570119 original size:40 final size:39
Alignment explanation
Indices: 34570036--34570120 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
34570026 AAATGAATTG
* * * **
34570036 TGCTGAGATTGTATCTGGGTTAGAGTCCCGCTAGCTTCG
1 TGCTGGGATTGTATCCGGGTTAAAGTCCCGCTAGCTTAA
34570075 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGC-AGGCTTAA
1 TGCTGGGATTGTATCCGGG-TTAAAGTCCCGCTA-GCTTAA
34570115 TGCTGG
1 TGCTGG
34570121 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (39 bp):
TGCTGGGATTGTATCCGGGTTAAAGTCCCGCTAGCTTAA
Found at i:34572557 original size:38 final size:40
Alignment explanation
Indices: 34572472--34572767 Score: 480
Period size: 40 Copynumber: 7.5 Consensus size: 40
34572462 AGTCCCAAGA
34572472 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
1 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
34572512 GAAGAGCATTCGTGCTGGTGTTAT-TCCGGGCT-AGTCTC
1 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
34572550 GAAGAGCATTCGTGCTGGTGTTATATCCCGGGCTAAGTCTC
1 GAAGAGCATTCGTGCTGGTGTTATAT-CCGGGCTAAGTCTC
34572591 GAAGAGCATTCGTG-TGGTGTTATCATCCGGGCTAAGTCTC
1 GAAGAGCATTCGTGCTGGTGTTAT-ATCCGGGCTAAGTCTC
*
34572631 GAAGAGCATTCGTGCTGGTGTTATATTCGGGCTAAGTCTC
1 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
34572671 GAAGAGCATTCGTGCTGGTGTTATAT-C-GGCTAAGTCTC
1 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
* *
34572709 GAAGAGCATTTCGTGCTGGTGTTATATTC-GGCTAGGTC-C
1 GAAGAGCA-TTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
*
34572748 GAAGAGCATTCATGCTGGTG
1 GAAGAGCATTCGTGCTGGTG
34572768 ATGTGTATTC
Statistics
Matches: 246, Mismatches: 3, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
38 60 0.24
39 37 0.15
40 118 0.48
41 31 0.13
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (40 bp):
GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCTC
Found at i:34576571 original size:46 final size:47
Alignment explanation
Indices: 34576451--34576573 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 47
34576441 TGTGGCCATG
*
34576451 ATATGTGATAAGGCCAAATGGCCAATGTGATGAATATGGAAGTGGAT
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGGAAGTGGAT
* * ** * *
34576498 ACATGTGATAAGGCCGGATGGTTAATGTGAT-TATATGTGTACGT-GA-
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATG-G-AAGTGGAT
*
34576544 ATATGTGATAAGGCCGAATGACCAATGTGA
1 ATATGTGATAAGGCCGAATGGCCAATGTGA
34576574 AAAGTGTGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
46 30 0.48
47 29 0.47
48 3 0.05
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGGAAGTGGAT
Found at i:34576720 original size:40 final size:40
Alignment explanation
Indices: 34576649--34576734 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
34576639 AAATGAATTG
* * * * *
34576649 TGCTGAGATTGTATCTGGGTTAGAGACCCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTAAAGACCCCGCAGGCTTAA
*
34576689 TGCTGGGATTGTATCCGGGTTTAAAG-TCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGG-TTAAAGACCCCGCAGGCTTAA
34576729 TGCTGG
1 TGCTGG
34576735 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.30
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTAAAGACCCCGCAGGCTTAA
Found at i:34577916 original size:37 final size:37
Alignment explanation
Indices: 34577858--34577960 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
34577848 CGAATAGTCC
* *
34577858 CCACACGTAGTTATCGAGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
34577895 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
34577932 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
34577961 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:34578159 original size:48 final size:48
Alignment explanation
Indices: 34578101--34578660 Score: 955
Period size: 48 Copynumber: 11.5 Consensus size: 48
34578091 ATATACACAC
* *
34578101 ATCTCCTACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34578149 ATCTCATACATATTTCACACTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
34578198 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
34578246 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC--AT--ATA---CAT
34578301 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
34578349 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34578397 ATCTCATACATATTTCACA-TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34578444 ATCTCATACATATTTCACA-TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
34578491 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34578539 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34578587 ATCTCATACATATTTCACACTTAGCC-TTCGGCTTTACCACACATATACAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTA-C-CACATATACAT
34578637 ATCTCATACATATTTCACACTAGC
1 ATCTCATACATATTTCACACTAGC
34578661 TTATAAGCAA
Statistics
Matches: 493, Mismatches: 7, Indels: 23
0.94 0.01 0.04
Matches are distributed among these distances:
47 94 0.19
48 258 0.52
49 58 0.12
50 33 0.07
51 3 0.01
52 3 0.01
53 2 0.00
55 42 0.09
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:34584292 original size:40 final size:39
Alignment explanation
Indices: 34584241--34584443 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 39
34584231 GATAACTGGA
* * ** *
34584241 CTAAGATCCGAAGGCATTTGTGCTAG-TGACTACATTTGGA
1 CTAAG-TCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
34584281 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAG-TCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
*
34584321 CTAAGTCCCGAAGGCATTTGTGCGAGTTGCTAAATCCGGG
1 CTAAGT-CCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
*
34584361 CTAAGTCTCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
1 CTAAGTC-CGAAGGCATTTGTGCGAGTTGCTATATCCGGG
34584401 CTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GG
1 CTAAGT-CCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
34584440 CTAA
1 CTAA
34584444 ATCCCAAAGG
Statistics
Matches: 150, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
39 8 0.05
40 139 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
Found at i:34595267 original size:40 final size:39
Alignment explanation
Indices: 34595121--34595305 Score: 230
Period size: 39 Copynumber: 4.7 Consensus size: 39
34595111 AAGTGACAAT
* * *
34595121 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATATTAA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
* *
34595161 TTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* *
34595200 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
*
34595239 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-A
*
34595280 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAG-CCCGAAGGCATTTG
34595306 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 72 0.55
40 56 0.43
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:34595319 original size:40 final size:39
Alignment explanation
Indices: 34595084--34595305 Score: 183
Period size: 39 Copynumber: 5.6 Consensus size: 39
34595074 TGAATGATGT
** * * *
34595084 CCGGGCTAAGTTTCGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
*
34595123 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-A-TATTAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTACTA-TAA
* *
34595161 TTCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
34595202 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
34595240 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
34595281 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34595306 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 15, Indels: 29
0.78 0.08 0.15
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 79 0.52
40 58 0.38
41 10 0.07
42 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:34595327 original size:79 final size:79
Alignment explanation
Indices: 34595169--34595338 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
34595159 AATTCTGGGC
* **
34595169 TAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
*
34595233 TACTAAATCCGGGT
66 GACTAAATCCGGGT
*
34595247 TAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG
1 TAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACG
*
34595310 AG-GAGCTATATCC-GGT
63 AGTGA-CTAAATCCGGGT
* *
34595326 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
34595339 TACGTGATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
78 7 0.09
79 47 0.59
80 25 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
GACTAAATCCGGGT
Found at i:34603140 original size:39 final size:40
Alignment explanation
Indices: 34603097--34603267 Score: 242
Period size: 39 Copynumber: 4.3 Consensus size: 40
34603087 AGACTAAGAT
*
34603097 CCGAAGGCATTTGTGCGAGATATTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
34603136 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
* * *
34603175 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
* *
34603215 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAGTC
34603255 CCGAAGGCATTTG
1 CCGAAGGCATTTG
34603268 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
39 74 0.62
40 46 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTC
Found at i:34603281 original size:40 final size:39
Alignment explanation
Indices: 34603049--34603267 Score: 195
Period size: 39 Copynumber: 5.6 Consensus size: 39
34603039 AATGATGTCC
* * * *
34603049 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCG
*
34603088 GACTAAGAT-CCGAAGGCATTTGTGCGAG-A-TATTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTACTA-TAA--CCG
*
34603128 GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-ACCG
34603167 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CCG
* *
34603206 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAACCG
*
34603246 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
34603268 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 13, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 78 0.51
40 58 0.38
41 10 0.07
42 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCG
Found at i:34603289 original size:79 final size:78
Alignment explanation
Indices: 34603097--34603290 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 78
34603087 AGACTAAGAT
** * * *
34603097 CCGAAGGCATTTGTGCGAGAT-ATTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTA
*
34603161 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** *
34603175 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGA-TACT
*
34603239 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
*
34603255 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
34603291 ATTCGAAGGT
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.36
79 39 0.39
80 25 0.25
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:34626933 original size:39 final size:39
Alignment explanation
Indices: 34626816--34626945 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
34626806 GGACTAAGAT
* * *
34626816 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* **
34626856 CCGAAGGCATTCGTGCGAATTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* *
34626896 CCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
34626935 CCGAAGGCATT
1 CCGAAGGCATT
34626946 TGAACGAGGA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 37 0.47
40 41 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:34626965 original size:79 final size:79
Alignment explanation
Indices: 34626816--34626980 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
34626806 GGACTAAGAT
* * ** ** *
34626816 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTA
**
34626881 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * * *
34626896 CCGAAGG-CATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTA
*
34626960 TATCCGGTTAAATC
66 AATCCGGTTAAATC
34626974 CCGAAGG
1 CCGAAGG
34626981 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAAGAGCTA
AATCCGGTTAAATC
Found at i:34638675 original size:30 final size:28
Alignment explanation
Indices: 34638621--34638679 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
34638611 CACATGAGAG
*
34638621 AGAAAAAAGAAAATAAAAGTGAAAAAGAA
1 AGAAAAAAGAAAATAAAAGAG-AAAAGAA
**
34638650 AGAAAAGAAGAAAATATGAGAGAAAAGAA
1 AGAAAA-AAGAAAATAAAAGAGAAAAGAA
34638679 A
1 A
34638680 ACGAGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (28 bp):
AGAAAAAAGAAAATAAAAGAGAAAAGAA
Found at i:34650514 original size:22 final size:22
Alignment explanation
Indices: 34650486--34650607 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
34650476 TTCCACATCC
34650486 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
34650508 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
34650532 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
34650555 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
34650579 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
34650602 ATCACA
1 ATCACA
34650608 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:34650521 original size:47 final size:47
Alignment explanation
Indices: 34650458--34650801 Score: 532
Period size: 47 Copynumber: 7.3 Consensus size: 47
34650448 CCCTTCGGGA
* * *
34650458 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
34650505 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
34650552 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
34650599 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
34650646 CTTATCACACATACT-CATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACATGTTCACATTCATCACATTGGCCATTCGGC
* *
34650693 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
34650740 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
34650787 CTTATCACATATATA
1 CTTATCACATATATA
34650802 TATACACTTT
Statistics
Matches: 276, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 274 0.99
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:34650712 original size:141 final size:141
Alignment explanation
Indices: 34650479--34650826 Score: 601
Period size: 141 Copynumber: 2.4 Consensus size: 141
34650469 TATACACTTC
* *
34650479 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATTGGC
34650544 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
66 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
34650609 ATACACATGTT
131 ATACACATGTT
34650620 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACT-CA-TGTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-TACACT-TTCACATTCATCACATTG
34650683 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
64 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
34650748 ACATACACATGTT
129 ACATACACATGTT
*
34650761 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACACTTTCACATTCATCACAT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC----ACATATACACTTTCACATTCATCACAT
34650826 T
62 T
34650827 CCAATGAATA
Statistics
Matches: 196, Mismatches: 3, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
140 1 0.01
141 169 0.86
142 1 0.01
144 1 0.01
145 23 0.12
146 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (141 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
ATACACATGTT
Found at i:34652263 original size:56 final size:56
Alignment explanation
Indices: 34652196--34652315 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34652186 TATTAGTTTA
34652196 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
34652252 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
34652308 TTGCCCAT
1 TTGCCCAT
34652316 TATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34666072 original size:96 final size:98
Alignment explanation
Indices: 34665905--34666137 Score: 310
Period size: 96 Copynumber: 2.4 Consensus size: 98
34665895 TACTAGGGTA
* ** * *
34665905 ATGAGAGCTAGTGTAAGACCATGTCTGGCACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
* ** *
34665970 ATCATGTTTGGAACATGGCATTGGCATTC-ATA-
66 ACCATGTTTGGAACATGGCATCAGCA-CCAATAT
* *
34666002 A-GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGGGCTAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
34666066 ACCATGTTTGGAACATGGCATCAGCACCAATAT
66 ACCATGTTTGGAACATGGCATCAGCACCAATAT
* **
34666099 ATGAGAGCCAGTGTAAGACCATGTCTAAGACATGGCATC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
34666138 GGCATCTTAC
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
95 1 0.01
96 82 0.69
97 2 0.02
98 34 0.29
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (98 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
ACCATGTTTGGAACATGGCATCAGCACCAATAT
Found at i:34666087 original size:48 final size:49
Alignment explanation
Indices: 34665909--34666137 Score: 225
Period size: 48 Copynumber: 4.7 Consensus size: 49
34665899 AGGGTAATGA
* ** *
34665909 GAGCTAGTGTAAGACCATGTCTGGCACATGGCATTGGC-CTCGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCACTCAATATGT
* * * ** * * *
34665957 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATTGGCATTC-ATAAGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCACTCAATATGT
* *
34666005 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCAACATGT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCACTCAATATGT
* * *
34666053 GGGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAC-CAATATATGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCACTC-A-ATATGT
* *
34666103 GAGCCAGTGTAAGACCATGTCT-AAGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATC
34666138 GGCATCTTAC
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 109 0.73
49 5 0.03
50 33 0.22
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCACTCAATATGT
Found at i:34668387 original size:40 final size:40
Alignment explanation
Indices: 34668343--34668604 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
34668333 GCTCCTCGTT
* *
34668343 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
34668383 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34668423 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34668462 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34668501 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
34668540 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
34668581 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34668605 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:34670814 original size:19 final size:19
Alignment explanation
Indices: 34670790--34670827 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34670780 GTATACATGT
34670790 GTTTAAATCTAGTAACGCC
1 GTTTAAATCTAGTAACGCC
34670809 GTTTAAATCTAGTAACGCC
1 GTTTAAATCTAGTAACGCC
34670828 TCGTACACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (19 bp):
GTTTAAATCTAGTAACGCC
Found at i:34676311 original size:43 final size:43
Alignment explanation
Indices: 34676218--34676376 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
34676208 GGTTATCGAG
* *
34676218 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCTTTGCA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
* * *
34676261 TTGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-CA
*** * * * * * *
34676305 AT-TGATTTTGTGCAAGACCCTATCTAGGACAGTGGCATTG-A
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
*
34676346 TATGTG-TTAACATGTAAGACCATATCTGGGA
1 -ATGTGATT-ACATGTAAGACCATGTCTGGGA
34676377 TATGACATTG
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 83 0.92
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCA
Found at i:34681316 original size:40 final size:40
Alignment explanation
Indices: 34681268--34681535 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
34681258 GCAAACACAT
* * *
34681268 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34681308 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34681348 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34681388 TTGCCTTCGGGTCGTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34681428 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
34681468 TTGCCTTCGGGTCCTAGCCCGGATATATCAATTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34681508 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
34681536 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:34690028 original size:25 final size:25
Alignment explanation
Indices: 34689999--34690050 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
34689989 AAACAACTAA
*
34689999 ATCAAGCCTAATTCATGTTAGTTCT
1 ATCAAGCCTAATTCATGCTAGTTCT
34690024 ATCAAGCCTAATTCATGCTAGTTCT
1 ATCAAGCCTAATTCATGCTAGTTCT
34690049 AT
1 AT
34690051 ACCATCGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (25 bp):
ATCAAGCCTAATTCATGCTAGTTCT
Found at i:34697914 original size:93 final size:93
Alignment explanation
Indices: 34697755--34697926 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34697745 CGCCCATAAG
* * * * *
34697755 CGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34697820 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
34697848 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34697913 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34697927 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:34697923 original size:46 final size:46
Alignment explanation
Indices: 34697748--34697923 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
34697738 TGTAACCCGC
* * * * *
34697748 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
34697794 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
34697844 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34697887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34697924 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.28
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34697942 original size:46 final size:44
Alignment explanation
Indices: 34697800--34697942 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 44
34697790 GCATCCATAG
*
34697800 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-A
* * * *
34697848 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTA
34697893 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTA
34697939 GTGA
1 GTGA
34697943 CATGTCACTT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 31 0.39
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTA
Found at i:34700357 original size:30 final size:30
Alignment explanation
Indices: 34700313--34700401 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
34700303 CAAAGATAAC
*
34700313 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
34700342 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
34700372 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
34700402 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:34700361 original size:15 final size:14
Alignment explanation
Indices: 34700313--34700395 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
34700303 CAAAGATAAC
*
34700313 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
34700327 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
34700342 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
34700357 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
34700372 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
34700387 AAGAAACCC
1 AAGAAACCC
34700396 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:34700401 original size:15 final size:15
Alignment explanation
Indices: 34700324--34700401 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
34700314 AGAAAACCGA
34700324 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
34700339 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
34700353 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
34700368 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34700384 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34700399 ATA
1 ATA
34700402 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:34703478 original size:46 final size:46
Alignment explanation
Indices: 34703316--34703491 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
34703306 TGTAACCCGC
* *** *
34703316 CTATAAGCGAACTCGGACTCAACTCAATGAGCTT-GGGTGTTCGCGT
1 CTATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * * * *
34703362 CCATAGGTGAACTCGGACTCTACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CTATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
34703412 -T-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CTATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34703455 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CTATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34703492 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.56
47 28 0.27
48 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (46 bp):
CTATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34703482 original size:93 final size:93
Alignment explanation
Indices: 34703323--34703494 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
34703313 CGCCTATAAG
* *** * * *
34703323 CGAACTCGGACTCAACTCAATGAGCTTGGGTGTTCGCGTCCATAGGTGAACTCGGACTCTACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34703388 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
34703416 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
34703480 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
34703495 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:34703510 original size:46 final size:45
Alignment explanation
Indices: 34703417--34703502 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
34703407 TACATTTCAC
* * *
34703417 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
34703463 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
34703503 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 8 0.22
46 28 0.78
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:34712649 original size:42 final size:42
Alignment explanation
Indices: 34712590--34712674 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
34712580 TACTAATTTG
* *
34712590 TACATAAATAGAAAATTTTGAAAATTAATCAAAATAAAAAGT
1 TACATAAATACAAAATTTTGAAAATTAATCAAAAGAAAAAGT
34712632 TACATAAATACAAAATTTTGAAAATTAATCAAAAGAAAAAGT
1 TACATAAATACAAAATTTTGAAAATTAATCAAAAGAAAAAGT
34712674 T
1 T
34712675 TAAAAAGACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (42 bp):
TACATAAATACAAAATTTTGAAAATTAATCAAAAGAAAAAGT
Found at i:34712755 original size:17 final size:18
Alignment explanation
Indices: 34712720--34712758 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34712710 GCAAAAATTG
* *
34712720 AAAAGCAAAGTGAATGAA
1 AAAAGCAAAGTAAAAGAA
34712738 AAAAGCAAAG-AAAAGAA
1 AAAAGCAAAGTAAAAGAA
34712755 AAAA
1 AAAA
34712759 TCCTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAGCAAAGTAAAAGAA
Found at i:34720067 original size:15 final size:15
Alignment explanation
Indices: 34720047--34720102 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
34720037 GTATCTTGGG
34720047 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
34720062 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
34720077 TTTCTCTA-TCTTTGA
1 TTTCTTTATTC-TGGA
34720092 TTTCTTTATTC
1 TTTCTTTATTC
34720103 GGTTTCCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:34725344 original size:27 final size:27
Alignment explanation
Indices: 34725296--34725347 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34725286 GTGAGGCTGC
*
34725296 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGATA
* * *
34725323 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACAAAGCCACCAGA
34725348 ACATCTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACAAAGCCACCAGATA
Found at i:34728780 original size:16 final size:17
Alignment explanation
Indices: 34728759--34728792 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
34728749 ATTAAATTAA
34728759 TTTTAATTAATT-ATTT
1 TTTTAATTAATTAATTT
34728775 TTTTAATTAATTAATTT
1 TTTTAATTAATTAATTT
34728792 T
1 T
34728793 CTCAATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATTAATTAATTT
Found at i:34734531 original size:40 final size:39
Alignment explanation
Indices: 34734466--34734551 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
34734456 TATATAAATA
**
34734466 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
34734506 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
34734545 TAGCCGA
1 TAGCCGA
34734552 TAAGTCGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Done.