Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 71 of 226
Found at i:26681335 original size:8 final size:8
Alignment explanation
Indices: 26681322--26681366 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
26681312 TTTCAAAAAT
26681322 AAAAATAA
1 AAAAATAA
26681330 AAAAATAA
1 AAAAATAA
*
26681338 AAATAAGCAA
1 AAA-AA-TAA
26681348 AACAAATAA
1 AA-AAATAA
26681357 AAAAATAA
1 AAAAATAA
26681365 AA
1 AA
26681367 TCTAACCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 19 0.59
9 6 0.19
10 6 0.19
11 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:26682106 original size:13 final size:13
Alignment explanation
Indices: 26682072--26682148 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
26682062 TAAATCAAAC
*
26682072 TTTTCAAAAGTACT
1 TTTTCAAAAGCA-T
*
26682086 TATT-AAAAGCAT
1 TTTTCAAAAGCAT
*
26682098 TTCTCAAAAGCAT
1 TTTTCAAAAGCAT
*
26682111 TTTTCCACAA-CACT
1 TTTT-CAAAAGCA-T
26682125 TTTT-AAAAGCAT
1 TTTTCAAAAGCAT
26682137 TTTTCAAAAGCA
1 TTTTCAAAAGCA
26682149 ATGTTAAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
12 11 0.22
13 28 0.55
14 12 0.24
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:26684844 original size:26 final size:26
Alignment explanation
Indices: 26684807--26684860 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
26684797 TTAAATTTAG
*
26684807 AAAGCACGGTAGTTAG-AACTTTCTGA
1 AAAGCACAGTAGTTAGTAA-TTTCTGA
26684833 AAAGCACAGTAGTTAGTAATTTCTGA
1 AAAGCACAGTAGTTAGTAATTTCTGA
26684859 AA
1 AA
26684861 CTATATTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (26 bp):
AAAGCACAGTAGTTAGTAATTTCTGA
Found at i:26692217 original size:42 final size:42
Alignment explanation
Indices: 26692163--26692252 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
26692153 AACATGTTTG
26692163 GATC-ATATTGCATGTAATTTCCATACCATACATCCATACAT
1 GATCTATATTGCATGTAATTTCCATACCATACATCCATACAT
26692204 GATCTATATTGCATGTAATTTCCATACCATACATCCATACAT
1 GATCTATATTGCATGTAATTTCCATACCATACATCCATACAT
26692246 GATCTAT
1 GATCTAT
26692253 GTCATTTGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (42 bp):
GATCTATATTGCATGTAATTTCCATACCATACATCCATACAT
Found at i:26695364 original size:20 final size:20
Alignment explanation
Indices: 26695339--26695386 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26695329 TACAATATAT
26695339 ATCAATTTTTTTTTCAAAA-A
1 ATCAATTTTTTTTT-AAAAGA
**
26695359 ATCAATTCATTTTTAAAAGA
1 ATCAATTTTTTTTTAAAAGA
26695379 ATC-ATTTT
1 ATCAATTTT
26695387 CCGACAACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (20 bp):
ATCAATTTTTTTTTAAAAGA
Found at i:26696475 original size:28 final size:28
Alignment explanation
Indices: 26696435--26696501 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
26696425 TTTTTTTTTT
*
26696435 TTTACAATTTTTTAAGAATAACCAAATA
1 TTTAGAATTTTTTAAGAATAACCAAATA
26696463 TTTAGAATTTTTTTAAGAATAACCAAATA
1 TTTAGAA-TTTTTTAAGAATAACCAAATA
26696492 TTTAGAATTT
1 TTTAGAATTT
26696502 CATCAAATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 9 0.24
29 28 0.76
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTAGAATTTTTTAAGAATAACCAAATA
Found at i:26696482 original size:29 final size:29
Alignment explanation
Indices: 26696442--26696501 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
26696432 TTTTTTACAA
26696442 TTTTTTAAGAATAACCAAATATTTAGAAT
1 TTTTTTAAGAATAACCAAATATTTAGAAT
26696471 TTTTTTAAGAATAACCAAATATTTAGAAT
1 TTTTTTAAGAATAACCAAATATTTAGAAT
26696500 TT
1 TT
26696502 CATCAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (29 bp):
TTTTTTAAGAATAACCAAATATTTAGAAT
Found at i:26698958 original size:26 final size:26
Alignment explanation
Indices: 26698929--26699035 Score: 160
Period size: 26 Copynumber: 4.1 Consensus size: 26
26698919 AACACACCAA
* * *
26698929 TATCGCAGCAAAACTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
*
26698955 TATCACAACAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
26698981 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
26699007 TATCGCAGCAAAGCTGCTAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
26699033 TAT
1 TAT
26699036 ACTTCCTCCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:26701658 original size:65 final size:65
Alignment explanation
Indices: 26701565--26701701 Score: 181
Period size: 65 Copynumber: 2.1 Consensus size: 65
26701555 TCCTCCACTC
* * * * *
26701565 GTGTGATCC-TAT-TTTGTAAATAGCGAGGTATATGGCCTGGACACACGCTCGTGTCCTTGGCCC
1 GTGTGAACCTTATATTTGTAAATAGCGAGGTACACGGCATGGACACACGCCCGTGTCCTTGG-CC
26701628 T
65 T
* *
26701629 -TGTGAACCTTATATTTGTAAATAGTGAGGTACACGGTATGGACACACGCCCGTGTCCTTGGCCT
1 GTGTGAACCTTATATTTGTAAATAGCGAGGTACACGGCATGGACACACGCCCGTGTCCTTGGCCT
26701693 GTGTGAACC
1 GTGTGAACC
26701702 CTACACTAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 7 0.11
64 6 0.10
65 50 0.79
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGTGAACCTTATATTTGTAAATAGCGAGGTACACGGCATGGACACACGCCCGTGTCCTTGGCCT
Found at i:26702344 original size:6 final size:6
Alignment explanation
Indices: 26702334--26702384 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
26702324 GAAGAAGAAT
26702334 AAAAATG AAAAAG -AAAAG AAAAAG AAAAAG AAAAAG --AAAG AAAAATG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G
26702381 AAAA
1 AAAA
26702385 GAGGCAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.10
5 5 0.12
6 21 0.52
7 10 0.25
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:26702356 original size:12 final size:12
Alignment explanation
Indices: 26702341--26702386 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
26702331 AATAAAAATG
26702341 AAAAAGAAAAG-
1 AAAAAGAAAAGA
26702352 AAAAAGAAAA-A
1 AAAAAGAAAAGA
26702363 GAAAAAG-AAAGA
1 -AAAAAGAAAAGA
*
26702375 AAAATGAAAAGA
1 AAAAAGAAAAGA
26702387 GGCAAGAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 18 0.60
12 12 0.40
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:26702360 original size:17 final size:17
Alignment explanation
Indices: 26702334--26702386 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
26702324 GAAGAAGAAT
26702334 AAAAATGAAAAAGAAAAG
1 AAAAA-GAAAAAGAAAAG
26702352 AAAAAGAAAAAGAAAA-
1 AAAAAGAAAAAGAAAAG
*
26702368 AGAAAGAAAAATGAAAAG
1 AAAAAGAAAAA-GAAAAG
26702386 A
1 A
26702387 GGCAAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.31
17 16 0.50
18 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:26702366 original size:23 final size:23
Alignment explanation
Indices: 26702325--26702384 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
26702315 AAAGGAATAG
* *
26702325 AAGAAGAATAAAAATGAAAAAGAA
1 AAGAAAAAGAAAAATGAAAAAG-A
26702349 AAGAAAAAGAAAAA-GAAAAAGA
1 AAGAAAAAGAAAAATGAAAAAGA
26702371 AAGAAAAATGAAAA
1 AAGAAAAA-GAAAA
26702385 GAGGCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 9 0.27
23 12 0.36
24 12 0.36
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (23 bp):
AAGAAAAAGAAAAATGAAAAAGA
Found at i:26706006 original size:18 final size:18
Alignment explanation
Indices: 26705983--26706022 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
26705973 ATATTTTTTA
26705983 TTTTTTCTTTTATTCA-TT
1 TTTTTTCTTTT-TTCACTT
*
26706001 TTTTTTGTTTTTTCACTT
1 TTTTTTCTTTTTTCACTT
26706019 TTTT
1 TTTT
26706023 GATAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTTTTTCACTT
Found at i:26709197 original size:21 final size:21
Alignment explanation
Indices: 26709152--26709191 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26709142 CAGGTTTTAA
*
26709152 GTTTCAAATTTTGAGTTTTGG
1 GTTTCAAATTTTGAGATTTGG
26709173 GTTTCAAATTTTG-GATTTG
1 GTTTCAAATTTTGAGATTTG
26709192 ATGTTTTTTC
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:0.05, G:0.23, T:0.53
Consensus pattern (21 bp):
GTTTCAAATTTTGAGATTTGG
Found at i:26710960 original size:18 final size:18
Alignment explanation
Indices: 26710939--26710979 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
26710929 AGAAAATATC
* *
26710939 AACTAAAAATCAAATTTA
1 AACTAAAAATAAAATTCA
*
26710957 AACTAAAGATAAAATTCA
1 AACTAAAAATAAAATTCA
26710975 AACTA
1 AACTA
26710980 TTTATAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (18 bp):
AACTAAAAATAAAATTCA
Found at i:26711251 original size:19 final size:19
Alignment explanation
Indices: 26711227--26711263 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26711217 TCAAAGGTCC
26711227 AATTAACTAAGGTTTAATT
1 AATTAACTAAGGTTTAATT
*
26711246 AATTAATTAAGGTTTAAT
1 AATTAACTAAGGTTTAAT
26711264 CCAAGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTAACTAAGGTTTAATT
Found at i:26713338 original size:3 final size:3
Alignment explanation
Indices: 26713325--26713385 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
26713315 ATACAATATC
*
26713325 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26713373 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
26713386 GTACTACTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:26713698 original size:14 final size:14
Alignment explanation
Indices: 26713662--26713698 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26713652 TTTCATATTT
*
26713662 TCTACATACATATA
1 TCTACATATATATA
*
26713676 TATACATATATATA
1 TCTACATATATATA
26713690 TCTACATAT
1 TCTACATAT
26713699 TTTAATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (14 bp):
TCTACATATATATA
Found at i:26717390 original size:18 final size:19
Alignment explanation
Indices: 26717353--26717393 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26717343 GCGCGTGTAG
*
26717353 CGCCTCCGCGCCAAAGCCA
1 CGCCTCCGAGCCAAAGCCA
*
26717372 CGCCTCCGAGCC-GAGCCA
1 CGCCTCCGAGCCAAAGCCA
26717390 CGCC
1 CGCC
26717394 ACCAGGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.17, C:0.54, G:0.24, T:0.05
Consensus pattern (19 bp):
CGCCTCCGAGCCAAAGCCA
Found at i:26723826 original size:7 final size:6
Alignment explanation
Indices: 26723798--26723825 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26723788 GAAAATATGA
26723798 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
26723826 ATAGAGAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:26725300 original size:43 final size:43
Alignment explanation
Indices: 26725048--26725292 Score: 393
Period size: 43 Copynumber: 5.7 Consensus size: 43
26725038 AATATTGCGG
*
26725048 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGACGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
26725091 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTATGTGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
26725134 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGAGGCGG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
*
26725177 ATCTTATCTTCCCTAGGAGTAGGGAAACAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
26725220 ATCTTATTTTCCCCAGGAGTAGGGAAACATATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
*
26725263 ATCTTAT-TCTCCCCAAGAGTAGGGAAACAG
1 ATCTTATCT-TCCCCAGGAGTAGGGAAACAG
26725293 CTTTAAGCCA
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 1 0.01
43 186 0.99
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
Found at i:26725712 original size:45 final size:43
Alignment explanation
Indices: 26725435--26725818 Score: 163
Period size: 44 Copynumber: 8.8 Consensus size: 43
26725425 AAGCCAGGAG
* * * * * *
26725435 TCTTATCCCCCTGAGGTCACAGTGGGGCAGATTGAAG-AAGCAAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTGA-C-AA
* * * *
26725479 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAGTCAATAA
1 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGATCGAAGT-GACAA
* * * * ** * *
26725523 TCATATCTCCCTAAAGTTGCAATGGAG-AGGATTAAAGTAATAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCA-GATCGAAGTGACA-A
* * * ** *
26725567 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATC-ACA-T--CAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGA-AGTGACA-A
* * * *
26725608 TCTTATCTCCCTGAAGTTACAGTGGAGCA-AACTAAGTAAGCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTGA-CA-A
* * *
26725652 TCTTATCTCGACTGAAGTTGCAGTGGGGCAGATCGAAGATGACCAA
1 TCTTATCTC-CCTGAAGTTACAGTGGAGCAGATCGAAG-TGA-CAA
* * *
26725698 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAG-TGACAA
* ** * ** * *
26725742 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTGACA-A
* * * *
26725786 TCTTATCTCTCTGAAGTTGCAATAGAGCAGATC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATC
26725819 ACATCAAGTC
Statistics
Matches: 270, Mismatches: 53, Indels: 34
0.76 0.15 0.10
Matches are distributed among these distances:
40 3 0.01
41 28 0.10
43 11 0.04
44 163 0.60
45 45 0.17
46 16 0.06
47 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGTGACAA
Found at i:26730986 original size:21 final size:22
Alignment explanation
Indices: 26730950--26730991 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26730940 TGGTTAATAT
26730950 TTAAAAATTTTATGAACATTTC
1 TTAAAAATTTTATGAACATTTC
* *
26730972 TTAAAAGTTTT-TGAATATTT
1 TTAAAAATTTTATGAACATTT
26730992 TAATAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (22 bp):
TTAAAAATTTTATGAACATTTC
Found at i:26735278 original size:34 final size:35
Alignment explanation
Indices: 26735232--26735303 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 35
26735222 ATAGAAGTAA
**
26735232 ATTATTTTTGTGTTTGACGTTGATACTATCGATCT
1 ATTATTTTTGTGTTTGAAATTGATACTATCGATCT
*
26735267 ATTA-TTTTGTGTTTGAAATTGATGCTATCGATCT
1 ATTATTTTTGTGTTTGAAATTGATACTATCGATCT
26735301 ATT
1 ATT
26735304 GGCGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (35 bp):
ATTATTTTTGTGTTTGAAATTGATACTATCGATCT
Found at i:26758896 original size:6 final size:7
Alignment explanation
Indices: 26758879--26758903 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26758869 TGGAAATTTC
26758879 AAAAAAT
1 AAAAAAT
26758886 AAAAAAT
1 AAAAAAT
26758893 AAAAAAT
1 AAAAAAT
26758900 AAAA
1 AAAA
26758904 GAAAGGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:26759446 original size:21 final size:22
Alignment explanation
Indices: 26759420--26759462 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
26759410 AGAACAGGTT
*
26759420 TTTAGCGGCGTTTTTTA-AGCC
1 TTTAGCGGCGCTTTTTAGAGCC
26759441 TTTAGCGGCGCTTTTTAGAGCC
1 TTTAGCGGCGCTTTTTAGAGCC
26759463 ACTAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
TTTAGCGGCGCTTTTTAGAGCC
Found at i:26759697 original size:86 final size:87
Alignment explanation
Indices: 26759595--26759819 Score: 244
Period size: 87 Copynumber: 2.6 Consensus size: 87
26759585 ATAAAAAAAG
* * *
26759595 CGCCGCTAAAGGTCATGTACTTTAGCGGCGC-TTATTCCGCAAACGCCGCTAAAGATCATGTTC-
1 CGCCGCTAAAGATCATGTACTTTAGCGGCGCTTTA-TCCACAAACGCCACTAAAGATCATGTTCT
*
26759658 TTTAGCGACGCTTTTTTTG-CAAA
65 TTTAGCGACGC-TTTTCTGACAAA
* * *
26759681 TGCCGCTAAAGATCATGTTA-TTTGGCGGCGCTTTATCCACAAACGCCACTAAAGGTCATGTTCT
1 CGCCGCTAAAGATCATG-TACTTTAGCGGCGCTTTATCCACAAACGCCACTAAAGATCATGTTCT
* *
26759745 TTTAGTGGCGCTTTTCTGACAAA
65 TTTAGCGACGCTTTTCTGACAAA
* * * ** *
26759768 CGCCGTTAAAGACCATG-ACCTTTAGCGGCGCTTTTTTTAAAAACGCCACTAA
1 CGCCGCTAAAGATCATGTA-CTTTAGCGGCGCTTTATCCACAAACGCCACTAA
26759820 TTTTGGTAGA
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
85 1 0.01
86 56 0.48
87 59 0.51
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
CGCCGCTAAAGATCATGTACTTTAGCGGCGCTTTATCCACAAACGCCACTAAAGATCATGTTCTT
TTAGCGACGCTTTTCTGACAAA
Found at i:26759767 original size:44 final size:42
Alignment explanation
Indices: 26759550--26759802 Score: 229
Period size: 43 Copynumber: 5.9 Consensus size: 42
26759540 TTATTTTTAT
* * * ****
26759550 AAACACCGCTAAAGGTCATGTTCTTTAGCGGCGC-TATAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCTGC
* * *
26759591 AAAGCGCCGCTAAAGGTCATGTACTTTAGCGGCGCTTATTCCGC
1 AAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-TTCTGC
* *
26759635 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTTTGC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTTTCTGC
* * * **
26759678 AAATGCCGCTAAAGATCATGTTATTTGGCGGCGCTTTATCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT-TCTGC
* * *
26759721 AAACGCCACTAAAGGTCATGTTCTTTTAGTGGCGCTTTTCTGAC
1 AAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTCTG-C
* * **
26759765 AAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTT
26759803 TTTAAAAACG
Statistics
Matches: 171, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
41 3 0.02
42 32 0.19
43 100 0.58
44 36 0.21
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCTGC
Found at i:26759791 original size:130 final size:128
Alignment explanation
Indices: 26759555--26759805 Score: 317
Period size: 130 Copynumber: 1.9 Consensus size: 128
26759545 TTTATAAACA
* * *
26759555 CCGCTAAAGGTCATGTTCTTTAGCGGCGCTATAAAAAAAGCGCCGCTAAAGGTCATGTACTTTAG
1 CCGCTAAAGATCATGTTATTTAGCGGCGCTATAAAAAAAGCGCCACTAAAGGTCATGTACTTTAG
* **
26759620 CGGCGCTTATTCCGCAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTTTGCAAATG
66 CGGCGCTTATTCCGCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTTGCAAATG
* ** * *
26759683 CCGCTAAAGATCATGTTATTTGGCGGCGCTTTATCCACAAA-CGCCACTAAAGGTCATGTTCTTT
1 CCGCTAAAGATCATGTTATTTAGCGGCGC--TATAAAAAAAGCGCCACTAAAGGTCATGTAC-TT
* * * *
26759747 TAGTGGCGCTT-TTCTGACAAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTTTT
63 TAGCGGCGCTTATTCCG-CAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTT
26759806 AAAAACGCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
128 26 0.25
129 22 0.21
130 56 0.54
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (128 bp):
CCGCTAAAGATCATGTTATTTAGCGGCGCTATAAAAAAAGCGCCACTAAAGGTCATGTACTTTAG
CGGCGCTTATTCCGCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTTTTGCAAATG
Found at i:26761946 original size:16 final size:17
Alignment explanation
Indices: 26761921--26761961 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
26761911 TGTAATTAAG
**
26761921 TTATGT-AAGTTGTGTA
1 TTATGTAAAGTTAAGTA
26761937 TTAT-TAAAGTTAAGTA
1 TTATGTAAAGTTAAGTA
26761953 TTATGTAAA
1 TTATGTAAA
26761962 TTATTTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
TTATGTAAAGTTAAGTA
Found at i:26761946 original size:25 final size:25
Alignment explanation
Indices: 26761918--26761990 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
26761908 TAATGTAATT
26761918 AAGTTATGTAAGTTGTGTATTATTA
1 AAGTTATGTAAGTTGTGTATTATTA
* * *
26761943 AAGTTAAGT-A-TTATGTAAATTATTT
1 AAGTTATGTAAGTTGTGT--ATTATTA
*
26761968 AAGTTATGTAAGTGGTGTATTAT
1 AAGTTATGTAAGTTGTGTATTAT
26761991 GTAAGAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.13
24 1 0.03
25 27 0.71
26 1 0.03
27 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (25 bp):
AAGTTATGTAAGTTGTGTATTATTA
Found at i:26762034 original size:16 final size:16
Alignment explanation
Indices: 26762010--26762172 Score: 65
Period size: 16 Copynumber: 10.0 Consensus size: 16
26762000 AATAAAAAAT
*
26762010 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
26762026 TTATGTAAG---TGTA
1 TTATGTAAGTTATGTA
*
26762039 -TATATAAGTTATGATA
1 TTATGTAAGTTATG-TA
*
26762055 TGAT-TGATAGATT-TG-A
1 TTATGT-A-AG-TTATGTA
26762071 GTTATGTAAGTTATGATA
1 -TTATGTAAGTTATG-TA
* *
26762089 TGATTTATAAGTTATGTA
1 T--TATGTAAGTTATGTA
* *
26762107 TAATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
26762124 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
26762140 TTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
26762157 TTATGCAAGTCATGTA
1 TTATGTAAGTTATGTA
26762173 GGCTATGTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 40
0.66 0.10 0.24
Matches are distributed among these distances:
12 7 0.06
13 4 0.04
15 4 0.04
16 51 0.46
17 12 0.11
18 19 0.17
19 13 0.12
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:26762082 original size:9 final size:9
Alignment explanation
Indices: 26762070--26762334 Score: 100
Period size: 9 Copynumber: 30.4 Consensus size: 9
26762060 GATAGATTTG
26762070 AGTTATGTA
1 AGTTATGTA
26762079 AGTTATGATA
1 AGTTATG-TA
* *
26762089 TGATT-TATA
1 AG-TTATGTA
26762098 AGTTATGT-
1 AGTTATGTA
*
26762106 A-TAATGTA
1 AGTTATGTA
*
26762114 AGTTATGAA
1 AGTTATGTA
26762123 AGTTATGT-
1 AGTTATGTA
26762131 A-TTATGTA
1 AGTTATGTA
*
26762139 ATTTATGTA
1 AGTTATGTA
*
26762148 AGTTGTGT-
1 AGTTATGTA
*
26762156 A-TTATGCA
1 AGTTATGTA
*
26762164 AGTCATGTA
1 AGTTATGTA
* *
26762173 GGCTATGT-
1 AGTTATGTA
26762181 A-TTATGTA
1 AGTTATGTA
26762189 AGTTAT-TA
1 AGTTATGTA
*
26762197 TGTTATTATGTA
1 AG---TTATGTA
*
26762209 AGTTATGAA
1 AGTTATGTA
*
26762218 AGTTATATATA
1 AG-T-TATGTA
26762229 AGTTAT-TA
1 AGTTATGTA
**
26762237 A-AAATGT-
1 AGTTATGTA
26762244 A-TTATGTA
1 AGTTATGTA
*
26762252 ATTTATGTA
1 AGTTATGTA
*
26762261 AGTTGTGT-
1 AGTTATGTA
*
26762269 A-TTATGCA
1 AGTTATGTA
*
26762277 AGTCATGTA
1 AGTTATGTA
* *
26762286 GGCTATGT-
1 AGTTATGTA
26762294 A-TTATGTA
1 AGTTATGTA
26762302 AGTTAT-TA
1 AGTTATGTA
*
26762310 TGTTATTATGTA
1 AG---TTATGTA
*
26762322 AGTTATGAA
1 AGTTATGTA
26762331 AGTT
1 AGTT
26762335 GTATATAAGT
Statistics
Matches: 186, Mismatches: 42, Indels: 56
0.65 0.15 0.20
Matches are distributed among these distances:
7 36 0.19
8 23 0.12
9 99 0.53
10 6 0.03
11 16 0.09
12 6 0.03
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:26762130 original size:25 final size:25
Alignment explanation
Indices: 26762096--26762334 Score: 179
Period size: 25 Copynumber: 10.2 Consensus size: 25
26762086 ATATGATTTA
*
26762096 TAAGTTATGTATAATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
26762121 AAAGTTATGTATTATGTAATTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
26762146 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
26762171 TAGGCTATGTATTATGTAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
*
26762195 T-A--TGT-TATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
26762216 AAAGTTA--TA-TA--TAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
** *
26762235 TAA-AAATGTATTATGTAATTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
26762259 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
26762284 TAGGCTATGTATTATGTAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
*
26762308 T-A--TGT-TATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
26762329 AAAGTT
1 TAAGTT
26762335 GTATATAAGT
Statistics
Matches: 164, Mismatches: 35, Indels: 31
0.71 0.15 0.13
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 40 0.24
21 6 0.04
22 4 0.02
23 9 0.05
24 7 0.04
25 95 0.58
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:26762198 original size:113 final size:112
Alignment explanation
Indices: 26762072--26762354 Score: 403
Period size: 113 Copynumber: 2.5 Consensus size: 112
26762062 TAGATTTGAG
* * * * * *
26762072 TTATGTAAGTTATGATATGATT-TATAAGTTATG-TA-TA-ATGTAAGTTATGAAAGTTATGTAT
1 TTATGTAAGTTATTATGTTATTATATAAGTTATGAAAGTATATATAAGTTATGAAA--AATGTAT
26762133 TATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTA
64 TATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTA
* *
26762182 TTATGTAAGTTATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATGTATT
1 TTATGTAAGTTATTATGTTATTATATAAGTTATGAAAG-TATATATAAGTTATGAAAAATGTATT
26762247 ATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTA
65 ATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTA
* * *
26762295 TTATGTAAGTTATTATGTTATTATGTAAGTTATGAAAGTTGTATATAAGTTATTAAAAAT
1 TTATGTAAGTTATTATGTTATTATATAAGTTATGAAAG-TATATATAAGTTATGAAAAAT
26762355 ATATATAAAT
Statistics
Matches: 159, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
110 19 0.12
111 10 0.06
112 1 0.01
113 114 0.72
114 2 0.01
115 13 0.08
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (112 bp):
TTATGTAAGTTATTATGTTATTATATAAGTTATGAAAGTATATATAAGTTATGAAAAATGTATTA
TGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTA
Found at i:26762205 original size:20 final size:21
Alignment explanation
Indices: 26762176--26762328 Score: 93
Period size: 20 Copynumber: 7.0 Consensus size: 21
26762166 TCATGTAGGC
26762176 TATG-TATTATGTAAGTTAT-
1 TATGTTATTATGTAAGTTATG
26762195 TATGTTATTATGTAAGTTATG
1 TATGTTATTATGTAAGTTATG
* * *
26762216 AAAGTTA-TATATAAGTTAT-
1 TATGTTATTATGTAAGTTATG
*
26762235 TAAAAATG-TATTATGTAATTTATG
1 T----ATGTTATTATGTAAGTTATG
* *
26762259 TAAGTTGTGTATTATGCAAGTCATG
1 T-A--TGT-TATTATGTAAGTTATG
*
26762284 TAGGCTATGTATTATGTAAGTTAT-
1 TA---TGT-TATTATGTAAGTTATG
26762308 TATGTTATTATGTAAGTTATG
1 TATGTTATTATGTAAGTTATG
26762329 AAAGTTGTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
19 4 0.04
20 41 0.39
21 9 0.09
22 2 0.02
23 14 0.13
24 4 0.04
25 31 0.30
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (21 bp):
TATGTTATTATGTAAGTTATG
Found at i:26762370 original size:20 final size:19
Alignment explanation
Indices: 26762336--26762379 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
26762326 ATGAAAGTTG
*
26762336 TATATAAGTTATTAAAAATA
1 TATATAAATTATT-AAAATA
* *
26762356 TATATAAATTTTTAATATA
1 TATATAAATTATTAAAATA
26762375 TATAT
1 TATAT
26762380 TAAAAATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATAAATTATTAAAATA
Found at i:26762398 original size:42 final size:42
Alignment explanation
Indices: 26762351--26762433 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
26762341 AAGTTATTAA
* *
26762351 AAATA-TATATAAATTTTTAA-TATATATATTAAAAATGTATAT
1 AAATATTA-ATAAATTATTAAGT-TATATACTAAAAATGTATAT
* *
26762393 AAATATTAATAAGTTATTAAGTTATATACTAAAAATTTATA
1 AAATATTAATAAATTATTAAGTTATATACTAAAAATGTATA
26762434 AGTTATGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (42 bp):
AAATATTAATAAATTATTAAGTTATATACTAAAAATGTATAT
Found at i:26762435 original size:30 final size:30
Alignment explanation
Indices: 26762388--26762448 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
26762378 ATTAAAAATG
* *
26762388 TATATAAATATTAATAAGTTAT-TAAGTTA
1 TATATAAAAATTAATAAGTTATGTAAATTA
*
26762417 TATACTAAAAATTTATAAGTTATGTAAATTA
1 TATA-TAAAAATTAATAAGTTATGTAAATTA
26762448 T
1 T
26762449 GCAAGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (30 bp):
TATATAAAAATTAATAAGTTATGTAAATTA
Found at i:26764527 original size:22 final size:22
Alignment explanation
Indices: 26764502--26764551 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
26764492 AGTGCCTAGA
26764502 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
26764524 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
26764546 CTAAAA
1 CTAAAA
26764552 TAAACTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (22 bp):
CTAAAAAAGGTTCAAAGTTGCC
Found at i:26765483 original size:104 final size:105
Alignment explanation
Indices: 26765362--26765556 Score: 297
Period size: 105 Copynumber: 1.9 Consensus size: 105
26765352 GCAATTTCAA
*
26765362 TTTGAACAAAACGACGCCGTATTGCTATGCACA-AATTTT-TTTATT-TTTTTTATAATTTGATT
1 TTTGAACAAAACGACGCCGTATTGCTATGCAAATAATTTTATTT-TTATTTTTTATAATTTGATT
* *
26765424 TATTTTTTTGCGGCGTTTTTATGAAAAACGATGCTATTTGAT
65 T-TTATTTTGCGGCGTTTTTATAAAAAACGATGCTATTTGAT
* * *
26765466 TTTGAACAAAATGACGCCGTTTTGCTATGCAAATAATTTTATTTTTATTTTTTATAATTTTATTT
1 TTTGAACAAAACGACGCCGTATTGCTATGCAAATAATTTTATTTTTATTTTTTATAATTTGATTT
26765531 TTATTTTGCGGCGTTTTTATAAAAAA
66 TTATTTTGCGGCGTTTTTATAAAAAA
26765557 ATGCCGCTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
104 30 0.37
105 32 0.39
106 20 0.24
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (105 bp):
TTTGAACAAAACGACGCCGTATTGCTATGCAAATAATTTTATTTTTATTTTTTATAATTTGATTT
TTATTTTGCGGCGTTTTTATAAAAAACGATGCTATTTGAT
Found at i:26765522 original size:21 final size:21
Alignment explanation
Indices: 26765498--26765537 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
26765488 TGCTATGCAA
26765498 ATAATTTTATTTTTATTTTTT
1 ATAATTTTATTTTTATTTTTT
26765519 ATAATTTTATTTTTATTTT
1 ATAATTTTATTTTTATTTT
26765538 GCGGCGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
ATAATTTTATTTTTATTTTTT
Found at i:26765808 original size:137 final size:137
Alignment explanation
Indices: 26765528--26765782 Score: 308
Period size: 137 Copynumber: 1.9 Consensus size: 137
26765518 TATAATTTTA
*
26765528 TTTTTA-TTTTGCGGCGTTTTTATAAAAAAATGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCA
1 TTTTTATTTTTGCGGCATTTTTATAAAAAAATGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCA
* * * ***
26765592 CAACACCCGCCGCAAAATATTATTTCATTTTGCAACCAATGACGCCGTTTTGCTATTTTGTTTTC
66 CAACACACGCCGCAAAATATTATTTCATTATGCAACAAATGACGCCGTTTTGCTATTAAATTTTC
26765657 TATAAAT
131 TATAAAT
* * *
26765664 TGATTTATTTCTTGCGGCATTTTTATAGAAAACT-CCGCTATTTG-TTATCTTTTGCGGCGTTTT
1 T-TTTTATTT-TTGCGGCATTTTTATAAAAAAATGCCGCTA-TTGCTTATCTTTTGCGGCGTTTT
*
26765727 T-ATGCAA-A-ACGCTGCAAAATATTATTTCATTATG-AACAAAATGACGCCGTTTTGCT
63 TCA--CAACACACGCCGCAAAATATTATTTCATTATGCAAC-AAATGACGCCGTTTTGCT
26765783 CTGCTAAATT
Statistics
Matches: 104, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
136 4 0.04
137 45 0.43
138 29 0.28
139 26 0.25
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (137 bp):
TTTTTATTTTTGCGGCATTTTTATAAAAAAATGCCGCTATTGCTTATCTTTTGCGGCGTTTTTCA
CAACACACGCCGCAAAATATTATTTCATTATGCAACAAATGACGCCGTTTTGCTATTAAATTTTC
TATAAAT
Found at i:26766440 original size:114 final size:114
Alignment explanation
Indices: 26766219--26766690 Score: 599
Period size: 114 Copynumber: 4.1 Consensus size: 114
26766209 AGCGCTTCCC
* ** * * * *
26766219 CAAAAACGCTGCTAAAGCCCTCAGCATTAGCGACGCTTTTTTAAGAAACACCGCTAAATCCCCGA
1 CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGC-TTCCTAAAAAACGCCACTAAATCCGCGA
*
26766284 AAGCTCAGAAAACGGCGTCGTTGGGCTAATGTCTTTTTGCGGCGCTTTAT
65 AAGCTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGCGCTTTAT
* * * *
26766334 CAAAAACGCCGTTAAAGCCCTGAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATTCGTGAA
1 CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCCGCGAA
* * * *
26766399 AGCTCAGAAAACGGTGTCGTTGGCCTTA-GTTTATTTTGCGGCGCTTCAT
66 AGCTCAGAAAACGGCGTCGTTGGGCTTATGTCT-TTTTGCGGCGCTTTAT
* * * * *
26766448 CAAAAACGCCACTAAAGCCCTCAGCATTAGCGGCGCTTCCTTAAGAAACGCCGCTAAATCCACGA
1 CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGCTTCC-TAAAAAACGCCACTAAATCCGCGA
* * *
26766513 AAGCTTAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGCTTTCT
65 AAGCTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGCGCTTTAT
* * * *
26766563 CAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAAACGCCACTAAATCTGCGAA
1 CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCCGCGAA
* * *
26766628 AGCTCAGAAAACGACGTCGTTGGGCTTAGGT-TTTTTGCGGCGCTTT-C
66 AGCTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGCGCTTTAT
*
26766675 CGAAAAACACCGCTAA
1 C-AAAAACGCCGCTAA
26766691 TACTATTTTT
Statistics
Matches: 308, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
112 1 0.00
113 30 0.10
114 145 0.47
115 129 0.42
116 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (114 bp):
CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCCGCGAA
AGCTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGCGCTTTAT
Found at i:26766611 original size:229 final size:228
Alignment explanation
Indices: 26766210--26766672 Score: 712
Period size: 229 Copynumber: 2.0 Consensus size: 228
26766200 NNNNNNNGCA
* ** **
26766210 GCGCTTCCCCAAAAACGCTGCTAAAGCCCTCAGCATTAGCGACGCTTTTTTAAGAAACACCGCTA
1 GCGCTTCACCAAAAACGCCACTAAAGCCCTCAGCATTAGCGACGCTTCCTTAAGAAACACCGCTA
* *
26766275 AATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTAATGTCTTTTTGCGGCGCTTTATCAAAAA
66 AATCCACGAAAGCTCAGAAAACGGCGTCGTTGGACTAATGTCTTTTTGCGGCGCTTTATCAAAAA
* *
26766340 CGCCGTTAAAGCCCTGAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAAT-TCGTGAAAGCTC
131 CGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCT-GCGAAAGCTC
** *
26766404 AGAAAACGGTGTCGTTGGCCTTAGTTTATTTTGCG
195 AGAAAACGACGTCGTTGGCCTTAGGTT-TTTTGCG
* * *
26766439 GCGCTTCATCAAAAACGCCACTAAAGCCCTCAGCATTAGCGGCGCTTCCTTAAGAAACGCCGCTA
1 GCGCTTCACCAAAAACGCCACTAAAGCCCTCAGCATTAGCGACGCTTCCTTAAGAAACACCGCTA
* * *
26766504 AATCCACGAAAGCTTAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGCTTTCTCAAAAA
66 AATCCACGAAAGCTCAGAAAACGGCGTCGTTGGACTAATGTCTTTTTGCGGCGCTTTATCAAAAA
* *
26766569 TGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAAACGCCACTAAATCTGCGAAAGCTCA
131 CGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCTGCGAAAGCTCA
*
26766634 GAAAACGACGTCGTTGGGCTTAGGTTTTTTGCG
196 GAAAACGACGTCGTTGGCCTTAGGTTTTTTGCG
26766667 GCGCTT
1 GCGCTT
26766673 TCCGAAAAAC
Statistics
Matches: 212, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
228 13 0.06
229 198 0.93
230 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (228 bp):
GCGCTTCACCAAAAACGCCACTAAAGCCCTCAGCATTAGCGACGCTTCCTTAAGAAACACCGCTA
AATCCACGAAAGCTCAGAAAACGGCGTCGTTGGACTAATGTCTTTTTGCGGCGCTTTATCAAAAA
CGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCCTAAAAAACGCCACTAAATCTGCGAAAGCTCA
GAAAACGACGTCGTTGGCCTTAGGTTTTTTGCG
Found at i:26777816 original size:21 final size:22
Alignment explanation
Indices: 26777753--26777821 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
26777743 GACGGGCTAC
* *
26777753 TCACACGACCATGTA-ACTCTT
1 TCACACGGCCGTGTAGACTCTT
* * *
26777774 TCAAACGGGCGTGT-GCCTCTT
1 TCACACGGCCGTGTAGACTCTT
26777795 TCACACGGCCGTGTAGAC-CTT
1 TCACACGGCCGTGTAGACTCTT
26777816 TCACAC
1 TCACAC
26777822 AGCCTAGACT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (22 bp):
TCACACGGCCGTGTAGACTCTT
Found at i:26779808 original size:70 final size:70
Alignment explanation
Indices: 26779677--26779819 Score: 169
Period size: 70 Copynumber: 2.0 Consensus size: 70
26779667 ATTGCAAATG
** * * * * *
26779677 ACAACTATCATAAGTTATCTGACTAGCGCTGGGTACAATAATTTGTCGACTCGTTCGACTAGTGT
1 ACAACTATCATAAGTTATCCAACTAGCGCTAGGCACAATAATTTGTCGACTCGTGCAACTAGTGC
26779742 TAGGC
66 TAGGC
* * * * *
26779747 ACAACTATCGTCAGTTATCCAACTAGCGCTAGGCGCAATAATTTGTCGATTGGTGCAACTAGTGC
1 ACAACTATCATAAGTTATCCAACTAGCGCTAGGCACAATAATTTGTCGACTCGTGCAACTAGTGC
*
26779812 TGGGC
66 TAGGC
26779817 ACA
1 ACA
26779820 CCAAGAATCT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (70 bp):
ACAACTATCATAAGTTATCCAACTAGCGCTAGGCACAATAATTTGTCGACTCGTGCAACTAGTGC
TAGGC
Found at i:26784015 original size:14 final size:16
Alignment explanation
Indices: 26783990--26784021 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26783980 AAAATAATTA
26783990 TTTAGTTTTATT-TTT
1 TTTAGTTTTATTATTT
26784005 TTTAG-TTTATTATTT
1 TTTAGTTTTATTATTT
26784020 TT
1 TT
26784022 GGTTGTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (16 bp):
TTTAGTTTTATTATTT
Found at i:26794104 original size:40 final size:38
Alignment explanation
Indices: 26794043--26794120 Score: 86
Period size: 40 Copynumber: 2.0 Consensus size: 38
26794033 AATATTTAAT
26794043 TAATTTTTTAAATTTAAAAAATATTAAAAATATTTTATTA
1 TAATTTTTTAAATTTAAAAAAT-TTAAAAA-ATTTTATTA
* * **
26794083 TAATTTTTTGAACTTT-TAAAATTTTTAAAATTTTATTA
1 TAATTTTTT-AAATTTAAAAAATTTAAAAAATTTTATTA
26794121 AATGATGACG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
38 9 0.27
39 5 0.15
40 14 0.42
41 5 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
TAATTTTTTAAATTTAAAAAATTTAAAAAATTTTATTA
Found at i:26799302 original size:29 final size:29
Alignment explanation
Indices: 26799260--26799320 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
26799250 AAAGTAAGTA
* *
26799260 TGTGGTATACCGAGTTTCGGTGTCGATCT
1 TGTGGTATACCGAGTTTCAGCGTCGATCT
26799289 TGTGGTATACCGAGTTTCAGCGTCGATCT
1 TGTGGTATACCGAGTTTCAGCGTCGATCT
26799318 TGT
1 TGT
26799321 AAGTACTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.38
Consensus pattern (29 bp):
TGTGGTATACCGAGTTTCAGCGTCGATCT
Found at i:26814944 original size:30 final size:30
Alignment explanation
Indices: 26814910--26815016 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 30
26814900 GATGTTCAGA
*
26814910 AGCTTGAGAAGACCTGATATCTTGTTCAAG
1 AGCTTGAGAAGACCTGATATCTCGTTCAAG
*
26814940 AGCTTGGGAAGA-CTCGATATCTCGTTCAAG
1 AGCTTGAGAAGACCT-GATATCTCGTTCAAG
* *
26814970 ATCTTGGGATTGAGACGACCTGATATCTCATTCAAG
1 AGCTT--GA--GA-A-GACCTGATATCTCGTTCAAG
*
26815006 AGCTTGGGAAG
1 AGCTTGAGAAG
26815017 GCTCGATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
29 2 0.03
30 30 0.48
31 1 0.02
32 3 0.05
34 3 0.05
35 1 0.02
36 20 0.32
37 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (30 bp):
AGCTTGAGAAGACCTGATATCTCGTTCAAG
Found at i:26814996 original size:66 final size:66
Alignment explanation
Indices: 26814913--26815092 Score: 220
Period size: 66 Copynumber: 2.7 Consensus size: 66
26814903 GTTCAGAAGC
* **
26814913 TTGAGAAGACCTGATATCTTGTTCAAGAGCTTGGGAAGACTCGATATCT-CGTTCAAGATCTTGG
1 TTGAGAAGACCTGATATCTTGTTCAAGAGCTTGGGAAGACTCGATAT-TGCGTTCAAGAGCTTAA
26814977 GA
65 GA
* ** * * *
26814979 TTGAGACGACCTGATATCTCATTCAAGAGCTTGGGAAGGCTCGATATTGCGTTTAGGAGCTTAAG
1 TTGAGAAGACCTGATATCTTGTTCAAGAGCTTGGGAAGACTCGATATTGCGTTCAAGAGCTTAAG
26815044 A
66 A
* * *
26815045 TTGAAAAGACTTGTTATCTTGTTCAAGAGCTTGGGAAGA-TCCGATATT
1 TTGAGAAGACCTGATATCTTGTTCAAGAGCTTGGGAAGACT-CGATATT
26815093 TATTTTTCTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.02
66 94 0.98
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (66 bp):
TTGAGAAGACCTGATATCTTGTTCAAGAGCTTGGGAAGACTCGATATTGCGTTCAAGAGCTTAAG
A
Found at i:26815932 original size:19 final size:17
Alignment explanation
Indices: 26815910--26815948 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26815900 TAAAATATTA
26815910 TTTTAGTCCTCTATTTAAT
1 TTTTAGTCC-CT-TTTAAT
*
26815929 TTTTTGTCCCTTTTAAT
1 TTTTAGTCCCTTTTAAT
26815946 TTT
1 TTT
26815949 GGAACTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTAGTCCCTTTTAAT
Found at i:26816282 original size:2 final size:2
Alignment explanation
Indices: 26816275--26816304 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26816265 AAAATAACTT
26816275 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26816305 AAATTGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26823747 original size:23 final size:23
Alignment explanation
Indices: 26823717--26823766 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
26823707 GGTAGACAAC
26823717 TTTTTTTTGCGCTGTTTGCTTTT
1 TTTTTTTTGCGCTGTTTGCTTTT
26823740 TTTTTTTTGCGCTGTTTGCTTTT
1 TTTTTTTTGCGCTGTTTGCTTTT
26823763 TTTT
1 TTTT
26823767 ACGATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (23 bp):
TTTTTTTTGCGCTGTTTGCTTTT
Found at i:26826927 original size:22 final size:22
Alignment explanation
Indices: 26826902--26827184 Score: 352
Period size: 22 Copynumber: 12.9 Consensus size: 22
26826892 AAGTAAATAT
26826902 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* *
26826924 TGTTGATTAAATTTTGTCTAAA
1 TGTTGATTAAATGTTGTCCAAA
* *
26826946 TGTTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
* * *
26826968 TGTTCATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
* *
26826990 TGTTGATTAAAAGCTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
*
26827012 TGTTGATTAAAT-TATGTTCAAA
1 TGTTGATTAAATGT-TGTCCAAA
* *
26827034 TGTTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
* *
26827056 TGTTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
26827078 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
26827100 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* ** *
26827122 TGTTGATTGAATGTTGTATAAT
1 TGTTGATTAAATGTTGTCCAAA
*
26827144 TGTTGATTAAATGTTGTCCGAA
1 TGTTGATTAAATGTTGTCCAAA
* * *
26827166 TGTTGGTTAATTGCTGTCC
1 TGTTGATTAAATGTTGTCC
26827185 GTTTTTGAGC
Statistics
Matches: 227, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
22 226 1.00
23 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
TGTTGATTAAATGTTGTCCAAA
Found at i:26827010 original size:88 final size:88
Alignment explanation
Indices: 26826900--26827184 Score: 430
Period size: 88 Copynumber: 3.2 Consensus size: 88
26826890 TGAAGTAAAT
*
26826900 ATTGTTGATTAAATGTTGTCCAAATGTTGATTAAATTTTGTCTAAATGTTGATTGAATGTTGTCC
1 ATTGTTGATTAAATGCTGTCCAAATGTTGATTAAATTTTGTCTAAATGTTGATTGAATGTTGTCC
*
26826965 AATTGTTCATTGAATGTTGTCCA
66 AATTGTTGATTGAATGTTGTCCA
* *
26826988 ATTGTTGATTAAAAGCTGTCCAAATGTTGATTAAATTATGT-TCAAATGTTGATTGAATGTTGTC
1 ATTGTTGATTAAATGCTGTCCAAATGTTGATTAAATTTTGTCT-AAATGTTGATTGAATGTTGTC
26827052 CAATTGTTGATTGAATGTTGTCCA
65 CAATTGTTGATTGAATGTTGTCCA
* * * **
26827076 ATTGTTGATTAAATGTTGTCCAAATGTTGATTAAATGTTGTCCAAATGTTGATTGAATGTTGTAT
1 ATTGTTGATTAAATGCTGTCCAAATGTTGATTAAATTTTGTCTAAATGTTGATTGAATGTTGTCC
*
26827141 AATTGTTGATTAAATGTTGTCCGA
66 AATTGTTGATTGAATGTTGTCC-A
* *
26827165 A-TGTTGGTTAATTGCTGTCC
1 ATTGTTGATTAAATGCTGTCC
26827185 GTTTTTGAGC
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 176 0.98
89 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (88 bp):
ATTGTTGATTAAATGCTGTCCAAATGTTGATTAAATTTTGTCTAAATGTTGATTGAATGTTGTCC
AATTGTTGATTGAATGTTGTCCA
Found at i:26834743 original size:38 final size:38
Alignment explanation
Indices: 26834668--26834744 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
26834658 GTGTGGTGGG
* *
26834668 GGAGTGTTGGAGTGATTTTAGGAGGGAAATATAGGATT
1 GGAGTGTTGGAGTGATTTTAGGAGGAAAACATAGGATT
* * *
26834706 GGAGTGTTTGAGTGATTTTAGGAGGAAAACGTGGGATT
1 GGAGTGTTGGAGTGATTTTAGGAGGAAAACATAGGATT
26834744 G
1 G
26834745 TGGAGTTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.01, G:0.40, T:0.31
Consensus pattern (38 bp):
GGAGTGTTGGAGTGATTTTAGGAGGAAAACATAGGATT
Found at i:26835613 original size:17 final size:17
Alignment explanation
Indices: 26835591--26835634 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
26835581 CATTTTGGGC
26835591 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
26835608 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
26835625 CGTGTGGGCC
1 CGTGTGGGCC
26835635 CATATGAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.09, C:0.30, G:0.48, T:0.14
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:26842234 original size:12 final size:12
Alignment explanation
Indices: 26842208--26842246 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26842198 TAATAATAAA
*
26842208 TTAAT-GTTTAT
1 TTAATAGTTTAC
26842219 TTAATAGTTTAC
1 TTAATAGTTTAC
*
26842231 TTAACAGTTTAC
1 TTAATAGTTTAC
26842243 TTAA
1 TTAA
26842247 CCTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (12 bp):
TTAATAGTTTAC
Found at i:26848707 original size:14 final size:14
Alignment explanation
Indices: 26848688--26848715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26848678 AGGGTTTCTG
26848688 TGAAAATTTATAAA
1 TGAAAATTTATAAA
26848702 TGAAAATTTATAAA
1 TGAAAATTTATAAA
26848716 AATTTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TGAAAATTTATAAA
Found at i:26848748 original size:30 final size:30
Alignment explanation
Indices: 26848700--26848777 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
26848690 AAAATTTATA
* *
26848700 AATGAAAA-TTTATAAAAATTTTGGTAGGTCT
1 AATGAAAACTTTA-AAAATTTTTAG-AGGTCT
* *
26848731 AATTAAAACTTTAAAAATTTTTAGAGGTTT
1 AATGAAAACTTTAAAAATTTTTAGAGGTCT
*
26848761 AATGAAAATTTTAAAAA
1 AATGAAAACTTTAAAAA
26848778 AAAAAGAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 20 0.50
31 16 0.40
32 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (30 bp):
AATGAAAACTTTAAAAATTTTTAGAGGTCT
Found at i:26853818 original size:31 final size:31
Alignment explanation
Indices: 26853780--26853930 Score: 95
Period size: 29 Copynumber: 5.0 Consensus size: 31
26853770 GACCCATTTT
26853780 TATTTT-AAAAT-TTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTT--AAAATTAAAAAAAG
26853811 TATTTTAAAAATATTTTAAAATT-AAAAAA-
1 TATTTTAAAAATATTTTAAAATTAAAAAAAG
** * ***
26853840 -ATTAAAAAAAGTATTTTAAAAATATTTTAAA-
1 TATTTTAAAAA-TATTTTAAAATTA-AAAAAAG
* ***
26853871 -A--TTAAAAAAACTAAAAAAATTAAAAAAAAG
1 TATTTTAAAAATA-TTTTAAAATT-AAAAAAAG
26853901 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
26853931 TTAAAAAAGT
Statistics
Matches: 89, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
28 9 0.10
29 25 0.28
30 7 0.08
31 24 0.27
32 12 0.13
33 12 0.13
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:26853847 original size:39 final size:40
Alignment explanation
Indices: 26853780--26853970 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
26853770 GACCCATTTT
*
26853780 TATTTTAAAATTTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAA--TTAAAAAAATTAAAAAAAGTATTTTAAAAA
26853822 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
26853862 TATTTTAAAATTAAAAAAACTAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAA-T--------TAAAAAAATT-AAAAAAAGTATTTTAAAAA
* *
26853912 TATTTTAAAATTAAAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
26853951 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
26853971 AAATATATTT
Statistics
Matches: 136, Mismatches: 3, Indels: 23
0.84 0.02 0.14
Matches are distributed among these distances:
39 36 0.26
40 39 0.29
41 11 0.08
42 10 0.07
49 11 0.08
50 29 0.21
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:26853888 original size:50 final size:49
Alignment explanation
Indices: 26853828--26853960 Score: 198
Period size: 50 Copynumber: 2.7 Consensus size: 49
26853818 AAAATATTTT
*
26853828 AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAACTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
26853877 AAAACTAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAACTAAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
26853927 AAAATTAAAAAAGTATGT-AAAAAA-TATTTTAAAA
1 AAAACTAAAAAA--AT-TAAAAAAAGTATTTTAAAA
26853961 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
49 14 0.18
50 55 0.71
51 6 0.08
52 2 0.03
53 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (49 bp):
AAAACTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:26853938 original size:8 final size:9
Alignment explanation
Indices: 26853828--26853898 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
26853818 AAAATATTTT
26853828 AAAATTAAA
1 AAAATTAAA
26853837 AAAATTAAAA
1 AAAATT-AAA
26853847 AAAGTATTTTAAA
1 AAA--A--TTAAA
* **
26853860 AATATT-TT
1 AAAATTAAA
26853868 AAAATTAAA
1 AAAATTAAA
*
26853877 AAAACTAAA
1 AAAATTAAA
26853886 AAAATTAAA
1 AAAATTAAA
26853895 AAAA
1 AAAA
26853899 AGTATTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
8 5 0.10
9 28 0.58
10 6 0.12
11 1 0.02
12 1 0.02
13 5 0.10
14 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAATTAAA
Found at i:26855100 original size:17 final size:17
Alignment explanation
Indices: 26855074--26855112 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
26855064 TATAGCCTGT
*
26855074 CACACGGTCATGTGTCA
1 CACACAGTCATGTGTCA
26855091 CACACAGTCATGTGTCA
1 CACACAGTCATGTGTCA
26855108 CACAC
1 CACAC
26855113 GGTCTACCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (17 bp):
CACACAGTCATGTGTCA
Found at i:26855768 original size:17 final size:18
Alignment explanation
Indices: 26855736--26855769 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26855726 TTTCTTTTGG
*
26855736 GAAAATAAAATAATAAAA
1 GAAAAAAAAATAATAAAA
26855754 GAAAAAAAAAT-ATAAA
1 GAAAAAAAAATAATAAA
26855770 CCTTTTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
GAAAAAAAAATAATAAAA
Found at i:26867418 original size:20 final size:21
Alignment explanation
Indices: 26867378--26867419 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
26867368 CTCACTATTT
26867378 TATTATTATTATTCAAGACTG
1 TATTATTATTATTCAAGACTG
26867399 TATTATT-TTATTTCAA-ACTG
1 TATTATTATTA-TTCAAGACTG
26867419 T
1 T
26867420 GGTATGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TATTATTATTATTCAAGACTG
Found at i:26872555 original size:15 final size:15
Alignment explanation
Indices: 26872537--26872575 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
26872527 GCTATTATTA
*
26872537 TTTTTCTTTATATAT
1 TTTTTCTGTATATAT
26872552 TTTTTCTGTATATAT
1 TTTTTCTGTATATAT
26872567 TTTTTCTGT
1 TTTTTCTGT
26872576 TTCATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (15 bp):
TTTTTCTGTATATAT
Found at i:26872710 original size:18 final size:19
Alignment explanation
Indices: 26872679--26872747 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
26872669 TCTTATATTT
26872679 TTATTCATTTATTTTCTTTA-
1 TTATT-ATTTATTTT-TTTAC
*
26872699 TTGTTA-TTATTTTTTTAC
1 TTATTATTTATTTTTTTAC
* *
26872717 TTATTATTTATTTATTTAT
1 TTATTATTTATTTTTTTAC
26872736 TTATTTATTTAT
1 TTA-TTATTTAT
26872748 GTATCCATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 12 0.29
19 14 0.33
20 12 0.29
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (19 bp):
TTATTATTTATTTTTTTAC
Found at i:26872729 original size:4 final size:4
Alignment explanation
Indices: 26872678--26872747 Score: 63
Period size: 4 Copynumber: 17.2 Consensus size: 4
26872668 TTCTTATATT
* * * *
26872678 TTTA TTCA TTTA TTTTC TTTA TTGT- TATTA TTTT TTTA CTTA -TTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA
26872727 TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
26872748 GTATCCATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
3 3 0.06
4 45 0.83
5 6 0.11
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:26878356 original size:51 final size:50
Alignment explanation
Indices: 26878294--26878391 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
26878284 TATTACAGTG
* * *
26878294 AATCTTATTTCCCTGGTGTTGCAATGGAACCGATTAAAGCTAAAGGTAAAA
1 AATCTTATTTCCATGGTGTTACAATGGAACAGATTAAAGCT-AAGGTAAAA
* * *
26878345 AATCTTGTTTCCATGGTGTTACAGTGGAATAGATTAAAGCTAAGGTA
1 AATCTTATTTCCATGGTGTTACAATGGAACAGATTAAAGCTAAGGTA
26878392 GAGCAGATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 6 0.15
51 35 0.85
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (50 bp):
AATCTTATTTCCATGGTGTTACAATGGAACAGATTAAAGCTAAGGTAAAA
Found at i:26878457 original size:51 final size:51
Alignment explanation
Indices: 26878392--26878586 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
26878382 AGCTAAGGTA
* * * * * *
26878392 GAGCAGATTAAAGCTGAAGGCAGTGAATCCTATCTCCATGGCGTTACAATG
1 GAGCAGATTAAAGCTAAAAGCAGCGAATCTTATCTCCCTGGCATTACAATG
* * *
26878443 GAGCGGATTAAAGCTAAAAGCAGCGAATCATATCTCCTTGGCATTACAATG
1 GAGCAGATTAAAGCTAAAAGCAGCGAATCTTATCTCCCTGGCATTACAATG
** * * * * ** *
26878494 GAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGTAGTG
1 GAGCAGATTAAAGCTAAAAGCAGCGAATCTTATCTCCCTGGCATTACAATG
* * *
26878545 GAGCAGATTAAAGCTGAAAGCAACGAATCTTATATCCCTGGC
1 GAGCAGATTAAAGCTAAAAGCAGCGAATCTTATCTCCCTGGC
26878587 GTTAAGACTA
Statistics
Matches: 117, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 117 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
GAGCAGATTAAAGCTAAAAGCAGCGAATCTTATCTCCCTGGCATTACAATG
Found at i:26878797 original size:51 final size:51
Alignment explanation
Indices: 26878742--26878897 Score: 213
Period size: 51 Copynumber: 3.1 Consensus size: 51
26878732 CCTATCTCCT
* *
26878742 TGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCC
1 TGGCGTTACAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
*
26878793 TGGCGTTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
1 TGGCGTTACAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* * * * * * * *
26878844 TGGTGTTGCAACAGAACAGATTAAAGCTAAAGGCAGCAAATCTTATCTCCC
1 TGGCGTTACAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
26878895 TGG
1 TGG
26878898 TGCAGACTGA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (51 bp):
TGGCGTTACAGCGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
Found at i:26878866 original size:312 final size:312
Alignment explanation
Indices: 26878289--26878897 Score: 817
Period size: 312 Copynumber: 2.0 Consensus size: 312
26878279 GAAGTTATTA
** *
26878289 CAGTGAATCTTATTTCCCTGGTGTTGCAATGGAACCGATTAAAGCTAAAGGTAAAAAATCTTGTT
1 CAGTGAATCTTATTTCCCTGGCATTGCAATGGAACAGATTAAAGCTAAAGGTAAAAAATCTTGTT
* ** * * **
26878354 TCCATGGTGTTACAGTGGAATAGATTAAAGCTAAGGTAGAGCAGATTAAAGCTGAAGGCAGTGAA
66 TCCATAGCATTACAGTGGAATAGATTAAAGATAAGGTAGAGCAGATTAAAGCTGAAGACAACGAA
* * *
26878419 TCCTATCTCCATGGCGTTACAATGGAGCGGATTAAAGCTAAAAGCAGCGAATCATATCTCCTTGG
131 TCCTATCTCCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTGG
* * * * *** *
26878484 CATTACAATGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGTAGTGGAGC
196 CATTACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAAC
*
26878549 AGATTAAAGCTGAAA-GCAACGAATCTTATATCCCTGGCGTTAAGACTAAAGG
261 AGATTAAAGCT-AAAGGCAACAAATCTTATATCCCTGGCGTTAAGACTAAAGG
* **
26878601 CAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAATCTTGTT
1 CAGTGAATCTTATTTCCCTGGCATTGCAATGGAACAGATTAAAGCTAAAGGTAAAAAATCTTGTT
* ** *
26878666 TCCCTAGCATTGTAGTGGAATAGATTAAAGATGAA-GTAGAGCGGATTAAAGCTGAAGACAACGA
66 TCCATAGCATTACAGTGGAATAGATTAAAGAT-AAGGTAGAGCAGATTAAAGCTGAAGACAACGA
* * * * * *
26878730 ATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCCTG
130 ATCCTATCTCCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTG
* * **
26878795 GCGTTACAGCGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGTGTTGCAACAGAA
195 GCATTACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAA
* *
26878860 CAGATTAAAGCTAAAGGCAGCAAATCTTATCTCCCTGG
260 CAGATTAAAGCTAAAGGCAACAAATCTTATATCCCTGG
26878898 TGCAGACTGA
Statistics
Matches: 254, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
311 3 0.01
312 249 0.98
313 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (312 bp):
CAGTGAATCTTATTTCCCTGGCATTGCAATGGAACAGATTAAAGCTAAAGGTAAAAAATCTTGTT
TCCATAGCATTACAGTGGAATAGATTAAAGATAAGGTAGAGCAGATTAAAGCTGAAGACAACGAA
TCCTATCTCCATGGCGTTACAATGGAACAGATTAAAGCTAAAAGCAGCGAATCATATCTCCCTGG
CATTACAACGAAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAACAGAAC
AGATTAAAGCTAAAGGCAACAAATCTTATATCCCTGGCGTTAAGACTAAAGG
Found at i:26879021 original size:44 final size:42
Alignment explanation
Indices: 26878961--26879376 Score: 224
Period size: 44 Copynumber: 9.6 Consensus size: 42
26878951 GAAGATGGCG
*
26878961 AATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAAACCAAT
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAA--AAT
* * * **
26879005 AATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAGTTAT
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAA-AAAT
* * *
26879048 AACTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACC
1 AA-TCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAA-AAA-T
* * *
26879093 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAC
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT-AAAAAAT
* * * ** * **
26879136 AATCCTATCTCCCTGAAGTTGCAGCAGAGTAGATTGAAATGAT
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT-AAAAAAT
* * * ** * *** **
26879179 GGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCA-
1 -AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAAAAT
* * * * * **
26879221 AGTCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAATAAACC
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGA-TTAA-AAAAT
* * * * *
26879265 AATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGAAAC
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT-AAAAAAT
* * * * *
26879308 AAT-TCTATCTCTCTGAAGTTGCAGCGGAGCAGATTAAAATGAT
1 AATCT-TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAA-AAT
* * *
26879351 GGATCTTATCTCTCTGAAGTTACAGT
1 -AATCTTATCTCCCTAAAGTTACAGT
26879377 AGAGAATATC
Statistics
Matches: 292, Mismatches: 67, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
41 25 0.09
42 5 0.02
43 78 0.27
44 179 0.61
45 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAAAAT
Found at i:26879068 original size:88 final size:87
Alignment explanation
Indices: 26878961--26879345 Score: 273
Period size: 87 Copynumber: 4.4 Consensus size: 87
26878951 GAAGATGGCG
* * * *
26878961 AATCTTATCTCCCTAAAGTTACAGTGAAGCAGATTAAA-ACCAA-TAATCCTATCTCTCTAAAGT
1 AATCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATA--AACCAATCCTATCTCCCTAAAGT
* ** *
26879024 TACAGTGGAGCGGATTAAAGTTAT
64 TACAGTGGAGCAGATTAAAGAAAC
* * *
26879048 AACTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTT
1 AA-TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCCTATCTCCCTAAAGTT
*
26879113 ACAGTGGAGCAGATTGAAGAAAC
65 ACAGTGGAGCAGATTAAAGAAAC
* * * * * * *** * * *
26879136 AATCCTATCTCCCTGAAGTTGCAG-CAGAGTAGATTGAAAT-GATGGATCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTACAGTGA-AGCAGACT-AAATAAACCAATCCTATCTCCCTAAAGT
** * * * *
26879199 TGTAGTAGAGCAGA-T--CGCATC
64 TACAGTGGAGCAGATTAAAGAAAC
* * * * *
26879220 AAGTCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAATAAACCAATCTTATCTCCCTGAATTT
1 AA-TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCCTATCTCCCTAAAGTT
* *
26879285 GCAGTGGAGCAGATTGAAGAAAC
65 ACAGTGGAGCAGATTAAAGAAAC
* * * * *
26879308 AAT-TCTATCTCTCTGAAGTTGCAGCGGAGCAGATTAAA
1 AATCT-TATCTCCCTGAAGTTACAGTGAAGCAGACTAAA
26879346 ATGATGGATC
Statistics
Matches: 232, Mismatches: 54, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
84 8 0.03
85 54 0.23
86 4 0.02
87 86 0.37
88 79 0.34
89 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCCTATCTCCCTAAAGTTA
CAGTGGAGCAGATTAAAGAAAC
Found at i:26879186 original size:87 final size:87
Alignment explanation
Indices: 26879094--26879376 Score: 290
Period size: 87 Copynumber: 3.3 Consensus size: 87
26879084 AAATAAACCA
26879094 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCA
*
26879159 GCAGAGTAGATTGAAATGATGG
66 GCAGAGCAGATTGAAATGATGG
* ** * * * * * *
26879181 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T--CGCATCAAGTCTTATCTCCCTGAAGTTAC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAA-TCCTATCTCCCTGAAGTTGC
* * ***
26879243 A--ATGAAGCAGACTG-AATAAACCA
65 AGCA-G-AGCAGATTGAAAT-GATGG
* * * *
26879266 ATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAGAAACAATTCTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCA
* *
26879331 GCGGAGCAGATTAAAATGATGG
66 GCAGAGCAGATTGAAATGATGG
*
26879353 ATCTTATCTCTCTGAAGTTACAGT
1 ATCTTATCTCCCTGAAGTTACAGT
26879377 AGAGAATATC
Statistics
Matches: 150, Mismatches: 36, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
83 1 0.01
84 9 0.06
85 55 0.37
86 2 0.01
87 74 0.49
88 9 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (87 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCA
GCAGAGCAGATTGAAATGATGG
Found at i:26879240 original size:172 final size:172
Alignment explanation
Indices: 26879051--26879423 Score: 575
Period size: 172 Copynumber: 2.2 Consensus size: 172
26879041 AAGTTATAAC
*
26879051 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTACA
* *
26879116 GTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCAGCAGAGTAGATTGAAATGATGG
66 GTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTAAAATGATGG
** *
26879181 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
131 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * * *
26879223 TCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAATAAACCAATCTTATCTCCCTGAATTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTACA
* * *
26879288 GTGGAGCAGATTGAAGAAACAATTCTATCTCTCTGAAGTTGCAGCGGAGCAGATTAAAATGATGG
66 GTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTAAAATGATGG
* *
26879353 ATCTTATCTCTCTGAAGTTACAGTAGAGAATATCGCATCAGG
131 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * *
26879395 TCTTATTTCCTTGAAATTACAGTTGAAGC
1 TCTTATCTCCCTGAAGTTACAG-TGAAGC
26879424 TACAAGTCTT
Statistics
Matches: 181, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
172 175 0.97
173 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (172 bp):
TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTAAATAAACCAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATTAAAATGATGG
ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
Found at i:26879317 original size:128 final size:127
Alignment explanation
Indices: 26879095--26879328 Score: 310
Period size: 128 Copynumber: 1.8 Consensus size: 127
26879085 AATAAACCAA
* * *
26879095 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAAGAAACAATCCTATCTCCCTGAAGTTGCAG
* ***
26879160 CAGAGTAGATTGAAATGATGGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
66 CAGAGCAGATTGAAA-GAACAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
* * *
26879223 TCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAATAAACCAATCTTATCTCCCTGAATTTGCA
1 TCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAAGAAA-CAATCCTATCTCCCTGAAGTTGCA
**
26879288 GTGGAGCAGATTG-AAGAAACAAT-TCTATCTCTCTGAAGTTG
65 GCAGAGCAGATTGAAAG-AACAATCT-TATCTCTCTGAAGTTG
26879329 CAGCGGAGCA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
127 2 0.02
128 57 0.63
129 32 0.35
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTACAATGAAGCAGACTGAAGAAACAATCCTATCTCCCTGAAGTTGCAG
CAGAGCAGATTGAAAGAACAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAG
Found at i:26882241 original size:3 final size:3
Alignment explanation
Indices: 26882235--26882275 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
26882225 GATTTCGGCA
* * *
26882235 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATC CTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
26882276 CCTTATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:26882256 original size:15 final size:15
Alignment explanation
Indices: 26882236--26882300 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
26882226 ATTTCGGCAA
**
26882236 TTATTATTATTATTG
1 TTATTATTATTATCC
26882251 TTATTATTATTATCC
1 TTATTATTATTATCC
26882266 ---TTATTATTATCC
1 TTATTATTATTATCC
* * *
26882278 TTATAATTATTGTCG
1 TTATTATTATTATCC
26882293 TTATTATT
1 TTATTATT
26882301 TATGGATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
12 12 0.29
15 29 0.71
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (15 bp):
TTATTATTATTATCC
Found at i:26882269 original size:12 final size:12
Alignment explanation
Indices: 26882254--26882287 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
26882244 ATTATTGTTA
26882254 TTATTATTATCC
1 TTATTATTATCC
26882266 TTATTATTATCC
1 TTATTATTATCC
*
26882278 TTATAATTAT
1 TTATTATTAT
26882288 TGTCGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATTATCC
Found at i:26882300 original size:12 final size:12
Alignment explanation
Indices: 26882235--26882287 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
26882225 GATTTCGGCA
*
26882235 ATTATTATTATT
1 ATTATCATTATT
* *
26882247 ATTGTTATTATT
1 ATTATCATTATT
*
26882259 ATTATCCTTATT
1 ATTATCATTATT
* *
26882271 ATTATCCTTATA
1 ATTATCATTATT
26882283 ATTAT
1 ATTAT
26882288 TGTCGTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (12 bp):
ATTATCATTATT
Found at i:26883723 original size:21 final size:22
Alignment explanation
Indices: 26883693--26883747 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
26883683 ATTTATTTTT
26883693 AAAAAT-TAAAAATAAA-ATTA
1 AAAAATATAAAAATAAATATTA
* *
26883713 AAAAATATAAATATAAATATTG
1 AAAAATATAAAAATAAATATTA
*
26883735 AAAACTA-AAAAAT
1 AAAAATATAAAAAT
26883748 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.21
21 14 0.48
22 9 0.31
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATATAAAAATAAATATTA
Found at i:26887733 original size:26 final size:26
Alignment explanation
Indices: 26887699--26887748 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
26887689 CCCACACACC
* *
26887699 AATATTGCAGCATAGCTACCAGTAAT
1 AATAATGCAGCAGAGCTACCAGTAAT
*
26887725 AATAATGCAGCAGAGCTGCCAGTA
1 AATAATGCAGCAGAGCTACCAGTA
26887749 CAGTATAGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
AATAATGCAGCAGAGCTACCAGTAAT
Found at i:26887789 original size:27 final size:27
Alignment explanation
Indices: 26887759--26887834 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
26887749 CAGTATAGGC
* *
26887759 GGCAAAGCCACCAATAACAGTATTTGT
1 GGCAGAGCCACCAATAACAGTATGTGT
* * *
26887786 GGCAGAGCCACCAGTATCAATATGTGT
1 GGCAGAGCCACCAATAACAGTATGTGT
*
26887813 GACAGAGCCACCAGA-AACAGTA
1 GGCAGAGCCACCA-ATAACAGTA
26887835 CTTCCTCCAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
GGCAGAGCCACCAATAACAGTATGTGT
Found at i:26887980 original size:27 final size:27
Alignment explanation
Indices: 26887934--26888223 Score: 330
Period size: 27 Copynumber: 10.8 Consensus size: 27
26887924 TCATCTCCTA
** * *
26887934 AGGGTATAATGGTCATTTTACCCTTCG
1 AGGGTATTTTGGTAATTTTACCCATCG
** * * *
26887961 AGGGTATTTTAATAACTTTACCCTTCA
1 AGGGTATTTTGGTAATTTTACCCATCG
*
26887988 AGGGTATTTCGGTAATTTTA-CCATCG
1 AGGGTATTTTGGTAATTTTACCCATCG
* ***
26888014 AAGGTATTTCAATAATTTTACCCATCG
1 AGGGTATTTTGGTAATTTTACCCATCG
* * *
26888041 AGAGCATTTTGGTAATTTTACCCATCA
1 AGGGTATTTTGGTAATTTTACCCATCG
*
26888068 AGGGTATTTTAGTAATTTTACCCATCG
1 AGGGTATTTTGGTAATTTTACCCATCG
* *
26888095 AGGGTATTTCGATAATTTTACCCATCG
1 AGGGTATTTTGGTAATTTTACCCATCG
* *
26888122 AGGGTATTTTGGTAATTTTACCAATCA
1 AGGGTATTTTGGTAATTTTACCCATCG
* * *
26888149 AGGGTATTTCGGTAATTTTACCAATTG
1 AGGGTATTTTGGTAATTTTACCCATCG
26888176 AGGGTATTTTGGTAATTTTACCCATCG
1 AGGGTATTTTGGTAATTTTACCCATCG
* *
26888203 AGGGTATTTCGATAATTTTAC
1 AGGGTATTTTGGTAATTTTAC
26888224 GGCCCAAGCC
Statistics
Matches: 220, Mismatches: 42, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.10
27 199 0.90
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACCCATCG
Found at i:26888086 original size:54 final size:54
Alignment explanation
Indices: 26887948--26888223 Score: 365
Period size: 54 Copynumber: 5.1 Consensus size: 54
26887938 TATAATGGTC
* * * * *
26887948 ATTTTACCCTTCGAGGGTATTTTAATAACTTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
* * * * * *
26888002 ATTTTA-CCATCGAAGGTATTTCAATAATTTTACCCATCGAGAGCATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
* *
26888055 ATTTTACCCATCAAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
* * *
26888109 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCAATCAAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
* * * *
26888163 ATTTTACCAATTGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
26888217 ATTTTAC
1 ATTTTAC
26888224 GGCCCAAGCC
Statistics
Matches: 194, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 44 0.23
54 150 0.77
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGGTA
Found at i:26888131 original size:81 final size:81
Alignment explanation
Indices: 26887948--26888223 Score: 383
Period size: 81 Copynumber: 3.4 Consensus size: 81
26887938 TATAATGGTC
* * * *
26887948 ATTTTACCCTTCGAGGGTATTTTAATAACTTTACCCTTCAAGGGTATTTCGGTAATTTTA-CCAT
1 ATTTTACCCATCGAGGGTATTTTGATAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCAT
* *
26888012 CGAAGGTATTTCAATA
66 CGAGGGTATTTCGATA
* * * **
26888028 ATTTTACCCATCGAGAGCATTTTGGTAATTTTACCCATCAAGGGTATTTTAGTAATTTTACCCAT
1 ATTTTACCCATCGAGGGTATTTTGATAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCAT
26888093 CGAGGGTATTTCGATA
66 CGAGGGTATTTCGATA
* * *
26888109 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCAATCAAGGGTATTTCGGTAATTTTACCAAT
1 ATTTTACCCATCGAGGGTATTTTGATAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCAT
* * *
26888174 TGAGGGTATTTTGGTA
66 CGAGGGTATTTCGATA
*
26888190 ATTTTACCCATCGAGGGTATTTCGATAATTTTAC
1 ATTTTACCCATCGAGGGTATTTTGATAATTTTAC
26888224 GGCCCAAGCC
Statistics
Matches: 173, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 51 0.29
81 122 0.71
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (81 bp):
ATTTTACCCATCGAGGGTATTTTGATAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCAT
CGAGGGTATTTCGATA
Found at i:26890191 original size:73 final size:71
Alignment explanation
Indices: 26890058--26890200 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 71
26890048 TCGAATGTGG
* * * *
26890058 CAATAGCATGTTTTTGATATGTTAAACTATAGTGCAATTAGTATGTTCTAATTAGTTTTATCTGA
1 CAATAGCATGTTTTTGATATATTAAACTATAATGCAACTAGTATGTTCTAATTAGCTTTATCTGA
26890123 ATATGC
66 ATATGC
* * *
26890129 CAATAGCATGTTTTTTTATCTATTAAACTATATATGCAACTAGTATGTTCTGATCTA-CTTTATC
1 CAATAGCATG-TTTTTGATATATTAAACTATA-ATGCAACTAGTATGTTCTAAT-TAGCTTTATC
*
26890193 TGCATATG
63 TGAATATG
26890201 GGCATGTCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 10 0.16
72 18 0.30
73 31 0.51
74 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (71 bp):
CAATAGCATGTTTTTGATATATTAAACTATAATGCAACTAGTATGTTCTAATTAGCTTTATCTGA
ATATGC
Found at i:26908780 original size:21 final size:18
Alignment explanation
Indices: 26908750--26908790 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 18
26908740 CATAAGTTTT
26908750 AAACAATTAATATAATATTA
1 AAACAATTAA-ATAA-ATTA
26908770 AAACTAATTAAATAAATTA
1 AAAC-AATTAAATAAATTA
26908789 AA
1 AA
26908791 CATCTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAACAATTAAATAAATTA
Found at i:26909460 original size:22 final size:21
Alignment explanation
Indices: 26909425--26909527 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 21
26909415 AAAAGGTATC
* *
26909425 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
26909446 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* * *
26909469 TGCATATCATA--TCTAAAAT
1 TACAAATCATATCTCTAAGAT
* *
26909488 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26909507 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
26909526 TA
1 TA
26909528 TATAGTATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 41 0.59
21 3 0.04
22 15 0.22
23 10 0.14
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26909468 original size:23 final size:22
Alignment explanation
Indices: 26909425--26909482 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
26909415 AAAAGGTATC
* *
26909425 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26909446 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
26909469 TGCATATCATATCT
1 TACAAATCATATCT
26909483 AAAATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26909494 original size:19 final size:19
Alignment explanation
Indices: 26909438--26909571 Score: 135
Period size: 19 Copynumber: 6.8 Consensus size: 19
26909428 AAATTAAATC
*
26909438 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
26909458 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
* *
26909480 TCTAAAATTATATATCATA
1 TCTAAGATTACATATCATA
*
26909499 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
26909518 TCTAAGATTATATAGT-ATA
1 TCTAAGATTACATA-TCATA
* *
26909537 TTTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
26909556 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26909572 CCTGAAGATT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.01
19 76 0.80
20 1 0.01
22 7 0.07
23 10 0.11
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26909561 original size:38 final size:38
Alignment explanation
Indices: 26909461--26909564 Score: 174
Period size: 38 Copynumber: 2.7 Consensus size: 38
26909451 AATCATATCT
*
26909461 TCTAAGATTGCATATCATATCTAAAATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
26909499 TCTAAGATTGCATATCATATCTAAGATTATATAGT-ATA
1 TCTAAGATTGCATATCATATCTAAGATTATATA-TCATA
*
26909537 TTTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
26909565 GCATATCCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 62 0.98
39 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:26910120 original size:132 final size:132
Alignment explanation
Indices: 26909935--26910392 Score: 844
Period size: 132 Copynumber: 3.5 Consensus size: 132
26909925 GGGAGATATG
* * *
26909935 ATTACTGGTTTCAATGTACTCCACTGTAACCACAGGGAGTTAAAATCCGCCATCTTCGATCTTCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
26910000 CCACTACTGCTTAGAGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
26910065 GA
131 GA
26910067 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
26910132 CCACTACTACTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
26910197 GA
131 GA
*
26910199 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
26910264 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
26910329 GA
131 GA
*
26910331 ATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
26910393 ACTTTGTTGT
Statistics
Matches: 316, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 316 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
GA
Found at i:26914775 original size:24 final size:24
Alignment explanation
Indices: 26914747--26914792 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26914737 ATCATTTTTT
* *
26914747 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
26914771 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
26914793 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:26917603 original size:22 final size:21
Alignment explanation
Indices: 26917568--26917670 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 21
26917558 AAAGGGTATC
* *
26917568 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
26917589 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
26917612 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26917631 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26917650 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
26917669 TA
1 TA
26917671 TATATTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 43 0.61
21 3 0.04
22 15 0.21
23 10 0.14
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26917611 original size:23 final size:22
Alignment explanation
Indices: 26917568--26917625 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
26917558 AAAGGGTATC
* *
26917568 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26917589 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
26917612 TGCATATCATATCT
1 TACAAATCATATCT
26917626 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26917628 original size:19 final size:19
Alignment explanation
Indices: 26917604--26917714 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
26917594 AATCATATCT
26917604 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
26917623 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
26917642 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
26917661 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
26917680 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
26917699 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
26917715 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:26917651 original size:38 final size:38
Alignment explanation
Indices: 26917604--26917707 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
26917594 AATCATATCT
26917604 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
26917642 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
26917680 TCTAATATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
26917708 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:26923023 original size:37 final size:37
Alignment explanation
Indices: 26922982--26923084 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 37
26922972 TTACTGCCCT
* * * * *
26922982 ATTGAGTACATGTTATGCATGTCATTGCCAGTGTTGA
1 ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
* *
26923019 ATTGAATACATGTTAAGTATGTCCACTGCTAATGTTAA
1 ATTGAATACATGTTAAGCATGT-CACTGCCAATGTTAA
*
26923057 ACTGAATACATGTTAAGCATGTCTACTG
1 ATTGAATACATGTTAAGCATGTC-ACTG
26923085 TTTTGCATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
37 20 0.36
38 35 0.64
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (37 bp):
ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
Found at i:26934971 original size:217 final size:216
Alignment explanation
Indices: 26934586--26934996 Score: 533
Period size: 217 Copynumber: 1.9 Consensus size: 216
26934576 AGAAAGATTA
* * * * *
26934586 TTGAAGAGATTCCATCTAAAGACTCATTTGATTTAACTGATGAACCAGAAACTAAATCAGACCCC
1 TTGAAGAGATTCCATCTAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACCCC
*
26934651 ACTTTATAGAGGACATACCTCTGAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAAT
66 ACTTTATAGAGGACATACCTCTAAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAAT
* * * *
26934716 GTTCCTATGACTGCACAGCAACGTAATAAGAGGATGAAGCAAGTAGGTGTACCTTCTTTGCTTGT
131 GTGCCTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTTGCTTGT
26934781 TGAAGCTACTGCCAAGGCACC
196 TGAAGCTACTGCCAAGGCACC
** *
26934802 TTGAAGAGATTCCA-CTTAAAGACTCATATAATTCAGTTAATGAACCAGAAACAAAATCAGGCCC
1 TTGAAGAGATTCCATC-TAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACCC
* * * * **
26934866 TAGCTTTGTAGATGG-CATACCTCTAAAGGAAATCATTGGTGGA-AAAGCTCGATCCAAGTGGCC
65 CA-CTTTATAGA-GGACATACCTCTAAAGGAAATCATCGGT-GACAAAACTCGATCCAAGAAGCC
* * * * *
26934929 AAATGTGCAC-ATGACTGCACAGTAATGTAACAAGAAGATGAAGTAAGCAGGTGTACTTTCTTTT
127 AAATGTGC-CTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTTG
26934993 CTTG
191 CTTG
26934997 CTAAAGATAA
Statistics
Matches: 166, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
215 1 0.01
216 55 0.33
217 105 0.63
218 5 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (216 bp):
TTGAAGAGATTCCATCTAAAGACTCATATAATTCAACTAATGAACCAGAAACAAAATCAGACCCC
ACTTTATAGAGGACATACCTCTAAAGGAAATCATCGGTGACAAAACTCGATCCAAGAAGCCAAAT
GTGCCTATGACTGCACAGCAACGTAACAAGAAGATGAAGCAAGCAGGTGTACCTTCTTTGCTTGT
TGAAGCTACTGCCAAGGCACC
Found at i:26940837 original size:18 final size:18
Alignment explanation
Indices: 26940816--26940850 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26940806 TAAAAAATTA
26940816 CAAAAAACATAAAAAACG
1 CAAAAAACATAAAAAACG
* *
26940834 CAAAAAAGATGAAAAAC
1 CAAAAAACATAAAAAAC
26940851 AAAAAGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.14, G:0.09, T:0.06
Consensus pattern (18 bp):
CAAAAAACATAAAAAACG
Found at i:26956204 original size:402 final size:402
Alignment explanation
Indices: 26955460--26956265 Score: 1497
Period size: 402 Copynumber: 2.0 Consensus size: 402
26955450 AAATAAAACC
26955460 ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
* *
26955525 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACGTAAACTCAGTGTAATCCCACAGAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACATAAACTCAGTGTAATCCCACAAAAACA
26955590 AACAAACAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCCTTTTCAGTATCAGT
131 AACAAACAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCCTTTTCAGTATCAGT
26955655 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
196 ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
*
26955720 ATGTCCTACCTAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
261 ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
*
26955785 TCAACCCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAACACAGTAATTTGCAGCTG
326 TCAACCCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAAAACAGTAATTTGCAGCTG
*
26955850 AGTTGCCAGTAT
391 AGCTGCCAGTAT
26955862 ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
1 ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
*
26955927 TTACCTATGCATATTCAATAGAAGGGGGTGAGTTTACATAAACTCAGTGTAATCCCACAAAAACA
66 TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACATAAACTCAGTGTAATCCCACAAAAACA
*
26955992 AACAAACAG-AATCATAATGCACAGTCAGAAGTGGTCTTGGGCCTAAGCCCTTTTTCAGTATCAG
131 AACAAACAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCC-TTTTCAGTATCAG
* *
26956056 TATCAGTTTGCACAAGGGCCTTAGCCCATTACAGCATCAGTAACCGATATACAGTATTCAGTAAC
195 TATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAAC
*
26956121 AATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTTCATGTGGGATTAA
260 AATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAA
*
26956186 ATCAACCCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAAAATAGTAATTTGCAGCT
325 ATCAACCCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAAAACAGTAATTTGCAGCT
26956251 GAGCTGCCAGTAT
390 GAGCTGCCAGTAT
26956264 AT
1 AT
26956266 TAGGCTTAAG
Statistics
Matches: 392, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
401 40 0.10
402 352 0.90
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (402 bp):
ATGAAAATCCAGAACCATGGTCACCGTTGAGTCCTCCGTCGCACCAATCCATCTAGGTCTGGAGA
TTACCTATGCATATTCAACAGAAGGGGGTGAGTTTACATAAACTCAGTGTAATCCCACAAAAACA
AACAAACAGCAATCATAATGCACAGTCAGAAGCGGTCTTGGGCCTAAGCCCTTTTCAGTATCAGT
ATCAGTTTGCACAAGGGCCTTAGCCCATCACAGCATCAGTAACAGATATACAGTATTCAGTAACA
ATGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGGGATTAAA
TCAACCCACCCATCCTTACACTCCAGGTAGTACCGAATGCGGCATAAAACAGTAATTTGCAGCTG
AGCTGCCAGTAT
Found at i:26958613 original size:30 final size:30
Alignment explanation
Indices: 26958566--26958623 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
26958556 TAGTGTAACT
26958566 ATTATAAAAAAAAAATTTAAT-CTCTAAGG
1 ATTATAAAAAAAAAATTTAATCCTCTAAGG
** *
26958595 ATTATAGAAAAATGAATTTACTCCTCTAA
1 ATTATA-AAAAAAAAATTTAATCCTCTAA
26958624 ATAAAAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 12 0.50
31 6 0.25
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (30 bp):
ATTATAAAAAAAAAATTTAATCCTCTAAGG
Found at i:26962935 original size:42 final size:43
Alignment explanation
Indices: 26962880--26962970 Score: 166
Period size: 42 Copynumber: 2.1 Consensus size: 43
26962870 TTATTTTAAC
26962880 TCTTTGATGTCATTTATACTTCTATACAACTTCCCATTTCTT-
1 TCTTTGATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
*
26962922 TCTTTGATGTCATTTATACTTCTATACAACTTCTCATTTCTTA
1 TCTTTGATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
26962965 TCTTTG
1 TCTTTG
26962971 GGTTCCTAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.87
43 6 0.13
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (43 bp):
TCTTTGATGTCATTTATACTTCTATACAACTTCCCATTTCTTA
Found at i:26970714 original size:9 final size:9
Alignment explanation
Indices: 26970702--26970751 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
26970692 AAACTAGTAA
*
26970702 ATTATTAGT
1 ATTATTATT
*
26970711 ATTAGTATT
1 ATTATTATT
*
26970720 ATTAATATT
1 ATTATTATT
*
26970729 ATTATTAAT
1 ATTATTATT
*
26970738 ATTATTTTT
1 ATTATTATT
26970747 ATTAT
1 ATTAT
26970752 CATCATATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
ATTATTATT
Found at i:26970731 original size:12 final size:12
Alignment explanation
Indices: 26970702--26970743 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
26970692 AAACTAGTAA
* *
26970702 ATTATTAGTATT
1 ATTATTATTAAT
*
26970714 AGTATTATTAAT
1 ATTATTATTAAT
26970726 ATTATTATTAAT
1 ATTATTATTAAT
26970738 ATTATT
1 ATTATT
26970744 TTTATTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:26971014 original size:2 final size:2
Alignment explanation
Indices: 26971009--26971038 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26970999 GCACACATAC
26971009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26971039 CTTTTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26971526 original size:73 final size:71
Alignment explanation
Indices: 26971408--26971549 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 71
26971398 TCTTTTCAAA
*
26971408 CTCAAGTTTTAAACAGTCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGG-CATGATCC
1 CTCAAGTTTTAAACAGTCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTC-TGAT-C
26971472 CCTTTTTC
64 CCTTTTTC
*
26971480 CTCAAGTTTTTAAAC-GATCTTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTCTGATC
1 CTCAAG-TTTTAAACAG-TCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTCTGATC
26971544 CCTTTT
64 CCTTTT
26971550 CTAAACCCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
72 14 0.22
73 50 0.77
74 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (71 bp):
CTCAAGTTTTAAACAGTCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTCTGATCCC
TTTTTC
Found at i:26973975 original size:60 final size:60
Alignment explanation
Indices: 26973849--26973978 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 60
26973839 TTTAATGGTC
* * * *
26973849 GTTCATATAAAAATCAAATCTTTCAAAATGGTCAAATAATAGTCTAATCTTTATAAAAGT
1 GTTCAAATAAAAACCAAATCTTTCAAAATGGTCAAATAAGAGCCTAATCTTTATAAAAGT
** * * * *
26973909 ACTCAAATAAAGACCAAATCTTTCAAAATGTTTAAATAAGA-CCTAA-CTTTTTTCAAAAGT
1 GTTCAAATAAAAACCAAATCTTTCAAAATGGTCAAATAAGAGCCTAATC-TTTAT-AAAAGT
26973969 GTTCAAATAA
1 GTTCAAATAA
26973979 GGGCTTTTCA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
58 1 0.02
59 8 0.14
60 47 0.84
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (60 bp):
GTTCAAATAAAAACCAAATCTTTCAAAATGGTCAAATAAGAGCCTAATCTTTATAAAAGT
Found at i:26988731 original size:43 final size:43
Alignment explanation
Indices: 26988683--26988908 Score: 348
Period size: 43 Copynumber: 5.3 Consensus size: 43
26988673 TTTTTGAAAT
*
26988683 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
26988726 AAACGCCGCTAAAGACCA-GTACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
*
26988769 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
26988812 AAACGCCGCTAAAGACCA-GTACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGACCATG-ACCTTTAGCGGCGCTTTTCCCAC
* * *
26988855 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCACAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
26988898 AAACGCCGCTA
1 AAACGCCGCTA
26988909 AAAACTTATC
Statistics
Matches: 167, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
42 2 0.01
43 163 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:26988828 original size:86 final size:86
Alignment explanation
Indices: 26988683--26988910 Score: 402
Period size: 86 Copynumber: 2.7 Consensus size: 86
26988673 TTTTTGAAAT
*
26988683 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGTAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGTAC
26988748 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
*
26988769 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCAGTAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGTAC
*
26988834 CTTTAGCGGCGCTTTTTCCAC
66 CTTTAGCGGCGCTTTTCCCAC
* * *
26988855 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCACAAAAACGCCGCTAAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
26988911 AACTTATCTT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 135 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGTAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:26995701 original size:41 final size:41
Alignment explanation
Indices: 26995641--26995735 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
26995631 NNNNNNCGCT
* * * *
26995641 GCTAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACGCC
1 GCTAAAGACCCGAGAATTAGCGCCGCTTCTACAAAAACGCC
* *
26995682 GCTAAAGACCCGAGAATTAGCGCCGCTTTTATAAAAACGCC
1 GCTAAAGACCCGAGAATTAGCGCCGCTTCTACAAAAACGCC
*
26995723 GCTAAAGCCCCGA
1 GCTAAAGACCCGA
26995736 AAGGTCGATC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.17
Consensus pattern (41 bp):
GCTAAAGACCCGAGAATTAGCGCCGCTTCTACAAAAACGCC
Found at i:27004964 original size:21 final size:23
Alignment explanation
Indices: 27004938--27004979 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
27004928 GGATGTATAA
27004938 AAAATAAAT-AAAAT-ATTTTAT
1 AAAATAAATGAAAATAATTTTAT
27004959 AAAATAAATGAAAATAATTTT
1 AAAATAAATGAAAATAATTTT
27004980 TATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAAATGAAAATAATTTTAT
Found at i:27008649 original size:15 final size:15
Alignment explanation
Indices: 27008629--27008662 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27008619 TAGAATTACA
27008629 AAAAATTAAGATATT
1 AAAAATTAAGATATT
**
27008644 AAAAATTTTGATATT
1 AAAAATTAAGATATT
27008659 AAAA
1 AAAA
27008663 CAAATTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AAAAATTAAGATATT
Done.