Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 42 of 378
Found at i:10332753 original size:21 final size:21
Alignment explanation
Indices: 10332720--10332770 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10332710 ACAACTTAGA
*
10332720 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
10332741 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
10332762 GCAGAGGCA
1 GCAGAGGCA
10332771 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:10333218 original size:43 final size:43
Alignment explanation
Indices: 10333166--10333454 Score: 497
Period size: 43 Copynumber: 6.7 Consensus size: 43
10333156 GTAAAAGAAG
*
10333166 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACGCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
* *
10333209 CGCCACTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
10333253 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACGCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
10333296 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
10333339 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
*
10333382 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
* *
10333425 CGCCACTAAAAGACTTGACCTTTAGCGGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG
10333455 TTTTTTCCAA
Statistics
Matches: 235, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
43 195 0.83
44 40 0.17
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAA
Found at i:10333957 original size:20 final size:20
Alignment explanation
Indices: 10333932--10333969 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10333922 TATTTGTTTT
10333932 AAATA-TTTAACAAGAATGAA
1 AAATATTTTAA-AAGAATGAA
10333952 AAATATTTTAAAAGAATG
1 AAATATTTTAAAAGAATG
10333970 TTTACTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (20 bp):
AAATATTTTAAAAGAATGAA
Found at i:10334946 original size:25 final size:25
Alignment explanation
Indices: 10334898--10334946 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10334888 AATTTAATTT
*
10334898 AAAAAAATAAAAATTAAATTGATAG
1 AAAAAAATAAAAATTAAATAGATAG
*
10334923 AAAAAATATAAACATTAAA-AGATA
1 AAAAAA-ATAAAAATTAAATAGATA
10334947 AAATTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (25 bp):
AAAAAAATAAAAATTAAATAGATAG
Found at i:10340095 original size:19 final size:20
Alignment explanation
Indices: 10340057--10340097 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10340047 TCTCAATAAA
10340057 AATTTTTAAAAAAATCAAAAT
1 AATTTTTAAAAAAA-CAAAAT
*
10340078 AATTTTTAAAAGAA-AAAAT
1 AATTTTTAAAAAAACAAAAT
10340097 A
1 A
10340098 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTTTTAAAAAAACAAAAT
Found at i:10340905 original size:19 final size:20
Alignment explanation
Indices: 10340867--10340907 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10340857 TCTCAATAAA
10340867 AATTTTTAAAAAAATCAAAAT
1 AATTTTTAAAAAAA-CAAAAT
*
10340888 AATTTTTAAAAGAA-AAAAT
1 AATTTTTAAAAAAACAAAAT
10340907 A
1 A
10340908 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTTTTAAAAAAACAAAAT
Found at i:10340924 original size:9 final size:9
Alignment explanation
Indices: 10340901--10340960 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
10340891 TTTTAAAAGA
10340901 AAAAATATTT
1 AAAAAT-TTT
10340911 AAAAATTTT
1 AAAAATTTT
*
10340920 CAAAA-TTT
1 AAAAATTTT
**
10340928 AAATTTTTT
1 AAAAATTTT
*
10340937 AAAAAATTAT
1 -AAAAATTTT
*
10340947 AAAAATTTC
1 AAAAATTTT
10340956 AAAAA
1 AAAAA
10340961 ATAAAAATTC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
8 5 0.13
9 22 0.56
10 12 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10340927 original size:17 final size:17
Alignment explanation
Indices: 10340907--10340969 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
10340897 AAGAAAAAAT
10340907 ATTTAAAAATTTTCAAA
1 ATTTAAAAATTTTCAAA
** *
10340924 ATTTAAATTTTTTAAAAA
1 ATTTAAAAATTTT-CAAA
10340942 ATTATAAAAA-TTTCAAA
1 ATT-TAAAAATTTTCAAA
**
10340959 AAATAAAAATT
1 ATTTAAAAATT
10340970 CGATATATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 6 0.17
17 16 0.46
18 9 0.26
19 4 0.11
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAAAATTTTCAAA
Found at i:10341587 original size:27 final size:27
Alignment explanation
Indices: 10341535--10341588 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10341525 TTTTTTATCG
* *
10341535 AATTTATCAAAAAAATTTAAACTTTTA
1 AATTTATAAAAAAAATATAAACTTTTA
10341562 AATTTATAAAAAAAATAATAAA-TTTTA
1 AATTTATAAAAAAAAT-ATAAACTTTTA
10341589 CACACAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AATTTATAAAAAAAATATAAACTTTTA
Found at i:10341714 original size:19 final size:19
Alignment explanation
Indices: 10341668--10341705 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
10341658 AATTTCTCTC
10341668 AATAAA-AATTTTTAAAAA
1 AATAAATAATTTTTAAAAA
10341686 AATCAAAATAATTTTTAAAA
1 AAT--AAATAATTTTTAAAA
10341706 GGATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
20 3 0.18
21 11 0.65
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATAATTTTTAAAAA
Found at i:10341756 original size:25 final size:25
Alignment explanation
Indices: 10341709--10341759 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
10341699 TTTAAAAGGA
*
10341709 TAAATATTTAAAAATTTTCAAAATT
1 TAAATATTTAAAAATTATCAAAATT
* *
10341734 TAAATTTTTAAAAAATTATAAAAATT
1 TAAATATTT-AAAAATTATCAAAATT
10341760 CAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATATTTAAAAATTATCAAAATT
Found at i:10347222 original size:10 final size:10
Alignment explanation
Indices: 10347209--10347233 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10347199 TAATACTTAA
10347209 TAAATAGTGT
1 TAAATAGTGT
10347219 TAAATAGTGT
1 TAAATAGTGT
10347229 TAAAT
1 TAAAT
10347234 TTTTGGCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (10 bp):
TAAATAGTGT
Found at i:10357305 original size:50 final size:50
Alignment explanation
Indices: 10357230--10357331 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
10357220 GAATCATCTT
10357230 CTGTAGAAAACATCAATTGGTATAATTATTTACCTTGTCTGAATTAAGGC
1 CTGTAGAAAACATCAATTGGTATAATTATTTACCTTGTCTGAATTAAGGC
10357280 CTGTAGAAAACATCAATTGGTATAATTATTTACCTTGTCTGAATTAAGGC
1 CTGTAGAAAACATCAATTGGTATAATTATTTACCTTGTCTGAATTAAGGC
10357330 CT
1 CT
10357332 ATATTGTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (50 bp):
CTGTAGAAAACATCAATTGGTATAATTATTTACCTTGTCTGAATTAAGGC
Found at i:10359819 original size:15 final size:15
Alignment explanation
Indices: 10359799--10359841 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
10359789 AAAAAACTCA
10359799 GAAAAACAGGTACAC
1 GAAAAACAGGTACAC
10359814 GAAAAAC---T-CA-
1 GAAAAACAGGTACAC
10359824 GAAAAACAGGTACAC
1 GAAAAACAGGTACAC
10359839 GAA
1 GAA
10359842 TTCAGTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 2 0.09
12 1 0.04
13 1 0.04
14 2 0.09
15 10 0.43
ACGTcount: A:0.56, C:0.19, G:0.19, T:0.07
Consensus pattern (15 bp):
GAAAAACAGGTACAC
Found at i:10359823 original size:25 final size:25
Alignment explanation
Indices: 10359790--10359841 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10359780 GTTCGGAAGA
10359790 AAAAACTCAGAAAAACAGGTACACG
1 AAAAACTCAGAAAAACAGGTACACG
10359815 AAAAACTCAGAAAAACAGGTACACG
1 AAAAACTCAGAAAAACAGGTACACG
10359840 AA
1 AA
10359842 TTCAGTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAACTCAGAAAAACAGGTACACG
Found at i:10360052 original size:2 final size:2
Alignment explanation
Indices: 10360045--10360073 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10360035 TTTTGTGCAA
10360045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10360074 AAACTACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10362290 original size:20 final size:19
Alignment explanation
Indices: 10362251--10362290 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10362241 GTTTTTGTTT
*
10362251 TTAAATTTAGAAAAATAAG
1 TTAAATTTAGAAAAAGAAG
*
10362270 TTAATTTTAGAAAAACGAAG
1 TTAAATTTAGAAAAA-GAAG
10362290 T
1 T
10362291 GGTAAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (19 bp):
TTAAATTTAGAAAAAGAAG
Found at i:10374410 original size:34 final size:33
Alignment explanation
Indices: 10374358--10374423 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
10374348 TTATTTACAT
* *
10374358 TTTATCAAAAAAATTATTTGTTTT-TTTTATATG
1 TTTATAAAAAAAAATATTT-TTTTATTTTATATG
10374391 TTTATAAAAAAAGAATATTTTTTTATTTTATAT
1 TTTATAAAAAAA-AATATTTTTTTATTTTATAT
10374424 AGGTAATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.52
34 14 0.48
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (33 bp):
TTTATAAAAAAAAATATTTTTTTATTTTATATG
Found at i:10374430 original size:127 final size:128
Alignment explanation
Indices: 10373898--10374506 Score: 719
Period size: 127 Copynumber: 4.8 Consensus size: 128
10373888 GTTAACTATT
* * *
10373898 AATTTTTTATTTTATATATGTAATGTTTCCATTAATATTTGTATTGTATTTTTACATTAATAATT
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
*
10373963 TACTTATTTACATTTTATCAAAAAATTGTTTGTTTGTTTTTCTTTTTGTATGTTTATAAAAAAAT
66 TACTTATTTACATTTTATCAAAAAA---ATTGTTTG--TTT-TTTTTGTATGTTTATAAAAAAA-
10374028 GAATA
124 GAATA
* * * * *
10374033 AATTTTTTATTATATATATATATATAATGCTTCCATTAATATTTTTCTTTTATTTTTACAACAAT
1 AATTTTTTA-T-T-T-TATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAAT
* * * * * *
10374098 ATTCTACTTGTTTATATTTTATCAAAAAATTTGTTT-ATTTTTTTGTATGTTTATAGAAAAACGA
62 AATCTACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATA-AAAAAAGA
*
10374162 GTA
126 ATA
* *
10374165 AA-TTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTA--TTTAGATCAATAATA
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
* * * *
10374227 TA-TTTTTTATATTTTATC---AAAA-----T-TTTTTTTTGTATGTTTATAAAAAACGAGTA
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
* *
10374280 AAATTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATTAATAATC
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
* *
10374345 TACTTATTTACATTTTATCAAAAAAATTATTTGTTTTTTTTATATGTTTATAAAAAAAGAAT-
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
* * * **
10374407 ATTTTTTTATTTTATATAGGTAATGTTTTAATTAATATTTGTATTGTATTTTTACATCAATAATC
1 AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
10374472 TACTTATTTACATTTTATC-AAAAAATTGTTTGTTT
66 TACTTATTTACATTTTATCAAAAAAATTGTTTGTTT
10374507 GTTTGTTTTT
Statistics
Matches: 415, Mismatches: 41, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
115 13 0.03
116 64 0.15
118 14 0.03
119 14 0.03
121 3 0.01
122 4 0.01
124 15 0.04
125 13 0.03
126 15 0.04
127 110 0.27
128 27 0.07
129 1 0.00
130 1 0.00
131 6 0.01
132 22 0.05
133 7 0.02
135 9 0.02
136 8 0.02
137 1 0.00
138 1 0.00
139 67 0.16
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (128 bp):
AATTTTTTATTTTATATATGTAATGCTTCCATTAATATTTGTATTGTATTTTTACATCAATAATC
TACTTATTTACATTTTATCAAAAAAATTGTTTGTTTTTTTTGTATGTTTATAAAAAAAGAATA
Found at i:10374443 original size:243 final size:251
Alignment explanation
Indices: 10374000--10374494 Score: 657
Period size: 243 Copynumber: 2.0 Consensus size: 251
10373990 GTTTGTTTGT
* *
10374000 TTTTCTTTTTGTATGTTTATAAAAAAATGAATAAATTTTTTATTATATATATATATATAATGCTT
1 TTTTCTTTTTGTATGTTTATAAAAAAACGAATAAAATTTTTATTATATATATATATATAATGCTT
* * * * * * *
10374065 CCATTAATATTTTTCTTTTATTTTTACAACAATATTCTACTTGTTTATATTTTATCAAAAAATTT
66 CCATTAATATTTGTATTGTATTTTTACAACAATAATCTACTTATTTACATTTTATCAAAAAAATT
* * * * * *
10374130 GTTTATTTTTTTGTATGTTTATAGAAAAACGAGTAAATTTTTATTTTATATATGTAATGCTTCCA
131 ATTTATTTTTTTATATGTTTATAGAAAAAAGAATAAATTTTTATTTTATATAGGTAATGCTTCAA
* * *
10374195 TTAATATTTGTATTGTA-TTTAGATCAATAATATA-TTTTTTATATTTTATCAAAA
196 TTAATATTTGTATTGTATTTTACATCAATAATATACTTATTTACATTTTATCAAAA
* *
10374249 TTTT-TTTTTGTATGTTTAT-AAAAAACGAGTAAAATTTTTA-T-T-T-TATATATGTAATGCTT
1 TTTTCTTTTTGTATGTTTATAAAAAAACGAATAAAATTTTTATTATATATATATATATAATGCTT
**
10374308 CCATTAATATTTGTATTGTATTTTTACATTAATAATCTACTTATTTACATTTTATCAAAAAAATT
66 CCATTAATATTTGTATTGTATTTTTACAACAATAATCTACTTATTTACATTTTATCAAAAAAATT
* ** * *
10374373 ATTTGTTTTTTTTATATGTTTATA-AAAAAAGAATATTTTTTTATTTTATATAGGTAATGTTTTA
131 ATTT-ATTTTTTTATATGTTTATAGAAAAAAGAATAAATTTTTATTTTATATAGGTAATGCTTCA
*
10374437 ATTAATATTTGTATTGTATTTTTACATCAATAATCTACTTATTTACATTTTATCAAAA
195 ATTAATATTTGTATTGTA-TTTTACATCAATAATATACTTATTTACATTTTATCAAAA
10374495 AATTGTTTGT
Statistics
Matches: 214, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
243 124 0.58
244 18 0.08
245 16 0.07
246 19 0.09
247 18 0.08
248 15 0.07
249 4 0.02
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (251 bp):
TTTTCTTTTTGTATGTTTATAAAAAAACGAATAAAATTTTTATTATATATATATATATAATGCTT
CCATTAATATTTGTATTGTATTTTTACAACAATAATCTACTTATTTACATTTTATCAAAAAAATT
ATTTATTTTTTTATATGTTTATAGAAAAAAGAATAAATTTTTATTTTATATAGGTAATGCTTCAA
TTAATATTTGTATTGTATTTTACATCAATAATATACTTATTTACATTTTATCAAAA
Found at i:10380407 original size:22 final size:22
Alignment explanation
Indices: 10380382--10380425 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10380372 CCCCATTGCC
*
10380382 CTTC-TCCACTTTTCTCCTCCCT
1 CTTCTTCC-CTTTCCTCCTCCCT
*
10380404 CTTCTTTCCTTTCCTCCTCCCT
1 CTTCTTCCCTTTCCTCCTCCCT
10380426 TACTTTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCTTCCCTTTCCTCCTCCCT
Found at i:10380431 original size:21 final size:21
Alignment explanation
Indices: 10380390--10380440 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
10380380 CCCTTCTCCA
* *
10380390 CTTTTCTCCTCCCTCTTCTTT
1 CTTTCCTCCTCCCTCTACTTT
10380411 CCTTTCCTCCTCCCT-TACTTT
1 -CTTTCCTCCTCCCTCTACTTT
10380432 CTCTTCCTC
1 CT-TTCCTC
10380441 AGTTCACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.42
22 13 0.50
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (21 bp):
CTTTCCTCCTCCCTCTACTTT
Found at i:10395427 original size:53 final size:53
Alignment explanation
Indices: 10395365--10395470 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
10395355 AACGATATTG
*
10395365 GACGAGGTCGTACCCTGTTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
1 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
10395418 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
1 GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
10395471 ATGTCTTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (53 bp):
GACGAGGTCGTACCCTATTGAAGAAAATAAGAGTATTTTTATGAATACAAACA
Found at i:10397499 original size:21 final size:21
Alignment explanation
Indices: 10397473--10397515 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10397463 AACAAGCTAA
10397473 CAAATCTCCATAGGACTTAGT
1 CAAATCTCCATAGGACTTAGT
*
10397494 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCATAGGACTTAGT
10397515 C
1 C
10397516 TTATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (21 bp):
CAAATCTCCATAGGACTTAGT
Found at i:10399779 original size:43 final size:43
Alignment explanation
Indices: 10399718--10399803 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
10399708 GAAAAGAGCA
10399718 AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
1 AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
10399761 AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
1 AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
10399804 GTGTTTTGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (43 bp):
AGCTCACTTATGGTTCGGAACTTTGAATTGGTGAATTAGGTAT
Found at i:10412611 original size:24 final size:24
Alignment explanation
Indices: 10412579--10412629 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
10412569 AAGTCTGTCA
**
10412579 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
10412603 GGATAGGATTTAGGAGCAGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
10412627 GGA
1 GGA
10412630 GGAAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GGATAGGATTTAGGAGCAGATAAG
Found at i:10414084 original size:27 final size:27
Alignment explanation
Indices: 10414046--10414133 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
10414036 AGGAAGCGTC
10414046 CTGGTGGCTCTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
10414073 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
10414100 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
10414128 CTGGTG
1 CTGGTG
10414134 ACTCCGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.06
27 41 0.76
28 10 0.19
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:10414154 original size:54 final size:54
Alignment explanation
Indices: 10414046--10414157 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
10414036 AGGAAGCGTC
* *
10414046 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCCGCCACATATTTCTGTT
* * *
10414100 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCCGTCACAT-TATT-TGTT
1 CTGGTGGCTCTGCCACAATTATCT-GATCTGGTGACTCCGCCACATAT-TTCTGTT
10414154 CTGG
1 CTGG
10414158 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 32 0.63
55 19 0.37
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCCGCCACATATTTCTGTT
Found at i:10422609 original size:30 final size:29
Alignment explanation
Indices: 10422573--10422636 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
10422563 ATGAATCGGA
10422573 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
10422603 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
10422632 AGCTT
1 AGCTT
10422637 CGACTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:10425516 original size:41 final size:41
Alignment explanation
Indices: 10425471--10425552 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
10425461 ACCTGTAACA
10425471 CTTACAACATCATCATACTTTCCTTATTAAATCTCTTTCTT
1 CTTACAACATCATCATACTTTCCTTATTAAATCTCTTTCTT
10425512 CTTACAACATCATCATACTTTCCTTATTAAATCTCTTTCTT
1 CTTACAACATCATCATACTTTCCTTATTAAATCTCTTTCTT
10425553 AACACTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (41 bp):
CTTACAACATCATCATACTTTCCTTATTAAATCTCTTTCTT
Found at i:10425826 original size:47 final size:47
Alignment explanation
Indices: 10425766--10425934 Score: 148
Period size: 47 Copynumber: 3.6 Consensus size: 47
10425756 AAACTTATCT
10425766 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCC
* * *
10425813 GATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCACCTCTACGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA--TCGAGGCC
* ** * * * * * *
10425859 AATGCTATGTCCCAGACGTGGTCTTACACAGACTATCATGAT-GCGGCT
1 GATGC-ATGTCCCAGAC-ACGTCTTACACTGGCTAACATCATCGAGGCC
* *
10425907 GATGCATGTCCCAGAAACATCTTACACT
1 GATGCATGTCCCAGACACGTCTTACACT
10425935 AGCCCTCAGC
Statistics
Matches: 95, Mismatches: 20, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 18 0.19
47 51 0.54
48 17 0.18
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (47 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCC
Found at i:10429246 original size:15 final size:14
Alignment explanation
Indices: 10429226--10429279 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
10429216 ATTATGAACT
10429226 ACCCTAAACCATAAA
1 ACCCTAAACC-TAAA
10429241 ACCCTAAACCCTAAA
1 ACCCTAAA-CCTAAA
* * *
10429256 CCCCAAAACCTTAA
1 ACCCTAAACCTAAA
*
10429270 ACTCTAAACC
1 ACCCTAAACC
10429280 CTAAGGAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 12 0.38
15 18 0.56
16 2 0.06
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (14 bp):
ACCCTAAACCTAAA
Found at i:10429249 original size:7 final size:7
Alignment explanation
Indices: 10429226--10429283 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
10429216 ATTATGAACT
10429226 ACCCTAA
1 ACCCTAA
*
10429233 ACCATAAA
1 ACCCT-AA
10429241 ACCCTAA
1 ACCCTAA
10429248 ACCCTAA
1 ACCCTAA
*
10429255 ACCCCAAA
1 A-CCCTAA
*
10429263 ACCTTAA
1 ACCCTAA
*
10429270 ACTCTAA
1 ACCCTAA
10429277 ACCCTAA
1 ACCCTAA
10429284 GGAAGATGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 29 0.71
8 12 0.29
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:10429280 original size:22 final size:22
Alignment explanation
Indices: 10429226--10429280 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
10429216 ATTATGAACT
**
10429226 ACCCTAAACCATAAAACCCTAA
1 ACCCTAAACCCCAAAACCCTAA
*
10429248 ACCCTAAACCCCAAAACCTTAA
1 ACCCTAAACCCCAAAACCCTAA
*
10429270 ACTCTAAACCC
1 ACCCTAAACCC
10429281 TAAGGAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (22 bp):
ACCCTAAACCCCAAAACCCTAA
Found at i:10430575 original size:28 final size:28
Alignment explanation
Indices: 10430535--10430590 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10430525 TGGACAAAAA
10430535 TAGGCTATTTACTAAGCCAATTTGTCAC
1 TAGGCTATTTACTAAGCCAATTTGTCAC
10430563 TAGGCTATTTACTAAGCCAATTTGTCAC
1 TAGGCTATTTACTAAGCCAATTTGTCAC
10430591 CCAACTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
TAGGCTATTTACTAAGCCAATTTGTCAC
Found at i:10437771 original size:22 final size:22
Alignment explanation
Indices: 10437746--10437791 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10437736 TCAATTCTTG
*
10437746 TCAACGTCAAAG-TCAACGCAAA
1 TCAACATCAAAGATCAACG-AAA
*
10437768 TCAACATCCAAGATCAACGAAA
1 TCAACATCAAAGATCAACGAAA
10437790 TC
1 TC
10437792 TATTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.46, C:0.28, G:0.11, T:0.15
Consensus pattern (22 bp):
TCAACATCAAAGATCAACGAAA
Found at i:10437825 original size:20 final size:20
Alignment explanation
Indices: 10437800--10437851 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
10437790 TCTATTATAT
10437800 AATATATAATAAAATATCTA
1 AATATATAATAAAATATCTA
* **
10437820 AATATATAACAACCTATCTA
1 AATATATAATAAAATATCTA
**
10437840 TTTATATAATAA
1 AATATATAATAA
10437852 TATTTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATATAATAAAATATCTA
Found at i:10444675 original size:24 final size:24
Alignment explanation
Indices: 10444647--10444696 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
10444637 CATTAGCAGC
10444647 TTTTAGATCTCTATGTATTATTCT
1 TTTTAGATCTCTATGTATTATTCT
10444671 TTTTAGATCTCTATGTATTATTCT
1 TTTTAGATCTCTATGTATTATTCT
10444695 TT
1 TT
10444697 ATCTCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTTAGATCTCTATGTATTATTCT
Found at i:10446295 original size:21 final size:20
Alignment explanation
Indices: 10446269--10446309 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10446259 TTATTAATAA
10446269 AACTAAATCCTAGGAAGATTT
1 AACTAAAT-CTAGGAAGATTT
* *
10446290 AACTAAGTCTAGGGAGATTT
1 AACTAAATCTAGGAAGATTT
10446310 GTTAGCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
AACTAAATCTAGGAAGATTT
Found at i:10451529 original size:26 final size:26
Alignment explanation
Indices: 10451450--10451531 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
10451440 TGATAAAAAT
*
10451450 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10451476 TAATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10451502 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10451528 TGAT
1 TGAT
10451532 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10452724 original size:8 final size:8
Alignment explanation
Indices: 10452711--10452740 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10452701 ATATCGGCAC
10452711 AAGCCGAA
1 AAGCCGAA
10452719 AAGCCGAA
1 AAGCCGAA
*
10452727 ATGCCGAA
1 AAGCCGAA
10452735 AAGCCG
1 AAGCCG
10452741 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:10453168 original size:27 final size:27
Alignment explanation
Indices: 10453130--10453243 Score: 160
Period size: 27 Copynumber: 4.2 Consensus size: 27
10453120 AGGAAGCGTC
*
10453130 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
10453157 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
10453184 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
10453211 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
10453238 CTGGTG
1 CTGGTG
10453244 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.10
27 71 0.89
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:10453254 original size:27 final size:26
Alignment explanation
Indices: 10453130--10453261 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 26
10453120 AGGAAGCGTC
* *
10453130 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
10453157 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
10453184 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
10453211 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
10453238 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
10453262 GCAGCCTCAC
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
26 8 0.08
27 87 0.91
28 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:10458534 original size:25 final size:26
Alignment explanation
Indices: 10458504--10458631 Score: 205
Period size: 24 Copynumber: 5.2 Consensus size: 26
10458494 TGATAAAAAT
*
10458504 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10458530 T-ATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10458555 TGATAAT-GGTTAGGT--ATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10458578 TGATAATGGGTTAGGT--ATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10458602 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10458628 TGAT
1 TGAT
10458632 GGGAATTTCA
Statistics
Matches: 97, Mismatches: 1, Indels: 8
0.92 0.01 0.08
Matches are distributed among these distances:
23 15 0.15
24 32 0.33
25 32 0.33
26 18 0.19
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10460305 original size:54 final size:54
Alignment explanation
Indices: 10460223--10460366 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
10460213 TGGAGGAAGA
10460223 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
10460277 GTCCTGGTGACTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
10460331 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
10460367 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:10460377 original size:27 final size:27
Alignment explanation
Indices: 10460226--10460384 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
10460216 AGGAAGAGTC
*
10460226 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
10460253 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
10460280 CTGGTGACTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
10460307 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
10460334 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
10460361 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
10460385 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:10460378 original size:81 final size:80
Alignment explanation
Indices: 10460226--10460384 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 80
10460216 AGGAAGAGTC
10460226 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
10460291 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
10460307 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
10460370 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
10460385 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
80 17 0.24
81 54 0.76
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:10463774 original size:14 final size:15
Alignment explanation
Indices: 10463755--10463784 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10463745 CATGTGGAAA
10463755 AAAAATA-TAAAAAT
1 AAAAATATTAAAAAT
10463769 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
10463784 A
1 A
10463785 TATAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:10463793 original size:27 final size:25
Alignment explanation
Indices: 10463752--10463821 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 25
10463742 TAACATGTGG
* *
10463752 AAAAAAAATATAAAAATAAAAATATT
1 AAAAAATATAGAAAAATAAAAA-ATT
*
10463778 AAAAATATATAGAAAAATATAAAATT
1 AAAAA-ATATAGAAAAATAAAAAATT
*
10463804 AAAAAATATATAAAAATA
1 AAAAAATATAGAAAAATA
10463822 TCTTTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 12 0.31
26 13 0.33
27 14 0.36
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAAAATATAGAAAAATAAAAAATT
Found at i:10463893 original size:20 final size:19
Alignment explanation
Indices: 10463863--10463967 Score: 85
Period size: 19 Copynumber: 5.4 Consensus size: 19
10463853 TATAATGAAT
10463863 TATAGAAAATCATTTAAAAAA
1 TATA-AAAATCA-TTAAAAAA
*
10463884 TATAAAAATCATTATAAAA
1 TATAAAAATCATTAAAAAA
10463903 TAT-AAAAT-A-TAAAAAA
1 TATAAAAATCATTAAAAAA
10463919 TCATAAAAA-C-TTATAAAAA
1 T-ATAAAAATCATTA-AAAAA
*
10463938 TAGTAAAAATTCATAAAATAAA
1 TA-TAAAAA-TCATTAAA-AAA
10463960 TTATAAAA
1 -TATAAAA
10463968 TTCGTAAATA
Statistics
Matches: 70, Mismatches: 3, Indels: 21
0.74 0.03 0.22
Matches are distributed among these distances:
16 7 0.10
17 3 0.04
18 12 0.17
19 22 0.31
20 7 0.10
21 7 0.10
22 10 0.14
23 2 0.03
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
TATAAAAATCATTAAAAAA
Found at i:10463933 original size:27 final size:26
Alignment explanation
Indices: 10463879--10463955 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 26
10463869 AAATCATTTA
10463879 AAAAATAT-AAAAATCATTATAAAATAT
1 AAAAATATAAAAAATCA-TA-AAAATAT
10463906 -AAAATATAAAAAATCATAAAAACTTAT
1 AAAAATATAAAAAATCATAAAAA--TAT
*
10463933 AAAAATAGTAAAAATTCATAAAA
1 AAAAATA-TAAAAAATCATAAAA
10463956 TAAATTATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 4 0.09
26 9 0.20
27 11 0.25
28 6 0.14
29 14 0.32
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (26 bp):
AAAAATATAAAAAATCATAAAAATAT
Found at i:10463947 original size:9 final size:8
Alignment explanation
Indices: 10463879--10463947 Score: 59
Period size: 9 Copynumber: 7.8 Consensus size: 8
10463869 AAATCATTTA
10463879 AAAAATAT
1 AAAAATAT
10463887 AAAAATCATT
1 AAAAAT-A-T
10463897 ATAAAATAT
1 A-AAAATAT
10463906 -AAAATAT
1 AAAAATAT
10463913 AAAAAATCAT
1 -AAAAAT-AT
10463923 AAAAACTTAT
1 AAAAA--TAT
10463933 AAAAATAGT
1 AAAAATA-T
10463942 AAAAAT
1 AAAAAT
10463948 TCATAAAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
7 7 0.13
8 8 0.15
9 19 0.37
10 12 0.23
11 6 0.12
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:10463954 original size:10 final size:9
Alignment explanation
Indices: 10463767--10464004 Score: 68
Period size: 10 Copynumber: 25.0 Consensus size: 9
10463757 AAATATAAAA
10463767 ATAAAAA-T
1 ATAAAAATT
10463775 ATTAAAAATAT
1 A-TAAAAAT-T
*
10463786 ATAGAAAAAT
1 ATA-AAAATT
10463796 AT-AAAATT
1 ATAAAAATT
10463804 A-AAAAATAT
1 ATAAAAAT-T
10463813 ATAAAAATAT
1 ATAAAAAT-T
* **
10463823 CTTTCAAATT
1 -ATAAAAATT
10463833 CATTAAAAAATT
1 -A-T-AAAAATT
*
10463845 ATTACAAA-T
1 A-TAAAAATT
*
10463854 ATAATGAATT
1 ATAA-AAATT
10463864 ATAGAAAATCAT
1 ATA-AAAAT--T
* *
10463876 TTAAAAAAT
1 ATAAAAATT
*
10463885 ATAAAAATC
1 ATAAAAATT
10463894 ATTATAAAA-T
1 A-TA-AAAATT
10463904 AT-AAAA-T
1 ATAAAAATT
*
10463911 ATAAAAAATC
1 AT-AAAAATT
10463921 ATAAAAACTT
1 ATAAAAA-TT
10463931 ATAAAAA-T
1 ATAAAAATT
10463939 AGTAAAAATT
1 A-TAAAAATT
10463949 CATAAAATAAATT
1 -AT--AA-AAATT
10463962 AT-AAAATT
1 ATAAAAATT
*
10463970 CGTAAATAATT
1 -ATAAA-AATT
10463981 AT-AAAATT
1 ATAAAAATT
10463989 -TAAAAATT
1 ATAAAAATT
10463997 -TAAAAATT
1 ATAAAAATT
10464005 TTATTAAAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 62
0.68 0.08 0.24
Matches are distributed among these distances:
7 8 0.05
8 39 0.22
9 40 0.23
10 44 0.25
11 29 0.16
12 12 0.07
13 5 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:10463982 original size:19 final size:21
Alignment explanation
Indices: 10463943--10463988 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
10463933 AAAAATAGTA
10463943 AAAATTCATAAAATAAATTAT
1 AAAATTCATAAAATAAATTAT
*
10463964 AAAATTCGT-AAAT-AATTAT
1 AAAATTCATAAAATAAATTAT
10463983 AAAATT
1 AAAATT
10463989 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 4 0.17
21 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATTCATAAAATAAATTAT
Found at i:10463995 original size:19 final size:20
Alignment explanation
Indices: 10463943--10463995 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
10463933 AAAAATAGTA
10463943 AAAATTCATAAAATAAATTAT
1 AAAATTCA-AAAATAAATTAT
**
10463964 AAAATTCGTAAAT-AATTAT
1 AAAATTCAAAAATAAATTAT
*
10463983 AAAATTTAAAAAT
1 AAAATTCAAAAAT
10463996 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.59
20 4 0.15
21 7 0.26
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATTCAAAAATAAATTAT
Found at i:10465922 original size:11 final size:10
Alignment explanation
Indices: 10465891--10465951 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
10465881 AAATTACAAA
10465891 TTTTATATTT
1 TTTTATATTT
10465901 TTTTATA-TT
1 TTTTATATTT
10465910 TTTTATATTT
1 TTTTATATTT
*
10465920 TTTCA-ATATT
1 TTTTATAT-TT
*
10465930 TTTTACA-TT
1 TTTTATATTT
*
10465939 TTTAATATTT
1 TTTTATATTT
10465949 TTT
1 TTT
10465952 ATTGATTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 18 0.42
10 24 0.56
11 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATATTT
Found at i:10465952 original size:10 final size:9
Alignment explanation
Indices: 10465891--10465980 Score: 92
Period size: 9 Copynumber: 9.7 Consensus size: 9
10465881 AAATTACAAA
10465891 TTTTATATTT
1 TTTTATA-TT
10465901 TTTTATATT
1 TTTTATATT
10465910 TTTTATATT
1 TTTTATATT
10465919 TTTTCAATATT
1 TTTT--ATATT
*
10465930 TTTTACATT
1 TTTTATATT
*
10465939 TTTAATATT
1 TTTTATATT
*
10465948 TTTTAT-TG
1 TTTTATATT
*
10465956 ATTTATATT
1 TTTTATATT
*
10465965 TTTTATCGTT
1 TTTTAT-ATT
10465975 TTTTAT
1 TTTTAT
10465981 CACATGCCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
8 6 0.09
9 37 0.55
10 15 0.22
11 9 0.13
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTATATT
Found at i:10465959 original size:20 final size:18
Alignment explanation
Indices: 10465891--10465970 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 18
10465881 AAATTACAAA
*
10465891 TTTTATATTTTTTTATATT
1 TTTTATA-TTTTTAATATT
10465910 TTTTATATTTTTTCAATATT
1 TTTTATA-TTTTT-AATATT
*
10465930 TTTTACATTTTTAATATT
1 TTTTATATTTTTAATATT
*
10465948 TTTTAT-TGATTT-ATATT
1 TTTTATAT-TTTTAATATT
10465965 TTTTAT
1 TTTTAT
10465971 CGTTTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.22
18 14 0.25
19 18 0.33
20 11 0.20
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTTATATTTTTAATATT
Found at i:10466636 original size:3 final size:3
Alignment explanation
Indices: 10466624--10466668 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
10466614 TGAGTAGTAA
* * *
10466624 AAG AAA AAG AAG AAG -AG ACG AAG AAG AAG AAG AAG AAC AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10466669 GAAAAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10478063 original size:12 final size:13
Alignment explanation
Indices: 10478046--10478074 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10478036 CTCATACATG
10478046 AATAAATAAA-GC
1 AATAAATAAATGC
10478058 AATAAATAAATGC
1 AATAAATAAATGC
10478071 AATA
1 AATA
10478075 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:10480985 original size:20 final size:20
Alignment explanation
Indices: 10480956--10480999 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10480946 TACCATTATT
*
10480956 AAAA-AAGGTTTATATGTTA
1 AAAAGAAGGTTTATATGTCA
10480975 AAAAGAAGGTTTATATGTCA
1 AAAAGAAGGTTTATATGTCA
10480995 AAAAG
1 AAAAG
10481000 GCCCTTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.02, G:0.18, T:0.30
Consensus pattern (20 bp):
AAAAGAAGGTTTATATGTCA
Found at i:10481245 original size:19 final size:19
Alignment explanation
Indices: 10481214--10481310 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
10481204 TAAAAATGAT
*
10481214 TAAAAAT-ACAAAAAAATC
1 TAAAAATAATAAAAAAATC
* *
10481232 TAAAAATAATAAAAAAGTA
1 TAAAAATAATAAAAAAATC
10481251 TAAATATTATAAAATATAAAAAATC
1 TAAA-A--AT--AATA-AAAAAATC
*
10481276 TAATAAATTATAAAAAAAT-
1 TAA-AAATAATAAAAAAATC
10481295 TATAAAATTAATAAAA
1 TA-AAAA-TAATAAAA
10481311 TATATTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.11
19 17 0.27
20 16 0.26
21 3 0.05
22 2 0.03
23 2 0.03
24 4 0.06
25 10 0.16
26 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (19 bp):
TAAAAATAATAAAAAAATC
Found at i:10481269 original size:26 final size:27
Alignment explanation
Indices: 10481234--10481314 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 27
10481224 AAAAAATCTA
*
10481234 AAAATAATAAAAAAGTATAA-ATATTAT
1 AAAATAATAAAAAA-TATAATAAATTAT
*
10481261 AAAAT-ATAAAAAATCTAATAAATTAT
1 AAAATAATAAAAAATATAATAAATTAT
* * *
10481287 AAAAAAATTATAAAAT-TAATAAAATAT
1 AAAATAA-TAAAAAATATAATAAATTAT
10481314 A
1 A
10481315 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.09
26 18 0.39
27 17 0.37
28 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
AAAATAATAAAAAATATAATAAATTAT
Found at i:10481292 original size:46 final size:44
Alignment explanation
Indices: 10481207--10481314 Score: 130
Period size: 46 Copynumber: 2.4 Consensus size: 44
10481197 TTTCTCATAA
*
10481207 AAATGATTA-AAAATACAAAAAAATCTAAAAATAATAAAAAAGTAT
1 AAAT-ATTATAAAATA-TAAAAAATCTAAAAATAATAAAAAAGTAT
* *
10481252 AAATATTATAAAATATAAAAAATCTAATAAATTATAAAAAAATTAT
1 AAATATTATAAAATATAAAAAATCTAA-AAATAAT-AAAAAAGTAT
10481298 AAA-ATTAATAAAATATA
1 AAATATT-ATAAAATATA
10481315 TTTAAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
44 15 0.27
45 19 0.34
46 22 0.39
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (44 bp):
AAATATTATAAAATATAAAAAATCTAAAAATAATAAAAAAGTAT
Found at i:10481311 original size:9 final size:10
Alignment explanation
Indices: 10481232--10481314 Score: 63
Period size: 9 Copynumber: 8.9 Consensus size: 10
10481222 CAAAAAAATC
10481232 TAAAA-ATAA
1 TAAAATATAA
*
10481241 TAAAA-A-AG
1 TAAAATATAA
*
10481249 TATAAATATTA
1 TA-AAATATAA
10481260 TAAAATATAA
1 TAAAATATAA
*
10481270 -AAAATCTAA
1 TAAAATATAA
*
10481279 TAAATTATAA
1 TAAAATATAA
*
10481289 -AAAA-ATTA
1 TAAAATATAA
10481297 TAAAAT-TAA
1 TAAAATATAA
10481306 TAAAATATA
1 TAAAATATA
10481315 TTTAAAATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
8 6 0.11
9 32 0.56
10 17 0.30
11 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (10 bp):
TAAAATATAA
Found at i:10481320 original size:20 final size:19
Alignment explanation
Indices: 10481256--10481457 Score: 66
Period size: 19 Copynumber: 10.5 Consensus size: 19
10481246 AAGTATAAAT
10481256 ATTATAAAA-TAT-AAAAA
1 ATTATAAAATTATAAAAAA
10481273 ATCTA-ATAAATTATAAAAAA
1 AT-TATA-AAATTATAAAAAA
*
10481293 ATTATAAAATTAATAAAATAT
1 ATTATAAAATT-ATAAAA-AA
* *
10481314 ATT-TAAAATTTTATAAGAA
1 ATTATAAAATTATA-AAAAA
*** *
10481333 ATCGTATACTTTTTTAAAAAA
1 AT--TATAAAATTATAAAAAA
* **
10481354 CTTATAAAAATT-TATCAAA
1 ATTAT-AAAATTATAAAAAA
*
10481373 ATTATTAGAA-TAT-AAAAA
1 ATTA-TAAAATTATAAAAAA
* *
10481391 TTTATCAAAATTAT--TAAA
1 ATTAT-AAAATTATAAAAAA
10481409 A-TATAAAATT-TAATATAAA
1 ATTATAAAATTATAA-A-AAA
*
10481428 CTTATAAAATTTATAAAAAGA
1 ATTATAAAA-TTATAAAAA-A
*
10481449 ATCATAAAA
1 ATTATAAAA
10481458 ACTTGAATTG
Statistics
Matches: 135, Mismatches: 26, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
15 1 0.01
16 6 0.04
17 7 0.05
18 18 0.13
19 36 0.27
20 36 0.27
21 21 0.16
22 10 0.07
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTATAAAATTATAAAAAA
Found at i:10481368 original size:10 final size:10
Alignment explanation
Indices: 10481345--10481446 Score: 60
Period size: 10 Copynumber: 11.0 Consensus size: 10
10481335 CGTATACTTT
10481345 TTTA-AAAAA
1 TTTATAAAAA
*
10481354 CTTATAAAAA
1 TTTATAAAAA
*
10481364 TTTATCAAAA
1 TTTATAAAAA
* *
10481374 -TTATTAGAA
1 TTTATAAAAA
10481383 --TATAAAAA
1 TTTATAAAAA
*
10481391 TTTATCAAAA
1 TTTATAAAAA
*
10481401 -TTATTAAAA
1 TTTATAAAAA
10481410 --TAT-AAAA
1 TTTATAAAAA
*
10481417 TTTAATATAAA
1 TTT-ATAAAAA
*
10481428 CTTAT-AAAA
1 TTTATAAAAA
10481437 TTTATAAAAA
1 TTTATAAAAA
10481447 GAATCATAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
7 4 0.06
8 9 0.12
9 26 0.36
10 28 0.39
11 5 0.07
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:10481377 original size:9 final size:9
Alignment explanation
Indices: 10481349--10481446 Score: 65
Period size: 9 Copynumber: 10.6 Consensus size: 9
10481339 TACTTTTTTA
10481349 AAAAACTTAT
1 AAAAA-TTAT
10481359 AAAAATTTAT
1 AAAAA-TTAT
*
10481369 CAAAATTAT
1 AAAAATTAT
* *
10481378 TAGAA-TAT
1 AAAAATTAT
10481386 AAAAATTTAT
1 AAAAA-TTAT
*
10481396 CAAAATTAT
1 AAAAATTAT
*
10481405 TAAAA-TAT
1 AAAAATTAT
*
10481413 AAAATTTAAT
1 AAAAATT-AT
*
10481423 ATAAACTTAT
1 A-AAAATTAT
*
10481433 AAAATTTAT
1 AAAAATTAT
10481442 AAAAA
1 AAAAA
10481447 GAATCATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
8 12 0.17
9 27 0.39
10 26 0.37
11 5 0.07
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10481437 original size:27 final size:27
Alignment explanation
Indices: 10481356--10481420 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
10481346 TTAAAAAACT
*
10481356 TATAAAAATTTATCAAAATTATTAGAA
1 TATAAAAATTTATCAAAATTATTAAAA
10481383 TATAAAAATTTATCAAAATTATTAAAA
1 TATAAAAATTTATCAAAATTATTAAAA
10481410 TAT-AAAATTTA
1 TATAAAAATTTA
10481421 ATATAAACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 8 0.22
27 29 0.78
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (27 bp):
TATAAAAATTTATCAAAATTATTAAAA
Found at i:10488359 original size:17 final size:19
Alignment explanation
Indices: 10488319--10488359 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10488309 ATACATGTAT
10488319 TATTATTATATACATATGA
1 TATTATTATATACATATGA
*
10488338 TTATTATT-TTTACATATG-
1 -TATTATTATATACATATGA
10488356 TATT
1 TATT
10488360 TCACTATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
TATTATTATATACATATGA
Found at i:10488433 original size:5 final size:5
Alignment explanation
Indices: 10488425--10488462 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
10488415 ATACTTTAAT
10488425 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
10488463 TTTCTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:10490144 original size:27 final size:27
Alignment explanation
Indices: 10490106--10490159 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
10490096 AAGTTCTAAG
*
10490106 GAGATTTGTTAGCTTATTAGTAGGAGT
1 GAGAGTTGTTAGCTTATTAGTAGGAGT
*
10490133 GAGAGTTGTTAGCTTGTTAGTAGGAGT
1 GAGAGTTGTTAGCTTATTAGTAGGAGT
10490160 AGCAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (27 bp):
GAGAGTTGTTAGCTTATTAGTAGGAGT
Found at i:10491280 original size:2 final size:2
Alignment explanation
Indices: 10491273--10491313 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10491263 AACACATAAA
10491273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10491314 AAGTCATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10491950 original size:41 final size:41
Alignment explanation
Indices: 10491836--10491959 Score: 109
Period size: 41 Copynumber: 3.1 Consensus size: 41
10491826 CTTGTACTTG
*
10491836 CACATATTTTACCATGGCCTTGTCATGATCACACACTTTAT
1 CACATATTTTACCATGGCCTTGTCATGATCACACACTTCAT
* * * **
10491877 CAC--A--TTGCCATAG-CTTAG-CTATGGTCTTACACTTGCA-
1 CACATATTTTACCATGGCCTT-GTC-ATGATCACACACTT-CAT
*
10491914 CACATATTTTACCATGGCCTTGTCATGATCACACACTTTAT
1 CACATATTTTACCATGGCCTTGTCATGATCACACACTTCAT
10491955 CACAT
1 CACAT
10491960 TGCCATAGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 20
0.66 0.13 0.22
Matches are distributed among these distances:
36 4 0.07
37 22 0.36
38 1 0.02
39 2 0.03
40 1 0.02
41 27 0.44
42 4 0.07
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (41 bp):
CACATATTTTACCATGGCCTTGTCATGATCACACACTTCAT
Found at i:10491956 original size:78 final size:78
Alignment explanation
Indices: 10491796--10491998 Score: 338
Period size: 78 Copynumber: 2.6 Consensus size: 78
10491786 GACCACGTAT
* * * **
10491796 TTTATCACACTGCCACAGCTTAACTATGGTCTTGTACTTG--CACATATTTTACCATGGCCTTGT
1 TTTATCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCACACATATTTTACCATGGCCTTGT
10491859 CATGATCACACAC
66 CATGATCACACAC
10491872 TTTATCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCACACATATTTTACCATGGCCTTGT
1 TTTATCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCACACATATTTTACCATGGCCTTGT
10491937 CATGATCACACAC
66 CATGATCACACAC
*
10491950 TTTATCACATTGCCATAGCTTAGCCATGGTCTTACACTTGCACACATAT
1 TTTATCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCACACATAT
10491999 GTATCTGCCA
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
76 35 0.29
78 84 0.71
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (78 bp):
TTTATCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCACACATATTTTACCATGGCCTTGT
CATGATCACACAC
Found at i:10491996 original size:37 final size:37
Alignment explanation
Indices: 10491877--10491996 Score: 100
Period size: 37 Copynumber: 3.1 Consensus size: 37
10491867 CACACTTTAT
*
10491877 CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
1 CACATTGCCATAGCTTAGCCATGGTCTTACACTTGCA
* * * * ** *
10491914 CACATATTTTACCATGGCCTT-GTCATGATCACACACTT-TA
1 CAC--A--TTGCCATAG-CTTAGCCATGGTCTTACACTTGCA
10491954 TCACATTGCCATAGCTTAGCCATGGTCTTACACTTGCA
1 -CACATTGCCATAGCTTAGCCATGGTCTTACACTTGCA
10491992 CACAT
1 CACAT
10491997 ATGTATCTGC
Statistics
Matches: 60, Mismatches: 15, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
36 3 0.05
37 28 0.47
38 1 0.02
39 2 0.03
40 1 0.02
41 22 0.37
42 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (37 bp):
CACATTGCCATAGCTTAGCCATGGTCTTACACTTGCA
Found at i:10496363 original size:15 final size:16
Alignment explanation
Indices: 10496336--10496365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10496326 GTATTTAATT
10496336 ATAATATAAGTAAATA
1 ATAATATAAGTAAATA
10496352 ATAATA-AAGTAAAT
1 ATAATATAAGTAAAT
10496366 TATATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATATAAGTAAATA
Found at i:10496475 original size:16 final size:17
Alignment explanation
Indices: 10496447--10496490 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
10496437 CACGAATAGT
10496447 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
10496467 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
10496484 AGGGAAA
1 AGGGAAA
10496491 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:10501894 original size:76 final size:77
Alignment explanation
Indices: 10501786--10501947 Score: 236
Period size: 76 Copynumber: 2.1 Consensus size: 77
10501776 CAATTTGGTT
* ** *
10501786 TTGCACACACTTTTATCATGGTTTTGCCATGATCACATACTTTATCACATTGCCATAACTTAACT
1 TTGCACACACTTTTACCATGGCCTTGCCATGATCACACACTTTATCACATTGCCATAACTTAACT
*
10501851 ATGGTCTTGCAC
66 ATGGTCTTACAC
* * * *
10501863 TTGCACATA-TTTTACCATGGCCTTGCTATGATCACACACTTTATCACATTGCCATAGCTTAGCT
1 TTGCACACACTTTTACCATGGCCTTGCCATGATCACACACTTTATCACATTGCCATAACTTAACT
10501927 ATGGTCTTACAC
66 ATGGTCTTACAC
10501939 TTGCACACA
1 TTGCACACA
10501948 TATGTAACTG
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 67 0.89
77 8 0.11
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (77 bp):
TTGCACACACTTTTACCATGGCCTTGCCATGATCACACACTTTATCACATTGCCATAACTTAACT
ATGGTCTTACAC
Found at i:10501948 original size:37 final size:37
Alignment explanation
Indices: 10501831--10501948 Score: 96
Period size: 37 Copynumber: 3.1 Consensus size: 37
10501821 CATACTTTAT
* * *
10501831 CACATTGCCATAACTTAACTATGGTCTTGCACTTGCA
1 CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
* * * * ** *
10501868 CATATTTTACCATGGCCTT-GCTATGATCACACACTT-TA
1 CACA--TTGCCATAG-CTTAGCTATGGTCTTACACTTGCA
10501906 TCACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
1 -CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
10501944 CACAT
1 CACAT
10501949 ATGTAACTGC
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
36 3 0.05
37 29 0.50
38 2 0.03
39 21 0.36
40 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (37 bp):
CACATTGCCATAGCTTAGCTATGGTCTTACACTTGCA
Found at i:10502289 original size:9 final size:8
Alignment explanation
Indices: 10502265--10502309 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
10502255 AATACAACCC
10502265 AAAAT-AA
1 AAAATAAA
10502272 AAAATAAA
1 AAAATAAA
10502280 AAAATAAA
1 AAAATAAA
10502288 AAAATGAAGA
1 AAAAT-AA-A
*
10502298 AAAAGAAA
1 AAAATAAA
10502306 AAAA
1 AAAA
10502310 CCTAACCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:10503208 original size:2 final size:2
Alignment explanation
Indices: 10503201--10503242 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10503191 ATTATCTGTT
10503201 TA TA TA TA TA TA 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 TA TA TA TA TA TA
10503243 ATTTAGCTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10503535 original size:19 final size:19
Alignment explanation
Indices: 10503511--10503548 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10503501 TTGAGATTGC
*
10503511 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
10503530 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
10503549 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:10518364 original size:3 final size:3
Alignment explanation
Indices: 10518354--10518391 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10518344 ATTATTAATC
10518354 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10518392 ATATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10519096 original size:20 final size:20
Alignment explanation
Indices: 10519062--10519103 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10519052 AATCATTTAA
** *
10519062 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
10519082 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
10519102 AT
1 AT
10519104 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:10520662 original size:26 final size:25
Alignment explanation
Indices: 10520633--10520687 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
10520623 AAAATATCCC
* *
10520633 CTTTTAACAATTATAAATGTAAATGA
1 CTTTTAACAA-AAAAAATGTAAATGA
*
10520659 CTTTTTATCAAAAAAAATGTAAATGA
1 C-TTTTAACAAAAAAAATGTAAATGA
10520685 CTT
1 CTT
10520688 AAAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 2 0.08
26 15 0.60
27 8 0.32
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (25 bp):
CTTTTAACAAAAAAAATGTAAATGA
Found at i:10520989 original size:22 final size:22
Alignment explanation
Indices: 10520943--10520993 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
10520933 CTTCTATATA
10520943 TTTTTTTAAAATTAAATATTAAT
1 TTTTTTTAAAA-TAAATATTAAT
10520966 TTATTTTTAAAA-AAATA-TAGAT
1 TT-TTTTTAAAATAAATATTA-AT
10520988 TTTTTT
1 TTTTTT
10520994 ATTTGATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 6 0.23
22 9 0.35
23 2 0.08
24 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTTTTAAAATAAATATTAAT
Found at i:10525211 original size:7 final size:7
Alignment explanation
Indices: 10525199--10525223 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10525189 CTTTCATATT
10525199 TTCTTTA
1 TTCTTTA
10525206 TTCTTTA
1 TTCTTTA
10525213 TTCTTTA
1 TTCTTTA
10525220 TTCT
1 TTCT
10525224 CTCTATCTTT
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:10525263 original size:2 final size:2
Alignment explanation
Indices: 10525256--10525281 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10525246 ACAAGTATTT
10525256 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
10525282 AAATGGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10530377 original size:24 final size:24
Alignment explanation
Indices: 10530254--10530375 Score: 201
Period size: 24 Copynumber: 5.0 Consensus size: 24
10530244 AAGGCTATCA
10530254 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
10530278 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
10530302 GGA-AAGGATTTAGGAGCTGATAAG
1 GGAGAA-GATTTAGGAGCTGATAAG
*
10530326 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
10530350 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
10530375 G
1 G
10530376 AGCAAGAGTT
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 1 0.01
24 85 0.93
25 5 0.05
ACGTcount: A:0.35, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:10531800 original size:27 final size:26
Alignment explanation
Indices: 10531760--10531843 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
10531750 AGGAAGCGTC
* * *
10531760 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGTT
10531787 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
10531814 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
10531840 CTGG
1 CTGG
10531844 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.27
27 37 0.73
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:10535592 original size:18 final size:18
Alignment explanation
Indices: 10535569--10535608 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
10535559 CAGACCACAC
*
10535569 GCCTGTGCCTATTTAATA
1 GCCTGTGCCTATTTAACA
10535587 GCCTGTGCCTATTTAACA
1 GCCTGTGCCTATTTAACA
10535605 GCCT
1 GCCT
10535609 TGACCACGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (18 bp):
GCCTGTGCCTATTTAACA
Found at i:10548891 original size:25 final size:25
Alignment explanation
Indices: 10548854--10549024 Score: 68
Period size: 25 Copynumber: 7.0 Consensus size: 25
10548844 GTACTCATAC
* *
10548854 GAGCACATA-AACGGGAAGATCTTTT
1 GAGC-CATATAACGGGAAGATCATGT
* *
10548879 GAGCCATATAACGGGGAGCTCATGT
1 GAGCCATATAACGGGAAGATCATGT
* * * *
10548904 GAGCCATGTAACGAGAAGCTC-TGGA
1 GAGCCATATAACGGGAAGATCAT-GT
* * * **
10548929 GAGCCAT-TAATGGAAAGCTCATAC
1 GAGCCATATAACGGGAAGATCATGT
* * * * *
10548953 GAG-CAAATATCGGGAAGTTCAAGG
1 GAGCCATATAACGGGAAGATCATGT
* *
10548977 GAGCCA-ATATCGGGAAGAT-ATGGA
1 GAGCCATATAACGGGAAGATCAT-GT
*
10549001 GAGCCAT-TAATCGGGAAGCTCATG
1 GAGCCATATAA-CGGGAAGATCATG
10549025 AAAGAGCCTT
Statistics
Matches: 111, Mismatches: 26, Indels: 18
0.72 0.17 0.12
Matches are distributed among these distances:
23 3 0.03
24 52 0.47
25 54 0.49
26 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGATCATGT
Found at i:10549004 original size:24 final size:24
Alignment explanation
Indices: 10548953--10549018 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
10548943 AAGCTCATAC
* *
10548953 GAGCAAATATCGGGAAGTTCAAGG
1 GAGCCAATATCGGGAAGATCAAGG
*
10548977 GAGCCAATATCGGGAAGAT-ATGG
1 GAGCCAATATCGGGAAGATCAAGG
*
10549000 AGAGCCATTAATCGGGAAG
1 -GAGCCAAT-ATCGGGAAG
10549019 CTCATGAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.08
24 24 0.67
25 9 0.25
ACGTcount: A:0.36, C:0.14, G:0.33, T:0.17
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGATCAAGG
Found at i:10551891 original size:17 final size:16
Alignment explanation
Indices: 10551871--10551911 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10551861 AAATTGGAAA
10551871 GATAAAAAAATAAAGAT
1 GATAAAAAAATAAA-AT
10551888 GAT-AAAAAATAAAAT
1 GATAAAAAAATAAAAT
10551903 -A-AAAAAAAT
1 GATAAAAAAAT
10551912 CATCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 10 0.43
17 3 0.13
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
GATAAAAAAATAAAAT
Found at i:10553174 original size:25 final size:25
Alignment explanation
Indices: 10553121--10553183 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
10553111 GGCTCTTATG
* * * *
10553121 AGCTTTCCGTTGTACAGCTCAGATA
1 AGCTTCCCGTTATACAGATCACATA
*
10553146 AGCTTCCCGTTATACAGATCACATT
1 AGCTTCCCGTTATACAGATCACATA
*
10553171 AGCTTCCTGTTAT
1 AGCTTCCCGTTAT
10553184 TTGGCTTGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGTTATACAGATCACATA
Found at i:10555712 original size:28 final size:28
Alignment explanation
Indices: 10555680--10555735 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10555670 CGGTGTTGTC
10555680 TCCGAAACAAGATCTATTGAAAATTCAA
1 TCCGAAACAAGATCTATTGAAAATTCAA
10555708 TCCGAAACAAGATCTATTGAAAATTCAA
1 TCCGAAACAAGATCTATTGAAAATTCAA
10555736 CTTCCCTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (28 bp):
TCCGAAACAAGATCTATTGAAAATTCAA
Found at i:10556779 original size:42 final size:42
Alignment explanation
Indices: 10556719--10556802 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
10556709 TTTCTTTGAT
* * *
10556719 TTCTTCGAAGCTGGCTGATATGACTTTCCTATCATTCTCTTA
1 TTCTTCAAAGCTGACTGATATGACTTTCCCATCATTCTCTTA
*
10556761 TTCTTCAAAGCTGACTGATATGACTTTCCCGTCATTCTCTTA
1 TTCTTCAAAGCTGACTGATATGACTTTCCCATCATTCTCTTA
10556803 CTTGTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (42 bp):
TTCTTCAAAGCTGACTGATATGACTTTCCCATCATTCTCTTA
Found at i:10559257 original size:24 final size:24
Alignment explanation
Indices: 10559206--10559259 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10559196 AAGCTCATAT
** *
10559206 GAGCCAATATCAGGAATTTCAAGC
1 GAGCCAATATCAGGAAGCTCAAGA
**
10559230 GAGCCAATATCAGGAAGCTCTGGA
1 GAGCCAATATCAGGAAGCTCAAGA
10559254 GAGCCA
1 GAGCCA
10559260 TTAATCGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCAATATCAGGAAGCTCAAGA
Found at i:10572715 original size:31 final size:31
Alignment explanation
Indices: 10572672--10572735 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
10572662 CCTTTTCATA
*
10572672 TTTCATAATTCATAACGCTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
10572703 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
10572734 TT
1 TT
10572736 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:10572979 original size:24 final size:24
Alignment explanation
Indices: 10572928--10573118 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
10572918 GCTTTATCAT
*
10572928 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
10572953 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10572977 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10573001 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
10573025 GTAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
10573049 ATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
10573073 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10573096 ATAACTTGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10573119 TCACTTCCTC
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.14
24 123 0.79
25 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10573196 original size:20 final size:20
Alignment explanation
Indices: 10573167--10573233 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
10573157 TTATGATTAC
10573167 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10573187 ATCGTGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10573207 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10573227 ACCATGT
1 ATCATGT
10573234 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:10580836 original size:30 final size:31
Alignment explanation
Indices: 10580800--10580862 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
10580790 CCTTTTCATA
*
10580800 TTTCATA-TTCATAACGCTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10580830 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10580861 TT
1 TT
10580863 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10581100 original size:23 final size:24
Alignment explanation
Indices: 10581051--10581237 Score: 278
Period size: 23 Copynumber: 8.0 Consensus size: 24
10581041 GCTTTATCAT
*
10581051 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
10581076 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10581099 ATAA-TGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10581122 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
10581145 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
10581169 GTAACTGGGGCATAAACCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
10581192 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10581215 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10581238 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
22 10 0.07
23 84 0.56
24 49 0.32
25 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10581156 original size:47 final size:47
Alignment explanation
Indices: 10581050--10581237 Score: 285
Period size: 47 Copynumber: 4.0 Consensus size: 47
10581040 TGCTTTATCA
*
10581050 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT
10581097 TAATAA-TGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
** *
10581144 TATAACTGGGGCATAAGCCCTTTTGGTAACTGGGGCATAAACCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
10581191 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
10581237 T
1 T
10581238 TCACTTCCTC
Statistics
Matches: 130, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
46 50 0.38
47 76 0.58
48 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:10581163 original size:70 final size:70
Alignment explanation
Indices: 10581050--10581237 Score: 274
Period size: 70 Copynumber: 2.7 Consensus size: 70
10581040 TGCTTTATCA
*
10581050 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAA-TGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
10581112 AGCCCTTT
63 AACCCTTT
**
10581120 TAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTGGTAACTGGGGCATAAA
1 T-ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAA
10581185 CCCTTT
65 CCCTTT
*
10581191 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
10581238 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
69 12 0.11
70 68 0.62
71 29 0.27
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (70 bp):
TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAAC
CCTTT
Found at i:10581315 original size:20 final size:20
Alignment explanation
Indices: 10581286--10581352 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
10581276 TTATGATTAC
10581286 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10581306 ATCGTGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10581326 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10581346 ACCATGT
1 ATCATGT
10581353 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:10583551 original size:27 final size:25
Alignment explanation
Indices: 10583521--10583574 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
10583511 CCTCCAGAAT
*
10583521 TAGATAAGTGTGATCAAACCACCATAA
1 TAGATAAGTG-GATAAAACCACCA-AA
* *
10583548 TAGATATGTGGTTAAAACCACCAAA
1 TAGATAAGTGGATAAAACCACCAAA
10583573 TA
1 TA
10583575 AGGTAGATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (25 bp):
TAGATAAGTGGATAAAACCACCAAA
Found at i:10584150 original size:18 final size:18
Alignment explanation
Indices: 10584127--10584161 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10584117 TATTTATTAG
10584127 GTTGGTTAAATTAGATGA
1 GTTGGTTAAATTAGATGA
10584145 GTTGGTTAAATTAGATG
1 GTTGGTTAAATTAGATG
10584162 CAGGCTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (18 bp):
GTTGGTTAAATTAGATGA
Found at i:10586197 original size:31 final size:31
Alignment explanation
Indices: 10586156--10586219 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
10586146 CCTTTTCATA
*
10586156 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
10586187 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
10586218 TT
1 TT
10586220 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:10586466 original size:24 final size:24
Alignment explanation
Indices: 10586434--10586574 Score: 205
Period size: 24 Copynumber: 6.0 Consensus size: 24
10586424 CCTAGCCTCT
*
10586434 TTTAATAACTGGGGCAAAAGCCCC
1 TTTAATAACTGGGGCATAAGCCCC
10586458 TTTAATAACTGGGGCATAAG-CCC
1 TTTAATAACTGGGGCATAAGCCCC
* *
10586481 TTTAATAACTGGGGCATAAACCCT
1 TTTAATAACTGGGGCATAAGCCCC
* *
10586505 TTTGATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCC
* *
10586529 TTTGATAACTGAGGCATAAG-CCC
1 TTTAATAACTGGGGCATAAGCCCC
10586552 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
10586575 TTTTGCACTT
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 42 0.40
24 64 0.60
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCC
Found at i:10586513 original size:71 final size:71
Alignment explanation
Indices: 10586432--10586579 Score: 242
Period size: 71 Copynumber: 2.1 Consensus size: 71
10586422 GGCCTAGCCT
* *
10586432 CTTTTAATAACTGGGGCAAAAGCCCCTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTGATAACTGGGGCAAAAGCCCCTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCA
10586497 TAAACC
66 TAAACC
* * *
10586503 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGAGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTGATAACTGGGGCAAAAGCCCCTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCA
*
10586568 TAAGCC
66 TAAACC
10586574 CTTTTG
1 CTTTTG
10586580 CACTTCCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
CTTTTGATAACTGGGGCAAAAGCCCCTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCA
TAAACC
Found at i:10586579 original size:47 final size:47
Alignment explanation
Indices: 10586413--10586578 Score: 228
Period size: 47 Copynumber: 3.5 Consensus size: 47
10586403 GCTTTATCAT
* *
10586413 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAG-CCCTTTA
* *
10586462 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAACCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
* *
10586509 ATAACTGGGGCATAAGCCCTTTTGATAACTGAGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
10586556 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10586579 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
46 3 0.03
47 66 0.62
48 25 0.24
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:10586650 original size:9 final size:9
Alignment explanation
Indices: 10586636--10586692 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
10586626 ATCTCATGTG
10586636 CATATCATA
1 CATATCATA
*
10586645 CATATCATGTG
1 CATATCA--TA
10586656 CATATCATA
1 CATATCATA
* *
10586665 CATGTCATGTG
1 CATATCA--TA
10586676 CATATCATA
1 CATATCATA
10586685 CATATCAT
1 CATATCAT
10586693 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:10586652 original size:20 final size:20
Alignment explanation
Indices: 10586624--10586694 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
10586614 GCATTTATGA
*
10586624 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
10586644 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
10586664 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
10586684 ACATATCATGT
1 ACATATCATGT
10586695 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:10586659 original size:11 final size:11
Alignment explanation
Indices: 10586629--10586683 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
10586619 TATGAACATC
10586629 TCATGTGCATA
1 TCATGTGCATA
*
10586640 TCA--TACATA
1 TCATGTGCATA
10586649 TCATGTGCATA
1 TCATGTGCATA
* *
10586660 TCA--TACATG
1 TCATGTGCATA
10586669 TCATGTGCATA
1 TCATGTGCATA
10586680 TCAT
1 TCAT
10586684 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:10588015 original size:27 final size:27
Alignment explanation
Indices: 10587995--10588632 Score: 750
Period size: 27 Copynumber: 23.6 Consensus size: 27
10587985 AGGGTATTTT
*
10587995 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588022 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10588049 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10588076 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588103 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
10588130 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
10588157 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
10588184 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
10588211 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
10588238 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
10588265 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10588292 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588319 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588346 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
10588373 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
10588400 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
10588427 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
10588454 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10588481 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
10588508 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588535 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
10588562 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10588589 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
10588616 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
10588633 GAAGTACTTT
Statistics
Matches: 539, Mismatches: 58, Indels: 28
0.86 0.09 0.04
Matches are distributed among these distances:
26 6 0.01
27 526 0.98
28 7 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:10591427 original size:18 final size:18
Alignment explanation
Indices: 10591404--10591438 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10591394 AGAATTATAG
10591404 ATCAAAATCTAAAACAAT
1 ATCAAAATCTAAAACAAT
10591422 ATCAAAATCTAAAACAA
1 ATCAAAATCTAAAACAA
10591439 GAGCAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (18 bp):
ATCAAAATCTAAAACAAT
Found at i:10593662 original size:41 final size:41
Alignment explanation
Indices: 10593617--10593722 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 41
10593607 CTAATGCTCT
* *
10593617 GCTTTTGGAAAAATGCCGCTAAAAACCAGAGCATTAGCGGC
1 GCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCAGC
* ** *
10593658 GCTTTTGGAAAAACGCCGTTAAAAATTAGAGCATTAGCATC
1 GCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCAGC
* *
10593699 ACTTTTAGAAAAACGCCGCTAAAA
1 GCTTTTGGAAAAACGCCGCTAAAA
10593723 GTCATATAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (41 bp):
GCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCAGC
Found at i:10593894 original size:7 final size:7
Alignment explanation
Indices: 10593879--10593932 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
10593869 TTAATTATCA
*
10593879 TTATAGT
1 TTATGGT
10593886 TTATGGT
1 TTATGGT
10593893 TTATGGT
1 TTATGGT
* *
10593900 TTAAGAT
1 TTATGGT
*
10593907 ATATGGT
1 TTATGGT
*
10593914 TTAGGGT
1 TTATGGT
*
10593921 TTAAGGT
1 TTATGGT
10593928 TTATG
1 TTATG
10593933 AGCTAACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Done.