Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
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: 13963513
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 99179 characters in sequence are not A, C, G, or T
File 26 of 29
Found at i:11356359 original size:117 final size:117
Alignment explanation
Indices: 11356154--11356367 Score: 270
Period size: 117 Copynumber: 1.8 Consensus size: 117
11356144 TGGGATGCTT
* *
11356154 CTGTAGGTATTAGTCCAAGTGCAGGACTTCAATCCCAACCCAGCCTTGGTGCTGGATCGGCTGGA
1 CTGTAGGCATTAGTCCAAGTGCAGGACTTCAATCCCAACCCAGCCTTGGTGCTGGATCAGCTGGA
** * *
11356219 GCTAGTGTAAAGTGTTACACATCTGCTCTAGACAATCAAAGACAGGATGGTC
66 GCTAGCATAAAGGGTTACACATCTCCTCTAGACAATCAAAGACAGGATGGTC
* * * * * *
11356271 CTGTAGGCATTAGTTCAAGTGCTGG-CATTCAA-CCTGAACCTATCCTTGGTGCTGTATCAGCTG
1 CTGTAGGCATTAGTCCAAGTGCAGGAC-TTCAATCC-CAACCCAGCCTTGGTGCTGGATCAGCTG
* *
11356334 GAGCTAGCATAAAGGGTTGCTCATCTCCTCTAGA
64 GAGCTAGCATAAAGGGTTACACATCTCCTCTAGA
11356368 AGATCCTAGC
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
116 3 0.04
117 78 0.96
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (117 bp):
CTGTAGGCATTAGTCCAAGTGCAGGACTTCAATCCCAACCCAGCCTTGGTGCTGGATCAGCTGGA
GCTAGCATAAAGGGTTACACATCTCCTCTAGACAATCAAAGACAGGATGGTC
Found at i:11362427 original size:16 final size:17
Alignment explanation
Indices: 11362403--11362437 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
11362393 GAAAATTATA
11362403 TAATAATAATTTTTAAAAT
1 TAATAA-AA-TTTTAAAAT
11362422 TAATAAAATTTTAAAA
1 TAATAAAATTTTAAAA
11362438 ATAAGGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAAAATTTTAAAAT
Found at i:11362433 original size:18 final size:19
Alignment explanation
Indices: 11362403--11362439 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11362393 GAAAATTATA
*
11362403 TAATAATAATTTTTAAAAT
1 TAATAATAATTTTAAAAAT
11362422 TAATAA-AATTTTAAAAAT
1 TAATAATAATTTTAAAAAT
11362440 AAGGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAATAATTTTAAAAAT
Found at i:11373308 original size:27 final size:27
Alignment explanation
Indices: 11373278--11373346 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
11373268 CTGACTCACG
* *
11373278 TAGCTATGGATACAGCAGTAGTGGTTA
1 TAGCCATGGACACAGCAGTAGTGGTTA
* * * *
11373305 TAGCCAAGGGCATAGCGGTAGTGGTTA
1 TAGCCATGGACACAGCAGTAGTGGTTA
11373332 TAGCCATGGACACAG
1 TAGCCATGGACACAG
11373347 TGGTAGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (27 bp):
TAGCCATGGACACAGCAGTAGTGGTTA
Found at i:11373351 original size:27 final size:27
Alignment explanation
Indices: 11373289--11373353 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
11373279 AGCTATGGAT
* *
11373289 ACAGCAGTAGTGGTTATAGCCAAGGGC
1 ACAGCGGTAGTGGTTATAGCCAAGGAC
* *
11373316 ATAGCGGTAGTGGTTATAGCCATGGAC
1 ACAGCGGTAGTGGTTATAGCCAAGGAC
*
11373343 ACAGTGGTAGT
1 ACAGCGGTAGT
11373354 AATCAAAGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
ACAGCGGTAGTGGTTATAGCCAAGGAC
Found at i:11387282 original size:2 final size:2
Alignment explanation
Indices: 11387218--11387263 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
11387208 GAAAGAACAA
*
11387218 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11387260 AG AG
1 AG AG
11387264 GTGGATGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11388960 original size:11 final size:11
Alignment explanation
Indices: 11388900--11388959 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
11388890 GCCTTTGGGA
11388900 AAAGAGAAAGAG
1 AAAGAGAAA-AG
11388912 AAAGAGAAAAG
1 AAAGAGAAAAG
11388923 AAAGATG--AAG
1 AAAGA-GAAAAG
11388933 -AAGAAGAAAAG
1 AAAG-AGAAAAG
*
11388944 -AAGAGCAAAG
1 AAAGAGAAAAG
11388954 AAAGAG
1 AAAGAG
11388960 CGAGTTGGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
9 4 0.10
10 10 0.24
11 18 0.43
12 10 0.24
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (11 bp):
AAAGAGAAAAG
Found at i:11391487 original size:2 final size:2
Alignment explanation
Indices: 11391482--11391507 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11391472 ATATTCTTAA
11391482 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
11391508 CATCTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11397495 original size:22 final size:21
Alignment explanation
Indices: 11397470--11397525 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
11397460 TTATTTAGTT
11397470 TTAAAATTATTTTTAGTT-TCAA
1 TTAAAATTATTTTTAGTTAT--A
*
11397492 TT-AAATTCAATTTTAGTTATA
1 TTAAAATT-ATTTTTAGTTATA
11397513 TTAAAATATATTT
1 TTAAAAT-TATTT
11397526 CATCTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 8 0.29
22 18 0.64
23 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (21 bp):
TTAAAATTATTTTTAGTTATA
Found at i:11410347 original size:20 final size:20
Alignment explanation
Indices: 11410322--11410360 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11410312 TTTCTGTGGA
*
11410322 TTTTATTCTTTCTCTTCATG
1 TTTTATTCTTTCTATTCATG
11410342 TTTTATTCTTTCTATTCAT
1 TTTTATTCTTTCTATTCAT
11410361 CAAAACTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATTCTTTCTATTCATG
Found at i:11418016 original size:32 final size:29
Alignment explanation
Indices: 11417972--11418039 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 29
11417962 TCGAGAGTTT
11417972 TTTTTAAAATTAATAAAATTATATAATAATT-A
1 TTTTTAAAATTAAT-AAA-TA-ATAA-AATTAA
*
11418004 TTTTTAAGATTAATAAATAATAAAATTAA
1 TTTTTAAAATTAATAAATAATAAAATTAA
11418033 TTTTTAA
1 TTTTTAA
11418040 TTATCAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.12
29 12 0.35
30 2 0.06
31 3 0.09
32 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTTTTAAAATTAATAAATAATAAAATTAA
Found at i:11438785 original size:3 final size:3
Alignment explanation
Indices: 11438779--11438811 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11438769 TTTTCTGGTC
11438779 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11438812 GTATCTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11449549 original size:2 final size:2
Alignment explanation
Indices: 11449542--11449566 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11449532 TTTAGAAGCA
11449542 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 A
11449567 AATAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11469350 original size:8 final size:8
Alignment explanation
Indices: 11469337--11469363 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11469327 TTTAACAGAT
11469337 TTTTATTA
1 TTTTATTA
11469345 TTTTATTA
1 TTTTATTA
11469353 TTTTATTA
1 TTTTATTA
11469361 TTT
1 TTT
11469364 GATCTTACGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:11480204 original size:20 final size:20
Alignment explanation
Indices: 11480162--11480202 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11480152 TAAAACCCAG
* *
11480162 AGCCAAAACAAAACAACAAA
1 AGCCAAAAAAAAAAAACAAA
11480182 AGCCAGAAAAAAAAAAACAAA
1 AGCCA-AAAAAAAAAAACAAA
11480203 GCGTTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.73, C:0.20, G:0.07, T:0.00
Consensus pattern (20 bp):
AGCCAAAAAAAAAAAACAAA
Found at i:11493876 original size:17 final size:18
Alignment explanation
Indices: 11493844--11493877 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11493834 TTAAAAATAC
*
11493844 AATACATATTAACAGTAG
1 AATACATATCAACAGTAG
11493862 AATACAT-TCAACAGTA
1 AATACATATCAACAGTA
11493878 ATAAAGTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (18 bp):
AATACATATCAACAGTAG
Found at i:11495894 original size:2 final size:2
Alignment explanation
Indices: 11495887--11495915 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11495877 NNNNNNNNNN
11495887 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
11495916 ATTTAATTAT
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:11499890 original size:12 final size:12
Alignment explanation
Indices: 11499875--11499901 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11499865 TGGGCATAGT
11499875 CATGGGCACGGG
1 CATGGGCACGGG
11499887 CATGGGCACGGG
1 CATGGGCACGGG
11499899 CAT
1 CAT
11499902 AGTCATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.44, T:0.11
Consensus pattern (12 bp):
CATGGGCACGGG
Found at i:11499926 original size:18 final size:18
Alignment explanation
Indices: 11499841--11499927 Score: 52
Period size: 18 Copynumber: 4.8 Consensus size: 18
11499831 TGAGGAGTCG
*
11499841 TGGACATGAACAT-GACCA
1 TGGACATGAGCATGGA-CA
* * *
11499859 TGGACATGGGCATAGTCA
1 TGGACATGAGCATGGACA
* * * *
11499877 TGGGCACGGGCATGGGCA
1 TGGACATGAGCATGGACA
* *
11499895 CGGGCAT-AGTCATGGACA
1 TGGACATGAG-CATGGACA
11499913 TGGACATGAGCATGG
1 TGGACATGAGCATGG
11499928 CTTAGGAGGT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
17 1 0.02
18 49 0.92
19 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.36, T:0.17
Consensus pattern (18 bp):
TGGACATGAGCATGGACA
Found at i:11508866 original size:7 final size:6
Alignment explanation
Indices: 11508842--11508875 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
11508832 TATGGGTAAT
*
11508842 GGGATG GGGATG GGGATG CGGGATG GGGCTG GGG
1 GGGATG GGGATG GGGATG -GGGATG GGGATG GGG
11508876 TTTGACGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.12, C:0.06, G:0.68, T:0.15
Consensus pattern (6 bp):
GGGATG
Found at i:11508866 original size:13 final size:12
Alignment explanation
Indices: 11508842--11508875 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11508832 TATGGGTAAT
11508842 GGGATGGGGATG
1 GGGATGGGGATG
11508854 GGGATGCGGGATG
1 GGGATG-GGGATG
*
11508867 GGGCTGGGG
1 GGGATGGGG
11508876 TTTGACGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.06, G:0.68, T:0.15
Consensus pattern (12 bp):
GGGATGGGGATG
Found at i:11514378 original size:2 final size:2
Alignment explanation
Indices: 11514371--11514395 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11514361 TTCTGTCTCC
11514371 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 A
11514396 CTCCTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11520789 original size:16 final size:17
Alignment explanation
Indices: 11520770--11520802 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11520760 TATTATTGTA
11520770 GTATAAT-TCTAATTAC
1 GTATAATATCTAATTAC
11520786 GTATAATAATCTAATTA
1 GTATAAT-ATCTAATTA
11520803 AATAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (17 bp):
GTATAATATCTAATTAC
Found at i:11540210 original size:13 final size:12
Alignment explanation
Indices: 11540184--11540257 Score: 52
Period size: 12 Copynumber: 6.4 Consensus size: 12
11540174 AGAAAGTTCC
11540184 CAAAAGGAAAAA
1 CAAAAGGAAAAA
11540196 CAAAAGGAGAAAA
1 CAAAAGGA-AAAA
**
11540209 CAAAACCCAAAAA
1 CAAAA-GGAAAAA
11540222 -AAAA--AAAAA
1 CAAAAGGAAAAA
11540231 C-AAAGGAAGAAA
1 CAAAAGGAA-AAA
*
11540243 -GAAA-GAAAAA
1 CAAAAGGAAAAA
11540253 CAAAA
1 CAAAA
11540258 ATAAATAGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
9 8 0.16
10 3 0.06
11 8 0.16
12 18 0.35
13 13 0.25
14 1 0.02
ACGTcount: A:0.76, C:0.11, G:0.14, T:0.00
Consensus pattern (12 bp):
CAAAAGGAAAAA
Found at i:11557306 original size:27 final size:27
Alignment explanation
Indices: 11557124--11557342 Score: 95
Period size: 27 Copynumber: 7.8 Consensus size: 27
11557114 TTATTTTTTG
*
11557124 AATATTAATAATTTATAATTTATTTAA
1 AATATTATTAATTTATAATTTATTTAA
* * *
11557151 AATATTAATAATTGATCATTTAAATATTAA
1 AATATTATTAATTTATAATTT--AT-TTAA
* * * **
11557181 TAT-TTTTTAATTTAATCAGTAACATTATAA
1 AATATTATTAATTT-AT-AAT-TTATT-TAA
** *
11557211 AATATTATTTTTTTATAATTTCAATGTTAT
1 AATATTATTAATTTATAATTT--AT-TTAA
* * ** *
11557241 TATGATTATT-TTTTATTTTTTATTTTA
1 AAT-ATTATTAATTTATAATTTATTTAA
* *
11557268 AATATGAATAATTTATAATTTATTTAA
1 AATATTATTAATTTATAATTTATTTAA
* ** *
11557295 AATATTATTAATTGATAATTTAAATATT
1 AATATTATTAATTTATAATTTATTTA-A
11557323 AATATT-TT-ATTTATAATTTA
1 AATATTATTAATTTATAATTTA
11557343 ATCATTAATA
Statistics
Matches: 141, Mismatches: 37, Indels: 29
0.68 0.18 0.14
Matches are distributed among these distances:
26 15 0.11
27 59 0.42
28 8 0.06
29 12 0.09
30 32 0.23
31 15 0.11
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (27 bp):
AATATTATTAATTTATAATTTATTTAA
Found at i:11557342 original size:26 final size:26
Alignment explanation
Indices: 11557278--11557357 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
11557268 AATATGAATA
** *
11557278 ATTTATAATTTATTTA-AAATATTATT
1 ATTTATAATTTAAATATTAATATT-TT
*
11557304 AATTGATAATTTAAATATTAATATTTT
1 -ATTTATAATTTAAATATTAATATTTT
11557331 ATTTATAATTT-AATCATTAATATTTT
1 ATTTATAATTTAAAT-ATTAATATTTT
11557357 A
1 A
11557358 AATAAATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.07
26 22 0.48
27 15 0.33
28 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
ATTTATAATTTAAATATTAATATTTT
Found at i:11557367 original size:24 final size:25
Alignment explanation
Indices: 11557320--11557368 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
11557310 TAATTTAAAT
* *
11557320 ATTAATATTTTATTTATAATTTAATC
1 ATTAATATTTTA-TAATAAATTAATC
11557346 ATTAATATTTTA-AATAAATTAAT
1 ATTAATATTTTATAATAAATTAAT
11557369 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAATATTTTATAATAAATTAATC
Found at i:11557373 original size:43 final size:42
Alignment explanation
Indices: 11557274--11557386 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 42
11557264 TTTAAATATG
* * * * *
11557274 AATAATTTATAATTTATTTAAAATATTATTAATTGATAATTTA
1 AATAATTAATATTTTATTTATAAT-TTAATAATTAATAATTTA
* *
11557317 AAT-ATTAATATTTTATTTATAATTTAATCATTAATATTTTA
1 AATAATTAATATTTTATTTATAATTTAATAATTAATAATTTA
11557358 AATAAATTAATATTTTATTTATAATTTAA
1 AAT-AATTAATATTTTATTTATAATTTAA
11557387 ATATTATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 17 0.28
42 17 0.28
43 27 0.44
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (42 bp):
AATAATTAATATTTTATTTATAATTTAATAATTAATAATTTA
Found at i:11557394 original size:153 final size:152
Alignment explanation
Indices: 11557097--11557677 Score: 758
Period size: 153 Copynumber: 3.9 Consensus size: 152
11557087 ATTATATATG
*
11557097 TGATTATTTATTTTATTTTATTTTTTGAATATTAATAATTTATAATTTATTTAAAATATTAATAA
1 TGATTA-TTATTTTATTTTA-TTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAA
* * *
11557162 TTGATCATTTAAATATTAATA--TT-TTT-TAATTTAATCAGTAACA--TTATAAAA-TATTATT
64 TTGATCATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAAAATTATTATT
*
11557220 TT-TTTATAATTTCAATGTTATTA
129 TTATTTATAATTTAAATGTTATTA
* * *
11557243 TGATTATT-TTTTATTTTTTATTTTAAATATGAATAATTTATAATTTATTTAAAATATTATTAAT
1 TGATTATTATTTTATTTTAT-TTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAAT
* *
11557307 TGATAATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAATAAATTAATATT
65 TGATCATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAA-AAATTATTATT
*
11557372 TTATTTATAATTTAAATATTATTA
129 TTATTTATAATTTAAATGTTATTA
*
11557396 TGATAATTATTTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATT
1 TGATTATTATTTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATT
* * * * *
11557461 GATTATTTAAATATAAATATTTTCTTTATAAATTAATCATTAATA--TTATAAAA-TATT-TTTT
66 GATCATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAAAATTATTATTTT
*
11557522 -TATATAATTTAAATG---TTA
131 ATTTATAATTTAAATGTTATTA
* *
11557540 T--TTATTA--TTATGTTATTTTTAAATATTAATACTTT-TAATTTATTTAAAATATTAATAATT
1 TGATTATTATTTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATT
* *
11557600 GATCATTTAAATATTAATATTTTATTTATAATTT-TTCATTAATATTTATAAAATATTATTATTT
66 GATCATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTT-TAAAAAATTATTATTT
11557664 TATTTATAATTTAA
130 TATTTATAATTTAA
11557678 TCATTAATAT
Statistics
Matches: 384, Mismatches: 34, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
138 9 0.02
139 55 0.14
140 27 0.07
141 5 0.01
142 9 0.02
143 5 0.01
144 84 0.22
145 2 0.01
146 8 0.02
147 16 0.04
148 19 0.05
149 3 0.01
150 7 0.02
151 7 0.02
152 8 0.02
153 110 0.29
154 10 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (152 bp):
TGATTATTATTTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATT
GATCATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTTTAAAAAATTATTATTTT
ATTTATAATTTAAATGTTATTA
Found at i:11557441 original size:297 final size:291
Alignment explanation
Indices: 11557104--11557677 Score: 852
Period size: 297 Copynumber: 1.9 Consensus size: 291
11557094 ATGTGATTAT
*
11557104 TTATTTTATTTTATTTTTTGAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATCA
1 TTATTTTATTTTATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATCA
* * *
11557169 TTTAAATATTAATA-TT-TTT-TAATTTAATCAGTAACATTATAAAATATTATTTTTTTATAATT
66 TTTAAATATAAATATTTCTTTATAAATTAATCAGTAACATTATAAAATATT-TTTTTATATAATT
* * *
11557231 TCAATGTTATTATGATTATTTTTTATTTTTTATTTTAAATATGAATAATTTATAATTTATTTAAA
130 TAAATGTTATT-T-ATTA----TTATGTTAT-TTTTAAATATGAATAATTT-TAATTTATTTAAA
*
11557296 ATATTATTAATTGATAATTTAAATATTAATATTTTATTTATAATTTAATCATTAATATTT-TAAA
187 ATATTAATAATTGATAATTTAAATATTAATATTTTATTTATAATTT-ATCATTAATATTTATAAA
11557360 TAAATTAATATTTTATTTATAATTTAAATATTATTATGATAA
251 -AAATTAATATTTTATTTATAATTTAAATATTATTATGATAA
*
11557402 TTATTTTATTTTA-TTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATTA
1 TTATTTTATTTTATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATCA
* *
11557466 TTTAAATATAAATATTTTCTTTATAAATTAATCATTAATATTATAAAATATTTTTTTATATAATT
66 TTTAAATATAAATA-TTTCTTTATAAATTAATCAGTAACATTATAAAATATTTTTTTATATAATT
* *
11557531 TAAATGTTATTTATTATTATGTTATTTTTAAATATTAATACTTTTAATTTATTTAAAATATTAAT
130 TAAATGTTATTTATTATTATGTTATTTTTAAATATGAATAATTTTAATTTATTTAAAATATTAAT
* * * *
11557596 AATTGATCATTTAAATATTAATATTTTATTTATAATTTTTCATTAATATTTATAAAATATTATTA
195 AATTGATAATTTAAATATTAATATTTTATTTATAATTTATCATTAATATTTATAAAAAATTAATA
11557661 TTTTATTTATAATTTAA
260 TTTTATTTATAATTTAA
11557678 TCATTAATAT
Statistics
Matches: 254, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
291 36 0.14
292 61 0.24
293 17 0.07
294 7 0.03
297 62 0.24
298 17 0.07
299 3 0.01
300 25 0.10
301 26 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (291 bp):
TTATTTTATTTTATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATCA
TTTAAATATAAATATTTCTTTATAAATTAATCAGTAACATTATAAAATATTTTTTTATATAATTT
AAATGTTATTTATTATTATGTTATTTTTAAATATGAATAATTTTAATTTATTTAAAATATTAATA
ATTGATAATTTAAATATTAATATTTTATTTATAATTTATCATTAATATTTATAAAAAATTAATAT
TTTATTTATAATTTAAATATTATTATGATAA
Found at i:11557450 original size:27 final size:28
Alignment explanation
Indices: 11557411--11557469 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
11557401 ATTATTTTAT
* *
11557411 TTTATTTTTAAATATTAATAATTTATAA
1 TTTATTTTAAAATATTAATAATTGATAA
*
11557439 TTTA-TTTAAAATATTAATAATTGATTA
1 TTTATTTTAAAATATTAATAATTGATAA
11557466 TTTA
1 TTTA
11557470 AATATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATTGATAA
Found at i:11557460 original size:20 final size:20
Alignment explanation
Indices: 11557435--11557517 Score: 53
Period size: 22 Copynumber: 4.0 Consensus size: 20
11557425 TTAATAATTT
11557435 ATAATTTATTTAAAATATTA
1 ATAATTTATTTAAAATATTA
*
11557455 ATAATTGATTATTT-AAATATAA
1 ATAA-T--TTATTTAAAATATTA
* * *
11557477 ATATTTTCTTTATAA-ATTA
1 ATAATTTATTTAAAATATTA
*
11557496 ATCATTAATATTATAAAATATT
1 ATAATT--TATT-TAAAATATT
11557518 TTTTTATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
19 12 0.26
20 6 0.13
21 5 0.11
22 14 0.30
23 9 0.20
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (20 bp):
ATAATTTATTTAAAATATTA
Found at i:11557624 original size:42 final size:40
Alignment explanation
Indices: 11557578--11557721 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 40
11557568 ATACTTTTAA
*
11557578 TTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
1 TTTATTTAAAAT-TTAATAATTAAT-ATTTAAATATTAATAT
* * * *
11557620 TTTATTTATAATTT-TTCATTAATATTTATAAAATATTATTAT
1 TTTATTTAAAATTTAATAATTAATA-TT-T-AAATATTAATAT
* *
11557662 TTTATTTATAATTTAATCATTAATATTTAAA-ATATAATAT
1 TTTATTTAAAATTTAATAATTAATATTTAAATAT-TAATAT
*
11557702 TTTATTCACAAATATTAATA
1 TTTATTTA-AAAT-TTAATA
11557722 TGGGTAAAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
39 3 0.04
40 23 0.27
41 7 0.08
42 43 0.51
43 9 0.11
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (40 bp):
TTTATTTAAAATTTAATAATTAATATTTAAATATTAATAT
Found at i:11566913 original size:15 final size:15
Alignment explanation
Indices: 11566883--11566964 Score: 110
Period size: 15 Copynumber: 5.4 Consensus size: 15
11566873 CGTTTGGTAC
*
11566883 ATTACAATGCAATGTG
1 ATTACAA-GTAATGTG
11566899 ATTACAAGTAATGTG
1 ATTACAAGTAATGTG
*
11566914 ATTGCAAGTAATGTG
1 ATTACAAGTAATGTG
*
11566929 ATTGCAAGTAATGTG
1 ATTACAAGTAATGTG
* *
11566944 ATTGCAAGCAATGTG
1 ATTACAAGTAATGTG
11566959 ATTACA
1 ATTACA
11566965 GGGAAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
15 55 0.89
16 7 0.11
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (15 bp):
ATTACAAGTAATGTG
Found at i:11566929 original size:30 final size:30
Alignment explanation
Indices: 11566891--11566964 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
11566881 ACATTACAAT
11566891 GCAATGTGATTACAAGTAATGTGATTGCAA
1 GCAATGTGATTACAAGTAATGTGATTGCAA
* *
11566921 GTAATGTGATTGCAAGTAATGTGATTGCAA
1 GCAATGTGATTACAAGTAATGTGATTGCAA
11566951 GCAATGTGATTACA
1 GCAATGTGATTACA
11566965 GGGAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.31
Consensus pattern (30 bp):
GCAATGTGATTACAAGTAATGTGATTGCAA
Found at i:11567209 original size:26 final size:26
Alignment explanation
Indices: 11567180--11567596 Score: 121
Period size: 26 Copynumber: 15.7 Consensus size: 26
11567170 TTAATATCAT
11567180 ATATTTTATTTTTATTTATTATTATA
1 ATATTTTATTTTTATTTATTATTATA
*
11567206 ATATTTTATATTTTATTT-TTAATATA
1 ATATTTTAT-TTTTATTTATTATTATA
* *
11567232 TTTATATTTATTATTAATTT-TTA-TATA
1 -ATAT-TTTATT-TTTATTTATTATTATA
** * * *
11567259 ATATCATATTTTAAAATATATTTAATATCA
1 ATATTTTATTTT--TATTTA-TTATTAT-A
*
11567289 TATATTTTATTTTAATTTATTATTATA
1 -ATATTTTATTTTTATTTATTATTATA
11567316 AT-TTTATATATTTTATTTTAAATATATT-T-
1 ATATTT-TAT-TTTTA-TTT--AT-TATTATA
*
11567345 ATATTTTTATTATTAATTT-TTA-TATA
1 ATA-TTTTATT-TTTATTTATTATTATA
* *
11567371 ATA--TCATTTCTTAAATATATT-TT-TA
1 ATATTTTATTT-TT--ATTTATTATTATA
* **
11567396 ATGTCATATATTTTA-TTATTATTATA
1 ATATTTTAT-TTTTATTTATTATTATA
*
11567422 ATATTTTATATTTTATTT-TTAATATATTT
1 ATATTTTAT-TTTTATTTATT-AT-TA-TA
*
11567451 ATATTTATATTATTAATTT-TTA-TATA
1 ATATTT-TATT-TTTATTTATTATTATA
* * *
11567477 ATATTCATATTTTTAATATATTTTTAATATCA
1 ATATT-TTA-TTTT--TAT-TTATTATTAT-A
11567509 TATATTTTATTTTTATTTATTATTAT-
1 -ATATTTTATTTTTATTTATTATTATA
*
11567535 A-ATTTAATATTTTATTT-TTATT-T-
1 ATATTTTAT-TTTTATTTATTATTATA
* *
11567558 -T-TTAATATATTT-TTTA-TATTAT-
1 ATATT-TTATTTTTATTTATTATTATA
11567580 ATATTTTATTTTTATTT
1 ATATTTTATTTTTATTT
11567597 GTTTTACCTA
Statistics
Matches: 299, Mismatches: 37, Indels: 112
0.67 0.08 0.25
Matches are distributed among these distances:
21 7 0.02
22 7 0.02
23 15 0.05
24 23 0.08
25 29 0.10
26 61 0.20
27 33 0.11
28 40 0.13
29 28 0.09
30 24 0.08
31 24 0.08
32 3 0.01
33 5 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
ATATTTTATTTTTATTTATTATTATA
Found at i:11567293 original size:14 final size:14
Alignment explanation
Indices: 11567257--11567295 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
11567247 AATTTTTATA
11567257 TAATATCATAT-TT
1 TAATATCATATATT
11567270 TAA-A--ATATATT
1 TAATATCATATATT
11567281 TAATATCATATATT
1 TAATATCATATATT
11567295 T
1 T
11567296 TATTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.18
11 5 0.23
12 2 0.09
13 3 0.14
14 8 0.36
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATATCATATATT
Found at i:11567303 original size:31 final size:31
Alignment explanation
Indices: 11567265--11567345 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 31
11567255 TATAATATCA
11567265 TATTTTAAAATATATTTAATATCATATATTT
1 TATTTTAAAATATATTTAATATCATATATTT
** * *
11567296 TATTTTAATTTATTATTATAATTTTATATATTT
1 TATTTTAAAATA-TATT-TAATATCATATATTT
11567329 TATTTT-AAATATATTTA
1 TATTTTAAAATATATTTA
11567346 TATTTTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 2 0.05
31 14 0.33
32 7 0.17
33 19 0.45
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TATTTTAAAATATATTTAATATCATATATTT
Found at i:11567312 original size:110 final size:112
Alignment explanation
Indices: 11567110--11567554 Score: 675
Period size: 110 Copynumber: 4.0 Consensus size: 112
11567100 AAAATATAAG
11567110 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATA-TTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
11567175 ATCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
65 ATCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
*
11567223 TTTAATATATTTATA-TTTATTATTAATTTTTATATAATATCATATT-TTAAA-ATATATTTAAT
1 TTTAATATATTTATATTTTATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAAT
*
11567285 ATCATATATTTTATTTTAATTTATTATTATAAT-TTTATATATTTTATT
65 ATCATATATTTTATTTTTATTTATTATTATAATATTT-TATATTTTATT
*
11567333 TTAAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATA-TTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
11567398 GTC--ATA---TA-TTTTA-TTATTATTATAATATTTTATATTTTATT
65 ATCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
*
11567439 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATTCATATT-TTTAATATATTTTTA
1 TTTAATATATTTATATTT-TATTATTAATTTTTATATAATA-TCAT-TTCTTAAATATATTTTTA
*
11567503 ATATCATATATTTTATTTTTATTTATTATTAT-A-ATTTAATATTTTATT
63 ATATCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
11567551 TTTA
1 TTTA
11567555 TTTTTTAATA
Statistics
Matches: 305, Mismatches: 10, Indels: 35
0.87 0.03 0.10
Matches are distributed among these distances:
105 3 0.01
106 60 0.20
107 29 0.10
108 4 0.01
109 6 0.02
110 67 0.22
111 38 0.12
112 55 0.18
113 33 0.11
114 10 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (112 bp):
TTTAATATATTTATATTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATA
TCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
Found at i:11567325 original size:10 final size:9
Alignment explanation
Indices: 11567296--11567588 Score: 65
Period size: 8 Copynumber: 33.9 Consensus size: 9
11567286 TCATATATTT
*
11567296 TATTTTAATT
1 TATTTT-ATA
11567306 TATTATTATA
1 TATT-TTATA
11567316 -ATTTTATA
1 TATTTTATA
11567324 TATTTTAT-
1 TATTTTATA
**
11567332 T-TTAAATA
1 TATTTTATA
11567340 TA-TTTATA
1 TATTTTATA
11567348 T-TTTTATTA
1 TATTTTA-TA
11567357 TTAATTTT-TA
1 -T-ATTTTATA
**
11567367 TATAATATCA
1 TATTTTAT-A
11567377 T-TTCTTAAATA
1 TATT-TT--ATA
11567388 TATTTT-TA
1 TATTTTATA
* *
11567396 -ATGTCATA
1 TATTTTATA
11567404 TATTTTAT-
1 TATTTTATA
11567412 TATTATTATA
1 TATT-TTATA
11567422 -ATATTT-TA
1 TAT-TTTATA
11567430 TATTTTAT-
1 TATTTTATA
*
11567438 T-TTTAATA
1 TATTTTATA
11567446 TATTTATATTTA
1 TATTT-TA--TA
11567458 TATTATTA-A
1 TATT-TTATA
11567467 T-TTTTATA
1 TATTTTATA
*
11567475 TAATATTCATA
1 T-AT-TTTATA
11567486 T-TTTTAATA
1 TATTTT-ATA
11567495 TATTTT-TA
1 TATTTTATA
* *
11567503 -ATATCATA
1 TATTTTATA
11567511 TA-TTT-TA
1 TATTTTATA
*
11567518 T-TTTTATT
1 TATTTTATA
11567526 TATTATTATA
1 TATT-TTATA
11567536 -A-TTTA-A
1 TATTTTATA
11567542 TA-TTT-TA
1 TATTTTATA
11567549 T-TTTTAT-
1 TATTTTATA
11567556 T-TTTTAATA
1 TATTTT-ATA
11567565 TATTTT-T-
1 TATTTTATA
*
11567572 TATATTATA
1 TATTTTATA
11567581 TATTTTAT
1 TATTTTAT
11567589 TTTTATTTGT
Statistics
Matches: 209, Mismatches: 25, Indels: 99
0.63 0.08 0.30
Matches are distributed among these distances:
6 1 0.00
7 46 0.22
8 53 0.25
9 53 0.25
10 27 0.13
11 12 0.06
12 16 0.08
13 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTTATA
Found at i:11567520 original size:70 final size:70
Alignment explanation
Indices: 11567446--11567596 Score: 198
Period size: 70 Copynumber: 2.2 Consensus size: 70
11567436 ATTTTTAATA
* *
11567446 TATTTATATTTA-TATTATTAATTTTTATATAATATTCATA-TTTTTAATATATTTTTAATATCA
1 TATTTTTATTTATTATTA-TAA-TTTAATATAATATTCATATTTTTTAATATATTTTTAATATCA
11567509 TATATTT
64 TATATTT
** ** * *
11567516 TATTTTTATTTATTATTATAATTTAATATTTTATTTTTATTTTTTAATATATTTTTTATATTATA
1 TATTTTTATTTATTATTATAATTTAATATAATATTCATATTTTTTAATATATTTTTAATATCATA
11567581 TATTT
66 TATTT
11567586 TATTTTTATTT
1 TATTTTTATTT
11567597 GTTTTACCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
69 13 0.18
70 53 0.75
71 5 0.07
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (70 bp):
TATTTTTATTTATTATTATAATTTAATATAATATTCATATTTTTTAATATATTTTTAATATCATA
TATTT
Found at i:11567534 original size:223 final size:221
Alignment explanation
Indices: 11567113--11567569 Score: 703
Period size: 223 Copynumber: 2.0 Consensus size: 221
11567103 ATATAAGTTT
11567113 AATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATC
1 AATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATC
11567178 ATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATTTTTAATATATTTATATTTAT
66 A-ATA--TTATTTTTATTTATTATTATAATATTTTATATTTTATTTTTAATATATTTATATTTAT
11567243 TATTAATTTTTATATAATATCATATTTTAAAATATATTTAATATCATATATTTTATTTTAATTTA
128 TATTAATTTTTATATAATATCATATTTTAAAATATATTTAATATCATATATTTTATTTTAATTTA
11567308 TTAT-TATAAT-TTTATATATTTTA-TTTTA
193 TTATATATAATATTT-TAT-TTTTATTTTTA
*
11567336 AATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATGTC
1 AATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATC
11567401 -ATA-TA-TTTTA-TTATTATTATAATATTTTATATTTTATTTTTAATATATTTATATTTATATT
66 AATATTATTTTTATTTATTATTATAATATTTTATATTTTATTTTTAATATATTTATA-TT-TATT
* * *
11567462 ATTAATTTTTATATAATATTCATATTTTTAATATATTTTTAATATCATATATTTTATTTTTATTT
129 ATTAATTTTTATATAATA-TCATA-TTTTAAAATATATTTAATATCATATATTTTATTTTAATTT
*
11567527 ATTATTATAATTTAATATTTTATTTTTATTTTTT
192 ATTA-TAT-A--TAATATTTTATTTTTATTTTTA
11567561 AATATATTT
1 AATATATTT
11567570 TTTATATTAT
Statistics
Matches: 218, Mismatches: 5, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
216 43 0.20
217 7 0.03
218 24 0.11
219 5 0.02
220 41 0.19
221 4 0.02
222 1 0.00
223 65 0.30
224 5 0.02
225 20 0.09
226 3 0.01
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (221 bp):
AATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATATC
AATATTATTTTTATTTATTATTATAATATTTTATATTTTATTTTTAATATATTTATATTTATTAT
TAATTTTTATATAATATCATATTTTAAAATATATTTAATATCATATATTTTATTTTAATTTATTA
TATATAATATTTTATTTTTATTTTTA
Found at i:11567548 original size:31 final size:31
Alignment explanation
Indices: 11567439--11567595 Score: 104
Period size: 31 Copynumber: 4.9 Consensus size: 31
11567429 ATATTTTATT
* * *
11567439 TTTAATATATTTATATTTATATTATTAATTTTTA
1 TTTAATAT-TTTATTTTTAT-TTATT-ATTATAA
* * *
11567473 TATAATATTCATATTTTTAATATATT-TT-TAA
1 TTTAATATT-TTATTTTT-ATTTATTATTATAA
*
11567504 TATCATATATTTTATTTTTATTTATTATTATAA
1 T-TTA-ATATTTTATTTTTATTTATTATTATAA
* * *
11567537 TTTAATATTTTATTTTTATTTTTTAATATATT
1 TTTAATATTTTATTTTTATTTATTATTATA-A
* *
11567569 TTTTATATTATATATTTTATTT-TTATT
1 TTTAATATTTTAT-TTTTATTTATTATT
11567596 TGTTTTACCT
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
31 33 0.33
32 29 0.29
33 18 0.18
34 17 0.17
35 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTAATATTTTATTTTTATTTATTATTATAA
Found at i:11567550 original size:21 final size:20
Alignment explanation
Indices: 11567524--11567594 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
11567514 TTTATTTTTA
*
11567524 TTTATTATTATAATTTAATAT
1 TTTATTTTTAT-ATTTAATAT
*
11567545 TTTATTTTTATTTTTTAATA-
1 TTTATTTTTA-TATTTAATAT
*
11567565 TAT-TTTTTATA-TTATATAT
1 TTTATTTTTATATTTA-ATAT
11567584 TTTATTTTTAT
1 TTTATTTTTAT
11567595 TTGTTTTACC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 8 0.20
20 9 0.22
21 16 0.39
22 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTTTTATATTTAATAT
Found at i:11567589 original size:39 final size:39
Alignment explanation
Indices: 11567486--11567641 Score: 141
Period size: 31 Copynumber: 4.1 Consensus size: 39
11567476 AATATTCATA
*
11567486 TTTTTAATATATTTTTAATATCATATATTTTATTTTTA-
1 TTTTTAATATATTTTTAATATTATATATTTTATTTTTAT
*
11567524 --TTT-AT-TA-TTATAAT-TTA-ATATTTTATTTTTAT
1 TTTTTAATATATTTTTAATATTATATATTTTATTTTTAT
*
11567556 TTTTTAATATATTTTTTATATTATATATTTTATTTTTATT
1 TTTTTAATATATTTTTAATATTATATATTTTATTTTTA-T
* * *
11567596 TGTTTTACCTATATTATATAAATATTA-ATTTTTTATATTTTAT
1 T-TTTTA-ATATATT-T-TTAATATTATATATTTTAT-TTTTAT
11567639 TTT
1 TTT
11567642 ATTTTAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
31 14 0.15
32 2 0.02
33 6 0.06
34 5 0.05
35 4 0.04
36 5 0.05
37 5 0.05
38 3 0.03
39 14 0.15
40 2 0.02
41 5 0.05
42 8 0.08
43 11 0.11
44 12 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (39 bp):
TTTTTAATATATTTTTAATATTATATATTTTATTTTTAT
Found at i:11567629 original size:70 final size:68
Alignment explanation
Indices: 11567446--11567666 Score: 168
Period size: 70 Copynumber: 3.2 Consensus size: 68
11567436 ATTTTTAATA
* * * * * *
11567446 TATTTATATTTA-TATTATTAATTTTTATATAATATTCATATTTTTAATATATTTTTAATATCAT
1 TATTTTTATTTATTATTA-TAA-TTATATA-AATATTAATTTTTTTAATATATTTTTTATATTAT
11567510 ATATTT
63 ATATTT
** **
11567516 TATTTTTATTTATTATTATAATT-TAATATTTTATTTTTATTTTTTAATATATTTTTTATATTAT
1 TATTTTTATTTATTATTATAATTAT-ATA-AATATTAAT-TTTTTTAATATATTTTTTATATTAT
11567580 ATATTT
63 ATATTT
* * *
11567586 TATTTTTATTTGTT-TTACCTATATTATATAAATATTAA-TTTTTT-ATATTTTATTTTATTTTA
1 TATTTTTATTTATTATTA--TA-ATTATATAAATATTAATTTTTTTAATATATT-TTTTATATTA
11567648 -AT-TTT
62 TATATTT
*
11567653 TATTCTTATATTAT
1 TATTTTTAT-TTAT
11567667 ATATATATTA
Statistics
Matches: 125, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
67 11 0.09
68 12 0.10
69 29 0.23
70 55 0.44
71 11 0.09
72 6 0.05
73 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (68 bp):
TATTTTTATTTATTATTATAATTATATAAATATTAATTTTTTTAATATATTTTTTATATTATATA
TTT
Found at i:11567679 original size:34 final size:33
Alignment explanation
Indices: 11567640--11567705 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
11567630 ATATTTTATT
11567640 TTATTTT-A-ATTTTTATTCTTATATTATATATATA
1 TTATTTTAATATTTTTATT-TTA-ATTATA-ATATA
11567674 TTATTTTAATATTTTTATTTTAATTATAATAT
1 TTATTTTAATATTTTTATTTTAATTATAATAT
11567706 TATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 4 0.13
34 13 0.43
35 4 0.13
36 9 0.30
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (33 bp):
TTATTTTAATATTTTTATTTTAATTATAATATA
Found at i:11583369 original size:2 final size:2
Alignment explanation
Indices: 11583362--11583386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11583352 AAAGGAGATC
11583362 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
11583387 AGCAACAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11591251 original size:16 final size:17
Alignment explanation
Indices: 11591230--11591262 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11591220 TCTTTATTTT
11591230 TTATTA-ATTTAAAAAA
1 TTATTATATTTAAAAAA
11591246 TTATTATATTTAAAAAA
1 TTATTATATTTAAAAAA
11591263 ATAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTATTATATTTAAAAAA
Found at i:11608125 original size:33 final size:32
Alignment explanation
Indices: 11608081--11608341 Score: 156
Period size: 33 Copynumber: 7.7 Consensus size: 32
11608071 CATATACTTT
11608081 TAATGTTATATATTTTATTTTTATTTATTATTA
1 TAAT-TTATATATTTTATTTTTATTTATTATTA
* *
11608114 TAATCTTATATATTTTATTTTCATTTATTTAATA
1 TAAT-TTATATATTTTATTTTTATTTA-TTATTA
* *
11608148 TAATTTTTATATTATATATTTTATTTTCATTTATTTTA
1 TAATTTATATATTTTAT-TTTTA-TTT-A-TTA--TTA
* *
11608186 CCTATATTATATAAATTTTAATGTTTTATATT-TTATTT
1 --TA-ATT-TATATATTTT-AT-TTTTAT-TTATTATTA
* * * *
11608224 TACTTTA-ATTTTTTATTCTTATATTATATATTT
1 TAATTTATATATTTTATTTTTAT-TTAT-TATTA
* * * **
11608257 TAAGTTAATATTTTTTATTTTAATTATAACATTA
1 TAA-TTTATATATTTTATTTTTATT-TATTATTA
11608291 TAA---A-ATATTTTATTTTTATTTATTATTA
1 TAATTTATATATTTTATTTTTATTTATTATTA
11608319 TAATCTTATATATTTTATTTTTA
1 TAAT-TTATATATTTTATTTTTA
11608342 ATATATTTAT
Statistics
Matches: 179, Mismatches: 27, Indels: 44
0.72 0.11 0.18
Matches are distributed among these distances:
28 9 0.05
29 14 0.08
30 1 0.01
31 8 0.04
32 4 0.02
33 62 0.35
34 25 0.14
35 20 0.11
36 7 0.04
38 4 0.02
40 5 0.03
41 3 0.02
42 8 0.04
43 9 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
TAATTTATATATTTTATTTTTATTTATTATTA
Found at i:11608214 original size:73 final size:72
Alignment explanation
Indices: 11608072--11608214 Score: 157
Period size: 73 Copynumber: 2.0 Consensus size: 72
11608062 CATCACTTAC
* * * * * *
11608072 ATATACTTTTAATGTTATATATTTTATTTTTATTTATTATTATAATCTTATATATTTTATTTTCA
1 ATATAATTTTAATATTATATATTTTATTTTCATTTATTATTATAATCTTATAAATTTTAATGT-A
11608137 TTTATTTA
65 TTTATTTA
*
11608145 ATATAATTTTTATATTATATATTTTATTTTCATTTATT-TTACCTATAT-TATATAAATTTTAAT
1 ATATAATTTTAATATTATATATTTTATTTTCATTTATTATTA--TA-ATCT-TATAAATTTTAAT
11608208 GT-TTTAT
62 GTATTTAT
11608215 ATTTTATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
72 3 0.05
73 39 0.66
74 3 0.05
75 14 0.24
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (72 bp):
ATATAATTTTAATATTATATATTTTATTTTCATTTATTATTATAATCTTATAAATTTTAATGTAT
TTATTTA
Found at i:11608364 original size:16 final size:16
Alignment explanation
Indices: 11608295--11608580 Score: 68
Period size: 16 Copynumber: 16.8 Consensus size: 16
11608285 ACATTATAAA
11608295 ATATTTTA-TTTTTAT
1 ATATTTTATTTTTTAT
* * *
11608310 TTATTATTATAATCTTAT
1 ATATT-TTAT-TTTTTAT
*
11608328 ATATTTTATTTTTAAT
1 ATATTTTATTTTTTAT
11608344 ATATTTATATTTTTTAT
1 ATATTT-TATTTTTTAT
*
11608361 -TA--TTAATTTTTAT
1 ATATTTTATTTTTTAT
* * **
11608374 ATAATATCATCTCTTAAAT
1 AT-ATTTTAT-T-TTTTAT
* * *
11608393 ATATTTT-TAATGTCAT
1 ATATTTTAT-TTTTTAT
11608409 ATATTTTA-TTTTTAT
1 ATATTTTATTTTTTAT
*
11608424 TTATTATTATAATCTTATATATT
1 ATATT-TTAT--T-TT-T-TA-T
*
11608447 TTATTTTATTTATTTAAT
1 ATATTTTATTT-TTT-AT
*
11608465 ATATATTT-TTATATTAT
1 ATAT-TTTATT-TTTTAT
*
11608482 ATATTTTA-TTTTAAT
1 ATATTTTATTTTTTAT
* *
11608497 TTGTTTTACTTATATTATAT
1 ATATTTTA-TT-T-TT-TAT
* *
11608517 AAATTTTAATTTTT-T
1 ATATTTTATTTTTTAT
*
11608532 ATATTTTATTTTATTTT
1 ATATTTTATTTT-TTAT
*
11608549 ATTTTTTATTCTTATATTAT
1 ATATTTTA-T-TT-T-TTAT
11608569 ATATTTTATTTT
1 ATATTTTATTTT
11608581 AATTATAATA
Statistics
Matches: 197, Mismatches: 40, Indels: 66
0.65 0.13 0.22
Matches are distributed among these distances:
13 9 0.05
14 2 0.01
15 34 0.17
16 35 0.18
17 34 0.17
18 27 0.14
19 20 0.10
20 23 0.12
21 1 0.01
22 6 0.03
23 6 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (16 bp):
ATATTTTATTTTTTAT
Found at i:11608376 original size:24 final size:24
Alignment explanation
Indices: 11608287--11608376 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
11608277 TAATTATAAC
*
11608287 ATTA-TAAAATATTT-TAT-TTTT
1 ATTATTAATATATTTATATATTTT
*
11608308 ATTTATTATTATAATCTTATATATTTT
1 A-TTATTAATAT-AT-TTATATATTTT
* *
11608335 ATTTTTAATATATTTATATTTTTT
1 ATTATTAATATATTTATATATTTT
11608359 ATTATTAAT-T-TTTATATA
1 ATTATTAATATATTTATATA
11608377 ATATCATCTC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
22 10 0.18
23 5 0.09
24 20 0.36
25 4 0.07
26 11 0.20
27 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTATTAATATATTTATATATTTT
Found at i:11608444 original size:33 final size:34
Alignment explanation
Indices: 11608407--11608492 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 34
11608397 TTTTAATGTC
*
11608407 ATATATTTTATTTTTATTTA-TTATTATA-ATCTT
1 ATATATTTTATTTTTATTTATTTAATATATAT-TT
11608440 ATATATTTTA-TTTTATTTATTTAATATATATTT
1 ATATATTTTATTTTTATTTATTTAATATATATTT
* *
11608473 TTATATTATATATTTTATTT
1 ATATATTTTAT-TTTTATTT
11608493 TAATTTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 9 0.20
33 27 0.59
34 2 0.04
35 8 0.17
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (34 bp):
ATATATTTTATTTTTATTTATTTAATATATATTT
Found at i:11608453 original size:5 final size:5
Alignment explanation
Indices: 11608443--11608581 Score: 63
Period size: 5 Copynumber: 27.4 Consensus size: 5
11608433 TAATCTTATA
* * * *
11608443 TATTT TATTT TA-TT TATTT AATATA TATTTT TATAT TA-TA TATTT TATTT
1 TATTT TATTT TATTT TATTT TAT-TT TA-TTT TATTT TATTT TATTT TATTT
* * * * * * *
11608493 TAATT TGTTT TA-CT TATAT TATATA AATTT TAATTT T-TTA TATTT TATTT
1 TATTT TATTT TATTT TATTT TAT-TT TATTT T-ATTT TATTT TATTT TATTT
* *
11608543 TATTT TATTTTT TATTCT TATAT TA-TA TATTT TATTT TA
1 TATTT TA--TTT TATT-T TATTT TATTT TATTT TATTT TA
11608582 ATTATAATAT
Statistics
Matches: 97, Mismatches: 25, Indels: 24
0.66 0.17 0.16
Matches are distributed among these distances:
4 14 0.14
5 61 0.63
6 16 0.16
7 6 0.06
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (5 bp):
TATTT
Found at i:11608474 original size:26 final size:27
Alignment explanation
Indices: 11608415--11608487 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
11608405 TCATATATTT
*
11608415 TATTTTTA-TTTA-TTATTATAATCTTA
1 TATTTTTATTTTATTTATT-TAATCATA
11608441 TATATTTTATTTTATTTATTTAAT-ATA
1 TAT-TTTTATTTTATTTATTTAATCATA
* *
11608468 TATTTTTATATTATATATTT
1 TATTTTTATTTTATTTATTT
11608488 TATTTTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 18 0.44
27 10 0.24
28 8 0.20
29 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTTTTATTTTATTTATTTAATCATA
Found at i:11608475 original size:13 final size:15
Alignment explanation
Indices: 11608415--11608488 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 15
11608405 TCATATATTT
11608415 TATTTTTAT-TTAT-
1 TATTTTTATATTATA
* * *
11608428 TATTATAATCTTATA
1 TATTTTTATATTATA
11608443 TA-TTTTAT-TT-TA
1 TATTTTTATATTATA
11608455 T-TTATTTA-A-TATA
1 TATT-TTTATATTATA
11608468 TATTTTTATATTATA
1 TATTTTTATATTATA
11608483 TATTTT
1 TATTTT
11608489 ATTTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
12 5 0.10
13 20 0.42
14 11 0.23
15 12 0.25
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTATATTATA
Found at i:11609148 original size:15 final size:16
Alignment explanation
Indices: 11609130--11609171 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11609120 ATAAATAATT
11609130 TATAAATAAAAA-TAA
1 TATAAATAAAAATTAA
*
11609145 TATAATTAAAAATTAA
1 TATAAATAAAAATTAA
11609161 TAATAAA-AAAA
1 T-ATAAATAAAA
11609172 TTATTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 8 0.35
17 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATAAATAAAAATTAA
Found at i:11609163 original size:14 final size:13
Alignment explanation
Indices: 11609113--11609169 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
11609103 TAAGTATTAT
*
11609113 ATTAATTATAAATA
1 ATTAATAATAAA-A
*
11609127 ATTTATAAATAAAA
1 ATTAAT-AATAAAA
*
11609141 ATAATATAATTAAAA
1 ATTA-ATAA-TAAAA
11609156 ATTAATAATAAAA
1 ATTAATAATAAAA
11609169 A
1 A
11609170 AATTATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 6 0.17
14 14 0.40
15 15 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAATAATAAAA
Found at i:11609165 original size:22 final size:22
Alignment explanation
Indices: 11609113--11609167 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
11609103 TAAGTATTAT
* *
11609113 ATTAATTATAAATAATTTATAA
1 ATTAATAATAAATAATTTAAAA
*
11609135 A-TAAAAATAATATAA-TTAAAA
1 ATTAATAATAA-ATAATTTAAAA
11609156 ATTAATAATAAA
1 ATTAATAATAAA
11609168 AAAATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTAATAATAAATAATTTAAAA
Found at i:11609173 original size:22 final size:22
Alignment explanation
Indices: 11609113--11609174 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 22
11609103 TAAGTATTAT
* * * *
11609113 ATTAATTATAAATAATTTATAA
1 ATTAATAATAAAAAAATTAAAA
* * *
11609135 A-TAAAAATAATATAATTAAAA
1 ATTAATAATAAAAAAATTAAAA
11609156 ATTAATAATAAAAAAATTA
1 ATTAATAATAAAAAAATTA
11609175 TTTATAATCG
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTAATAATAAAAAAATTAAAA
Found at i:11618158 original size:3 final size:3
Alignment explanation
Indices: 11618143--11618176 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11618133 TGACCCTCCC
*
11618143 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11618177 ATACTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11621752 original size:18 final size:17
Alignment explanation
Indices: 11621730--11621789 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
11621720 TAAATTTTAA
*
11621730 ATTTTGTTTAAAAAAAT
1 ATTTTTTTTAAAAAAAT
*
11621747 ATTTTTTTAAATATAAAAT
1 ATTTTTTTTAA-A-AAAAT
**
11621766 ATTTTTTATTTTAAAAAT
1 ATTTTTT-TTAAAAAAAT
11621784 ATTTTT
1 ATTTTT
11621790 ATTTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.26
18 12 0.34
19 13 0.37
20 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTTTTTAAAAAAAT
Found at i:11621789 original size:19 final size:19
Alignment explanation
Indices: 11621741--11621799 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
11621731 TTTTGTTTAA
**
11621741 AAAAATATTTTTTTA-AAT
1 AAAAATATTTTTTTATTTT
11621759 ATAAAATA-TTTTTTATTTT
1 A-AAAATATTTTTTTATTTT
11621778 AAAAATATTTTTATT-TTTT
1 AAAAATATTTTT-TTATTTT
11621797 AAA
1 AAA
11621800 TATAATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 14 0.40
19 19 0.54
20 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAAATATTTTTTTATTTT
Found at i:11621795 original size:18 final size:18
Alignment explanation
Indices: 11621761--11621794 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11621751 TTTTAAATAT
11621761 AAAATATTTTTTATTTTA
1 AAAATATTTTTTATTTTA
11621779 AAAATA-TTTTTATTTT
1 AAAATATTTTTTATTTT
11621795 TTAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AAAATATTTTTTATTTTA
Found at i:11621855 original size:28 final size:27
Alignment explanation
Indices: 11621797--11621905 Score: 73
Period size: 28 Copynumber: 3.9 Consensus size: 27
11621787 TTTATTTTTT
* *
11621797 AAATATAATTATAATATTATTTT-TTTAAA
1 AAATATATTTATAATA--ATTTTAATT-AA
11621826 AAATATATTTTATAATAATTTTAATTAA
1 AAATATA-TTTATAATAATTTTAATTAA
* * * *
11621854 AATTATAACTTATAAAAAATTT-A-TAA
1 AAATAT-ATTTATAATAATTTTAATTAA
11621880 AAA-ATATTTATCAAATAATTTTAATT
1 AAATATATTTAT--AATAATTTTAATT
11621906 TAATTCTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
24 5 0.08
25 2 0.03
26 12 0.19
27 2 0.03
28 24 0.38
29 10 0.16
30 8 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATATATTTATAATAATTTTAATTAA
Found at i:11627524 original size:15 final size:15
Alignment explanation
Indices: 11627504--11627532 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11627494 GCAGCCAGGA
11627504 TATGGAGCACCACCT
1 TATGGAGCACCACCT
11627519 TATGGAGCACCACC
1 TATGGAGCACCACC
11627533 AGCCAGCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (15 bp):
TATGGAGCACCACCT
Found at i:11630814 original size:20 final size:20
Alignment explanation
Indices: 11630789--11630832 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11630779 TTGCACAAAA
*
11630789 AGGTATTCCTATTAAGGAAG
1 AGGTATTCCTACTAAGGAAG
11630809 AGGTATTCCTACTAAGGAAG
1 AGGTATTCCTACTAAGGAAG
11630829 AGGT
1 AGGT
11630833 TGCTGAGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.27
Consensus pattern (20 bp):
AGGTATTCCTACTAAGGAAG
Found at i:11632938 original size:10 final size:10
Alignment explanation
Indices: 11632923--11632954 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11632913 GCATAATGTA
11632923 AATGCTTAGC
1 AATGCTTAGC
11632933 AATGCTTAGC
1 AATGCTTAGC
*
11632943 AACGCTTAGC
1 AATGCTTAGC
11632953 AA
1 AA
11632955 CATAGACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (10 bp):
AATGCTTAGC
Found at i:11645345 original size:19 final size:19
Alignment explanation
Indices: 11645321--11645358 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11645311 AGACAACATC
*
11645321 ATGCCTCTCATGTCTATAA
1 ATGCCTCTCATATCTATAA
11645340 ATGCCTCTCATATCTATAA
1 ATGCCTCTCATATCTATAA
11645359 CTAATTCCAT
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:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
ATGCCTCTCATATCTATAA
Found at i:11661549 original size:17 final size:19
Alignment explanation
Indices: 11661528--11661584 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 19
11661518 TAATTAATAA
11661528 ATTTAAAAATTAAAT-TTT
1 ATTTAAAAATTAAATATTT
11661546 -TTTAAAAA-TAAATATTT
1 ATTTAAAAATTAAATATTT
*
11661563 ATTTAAAATTTAAATAATTT
1 ATTTAAAAATTAAAT-ATTT
11661583 AT
1 AT
11661585 AAATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 5 0.15
17 11 0.32
18 7 0.21
19 5 0.15
20 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAAAAATTAAATATTT
Found at i:11661589 original size:34 final size:35
Alignment explanation
Indices: 11661528--11661606 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
11661518 TAATTAATAA
* ** *
11661528 ATTTAAAAATTAAATTTTTTTAAAAATAAATATTT
1 ATTTAAAATTTAAATTAATTTAAAAATAAATAATT
*
11661563 ATTTAAAATTTAAA-TAATTTATAAATAAATAATT
1 ATTTAAAATTTAAATTAATTTAAAAATAAATAATT
11661597 ATTATAAAAT
1 ATT-TAAAAT
11661607 ATATGTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 19 0.50
35 19 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
ATTTAAAATTTAAATTAATTTAAAAATAAATAATT
Found at i:11661601 original size:17 final size:17
Alignment explanation
Indices: 11661551--11661604 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
11661541 ATTTTTTTAA
*
11661551 AAATAAATATTTATT-T
1 AAATAAATAATTATTAT
11661567 AAAATTTAAATAA-T-TTAT
1 -AAA--TAAATAATTATTAT
11661585 AAATAAATAATTATTAT
1 AAATAAATAATTATTAT
11661602 AAA
1 AAA
11661605 ATATATGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 15 0.48
18 2 0.06
19 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAATAATTATTAT
Found at i:11662254 original size:86 final size:86
Alignment explanation
Indices: 11662109--11662280 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
11662099 CACCGTTTGC
11662109 TACTCCGTAACGGATAACATGATCCATTTGTGCAATCAAGTGCAAGCTAGGCATGACAATGAACC
1 TACTCCGTAACGGATAACATGATCCATTTGTGCAATCAAGTGCAAGCTAGGCATGACAATGAACC
11662174 TTGACTTGGAATTATCATCAA
66 TTGACTTGGAATTATCATCAA
11662195 TACTCCGTAACGGATAACATGATCCATTTGTGCAATCAAGTGCAAGCTAGGCATGACAATGAACC
1 TACTCCGTAACGGATAACATGATCCATTTGTGCAATCAAGTGCAAGCTAGGCATGACAATGAACC
11662260 TTGACTTGGAATTATCATCAA
66 TTGACTTGGAATTATCATCAA
11662281 CGAAACTACC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (86 bp):
TACTCCGTAACGGATAACATGATCCATTTGTGCAATCAAGTGCAAGCTAGGCATGACAATGAACC
TTGACTTGGAATTATCATCAA
Found at i:11663059 original size:25 final size:25
Alignment explanation
Indices: 11663031--11663079 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
11663021 TTTTATTTTA
*
11663031 AATTAAATAAATTAGTAT-AATTAAT
1 AATT-AATAAATTAATATCAATTAAT
*
11663056 AATTAATTAATTAATATCAATTAA
1 AATTAATAAATTAATATCAATTAA
11663080 AAGTCACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTAATAAATTAATATCAATTAAT
Found at i:11663157 original size:22 final size:23
Alignment explanation
Indices: 11663127--11663169 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11663117 GTATATAAAT
*
11663127 ATATTATAATA-AATAATATGTG
1 ATATGATAATATAATAATATGTG
*
11663149 ATATGATAATATAATTATATG
1 ATATGATAATATAATAATATG
11663170 ATAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
ATATGATAATATAATAATATGTG
Found at i:11663263 original size:10 final size:10
Alignment explanation
Indices: 11663250--11663317 Score: 54
Period size: 10 Copynumber: 7.2 Consensus size: 10
11663240 TTTTTATTTT
11663250 TAAAAAAATA
1 TAAAAAAATA
*
11663260 T--AAAAATT
1 TAAAAAAATA
**
11663268 TAATTAAATA
1 TAAAAAAATA
11663278 TAAAAAAATA
1 TAAAAAAATA
*
11663288 T--AAAAATT
1 TAAAAAAATA
**
11663296 TAATTAAATA
1 TAAAAAAATA
11663306 TAAAAAAATA
1 TAAAAAAATA
11663316 TA
1 TA
11663318 TCTAAATATT
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
8 14 0.33
10 28 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:11663287 original size:28 final size:28
Alignment explanation
Indices: 11663250--11663317 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
11663240 TTTTTATTTT
11663250 TAAAAAAATATAAAAATTTAATTAAATA
1 TAAAAAAATATAAAAATTTAATTAAATA
11663278 TAAAAAAATATAAAAATTTAATTAAATA
1 TAAAAAAATATAAAAATTTAATTAAATA
11663306 TAAAAAAATATA
1 TAAAAAAATATA
11663318 TCTAAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
TAAAAAAATATAAAAATTTAATTAAATA
Found at i:11663294 original size:18 final size:18
Alignment explanation
Indices: 11663250--11663317 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
11663240 TTTTTATTTT
*
11663250 TAAAAAAATATAAAAATT
1 TAAAAAAATATAAAAATA
** *
11663268 TAATTAAATATAAAAAAA
1 TAAAAAAATATAAAAATA
* *
11663286 TATAAAAATTTAATTAAATA
1 TAAAAAAATATAA--AAATA
11663306 TAAAAAAATATA
1 TAAAAAAATATA
11663318 TCTAAATATT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
18 23 0.62
20 14 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAAATATAAAAATA
Found at i:11663323 original size:20 final size:18
Alignment explanation
Indices: 11663283--11663326 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
11663273 AAATATAAAA
**
11663283 AAATATAAAAATTTAATT
1 AAATATAAAAAAATAATT
11663301 AAATATAAAAAAATATATCT
1 AAATATAAAAAAATA-AT-T
11663321 AAATAT
1 AAATAT
11663327 TTAACTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
19 2 0.09
20 7 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATATAAAAAAATAATT
Found at i:11668055 original size:18 final size:19
Alignment explanation
Indices: 11668034--11668077 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
11668024 TATTTTTTAA
11668034 ATTTATATTA-TTATTTTT
1 ATTTATATTATTTATTTTT
11668052 ATTTAT-TTATTTATTTTT
1 ATTTATATTATTTATTTTT
11668070 ATTT-TATT
1 ATTTATATT
11668078 TACTCATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTATATTATTTATTTTT
Found at i:11668061 original size:14 final size:14
Alignment explanation
Indices: 11668020--11668078 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
11668010 ATTTTAAATT
11668020 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
**
11668033 AATTTATATTA-TTA
1 TTTTTAT-TTATTTA
11668047 TTTTTATTTATTTA
1 TTTTTATTTATTTA
11668061 TTTATT-TTTATTTTA
1 TTT-TTATTTA-TTTA
11668076 TTT
1 TTT
11668079 ACTCATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 8 0.22
14 20 0.54
15 9 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:11668089 original size:23 final size:24
Alignment explanation
Indices: 11668037--11668089 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
11668027 TTTTTAAATT
* *
11668037 TATATTATTATTTTTATTTATTTA
1 TATATTATTATTTTTATTTACTCA
* *
11668061 TTTATTTTTA-TTTTATTTACTCA
1 TATATTATTATTTTTATTTACTCA
11668084 TATATT
1 TATATT
11668090 CTAAATCTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TATATTATTATTTTTATTTACTCA
Found at i:11668229 original size:18 final size:18
Alignment explanation
Indices: 11668156--11668230 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 18
11668146 TTTCTTTCTT
*
11668156 TTTTATTATGTTATATGTAAA
1 TTTTATT-TTTTATATG--AA
*
11668177 TTTTATTTTTTACTTATCATA
1 TTTTATTTTTTA--TATGA-A
11668198 TTTT-TTTCTATTATATGAA
1 TTTTATTT-T-TTATATGAA
11668217 TTTTATTTTTTATA
1 TTTTATTTTTTATA
11668231 ATTTTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
18 5 0.11
19 6 0.13
20 15 0.33
21 13 0.29
22 6 0.13
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTATTTTTTATATGAA
Found at i:11671736 original size:6 final size:7
Alignment explanation
Indices: 11671708--11671733 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11671698 TAATTCTTCA
11671708 AAAAAAG
1 AAAAAAG
11671715 AAAAAAG
1 AAAAAAG
11671722 AAAAAAG
1 AAAAAAG
11671729 AAAAA
1 AAAAA
11671734 GAAGCACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11678818 original size:24 final size:24
Alignment explanation
Indices: 11678775--11678820 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11678765 AACCATAACA
*
11678775 ATAACAACCACTACAGCAACAATG
1 ATAACAACCACCACAGCAACAATG
11678799 ATAACAACCACCAGCA-CAACAA
1 ATAACAACCACCA-CAGCAACAA
11678821 CAAATCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.52, C:0.33, G:0.07, T:0.09
Consensus pattern (24 bp):
ATAACAACCACCACAGCAACAATG
Found at i:11728035 original size:18 final size:20
Alignment explanation
Indices: 11728012--11728056 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
11728002 ATTAGGGTTA
11728012 AAATAAAATTTA-AC-TTGT
1 AAATAAAATTTAGACATTGT
* *
11728030 AAATAAATTTTAGACATTTT
1 AAATAAAATTTAGACATTGT
11728050 AAATAAA
1 AAATAAA
11728057 GATGTCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 2 0.09
20 10 0.43
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATAAAATTTAGACATTGT
Found at i:11734774 original size:26 final size:26
Alignment explanation
Indices: 11734744--11734796 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
11734734 TAATAGTAAA
11734744 AAATAAAATATCGTGAGTTTTAGTTT
1 AAATAAAATATCGTGAGTTTTAGTTT
*
11734770 AAATAAAATGTCGTGAGTTTTAGTTT
1 AAATAAAATATCGTGAGTTTTAGTTT
11734796 A
1 A
11734797 TATTTAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (26 bp):
AAATAAAATATCGTGAGTTTTAGTTT
Found at i:11736169 original size:14 final size:14
Alignment explanation
Indices: 11736150--11736176 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11736140 TAAAACAATA
11736150 TATACATGAATGTC
1 TATACATGAATGTC
11736164 TATACATGAATGT
1 TATACATGAATGT
11736177 TTTTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
TATACATGAATGTC
Found at i:11738170 original size:27 final size:27
Alignment explanation
Indices: 11738130--11738181 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11738120 AAACTGTTAC
*
11738130 CAGGAGCCTGCTAATAGTCCATGGTAG
1 CAGGAGCCTACTAATAGTCCATGGTAG
* *
11738157 CAGGAGCCTACTAATGGTGCATGGT
1 CAGGAGCCTACTAATAGTCCATGGT
11738182 TTAATGGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (27 bp):
CAGGAGCCTACTAATAGTCCATGGTAG
Found at i:11740182 original size:29 final size:29
Alignment explanation
Indices: 11740126--11740182 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
11740116 TTTATTGATC
* * *
11740126 TGAAATAAAAATTAAAAGATTTATTTGAA
1 TGAAATAAAAAATAAAAGATTGAATTGAA
11740155 TGAAATAAAAAGATAAAA-ATTGAATTGA
1 TGAAATAAAAA-ATAAAAGATTGAATTGA
11740183 CTTTTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (29 bp):
TGAAATAAAAAATAAAAGATTGAATTGAA
Found at i:11745690 original size:17 final size:17
Alignment explanation
Indices: 11745649--11745698 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
11745639 ATTAATTAAA
11745649 AATTAATTATAAAA-ATT
1 AATTAA-TATAAAATATT
11745666 -ATTAAATATAAAATATT
1 AATT-AATATAAAATATT
11745683 AATTAATATATAAATA
1 AATTAATATA-AAATA
11745699 AAATAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.34
17 11 0.38
18 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTAATATAAAATATT
Found at i:11748621 original size:83 final size:85
Alignment explanation
Indices: 11748477--11748650 Score: 298
Period size: 83 Copynumber: 2.1 Consensus size: 85
11748467 TTGGCTGTTG
*
11748477 TGATGATGAATTCAAATCCTTTGATGAAGCCTCTTAAAGCTCTAATATTGCTCCTATCATGCATA
1 TGATGATGAATTCAAATCCTTTGATGAAGCCTCTTAAAGCTCTAATATTGCTCCTAGCATGCATA
*
11748542 CTAA-T-GAGTGAAGGATAT
66 CTAACTAGAGTGAAGAATAT
* *
11748560 TGATGATGAATTCAAATCTTTTGGTGAAGCCTCTTAAAGCTCTAATATTGCTCCTAGCATGCATA
1 TGATGATGAATTCAAATCCTTTGATGAAGCCTCTTAAAGCTCTAATATTGCTCCTAGCATGCATA
11748625 CTAACTAGAGTGAAGAATAT
66 CTAACTAGAGTGAAGAATAT
11748645 TGATGA
1 TGATGA
11748651 AACAAACCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
83 66 0.78
84 1 0.01
85 18 0.21
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (85 bp):
TGATGATGAATTCAAATCCTTTGATGAAGCCTCTTAAAGCTCTAATATTGCTCCTAGCATGCATA
CTAACTAGAGTGAAGAATAT
Found at i:11752676 original size:2 final size:2
Alignment explanation
Indices: 11752669--11752694 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11752659 TTCTTTAACC
11752669 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
11752695 ATACACACAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11767926 original size:2 final size:2
Alignment explanation
Indices: 11767919--11767949 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11767909 TGCATGCGTA
11767919 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11767950 TTGAAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11775007 original size:19 final size:19
Alignment explanation
Indices: 11774985--11775023 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11774975 AAATTAGTGA
*
11774985 TTCAATTAAAAAGTAAAAT
1 TTCAATCAAAAAGTAAAAT
*
11775004 TTCAATCAAAGAGTAAAAT
1 TTCAATCAAAAAGTAAAAT
11775023 T
1 T
11775024 GTTAGGTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (19 bp):
TTCAATCAAAAAGTAAAAT
Found at i:11775174 original size:22 final size:24
Alignment explanation
Indices: 11775146--11775189 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
11775136 TTAATATATA
11775146 TTATATAAAAT-TAT-TTTTTAAT
1 TTATATAAAATATATATTTTTAAT
11775168 TTATATAAAATATATATTTTTA
1 TTATATAAAATATATATTTTTA
11775190 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
23 3 0.15
24 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATAAAATATATATTTTTAAT
Found at i:11775193 original size:22 final size:20
Alignment explanation
Indices: 11775144--11775193 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 20
11775134 AATTAATATA
11775144 TATTATATAAAATTATTTTT
1 TATTATATAAAATTATTTTT
11775164 TAATTTATATAAAATATATATTTT
1 T-A-TTATATAAAAT-TAT-TTTT
11775188 TATTAT
1 TATTAT
11775194 TAATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 15 0.58
23 4 0.15
24 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATATAAAATTATTTTT
Found at i:11792762 original size:24 final size:25
Alignment explanation
Indices: 11792733--11792783 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
11792723 ATTTGAGAAT
* *
11792733 AATTTTTTTA-TTATATTTAATT-A
1 AATTTTTATATTTTTATTTAATTCA
11792756 AATTTTTATATTTTTATTTAATTCA
1 AATTTTTATATTTTTATTTAATTCA
11792781 AAT
1 AAT
11792784 AAATTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 11 0.46
25 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
AATTTTTATATTTTTATTTAATTCA
Found at i:11792995 original size:30 final size:30
Alignment explanation
Indices: 11792938--11792995 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11792928 TTATTGATTA
* * *
11792938 TAAAATTTTATTTAATTTAAAATAAAATAT
1 TAAAATTTGATTAAATATAAAATAAAATAT
11792968 TAAAATTTGATTAAATATAATAA-AAAAT
1 TAAAATTTGATTAAATATAA-AATAAAAT
11792996 TGTTTAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
TAAAATTTGATTAAATATAAAATAAAATAT
Found at i:11802063 original size:22 final size:23
Alignment explanation
Indices: 11802038--11802080 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11802028 CCTTTTCAAT
*
11802038 TTTCACCCCTC-ATTTTTTTTCC
1 TTTCAACCCTCAATTTTTTTTCC
*
11802060 TTTCAAGCCTCAATTTTTTTT
1 TTTCAACCCTCAATTTTTTTT
11802081 TTTGCCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.14, C:0.28, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTCAACCCTCAATTTTTTTTCC
Found at i:11817110 original size:3 final size:3
Alignment explanation
Indices: 11817102--11817130 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11817092 AATCATAAAT
11817102 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11817131 TAAGTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11817618 original size:2 final size:2
Alignment explanation
Indices: 11817601--11817634 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11817591 GATCGTGATC
* *
11817601 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11817635 TTTGAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11820185 original size:2 final size:2
Alignment explanation
Indices: 11820178--11820207 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11820168 TTAAAACAAT
11820178 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11820208 GTATGTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11822232 original size:18 final size:18
Alignment explanation
Indices: 11822211--11822246 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11822201 ATGAGGAAGC
11822211 TGATGATGATGACGGTGA
1 TGATGATGATGACGGTGA
*
11822229 TGATGTTGATGACGGTGA
1 TGATGATGATGACGGTGA
11822247 GCCCTGCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.39, T:0.31
Consensus pattern (18 bp):
TGATGATGATGACGGTGA
Found at i:11823844 original size:14 final size:14
Alignment explanation
Indices: 11823825--11823851 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11823815 TCTATATAAT
11823825 TAATAATTAATTAA
1 TAATAATTAATTAA
11823839 TAATAATTAATTA
1 TAATAATTAATTA
11823852 TTATTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATAATTAATTAA
Found at i:11827396 original size:2 final size:2
Alignment explanation
Indices: 11827391--11827418 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11827381 TCTTTTTTTC
11827391 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
11827419 CACTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11831410 original size:29 final size:27
Alignment explanation
Indices: 11831345--11831418 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
11831335 TTTTAAAAAC
*
11831345 TTTAAATAAATTTTTATTTTTTATTAT
1 TTTAAATAAATTTTTATATTTTATTAT
* *
11831372 TTGAATTAAATTTTTATATTTTATT-T
1 TTTAAATAAATTTTTATATTTTATTAT
11831398 TAAATTAAATAAATTTTTATA
1 T---TTAAATAAATTTTTATA
11831419 ATTAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 22 0.56
29 15 0.38
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTAAATAAATTTTTATATTTTATTAT
Found at i:11831432 original size:29 final size:29
Alignment explanation
Indices: 11831378--11831437 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
11831368 TTATTTGAAT
* * *
11831378 TAAATTTTTATATTTTATTTTAAATTAAA
1 TAAATTTTTATAATTAATATTAAATTAAA
11831407 TAAATTTTTATAATTAATAATT-AATTAAA
1 TAAATTTTTATAATTAAT-ATTAAATTAAA
11831436 TA
1 TA
11831438 TTATTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAATTTTTATAATTAATATTAAATTAAA
Found at i:11831576 original size:25 final size:26
Alignment explanation
Indices: 11831548--11831597 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11831538 ATAATACATT
* *
11831548 AATAT-AATATTTAATTTAAAATAAA
1 AATATAAAAATTTAATTAAAAATAAA
11831573 AATATAAAAATTTAATTAAAAATAA
1 AATATAAAAATTTAATTAAAAATAA
11831598 CAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATATAAAAATTTAATTAAAAATAAA
Found at i:11831602 original size:21 final size:21
Alignment explanation
Indices: 11831560--11831612 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
11831550 TATAATATTT
*
11831560 AATTTAAAATAAAAATATAAA
1 AATTTAAAATAAAAATACAAA
*
11831581 AATTT-AATTAAAAATAACAAAA
1 AATTTAAAATAAAAAT-AC-AAA
*
11831603 AATTTTAAAT
1 AATTTAAAAT
11831613 TTTCAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 8 0.31
23 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTTAAAATAAAAATACAAA
Found at i:11848730 original size:2 final size:2
Alignment explanation
Indices: 11848723--11848760 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11848713 ACATATAGGT
11848723 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11848761 TACCTCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11870474 original size:16 final size:18
Alignment explanation
Indices: 11870443--11870476 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
11870433 AGTTTTTGAA
11870443 ATTTTTATATATTATTTT
1 ATTTTTATATATTATTTT
11870461 ATTTTT-TA-ATTATTTT
1 ATTTTTATATATTATTTT
11870477 TAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTATATATTATTTT
Found at i:11871353 original size:15 final size:18
Alignment explanation
Indices: 11871321--11871357 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
11871311 TATTTATATG
11871321 TTATAAAATTATTATTTA
1 TTATAAAATTATTATTTA
11871339 TTAT-AAATT-TT-TTTA
1 TTATAAAATTATTATTTA
11871354 TTAT
1 TTAT
11871358 TAATGGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 5 0.26
18 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATAAAATTATTATTTA
Found at i:11892404 original size:66 final size:66
Alignment explanation
Indices: 11892322--11892456 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
11892312 AACTCGATAC
11892322 CTTTTAATGAACAAGTCCTCTTGGACATCAATTCTAGGTTCTCTTGTGGCTATGTAATAGTAAGT
1 CTTTTAATGAACAAGTCCTCTTGGACATCAATTCTAGGTTCTCTTGTGGCTATGTAATAGTAAGT
11892387 T
66 T
11892388 CTTTTAATGAACAAGTCCTCTTGGACATCAATTCTAGGTTCTCTTGTGGCTATGTAATAGTAAGT
1 CTTTTAATGAACAAGTCCTCTTGGACATCAATTCTAGGTTCTCTTGTGGCTATGTAATAGTAAGT
11892453 T
66 T
11892454 CTT
1 CTT
11892457 ACTTTTCCCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (66 bp):
CTTTTAATGAACAAGTCCTCTTGGACATCAATTCTAGGTTCTCTTGTGGCTATGTAATAGTAAGT
T
Found at i:11907654 original size:2 final size:2
Alignment explanation
Indices: 11907647--11907672 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11907637 TACATAACAC
11907647 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
11907673 CACACACACA
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:11927030 original size:5 final size:5
Alignment explanation
Indices: 11927014--11927053 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
11927004 TTTGCTTATT
11927014 ATATA TATATA ATATA ATATA ATATA ATATA ATAT- ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA
11927054 TTTGTCAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:11933010 original size:2 final size:2
Alignment explanation
Indices: 11933003--11933045 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11932993 ACTTTGGGCT
11933003 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
11933045 T
1 T
11933046 TCTATGATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11941436 original size:21 final size:22
Alignment explanation
Indices: 11941410--11941461 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
11941400 TCATACTTTC
11941410 AATTAAAAATA-AATAATTATT
1 AATTAAAAATACAATAATTATT
**
11941431 AATTAAAAA-ACCTTAATTATT
1 AATTAAAAATACAATAATTATT
*
11941452 AATTTAAAAT
1 AATTAAAAAT
11941462 TTATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAAAATACAATAATTATT
Found at i:11943448 original size:5 final size:5
Alignment explanation
Indices: 11943426--11943523 Score: 51
Period size: 5 Copynumber: 19.2 Consensus size: 5
11943416 CTGTTATAAT
* * * * *
11943426 TAAAA TAAAA -ATAT TAAAA TAAAA T-ATA TAATAT TAAAA TAAAA T-ATA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA
* *
11943474 TAATA TAAGAA TCAAAAA TTAAAA TAAAA TAAAA TATAAA -AAAT TAAAA
1 TAAAA TAA-AA T--AAAA -TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA
11943523 T
1 T
11943524 TTATATAATA
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
4 10 0.14
5 44 0.62
6 12 0.17
7 2 0.03
8 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (5 bp):
TAAAA
Done.