Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013596.1 Kokia drynarioides strain JFW-HI SEQ_128623, 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: 172030
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:524 original size:52 final size:52
Alignment explanation
Indices: 427--665 Score: 282
Period size: 52 Copynumber: 4.6 Consensus size: 52
417 TTCCCATTTA
* * * * ** *
427 ATACTCACGATGACACAAAGTCCTCGGACCTTA-AATGAGTAAAAGGATCCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGT-AAAGGATTCAT
* * * *
479 ATGCTCACGGTGGCACATAGTCATCAGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* **
531 AAACTCACGATGACATGTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * * *
583 ATACTCACAAAGACACATAGTCATCGGACCTCATAATACGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
635 ATACTCATGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
666 TTTTGCATTT
Statistics
Matches: 158, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
52 154 0.97
53 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:13392 original size:36 final size:36
Alignment explanation
Indices: 13352--13441 Score: 171
Period size: 36 Copynumber: 2.5 Consensus size: 36
13342 TATAGTGTAA
13352 ACTATAGCGTGAAAGTACCAGTTAAAAGTGGAAAGG
1 ACTATAGCGTGAAAGTACCAGTTAAAAGTGGAAAGG
*
13388 ACTATAGTGTGAAAGTACCAGTTAAAAGTGGAAAGG
1 ACTATAGCGTGAAAGTACCAGTTAAAAGTGGAAAGG
13424 ACTATAGCGTGAAAGTAC
1 ACTATAGCGTGAAAGTAC
13442 TTGTGATAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (36 bp):
ACTATAGCGTGAAAGTACCAGTTAAAAGTGGAAAGG
Found at i:14239 original size:16 final size:16
Alignment explanation
Indices: 14218--14249 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14208 GTACCAAGTC
14218 AAACGATCCGGCACAG
1 AAACGATCCGGCACAG
14234 AAACGATCCGGCACAG
1 AAACGATCCGGCACAG
14250 TACCACTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.25, T:0.06
Consensus pattern (16 bp):
AAACGATCCGGCACAG
Found at i:41746 original size:23 final size:23
Alignment explanation
Indices: 41717--41761 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
41707 TAATATTTTG
41717 TAACTCTCCTGTCATT-ATGTTTA
1 TAACTCTCCTG-CATTAATGTTTA
41740 TAACTCTCCTGCATTAATGTTT
1 TAACTCTCCTGCATTAATGTTT
41762 TGTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (23 bp):
TAACTCTCCTGCATTAATGTTTA
Found at i:46754 original size:30 final size:30
Alignment explanation
Indices: 46718--46778 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
46708 AAGCATAATC
46718 ATATTTGTTTTCATATTCCTTGTTAGTTGA
1 ATATTTGTTTTCATATTCCTTGTTAGTTGA
46748 ATATTTGTTTTCATATTCCTTGTTAGTTGA
1 ATATTTGTTTTCATATTCCTTGTTAGTTGA
46778 A
1 A
46779 CACGTGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (30 bp):
ATATTTGTTTTCATATTCCTTGTTAGTTGA
Found at i:58285 original size:29 final size:29
Alignment explanation
Indices: 58195--58319 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
58185 GCGGATAGGG
* * *
58195 GTATTATGTCTACATTTGT-AGTGATATTT
1 GTATTATGTCTACATCTGTAATTG-TATTC
* * * *
58224 GTATCATGTCTGCATCTATAACTGTA-TC
1 GTATTATGTCTACATCTGTAATTGTATTC
*
58252 TGTATCATGTCTACATCTGTAATTGTATTC
1 -GTATTATGTCTACATCTGTAATTGTATTC
* * * *
58282 GTATTATATCTATATTTGGAATTGTATTC
1 GTATTATGTCTACATCTGTAATTGTATTC
*
58311 ATATTATGT
1 GTATTATGT
58320 ATGACCTTCT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 71 0.92
30 5 0.06
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (29 bp):
GTATTATGTCTACATCTGTAATTGTATTC
Found at i:60914 original size:28 final size:28
Alignment explanation
Indices: 60861--60914 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
60851 GAAAAAAAAG
* **
60861 AAGGAATGAAATGTTTTTTTTTAAAACT
1 AAGGAATGAAATGTTTGTTTCCAAAACT
60889 AAGG-ATGAAATGATTTGTTTCCAAAA
1 AAGGAATGAAATG-TTTGTTTCCAAAA
60915 AAATGATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (28 bp):
AAGGAATGAAATGTTTGTTTCCAAAACT
Found at i:66775 original size:102 final size:102
Alignment explanation
Indices: 66621--67348 Score: 734
Period size: 102 Copynumber: 7.1 Consensus size: 102
66611 GGTAACTCCC
* * * *
66621 ATATCCTTGAACTTGTAGTGGAAT-GGAGTAAAACTAACAATAGTGAATCTCAATCTCCCTGAAG
1 ATATCCTTGAAGTTGTAGTGG-ATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAG
* * * *
66685 CTAAAGTGCAATGGAGTGAAGTTGCAACACCAAATCCT
65 TTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* * ** * *
66723 ATATCCTTGAAGTTGCAATGGATTGGATTAAAACTAACAGTAGTAAATCTCAATCTCCTTGAAGT
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAGT
* * *
66788 TGCAGTGGAATAGAGTGAAGTTACAACACAAAATCCT
66 TGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* * * * *
66825 ATATCCCTGAAGTTGCACTGGATCATATTAAAA-TAAATAGTAGCTG-ATCTCAATCT-CCTAGA
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACT-AACAGTAG-TGAATCTCAATCTCCCT-GA
*
66887 AGTTGAAGTGGAATGCAGTGAAGTTACAACACCAAATCCT
63 AGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* * * * ** * *
66927 ATATCCCTAAAGTTGTAGTGGATCAAATTAAAACAAACAGTAACGAATCTTAATCTCCCTAAAGT
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAGT
*
66992 TGCAA-TGGAATGGAGTGAAGTTACAACATCAAATCCT
66 TG-AAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* * * * *
67029 ATATCCTTAAAGTTGTAGTGGATCAAATTAAAACTAACACTGGTGGATCTCAATCTCCCTGAAGT
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAGT
** * * * *
67094 TCTAGTAGATTAGAGTGAAGTTACAACACCAAATCTT
66 TGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* ** * * *
67131 GTATCCTTGAAGTTACAGTGGACCAGATTAAAACTAATAGTAGCGAATCTCAATCTCCCTGAAGT
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAGT
* *
67196 TGTAGTGGAATGGAGTGAAGTTACAACACCAAATCTT
66 TGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
* * * ** * ** *
67233 ATATCCCTAAAGTTGTAGTGGTTTGGATTAAAACTAACAGTTGCAAATCTGAATCTCCCT-ATAG
1 ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGA-AG
* * * * * *
67297 TT-ACAATAGAATGGAGTGCAGTTACGATATCAAATCCT
65 TTGA-AGTGGAATGGAGTGAAGTTACAACACCAAATCCT
67335 ATA-CCTCTGAAGTT
1 ATATCCT-TGAAGTT
67349 ACAGTGGGTC
Statistics
Matches: 522, Mismatches: 92, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
101 10 0.02
102 506 0.97
103 6 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (102 bp):
ATATCCTTGAAGTTGTAGTGGATCAGATTAAAACTAACAGTAGTGAATCTCAATCTCCCTGAAGT
TGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCT
Found at i:67366 original size:306 final size:306
Alignment explanation
Indices: 66694--67366 Score: 879
Period size: 306 Copynumber: 2.2 Consensus size: 306
66684 GCTAAAGTGC
* * * * *
66694 AATGGAGTGAAGTTGCAACACCAAATCCTATATCCTTGAAGTTGCAATGGATTGGATTAAAACTA
1 AATGGAGTGAAGTTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGAATTAAAACTA
* * *
66759 ACAGTAGTAAATCTCAATCTCCTTGAAGTTGCAGTGGAATAGAGTGAAGTTACAACACAAAATCC
66 ACACTAGTAAATCTCAATCTCCCTGAAGTTGCAGTAGAATAGAGTGAAGTTACAACACAAAATCC
* * *
66824 TATATCCCTGAAGTTGCACTGGATCATATTAAAATAAATAGTAGCTGATCTCAATCTCCTAGAAG
131 TATATCCCTGAAGTTACACTGGACCAGATTAAAATAAATAGTAGCTGATCTCAATCTCCTAGAAG
66889 TTGAAGTGGAATGCAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGTAGTGGATCAAA
196 TTGAAGTGGAATGCAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGTAGTGGATCAAA
* * * *
66954 TTAAAACAAACAGTAACGAATCTTAATCTCCCTAAAGTTGCAATGG
261 TTAAAACAAACAGTAACAAATCTGAATCTCCCTAAAGTTACAATAG
* * *
67000 AATGGAGTGAAGTTACAACATCAAATCCTATATCCTTAAAGTTGTAGTGGATCAAATTAAAACTA
1 AATGGAGTGAAGTTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGAATTAAAACTA
* ** * *
67065 ACACTGGTGGATCTCAATCTCCCTGAAGTT-CTAGTAGATTAGAGTGAAGTTACAACACCAAATC
66 ACACTAGTAAATCTCAATCTCCCTGAAGTTGC-AGTAGAATAGAGTGAAGTTACAACACAAAATC
* * * *
67129 TTGTATCCTTGAAGTTACAGTGGACCAGATTAAAACT-AATAGTAGC-GAATCTCAATCTCCCT-
130 CTATATCCCTGAAGTTACACTGGACCAGATTAAAA-TAAATAGTAGCTG-ATCTCAATCT-CCTA
* * * *
67191 GAAGTTGTAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATATCCCTAAAGTTGTAGTGGTT
192 GAAGTTGAAGTGGAATGCAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGTAGTGGAT
*** * ** *
67256 TGGATTAAAACTAACAGTTGCAAATCTGAATCTCCCTATAGTTACAATAG
257 CAAATTAAAACAAACAGTAACAAATCTGAATCTCCCTAAAGTTACAATAG
* * * * *
67306 AATGGAGTGCAGTTACGATATCAAATCCTATA-CCTCTGAAGTTACAGTGGGTCGAATTAAA
1 AATGGAGTGAAGTTACAACATCAAATCCTATATCCT-TGAAGTTGCAGTGGATCGAATTAAA
67367 GCTACGAAAG
Statistics
Matches: 316, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
305 5 0.02
306 307 0.97
307 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (306 bp):
AATGGAGTGAAGTTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGAATTAAAACTA
ACACTAGTAAATCTCAATCTCCCTGAAGTTGCAGTAGAATAGAGTGAAGTTACAACACAAAATCC
TATATCCCTGAAGTTACACTGGACCAGATTAAAATAAATAGTAGCTGATCTCAATCTCCTAGAAG
TTGAAGTGGAATGCAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGTAGTGGATCAAA
TTAAAACAAACAGTAACAAATCTGAATCTCCCTAAAGTTACAATAG
Found at i:67373 original size:50 final size:50
Alignment explanation
Indices: 67319--67471 Score: 116
Period size: 50 Copynumber: 3.1 Consensus size: 50
67309 GGAGTGCAGT
67319 TACGATATCAAATCCTATACCTCTGAAGTTACAGTGGGTCGAATTAAAGC
1 TACGATATCAAATCCTATACCTCTGAAGTTACAGTGGGTCGAATTAAAGC
* * * * * ** * *
67369 TACGAAAGCAAAACTTAT-CTCTCTAAAAATACAGTAGAG-C-AAGATAAAGC
1 TACGATATCAAATCCTATAC-CTCTGAAGTTACAGT-GGGTCGAA-TTAAAGC
* ** * *
67419 TACCATATCAAATCCTATACC-CATGAAGTTGTAGTGGGTCGGATTGAAGC
1 TACGATATCAAATCCTATACCTC-TGAAGTTACAGTGGGTCGAATTAAAGC
67469 TAC
1 TAC
67472 AAAAGCAAAT
Statistics
Matches: 73, Mismatches: 23, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
49 6 0.08
50 63 0.86
51 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (50 bp):
TACGATATCAAATCCTATACCTCTGAAGTTACAGTGGGTCGAATTAAAGC
Found at i:67435 original size:100 final size:100
Alignment explanation
Indices: 67323--67572 Score: 297
Period size: 100 Copynumber: 2.5 Consensus size: 100
67313 TGCAGTTACG
* *
67323 ATATCAAATCCTATACCTCTGAAGTTACAGTGGGTCGAATTAAAGCTACGAAAGCAAAACTTATC
1 ATATCAAATCCTATACCTCTGAAGTTATAGTGGGTCGAATTAAAGCTACAAAAGCAAAACTTATC
* * * *
67388 TCTCTAAAAATACAGTAGAGCAAGATAAAGCTACC
66 TCCCTAAAAATACAATAGAGAAAGATAAAGCTACA
* * * *
67423 ATATCAAATCCTATACC-CATGAAGTTGTAGTGGGTCGGATTGAAGCTACAAAAGCAAATCTTAT
1 ATATCAAATCCTATACCTC-TGAAGTTATAGTGGGTCGAATTAAAGCTACAAAAGCAAAACTTAT
* * * * * *
67487 CTCCCTGAAGATGCAATGGAGAAAGATGAAGGTACA
65 CTCCCTAAAAATACAATAGAGAAAGATAAAGCTACA
* * *
67523 ACATCAGATCCTATATCCT-TGAAGTTATAGTGGATCGAATTAAAGCTACA
1 ATATCAAATCCTATA-CCTCTGAAGTTATAGTGGGTCGAATTAAAGCTACA
67573 TTAGCAGGCC
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 1 0.01
100 122 0.98
101 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (100 bp):
ATATCAAATCCTATACCTCTGAAGTTATAGTGGGTCGAATTAAAGCTACAAAAGCAAAACTTATC
TCCCTAAAAATACAATAGAGAAAGATAAAGCTACA
Found at i:68022 original size:102 final size:102
Alignment explanation
Indices: 67845--68137 Score: 349
Period size: 102 Copynumber: 2.9 Consensus size: 102
67835 AAGACTGGGT
* * * *
67845 TAGTAGCAGATCTCAATCTCCCTGAAGATGTAGTGAAATGCAGTGATGTTACAACACCAAATCCT
1 TAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGAAATGGAGTGAAGTTACAACACCAAATCCT
* * * *
67910 ATATCTCTAAAGTTCTAGTGGATCAGATTAAAACAAA
66 ATATCCCTAAAGTTGTAGTGGATCACACTAAAACAAA
* * * * *
67947 TAGTAGCTGATCTCAATCTCCCT-AATGTTGCAATGGAATGGAGTGAAGATACAACATCAAATCC
1 TAGTAGCAGATCTCAATCTCCCTGAA-GTTGCAGTGAAATGGAGTGAAGTTACAACACCAAATCC
* *
68011 TATATCCCTAAAGTTGTAGTGCATCACACTAAAACTAA
65 TATATCCCTAAAGTTGTAGTGGATCACACTAAAACAAA
* * * * *
68049 CACTAG-AGGATCTCAATCTCCCTGAAGTTACAGTGAAATAGAGTGAAGTTACAATACCAAATCC
1 TAGTAGCA-GATCTCAATCTCCCTGAAGTTGCAGTGAAATGGAGTGAAGTTACAACACCAAATCC
*
68113 TATATCCTTGAAA-TTGTAGTGGATC
65 TATATCCCT-AAAGTTGTAGTGGATC
68138 TCAATCTCCC
Statistics
Matches: 160, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
101 2 0.01
102 153 0.96
103 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (102 bp):
TAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGAAATGGAGTGAAGTTACAACACCAAATCCT
ATATCCCTAAAGTTGTAGTGGATCACACTAAAACAAA
Found at i:68185 original size:77 final size:77
Alignment explanation
Indices: 68056--68214 Score: 228
Period size: 77 Copynumber: 2.1 Consensus size: 77
68046 TAACACTAGA
* * * *
68056 GGATCTCAATCTCCCTGAAGTTACAGTGAAATAGAGTGAAGTTACAATACCAAATCCTATATCCT
1 GGATCTCAATCTCCCTAAAGTTACAATGAAATAGAGTGAAGTTACAACACCAAATCCTATATCCC
*
68121 TGAAATTGTAGT
66 TGAAATTATAGT
** * * *
68133 GGATCTCAATCTCCCTAAAGTTGTAATGGAATGGAGTGATGTTACAACACCAAATCCTATATCCC
1 GGATCTCAATCTCCCTAAAGTTACAATGAAATAGAGTGAAGTTACAACACCAAATCCTATATCCC
68198 TGAAATTATAGT
66 TGAAATTATAGT
68210 GGATC
1 GGATC
68215 AGATTAAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (77 bp):
GGATCTCAATCTCCCTAAAGTTACAATGAAATAGAGTGAAGTTACAACACCAAATCCTATATCCC
TGAAATTATAGT
Found at i:68256 original size:179 final size:179
Alignment explanation
Indices: 67955--68313 Score: 490
Period size: 179 Copynumber: 2.0 Consensus size: 179
67945 AATAGTAGCT
* *
67955 GATCTCAATCTCCCTAATGTTGCAATGGAATGGAGTGAAGATACAACATCAAATCCTATATCCCT
1 GATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCT
* * *
68020 AAAGTTGTAGTGCATCACACTAAAACTAACACTAGAGGATCTCAATCTCCCTGAAGTTACAGTGA
66 AAAGTTATAGTGCATCACACTAAAACTAACACTAGAAGATCTCAATCTCCATGAAGTTACAGTGA
* *
68085 AAT-AGAGTGAAGTTACAATACCAAATCCTATATCCTTGAAATTGTAGTG
131 AATGA-AGTGAAGTTACAACACCAAATCCTATATCCTTGAAATTATAGTG
* * *
68134 GATCTCAATCTCCCTAAAGTTGTAATGGAATGGAGTGATGTTACAACACCAAATCCTATATCCCT
1 GATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCT
* * * * * **
68199 GAAA-TTATAGTGGATCAGATTAAAACTAATAGTA-ATAGATCTCAATCTCCATGAAGTTGTAGT
66 -AAAGTTATAGTGCATCACACTAAAACTAACACTAGA-AGATCTCAATCTCCATGAAGTTACAGT
* * *
68262 GGAATGAAGTGAAGTTACAACACCAAATCTTATATCCTTGAAGTTATAGTG
129 GAAATGAAGTGAAGTTACAACACCAAATCCTATATCCTTGAAATTATAGTG
68313 G
1 G
68314 TTCAAATTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
178 1 0.01
179 152 0.97
180 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (179 bp):
GATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCT
AAAGTTATAGTGCATCACACTAAAACTAACACTAGAAGATCTCAATCTCCATGAAGTTACAGTGA
AATGAAGTGAAGTTACAACACCAAATCCTATATCCTTGAAATTATAGTG
Found at i:68310 original size:102 final size:102
Alignment explanation
Indices: 68134--68423 Score: 346
Period size: 102 Copynumber: 2.8 Consensus size: 102
68124 AATTGTAGTG
* *
68134 GATCTCAATCTCCCTAAAGTTGTAATGGAATGGAGTGATGTTACAACACCAAATCCTATATCCCT
1 GATCTCAATCTCCATAAAGTTGTAATGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCT
* * * *
68199 GAAATTATAGTGGATCAGATTAAAACTAATAGTAATA
66 GAAGTTATAGTGGATCAGATTAAAACTAACAATAACA
* * * * *
68236 GATCTCAATCTCCATGAAGTTGTAGTGGAATGAAGTGAAGTTACAACACCAAATCTTATATCCTT
1 GATCTCAATCTCCATAAAGTTGTAATGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCT
* * *
68301 GAAGTTATAGTGGTTCAAATTAAAACTAACAATAACG
66 GAAGTTATAGTGGATCAGATTAAAACTAACAATAACA
* * * ** * * * * *
68338 GATCTCAATCTACTTTAAGCAGCAATGGAATGGAGTAAAGTTACGACATCAAATCCTATACCCCT
1 GATCTCAATCTCCATAAAGTTGTAATGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCT
* *
68403 GAAGTTGTAGTGGGTCAGATT
66 GAAGTTATAGTGGATCAGATT
68424 GAAGCTACGA
Statistics
Matches: 157, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
102 157 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (102 bp):
GATCTCAATCTCCATAAAGTTGTAATGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCT
GAAGTTATAGTGGATCAGATTAAAACTAACAATAACA
Found at i:68381 original size:281 final size:281
Alignment explanation
Indices: 67853--68415 Score: 704
Period size: 281 Copynumber: 2.0 Consensus size: 281
67843 GTTAGTAGCA
* * *
67853 GATCTCAATCTCCCTGAAGATGTAGTGAAATGCAGTGATGTTACAACACCAAATCCTATATCTCT
1 GATCTCAATCTCCCTAAAGATGTAATGAAATGCAGTGATGTTACAACACCAAATCCTATATCCCT
* * *
67918 AAAGTTCTAGTGGATCAGATTAAAACAAATAGTAGCTGATCTCAATCTCCCTAATGTTGCAATGG
66 AAAGTTATAGTGGATCAGATTAAAACAAATAGTAGATGATCTCAATCTCCATAATGTTGCAATGG
* * * *
67983 AATGGAGTGAAGATACAACATCAAATCCTATATCCCTAAAGTTGTAGTGCATCACACTAAAACTA
131 AATGAAGTGAAGATACAACACCAAATCCTATATCCCTAAAGTTATAGTGCATCAAACTAAAACTA
* * * * * *
68048 ACACTAGAGGATCTCAATCTCCCTGAAGTTACAGTGAAATAGAGTGAAGTTACAATACCAAATCC
196 ACAATAGAGGATCTCAATCTACCTGAAGTCACAATGAAATAGAGTAAAGTTACAACACCAAATCC
* *
68113 TATATCCTTGAAATTGTAGTG
261 TATACCCCTGAAATTGTAGTG
* * *
68134 GATCTCAATCTCCCTAAAGTTGTAATGGAATGGAGTGATGTTACAACACCAAATCCTATATCCCT
1 GATCTCAATCTCCCTAAAGATGTAATGAAATGCAGTGATGTTACAACACCAAATCCTATATCCCT
* * *
68199 GAAA-TTATAGTGGATCAGATTAAAACTAATAGTA-ATAGATCTCAATCTCCATGAA-GTTGTAG
66 -AAAGTTATAGTGGATCAGATTAAAACAAATAGTAGAT-GATCTCAATCTCCAT-AATGTTGCAA
* * * * ** *
68261 TGGAATGAAGTGAAGTTACAACACCAAATCTTATATCCTTGAAGTTATAGTGGTTCAAATTAAAA
128 TGGAATGAAGTGAAGATACAACACCAAATCCTATATCCCTAAAGTTATAGTGCATCAAACTAAAA
* * * * * *
68326 CTAACAATA-ACGGATCTCAATCTACTTTAAG-CAGCAATGGAATGGAGTAAAGTTACGACATCA
193 CTAACAATAGA-GGATCTCAATCTACCTGAAGTCA-CAATGAAATAGAGTAAAGTTACAACACCA
*
68389 AATCCTATACCCCTGAAGTTGTAGTG
256 AATCCTATACCCCTGAAATTGTAGTG
68415 G
1 G
68416 GTCAGATTGA
Statistics
Matches: 239, Mismatches: 38, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
280 3 0.01
281 231 0.97
282 5 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (281 bp):
GATCTCAATCTCCCTAAAGATGTAATGAAATGCAGTGATGTTACAACACCAAATCCTATATCCCT
AAAGTTATAGTGGATCAGATTAAAACAAATAGTAGATGATCTCAATCTCCATAATGTTGCAATGG
AATGAAGTGAAGATACAACACCAAATCCTATATCCCTAAAGTTATAGTGCATCAAACTAAAACTA
ACAATAGAGGATCTCAATCTACCTGAAGTCACAATGAAATAGAGTAAAGTTACAACACCAAATCC
TATACCCCTGAAATTGTAGTG
Found at i:68629 original size:100 final size:100
Alignment explanation
Indices: 68375--68630 Score: 284
Period size: 100 Copynumber: 2.6 Consensus size: 100
68365 GAATGGAGTA
* *
68375 AAGTTACGACATCAAATCCTATACCCCTGAAGTTGTAGTGGGTC-AGATTGAAGCTACGAAAGCA
1 AAGTTACGACATCAAATCCTATACCCCTGAAGTTATAGTGGGTCGA-ATTGAAGCTAAGAAAGCA
** * *
68439 AATCTTATCTCTTTGAAATTGCAGTAGAGCAATATG
65 AATCTTATCTCCCTGAAATTGCAGTAGAGAAAGATG
** * * * * * *
68475 AAACTACCACATCAAATCCTATACCCCTGATGTTATAGTGGGTTGGACTGAAGCTATAG-AAGCG
1 AAGTTACGACATCAAATCCTATACCCCTGAAGTTATAGTGGGTCGAATTGAAGCTA-AGAAAGCA
*
68539 AATCTTATCTCCCTGAAGA-TGCAGTGGAGAAAGATG
65 AATCTTATCTCCCTGAA-ATTGCAGTAGAGAAAGATG
* * * * *
68575 AAGTTACGACATTAAATCCTATATCCCTGAAGTTACAGTGGATCGAATTAAAGCTA
1 AAGTTACGACATCAAATCCTATACCCCTGAAGTTATAGTGGGTCGAATTGAAGCTA
68631 CATTAGCAGG
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
100 124 0.98
101 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (100 bp):
AAGTTACGACATCAAATCCTATACCCCTGAAGTTATAGTGGGTCGAATTGAAGCTAAGAAAGCAA
ATCTTATCTCCCTGAAATTGCAGTAGAGAAAGATG
Found at i:69327 original size:21 final size:22
Alignment explanation
Indices: 69301--69341 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
69291 TTTTTAACGC
69301 CGTTGCTC-TTACCACGTCAAT
1 CGTTGCTCTTTACCACGTCAAT
*
69322 CGTTGCTCTTTGCCACGTCA
1 CGTTGCTCTTTACCACGTCA
69342 GTCACCCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.34, G:0.17, T:0.34
Consensus pattern (22 bp):
CGTTGCTCTTTACCACGTCAAT
Found at i:70231 original size:14 final size:14
Alignment explanation
Indices: 70212--70252 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
70202 TTTTCATTTT
*
70212 ATTTTATTTCTTTA
1 ATTTTATTCCTTTA
*
70226 ATTTTA-GCCTTTA
1 ATTTTATTCCTTTA
70239 ATTTTATTCCTTTA
1 ATTTTATTCCTTTA
70253 CAATGTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTTTATTCCTTTA
Found at i:70807 original size:16 final size:16
Alignment explanation
Indices: 70785--70823 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
70775 TTAATTCTAC
*
70785 TATTATTTTATTATGAG
1 TATTATTTCATTAT-AG
70802 -ATTATTTCATTATAG
1 TATTATTTCATTATAG
70817 TATTATT
1 TATTATT
70824 ATTAACGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (16 bp):
TATTATTTCATTATAG
Found at i:72491 original size:14 final size:15
Alignment explanation
Indices: 72474--72503 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
72464 TTATTTATAT
72474 AATACT-TATGATTC
1 AATACTATATGATTC
72488 AATACTATATGATTC
1 AATACTATATGATTC
72503 A
1 A
72504 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AATACTATATGATTC
Found at i:74733 original size:16 final size:16
Alignment explanation
Indices: 74712--74742 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74702 ATAAAATAAA
74712 TAAATATATTATTCAG
1 TAAATATATTATTCAG
*
74728 TAAATATATTCTTCA
1 TAAATATATTATTCA
74743 CAAAGTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
TAAATATATTATTCAG
Found at i:77019 original size:72 final size:72
Alignment explanation
Indices: 76925--77149 Score: 351
Period size: 72 Copynumber: 3.1 Consensus size: 72
76915 CTGTTGCGAA
*
76925 AGTAAATATGTGGGTATGTTATTCATGCCATGAGACAGTAAATATGTGCGTATGTTATTCATGCC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGACAGTAAATATGTGGGTATGTTATTCATGCC
76990 ATGTGAT
66 ATGTGAT
* ** * * *
76997 AGTAAATGTGTGAATATATTATTCATGTCATGAGACAGTAAATATGTGGGTACGTTATTCATGCC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGACAGTAAATATGTGGGTATGTTATTCATGCC
*
77062 ATGTGAC
66 ATGTGAT
* *
77069 AATAAATATGTGGGTATGTTATCCATGCCATGAGACAGTAAATATGTGGGTATGTTATTCATGCC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGACAGTAAATATGTGGGTATGTTATTCATGCC
77134 ATGTGAT
66 ATGTGAT
*
77141 AGTGAATAT
1 AGTAAATAT
77150 ATTGTGCTAA
Statistics
Matches: 134, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 134 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (72 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATGAGACAGTAAATATGTGGGTATGTTATTCATGCC
ATGTGAT
Found at i:77149 original size:36 final size:36
Alignment explanation
Indices: 76925--77136 Score: 316
Period size: 36 Copynumber: 5.9 Consensus size: 36
76915 CTGTTGCGAA
76925 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* * *
76961 AGTAAATATGTGCGTATGTTATTCATGCCATGTGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* ** * *
76997 AGTAAATGTGTGAATATATTATTCATGTCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* *
77033 AGTAAATATGTGGGTACGTTATTCATGCCATGTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
* *
77069 AATAAATATGTGGGTATGTTATCCATGCCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
77105 AGTAAATATGTGGGTATGTTATTCATGCCATG
1 AGTAAATATGTGGGTATGTTATTCATGCCATG
77137 TGATAGTGAA
Statistics
Matches: 153, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 153 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (36 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATGAGAC
Found at i:77871 original size:23 final size:23
Alignment explanation
Indices: 77544--77864 Score: 426
Period size: 23 Copynumber: 14.0 Consensus size: 23
77534 ACTAAATGTG
* *
77544 TTAAATATTAATGTGATTTGTGT
1 TTAAATATTAATGTGATTTATGC
* * *
77567 TTAAATATTTATGTGGTTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
77590 TTAAATATTAATGTGATTTATAC
1 TTAAATATTAATGTGATTTATGC
* * *
77613 TTAAATGTTAATATGGTTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
77636 TTAAATATTAGTGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
77659 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* * *
77682 TTAAATGTTAATATGATTTATTC
1 TTAAATATTAATGTGATTTATGC
* *
77705 TTAAATATTAATATGATCTATGC
1 TTAAATATTAATGTGATTTATGC
* *
77728 TTAAATATTAATTTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
*
77751 TTAAATAGTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
77774 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
77797 TTAAACATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
77820 TTAAATATTAATGTGACTTATGC
1 TTAAATATTAATGTGATTTATGC
*
77843 TTAAATATTAATATGATTTATG
1 TTAAATATTAATGTGATTTATG
77865 TGTAAATGGA
Statistics
Matches: 258, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 258 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:79991 original size:14 final size:14
Alignment explanation
Indices: 79972--80000 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
79962 GAAAAGACAC
79972 AACCAAACAAAATA
1 AACCAAACAAAATA
79986 AACCAAACAAAATA
1 AACCAAACAAAATA
80000 A
1 A
80001 GCTTTAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.21, G:0.00, T:0.07
Consensus pattern (14 bp):
AACCAAACAAAATA
Found at i:80394 original size:26 final size:26
Alignment explanation
Indices: 80365--80446 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
80355 CACCAACTGA
80365 AAGCTTGTTAAATAATCATTGGCTCT
1 AAGCTTGTTAAATAATCATTGGCTCT
* ** **
80391 AAGCTTGATAAATAAAAACCGGCTC-
1 AAGCTTGTTAAATAATCATTGGCTCT
* * *
80416 AAGGCCTATTAAATAATCATTGGCTTT
1 AA-GCTTGTTAAATAATCATTGGCTCT
80443 AAGC
1 AAGC
80447 CTACTAGTTA
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
25 2 0.05
26 37 0.90
27 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (26 bp):
AAGCTTGTTAAATAATCATTGGCTCT
Found at i:80468 original size:52 final size:52
Alignment explanation
Indices: 80347--80513 Score: 183
Period size: 52 Copynumber: 3.2 Consensus size: 52
80337 CAAAGCTTGG
* *
80347 TAGTTAAACACCAACTGAAAGCTTGTTAAATAATCATTGGCTCTAAGCTTGA-
1 TAGTTAAACACCAGCTCAAAGCTTGTTAAATAATCATTGGCTCTAAGCTT-AC
** * * * * * * *
80399 TAAATAAAAACCGGCTCAAGGCCTATTAAATAATCATTGGCTTTAAGCCTAC
1 TAGTTAAACACCAGCTCAAAGCTTGTTAAATAATCATTGGCTCTAAGCTTAC
*** *
80451 TAGTTAAACACCAGCTCAAAGCTTGTTAAATAATCGCCGGCTCTAAGCTTGC
1 TAGTTAAACACCAGCTCAAAGCTTGTTAAATAATCATTGGCTCTAAGCTTAC
80503 TAGTTAAACAC
1 TAGTTAAACAC
80514 TGTATTCATT
Statistics
Matches: 90, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
51 1 0.01
52 89 0.99
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (52 bp):
TAGTTAAACACCAGCTCAAAGCTTGTTAAATAATCATTGGCTCTAAGCTTAC
Found at i:83417 original size:83 final size:83
Alignment explanation
Indices: 83278--83442 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
83268 AAACTTGCTG
*
83278 ATATCACCAATTGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAG
1 ATATCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAG
83343 ATGAGTGA-TCTGAGTACT
66 ATGAGTGAGT-TGAGTACT
83361 ATATCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAG
1 ATATCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAG
83426 ATGAGTGAGTTGAGTAC
66 ATGAGTGAGTTGAGTAC
83443 CCTTTGTGGG
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 79 0.99
84 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (83 bp):
ATATCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAG
ATGAGTGAGTTGAGTACT
Found at i:85713 original size:22 final size:21
Alignment explanation
Indices: 85688--85735 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
85678 CAAATATTGA
*
85688 TTAATAATAGGATAAATTAAGG
1 TTAATAAGAGGATAAATTAA-G
* * *
85710 TTAAAAAGATGATTAATTAAG
1 TTAATAAGAGGATAAATTAAG
85731 TTAAT
1 TTAAT
85736 TATGCAAGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATAAGAGGATAAATTAAG
Found at i:86612 original size:43 final size:42
Alignment explanation
Indices: 86537--86755 Score: 202
Period size: 41 Copynumber: 5.3 Consensus size: 42
86527 TGGTGTATAA
* *
86537 AAAGGAAGACTCATGTCTCGGGTTGA-AGATGAGAAATTGTAT
1 AAAGGAAGACTCATGTCTCGAGATGAGA-ATGAGAAATTGTAT
* *
86579 AAATGGAAGACTCATGTCTCGAAATGAGAATGAG--ATTTTCAT
1 AAA-GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTGT-AT
* * * *
86621 TAAGGAAGACTTATGTCTCGAGATGAGAATGAG-ATTATGAAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAAAT-TGTAT
* * **
86663 -AAGGAAGACTTATGTCTCGAAATGAGAATGAGATTTTG-AT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAAATTGTAT
* *
86703 TAAGGAAGACTCATATCTCGAGATGAGAATGA-AAATATGGT-T
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAAAT-T-GTAT
86745 AAAGGAAGACT
1 AAAGGAAGACT
86756 TATGACTCAA
Statistics
Matches: 149, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
40 4 0.03
41 94 0.63
42 24 0.16
43 26 0.17
44 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAAATTGTAT
Found at i:86640 original size:41 final size:41
Alignment explanation
Indices: 86538--86734 Score: 234
Period size: 41 Copynumber: 4.8 Consensus size: 41
86528 GGTGTATAAA
*** ** *
86538 AAGGAAGACTCATGTCTCGGGTTGA-AGATGAGAAATTGTATA
1 AAGGAAGACTCATGTCTCGAAATGAGA-ATGAGATTTTG-ATT
*
86580 AATGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTCATT
1 AA-GGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATT
* * * *
86622 AAGGAAGACTTATGTCTCGAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATT
*
86663 AAGGAAGACTTATGTCTCGAAATGAGAATGAGATTTTGATT
1 AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATT
* *
86704 AAGGAAGACTCATATCTCGAGATGAGAATGA
1 AAGGAAGACTCATGTCTCGAAATGAGAATGA
86735 AAATATGGTT
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
41 100 0.74
42 6 0.04
43 28 0.21
44 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATT
Found at i:86689 original size:82 final size:83
Alignment explanation
Indices: 86538--86759 Score: 288
Period size: 82 Copynumber: 2.7 Consensus size: 83
86528 GGTGTATAAA
* * * * *
86538 AAGGAAGACTCATGTCTCGGGTTGA-AGATGAGAAAT-TGTATAAATGGAAGACTCATGTCTCGA
1 AAGGAAGACTCATATCTCGAGATGAGA-ATGA-AAATATGAATAAA-GGAAGACTTATGTCTCGA
86601 AATGAGAATGAGATTTTCATT
63 AATGAGAATGAGATTTTCATT
* * * *
86622 AAGGAAGACTTATGTCTCGAGATGAGAATGAGATTATGAAT-AAGGAAGACTTATGTCTCGAAAT
1 AAGGAAGACTCATATCTCGAGATGAGAATGAAAATATGAATAAAGGAAGACTTATGTCTCGAAAT
*
86686 GAGAATGAGATTTTGATT
66 GAGAATGAGATTTTCATT
**
86704 AAGGAAGACTCATATCTCGAGATGAGAATGAAAATATGGTTAAAGGAAGACTTATG
1 AAGGAAGACTCATATCTCGAGATGAGAATGAAAATATGAATAAAGGAAGACTTATG
86760 ACTCAAAAGA
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
82 72 0.60
83 18 0.15
84 30 0.25
85 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (83 bp):
AAGGAAGACTCATATCTCGAGATGAGAATGAAAATATGAATAAAGGAAGACTTATGTCTCGAAAT
GAGAATGAGATTTTCATT
Found at i:92766 original size:6 final size:6
Alignment explanation
Indices: 92755--92809 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
92745 TCAGTCACTT
* * *
92755 GAAAAA GAAAAA TGAGAAAA AAAGAAA GAAAAT GACAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA -GA-AAAA GAA-AAA GAAAAA GAAAAA GAAAAA GAAAAA
92806 GAAA
1 GAAA
92810 TTATGATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 28 0.70
7 8 0.20
8 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:98011 original size:18 final size:19
Alignment explanation
Indices: 97988--98025 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
97978 TAAAATTAAT
97988 TTTTCTAAAATATT-TTTA
1 TTTTCTAAAATATTATTTA
**
98006 TTTTCTCGAATATTATTTA
1 TTTTCTAAAATATTATTTA
98025 T
1 T
98026 CGGTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:99551 original size:610 final size:614
Alignment explanation
Indices: 98375--99606 Score: 1793
Period size: 610 Copynumber: 2.0 Consensus size: 614
98365 CTACATGCAT
* *
98375 CAATATATTATCTAACATTCAACAATTAAATTCATATAACATACGCTTAACTTGTATTTAAAGTA
1 CAATTTATTATCGAACATTCAACAATTAAATTCATATAACATACGCTTAACTTGTATTTAAAGTA
* * * * * *
98440 AACCAAGCGAACTTACTTGACTAAACTGCAGCAGTACACAATATAGTGACTATTTTGTAATTTTC
66 AACCAAGCGAACTTACCTGACTAAACTACAACAATACACAATATAGGGACTATTCTGTAA-TTTC
* * *
98505 TATTTCCTGCGATTATCAGCTCATTCTCAATCAAATAGGGGATCCTAAGATAGCCGAAGCTTCCT
130 TATTTCCTACGATTATCAACTCATTCTCAATCAAATAGGGGAACCTAAGATAGCCGAAGCTTCCT
* *
98570 TCATCTCCAACAATGGTGTTACGGCCATTTGGGAGAAGAAGATTCAAGAGAAGGTCAATTAATTG
195 TCATCTCCAACAATGGTGTTACGGCCATTTGGGAGAAGAAGATTCAAGAGAAGATAAATTAATTG
*
98635 AACATTTTCTTTTAATTTAACCATTAATTACTTAATATACAATTTTAACCCTTACATTATAGCTT
260 AACATTTTCTTTAAATTTAACCATTAATTACTTAATATACAATTTTAACCCTTACATTATAGCTT
* * *
98700 ATAAAATTAATAAATCATGTCCATAAATGTCCAATATATATATATATGGTATAATTTTCATCTAA
325 ATAAAATCAATAAATCATGTCCATAAATGTCCAATATATATATATATGGTAAAATTTCCATCTAA
* * * * *
98765 GGAAGGTTTAATTGCATAATAGGTCCTTTAATTTATTTAAATTTCAATTAAACAGACTTATTTGC
390 GGAAGGTTTAATTGCACAATAAGTCCTTCAATTTATTTAAATTTCAATTAAACAAACTTATTTAC
* * * *
98830 AATTTAACCTTAAACTAATTAGGACTAAATGAATAAATAACTAAAAAGTTAGTGAATGGTAATAA
455 AATTTAACATTAAACTAAATAGGACTAAATGAATAAACAACCAAAAAGTTAGTGAATGGTAATAA
* *
98895 TGTCACCACCGCTTAGACATTTTGACCATTGCTTAATCATCATTTTGGTCTCTTTT-GTATTTTA
520 TGTCACCACCGCTTAGACATTTTGACCATGGCTTAATCAACATTTTGGTC-CTTTTAGTATTTTA
98959 AATCTATAGCAACTAACTTTTACCTATTTTA
584 AATCTATAGCAACTAACTTTTACCTATTTTA
* * *
98990 CAATTTATTATCGAACATTTAACCATTAAATTCATATAACATATGCTTAAAC-TGT-TTTAAAAG
1 CAATTTATTATCGAACATTCAACAATTAAATTCATATAACATACGCTT-AACTTGTATTT-AAAG
* *
99053 TAAACCGAGTGAACTTACCTGACTAAACTACAACAATACACAATATAGGGACTATTCTGTAA-TT
64 TAAACCAAGCGAACTTACCTGACTAAACTACAACAATACACAATATAGGGACTATTCTGTAATTT
* * ** *
99117 -T-TTT-CTATGATTATCAACTCGTTCTTGATCAAATAGGGGAACCTAAGCTAGCCGAAGCTTCC
129 CTATTTCCTACGATTATCAACTCATTCTCAATCAAATAGGGGAACCTAAGATAGCCGAAGCTTCC
* *
99179 TTCTTCTCCAACAATGGTGTTTCGGCCATTTGGGAGAAGAAGATTCAAGAGAAGATAAATTAATT
194 TTCATCTCCAACAATGGTGTTACGGCCATTTGGGAGAAGAAGATTCAAGAGAAGATAAATTAATT
* * * *
99244 TAGCAATTTT-TTTAAATTTAACCATTAATTTACTTACTTTACAATTTTAACCCTTACATTATAG
259 GAAC-ATTTTCTTTAAATTTAACCATTAA-TTACTTAATATACAATTTTAACCCTTACATTATAG
* *
99308 CTTATAAAATCAATAAATCATGTCCTTAAATGTCC-ATATATATGTATATGGTAAAATTTCCATC
322 CTTATAAAATCAATAAATCATGTCCATAAATGTCCAATATATATATATATGGTAAAATTTCCATC
* *
99372 TAATGAAGGTTTAATTGCACAA-ACAGTCCTTCAATTTCTTTAAATTTCAATTAAACAAACTTAT
387 TAAGGAAGGTTTAATTGCACAATA-AGTCCTTCAATTTATTTAAATTTCAATTAAACAAACTTAT
* *
99436 TTACAATTTAACATTAAACTAAATAGGACTAAATGAATAAACAACCCAAAAGTTAGTGGATGGTA
451 TTACAATTTAACATTAAACTAAATAGGACTAAATGAATAAACAACCAAAAAGTTAGTGAATGGTA
* * * *
99501 ATTATGTCACCATCGCTT-GTACTTTTTGACCATGGTTTAATCAACATTTTGGTCCTTTTAGTAT
516 ATAATGTCACCACCGCTTAG-ACATTTTGACCATGGCTTAATCAACATTTTGGTCCTTTTAGTAT
* * * *
99565 TTTAGATCTGTAGCAACTAATTTTTACCTTTTTTA
580 TTTAAATCTATAGCAACTAACTTTTACCTATTTTA
99600 CAATTTA
1 CAATTTA
99607 ATCTTTTTAC
Statistics
Matches: 552, Mismatches: 58, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
609 7 0.01
610 358 0.65
611 74 0.13
612 1 0.00
613 2 0.00
614 3 0.01
615 104 0.19
616 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (614 bp):
CAATTTATTATCGAACATTCAACAATTAAATTCATATAACATACGCTTAACTTGTATTTAAAGTA
AACCAAGCGAACTTACCTGACTAAACTACAACAATACACAATATAGGGACTATTCTGTAATTTCT
ATTTCCTACGATTATCAACTCATTCTCAATCAAATAGGGGAACCTAAGATAGCCGAAGCTTCCTT
CATCTCCAACAATGGTGTTACGGCCATTTGGGAGAAGAAGATTCAAGAGAAGATAAATTAATTGA
ACATTTTCTTTAAATTTAACCATTAATTACTTAATATACAATTTTAACCCTTACATTATAGCTTA
TAAAATCAATAAATCATGTCCATAAATGTCCAATATATATATATATGGTAAAATTTCCATCTAAG
GAAGGTTTAATTGCACAATAAGTCCTTCAATTTATTTAAATTTCAATTAAACAAACTTATTTACA
ATTTAACATTAAACTAAATAGGACTAAATGAATAAACAACCAAAAAGTTAGTGAATGGTAATAAT
GTCACCACCGCTTAGACATTTTGACCATGGCTTAATCAACATTTTGGTCCTTTTAGTATTTTAAA
TCTATAGCAACTAACTTTTACCTATTTTA
Found at i:100461 original size:33 final size:33
Alignment explanation
Indices: 100401--100512 Score: 152
Period size: 34 Copynumber: 3.3 Consensus size: 33
100391 ATAATAAATT
***
100401 AGAATGTCATATTACCAGAAACATATATCATATC
1 AGAATGTCATATTTTTA-AAACATATATCATATC
*
100435 AGAATGTCATATTTTTAAAACATATATCAGATC
1 AGAATGTCATATTTTTAAAACATATATCATATC
* *
100468 AGAATGCCAAATTTTTAAAAACATATATCATATC
1 AGAATGTCATATTTTT-AAAACATATATCATATC
100502 AGAATGTCATA
1 AGAATGTCATA
100513 ATAGATCAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.43
34 39 0.57
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (33 bp):
AGAATGTCATATTTTTAAAACATATATCATATC
Found at i:119748 original size:21 final size:21
Alignment explanation
Indices: 119724--119768 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
119714 AAGAACTGTG
*
119724 ATAGATGTCAAAGGACTGGAA
1 ATAGATGTCAAAGGACTAGAA
119745 ATAGATGTCAAAGGACTAGAA
1 ATAGATGTCAAAGGACTAGAA
119766 ATA
1 ATA
119769 TATCAAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (21 bp):
ATAGATGTCAAAGGACTAGAA
Found at i:121137 original size:21 final size:21
Alignment explanation
Indices: 121111--121161 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
121101 TAGTGTAGAA
121111 TTCTACCGATACCTA-TGATAG-
1 TTCTACCGATACC-AGTGA-AGC
121132 TTCTACCGATACCAGTGAAGC
1 TTCTACCGATACCAGTGAAGC
121153 TTCTACCGA
1 TTCTACCGA
121162 GACAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (21 bp):
TTCTACCGATACCAGTGAAGC
Found at i:122010 original size:52 final size:52
Alignment explanation
Indices: 121922--122211 Score: 422
Period size: 52 Copynumber: 5.6 Consensus size: 52
121912 TTCTCATTTA
* * * * * **
121922 ATACTCATGATGACGCATTGTCATTGGACCTCATAATCTATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* *
121974 ATACTCATGATGACACATAGTCATCGGACTTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* *
122026 ATACTCACGTTGACACATAGTCATCGAACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* *
122078 ATACTCACGATGACACATAGTCATCGAACCTTATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
* *
122130 ATACTCACGATGACACATAGTTAACGGACCTTATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
*
122182 ATACTCACGATGACAC--AGTTATCGGACCTT
1 ATACTCACGATGACACATAGTCATCGGACCTT
122212 TTGCATTTAT
Statistics
Matches: 220, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
50 13 0.06
52 207 0.94
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCAT
Found at i:129001 original size:20 final size:21
Alignment explanation
Indices: 128953--129001 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
128943 TTTTAAATTT
128953 TAAATTTATATTTATTCAACAA
1 TAAATTTATA-TTATTCAACAA
* *
128975 TATATTTATA-TATTCAACAC
1 TAAATTTATATTATTCAACAA
128995 TAAATTT
1 TAAATTT
129002 TTGGTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.62
22 9 0.38
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATTTATATTATTCAACAA
Found at i:135335 original size:9 final size:9
Alignment explanation
Indices: 135317--135347 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
135307 ATCTTAAATT
*
135317 ATTTTTATA
1 ATTTTAATA
135326 ATTTTAATA
1 ATTTTAATA
135335 ATTTTAATA
1 ATTTTAATA
135344 ATTT
1 ATTT
135348 GTATTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTAATA
Found at i:136523 original size:200 final size:200
Alignment explanation
Indices: 136180--136542 Score: 471
Period size: 200 Copynumber: 1.8 Consensus size: 200
136170 AAATTTGTCC
* * * * ** *
136180 TGTTTTGGTACTGATGTCGCTGCATAAGTAATGTTAGATTGAGTCTAGGATTGTTGCCGCATCTG
1 TGTTTTGGTACTAATGTCACTACATAAGTAATGTTAGATTGAGTCCAGGATTGTCACCGCATCTA
* * ** * *
136245 ACAGCTGTCCGGATAAGAACAAAAAGGTGTGAGCTGTCCAGTCTGGTATAACCAACTTGTACGAC
66 ACAGCTATCCGGATAAGAACAAAAAAGCATGAGCTGTCCAGTCTGGTATAACCAACTGGTACAAC
* *
136310 CAGCAACAGCTTGATTTTG-ATGAAAGGACACCTGCACAAGGACAACTTGTACTTACCCTTAATT
131 CAGCAACAGCTTGATTCTGCA-GAAAAGACACCTGCACAAGGACAACTTGTACTTACCCTTAATT
136374 TTTTAA
195 TTTTAA
* * *
136380 TGTTTTGGTGCTAATGTCACTACATAAGTAATTTTAGATTGCA-TCCAGGATTGTCACTGCATCT
1 TGTTTTGGTACTAATGTCACTACATAAGTAATGTTAGATTG-AGTCCAGGATTGTCACCGCATCT
* * *
136444 AATAGTTATCCGGATAAGAACAAAAAAGCATGAGCTGTCTAGTCTGGTATAACCAACTGGTACAA
65 AACAGCTATCCGGATAAGAACAAAAAAGCATGAGCTGTCCAGTCTGGTATAACCAACTGGTACAA
* *
136509 CCCG-AGATAGCTTGATTCTGCAGAAAAGACACCT
130 CCAGCA-ACAGCTTGATTCTGCAGAAAAGACACCT
136543 ATATAATTTG
Statistics
Matches: 137, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
199 1 0.01
200 134 0.98
201 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (200 bp):
TGTTTTGGTACTAATGTCACTACATAAGTAATGTTAGATTGAGTCCAGGATTGTCACCGCATCTA
ACAGCTATCCGGATAAGAACAAAAAAGCATGAGCTGTCCAGTCTGGTATAACCAACTGGTACAAC
CAGCAACAGCTTGATTCTGCAGAAAAGACACCTGCACAAGGACAACTTGTACTTACCCTTAATTT
TTTAA
Found at i:139624 original size:24 final size:24
Alignment explanation
Indices: 139585--139713 Score: 170
Period size: 24 Copynumber: 5.4 Consensus size: 24
139575 TTAAACTCTA
*
139585 TCTGGGATCATAAGAGCTAACCAT
1 TCTGGGCTCATAAGAGCTAACCAT
**
139609 TCTATGCTCATAAGAGCTAACCAT
1 TCTGGGCTCATAAGAGCTAACCAT
* ** *
139633 TTTGGGCTTGTAAGAACTAACCAT
1 TCTGGGCTCATAAGAGCTAACCAT
*
139657 TTTGGGCT-AGTAAGAGCTAACCAT
1 TCTGGGCTCA-TAAGAGCTAACCAT
139681 TCTGGGCTCATAAGAGCTAACCAT
1 TCTGGGCTCATAAGAGCTAACCAT
139705 TCTGGGCTC
1 TCTGGGCTC
139714 GTAAAGGCTA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
24 90 0.99
25 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
TCTGGGCTCATAAGAGCTAACCAT
Found at i:139723 original size:24 final size:24
Alignment explanation
Indices: 139585--139739 Score: 168
Period size: 24 Copynumber: 6.5 Consensus size: 24
139575 TTAAACTCTA
* *
139585 TCTGGGATCATAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
** *
139609 TCTATGCTCATAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
* * *
139633 TTTGGGCTTGTAAGAACTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
* *
139657 TTTGGGCTAGTAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
*
139681 TCTGGGCTCATAAGAGCTAACCAT
1 TCTGGGCTCGTAAGAGCTAACCAT
**
139705 TCTGGGCTCGTAA-AGGCTAATTAT
1 TCTGGGCTCGTAAGA-GCTAACCAT
*
139729 TCTTGGCTCGT
1 TCTGGGCTCGT
139740 GTGGGCTAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
23 1 0.01
24 111 0.99
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAACCAT
Found at i:144254 original size:24 final size:24
Alignment explanation
Indices: 144071--144245 Score: 273
Period size: 24 Copynumber: 7.4 Consensus size: 24
144061 AAACTCTGTT
144071 TGGGCTCGTAAGAGCTAACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
* * *
144095 TAGGCTCGTAAGAGCTAATCATTT
1 TGGGCTCGTAAGAGCTAACCATTC
*
144119 TGAGCTCGTAAGAGCTAA-CATTC
1 TGGGCTCGTAAGAGCTAACCATTC
144142 TGGGCTCGTAAGAGCTAA-CATTC
1 TGGGCTCGTAAGAGCTAACCATTC
*
144165 TGGGCTCGTAAGAGCTAACCATTT
1 TGGGCTCGTAAGAGCTAACCATTC
*
144189 TGGGCTCGTAAGAGCTAATCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
*
144213 TAGGCTCGTAAGAGCTAACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
144237 TGGGCTCGT
1 TGGGCTCGT
144246 GTGGGCTAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
23 44 0.32
24 93 0.68
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGGCTCGTAAGAGCTAACCATTC
Found at i:146707 original size:9 final size:9
Alignment explanation
Indices: 146693--146717 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
146683 TGCTTATGCA
146693 TTGAGGCAG
1 TTGAGGCAG
146702 TTGAGGCAG
1 TTGAGGCAG
146711 TTGAGGC
1 TTGAGGC
146718 CGCATGAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.44, T:0.24
Consensus pattern (9 bp):
TTGAGGCAG
Found at i:154757 original size:18 final size:18
Alignment explanation
Indices: 154734--154769 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
154724 CTCCCTAAAC
154734 CCAGCTTAGAAGATATTG
1 CCAGCTTAGAAGATATTG
154752 CCAGCTTAGAAGATATTG
1 CCAGCTTAGAAGATATTG
154770 TCAAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
CCAGCTTAGAAGATATTG
Found at i:159758 original size:30 final size:30
Alignment explanation
Indices: 159653--159760 Score: 78
Period size: 31 Copynumber: 3.4 Consensus size: 30
159643 GTAATGATTA
* *
159653 TATTTAAATATTTAAAATATAGTTTATA-TAAT
1 TATTAAAATATTT-AAATA-A-TTAATATTAAT
*
159685 CTAATTAAAATTTTTAAATAATTAATATTAAT
1 -T-ATTAAAATATTTAAATAATTAATATTAAT
*
159717 TACTTAGAAATATTT-AA-AATTAATATTTCAT
1 TA-TTA-AAATATTTAAATAATTAATA-TTAAT
159748 ATATTAAAATATT
1 -TATTAAAATATT
159761 AACAATAAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
30 16 0.25
31 18 0.28
32 14 0.22
33 6 0.09
34 10 0.16
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
TATTAAAATATTTAAATAATTAATATTAAT
Found at i:161528 original size:23 final size:24
Alignment explanation
Indices: 161489--161549 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
161479 TGACACTATT
* * *
161489 ACTTTTCATCGTAGTGCCACCGTC
1 ACTTTGCACCGTAGTGCCACCATC
161513 AC-TTGCACCGTAGTGCCACCATC
1 ACTTTGCACCGTAGTGCCACCATC
*
161536 ACTTTGTACCGTAG
1 ACTTTGCACCGTAG
161550 AGCCTTTGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.30
Consensus pattern (24 bp):
ACTTTGCACCGTAGTGCCACCATC
Done.