Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007129.1 Kokia drynarioides strain JFW-HI SEQ_121741, 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: 10874
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Found at i:87 original size:45 final size:45
Alignment explanation
Indices: 1--283 Score: 302
Period size: 45 Copynumber: 6.2 Consensus size: 45
* * * * *
1 AGGGACAGACTGAAGCCACCATCCAGTCTTTTACCCTTAATCTAG
1 AGGGGCAGATTGAAACCACCATCCAATCTTTTACCCCTAATCTAG
* * *
46 AGGGGTAGATT-AAAACAGGCATCCAATCTTTTACCCCTAATCTAG
1 AGGGGCAGATTGAAACCA-CCATCCAATCTTTTACCCCTAATCTAG
* *
91 AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCTAG
1 AGGGGCAGATTGAAACCACCATCCAATCTTTTACCCCTAATCTAG
* * * *
136 AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAA
1 AGGGGCAGATTGAAACCACCATCCAATCTTTTACCCCTAATCTAG
* * * * * *
181 AGGGGCAAATTGAAGCTATCAT-CAAGTCTTTTACCCTTAATGTAG
1 AGGGGCAGATTGAAACCACCATCCAA-TCTTTTACCCCTAATCTAG
**
226 AGGGGCAGATTGAAGTCACCAAATCCAATCTTTTACCCCTAAATCTA-
1 AGGGGCAGATTGAAACCACC--ATCCAATCTTTTACCCCT-AATCTAG
273 AGGGGCAGATT
1 AGGGGCAGATT
284 AAAGTTACAA
Statistics
Matches: 202, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
44 7 0.03
45 159 0.79
46 4 0.02
47 24 0.12
48 8 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (45 bp):
AGGGGCAGATTGAAACCACCATCCAATCTTTTACCCCTAATCTAG
Found at i:159 original size:90 final size:89
Alignment explanation
Indices: 1--283 Score: 345
Period size: 90 Copynumber: 3.1 Consensus size: 89
* * * * *
1 AGGGACAGACTGAAGCCACCATCCAGTCTTTTACCCTTAATCTAGAGGGGTAGATT-AAAACAGG
1 AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCTTAATCTAGAGGGGCAGATTGAAGACA-C
65 CATCCAATCTTTTACCCCTAATCTA
65 CATCCAATCTTTTACCCCTAATCTA
* * *
90 GAGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCTAGAGGGACAGATTGAAGCCAC
1 -AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCTTAATCTAGAGGGGCAGATTGAAGACAC
*
155 CATCCAATCTTTTACCCCTAATCCAA
65 CATCCAATCTTTTACCCCTAAT-CTA
* * * * * *
181 AGGGGCAAATTGAAGCTATCAT-CAAGTCTTTTACCCTTAATGTAGAGGGGCAGATTGAAGTCAC
1 AGGGACAGATTGAAGCCACCATCCAA-TCTTTTACCCTTAATCTAGAGGGGCAGATTGAAGACAC
245 CAAATCCAATCTTTTACCCCTAAATCTA
65 C--ATCCAATCTTTTACCCCT-AATCTA
*
273 AGGGGCAGATT
1 AGGGACAGATT
284 AAAGTTACAA
Statistics
Matches: 168, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
89 3 0.02
90 126 0.75
91 6 0.04
92 30 0.18
93 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (89 bp):
AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCTTAATCTAGAGGGGCAGATTGAAGACACC
ATCCAATCTTTTACCCCTAATCTA
Found at i:246 original size:135 final size:136
Alignment explanation
Indices: 1--283 Score: 367
Period size: 135 Copynumber: 2.1 Consensus size: 136
* * * * * * *
1 AGGGACAGACTGAAGCCACCATCCAGTCTTTTACCCTTAATCTAGAGGGGTAGATTAAAACAGGC
1 AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAAATTAAAACAGGC
66 ATCCAATCTTTTACCCCTAATCTAGAGGGACAGATTGAAGCCACC-ATCCAATCTTTTACCCCT-
66 ATCCAATCTTTTACCCCTAATCTAGAGGGACAGATTGAAGCCACCAATCCAATCTTTTACCCCTA
129 AATCTA
131 AATCTA
* *
135 GAGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAAATTGAAGCTA-
1 -AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAAATTAAAAC-AG
* * * * *
199 TCAT-CAAGTCTTTTACCCTTAATGTAGAGGGGCAGATTGAAGTCACCAAATCCAATCTTTTACC
64 GCATCCAA-TCTTTTACCCCTAATCTAGAGGGACAGATTGAAGCCACC-AATCCAATCTTTTACC
263 CCTAAATCTA
127 CCTAAATCTA
*
273 AGGGGCAGATT
1 AGGGACAGATT
284 AAAGTTACAA
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
134 3 0.02
135 90 0.70
136 1 0.01
137 28 0.22
138 6 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AGGGACAGATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAAATTAAAACAGGC
ATCCAATCTTTTACCCCTAATCTAGAGGGACAGATTGAAGCCACCAATCCAATCTTTTACCCCTA
AATCTA
Found at i:778 original size:20 final size:21
Alignment explanation
Indices: 755--793 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
745 AAAAATTGAA
*
755 TGTAA-AAGGACACGAAATGT
1 TGTAAGAAGCACACGAAATGT
*
775 TGTAAGAAGCATACGAAAT
1 TGTAAGAAGCACACGAAAT
794 TTCGAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (21 bp):
TGTAAGAAGCACACGAAATGT
Found at i:4736 original size:896 final size:894
Alignment explanation
Indices: 2647--6178 Score: 5467
Period size: 896 Copynumber: 4.0 Consensus size: 894
2637 TTTTGATTTC
* * * * *
2647 AAAGACTAAAATTTTTGTTTAGAGGATTTTAATATTTAGAAAGAGATCTAATCACACCTATTTTT
1 AAAGACTAAAATTTTTGTTTAGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTATTTTT
**** *
2712 AAAAGATTGGTGGCGACTCCATTTT--TTAAAAAAAATATAAATCGAGATTTTTTTTTCAAACAA
66 AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTCAAA-AA
* * *
2775 AAGGTTCCGAAACTAGTCAACCACACAACAGAGCACTCCCAAATCCTACATACAAAGAAAAATCA
130 AAGGTTTCGAAACTAATCAACCACACAACAGAGCACTCCCAAATCCTACATACGAAGAAAAATCA
*
2840 TATCAATCAACAACCACAAGTTAAACTAATAAGCAACTTCGGTACTTCCTCTTTACCAAAAATAG
195 TATCAATCAACAACCACAAGTTAAACTAATAATCAACTTCGGTACTTCCTCTTTACCAAAAATAG
* *
2905 ACCCCAAAACCTACATTCAAGTACTTACCCCCCAAAAAAAGCCATTCAAAGCACTTAATATGCT-
260 ACCCCAAAACCTACATTCAAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAATTTGCTA
* *
2969 GGAAATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGCAAAACCATCAATCTCGAAACCC
325 GG-AATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGAAAAACCATCAATCTCGAAATCC
3034 ATAACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAA
389 ATAACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAA
* *
3099 TAATACTTACATCGAATTACTTATGTTCAAAACTAATAATACAACAAA-ACACTCGTATGAATGA
454 TAATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAA-AAACACACTCGTATGAATGA
*
3163 TGGACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGC
518 TGAACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGC
*
3228 AAGAAGGAAGGAAAAGGAAAAAGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGG
583 -A-AA--AAGG-AAA-GAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGG
*
3293 GAAGGAGAGAAATTAGGAGAATTTTACAATTTTTTTTTAAAATAATAAGAATTAAAATCAATATA
642 GAAGGAGAGAAATTAGGAGAATTTTACAA-TTTTTTTTAAAATAATAAGAATTAAAATCAAGATA
3358 TTCTAATAATATCCTAACTCACTAGA---TTTTTGTTAGAATTCATATTGAACTCAAATTCTAAC
706 TTCTAATAATATCCTAACTCACTAGATTTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAAC
* * * * * *
3420 AAATAGTAGGAAAAAAAAAATATTTCACATTTGCACATAACGAGATTCAACCACAAGCCCTAAGG
771 AAATAGCAGGAAATAAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGG
* *
3485 GCAAGTTGAAGCCTTACCATTGAACCAGTAACTGACTCCCGAACTTGTTTTATGGTTTC
836 GCAAGTTGAAGCCTTACCATTGAACCAGTAATTGACTCCCGAACTTGTTTTATGGTTTG
* *
3544 AAAGACTAAAATTTTTGTTTGGAGGATTTTAAAATTTACAAGGTGATCCAATCACACTTATTTTT
1 AAAGACTAAAATTTTTGTTTAGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTATTTTT
* * * * *
3609 AAAAGATTGATGGTGACTCTATTTTTATTTTCCAAAACATAAATCGAGACTTTTTTTTCAAACAA
66 AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTCAAA-AA
* *
3674 ATGGTTTCGAAACTAATCAACCACACAACAGAGCACACCCAAATCCTACATACGAAGAAAAATCA
130 AAGGTTTCGAAACTAATCAACCACACAACAGAGCACTCCCAAATCCTACATACGAAGAAAAATCA
* *
3739 TATCAATCAACAATCACAAGTTAAACTAATAATCAACTTCGATACTTCCTCTTTACCAAAAATAG
195 TATCAATCAACAACCACAAGTTAAACTAATAATCAACTTCGGTACTTCCTCTTTACCAAAAATAG
***
3804 ACCCCAAAA-C-ACATTCAAGTACTTA-CCTTGAAAAAAAGCCATTCAAAGCACTTAATTTGCTA
260 ACCCCAAAACCTACATTCAAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAATTTGCTA
* * *
3866 GGAATTTGTCTAACATCACACATTCCTCTCCTATTAGAAAGAAAAATCATCAATCTCGAAATCCG
325 GGAATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGAAAAACCATCAATCTCGAAATCCA
* * * *
3931 TAACGTACTGAAATGTAAACTAAGTATCAATACAGCTCAAACCTTTACCATCGAAACAAAACAAT
390 TAACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAAT
* * * * * *
3996 AATACTTGCATTGAATTACTTACGTTCACAACAAATAATGCAAAAACGCACTTGTATGAATGATG
455 AATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAAAAACACACTCGTATGAATGATG
4061 AACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGCAA
520 AACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGCAA
4126 AAAGGAAAGAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGAGA
585 AAAGGAAAGAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGAGA
* *
4191 GAAATTAGGATAATTTTACAATTTTTTTTAAAATAATAAGAATTAAAATCAAGATATTTTAATAA
650 GAAATTAGGAGAATTTTACAATTTTTTTTAAAATAATAAGAATTAAAATCAAGATATTCTAATAA
4256 TATCCTAACTCACTAGA-TTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAACAAATAGCAG
715 TATCCTAACTCACTAGATTTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAACAAATAGCAG
* *
4320 GAAATAAAAAAATATTTCACATTTGCGCATAATGGGATTCAAACACAAGCCCTAGGGGCAAGTTA
780 GAAAT-AAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGGGCAAGTTG
*
4385 AAGCCTTACCATTGAACCAGTAATTGACTCCCAAACTTGTTTTATGGTTTG
844 AAGCCTTACCATTGAACCAGTAATTGACTCCCGAACTTGTTTTATGGTTTG
* *
4436 AAAGACTAAAATTTTTGTTTGGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTGTTTTT
1 AAAGACTAAAATTTTTGTTTAGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTATTTTT
* *
4501 AAAAGATTGGTGACGACTCCATTTTCATTTTCCAAAATATAAATCGAGATTTTTTTTTCAAAAAA
66 AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTC-AAAAA
* * *
4566 AAGGGTTTCGAAACTGATCAACCGCACAACAGAGCACTCCCAAATCCTACATATGAAGAAAAATC
130 AA-GGTTTCGAAACTAATCAACCACACAACAGAGCACTCCCAAATCCTACATACGAAGAAAAATC
* *
4631 ATATCAATCAACAACCATAAGTTAAACTAATAATCAACTTTGGTACTTCCTCTTTACCAAAAATA
194 ATATCAATCAACAACCACAAGTTAAACTAATAATCAACTTCGGTACTTCCTCTTTACCAAAAATA
* * *
4696 GACCCCAAAACCTGCATTCGAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAAATTGCT
259 GACCCCAAAACCTACATTCAAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAATTTGCT
* * *
4761 GGGAGTTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGTAAAACCATCAATCTCGAAATCC
324 AGGAATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGAAAAACCATCAATCTCGAAATCC
* *
4826 ATAACGTACTGAAATGTAAACTAAATACCAATACAACTAAAACCTTTACTACCGAAACAAAACAA
389 ATAACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAA
* *
4891 TAATACTTACATCGAATTACGTACGTTCAAAACTAATAATGCAACAAA-ACGCTCGTATGAATGA
454 TAATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAA-AAACACACTCGTATGAATGA
* *
4955 TGGACAAAGAATCGATAGCAACATGGGCAAGCAAAGAACAATGAAAAATCAAG-AG----G-A-C
518 TGAACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGC
***** *
5013 GTTTTGG---G--AAGG----AGAAAATGTTACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGA
583 AAAAAGGAAAGAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGA
*
5069 GAGAAATTAGGAGAATTTTACAATTTTTTTAAAAATAATAAGAATTAAAATCAAGATATTCTAAT
648 GAGAAATTAGGAGAATTTTACAATTTTTTTTAAAATAATAAGAATTAAAATCAAGATATTCTAAT
*
5134 AATATCCTAACTCACTAGATTTTTTTTTTGTTAGAATGCATATTGAACTCAAATTCTAACAAATA
713 AATATCCTAACTCACTAGA--TTTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAACAAATA
*
5199 GCAGGAGATAAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGGGCAAG
776 GCAGGAAATAAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGGGCAAG
* * *
5264 TCGAAGCCTTACCATTGAACCAGT-ATCCGACTCTCGAACTTGTTTTATGGTTTG
841 TTGAAGCCTTACCATTGAACCAGTAAT-TGACTCCCGAACTTGTTTTATGGTTTG
* *
5318 AAAGACTAAAATTTTTGTTCAGAGGATTTTAAAATTTACAAGGTGGTCCAATCACACCTATTTTT
1 AAAGACTAAAATTTTTGTTTAGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTATTTTT
5383 AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTCAAAAAA
66 AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTCAAAAAA
* * *
5448 TCGGTTTTGAAACTAATCAACCACACAACATAGCACTCCCAAATCCTACATACGAAGAAAAATCA
131 -AGGTTTCGAAACTAATCAACCACACAACAGAGCACTCCCAAATCCTACATACGAAGAAAAATCA
* * *
5513 TATCAATCAACAACCATAAGTTAAACTAATAATCAACTTTGGTACTTCTTCTTTACCAAAAATAG
195 TATCAATCAACAACCACAAGTTAAACTAATAATCAACTTCGGTACTTCCTCTTTACCAAAAATAG
* * ** *
5578 ACCCCAAAACTTACATTCGAGTACTTACCCTGAAAAAAAAGCCCTTCAAAGCACTTAATTTGCTA
260 ACCCCAAAACCTACATTCAAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAATTTGCTA
* * *
5643 GGAATTTGTCTAACATCACACATTCCTCTCCTATTAGAAAGAAAAATCATCAATCTCAAAATCCA
325 GGAATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGAAAAACCATCAATCTCGAAATCCA
* * * * *
5708 TAACGTACTGAAATGTAAACTAAGTATCAATACAGCTAAAACCTTTACCATCAAAACAAAAGAAT
390 TAACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAAT
*
5773 AATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAATAACACACTCGTATGAATGATG
455 AATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAAAAACACACTCGTATGAATGATG
*
5838 AACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGCAC
520 AACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGCAA
* * *
5903 GAAGGAAGGAAAAGGAAAAAGGAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGAGA
585 AAAGGAAAGAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGAGA
* *
5968 GAAATTAGGGGAATTTTACAATTTTTTTT-AAATAATAAGACTTAAAATCAAGATATTCTAATAA
650 GAAATTAGGAGAATTTTACAATTTTTTTTAAAATAATAAGAATTAAAATCAAGATATTCTAATAA
* * *
6032 TA----AACTCACTAGATTTTTTTTGTTAGAATTCATACTGAACTCAACTTCTAACAAATAGCAA
715 TATCCTAACTCACTAGATTTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAACAAATAGCAG
* ** *
6093 GAAATAAAAAATATTTCACATTTGCGCATAACGGGATTCAGACGTAACCCCTAGGGGCAAGTTGA
780 GAAATAAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGGGCAAGTTGA
*
6158 GGCCTTACCATTGAACCAGTA
845 AGCCTTACCATTGAACCAGTA
6179 GGGTCATCCT
Statistics
Matches: 2417, Mismatches: 182, Indels: 78
0.90 0.07 0.03
Matches are distributed among these distances:
880 126 0.05
881 414 0.17
882 221 0.09
883 50 0.02
884 4 0.00
886 2 0.00
887 1 0.00
888 3 0.00
889 62 0.03
890 199 0.08
891 53 0.02
892 234 0.10
893 136 0.06
894 3 0.00
895 19 0.01
896 555 0.23
897 171 0.07
898 1 0.00
899 163 0.07
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.27
Consensus pattern (894 bp):
AAAGACTAAAATTTTTGTTTAGAGGATTTTAAAATTTACAAGGTGATCCAATCACACCTATTTTT
AAAAGATTGGTGGCGACTCCATTTTCATTTTCCAAAATATAAATCGAGACTTTTTTTTCAAAAAA
AGGTTTCGAAACTAATCAACCACACAACAGAGCACTCCCAAATCCTACATACGAAGAAAAATCAT
ATCAATCAACAACCACAAGTTAAACTAATAATCAACTTCGGTACTTCCTCTTTACCAAAAATAGA
CCCCAAAACCTACATTCAAGTACTTACCCCCAAAAAAAAGCCATTCAAAGCACTTAATTTGCTAG
GAATTTGTCTAAAATCACACATTCCTCTCCTATTAGAAAGAAAAACCATCAATCTCGAAATCCAT
AACGTACTGAAATGTAAACTAAGTACCAATACAACTAAAACCTTTACCACCGAAACAAAACAATA
ATACTTACATCGAATTACTTACGTTCAAAACTAATAATGCAAAAACACACTCGTATGAATGATGA
ACAAAGAATCGATAGCAAGATGGGCAAGCAAAGAACAATGAAAAATCAAGAAGAAAAGAAGCAAA
AAGGAAAGAAAAGGAAAAAGAAAATGTGACAAGAGGGGGAGTAGTGGACGTTTTGGGAAGGAGAG
AAATTAGGAGAATTTTACAATTTTTTTTAAAATAATAAGAATTAAAATCAAGATATTCTAATAAT
ATCCTAACTCACTAGATTTTTTTTGTTAGAATTCATATTGAACTCAAATTCTAACAAATAGCAGG
AAATAAAAAATATTTCACATTTGCGCATAACGGGATTCAAACACAAGCCCTAGGGGCAAGTTGAA
GCCTTACCATTGAACCAGTAATTGACTCCCGAACTTGTTTTATGGTTTG
Found at i:10794 original size:17 final size:17
Alignment explanation
Indices: 10774--10820 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
10764 GACAATGTAG
10774 ATGCAGCGACAATAAAA
1 ATGCAGCGACAATAAAA
*
10791 ATGCAGTGACAATAAAA
1 ATGCAGCGACAATAAAA
*
10808 ATGCAGGGACAAT
1 ATGCAGCGACAAT
10821 TATACTACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (17 bp):
ATGCAGCGACAATAAAA
Found at i:10812 original size:34 final size:34
Alignment explanation
Indices: 10755--10820 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
10745 ATATATATGG
** *
10755 AAATGCAATGACAATGTAGATGCAGCGACAATAA
1 AAATGCAATGACAATAAAAATGCAGCGACAATAA
* *
10789 AAATGCAGTGACAATAAAAATGCAGGGACAAT
1 AAATGCAATGACAATAAAAATGCAGCGACAAT
10821 TATACTACAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (34 bp):
AAATGCAATGACAATAAAAATGCAGCGACAATAA
Done.