Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000785.1 Hibiscus syriacus cultivar Beakdansim tig00001523_pilon, 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: 195188
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 2 of 2
Found at i:123227 original size:12 final size:12
Alignment explanation
Indices: 123174--123251 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
123164 AGCTGAAGGA
123174 CTGCAATAA-TG
1 CTGCAATAAGTG
*
123185 CAT-CAATAAGGG
1 C-TGCAATAAGTG
*
123197 CTGAAATAA-TG
1 CTGCAATAAGTG
*
123208 -TAGCAATAAGGG
1 CT-GCAATAAGTG
123220 CTGCAATAA-TG
1 CTGCAATAAGTG
*
123231 CAGCAATAAGTG
1 CTGCAATAAGTG
123243 CTGCAATAA
1 CTGCAATAA
123252 TGCAGCTGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
10 1 0.02
11 24 0.46
12 26 0.50
13 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (12 bp):
CTGCAATAAGTG
Found at i:123442 original size:29 final size:28
Alignment explanation
Indices: 123410--123480 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
123400 TCGCCGGGCA
123410 TGCATGGCGACCTACAAGGTCGCTGGGAG
1 TGCATGGCGACCTACAA-GTCGCTGGGAG
**
123439 TGCATGGCGACCTTGTAAGTCGCTGGGAG
1 TGCATGGCGACC-TACAAGTCGCTGGGAG
123468 TGCATGGCGACCT
1 TGCATGGCGACCT
123481 GTGTTGGGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 1 0.03
29 35 0.90
30 3 0.08
ACGTcount: A:0.18, C:0.24, G:0.37, T:0.21
Consensus pattern (28 bp):
TGCATGGCGACCTACAAGTCGCTGGGAG
Found at i:124329 original size:21 final size:23
Alignment explanation
Indices: 124286--124330 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
124276 AAAAAATAAA
124286 TAATTAAAACAATTAAATTTAAT
1 TAATTAAAACAATTAAATTTAAT
*
124309 TAATTAAAA-AA-TAATTTTAAT
1 TAATTAAAACAATTAAATTTAAT
124330 T
1 T
124331 TTCTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTAAAACAATTAAATTTAAT
Found at i:131531 original size:262 final size:263
Alignment explanation
Indices: 130734--132963 Score: 2575
Period size: 262 Copynumber: 8.5 Consensus size: 263
130724 ATTGTTGGGA
* * * * * * *
130734 ATACTTATTCATAGAACTTTGTGTTCTTAACTCATTTTATTATCGTGAGGAACTCCAAGGCTTCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * * *
130799 TCGACTAAACCTTTCATAGTATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * ** * ** * * * *
130864 GATTGGAACTTATTTTATTAGGGGACCATGATATTCCCGACGTAATCTACTTTATTAATACAATA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * * * *
130929 TTTAACATCACATGTC-CAACTTATTTCATTTAGAACCGTGATATTATTGGGAGTAACCATATCT
196 TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
130993 ATT
261 ATT
* *
130996 ATA-CTATTCGTAAAATTTTGTGCTCTTAACTTA-TTTATTAT--TGCGGGAACTCCAAGGCTCT
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTG-GGGAACTCCAAGGCTCC
** * * *
131057 ATCGGCTAAACCTTTCATAATATTTCAACCGCAATAACCTTTATTATTAAAAATAATAAGATTCT
65 ATCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCC
* * * * *
131122 TGATTGCAATATGCTTTATTAGGGGGCCATGATATT-TCAGACGCAATCTACTATATTAATACAA
130 AGATTGCAACATGCTTTATTAGGGGGCCATGATATTCT-GGGCGCAATCTACTCTATTAATACAA
* * * * * * *
131186 CATTTAACATTACAAATCGCAACATATTTAATTTAGAATCATGATATTATTGAGCGCAATCGTAT
194 CATTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTAT
*
131251 CTCTT
259 CTATT
* * * * * * **
131256 ATACATGTTCGTAATACTTTGTGCTTTTAACATATTTTGTTATCGTGGGGAACTCCAACACTCCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * * ** * *
131321 TCGGCTAAACCTTTCATAAAATTTCAGGTGTAATCATATTTCTTATTAAAAATAATAATATTCGA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * *
131386 GATTGCAACATGCTTTATTA-GGGGCCATGATATTCTGGGCACAATATACTCTATTACTACAACA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * *
131450 TTTAAAATTACAAGTCGCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCT
196 TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
131515 ATT
261 ATT
* * * *
131518 ATACCTATTCGTAAAACTTTGTGCTCTTAGCTTATTTTGTTATCGTGGGGAACTCTAATGCTCCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * * *
131583 TCGACTAAAACTTTCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * * * * *
131648 AATTGCAACATACTTTATTAGGGGGTCATGATCTTCCGGGCGTAATCTACTC---TAATACAACA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * *
131710 TTTAACATTACAAG-CAACAACTTATTTCATTTAGAACCGTGATATTATTGAGCGCAAATC-TAT
196 TTTAACATTACAAGTC-GCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGC-AACCGTAT
131773 CTATT
259 CTATT
* * * * * * *
131778 ATACCTGTTCATAATACTTTGTG--CTTAACTTATTTTGTTAGCAT-GGGAAATCCAAGGCTCCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* *
131840 TCGACTAAACCTTTCATAATATTTCATGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * * **
131905 GATTGCAACATGCTTTATTA-GCGGTCATGATATTCTAGGCGCAATCTACTCTATTGCTACAACA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * *
131969 TTTAAAATTACAAGTCGCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCT
196 TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
132034 ATT
261 ATT
* * *
132037 ATACCTATTCGTAAAACTTTGTGCTCTTAGCTTATTTTGTTATCGTGGGGAACTCCAATGCTCCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * *
132102 TCGACTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * * * *
132167 AATTGCAACATACTTTATTAGGGGGTCATGATCTTCCGGGCGCAATCTACTCTATTAATACAACA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * * * * * *
132232 TTTAACATTAGAAGTAGTAACTTATTTAATTTGGAACCGTGATATTATTGAGC-CAACCATATCT
196 TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
*
132296 TTT
261 ATT
* * * *
132299 ATACCTA-TCATAATATTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * * *
132363 TCAGCTAAATCTTTCATAATATTTCAGGCTCAATCACCTTTCTTTTTAAAAATAATAAGATTCCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* * * * ** *
132428 AATTGCAATATGGTTTATTAGTGGG-CATGATATTCTGGGTACAATCTACTCTATTAATAAAACA
131 GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
* * ** * ** * *
132492 ATTAACATTACAAGTCACAACTTATTTTTTTTAGAACCGTAATATTATTTTGTGCAACCGTATAT
196 TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
*
132557 TTT
261 ATT
** * *
132560 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCACGGGGAACTCCAACGCTTCA
1 ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
* * * * * *
132625 TCGGCTAAATCTTTCATAATATTTTAGGCACAATCATCTTTTTTATTAAAAATAATAAGATTTCA
66 TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
* *
132690 TATTGCAACATGCTTTATTAGGGGGCCATGATATTTCT-GGCGCAATCTACTCTATTAATACAAT
131 GATTGCAACATGCTTTATTAGGGGGCCATGATA-TTCTGGGCGCAATCTACTCTATTAATACAAC
* * * * * *
132754 AGTTAACATTACAAGTCACAACTTATTTCA-TT-GTAACCATTATATTATTGGGCACAACTGTAT
195 ATTTAACATTACAAGTCGCAACTTATTTCATTTAG-AACCGTGATATTATTGGGCGCAACCGTAT
132817 CTATT
259 CTATT
* * * * * * * *
132822 ATA-CTCATTTGTAAAACGTTGTTCTATTGACTTATTTTATTATCGTGGGGAGCTCAAAGACTCC
1 ATACCT-ATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCC
* * * * * * *
132886 ATCGGCTTAAA-CTCTCATAATATTTTACGTGCAA-CATCTTTCATTATTACAAAGAATAAGATT
65 ATCGGC-TAAACCTTTCATAATATTTCAGGCGCAATCACCTTTC-TTATTAAAAATAATAAGATT
* *
132949 ACAGATTGGAACATG
128 CCAGATTGCAACATG
132964 GTTCTACAAC
Statistics
Matches: 1672, Mismatches: 268, Indels: 56
0.84 0.13 0.03
Matches are distributed among these distances:
256 26 0.02
257 94 0.06
258 23 0.01
259 221 0.13
260 213 0.13
261 227 0.14
262 606 0.36
263 256 0.15
264 6 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (263 bp):
ATACCTATTCGTAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGGCTCCA
TCGGCTAAACCTTTCATAATATTTCAGGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCA
GATTGCAACATGCTTTATTAGGGGGCCATGATATTCTGGGCGCAATCTACTCTATTAATACAACA
TTTAACATTACAAGTCGCAACTTATTTCATTTAGAACCGTGATATTATTGGGCGCAACCGTATCT
ATT
Found at i:132612 original size:523 final size:524
Alignment explanation
Indices: 130749--132963 Score: 2721
Period size: 523 Copynumber: 4.2 Consensus size: 524
130739 TATTCATAGA
* * * * *
130749 ACTTTGTGTTCTTAACTCATTTTATTATCGTGAGGAACTCCAAGGCTTCATCGACTAAACCTTTC
1 ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATCG-CTAAACCTTTC
* * * **
130814 ATAGTATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGGAACTTATTT
65 ATAATATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCTT
** * ** * * * * *
130879 TATTAGGGGACCATGATATTCCCGACGTAATCTACTTTATTAATACAATATTTAACATCACATGT
130 TATTAGGGG-CCATGATATTCTGGGCACAATCTACTCTATTAATACAACATTTAAAATTACAAGT
* * * *
130944 C-CAACTTATTTCATTTAGAACCGTGATATTATTGGGAGTAACCATATCTATTATA-CTATTCGT
194 CGCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGT
* * * * *
131007 AAAATTTTGTGCTCTTAACTTA-TTTATTATTGC-GGGAACTCCAAGGCTCTATCGGCTAAACCT
259 AAAACTTTGTGCTCTTAACTTATTTTATTATCGCGGGGAACTCCAATGCTCCATCGACTAAACCT
** * * *** * *
131070 TTCATAATATTTCAACCGCAATAACCTTTATTATTAAAAATAATAAGATTCTTGATTGCAATATG
324 TTCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATA
* * * *
131135 CTTTATTAGGGGGCCATGATATTTCAGACGCAATCTACTATATTAATACAACATTTAACATTACA
389 CTTTATTAGGGGGCCATGATATTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTACA
* * * * * * * *
131200 AATCGCAACATATTTAATTTAGAATCATGATATTATTGAGCGCAATCGTATCTCTTATACATGTT
454 AGTAGCAACTTATTTAATTTAGAACCATGATATTATTGAGCGCAACCGTATCTATTATACCTGAT
*
131265 CGTAAT
519 CATAAT
* * * *
131271 ACTTTGTGCTTTTAACATATTTTGTTATCGTGGGGAACTCCAACACTCCATCGGCTAAACCTTTC
1 ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATC-GCTAAACCTTTC
* * * * *
131336 ATAAAATTTCAGGTGTAATCATATTTCTTATTAAAAATAATAATATTCGAGATTGCAACATGCTT
65 ATAATATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCTT
* *
131401 TATTAGGGGCCATGATATTCTGGGCACAATATACTCTATTACTACAACATTTAAAATTACAAGTC
130 TATTAGGGGCCATGATATTCTGGGCACAATCTACTCTATTAATACAACATTTAAAATTACAAGTC
131466 GCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGTA
195 GCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGTA
* * * * *
131531 AAACTTTGTGCTCTTAGCTTATTTTGTTATCGTGGGGAACTCTAATGCTCCATCGACTAAAACTT
260 AAACTTTGTGCTCTTAACTTATTTTATTATCGCGGGGAACTCCAATGCTCCATCGACTAAACCTT
131596 TCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATAC
325 TCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATAC
* * *
131661 TTTATTAGGGGGTCATGATCTTCCGGGCGTAATCTACTC---TAATACAACATTTAACATTACAA
390 TTTATTAGGGGGCCATGATATTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTACAA
* * * * * *
131723 GCAACAACTTATTTCATTTAGAACCGTGATATTATTGAGCGCAAATC-TATCTATTATACCTGTT
455 GTAGCAACTTATTTAATTTAGAACCATGATATTATTGAGCGC-AACCGTATCTATTATACCTGAT
131787 CATAAT
519 CATAAT
* * * * *
131793 ACTTTGTG--CTTAACTTATTTTGTTAGCAT-GGGAAATCCAAGGCTCCATCGACTAAACCTTTC
1 ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATCG-CTAAACCTTTC
* * *
131855 ATAATATTTCATGCGCAATCACCTTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCTT
65 ATAATATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCTT
* * * * **
131920 TATTAGCGGTCATGATATTCTAGGCGCAATCTACTCTATTGCTACAACATTTAAAATTACAAGTC
130 TATTAGGGGCCATGATATTCTGGGCACAATCTACTCTATTAATACAACATTTAAAATTACAAGTC
131985 GCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGTA
195 GCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGTA
* * *
132050 AAACTTTGTGCTCTTAGCTTATTTTGTTATCGTGGGGAACTCCAATGCTCCATCGACTAAACCTT
260 AAACTTTGTGCTCTTAACTTATTTTATTATCGCGGGGAACTCCAATGCTCCATCGACTAAACCTT
132115 TCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATAC
325 TCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATAC
* * *
132180 TTTATTAGGGGGTCATGATCTTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTAGAA
390 TTTATTAGGGGGCCATGATATTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTACAA
* * * * *
132245 GTAGTAACTTATTTAATTTGGAACCGTGATATTATTGAGC-CAACCATATCTTTTATACCT-ATC
455 GTAGCAACTTATTTAATTTAGAACCATGATATTATTGAGCGCAACCGTATCTATTATACCTGATC
132308 ATAAT
520 ATAAT
* *
132313 ATTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATCAGCTAAATCTTTC
1 ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATC-GCTAAACCTTTC
* * * * *
132378 ATAATATTTCAGGCT-CAATCACCTTTCTTTTTAAAAATAATAAGATTCCAAATTGCAATATGGT
65 ATAATATTTCAGG-TGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCT
* * * *
132442 TTATTAGTGGG-CATGATATTCTGGGTACAATCTACTCTATTAATAAAACAATTAACATTACAAG
129 TTATTAG-GGGCCATGATATTCTGGGCACAATCTACTCTATTAATACAACATTTAAAATTACAAG
* * * ** * *
132506 TCACAACTTATTTTTTTTAGAACCGTAATATTATTTTGTGCAACCGTATATTTTATACCTATTCG
193 TCGCAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCG
* * * * *
132571 TAAAACTTTGTGCTCTTAACTTATTTTATTATCACGGGGAACTCCAACGCTTCATCGGCTAAATC
258 TAAAACTTTGTGCTCTTAACTTATTTTATTATCGCGGGGAACTCCAATGCTCCATCGACTAAACC
* * * * *
132636 TTTCATAATATTTTAGGCACAATCATCTTTTTTATTAAAAATAATAAGATTT-CATATTGCAACA
323 TTTCATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAG-TTTCCAAATTGCAACA
* * * * *
132700 TGCTTTATTAGGGGGCCATGATATTTCTGGCGCAATCTACTCTATTAATACAATAGTTAACATTA
387 TACTTTATTAGGGGGCCATGATATTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTA
* * * * *
132765 CAAGTCA-CAACTTATTTCA-TT-GTAACCATTATATTATTGGGCACAACTGTATCTATTATA-C
452 CAAGT-AGCAACTTATTTAATTTAG-AACCATGATATTATTGAGCGCAACCGTATCTATTATACC
* ** *
132826 TCATTTGTAAA
515 TGA-TCATAAT
* * * * * * *
132837 ACGTTGTTCTATTGACTTATTTTATTATCGTGGGGAGCTCAAAGACTCCATCGGCTTAAA-CTCT
1 ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATC-GC-TAAACCTTT
* * * * * *
132901 CATAATATTTTACGTGCAA-CATC-TTTCATTATTACAAAGAATAAGATTACAGATTGGAACATG
64 CATAATATTTCAGGTGCAATCA-CATTTC-TTATTAAAAATAATAAGATTCCAGATTGCAACATG
132964 GTTCTACAAC
Statistics
Matches: 1482, Mismatches: 184, Indels: 52
0.86 0.11 0.03
Matches are distributed among these distances:
518 1 0.00
519 375 0.25
520 34 0.02
521 59 0.04
522 348 0.23
523 434 0.29
524 113 0.08
525 118 0.08
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (524 bp):
ACTTTGTGCTCTTAACTTATTTTATTATCGTGGGGAACTCCAAGACTCCATCGCTAAACCTTTCA
TAATATTTCAGGTGCAATCACATTTCTTATTAAAAATAATAAGATTCCAGATTGCAACATGCTTT
ATTAGGGGCCATGATATTCTGGGCACAATCTACTCTATTAATACAACATTTAAAATTACAAGTCG
CAACTTATTTTATTTAGAACCGTGATATTATTGGGTGCAACCGTATCTATTATACCTATTCGTAA
AACTTTGTGCTCTTAACTTATTTTATTATCGCGGGGAACTCCAATGCTCCATCGACTAAACCTTT
CATAATATTTCAGGCGCAATCACCTTTATTATTAAAAATAATAAGTTTCCAAATTGCAACATACT
TTATTAGGGGGCCATGATATTCCGGGCGCAATCTACTCTATTAATACAACATTTAACATTACAAG
TAGCAACTTATTTAATTTAGAACCATGATATTATTGAGCGCAACCGTATCTATTATACCTGATCA
TAAT
Found at i:134922 original size:63 final size:62
Alignment explanation
Indices: 134809--134927 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 62
134799 CGACAACTGT
* *
134809 CCATAGGTCCCAAAGAACCTAGGTAAACTATCCATATTTTCCTTAGAACATAGGTATACTAC
1 CCATAGGTCCCAAAGAACATAGGTAAACTATCCATATTTTCCGTAGAACATAGGTATACTAC
* * *
134871 CCATATGTCCCAAA-AGACATAGGTAATTCTGTCCATATGTTT-CGTAGAACATAGGTA
1 CCATAGGTCCCAAAGA-ACATAGGTAA-ACTATCCATAT-TTTCCGTAGAACATAGGTA
134928 AACCCTCGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
61 1 0.02
62 22 0.45
63 23 0.47
64 3 0.06
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (62 bp):
CCATAGGTCCCAAAGAACATAGGTAAACTATCCATATTTTCCGTAGAACATAGGTATACTAC
Found at i:143044 original size:32 final size:32
Alignment explanation
Indices: 142974--143046 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
142964 CCTAAGGTGA
* *
142974 CCCTTGGGTAGGCTTTAAGGCCCCGAGAAACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
** * **
143006 TTCTTGGGTAGGCTCTCAGGCCCCAAGGGACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
143038 CCCTTGGGT
1 CCCTTGGGT
143047 TAATCATGGG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.30, T:0.25
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
Found at i:143459 original size:29 final size:29
Alignment explanation
Indices: 143417--143487 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
143407 TTCTAATATG
*
143417 GTTTTAAAAATATGTTCTAAATTGTTATT
1 GTTTTAAAAATATGTTCTAAATTGTTACT
143446 GTTTTAAAAATATGTTCTAAATTGTTACT
1 GTTTTAAAAATATGTTCTAAATTGTTACT
143475 GTTTTAAAAATAT
1 GTTTTAAAAATAT
143488 ATGTATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (29 bp):
GTTTTAAAAATATGTTCTAAATTGTTACT
Found at i:151504 original size:2 final size:2
Alignment explanation
Indices: 151497--151551 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
151487 ATCTTTTAAA
151497 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
151539 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
151552 TATATATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:151556 original size:2 final size:2
Alignment explanation
Indices: 151551--151599 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
151541 ACACACACAC
151551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
151593 AT AT AT A
1 AT AT AT A
151600 CCCTCATCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:151825 original size:12 final size:12
Alignment explanation
Indices: 151762--151826 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
151752 ACGGAGATAT
151762 CAGAAATCAAAA
1 CAGAAATCAAAA
* * *
151774 TAGAATTCAGAA
1 CAGAAATCAAAA
* *
151786 CAGATATCAGAA
1 CAGAAATCAAAA
* *
151798 CAG-AATCCATAT
1 CAGAAAT-CAAAA
151810 CAGAAATCAAAA
1 CAGAAATCAAAA
151822 CAGAA
1 CAGAA
151827 TTCAGGTCAT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 35 0.88
13 3 0.08
ACGTcount: A:0.55, C:0.17, G:0.12, T:0.15
Consensus pattern (12 bp):
CAGAAATCAAAA
Found at i:151866 original size:24 final size:24
Alignment explanation
Indices: 151761--151868 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
151751 AACGGAGATA
* *
151761 TCAGAAATCAAAATAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
151784 AACAGATATCAGAACAGAATCCATA-
1 -TCAGAAATCAGAACAGAATTCA-AG
* *
151809 TCAGAAATCAAAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
*
151833 TCATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
151857 TCGGAAATCAGA
1 TCAGAAATCAGA
151869 TAAAATAATT
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
23 1 0.02
24 61 0.95
25 1 0.02
26 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:151866 original size:48 final size:48
Alignment explanation
Indices: 151758--151851 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
151748 TTAAACGGAG
*
151758 ATATCAGAAATCAAAATAGAATTCAGAACAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
**
151806 ATATCAGAAATCAAAACAGAATTCAGGTCATG-TATCAGAACAGAAT
1 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAAT
151852 TCAAGTCGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
Found at i:154305 original size:18 final size:18
Alignment explanation
Indices: 154282--154327 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
154272 CAACGGTCAA
154282 CGGGTCGGGTCAACGAGT
1 CGGGTCGGGTCAACGAGT
*
154300 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGAGT
*
154318 TGGGTCGGGT
1 CGGGTCGGGT
154328 TGGGTTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.20, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGAGT
Found at i:154317 original size:13 final size:13
Alignment explanation
Indices: 154276--154305 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
154266 AACGGTCAAC
*
154276 GGTCAACGGGTCG
1 GGTCAACGAGTCG
154289 GGTCAACGAGTCG
1 GGTCAACGAGTCG
154302 GGTC
1 GGTC
154306 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGAGTCG
Found at i:156450 original size:12 final size:12
Alignment explanation
Indices: 156383--156450 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
156373 ACGGAGATAT
* *
156383 CAGAAATCAAAA
1 CAGAATTCAGAA
*
156395 CAAAATTCAGAA
1 CAGAATTCAGAA
156407 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
156419 CAGAA-TC-CAT
1 CAGAATTCAGAA
*
156429 CAGAAATCAGAA
1 CAGAATTCAGAA
156441 CAGAATTCAG
1 CAGAATTCAG
156451 GTTATGTATC
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 6 0.14
11 6 0.14
12 30 0.70
13 1 0.02
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.15
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:156485 original size:24 final size:24
Alignment explanation
Indices: 156382--156487 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
156372 AACGGAGATA
* *
156382 TCAGAAATCAAAACAAAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
156405 AACAGATATCAGAACAGAA-TCCA-
1 -TCAGAAATCAGAACAGAATTCAAG
*
156428 TCAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCAGAACAGAATTCAAG
* *
156452 TTATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
156476 TCGGAAATCAGA
1 TCAGAAATCAGA
156488 TAAAATAATT
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
22 16 0.25
23 5 0.08
24 41 0.65
25 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:158610 original size:15 final size:15
Alignment explanation
Indices: 158590--158625 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
158580 CCTCAGATAC
158590 ATATCAACATAAATT
1 ATATCAACATAAATT
158605 ATATCAACATAAATT
1 ATATCAACATAAATT
158620 ATATCA
1 ATATCA
158626 GAAACGGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATCAACATAAATT
Found at i:161114 original size:28 final size:28
Alignment explanation
Indices: 161077--161137 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
161067 TAGGGTTAGA
*
161077 ATTTAGGATTTAAGCTTTG-GAGTTTAAG
1 ATTTACGATTTAAGCTTTGAGA-TTTAAG
* * *
161105 ATTTACGATTTGAGGTTTGAGATTTAGG
1 ATTTACGATTTAAGCTTTGAGATTTAAG
161133 ATTTA
1 ATTTA
161138 AGATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (28 bp):
ATTTACGATTTAAGCTTTGAGATTTAAG
Found at i:161116 original size:21 final size:21
Alignment explanation
Indices: 161078--161136 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
161068 AGGGTTAGAA
* *
161078 TTTAGGATTTAAGCTTTG-GAG
1 TTTAAGATTTAAGATTTGAG-G
*
161099 TTTAAGATTTACGATTTGAGG
1 TTTAAGATTTAAGATTTGAGG
* *
161120 TTTGAGATTTAGGATTT
1 TTTAAGATTTAAGATTT
161137 AAGATAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.46
Consensus pattern (21 bp):
TTTAAGATTTAAGATTTGAGG
Found at i:163292 original size:29 final size:29
Alignment explanation
Indices: 163249--163331 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
163239 CTCACCTAAC
163249 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
163279 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
163308 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
163332 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:166719 original size:15 final size:15
Alignment explanation
Indices: 166699--166728 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
166689 CTTTCTCATA
166699 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
166714 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
166729 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:168057 original size:29 final size:29
Alignment explanation
Indices: 168014--168096 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
168004 CTCACCTAAC
168014 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
168044 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
168073 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
168097 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:169714 original size:15 final size:16
Alignment explanation
Indices: 169684--169719 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
169674 AATTTTTCTC
169684 TCCTTCCTTCCCTCAT
1 TCCTTCCTTCCCTCAT
*
169700 TCCTT-CTTGCCTCAT
1 TCCTTCCTTCCCTCAT
169715 TCCTT
1 TCCTT
169720 GTAAAAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.06, C:0.44, G:0.03, T:0.47
Consensus pattern (16 bp):
TCCTTCCTTCCCTCAT
Found at i:171684 original size:22 final size:22
Alignment explanation
Indices: 171656--171705 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
171646 CGAATTTCAA
171656 GTGACACATGTGGTAATAACAT
1 GTGACACATGTGGTAATAACAT
171678 GTGACACATGTGGTAATAACAT
1 GTGACACATGTGGTAATAACAT
171700 GTGACA
1 GTGACA
171706 AGTATAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGACACATGTGGTAATAACAT
Found at i:178384 original size:17 final size:17
Alignment explanation
Indices: 178362--178396 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
178352 TCGAAACCAT
178362 GCATGTAGTGTACCGTA
1 GCATGTAGTGTACCGTA
178379 GCATGTAGTGTACCGTA
1 GCATGTAGTGTACCGTA
178396 G
1 G
178397 AACGACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (17 bp):
GCATGTAGTGTACCGTA
Found at i:185268 original size:2 final size:2
Alignment explanation
Indices: 185261--185300 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
185251 GCAATTAACT
185261 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
185301 CTCATCTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:185740 original size:21 final size:21
Alignment explanation
Indices: 185710--185786 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
185700 AAGTTTCTCG
* *
185710 GGTATTGATACCCTCCACATA
1 GGTATCGATACCCTTCACATA
185731 GGTATCGATACCTCTTC-CATA
1 GGTATCGATACC-CTTCACATA
* ** * *
185752 TGGTATGGATACTGTTCATACA
1 -GGTATCGATACCCTTCACATA
185774 GGTATCGATACCC
1 GGTATCGATACCC
185787 CATACATCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (21 bp):
GGTATCGATACCCTTCACATA
Found at i:186216 original size:21 final size:21
Alignment explanation
Indices: 186190--186266 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
186180 TCTTATAGTT
186190 TTAAGCTTATATAAACTTTCC
1 TTAAGCTTATATAAACTTTCC
186211 TTAAGCTTATATAAACTTTCC
1 TTAAGCTTATATAAACTTTCC
*
186232 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAACTTTCC
186253 TTAAGCTTATATAA
1 TTAAGCTTATATAA
186267 CACCTAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAACTTTCC
Found at i:188939 original size:2 final size:2
Alignment explanation
Indices: 188932--188956 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
188922 CATAACAAGT
188932 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
188957 CTAGTGGTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:191014 original size:67 final size:66
Alignment explanation
Indices: 190896--191043 Score: 163
Period size: 67 Copynumber: 2.2 Consensus size: 66
190886 TTGTTTTCAC
* * * * * * * * *
190896 TTGAGATTGTTTTTCTCAATACAAATTTTGTCTCATTTTAGATAATTTTCCTTAAGACA-TGAAC
1 TTGAGATTTTTTTTCTAAAAACAAATTTCGTCTCACTTGAGACAATATTCCTAAAGACACT-AAC
190960 AG
65 AG
*
190962 TTGAGATTTTTTTTCTTAAAAATAAATTTCGTCTCACTTGAGACAATATTCCTAAAGACACTAAC
1 TTGAGATTTTTTTTC-TAAAAACAAATTTCGTCTCACTTGAGACAATATTCCTAAAGACACTAAC
*
191027 AT
65 AG
191029 TTGAGATTGTTTTTT
1 TTGAGATT-TTTTTT
191044 TGAAATAAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
66 14 0.21
67 47 0.69
68 7 0.10
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (66 bp):
TTGAGATTTTTTTTCTAAAAACAAATTTCGTCTCACTTGAGACAATATTCCTAAAGACACTAACA
G
Found at i:191596 original size:62 final size:61
Alignment explanation
Indices: 191518--191647 Score: 181
Period size: 62 Copynumber: 2.1 Consensus size: 61
191508 AAAATTAGAC
* *
191518 TTCCTCAGCAAAAAGGAACAACATTGTCTAT-AAATTCAAAATCCTTTAAGAACGACTAGTTT
1 TTCCTCAGCAAAAAGGAACAACATTGTCT-TCAAATTCAAAATCCTTCAAGAACGACTAG-TG
* * * *
191580 TTCCTCAGCTAGAAGGAACAACATTGTCTTCATATTCACAATCCTTCAAGAACGACTAGTG
1 TTCCTCAGCAAAAAGGAACAACATTGTCTTCAAATTCAAAATCCTTCAAGAACGACTAGTG
191641 TTCCTCA
1 TTCCTCA
191648 CCAAGAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 9 0.15
62 52 0.85
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (61 bp):
TTCCTCAGCAAAAAGGAACAACATTGTCTTCAAATTCAAAATCCTTCAAGAACGACTAGTG
Found at i:194679 original size:10 final size:10
Alignment explanation
Indices: 194664--194693 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
194654 TGGGGACTCC
194664 AATTCAAAAT
1 AATTCAAAAT
*
194674 AATTCAAAGT
1 AATTCAAAAT
194684 AATTCAAAAT
1 AATTCAAAAT
194694 CTCTATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (10 bp):
AATTCAAAAT
Done.