Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003646.1 Hibiscus syriacus cultivar Beakdansim tig00007751_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: 107168
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Found at i:5344 original size:10 final size:10
Alignment explanation
Indices: 5329--5365 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
5319 GAGTCTTGTA
5329 ATAATAATAT
1 ATAATAATAT
5339 ATAATAATAT
1 ATAATAATAT
*
5349 -T-ATTATAT
1 ATAATAATAT
5357 ATAATAATA
1 ATAATAATA
5366 CAATATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:5700 original size:93 final size:96
Alignment explanation
Indices: 5603--5777 Score: 257
Period size: 97 Copynumber: 1.8 Consensus size: 96
5593 AAATGATTTG
* * ** *
5603 CTTCACTACTCTTTTGTGAAGGTTGAA-T-TTAAC-TGAGAAGAATTTGTTTCACTACTCTTCTA
1 CTTCACTACTCTTATATGAAGGTTGAATTATTAACTTGAGAAGAACCTGTTTCACTACTCTTCCA
5665 TGAAGATCAGATTCGAGGTTCGCTTGAATTA
66 TGAAGATCAGATTCGAGGTTCGCTTGAATTA
*
5696 CTTCACTACTCTTATATGAAGGTTGAATTGATTGACTTGAGAAGAACCTGTTTCACTACTCTTCC
1 CTTCACTACTCTTATATGAAGGTTGAATT-ATTAACTTGAGAAGAACCTGTTTCACTACTCTTCC
*
5761 ATGAAGATTAGATTCGA
65 ATGAAGATCAGATTCGA
5778 AGTTGGGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
93 25 0.35
94 1 0.01
96 4 0.06
97 41 0.58
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (96 bp):
CTTCACTACTCTTATATGAAGGTTGAATTATTAACTTGAGAAGAACCTGTTTCACTACTCTTCCA
TGAAGATCAGATTCGAGGTTCGCTTGAATTA
Found at i:5765 original size:97 final size:91
Alignment explanation
Indices: 5603--5875 Score: 277
Period size: 93 Copynumber: 2.9 Consensus size: 91
5593 AAATGATTTG
* * *
5603 CTTCACTACTCTTTTGTGAAGGTTGAAT--TTAAC-TGAGAAGAATTTGTTTCACTACTCTTCTA
1 CTTCACTACTCTTTTATGAAGGTTGAATGATTGACTTGAGAAGAATCTGTTTCACTACTCTTCTA
5665 TGAAGATCAGATTCGAGGTTCGCTTGAATTA
66 TGAAGATCAGATTCGAGGTT-G---GAA-TA
* * *
5696 CTTCACTACTCTTATATGAAGGTTGAATTGATTGACTTGAGAAGAACCTGTTTCACTACTCTTCC
1 CTTCACTACTCTTTTATGAAGGTTGAA-TGATTGACTTGAGAAGAATCTGTTTCACTACTCTTCT
* * *
5761 ATGAAGATTAGATTCGAAGTTGGGATA
65 ATGAAGATCAGATTCGAGGTTGGAATA
* * * *
5788 CTTCACTACTTTTTTGA-GAAGGCTGAAAATGATTGACTTGA-ACAGAATCTATTTCACTACTAT
1 CTTCACTACTCTTTT-ATGAAGGTTG--AATGATTGACTTGAGA-AGAATCTGTTTCACTACTCT
* * *
5851 TTTATGATGGTCAGATTCGAGGTTG
62 TCTATGAAGATCAGATTCGAGGTTG
5876 ATTTACTTCC
Statistics
Matches: 151, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
92 23 0.15
93 76 0.50
94 3 0.02
96 5 0.03
97 44 0.29
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (91 bp):
CTTCACTACTCTTTTATGAAGGTTGAATGATTGACTTGAGAAGAATCTGTTTCACTACTCTTCTA
TGAAGATCAGATTCGAGGTTGGAATA
Found at i:5980 original size:20 final size:20
Alignment explanation
Indices: 5957--6076 Score: 159
Period size: 20 Copynumber: 6.0 Consensus size: 20
5947 CTAATAGATG
*
5957 ACCCGAAGGATTTACAAATT
1 ACCCGAAGGCTTTACAAATT
*
5977 ACCCGAAGGCTTTACAAAAT
1 ACCCGAAGGCTTTACAAATT
*
5997 ACCCGAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATT
* *
6017 ACCCGGAGGCTTTACAAATA
1 ACCCGAAGGCTTTACAAATT
* * *
6037 ACCTGGAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATT
*
6057 ACCCGAATGCTTTACAAATT
1 ACCCGAAGGCTTTACAAATT
6077 CATGGGAAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (20 bp):
ACCCGAAGGCTTTACAAATT
Found at i:9229 original size:21 final size:21
Alignment explanation
Indices: 9205--9321 Score: 103
Period size: 21 Copynumber: 5.4 Consensus size: 21
9195 CACTGAAGTG
9205 CCACATAATTATCCCGAAGGA
1 CCACATAATTATCCCGAAGGA
* *
9226 CCACATAATTTTGCACCGAAGTA
1 CCACATAATTAT-C-CCGAAGGA
* *
9249 CCATATAGGTT-TGCACCGAAGTG-
1 CCACATA-ATTAT-C-CCGAAG-GA
* *
9272 CCACATATTTATCTCGAAGGA
1 CCACATAATTATCCCGAAGGA
9293 CCACATAATTATCCCGAAGGA
1 CCACATAATTATCCCGAAGGA
*
9314 CCATATAA
1 CCACATAA
9322 ACCCTCGACT
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
20 1 0.01
21 42 0.53
22 4 0.05
23 30 0.38
24 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (21 bp):
CCACATAATTATCCCGAAGGA
Found at i:9251 original size:23 final size:23
Alignment explanation
Indices: 9191--9302 Score: 90
Period size: 23 Copynumber: 5.0 Consensus size: 23
9181 CAACTCGTAA
* *
9191 TTTGCACTGAAGTGCCACATAAT
1 TTTGCACCGAAGTACCACATAAT
* *
9214 TAT-C-CCGAAGGACCACATAAT
1 TTTGCACCGAAGTACCACATAAT
* **
9235 TTTGCACCGAAGTACCATATAGG
1 TTTGCACCGAAGTACCACATAAT
*
9258 TTTGCACCGAAGTGCCACAT-AT
1 TTTGCACCGAAGTACCACATAAT
* *
9280 TTAT-C-TCGAAGGACCACATAAT
1 TT-TGCACCGAAGTACCACATAAT
9302 T
1 T
9303 ATCCCGAAGG
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
21 27 0.39
22 8 0.12
23 34 0.49
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (23 bp):
TTTGCACCGAAGTACCACATAAT
Found at i:9299 original size:67 final size:65
Alignment explanation
Indices: 9191--9320 Score: 197
Period size: 67 Copynumber: 2.0 Consensus size: 65
9181 CAACTCGTAA
* * *
9191 TTTGCACTGAAGTGCCACATAATTATCCCGAAGGACCACATAATTTTGCACCGAAGTACCATATA
1 TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAATTAT-C-CCGAAGGACCATATA
9256 GG
64 GG
* *
9258 TTTGCACCGAAGTGCCACATATTTATCTCGAAGGACCACATAATTATCCCGAAGGACCATATA
1 TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAATTATCCCGAAGGACCATATA
9321 AACCCTCGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 14 0.24
66 1 0.02
67 43 0.74
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (65 bp):
TTTGCACCGAAGTGCCACATAATTATCCCGAAGGACCACATAATTATCCCGAAGGACCATATAGG
Found at i:23143 original size:13 final size:13
Alignment explanation
Indices: 23107--23146 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
23097 GGGTAAATAG
*
23107 TTAATTAAATTAT
1 TTAATTATATTAT
*
23120 TTATTTTATATTAT
1 TTA-ATTATATTAT
23134 TTAATTATATTAT
1 TTAATTATATTAT
23147 AAATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:32903 original size:13 final size:13
Alignment explanation
Indices: 32862--32904 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
32852 AATACTGGTA
* *
32862 ATTAGTTAATTAA
1 ATTATTTAATTAT
*
32875 ATTATTTACTTTAT
1 ATTATTTA-ATTAT
32889 ATTATTTAATTAT
1 ATTATTTAATTAT
32902 ATT
1 ATT
32905 GTAAATTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
ATTATTTAATTAT
Found at i:33430 original size:620 final size:621
Alignment explanation
Indices: 32223--33474 Score: 2193
Period size: 620 Copynumber: 2.0 Consensus size: 621
32213 ATAGTTTTAA
*
32223 ATCAAATGAATACGGGGTAAATAGTTAATTAAATTATTTACTTTATACTATTTAATTATATTGTA
1 ATCAAATAAATACGGGGTAAATAGTTAATTAAATTATTTACTTTATACTATTTAATTATATTGTA
32288 AATTTCGATGTAAGTTTGAAACTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACA
66 AATTTCGATGTAAGTTTGAAACTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACA
* *
32353 TGTACTCCTACATTACAACAATTTGCAATTAAAGTGCTTAGTCAAACAAATTCTACATCAAATTG
131 TGTACTCCTAAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAAATTCTACATCAAATTG
32418 CGAACGAAACTGGAGCACATTCAGCTATATTCACACCTAATCGAGAAACAATTGAAATACAATAA
196 CGAACGAAACTGGAGCACATTCAGCTATATTCACACCTAATCGAGAAACAATTGAAATACAATAA
*
32483 TATTGAGAAACTAGTGTTTGCTTATTACAATATAAGGCTTAAAATGAGGCATCAATAAATAATGA
261 AATTGAGAAACTAGTGTTTGCTTATTACAATATAAGGCTTAAAATGAGGCATCAATAAATAATGA
*
32548 GAATTGATAATATAAACGCTATTTACAATCCTATCAGTTTTTATCATATCTTTAAAGAAGTTGAT
326 GAATTGATAATATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTAAAGAAGTTGAT
*
32613 TCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATGACGGTGTGTT
391 TCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTT
32678 CCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAAAAAAATTTATCTC
456 CCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAAAAAAATTTATCTC
*
32743 ATTCAAGTTCTAGTGCAATGCCAAGTAAAATTGGTGATGGGCTAGATAGTGGTGGTTTAAGTCCA
521 ATTCAAGTTCTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATAGTGGTGGTTTAAGTCCA
* * * *
32808 ATTGATGAGGGTGATATAAAGAGTGGTAATGGAGGC
586 ATTGATGAGGATAATAGAAAGAGCGGTAATGGAGGC
* * *
32844 ATCAAATAAATAC-TGGTAATTAGTTAATTAAATTATTTACTTTATATTATTTAATTATATTGTA
1 ATCAAATAAATACGGGGTAAATAGTTAATTAAATTATTTACTTTATACTATTTAATTATATTGTA
*
32908 AATTTCGATGTAAGTTTGAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACA
66 AATTTCGATGTAAGTTTGAAACTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACA
* *
32973 TGTACTCCTAAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCATCAAATTG
131 TGTACTCCTAAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAAATTCTACATCAAATTG
*
33038 CGAACGAAACTGGAGCACATTCAGCTATATTCACACCTATTCGAGAAACAATTGAAATACAATAA
196 CGAACGAAACTGGAGCACATTCAGCTATATTCACACCTAATCGAGAAACAATTGAAATACAATAA
* * *
33103 AATTGAGAAACTAGTGTTTGGTTATTATAATATAAGGCTTAATATGAGGCATCAATAAATAATGA
261 AATTGAGAAACTAGTGTTTGCTTATTACAATATAAGGCTTAAAATGAGGCATCAATAAATAATGA
* *
33168 GAATTGATAATATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAAGTTTAT
326 GAATTGATAATATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTAAAGAAGTTGAT
33233 TCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTT
391 TCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTT
* * * *
33298 GCCTGTGGATACATCAGATGATGAAATGAATGTTGATGATCAATCTCAACGACAAAATTTATCTC
456 CCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAAAAAAATTTATCTC
* * *
33363 ATTCAAGTTCTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTCGATTGTGGTGGTTTAATTCCA
521 ATTCAAGTTCTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATAGTGGTGGTTTAAGTCCA
* *
33428 ATTGATTAGGATAATAGACAGAGCGGTAATGGAGGC
586 ATTGATGAGGATAATAGAAAGAGCGGTAATGGAGGC
*
33464 A-CCAATAAATA
1 ATCAAATAAATA
33475 ATGAGAATTG
Statistics
Matches: 598, Mismatches: 33, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
619 9 0.02
620 577 0.96
621 12 0.02
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (621 bp):
ATCAAATAAATACGGGGTAAATAGTTAATTAAATTATTTACTTTATACTATTTAATTATATTGTA
AATTTCGATGTAAGTTTGAAACTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACA
TGTACTCCTAAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAAATTCTACATCAAATTG
CGAACGAAACTGGAGCACATTCAGCTATATTCACACCTAATCGAGAAACAATTGAAATACAATAA
AATTGAGAAACTAGTGTTTGCTTATTACAATATAAGGCTTAAAATGAGGCATCAATAAATAATGA
GAATTGATAATATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTAAAGAAGTTGAT
TCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTT
CCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAAAAAAATTTATCTC
ATTCAAGTTCTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATAGTGGTGGTTTAAGTCCA
ATTGATGAGGATAATAGAAAGAGCGGTAATGGAGGC
Found at i:33741 original size:311 final size:311
Alignment explanation
Indices: 33148--33773 Score: 1045
Period size: 311 Copynumber: 2.0 Consensus size: 311
33138 GGCTTAATAT
* *
33148 GAGGCATCAATAAATAATGAGAATTGATAATATAAACGCTATTTACAATCCTATCAGTCTTTATC
1 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTCTTTATC
* *
33213 ATATCTTTGAAGAAGTTTATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
66 ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
* *
33278 GGTGAAAATAACGGTGTGTTGCCTGTGGATACATCAGATGATGAAATGAATGTTGATGATCAATC
131 GGTGAAAATAACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
* * * *
33343 TCAACGACAAAATTTATCTCATTCAAGTTCTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTCG
196 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAACGCCAAGTAAAATTGGTGATGGGCTAG
* * *
33408 ATTGTGGTGGTTTAATTCCAATTGATTAGGATAATAGACAGAGCGGTAATG
261 ATGGTGGTGGTTTAAGTCCAATTGATGAGGATAATAGACAGAGCGGTAATG
*
33459 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTTTTTATC
1 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTCTTTATC
*
33524 TTATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
66 ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
*
33589 GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
131 GGTGAAAATAACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
* *
33654 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAATGCCAAGTCAAATTGGTGATGGGCTAG
196 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAACGCCAAGTAAAATTGGTGATGGGCTAG
* * * * *
33719 ATGGTGGTTGTTTAAGTCCAATTGATGAGGGTGATATACAGAGTGGTAATG
261 ATGGTGGTGGTTTAAGTCCAATTGATGAGGATAATAGACAGAGCGGTAATG
33770 GAGG
1 GAGG
33774 ATTCAAATAA
Statistics
Matches: 292, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
311 292 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (311 bp):
GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTCTTTATC
ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
GGTGAAAATAACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAACGCCAAGTAAAATTGGTGATGGGCTAG
ATGGTGGTGGTTTAAGTCCAATTGATGAGGATAATAGACAGAGCGGTAATG
Found at i:34348 original size:931 final size:931
Alignment explanation
Indices: 32528--34406 Score: 3373
Period size: 931 Copynumber: 2.0 Consensus size: 931
32518 GGCTTAAAAT
* *
32528 GAGGCATCAATAAATAATGAGAATTGATAATATAAACGCTATTTACAATCCTATCAGTTTTTATC
1 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTTTTTATC
32593 ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
66 ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
32658 GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
131 GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
*
32723 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGTGCAATGCCAAGTAAAATTGGTGATGGGCTAG
196 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAATGCCAAGTAAAATTGGTGATGGGCTAG
32788 ATAGTGGTGGTTTAAGTCCAATTGATGAGGGTGATATAAAGAGTGGTAATGGAGGCATCAAATAA
261 ATAGTGGTGGTTTAAGTCCAATTGATGAGGGTGATATAAAGAGTGGTAATGGAGGCATCAAATAA
* * * *
32853 ATACTGGTAATTAGTTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTCGATG
326 ATACGGGTAAATAGTTAATTAAATTATTTACTTTATATTATTTAATTATACTGTAAATTTCGATA
32918 TAAGTTTGAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACATGTACTCCTA
391 TAAGTTTGAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACATGTACTCCTA
*
32983 AATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCATCAAATTGCGAACGAAAC
456 AATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCAGCAAATTGCGAACGAAAC
* * *
33048 TGGAGCACATTCAGCTATATTCACACCTATTCGAGAAACAATTGAAATACAATAAAATTGAGAAA
521 TGGAGCACATTAAGCTATATTCACACCTAGTCGAGAAACAATTGAAATAAAATAAAATTGAGAAA
* *
33113 CTAGTGTTTGGTTATTATAATATAAGGCTTAATATGAGGCATCAATAAATAATGAGAATTGATAA
586 CTAGTGTTTGCTTATTACAATATAAGGCTTAATATGAGGCATCAATAAATAATGAGAATTGATAA
*
33178 TATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAAGTTTATTCACTATCAA
651 TATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAAGTTGATTCACTATCAA
* *
33243 AATGACTTTAAGAGAATGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTTGCCTGTGGAT
716 AATGACTTTAAGAGAAAGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTTCCCTGTGGAT
* *
33308 ACATCAGATGATGAAATGAATGTTGATGATCAATCTCAACGACAAAATTTATCTCATTCAAGTTC
781 ACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAACAAAATTTATCTCATTCAAGTTC
* * * *
33373 TAGTGCAACGCCAAGTAAAATTGGTGATGGGCTCGATTGTGGTGGTTTAATTCCAATTGATTAGG
846 TAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATGGTGGTGGTTTAAGTCCAATTGATGAGG
33438 ATAATAGACAGAGCGGTAATG
911 ATAATAGACAGAGCGGTAATG
33459 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTTTTTATC
1 GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTTTTTATC
*
33524 TTATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
66 ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
33589 GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
131 GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
*
33654 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAATGCCAAGTCAAATTGGTGATGGGCTAG
196 TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAATGCCAAGTAAAATTGGTGATGGGCTAG
* * *
33719 ATGGTGGTTGTTTAAGTCCAATTGATGAGGGTGATATACAGAGTGGTAATGGAGG-ATTCAAATA
261 ATAGTGGTGGTTTAAGTCCAATTGATGAGGGTGATATAAAGAGTGGTAATGGAGGCA-TCAAATA
33783 AATACGGGTAAATAGTTAATTAAATTATTTACTTTATATTATTTAATTATACTGTAAATTTCGAT
325 AATACGGGTAAATAGTTAATTAAATTATTTACTTTATATTATTTAATTATACTGTAAATTTCGAT
*
33848 ATAAGTTTTAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACATGTACTCCT
390 ATAAGTTTGAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACATGTACTCCT
33913 AAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCAGCAAATTGCGAACGAAA
455 AAATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCAGCAAATTGCGAACGAAA
33978 CTGGAGCACATTAAGCTATATTCACACCTAGTCGAGAAACAATTGAAATAAAATAAAATTGAGAA
520 CTGGAGCACATTAAGCTATATTCACACCTAGTCGAGAAACAATTGAAATAAAATAAAATTGAGAA
34043 ACTAGTGTTTGCTTATTACAATATAAGGCTTAATATGAGGCATCAATAAATAATGAGAATTGATA
585 ACTAGTGTTTGCTTATTACAATATAAGGCTTAATATGAGGCATCAATAAATAATGAGAATTGATA
* * *
34108 ATATAAATGTTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAGGTTGATTCACTATCA
650 ATATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAAGTTGATTCACTATCA
* *
34173 AAATGACTTTAAGAGAAAGAGTGTCCATTGTTAGATGGTGAAAATGATGGTGTGTTCCCTGTGGA
715 AAATGACTTTAAGAGAAAGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTTCCCTGTGGA
34238 TACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAACAAAATTTATCTCATTCAAGTT
780 TACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAACAAAATTTATCTCATTCAAGTT
* *
34303 CTAGTGCAATGCCAAGTCAAATTGGTGATGGGCTAGATGGTGGTGGTTTAAGTCCAATTGATGAG
845 CTAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATGGTGGTGGTTTAAGTCCAATTGATGAG
* * * *
34368 GGTGATATACAGAGTGGTAATG
910 GATAATAGACAGAGCGGTAATG
*
34390 GAGGCATCAAATAAATA
1 GAGGCA-CCAATAAATA
34407 CGACACATGC
Statistics
Matches: 906, Mismatches: 40, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
930 1 0.00
931 896 0.99
932 9 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (931 bp):
GAGGCACCAATAAATAATGAGAATTGATAATATAAACACTATTTACAATCCTATCAGTTTTTATC
ATATCTTTAAAGAAGTTGATTCACTATCAAAATGACTTTAAGAGAATGAGTGTCCATTGTTAGAT
GGTGAAAATGACGGTGTGTTCCCTGTGGATACATAAGATGATGAAATGAATGTTGATGATCAATC
TCAACAAAAAAATTTATCTCATTCAAGTTCTAGGGCAATGCCAAGTAAAATTGGTGATGGGCTAG
ATAGTGGTGGTTTAAGTCCAATTGATGAGGGTGATATAAAGAGTGGTAATGGAGGCATCAAATAA
ATACGGGTAAATAGTTAATTAAATTATTTACTTTATATTATTTAATTATACTGTAAATTTCGATA
TAAGTTTGAAATTTAATAATATTATGCAGTTAAGTGGTGGATGATATATGACACATGTACTCCTA
AATTACAACAATTAGCAATTAAAGTGCTTAGTCAAACAACTTCTGCAGCAAATTGCGAACGAAAC
TGGAGCACATTAAGCTATATTCACACCTAGTCGAGAAACAATTGAAATAAAATAAAATTGAGAAA
CTAGTGTTTGCTTATTACAATATAAGGCTTAATATGAGGCATCAATAAATAATGAGAATTGATAA
TATAAACGCTATTTACAATCCTATCAGTCTTTATCATATCTTTGAAGAAGTTGATTCACTATCAA
AATGACTTTAAGAGAAAGAGTGTCCATTGTTAGATGGTGAAAATAACGGTGTGTTCCCTGTGGAT
ACATAAGATGATGAAATGAATGTTGATGATCAATCTCAACAACAAAATTTATCTCATTCAAGTTC
TAGTGCAACGCCAAGTAAAATTGGTGATGGGCTAGATGGTGGTGGTTTAAGTCCAATTGATGAGG
ATAATAGACAGAGCGGTAATG
Found at i:34524 original size:13 final size:13
Alignment explanation
Indices: 34488--34527 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
34478 GGGTAAATAG
*
34488 TTAATTAAATTAT
1 TTAATTATATTAT
*
34501 TTATTTTATATTAT
1 TTA-ATTATATTAT
34515 TTAATTATATTAT
1 TTAATTATATTAT
34528 AAATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:38011 original size:969 final size:969
Alignment explanation
Indices: 36133--38066 Score: 3210
Period size: 969 Copynumber: 2.0 Consensus size: 969
36123 GGCACCAAAA
* * *
36133 AACATACTTTTGAAGGTTTTTCTTTGGGTAGGAGATCAAAATTTTAGTAACATTGGTTATAGTGG
1 AACATACTTTCGAAGGTTTTTCTTTGGGTAGGAGATCAAAATTTTAGTAACATTGGGTATAGTGA
* *
36198 TTCATCTACTGATAATCAAATCATTAATTTCAATTTGGAGTGGAGTATTCTAAGAATATATTGAC
66 TTCATCTACTGATAATCAAATCATCAATTTCAATTTAGAGTGGAGTATTCTAAGAATATATTGAC
* *
36263 AGAAACATTAGAAGACACAAGATTAGTGATTGAAAGATTAGAACCTTCTATTGATAATCAAATCA
131 AGAAACATTAGAAGACAAAAGATTAGTGATTGAAAGATTAGAAACTTCTATTGATAATCAAATCA
** *
36328 AATTGGTGAATTAGGTTAGATTCAAATACTATTATTTTTAACTTAGTTAAATAATTTTAAATTGA
196 AATTGGTGAATTAGGTTAGATTCAAATACTATTATTTGCAACTTAGTTAAATAATTTAAAATTGA
36393 ATTATTTTTCTCATTTTCACTCAAACTTTTATTTATGCAAATGTTACTATTTAAAAGTAAACATG
261 A-TATTTTTCTCATTTTCACTCAAACTTTTATTTATGCAAATGTTACTATTTAAAAGTAAACATG
* * *
36458 AGACATTCGACACTTCACAAGCACAAATAGTTTGGAATCAAATGAATATGGGTAAATAACTAATT
325 AGACATTCGACACTTCACAAGCACAAATAGTTTGAAATCAAATAAATAGGGGTAAATAACTAATT
* * *
36523 AAATTATTTACTTTATATTATTTAATTATATTGTACATTTTTATGTAAGTTTGAAATTTAATAAT
390 AAATTATTTACTTTATATTATGTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTTAATAAT
* * *
36588 ATTATGCAGTTGAGTGGTGAATGATATATGACACATGTATTCCTAAATTACAATAATTAGCAATT
455 ATTATGCAGTTAAGTGGTGAATGATATAAGACACATGTATTCCTAAATTACAACAATTAGCAATT
* * * *
36653 AAAGTGCTTAGTCAAACAACTTTTGCATCAAATTACGAACGATACTGGAGCACATTCAGATATAT
520 AAAGTGCTTAGTCAAACAACTTCTACATCAAATTACGAACGAAACTGAAGCACATTCAGATATAT
* * *
36718 TCACACCTAATCAAGAAACAGTTGAAATATAAAAAAATTGAGAAACTAGTGTTTACTTGTTACAA
585 TCACACCTAATCAAGAAACAATTGAAATACAAAAAAATTGAGAAACTAGTGTTTACTTATTACAA
* * *
36783 CATAAGGCTTAAACTGAGGCGTCAATAAAGAATGAGCATTGATAATATAAACGCTAGTTACATTC
650 CATAAGGCTTAAAATGAGGCATCAATAAAGAATGAGCATTGATAATATAAACGCTAGTTACAATC
* * *
36848 CTAGCAGACTTGATCATATCTTTGAAGATGTTGATCCACTATCAGAATGAGTTTAAGAGAAAGAG
715 CTACCAGACATGATCATATCTTTGAAAATGTTGATCCACTATCAGAATGAGTTTAAGAGAAAGAG
* * * *
36913 AGTCCATTGTTAGATGGTGAAAATTACAGTGTGTTGCATGTGGATACATCAGATGATGAAATGAA
780 AGTCCATTATTAGATGATGAAAATGACAGTGTGTTGCATGTGGATACATCAGATGATAAAATGAA
* *
36978 TGTTGATGATAAATCTCAACAAGAAAATTTATCTCATTCAAGTTCTAGTGCAACGCCAAGTCAAA
845 TGTTGATGATAAATCTCAACAACAAAATTTATCTCATTCAAGTTCTACTGCAACGCCAAGTCAAA
37043 TTGGTGATGGGCTCGATGGTGGTGGTTTAAGTCCAAATGATGAGGATGATAGACAGAGTT
910 TTGGTGATGGGCTCGATGGTGGTGGTTTAAGTCCAAATGATGAGGATGATAGACAGAGTT
37103 AACATACTTTCGAAGGTTTTTCTTTGGGTAGGAGATCAAAATTTTAGTAACATTGGGTATAGTGA
1 AACATACTTTCGAAGGTTTTTCTTTGGGTAGGAGATCAAAATTTTAGTAACATTGGGTATAGTGA
* *
37168 TTCATCTACTGATAATCAAATCATCAATTTCAATTTAGAGTTGAGTATTCTAAGAATATATTGAT
66 TTCATCTACTGATAATCAAATCATCAATTTCAATTTAGAGTGGAGTATTCTAAGAATATATTGAC
* *
37233 GGAAACATTAGAAGACAAAAGATTAGTGATTGAAAGATTAGAAACTTTTATTGATAATCAAATCA
131 AGAAACATTAGAAGACAAAAGATTAGTGATTGAAAGATTAGAAACTTCTATTGATAATCAAATCA
37298 AATTGGTGAATTAGGTTAGATTCAAATACTATTATTTGCAACTTAGTTAAATAATTTAAAATTGA
196 AATTGGTGAATTAGGTTAGATTCAAATACTATTATTTGCAACTTAGTTAAATAATTTAAAATTGA
* *
37363 A-ATTTTTCTCATTTTCACTCAATCTTTTATTTATGCAAATGTTTCTATTTAAAAGTAAACATGA
261 ATATTTTTCTCATTTTCACTCAAACTTTTATTTATGCAAATGTTACTATTTAAAAGTAAACATGA
* **
37427 GACATTCGACACTTTACAAGCACAAATAGTTTGAAATCAAATAAATACGGGGTAAATAGTTAATT
326 GACATTCGACACTTCACAAGCACAAATAGTTTGAAATCAAATAAATA-GGGGTAAATAACTAATT
37492 AAATTATTTACTTTATATTATGTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTTAATAAT
390 AAATTATTTACTTTATATTATGTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTTAATAAT
* * *
37557 ATTATGCAGTTAAGTGGTGGATGATATAAGGCATATGT-TCTCCTAAATTACAACAATTAGCAAT
455 ATTATGCAGTTAAGTGGTGAATGATATAAGACACATGTAT-TCCTAAATTACAACAATTAGCAAT
* *
37621 TAAAGTTCTTAGTTAAACAACTTCTACATCAAATTACGAACGAAACTGAAGCACATTCA-ACTAT
519 TAAAGTGCTTAGTCAAACAACTTCTACATCAAATTACGAACGAAACTGAAGCACATTCAGA-TAT
*
37685 ATTCACACCTAATCAAGAAACAATTGAAATACAAAAAAATTGAGAAACTAGTGTTTATTTATTAC
583 ATTCACACCTAATCAAGAAACAATTGAAATACAAAAAAATTGAGAAACTAGTGTTTACTTATTAC
* *
37750 AATATAAGGCTTAAAATGAGGCATCAATAAAGAATGAGCATTGATAATATAAATGCTAGTTACAA
648 AACATAAGGCTTAAAATGAGGCATCAATAAAGAATGAGCATTGATAATATAAACGCTAGTTACAA
* * *
37815 TCCTACCAGTCATGATCATATCTTTGAAAATGTTGATCCACTATTAGAATGAGTTTAAGAGAAGG
713 TCCTACCAGACATGATCATATCTTTGAAAATGTTGATCCACTATCAGAATGAGTTTAAGAGAAAG
* *
37880 AGATTCCATTATTAGATGATGAAAATGACAGTGTGTTGCCAT-TGGATATATCAGATGATAAAAT
778 AGAGTCCATTATTAGATGATGAAAATGACAGTGTGTTG-CATGTGGATACATCAGATGATAAAAT
* * * *
37944 GAATGTTGATGATCAATCTCAACAACAATATTTGTCTCATTCAAGTTCTACTGCAACTCCAAGTC
842 GAATGTTGATGATAAATCTCAACAACAAAATTTATCTCATTCAAGTTCTACTGCAACGCCAAGTC
*
38009 AAATTGGTGATGGGCTCGATGGTGGTGGTTTAAGTCCAATTGATGAGGATGATAGACA
907 AAATTGGTGATGGGCTCGATGGTGGTGGTTTAAGTCCAAATGATGAGGATGATAGACA
38067 AAGTGGTAAT
Statistics
Matches: 895, Mismatches: 65, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
968 107 0.12
969 538 0.60
970 250 0.28
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (969 bp):
AACATACTTTCGAAGGTTTTTCTTTGGGTAGGAGATCAAAATTTTAGTAACATTGGGTATAGTGA
TTCATCTACTGATAATCAAATCATCAATTTCAATTTAGAGTGGAGTATTCTAAGAATATATTGAC
AGAAACATTAGAAGACAAAAGATTAGTGATTGAAAGATTAGAAACTTCTATTGATAATCAAATCA
AATTGGTGAATTAGGTTAGATTCAAATACTATTATTTGCAACTTAGTTAAATAATTTAAAATTGA
ATATTTTTCTCATTTTCACTCAAACTTTTATTTATGCAAATGTTACTATTTAAAAGTAAACATGA
GACATTCGACACTTCACAAGCACAAATAGTTTGAAATCAAATAAATAGGGGTAAATAACTAATTA
AATTATTTACTTTATATTATGTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTTAATAATA
TTATGCAGTTAAGTGGTGAATGATATAAGACACATGTATTCCTAAATTACAACAATTAGCAATTA
AAGTGCTTAGTCAAACAACTTCTACATCAAATTACGAACGAAACTGAAGCACATTCAGATATATT
CACACCTAATCAAGAAACAATTGAAATACAAAAAAATTGAGAAACTAGTGTTTACTTATTACAAC
ATAAGGCTTAAAATGAGGCATCAATAAAGAATGAGCATTGATAATATAAACGCTAGTTACAATCC
TACCAGACATGATCATATCTTTGAAAATGTTGATCCACTATCAGAATGAGTTTAAGAGAAAGAGA
GTCCATTATTAGATGATGAAAATGACAGTGTGTTGCATGTGGATACATCAGATGATAAAATGAAT
GTTGATGATAAATCTCAACAACAAAATTTATCTCATTCAAGTTCTACTGCAACGCCAAGTCAAAT
TGGTGATGGGCTCGATGGTGGTGGTTTAAGTCCAAATGATGAGGATGATAGACAGAGTT
Found at i:45520 original size:13 final size:13
Alignment explanation
Indices: 45484--45523 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
45474 AGGTAAATAG
*
45484 TTAATTAAATTAT
1 TTAATTATATTAT
*
45497 TTACTTTATATTAT
1 TTA-ATTATATTAT
45511 TTAATTATATTAT
1 TTAATTATATTAT
45524 ACATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:59263 original size:722 final size:713
Alignment explanation
Indices: 57826--59264 Score: 2274
Period size: 722 Copynumber: 2.0 Consensus size: 713
57816 TGAGAATATA
*
57826 TTGACGGAAACATTAGAAGACACAAGATTAGTGATTGAAAGATTAAAACCTTCTATTGATAATCA
1 TTGACGGAAAAATTAGAAGACACAAGATTAGTGATTGAAAGATTAAAACCTTCTATTGATAATCA
*
57891 AATCAAATTGGTGAATTAGGTTAGATTCAAATACTATTATTTGCAACTTAGTTAAATAATTTAAA
66 AATCAAATTGGTGAATTAGGTTAGATTCAAAAACTATTATTTGCAACTTAGTTAAATAATTTAAA
* * *
57956 ATTGAATTATTTTTCTCATTTTTACTCAAACTTTTATTTATGAAAATGTTTCTATTTGAAAGTAA
131 ATTGAATTATTTTTCTCATTTTCACTCAAACTTTTATTTATGAAAATGTTACTATTTAAAAGTAA
* * *
58021 ACATGAGACATTCGGTACTTTAAAAGCAAAAATAGTTTGAAATCAAATGAATACGGGGTAAATAG
196 ACATGAGACATACGGAACTTCAAAAGCAAAAATAGTTTGAAATCAAATGAATACGGGGTAAATAG
58086 TTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTT
261 TTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTT
* * *
58151 AATAATATTATGCAGTTTAGTGGTGGATGATATATGGCATATGTACTCCTAAATTACAACAATTA
326 AATAATATTATGCAGTTGAGTGGTGGATGATATATCGCACATGTACTCCTAAATTACAACAATTA
* *
58216 ACAATTAAAGTGCTTAGTCAAACAACGTCTGCATCAAATTACAAACGAAACTGAAGCACATTCAC
391 ACAATTAAAATGCTTAGTAAAACAACGTCTGCATCAAATTACAAACGAAACTGAAGCACATTCAC
* * *
58281 ACCTACTCAAGAAACAGTTGAAATACAAAAAAATTGAGAAACTAGTGTTTATTTATTAGAATATA
456 ACCTAATCAAGAAACAGTTGAAATACAAAAAAATTGAGAAACTAGTGTTTACTTATTACAATATA
* **
58346 AGGCTTAAAATGAGGCATCAATAAAGAATGATAATTGATAATATAAATTCTAGTTAAAATCCTAT
521 AGGCTTAAAATGAGGCATCAATAAAGAATGAGAATTGATAATATAAACGCTAGTTAAAATCCTAT
* * * * *
58411 CAGTCTTGATCATCTCTTTGAAGATGTTAATCCACTATCAGAATGACTTTATGAGAAAGAGATTC
586 CAGTCTTGATCATATCTTTGAAGATGTTAATCCACAATCAGAATGACTTTAAGAGAAACAGAGTC
*
58476 CATTATTAGATGGTGAAAATGACAGTGTGTTGCCTGTGGATACATCAGATGATAAAATGAATG
651 CACTATTAGATGGTGAAAATGACAGTGTGTTGCCTGTGGATACATCAGATGATAAAATGAATG
*
58539 TTGACGGAAAAATTAGAAGACACAAGATTAGTGATTGAAAGATTAGAACCTTCTATTGATAATCA
1 TTGACGGAAAAATTAGAAGACACAAGATTAGTGATTGAAAGATTAAAACCTTCTATTGATAATCA
** *
58604 AATCAAATTGGTGAATTAGGTTAGATTCAAAAACTATTATTTTTAACTTAGTTAAATAATTTGAA
66 AATCAAATTGGTGAATTAGGTTAGATTCAAAAACTATTATTTGCAACTTAGTTAAATAATTTAAA
* *
58669 ATTGAATTATTTTTCTCGTTTTCACTCAAACTTTTATTTATGCAAATGTTACTATTTAAAAGTAA
131 ATTGAATTATTTTTCTCATTTTCACTCAAACTTTTATTTATGAAAATGTTACTATTTAAAAGTAA
* ** *
58734 ACTTGAGACATAC-GAAGCTTCACTAGCACAAATAGTTTGAAATCAAATGAATAC-GGGTAAATA
196 ACATGAGACATACGGAA-CTTCAAAAGCAAAAATAGTTTGAAATCAAATGAATACGGGGTAAATA
*
58797 GTTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTTTATGTAAGTTTGAAATT
260 GTTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTTGATGTAAGTTTGAAATT
*
58862 TAATAATATTATGCAGTTGAGTGGTGGATGATATATCGCACATGTATTCCTAAATTACAACAATT
325 TAATAATATTATGCAGTTGAGTGGTGGATGATATATCGCACATGTACTCCTAAATTACAACAATT
* * *
58927 AGCAATTAAAATGCTTAGTTAAAAC-ACTTCTGCATCAAATTACGAACGAAACTGTAGCAAATTC
390 AACAATTAAAATGCTTAG-TAAAACAACGTCTGCATCAAATTACAAACGAAAC--T-G---A---
*
58991 AGCTATATTCACACCTAATCAAGAAACAGTTGAAATACAAAAAAATTGAGAAACTAGTGTTTACT
445 AGC-ACATTCACACCTAATCAAGAAACAGTTGAAATACAAAAAAATTGAGAAACTAGTGTTTACT
* *
59056 TATTACAATATAAGGCTTAAACTGAGGCGTCAATAAAGAATGAGAATTGATAATATAAACGCTAG
509 TATTACAATATAAGGCTTAAAATGAGGCATCAATAAAGAATGAGAATTGATAATATAAACGCTAG
* *
59121 TTACAATCCTATCAGTCTTGATCATATCTTTGAAGATGTTGATCCACAATCAGAATGACTTTAAG
574 TTAAAATCCTATCAGTCTTGATCATATCTTTGAAGATGTTAATCCACAATCAGAATGACTTTAAG
* * ** *
59186 AGAAACAGAGTCCACTGTTCGATGGTGAAAATGATGGTGTGTTGCCTGTGGATGCATCAGATGAT
639 AGAAACAGAGTCCACTATTAGATGGTGAAAATGACAGTGTGTTGCCTGTGGATACATCAGATGAT
*
59251 GAAA-GTAATG
704 AAAATG-AATG
59261 TTGA
1 TTGA
59265 TGATCAATCT
Statistics
Matches: 662, Mismatches: 51, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
712 177 0.27
713 233 0.35
714 1 0.00
715 1 0.00
718 1 0.00
721 4 0.01
722 245 0.37
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (713 bp):
TTGACGGAAAAATTAGAAGACACAAGATTAGTGATTGAAAGATTAAAACCTTCTATTGATAATCA
AATCAAATTGGTGAATTAGGTTAGATTCAAAAACTATTATTTGCAACTTAGTTAAATAATTTAAA
ATTGAATTATTTTTCTCATTTTCACTCAAACTTTTATTTATGAAAATGTTACTATTTAAAAGTAA
ACATGAGACATACGGAACTTCAAAAGCAAAAATAGTTTGAAATCAAATGAATACGGGGTAAATAG
TTAATTAAATTATTTACTTTATATTATTTAATTATATTGTAAATTTTGATGTAAGTTTGAAATTT
AATAATATTATGCAGTTGAGTGGTGGATGATATATCGCACATGTACTCCTAAATTACAACAATTA
ACAATTAAAATGCTTAGTAAAACAACGTCTGCATCAAATTACAAACGAAACTGAAGCACATTCAC
ACCTAATCAAGAAACAGTTGAAATACAAAAAAATTGAGAAACTAGTGTTTACTTATTACAATATA
AGGCTTAAAATGAGGCATCAATAAAGAATGAGAATTGATAATATAAACGCTAGTTAAAATCCTAT
CAGTCTTGATCATATCTTTGAAGATGTTAATCCACAATCAGAATGACTTTAAGAGAAACAGAGTC
CACTATTAGATGGTGAAAATGACAGTGTGTTGCCTGTGGATACATCAGATGATAAAATGAATG
Found at i:86190 original size:94 final size:95
Alignment explanation
Indices: 86055--86232 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 95
86045 TATTATGAGG
** * * * *
86055 AAGGTATCGATACCATTAATTCCAAAATGTAGAAATAGTATCGATATTGTAATAGAGTATCGGTA
1 AAGGTATCGATACCAAGAATTCCAAAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTA
*
86120 CCATAGTATAGAAGTATCGGTACTAAGAGA
66 CCACAGTATAGAAGTATCGGTACTAAGAGA
* * *
86150 AAGGTATCGATACCAAGGA-TCCAGAATGTAGAAATTGTATCGATACTGAAAGAAAGTATCGGTA
1 AAGGTATCGATACCAAGAATTCCAAAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTA
86214 CCACAGTATAGAAGTATCG
66 CCACAGTATAGAAGTATCG
86233 ATACCATGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 57 0.78
95 16 0.22
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (95 bp):
AAGGTATCGATACCAAGAATTCCAAAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTA
CCACAGTATAGAAGTATCGGTACTAAGAGA
Found at i:86268 original size:94 final size:94
Alignment explanation
Indices: 86055--86269 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 94
86045 TATTATGAGG
* * * * * *
86055 AAGGTATCGATACCATTAATTCCAAAATGTAGAAATAGTATCGATATTGTAATAGAGTATCGGTA
1 AAGGTATCGATACCATTGA-TCCAGAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTA
* * *
86120 CCATAGTATAGAAGTATCGGTACTAAGAGA
65 CCACAGTATAGAAGTATCGATACCAAGAGA
** *
86150 AAGGTATCGATACCAAGGATCCAGAATGTAGAAATTGTATCGATACTGAAAGAAAGTATCGGTAC
1 AAGGTATCGATACCATTGATCCAGAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTAC
*
86215 CACAGTATAGAAGTATCGATACCATG-GTA
66 CACAGTATAGAAGTATCGATACCAAGAG-A
** * *
86244 GGGGTATCGATACTATTGAGCCAGAA
1 AAGGTATCGATACCATTGATCCAGAA
86270 ATTTTAAGAT
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
93 1 0.01
94 83 0.83
95 16 0.16
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (94 bp):
AAGGTATCGATACCATTGATCCAGAATGTAGAAATAGTATCGATACTGAAAGAAAGTATCGGTAC
CACAGTATAGAAGTATCGATACCAAGAGA
Found at i:86847 original size:81 final size:81
Alignment explanation
Indices: 86648--88338 Score: 2435
Period size: 81 Copynumber: 21.0 Consensus size: 81
86638 TGTTTTAAAA
* *
86648 TAAAAGATTAAATGCCTATCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGAT-----
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
86708 GTTAAATACCTTAGAG
66 GTTAAATACCTTTGAG
* ** * * *
86724 TAAAAGATTAAATGCATATATGTGCATTTGAAAGAAAGGTGTCAATCATGCCAGTTATATTAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
86789 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
86805 TAAAAGATTAAATGCCTAGCTGTGTATTTAAGAAAAATGTGTCAATCATGCCAGTTAGATGAAAT
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* * *
86870 TTTAAAAAACTTTGAG
66 GTTAAATACCTTTGAG
*
86886 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGCCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
86951 GTTAAATATCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
86967 TAAAAGATTAAATACCTTGTTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87032 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
87048 T-GAAGATTAAATGCCTAGCTGAGCATTTGACAGGAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87112 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
87128 TAAAAGATTAAATTCCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87193 G-TAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
87208 T-AAACATTAAATGTCTAGCTGAGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
87272 GTTAAATACCTCTGAG
66 GTTAAATACCTTTGAG
* * *
87288 TAAAATATTAAATGCTTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87353 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
87369 TAAAAGATTAAATGTCTAGCTGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
87434 GTTAAATAACTTTGAG
66 GTTAAATACCTTTGAG
* * *
87450 TGAAAGATTAAATGCCTAGCTGTGCATTTGACAGGAAGGTGTCAATCATGCCAGTTTGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87515 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
87531 TAAAAGATTAAATTCCTAGTTGTGCATTTGATAGAAAGGTGACAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
87596 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
87612 TAAAAGATTAAATGCCTAGCTGTGCATTTGATAGAAATGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87677 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
87693 TGAAAGATTAAATGCTTAGTTGTGCATTTGACAGGAATGTGTCAATCATGCCAGTTAGATGAACG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87758 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
87774 TAAAAGATTAAATTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
87839 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
87855 TAAAACATTAAATGCCTAGCTGAGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
87920 GTTAAATACCTCTGAG
66 GTTAAATACCTTTGAG
* * *
87936 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATTAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* **
88001 GTTAAATACGTTAAAG
66 GTTAAATACCTTTGAG
* * * * * * * *
88017 TAAAATATTAAATGCCTAGATATGCATTTGACATAAATGTGTTAATCATGTCAGCTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
88082 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * ** * * *
88098 TAAAATATTAAATGCCTAGTTATGTATTTGACAAAAATATGTCAATTATTCCAATTAGATGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
88163 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * *
88179 TAAAAGATTAAATTGCCTAGTTGTGCATTTGACATAAAGGTGTCAATAATGCCAGTTAGAGGAAA
1 TAAAAGATTAAA-TGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
88244 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * *
88261 TAAAAGATTAAATGCCTAACTGTGCATTTGATAGAAAGATGTCAATCGTGCAAGTTAGAAGAAAG
1 TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
88326 ATTAAAAACCTTT
66 GTTAAATACCTTT
88339 AGGATGAACG
Statistics
Matches: 1447, Mismatches: 159, Indels: 13
0.89 0.10 0.01
Matches are distributed among these distances:
76 55 0.04
79 58 0.04
80 102 0.07
81 1161 0.80
82 71 0.05
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:99257 original size:21 final size:22
Alignment explanation
Indices: 99231--99271 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
99221 AATTATGGCA
* *
99231 GTTAGA-TGAAAGGTTAAATAC
1 GTTAGAGTAAAAGATTAAATAC
99252 GTTAGAGTAAAAGATTAAAT
1 GTTAGAGTAAAAGATTAAAT
99272 GCCTAGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.29
Consensus pattern (22 bp):
GTTAGAGTAAAAGATTAAATAC
Found at i:99314 original size:81 final size:81
Alignment explanation
Indices: 99178--100229 Score: 1491
Period size: 81 Copynumber: 13.0 Consensus size: 81
99168 AACTTTAAAT
* * * * *
99178 TAAAAGATTAAATGCATAGTTGTGCTTTTGACAGAAAAGTGTCAATTATGGCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
99243 GTTAAATACGTTAGAG
66 GTTAAATACCTTTGAG
* *
99259 TAAAAGATTAAATGCCTAGATGTGCATTTGATAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
99324 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *** *
99340 TAAAACATTAAA-GCCTAGTTGTTCATTTAACAGAAAGCCATCAATAATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
99404 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * *
99420 TAAAAGATTAAATGCCTAGTTATGCATTTGACATAAAAGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
99485 GTTAAAAACCTTTGAG
66 GTTAAATACCTTTGAG
* ** * ** ** * *
99501 TAAAATATTAAATGCCTAACTGTGTATTTGACAGAAATATGTCAATCATGTTAGCTAGATGTAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
99566 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
99582 TAAAAGATTAAATGCCTAGATGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
99647 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
99663 TAAAAGATTAAATGCCTAGTTGTTCATTTGACAGAAAGGTGTCAATCACGCCAGTTAAATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
99728 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
99744 TAAAA-ATTTAAATGCCTAGCTGAGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 TAAAAGA-TTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
99808 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* *
99825 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAAATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
99890 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * *
99906 TAAAAGATTAAATGCCTAGTTGTGCATTTGATAGAAATGTGTCTATCATGTCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
99971 GTTAAATATACCTTTGGG
66 GTT-AA-ATACCTTTGAG
* * * *
99989 TAAACGATTAAATGCCCAGCTGTGCATTTGAAAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
100054 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
100070 TAAAATATTAAATGCCTAGCTGAGCATTTGACAGAAAGGTATCAGTCATGCTAGTTAGATGAAAG
1 TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
*
100135 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* *
100151 TAAAAGATTAAATGCCTAACTT-TGCATTCT-ACAGAAAGGTGTCAATCATGCAAGTTAGATGAA
1 TAAAAGATTAAATGCCT-AGTTGTGCATT-TGACAGAAAGGTGTCAATCATGCCAGTTAGATGAA
*
100214 AGGCTAAATACCTTTG
64 AGGTTAAATACCTTTG
100230 GGATGAAAAA
Statistics
Matches: 862, Mismatches: 102, Indels: 14
0.88 0.10 0.01
Matches are distributed among these distances:
80 71 0.08
81 713 0.83
82 8 0.01
83 70 0.08
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (81 bp):
TAAAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Done.