Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016462.1 Corchorus olitorius cultivar O-4 contig16495, 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: 76489
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:10 original size:2 final size:2
Alignment explanation
Indices: 4--46 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1 TAT
4 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46 T
1 T
47 GAAAGACACG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8188 original size:17 final size:17
Alignment explanation
Indices: 8162--8194 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8152 ACTTACATTC
8162 TTTTTGTTTTTTGTTGT
1 TTTTTGTTTTTTGTTGT
*
8179 TTTTTTTTTTTTGTTG
1 TTTTTGTTTTTTGTTG
8195 GGGGGATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTGTTTTTTGTTGT
Found at i:14394 original size:35 final size:35
Alignment explanation
Indices: 14354--14424 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
14344 GAGAAACTCG
14354 TGAGAATAGAACAACCAAAGGCCTAGTTACATCCA
1 TGAGAATAGAACAACCAAAGGCCTAGTTACATCCA
*
14389 TGAGAATAGAACAACCAAAGGGCTAGTTACATCCA
1 TGAGAATAGAACAACCAAAGGCCTAGTTACATCCA
14424 T
1 T
14425 AATTAAGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (35 bp):
TGAGAATAGAACAACCAAAGGCCTAGTTACATCCA
Found at i:20359 original size:24 final size:24
Alignment explanation
Indices: 20317--20364 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20307 TTAACTATGA
20317 CTATGGAATAAAACATGGATTAAT
1 CTATGGAATAAAACATGGATTAAT
*
20341 CTATGGAA-AAAACTTTGGATTAAT
1 CTATGGAATAAAAC-ATGGATTAAT
20365 TTATAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (24 bp):
CTATGGAATAAAACATGGATTAAT
Found at i:31646 original size:71 final size:70
Alignment explanation
Indices: 31562--31699 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 70
31552 TAACTGAACC
*
31562 ATTCATATAAACTTTGAGCTGCAAC-AGGCAGCAAAATCCTAATCCA-AATATCTCAAAAAAGCA
1 ATTCATATAAACTTTGAACTGCAACAAGGCAGCAAAATCCTAAT-CAGAATATCT--AAAAAGCA
31625 TTTATAAT
63 TTTATAAT
* *
31633 ATTCATATAAACTTTGAACTGCAACAAGGCAGCAAATTCCTAATCAGAATGTCTAAAAAGCATTT
1 ATTCATATAAACTTTGAACTGCAACAAGGCAGCAAAATCCTAATCAGAATATCTAAAAAGCATTT
31698 AT
66 AT
31700 TGAACTATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
70 13 0.21
71 26 0.42
72 23 0.37
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (70 bp):
ATTCATATAAACTTTGAACTGCAACAAGGCAGCAAAATCCTAATCAGAATATCTAAAAAGCATTT
ATAAT
Found at i:31962 original size:14 final size:14
Alignment explanation
Indices: 31945--31975 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31935 TTCAAGAATC
31945 AATCAAATTAAGAA
1 AATCAAATTAAGAA
31959 AATCAAATTAAGAA
1 AATCAAATTAAGAA
31973 AAT
1 AAT
31976 GGCTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (14 bp):
AATCAAATTAAGAA
Found at i:32861 original size:31 final size:31
Alignment explanation
Indices: 32826--32920 Score: 190
Period size: 31 Copynumber: 3.1 Consensus size: 31
32816 CCAGATCCTA
32826 AAAATCATAATCAGAGAAATAAGCCATTTAG
1 AAAATCATAATCAGAGAAATAAGCCATTTAG
32857 AAAATCATAATCAGAGAAATAAGCCATTTAG
1 AAAATCATAATCAGAGAAATAAGCCATTTAG
32888 AAAATCATAATCAGAGAAATAAGCCATTTAG
1 AAAATCATAATCAGAGAAATAAGCCATTTAG
32919 AA
1 AA
32921 CTTAAAAGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (31 bp):
AAAATCATAATCAGAGAAATAAGCCATTTAG
Found at i:32972 original size:108 final size:108
Alignment explanation
Indices: 32857--33102 Score: 426
Period size: 108 Copynumber: 2.3 Consensus size: 108
32847 AGCCATTTAG
*
32857 AAAATCATAATCAGAGAAATAAGCCATTTAGAAAATCATAATCAGAGAAATAAGCCATTTAGAAC
1 AAAATCATAATCAGAGAAATAAGCCATTTAGAAAATCATAATCAGAGAAATAAGCCATTTAGAAA
* *
32922 TTAAAAGTAATCAGAAAATATATGTCAGCAATCCCATATCCTA
66 ATAAAAGTAATCAGAAAATATATGTCAGCAATCCCAAATCCTA
*
32965 AAAATCATAATTAGAGAAATAAGCCATTTAGAAAATCATAATCAGAGAAATAAGCCATTTAGAAA
1 AAAATCATAATCAGAGAAATAAGCCATTTAGAAAATCATAATCAGAGAAATAAGCCATTTAGAAA
*
33030 ATAAAAGTAATCAGGAAATATATGTCAGCAATCCCAAATCCTA
66 ATAAAAGTAATCAGAAAATATATGTCAGCAATCCCAAATCCTA
33073 AAAATCATAATCAGAG--A-AAGCCATTTAGAA
1 AAAATCATAATCAGAGAAATAAGCCATTTAGAA
33103 CTTAGTAATC
Statistics
Matches: 132, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
105 13 0.10
106 1 0.01
108 118 0.89
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (108 bp):
AAAATCATAATCAGAGAAATAAGCCATTTAGAAAATCATAATCAGAGAAATAAGCCATTTAGAAA
ATAAAAGTAATCAGAAAATATATGTCAGCAATCCCAAATCCTA
Found at i:33003 original size:31 final size:31
Alignment explanation
Indices: 32965--33031 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
32955 CCATATCCTA
*
32965 AAAATCATAATTAGAGAAATAAGCCATTTAG
1 AAAATCATAATCAGAGAAATAAGCCATTTAG
32996 AAAATCATAATCAGAGAAATAAGCCATTTAG
1 AAAATCATAATCAGAGAAATAAGCCATTTAG
33027 AAAAT
1 AAAAT
33032 AAAAGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (31 bp):
AAAATCATAATCAGAGAAATAAGCCATTTAG
Found at i:33031 original size:16 final size:17
Alignment explanation
Indices: 32975--33033 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 17
32965 AAAATCATAA
32975 TTAGAGAAATAAGCCAT
1 TTAGAGAAATAAGCCAT
* * *
32992 TTAGA-AAATCA--TAA
1 TTAGAGAAATAAGCCAT
*
33006 TCAGAGAAATAAGCCAT
1 TTAGAGAAATAAGCCAT
33023 TTAGA-AAATAA
1 TTAGAGAAATAA
33034 AAGTAATCAG
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 11 0.35
17 10 0.32
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.24
Consensus pattern (17 bp):
TTAGAGAAATAAGCCAT
Found at i:57922 original size:103 final size:103
Alignment explanation
Indices: 57810--58016 Score: 369
Period size: 103 Copynumber: 2.0 Consensus size: 103
57800 TAATAGTTAG
*
57810 TTTTATTTAAGATGAGTAGTTTTTATTTAATTTTGAATTTTTTAAAAACTAAGTTTGTTTATGAG
1 TTTTATTTAAGATGAGTAGTTTTTATTTAATTTTAAATTTTTTAAAAACTAAGTTTGTTTATGAG
57875 TCAACTCGTGACACAAACTCAGAACTTGACTTTATAAT
66 TCAACTCGTGACACAAACTCAGAACTTGACTTTATAAT
* *
57913 TTTTATTTAAGATGAGTAGTTTTTATTTAGTTTTAAATTTTTTAAAAACTAAGTTTGTTTCTGAG
1 TTTTATTTAAGATGAGTAGTTTTTATTTAATTTTAAATTTTTTAAAAACTAAGTTTGTTTATGAG
* *
57978 TCAACTTGTGACACAAATTCAGAACTTGACTTTATAAT
66 TCAACTCGTGACACAAACTCAGAACTTGACTTTATAAT
58016 T
1 T
58017 AGTATAGATA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (103 bp):
TTTTATTTAAGATGAGTAGTTTTTATTTAATTTTAAATTTTTTAAAAACTAAGTTTGTTTATGAG
TCAACTCGTGACACAAACTCAGAACTTGACTTTATAAT
Found at i:58258 original size:12 final size:12
Alignment explanation
Indices: 58241--58268 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58231 AATCTATCAA
58241 CTTCCATATTTG
1 CTTCCATATTTG
58253 CTTCCATATTTG
1 CTTCCATATTTG
58265 CTTC
1 CTTC
58269 ACGAAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (12 bp):
CTTCCATATTTG
Found at i:72368 original size:325 final size:328
Alignment explanation
Indices: 71692--72942 Score: 1717
Period size: 325 Copynumber: 3.8 Consensus size: 328
71682 CACAAGATCA
* * *
71692 TTAGTACATAATTTCGGTTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTTG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
71757 CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTA
66 CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTA
** *
71822 ATATCGTTTTTCTTATTTTTTTCCCTGAATTAATTT-TAAAAAAATCGAAACCAAATTGAGATGC
131 ATATCG--TTTC---TTTTTTT-CC-GAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGC
* * *
71886 TCGTAAAAACAAATTCTTAAATCCAATGTGGCTGAGCTTTCGTTAGATGAATATAGATATTTCAA
189 TCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAA
* * * * * *
71951 TGAGTCTTGACGGCAAAAATTATGCAAAACTGAGCCGGGGACTCGGAACGCGTTTTTGGTCAAAA
254 TCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAA
72016 ACCATGATGG
319 ACCATGATGG
*
72026 TTAGTACATGATTTCGGCTAAAATTTTACAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
* *
72091 CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAGAGATTGAAGGGCTTCTCACGCTTCTA
66 CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTA
* * * *
72156 ATATCG-TT-TTTTTTT-CAAATTAATTTCTAATTAAATCGAAAACGGATTGAGATGCTCATAAA
131 ATATCGTTTCTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAA
* * *
72218 AATAAATCCTTAAATCCAATTTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTTT
196 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
* * * * * *
72283 TGACGCCAAAAAACATGCAAAACTAAGCCAGGGCCCCAGAATGCGTTTTTAGTCAAAAACCGTGA
261 TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCATGA
72348 TGG
326 TGG
** *
72351 TTAGTACATGATTTCGGCTAAGGTTTTGCAAAAATTAACCTGAAACATTTCTCCTCAATTTTTGG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
* * *
72416 CCACAATACTCATAAAAAATA-TATAACTCAATGCCAAAAAGATTGAAGGACTTCTCACACTTCT
66 CCACAATACTCATAAAGAATACT-TAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCT
72480 AATATCGTTTTTCCTTATTTTTCCCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGC
130 AATATCG--TTT-CTT-TTTTT--CCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGC
** * * *
72545 TCGT-AAAACAAATCCTTAAAGACAATGTGTCTAAGCTTTCGATAGTTGAATATAGATATTTCAA
189 TCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAA
* * * *
72609 TCAGTCTTGACGCGAAAAATCATGCAAAACTGAGTCGGGGCCCCGGAACGCGATTTTAGTAAAAA
254 TCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAA
72674 ACCAT-ATTGG
319 ACCATGA-TGG
* * *
72684 TTAGTACATGATTTCAGCTAACATTTTGCAAAAATAGACCTGAAACATTTCTCCTCAATTTTTGG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
* ** * * * * *
72749 ACACAATACAAATAAAGAGTACTTAACTCAACTCCAAAAAGATTGAAGGGCTTTTCACGCTTTTA
66 CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTA
* * * * **
72814 ATATTGTTT-TTTTTTTTCGATTTAATTTCTAATTAAATCGAAACCGGATTGAGATATTCGTAAA
131 ATATCGTTTCTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAA
** *
72878 AACAAATCCTTAAATCTTATATGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
196 AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
72943 GAGATGCTTG
Statistics
Matches: 811, Mismatches: 92, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
324 10 0.01
325 270 0.33
326 40 0.05
327 66 0.08
328 7 0.01
329 2 0.00
330 2 0.00
331 10 0.01
332 1 0.00
333 232 0.29
334 171 0.21
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (328 bp):
TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTGG
CCACAATACTCATAAAGAATACTTAACTCAACGCCAAAAAGATTGAAGGACTTCTCACGCTTCTA
ATATCGTTTCTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAA
AACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCT
TGACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGTCAAAAACCATGA
TGG
Found at i:72996 original size:79 final size:79
Alignment explanation
Indices: 72873--73021 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 79
72863 TGAGATATTC
* * * *
72873 GTAAAAACAAATCCTTAAATCTTATATGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATC
1 GTAAAAACAAATCCTTAAAACTAATATGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATA
72938 AGTCTGAGATGCTT
66 AGTCTGAGATGCTT
*
72952 GTAAAAACAAATCCTTAAAGAC-AATGTGTCTGAGCTTTCACTAGATGAATATAGATATTTCAAT
1 GTAAAAACAAATCCTTAAA-ACTAATATGTCTGAGCTTTCACTAGATGAATATAGATATTTCAAT
73016 AAGTCT
65 AAGTCT
73022 TGAATCCAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 63 0.98
80 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (79 bp):
GTAAAAACAAATCCTTAAAACTAATATGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATA
AGTCTGAGATGCTT
Found at i:73423 original size:736 final size:736
Alignment explanation
Indices: 72203--73675 Score: 2087
Period size: 736 Copynumber: 2.0 Consensus size: 736
72193 GAAAACGGAT
* ** * *
72203 TGAGATGCTCATAAAAATAAATCCTTAAATCCAATTTGTCTGAGCTTTCGCTAGATGAATATAGA
1 TGAGATGCTCATAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
* * * *
72268 TATTTCAATCAGTTTTGACGCCAAAAAACATGCAAAACTAAGCCAGGGCCCCAGAATGCGTTTTT
66 TATTTCAATAAGTCTTGAAGCCAAAAAACATGCAAAACTAAGCCAGGGCCCCAGAACGCGTTTTT
* * *
72333 AGTCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGGTTTTGCAAAAATTAACCTGAAACA
131 AGTCAAAAACCGTGATGGTTAGTACATGATTCCGGCTAAGATTTTGCAAAAATTAACCTCAAACA
*
72398 TTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAATGCCAAAAAGATTGAA
196 TTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
*
72463 GGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCCGAATTAATTTCTAATTAAATCG
261 GGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCCGAATTAATTTATAATTAAATCG
* *
72528 AAACCAGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATGTGTCTAAGCTTTCGATAGTTG
326 AAACCAGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATGGGTCTAAGCTTTCGATAGATG
* * * *
72593 AATATAGATATTTCAATCAGTCTTGACGCGAAAAATCATGCAAAACTGAGTCGGGGCCCCGGAAC
391 AATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCAGGGCCCCGGAAC
*
72658 GCGATTTTAGTAAAAAACCATATTGGTTAGTACATGATTTC-AGCTAACATTTTGCAAAAA-TAG
456 GCGATTTTAGTAAAAAACCATATTGGTTAGTACATGATTTCGA-CTAAAATTTTGCAAAAACT-G
*
72721 ACCTGAAACATTTCTCCTCAATTTTTGGACACAATACAAATAAAGAGTACTTAACTCAACTCCAA
519 ACCTGAAACATTTCTCCTCAATTTTTGGACACAATACAAATAAAGAGTACTTAACTCAACACCAA
* * * * * *
72786 AAAGATTGAAGGGCTTTTCACGCTTTTAATATTG-TTTT-TTTTTTTCGATTTAATTTCTAATTA
584 AAACATT-----GCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCAAATTAATTTCTAATTA
* * * ** *
72849 AATCGAAACCGGATTGAGATATTCGTAAAAACAAATCCTTAAATCTTATATGTCTGAGCTTTCGC
644 AATCGAAAACGGATTGAGATACTCATAAAAACAAATCCTTAAATCCAATATGTCTAAGCTTTCGC
72914 TAGATGAATATAGATATTTCAATCAGTC
709 TAGATGAATATAGATATTTCAATCAGTC
**
72942 TGAGATGCTTGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
1 TGAGATGCTCATAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
* * * *
73007 TATTTCAATAAGTCTTGAATCCAAAAATCATGCAAAACTGAGCC-GGGACCCCGGAACGCGTTTT
66 TATTTCAATAAGTCTTGAAGCCAAAAAACATGCAAAACTAAGCCAGGG-CCCCAGAACGCGTTTT
*
73071 TAGTC-AAAACCGTGATGGTTAGTACATGATTCCGGCTTAA-ATTTTGCAAAAATTTACC-CAAA
130 TAGTCAAAAACCGTGATGGTTAGTACATGATTCCGGC-TAAGATTTTGCAAAAATTAACCTCAAA
* ** *
73133 TCA-TT-T-CTCAATTTTTGGCCATCAATACTCATAAAATATATATATTTCAACGCCAAAAATAT
194 -CATTTCTCCTCAATTTTTGGCCA-CAATACTCATAAAAAATATATAACTCAACGCCAAAAAGAT
* * *
73195 TGAAGGACTTCTCACGCTTCTAATATCGTTTTT-CTT-TTTCTTTCCTGAATTAATTTATAATTA
257 TGAAGGACTTCTCACACTTCTAATATCGTTTTTCCTTATTT-TTCCCCGAATTAATTTATAATTA
*
73258 AATCGAAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATG-CAATGGGTCTGAA-CTTTC
321 AATCGAAACCAGATTGAGATGCTCGT-AAAACAAATCCTTAAA-GACAATGGGTCT-AAGCTTTC
* * * *
73321 GCTAGATGAATAAAGATATTTCGATGAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCAGGGT
383 GATAGATGAATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCAGGGC
* * * *
73386 CCCGGAACGCGTTTTTAGTCAAAAACCGTGA-TGGTTAGTACATTATTTCGACTAAAATTTTGCA
448 CCCGGAACGCGATTTTAGTAAAAAACCAT-ATTGGTTAGTACATGATTTCGACTAAAATTTTGCA
* * ** *
73450 AAAACTGACCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAGTACTTAATTCA
512 AAAACTGACCTGAAACATTTCTCCTCAATTTTTGGACACAATACAAATAAAGAGTACTTAACTCA
* *
73515 ACACCAAAAACATTTCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCAAATTAATTTCTGAT
577 ACACCAAAAACATTGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCAAATTAATTTCTAAT
* * *
73580 TAAATCGAAAACGGATTGAGATGCTCATAAAAATAAATCCTTAAATCCAATTTGTCTAAGCTTTC
642 TAAATCGAAAACGGATTGAGATACTCATAAAAACAAATCCTTAAATCCAATATGTCTAAGCTTTC
73645 GCTAGATGAATATAGATATTTCAATCAGTC
707 GCTAGATGAATATAGATATTTCAATCAGTC
73675 T
1 T
73676 TAACGCCAAA
Statistics
Matches: 654, Mismatches: 67, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
731 18 0.03
732 4 0.01
733 107 0.16
734 3 0.00
735 63 0.10
736 279 0.43
737 11 0.02
738 51 0.08
739 118 0.18
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (736 bp):
TGAGATGCTCATAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
TATTTCAATAAGTCTTGAAGCCAAAAAACATGCAAAACTAAGCCAGGGCCCCAGAACGCGTTTTT
AGTCAAAAACCGTGATGGTTAGTACATGATTCCGGCTAAGATTTTGCAAAAATTAACCTCAAACA
TTTCTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
GGACTTCTCACACTTCTAATATCGTTTTTCCTTATTTTTCCCCGAATTAATTTATAATTAAATCG
AAACCAGATTGAGATGCTCGTAAAACAAATCCTTAAAGACAATGGGTCTAAGCTTTCGATAGATG
AATAAAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCAGGGCCCCGGAAC
GCGATTTTAGTAAAAAACCATATTGGTTAGTACATGATTTCGACTAAAATTTTGCAAAAACTGAC
CTGAAACATTTCTCCTCAATTTTTGGACACAATACAAATAAAGAGTACTTAACTCAACACCAAAA
ACATTGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCAAATTAATTTCTAATTAAATCGAA
AACGGATTGAGATACTCATAAAAACAAATCCTTAAATCCAATATGTCTAAGCTTTCGCTAGATGA
ATATAGATATTTCAATCAGTC
Found at i:74995 original size:655 final size:651
Alignment explanation
Indices: 72942--75455 Score: 3240
Period size: 655 Copynumber: 3.8 Consensus size: 651
72932 TCAATCAGTC
* *
72942 TGAGATGCTTGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
1 TGAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
* ** *
73007 TATTTCAATAAGTCTTGAATCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAACGCGTTTTT
66 TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAATGCGTTTTT
* * * *
73072 AGTC-AAAACCGTGATGGTTAGTACATGATTCCGGCTTAAATTTTGCAAAAATTTACC-CAAATC
131 AGTCAAAAACCGTGATGGTTAGTACATGATTTC-GCCTAAATTTTGCAAAAACTTACCTGAAA-C
* ** *
73135 ATTTCT-C-AATTTTTGGCCATCAATACTCATAAAATATATATATTTCAACGCCAAAAATATTGA
194 ATTTCTCCTAATTTTTGGCCA-CAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
* * *
73198 AGGACTTCTCACGCTTCTAATATCGTTTTTCTTTTTCTTTCCTGAATTAATTTATAATTAAATCG
258 AAGACTTCTCACGCTTCTAATATCG-TTTTATTTTTC---CC-GAATTAATTTCTAATTAAATCG
* *
73263 AAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATG-CAATGGGTCTGAACTTTCGCTAGA
318 AAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAA-GACAATGTGTCTGAGCTTTCGCTAGA
* * * * * *
73327 TGAATAAAGATATTTCGATGAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCAGGGTCCCGGA
382 TGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAAATGAGCC-GGGGCCCGAA
* *
73392 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATTATTTCGACTAAAATTTTGCAAAAACTG
446 ACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGACTAAAATTTT-CAAAAATTG
*
73457 ACCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAGTACTTAATTCAACACCAA
510 ACCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAATACTTAATTCAACACCAA
* *
73522 AAACATTT----CTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCAAATTAATTTCTGATTAA
575 AAACATTTAAGGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCGAATTAATTTCTAATTAA
*
73583 ATCGAAAACGGAT
640 ATCG-AAACAGAT
* * * * * *
73596 TGAGATGCTCATAAAAATAAATCCTTAAATCCAATTTGTCTAAGCTTTCGCTAGATGAATATAGA
1 TGAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
* * *
73661 TATTTCAATCAGTCTTAACGCCAAAAAACATGCAAAACTAAGCCAGGG-CCCCGGAATGCGTTTT
66 TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCC-GGGACCCCGGAATGCGTTTT
* *
73725 TAGTCAAAAACCGTGATGGTTAGTAC---ATTT-G-C-AAAATTT------A---ACCTGAAAGA
130 TAGTCAAAAACCGTGATGGTTAGTACATGATTTCGCCTAAATTTTGCAAAAACTTACCTGAAACA
*
73775 TTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
195 TTTCTCCT-AATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
* * * *
73840 GGAATTCTCACACTTCTAATATCGTTTTTCCTTATTTTTTCCCGAATTTATTTCTAATTAAATCG
259 AGACTTCTCACGCTTCTAATATCG---TT--TTA-TTTTTCCCGAATTAATTTCTAATTAAATCG
** * * *
73905 AAACCAAATTGAGATGCTCGT-AAAACAAATCCTTAAAGACAATATGTCTGAGCTTTTGCTAGTT
318 AAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGAT
** * * * *
73969 GAATATAGATATTTCAATTTGTCTTGACGCGAGAAATCATGCAAAAATGAGACGGGGCCCCAGAA
383 GAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAAATGAGCCGGGGCCCGA-AA
* * * *
74034 CGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCAACTAAAATTTTGTAAAATTTAA
447 CGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGACTAAAATTTT-CAAAAATTGA
*
74099 CCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAATACTTAACTCAACACCAAA
511 CCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAATACTTAATTCAACACCAAA
* * * * *
74164 AATATTGAAGGGCTTCTCACGCTTTTAATATCGTTTTTCTTTTTTTTTTGGAGTTAATTTCTAAT
576 AACATTTAA-GGCTTCTCACGCTTCTAATATCGTTTTTC---TTTTTTTCGAATTAATTTCTAAT
*
74229 TAAATCGAAATATGAT
637 TAAATCGAAACA-GAT
* * *
74245 TGAGATGTTCGTAAAAACAAATCCTTAAATATAACGTGTCTGAGCTTTCACTAGATGAATATAGA
1 TGAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
*
74310 TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGTGG-CCCCAGAATGCGTTTT
66 TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCG-GGACCCCGGAATGCGTTTT
74374 TAGTCAAAAACCGTGATGGTTAGTACATGATTTCGCCTAAGATTTTGCAAAAACTTACCTGAAAC
130 TAGTCAAAAACCGTGATGGTTAGTACATGATTTCGCCTAA-ATTTTGCAAAAACTTACCTGAAAC
*
74439 ATTTCTCCATAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGA
194 ATTTCTCC-TAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGA
*
74504 AAGACTTCTCACGCCTCTAATATCG-TTT-TTTTTCCCGAATTAATTTCTAATTAAATCGAAACC
258 AAGACTTCTCACGCTTCTAATATCGTTTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACC
*
74567 GGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCGTTCGCTAGATGAATA
323 GGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGAATA
* * * *
74632 TAGATA-TTCAATCAGTCTTGACGCGAAAAATCATGCAAAACTGAGCCGGGGCAACGAAATGCGT
388 TAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAAATGAGCCGGGGC-CCGAAACGCGT
* * *
74696 TTTTAGTC-AAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTACAAAAATTTACC-CA
452 TTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGACTAAAATTTT-CAAAAATTGACCTGA
* * * * *
74759 AATCA-TT-T-CTCAATTTTTGCCCATCAATACTCGTAAAAAATA-TATATTTCAACGCCAAAAA
516 AA-CATTTCTCCTCAATTTTTGGCCAT-AATACTCATAAAGAATACT-TAATTCAACACCAAAAA
* * *
74820 GATTTAAGGACTTCTCCCGCTTCTAATATCGTTTTTCTTTTACATTCCCGAATTAATTTCTAATT
578 CATTTAAGG-CTTCTCACGCTTCTAATATCGTTTTTCTTTT---TT-TCGAATTAATTTCTAATT
74885 AAATCGAAACCAGAT
638 AAATCGAAA-CAGAT
* * * *
74900 TGAGATTCTCGTAAAAACAAATCGTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATAGA
1 TGAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
* *
74965 TATTTCAATCAGTGTTTACGCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAATGCGTTTTT
66 TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAATGCGTTTTT
* * * * *
75030 AGTTAAAAACCGTAATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACATGAAACA
131 AGTCAAAAACCGTGATGGTTAGTACATGATTTCGCCTAA-ATTTTGCAAAAACTTACCTGAAACA
* * * *
75095 TTTCTTCTTAATTTTTGGCCACAATACTCATAAAAAATATATACCTCACCGCCAAAAAGATTAAA
195 TTTC-TCCTAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAA
*
75160 AGAGTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTCCCGAATTAA-TTCTAATTAAATCG
259 AGACTTCTCACGCTTCTAATATCG----T--TTTATTTTTCCCGAATTAATTTCTAATTAAATCG
**
75224 AAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATTCAATGTGTCTGAGCTTTCGCTAGAT
318 AAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGAT
* * * * *
75289 GAATATAGGTATTTCAATCAGTGTTTACGCCAAAAATCATGCAAAAATGAGTCGGGGCCCCGTAA
383 GAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAAATGAGCCGGGG-CCCGAAA
*
75354 CGCGTTTTTAGTC--AAACCGTGATAGTTAGTACATGATTTCGACTAAAATTTTCCAAAAATTGA
447 CGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTTCGACTAAAATTTT-CAAAAATTGA
75417 CCTGAAACA-TT-T-CTCAATTTTTGGCCATAATACTCATAA
511 CCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAA
75456 GGAGTACATA
Statistics
Matches: 1635, Mismatches: 161, Indels: 121
0.85 0.08 0.06
Matches are distributed among these distances:
639 8 0.00
640 11 0.01
641 272 0.17
642 52 0.03
643 5 0.00
645 2 0.00
646 32 0.02
648 10 0.01
649 169 0.10
650 1 0.00
651 4 0.00
652 7 0.00
653 19 0.01
654 180 0.11
655 315 0.19
656 56 0.03
657 103 0.06
658 52 0.03
659 2 0.00
661 11 0.01
662 158 0.10
663 74 0.05
664 1 0.00
665 90 0.06
666 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (651 bp):
TGAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGTCTGAGCTTTCACTAGATGAATATAGA
TATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGACCCCGGAATGCGTTTTT
AGTCAAAAACCGTGATGGTTAGTACATGATTTCGCCTAAATTTTGCAAAAACTTACCTGAAACAT
TTCTCCTAATTTTTGGCCACAATACTCATAAAAAATATATAACTCAACGCCAAAAAGATTGAAAG
ACTTCTCACGCTTCTAATATCGTTTTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACCGGA
TTGAGATGCTCGTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCTTTCGCTAGATGAATATAG
ATATTTCAATCAGTCTTGACGCCAAAAATCATGCAAAAATGAGCCGGGGCCCGAAACGCGTTTTT
AGTCAAAAACCGTGATGGTTAGTACATGATTTCGACTAAAATTTTCAAAAATTGACCTGAAACAT
TTCTCCTCAATTTTTGGCCATAATACTCATAAAGAATACTTAATTCAACACCAAAAACATTTAAG
GCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAGA
T
Found at i:75224 original size:333 final size:332
Alignment explanation
Indices: 73752--75455 Score: 2214
Period size: 333 Copynumber: 5.2 Consensus size: 332
73742 GGTTAGTACA
* * * *
73752 TTTGCAAAATTTAACCTGAAAGATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATAT
1 TTTGCAAAAATTGACCTGAAACA--TTTCTTCAATTTTTGGCCACAATACTCATAAAAAATATAT
* * *
73817 AACTCAACGCCAAAAAGATTGAAGGAATTCTCACACTTCTAATATCGTTTTTCC-TTATTTTTTC
64 AACTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTA-TTTTTC
* * *
73881 CCGAATTTATTTCTAATTAAATCGAAACCAAATTGAGATGCTCGT-AAAACAAATCCTTAAAGAC
128 CCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATAC
* * * ** * *
73945 AATATGTCTGAGCTTTTGCTAGTTGAATATAGATATTTCAATTTGTCTTGACGCGAGAAATCATG
193 AATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATG
* * * * *
74010 CAAAAATGAGACGGGGCCCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATTT
258 CAAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATTT
*
74075 CAACTAAAAT
323 CGACTAAAAT
* * * * *
74085 TTTGTAAAATTTAACCTGAAACATTTCTCCTCAATTTTTGGCCATAATACTCATAAAGAATACT-
1 TTTGCAAAAATTGACCTGAAACATTTCT--TCAATTTTTGGCCACAATACTCATAAAAAATA-TA
* * * * * *
74149 TAACTCAACACCAAAAATATTGAAGGGCTTCTCACGCTTTTAATATCGTTTTT-CTTT-TTTTTT
63 TAACTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTC
** * * *
74212 TGGAGTTAATTTCTAATTAAATCGAAA-TATGATTGAGATGTTCGTAAAAACAAATCCTTAAATA
128 CCGAATTAATTTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATA
* * *
74276 TAACGTGTCTGAGCTTTCACTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCAT
192 CAATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCAT
* * *
74341 GCAAAACTGAGCCGTGGCCCCAGAATGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACATGATT
257 GCAAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATT
* *
74406 TCGCCTAAGAT
322 TCGACTAAAAT
*
74417 TTTGCAAAAACTT-ACCTGAAACATTTCTCCATAATTTTTGGCCACAATACTCATAAAAAATATA
1 TTTGCAAAAA-TTGACCTGAAACATTTCTTC--AATTTTTGGCCACAATACTCATAAAAAATATA
* *
74481 TAACTCACCGCCAAAAAGATTGAAAGACTTCTCACGCCTCTAATATCG-------TTT-TTTTTC
63 TAACTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTC
* *
74538 CCGAATTAATTTCTAATTAAATCGAAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAAGAC
128 CCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATAC
* *
74603 AATGTGTCTGAGCGTTCGCTAGATGAATATAGATA-TTCAATCAGTCTTGACGCGAAAAATCATG
193 AATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATG
** * *
74667 CAAAACTGAGCCGGGGCAACGAAATGCGTTTTTAG-TCAAAACCGTGATGGTTAGTACATGATTT
258 CAAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATTT
*
74731 CGGCTAAAAT
323 CGACTAAAAT
* * * * *
74741 TTTACAAAAATTTACC-CAAATCATTTC-TCAATTTTTGCCCATCAATACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCTGAAA-CATTTCTTCAATTTTTGGCCA-CAATACTCATAAAAAATATAT
** * * * * **
74804 ATTTCAACGCCAAAAAGATTTAAGGACTTCTCCCGCTTCTAATATCGTTTTTCTTTTA-CATTCC
64 AACTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTCC
* * *
74868 CGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATTCTCGTAAAAACAAATCGTTAAATCCA
129 CGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATACA
* *
74933 ATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTGTTTACGCCAAAAATCATGC
194 ATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGC
* *
74998 AAAACTGAGCCGGGACCCCGGAATGCGTTTTTAGTTAAAAACCGTAATGGTTAGTACATGATTTC
259 AAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATTTC
* *
75063 GGCTAAGAT
324 GACTAAAAT
* *
75072 TTTGCAAAAACTGACATGAAACATTTCTTCTTAATTTTTGGCCACAATACTCATAAAAAATATAT
1 TTTGCAAAAATTGACCTGAAACATTTCTTC--AATTTTTGGCCACAATACTCATAAAAAATATAT
* * * *
75137 ACCTCACCGCCAAAAAGATTAAAAGAGTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTCC
64 AACTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTCC
* *
75202 CGAATTAA-TTCTAATTAAATCGAAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATTCA
129 CGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATACA
* * *
75266 ATGTGTCTGAGCTTTCGCTAGATGAATATAGGTATTTCAATCAGTGTTTACGCCAAAAATCATGC
194 ATGTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGC
* * * * * *
75331 AAAAATGAGTCGGGGCCCCGTAACGCGTTTTTAG-T-CAAACCGTGATAGTTAGTACATGATTTC
259 AAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATTTC
75394 GACTAAAAT
324 GACTAAAAT
* *
75403 TTTCCAAAAATTGACCTGAAACATTTC-TCAATTTTTGGCCATAATACTCATAA
1 TTTGCAAAAATTGACCTGAAACATTTCTTCAATTTTTGGCCACAATACTCATAA
75456 GGAGTACATA
Statistics
Matches: 1205, Mismatches: 137, Indels: 63
0.86 0.10 0.04
Matches are distributed among these distances:
321 11 0.01
322 60 0.05
323 6 0.00
324 53 0.04
325 58 0.05
326 96 0.08
328 23 0.02
329 100 0.08
330 61 0.05
331 156 0.13
332 240 0.20
333 317 0.26
334 24 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (332 bp):
TTTGCAAAAATTGACCTGAAACATTTCTTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
CTCAACGCCAAAAAGATTGAAAGACTTCTCACGCTTCTAATATCGTTTTTCCTTTATTTTTCCCG
AATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATACAAT
GTGTCTGAGCTTTCGCTAGATGAATATAGATATTTCAATCAGTCTTGACGCCAAAAATCATGCAA
AACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTTAAAAACCGTGATGGTTAGTACATGATTTCGA
CTAAAAT
Found at i:76248 original size:334 final size:333
Alignment explanation
Indices: 75470--76489 Score: 1560
Period size: 332 Copynumber: 3.1 Consensus size: 333
75460 TACATAACTT
* *
75470 AATC-AGTCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGG-CCCTAGAATGCGTTTTTAGTA
1 AATCAAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGA-AATGCGTTTTTAGTA
* *
75533 AAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAACTGACCTGAAACATTCC
65 AAAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTC
75598 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGAAAGAC
130 TCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGAAAGAC
75663 TTCTCACGCTTCTAATATCGTTTTTCTTTTTTTTTCCCGAATTAA-TTCTAATTAAATCGAAACC
195 TTCTCACGCTTCTAATATCGTTTTTC-TTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACC
*
75727 AGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCACTAGATGAATA
259 AGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATA
75792 TAGATATTTC
324 TAGATATTTC
* * *
75802 AATC-AGTGTTTACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAATGCGTTTTTAGTAA
1 AATCAAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAATGCGTTTTTAGTAA
75866 AAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCT
66 AAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCT
*
75931 CCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGAAAGAGT
131 CCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGAAAGACT
75996 TCTCACGCTTCTAATATCGTTTTTCCTTATTTTTTCCCGAATTAATTTCTAATTAAATCGAAACC
196 TCTCACGCTTCTAATATCGTTTTT-CTT-TTTTTTCCCGAATTAATTTCTAATTAAATCGAAACC
* * ** *
76061 AAATTGAGATGCTCTTAAAAACAAATCCTTAAAGACAATGTGTCTGAGCGTTCGCTAGATGAATA
259 AGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATA
*
76126 TATATATTTC
324 TAGATATTTC
* * * *
76136 AATCAAG-CTTAATGCGAAAAATCATGCACAACTGAGCCGGGGCCCCGAAATGCGTTTTTAGT-C
1 AATCAAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAATGCGTTTTTAGTAA
* * *
76199 AAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAAATTTACC-CAAATCA-TT
66 AAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGC-AAAAATTGACCTGAAA-CATTT
* * ** * *
76262 -T-CTCAAATTTTGGCCATCAATACTCGA-AAGAAATATATATTTCAACGCCAAAAAGATTGAAG
129 CTCCTCAATTTTTGGCCA-CAATACTC-ATAAAAAATATATAACTCACCGCCAAAAAGATTGAAA
* * * *
76324 GACTTCTCATGCTTCTAATATAGTTTTTCTTTTACTTTCTCGAATTAATTTCTAATTAAATCGAA
192 GACTTCTCACGCTTCTAATATCGTTTTTCTTTT-TTTTCCCGAATTAATTTCTAATTAAATCGAA
*
76389 ACCAGATTGAGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGA
256 ACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGA
76454 ATATAGATATTTC
321 ATATAGATATTTC
* *
76467 AATC-AGTGTTTACGCCAAAAATC
1 AATCAAGTCTTAACGCCAAAAATC
Statistics
Matches: 631, Mismatches: 46, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
330 4 0.01
331 133 0.21
332 273 0.43
333 67 0.11
334 152 0.24
335 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (333 bp):
AATCAAGTCTTAACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAATGCGTTTTTAGTAA
AAAACCGTGATGGTTAGTACATGATTTCGGCTAAGATTTTGCAAAAATTGACCTGAAACATTTCT
CCTCAATTTTTGGCCACAATACTCATAAAAAATATATAACTCACCGCCAAAAAGATTGAAAGACT
TCTCACGCTTCTAATATCGTTTTTCTTTTTTTTCCCGAATTAATTTCTAATTAAATCGAAACCAG
ATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGCTTTCGCTAGATGAATATA
GATATTTC
Done.