Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003933.1 Hibiscus syriacus cultivar Beakdansim tig00008502_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: 70650
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:4790 original size:28 final size:27
Alignment explanation
Indices: 4759--4813 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4749 CAAACTGCAC
* *
4759 TTTTCGAACAATGATTTCTGCTTTTTTT
1 TTTTCGAACAATG-CTTCTCCTTTTTTT
*
4787 TTTTCGAACACTGCTTCTCCTTTTTTT
1 TTTTCGAACAATGCTTCTCCTTTTTTT
4814 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.15, C:0.20, G:0.09, T:0.56
Consensus pattern (27 bp):
TTTTCGAACAATGCTTCTCCTTTTTTT
Found at i:11278 original size:12 final size:12
Alignment explanation
Indices: 11263--11295 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11253 ATTTTTATTC
11263 TCTTTTTTCTTT
1 TCTTTTTTCTTT
11275 TCTTTTTTCTTT
1 TCTTTTTTCTTT
*
11287 TATTTTTTC
1 TCTTTTTTC
11296 GATTTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:14772 original size:23 final size:23
Alignment explanation
Indices: 14746--14793 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
14736 AATAACATAT
*
14746 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATGAAA
*
14769 TAGGTAGCGCTTATATAATGAAA
1 TAGGTAACGCTTATATAATGAAA
14792 TA
1 TA
14794 TGTATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATGAAA
Found at i:14821 original size:87 final size:86
Alignment explanation
Indices: 14705--14871 Score: 291
Period size: 87 Copynumber: 1.9 Consensus size: 86
14695 CGGTTATGTT
*
14705 ATATTATTTAACCAGAAATATTATTAAGTACAATAACATATTAGGTA-ACGCTTATATAATGTAA
1 ATATTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGA-GCTTATATAATGTAA
14769 TAGGTAGCGCTTATATAATGAA
65 TAGGTAGCGCTTATATAATGAA
*
14791 ATATGTATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
1 ATAT-TATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAA
14856 TAGGTAGCGCTTATAT
65 TAGGTAGCGCTTATAT
14872 TGACCTATTT
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
86 4 0.05
87 72 0.94
88 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (86 bp):
ATATTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGAGCTTATATAATGTAAT
AGGTAGCGCTTATATAATGAA
Found at i:15259 original size:199 final size:197
Alignment explanation
Indices: 14889--15577 Score: 754
Period size: 199 Copynumber: 3.5 Consensus size: 197
14879 TTTTATAAGT
* * *
14889 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACTGGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * **
14954 TGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTATATGCGTTCACCTATTTGGGCATT
66 TGTTTTTGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATT
* * * * *
15019 CATTCTGGAAAAAAGTATCGGCACAACATTAAAAAGTGTCGACACATTATGTACACCTATTCTCA
130 CATTATGGAAAAAAGTATCGACACAA-ATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCA
15084 CATA
194 CATA
** * * * *
15088 AAACTGGTATAAATATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGA
1 AAACTGGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
15153 TGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCGTCT-GGCATT
66 TGTTTTTGGGATCGATAC-TTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATT
* ** ** *
15217 CATTATGGACAAAATGTATCGACACTTATTAAATTTGTGTCGATACTTTATG-ATGACCTATTTT
130 CATTATGGA-AAAAAGTATCGACACAAATTAAA-AAGTGTCGATACATTATGTA-GACCTATTTT
*
15281 CTCATA
192 CACATA
* * * *
15287 AAA-TCGGTATATTTATACCAGTTACATTGTAAATTTACATATTATATTATAATTATCGGTTTCA
1 AAACT-GGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCG
*
15351 AT-TTTATTGGGATCGATACTTTTAATAATTGTAT-----CTTTATGCGTGCACCCCGTTTGGGC
65 ATGTTT-TTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCA-CCCGTTTGGGC
* * *
15410 ATTCATTATGGAAAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACCTGTT
127 ATTCATTATGGAAAA-AAGTATCGACACAAATTA-AAAAGTGTCGATACATTATGTAGACCTATT
15475 TTCTA-AT-
190 TTC-ACATA
* * * ** *
15482 TAACCGATATATTTATACCAGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCGA
1 AAACTGGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
15547 TTTTTTTTGGG-TTGATACTTTTAGAAAATGT
66 -TGTTTTTGGGATCGATACTTTTA-AAAATGT
15578 GTTGACACAT
Statistics
Matches: 412, Mismatches: 62, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
194 12 0.03
195 81 0.20
196 64 0.16
197 4 0.01
198 31 0.08
199 220 0.53
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (197 bp):
AAACTGGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGCATTC
ATTATGGAAAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCACA
TA
Found at i:19188 original size:12 final size:12
Alignment explanation
Indices: 19171--19196 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19161 CTGGTTATAT
19171 TACAAAATTAAC
1 TACAAAATTAAC
19183 TACAAAATTAAC
1 TACAAAATTAAC
19195 TA
1 TA
19197 TTAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (12 bp):
TACAAAATTAAC
Found at i:19852 original size:364 final size:364
Alignment explanation
Indices: 19183--19875 Score: 1122
Period size: 364 Copynumber: 1.9 Consensus size: 364
19173 CAAAATTAAC
* *
19183 TACAAAATTAACTATTAAAATATAATTATGGGTTTCGATGTTTTAGGGATCGATACTGTTTAAAA
1 TACAAAATTAACTATTAAAATATAATTATGGATTTCGATGTTTTAGGGATCGATACTATTTAAAA
*
19248 ATGTATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACACA
66 ATGCATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACACA
* ** *
19313 AATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCGAAAAATTGGTACATTTATACCGG
131 AATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCAAAAAACCGATACATTTATACCGG
19378 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTT
196 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTT
* * *
19443 TTATAAATGTATAAACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGGCAAAAAGTGTCGA
261 TTATAAATGTATAAACACTTTATGCGTTCACCCGTTTGGGCATTCATTATGGCAAAAAGTATCGA
19508 CACATTATGTAGAACTATTCTAACATAAAACCGGTATAT
326 CACATTATGTAGAACTATTCTAACATAAAACCGGTATAT
* * * *
19547 TACAAAATTACCTATTACATTATATTTATGGATTTCGATGTTTCT-GGGATCGATACTATTTAAA
1 TACAAAATTAACTATTAAAATATAATTATGGATTTCGATGTTT-TAGGGATCGATACTATTTAAA
*
19611 AATGCATCGACACTTTATGGGTGCACCCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACAC
65 AATGCATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACAC
* * **
19676 AAATTCTACAA-GTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCGATTTATTTATAC
130 AAA-TCTAAAACGTGTCGATACATTATGT-TCACCTATTTTCTCAAAAAACCGATACATTTATAC
*
19739 CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATATTTTTGGGATCGATAC
193 CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC
* ** *
19804 TTTTTATAATTGTATCGACACTTTATGCGTTCACTCGTTTGGGCATTCATTATGGCAAAAAGTAT
258 TTTTTATAAATGTATAAACACTTTATGCGTTCACCCGTTTGGGCATTCATTATGGCAAAAAGTAT
19869 CGACACA
323 CGACACA
19876 ACATTAACAA
Statistics
Matches: 302, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
364 294 0.97
365 8 0.03
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (364 bp):
TACAAAATTAACTATTAAAATATAATTATGGATTTCGATGTTTTAGGGATCGATACTATTTAAAA
ATGCATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCGACACA
AATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCAAAAAACCGATACATTTATACCGG
TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACTTT
TTATAAATGTATAAACACTTTATGCGTTCACCCGTTTGGGCATTCATTATGGCAAAAAGTATCGA
CACATTATGTAGAACTATTCTAACATAAAACCGGTATAT
Found at i:19925 original size:199 final size:199
Alignment explanation
Indices: 19537--20029 Score: 591
Period size: 199 Copynumber: 2.5 Consensus size: 199
19527 CTAACATAAA
* *
19537 ACCGG-TATATTACAAAATTACCTATTACATTATATTTATGGATTTCGATGTTTCTGGGATCGAT
1 ACCGGTTACATTACAAAATTACCTATTACATTATATTTATGG-TTTTGATGTTTCTGGGATCGAT
* * * * * * * * *
19601 ACTATTTAAAAATGCATCGACACTTTATGGGTGCACCCTTTTTGGATTTTCCTTGTGGACCAAAA
65 ACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGA-TTTCATTATGGACAAAAA
* * * * * * *
19666 GTATCGACACAAATTCTACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGATTT
129 GTATCGACACAAATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACAAAAAACCGATAT
19731 ATTTAT
194 ATTTAT
** * * * *
19737 ACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATATTTTTGGGATCGAT
1 ACCGGTTACATTACAAAATTACCTATTACATTATATTTAT-GGTTTTGATGTTTCTGGGATCGAT
* * *
19802 ACTTTTTATAATTGTATCGACACTTTATGCGTTCACTCGTTTGGGCA-TTCATTATGG-CAAAAA
65 ACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGG-ATTTCATTATGGACAAAAA
*
19865 GTATCGACACAACATT-AACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGATA
129 GTATCGACACAA-ATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACAAAAAACCGATA
*
19929 TATTTTT
193 TATTTAT
* * *
19936 ACCGGTTATATTACAAAATTACCTATTACATTATATTTATTGTTTTCGATGTTTCTAGGATCGAT
1 ACCGGTTACATTACAAAATTACCTATTACATTATATTTATGGTTTT-GATGTTTCTGGGATCGAT
*
20001 ACTTTTT-TAAACTGTATCAACACTTTATG
65 ACTTTTTATAAA-TGTATCGACACTTTATG
20030 GGAAACTTTA
Statistics
Matches: 247, Mismatches: 40, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
198 8 0.03
199 136 0.55
200 16 0.06
201 84 0.34
202 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (199 bp):
ACCGGTTACATTACAAAATTACCTATTACATTATATTTATGGTTTTGATGTTTCTGGGATCGATA
CTTTTTATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGATTTCATTATGGACAAAAAGT
ATCGACACAAATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACAAAAAACCGATATAT
TTAT
Found at i:20052 original size:15 final size:15
Alignment explanation
Indices: 20032--20068 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
20022 ACTTTATGGG
*
20032 AAACTTTAAGTTTGA
1 AAACTTTAAGTATGA
*
20047 AAACTTTATGTATGA
1 AAACTTTAAGTATGA
20062 AAACTTT
1 AAACTTT
20069 GTTGTGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (15 bp):
AAACTTTAAGTATGA
Found at i:20357 original size:11 final size:11
Alignment explanation
Indices: 20341--20403 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
20331 TATACAAAAC
20341 AATGTTCAAAT
1 AATGTTCAAAT
20352 AATGTTCAAAT
1 AATGTTCAAAT
* *
20363 AATTTATACATAAC
1 AATGT-T-CA-AAT
20377 AATGTTCAAAT
1 AATGTTCAAAT
*
20388 AATATTCAAAT
1 AATGTTCAAAT
20399 AATGT
1 AATGT
20404 ACCCACAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
11 31 0.72
12 3 0.07
13 3 0.07
14 6 0.14
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (11 bp):
AATGTTCAAAT
Found at i:20378 original size:36 final size:36
Alignment explanation
Indices: 20327--20401 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
20317 GTACACAAGA
*
20327 AATTTATACAAAACAATGTTCAAATAATGTTCAAAT
1 AATTTATACAAAACAATGTTCAAATAATATTCAAAT
*
20363 AATTTATACATAACAATGTTCAAATAATATTCAAAT
1 AATTTATACAAAACAATGTTCAAATAATATTCAAAT
20399 AAT
1 AAT
20402 GTACCCACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.35
Consensus pattern (36 bp):
AATTTATACAAAACAATGTTCAAATAATATTCAAAT
Found at i:20414 original size:36 final size:36
Alignment explanation
Indices: 20338--20414 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
20328 ATTTATACAA
* * * *
20338 AACAATGTTCAAATAATGTTCAAATAATTTATACAT
1 AACAATGTTCAAATAATATTCAAATAATGTACACAC
*
20374 AACAATGTTCAAATAATATTCAAATAATGTACCCAC
1 AACAATGTTCAAATAATATTCAAATAATGTACACAC
20410 AACAA
1 AACAA
20415 AAATAATTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (36 bp):
AACAATGTTCAAATAATATTCAAATAATGTACACAC
Found at i:21362 original size:9 final size:9
Alignment explanation
Indices: 21348--21403 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
21338 ACTTGTTTGG
*
21348 ATCATCATA
1 ATCATCATC
21357 ATCATCATC
1 ATCATCATC
21366 ATCATCATC
1 ATCATCATC
*
21375 ATCATCTTC
1 ATCATCATC
*
21384 ATCGTCATC
1 ATCATCATC
* *
21393 TTCATCTTC
1 ATCATCATC
21402 AT
1 AT
21404 TGACCTCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.02, T:0.39
Consensus pattern (9 bp):
ATCATCATC
Found at i:21366 original size:6 final size:6
Alignment explanation
Indices: 21348--21403 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
21338 ACTTGTTTGG
* * * *
21348 ATCATC ATAATC ATCATC ATCATC ATCATC ATCTTC ATCGTC ATCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
*
21396 ATCTTC AT
1 ATCATC AT
21404 TGACCTCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.29, C:0.30, G:0.02, T:0.39
Consensus pattern (6 bp):
ATCATC
Found at i:21392 original size:18 final size:18
Alignment explanation
Indices: 21348--21403 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
21338 ACTTGTTTGG
* *
21348 ATCATCATAATCATCATC
1 ATCATCATCATCATCTTC
21366 ATCATCATCATCATCTTC
1 ATCATCATCATCATCTTC
* *
21384 ATCGTCATCTTCATCTTC
1 ATCATCATCATCATCTTC
21402 AT
1 AT
21404 TGACCTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.30, G:0.02, T:0.39
Consensus pattern (18 bp):
ATCATCATCATCATCTTC
Found at i:23556 original size:200 final size:200
Alignment explanation
Indices: 22882--24238 Score: 1815
Period size: 200 Copynumber: 6.8 Consensus size: 200
22872 ATTTAAAATG
* * * * * * *
22882 GTATCGACACAAATTTAACAATTGTCGATACTTTATG-ATGACCTATT-TTCACATAAAATCGAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTA-GACCTATTCTT-ACATAAAACCGGT
* * ** * * * *
22945 ATATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTATTG
64 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTG
* * * * *
23010 GGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCTG
129 GGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCTG
23072 GACAAAAA
193 GACAAAAA
* * * * *
23080 GTATCGACACAAATTCCACAAA-TTTCGATACATGT-TGTAGACCTATTCTCT-CATAAAATCGG
1 GTATCGACACAAAAT-AAAAAAGTGTCGATACAT-TATGTAGACCTATTCT-TACATAAAACCGG
* * ** * * ** *
23142 TAT-TGTCATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTC
63 TATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTT
* **
23206 TGGTATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTT-GCATAAATTCT
127 TGGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCT
23270 GGACAAAAA
192 GGACAAAAA
* * * ***
23279 GTTTTGACACAAAATAAAAAAGCGTCGATACATTATGTAGACCTATTCTTACATAAAACCAAAAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
**
23344 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTATG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* * *
23409 ATCGACACTTTTTATAAATGTATCGACACTGTATTCATTCATCATTTTTGGCATTCATTCTGAAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
23474 AAAAA
196 AAAAA
*
23479 GTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
* **
23544 ATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTTTG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
23609 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
23674 AAAAA
196 AAAAA
* * * *
23679 GTATCGACACAACATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCTGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
* * * *
23744 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATGTTTCTGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTG-TTTCGATGTTTTTGG
* * *
23808 GATCGACACTTTCTA-AAACTGTATCGACACTTTATTCGTTCATCATTTTTTGCATTCATTATGG
130 GATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGG
*
23872 ACAAAAC
194 ACAAAAA
* *
23879 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATAT-TCACATAAAACCGATA
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT-TCTTACATAAAACCGGTA
* * * *
23943 TATTTATATCTGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTTGATGTTTTTGG
65 TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGG
* * *
24008 GATCGACACTTTTTATATATGTATCAACACTTTATTCGTTCATCATTTTTGGCATTCATTTTGGA
130 GATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGA
24073 CAAAAA
195 CAAAAA
*
24079 GTATCGACACAAAATAAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
1 GTATCGACACAAAAT-AAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTA
* * *
24144 TATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTTTTTTG
65 TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGG
24209 GATCGACA-TATTTTATAAATGTATCGACAC
130 GATCGACACT-TTTTATAAATGTATCGACAC
24239 ATATACTTAC
Statistics
Matches: 1034, Mismatches: 103, Indels: 41
0.88 0.09 0.03
Matches are distributed among these distances:
197 1 0.00
198 145 0.14
199 168 0.16
200 586 0.57
201 134 0.13
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (200 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
AAAAA
Found at i:24525 original size:19 final size:19
Alignment explanation
Indices: 24501--24549 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
24491 TTACATCCAC
24501 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
24520 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
24539 ATACAAAATTA
1 ATACAAAATTA
24550 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:26130 original size:18 final size:18
Alignment explanation
Indices: 26107--26181 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
26097 TCCTCCTCAT
* *
26107 TTCCTCCATATTTTCTTC
1 TTCCTCCCTCTTTTCTTC
26125 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
*
26143 TTCCTCCCTCTTTTTTTC
1 TTCCTCCCTCTTTTCTTC
26161 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
26179 TTC
1 TTC
26182 ATATTTTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:26409 original size:33 final size:32
Alignment explanation
Indices: 26362--26429 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 32
26352 CACCATCTTA
26362 ACTTCACCCTCAACACCTCAACTTCTTTCACC
1 ACTTCACCCTCAACACCTCAACTTCTTTCACC
26394 ACTTCACCCCTCAACACCTCAACTTCTTTCACC
1 ACTTCA-CCCTCAACACCTCAACTTCTTTCACC
26427 ACT
1 ACT
26430 CCATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.47, G:0.00, T:0.28
Consensus pattern (32 bp):
ACTTCACCCTCAACACCTCAACTTCTTTCACC
Found at i:26487 original size:21 final size:21
Alignment explanation
Indices: 26462--26505 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
26452 CCCATTATGC
*
26462 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCAACT
*
26483 CTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTGTCTCTTCAACT
26504 CT
1 CT
26506 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.34, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCAACT
Found at i:26609 original size:15 final size:15
Alignment explanation
Indices: 26589--26620 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26579 CTCTATTTTT
*
26589 CCTCACTGTCATCCC
1 CCTCACCGTCATCCC
26604 CCTCACCGTCATCCC
1 CCTCACCGTCATCCC
26619 CC
1 CC
26621 AATACAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.59, G:0.06, T:0.22
Consensus pattern (15 bp):
CCTCACCGTCATCCC
Found at i:29178 original size:182 final size:182
Alignment explanation
Indices: 28869--29705 Score: 1041
Period size: 182 Copynumber: 4.7 Consensus size: 182
28859 TACGCGTACG
* * * * * *
28869 TATTAAAGTATCGACACTTTCAATACATCCGGTAGCGCTTTATCGGTTTTGTCATTTAGAGACTG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
* * * * *
28934 GTTTTATCATATTTTTACCTATTATATCGTTATGGATCGATAAATTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* *
28999 TTATAGGCGCGAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTA
* *
29051 TATTAAATTATCGACACTTTCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
*
29116 GTTTTATCATATTTTTACCTGTTATATCGTCGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
*
29181 TTATA-GCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTA
* * *
29232 TATTAAAGTATCGACACTTACAATATATCCGGTA------TCTC---TTTA-C----CG-GACCA
1 TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
* *
29282 GTTTTTTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT-TAGCAC
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA-CAC
* *
29346 TTTATAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTA
* * * * * ** *
29399 TATTAAAGTATCGACACTTGCAATATATCCAGTATCTCTTTACCGGTTTTGTCTTTTCCTGACTG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
* * *
29464 GTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCAACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
29529 TTATAGGCGCTAAAACTTCTTCTCCTTTAAATTCATTATA-TGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCA-CAAAGTGTCGATACTTA
* * * * * * * *
29581 TATTAAAGTATCGACACATGCAATATATCTGGTAGCGCTGTACCGATTTTATCTTTTTGTGATCG
1 TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
* * ** * *
29646 GTTTTGTCATATTTTTTCCTGTTATAT--TAAT-GATCGATACATTTTTATAAAGTATCGACA
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
29706 TAAACCGACA
Statistics
Matches: 578, Mismatches: 58, Indels: 41
0.85 0.09 0.06
Matches are distributed among these distances:
165 1 0.00
166 69 0.12
167 79 0.14
171 1 0.00
172 4 0.01
173 2 0.00
175 3 0.01
176 3 0.01
177 1 0.00
179 26 0.04
180 2 0.00
181 76 0.13
182 309 0.53
183 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTGCAATATATCCGGTAGCGCTTTATCGGTTTTATCTTTTCGAGACCG
GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTA
Found at i:38058 original size:7 final size:7
Alignment explanation
Indices: 38046--38082 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
38036 ATAACTATAA
38046 AAATGTG
1 AAATGTG
38053 AAATGTG
1 AAATGTG
38060 AAATGTG
1 AAATGTG
38067 AAATGTG
1 AAATGTG
38074 AAATGTG
1 AAATGTG
38081 AA
1 AA
38083 TACAAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (7 bp):
AAATGTG
Found at i:38264 original size:23 final size:23
Alignment explanation
Indices: 38224--38267 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38214 GTCGAGGGTT
** *
38224 CTATGTGGTTTTTTGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
38247 CTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
38268 TTATGTGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:38281 original size:21 final size:21
Alignment explanation
Indices: 38248--38295 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
38238 GGGACAAAAC
38248 TATGTGGTCCTTC-GGGACAAT
1 TATGTGGTCCTTCAGGG-CAAT
*
38269 TATGTGG-CACTTCAGTGCAAT
1 TATGTGGTC-CTTCAGGGCAAT
38290 TATGTG
1 TATGTG
38296 AGCCGTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (21 bp):
TATGTGGTCCTTCAGGGCAAT
Found at i:46318 original size:41 final size:41
Alignment explanation
Indices: 46241--46320 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
46231 AAGAAGAATA
**
46241 TGCAAGAGTAAACAAATAAAAATTTCTAAGAAAAAAATAAT
1 TGCAAGAGTAAACAAATAAAAATTGATAAGAAAAAAATAAT
* * *
46282 TGCAAGAGTAAGCAAATAAAAGTTGATAAGGCAAAAAAT
1 TGCAAGAGTAAACAAATAAAAATTGATAA-GAAAAAAAT
46321 GTTTGAGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 25 0.76
42 8 0.24
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (41 bp):
TGCAAGAGTAAACAAATAAAAATTGATAAGAAAAAAATAAT
Found at i:46846 original size:26 final size:24
Alignment explanation
Indices: 46807--46859 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
46797 TGAACAAAAT
*
46807 ATCAATAACAT-AAATAAACTTATC
1 ATCAATAACATAAAATAAA-GTATC
46831 ATCAATTAATCATAAAATAAAGTATC
1 ATCAA-TAA-CATAAAATAAAGTATC
46857 ATC
1 ATC
46860 TAAATAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 3 0.12
26 10 0.40
27 7 0.28
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (24 bp):
ATCAATAACATAAAATAAAGTATC
Found at i:54892 original size:29 final size:30
Alignment explanation
Indices: 54843--54902 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
54833 ATACCGATTT
* * *
54843 AGTGATCAAATTATGAGAATTTAAAA-TTC
1 AGTGACCAAATTATGAAAATTGAAAAGTTC
54872 AGTGACCAAATTA-GATAAATTGAAAAGTTC
1 AGTGACCAAATTATGA-AAATTGAAAAGTTC
54902 A
1 A
54903 AGGACTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.08
29 20 0.77
30 4 0.15
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (30 bp):
AGTGACCAAATTATGAAAATTGAAAAGTTC
Found at i:56028 original size:23 final size:23
Alignment explanation
Indices: 55998--56106 Score: 137
Period size: 23 Copynumber: 4.7 Consensus size: 23
55988 CATCTTATAT
55998 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
*
56021 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTACGC
*
56044 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * * *
56067 GGTACTTCGGTACAATTCTATGT
1 GGCACTTCGGTGCATTTCTACGC
* *
56090 GGTACTTTGGTGCATTT
1 GGCACTTCGGTGCATTT
56107 ATACAAGTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:62888 original size:23 final size:23
Alignment explanation
Indices: 62836--62896 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
62826 ATATCTTATA
* *
62836 TGGCACTTTGGTGCATTTCTATG
1 TGGCACTTTGGTGCAATTCTACG
* *
62859 CGACACTTTGGTGCAATTCTACG
1 TGGCACTTTGGTGCAATTCTACG
*
62882 TGGCACTTCGGTGCA
1 TGGCACTTTGGTGCA
62897 CTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.34
Consensus pattern (23 bp):
TGGCACTTTGGTGCAATTCTACG
Found at i:63871 original size:21 final size:20
Alignment explanation
Indices: 63847--63885 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
63837 CATCAAGGCC
* *
63847 TTTGTTGAAGCCATGAAATAT
1 TTTGTCGAAACCAT-AAATAT
63868 TTTGTCGAAACCATAAAT
1 TTTGTCGAAACCATAAAT
63886 TCTTGTAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAACCATAAATAT
Found at i:65985 original size:54 final size:53
Alignment explanation
Indices: 65902--66233 Score: 377
Period size: 54 Copynumber: 6.2 Consensus size: 53
65892 TTTATTAAGA
* * * * ** *
65902 TGCACACGTAGTGCCTATACGGTTGTTCATCAACAAATGATGAATTCTATGGTT
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGTGG-T
* *
65956 TGCACACACAGTGCATGTACAGTTTTTCATCAACTCATGATGAATTCTGTGGGT
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGT-GGT
* **
66010 TACACACATAGTGCATGTATGGTTGTTCATCAACTCATGATGAATTC--T-G-
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGTGGT
* * *
66059 TGCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATAAATTATGTGGGT
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGT-GGT
* * * *
66113 TGCACATATAGTTCTTGTACAGCTGTTCATCAACTCATGATGAATTCTGTGAGT
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGTG-GT
* *
66167 TGCACACATAGTTCCTGTACAGTTGTTCATCAACTCATGATGAATT-TCGTGGGT
1 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCT-GT-GGT
*
66221 TGCGCACATAGTG
1 TGCACACATAGTG
66234 ATTATAGTAC
Statistics
Matches: 239, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
49 43 0.18
50 1 0.00
51 1 0.00
52 1 0.00
53 3 0.01
54 187 0.78
55 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (53 bp):
TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTGTGGT
Found at i:66192 original size:157 final size:157
Alignment explanation
Indices: 65902--66212 Score: 433
Period size: 157 Copynumber: 2.0 Consensus size: 157
65892 TTTATTAAGA
* * * * *
65902 TGCACACGTAGTGCCTATACGGTTGTTCATCAACAAATGATGAATTCTATGGTTTGCACACACAG
1 TGCACACATAGTGCATATACGGTTGTTCATCAACAAATGATAAATTATATGGGTTGCACACACAG
* * * **
65967 TGCATGTACAGTTTTTCATCAACTCATGATGAATTCTGTGGGTTACACACATAGTGCATGTATGG
66 TGCATGTACAGCTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACAG
66032 TTGTTCATCAACTCATGATGAATTCTG
131 TTGTTCATCAACTCATGATGAATTCTG
* ** * * *
66059 TGCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATAAATTATGTGGGTTGCACATATAG
1 TGCACACATAGTGCATATACGGTTGTTCATCAACAAATGATAAATTATATGGGTTGCACACACAG
* * * * *
66124 TTCTTGTACAGCTGTTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTTCCTGTACAG
66 TGCATGTACAGCTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACAG
66189 TTGTTCATCAACTCATGATGAATT
131 TTGTTCATCAACTCATGATGAATT
66213 TCGTGGGTTG
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
157 133 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (157 bp):
TGCACACATAGTGCATATACGGTTGTTCATCAACAAATGATAAATTATATGGGTTGCACACACAG
TGCATGTACAGCTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACAG
TTGTTCATCAACTCATGATGAATTCTG
Found at i:69786 original size:15 final size:15
Alignment explanation
Indices: 69766--69802 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
69756 AACACCATTG
69766 GAGCCATTCAATACA
1 GAGCCATTCAATACA
* *
69781 GAGCCATTCGATACG
1 GAGCCATTCAATACA
69796 GAGCCAT
1 GAGCCAT
69803 AGAAACTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (15 bp):
GAGCCATTCAATACA
Done.