Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008883.1 Hibiscus syriacus cultivar Beakdansim tig00112129_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: 79752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:8807 original size:20 final size:20
Alignment explanation
Indices: 8782--8831 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
8772 TGCATGTAGA
*
8782 GGTATCGATACCTCAAGGGT
1 GGTATCGATACCTCAAGGAT
**
8802 GGTATCGATACCTGTAGGAT
1 GGTATCGATACCTCAAGGAT
8822 GGTATCGATA
1 GGTATCGATA
8832 TCCTTAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCTCAAGGAT
Found at i:8837 original size:147 final size:147
Alignment explanation
Indices: 8631--8980 Score: 558
Period size: 147 Copynumber: 2.4 Consensus size: 147
8621 TACCTGTTGA
* * * *
8631 TAGAGGTATCAATATCTCAAGGGTGGTATCAATACCTGTAGAATGGTATCGATATCCTTAAAACT
1 TAGAGGTATCGATACCTCAAGGGTGGTATCGATACCTGTAGGATGGTATCGATATCCTTAAAACT
* *
8696 TCGAAGGTAATTTCGGTTTTAGTACCTTGAGGAGGTATCAATACCCTAGAAACATCTAACATAAT
66 TCGAAGGTAATTTCGATTTCAGTACCTTGAGGAGGTATCAATACCCTAGAAACATCTAACATAAT
8761 TTTGATATTGTTGCATG
131 TTTGATATTGTTGCATG
8778 TAGAGGTATCGATACCTCAAGGGTGGTATCGATACCTGTAGGATGGTATCGATATCCTTAAAACT
1 TAGAGGTATCGATACCTCAAGGGTGGTATCGATACCTGTAGGATGGTATCGATATCCTTAAAACT
8843 TCGAAGGTAATTTCGATTTCAGTACCTTGAGGAGGTATCAATACCCTAGAAACATCTAACATAAT
66 TCGAAGGTAATTTCGATTTCAGTACCTTGAGGAGGTATCAATACCCTAGAAACATCTAACATAAT
8908 TTTGATATTGTTGCATG
131 TTTGATATTGTTGCATG
* * * * * *
8925 TGGAGGTATCGATAACCTTGAGGGGTGGTATCGGTACCCT-TAGGGTGGTACCGATA
1 TAGAGGTATCGAT-ACC-TCAAGGGTGGTATCGATA-CCTGTAGGATGGTATCGATA
8981 CCTCTAAGCA
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
147 153 0.81
148 3 0.02
149 29 0.15
150 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (147 bp):
TAGAGGTATCGATACCTCAAGGGTGGTATCGATACCTGTAGGATGGTATCGATATCCTTAAAACT
TCGAAGGTAATTTCGATTTCAGTACCTTGAGGAGGTATCAATACCCTAGAAACATCTAACATAAT
TTTGATATTGTTGCATG
Found at i:8954 original size:22 final size:20
Alignment explanation
Indices: 8929--8980 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
8919 TGCATGTGGA
8929 GGTATCGATAACCTTGAGGGGT
1 GGTATCGATAACCTT-A-GGGT
* *
8951 GGTATCGGTACCCTTAGGGT
1 GGTATCGATAACCTTAGGGT
*
8971 GGTACCGATA
1 GGTATCGATA
8981 CCTCTAAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 12 0.46
21 1 0.04
22 13 0.50
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (20 bp):
GGTATCGATAACCTTAGGGT
Found at i:9526 original size:21 final size:21
Alignment explanation
Indices: 9481--9526 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9471 TCGAGGGTCT
* * **
9481 ATGTGGTCCTTCGGGATAATT
1 ATGTGGTCCTCCGGGACAAAG
9502 ATGTGGTCCTCCGGGACAAAG
1 ATGTGGTCCTCCGGGACAAAG
9523 ATGT
1 ATGT
9527 AGCACTTCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
ATGTGGTCCTCCGGGACAAAG
Found at i:15822 original size:23 final size:20
Alignment explanation
Indices: 15794--15847 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
15784 GCATATGGAT
15794 GTATCGATACCCTTGAGGGGGTG
1 GTATCGATACCCTT-A--GGGTG
*
15817 GTATCGGTACCCTTAGGGTG
1 GTATCGATACCCTTAGGGTG
*
15837 GTACCGATACC
1 GTATCGATACC
15848 TACAGATACC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
22 1 0.04
23 13 0.46
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCTTAGGGTG
Found at i:16414 original size:21 final size:21
Alignment explanation
Indices: 16387--16436 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
16377 AGTCGAGGAT
16387 ATATGTGGTCATT-CGGGACAA
1 ATATGTGGTC-TTCCGGGACAA
* *
16408 TTATGTGGTCTTCCGGGATAA
1 ATATGTGGTCTTCCGGGACAA
16429 ATATGTGG
1 ATATGTGG
16437 CACTTCGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (21 bp):
ATATGTGGTCTTCCGGGACAA
Found at i:17313 original size:31 final size:31
Alignment explanation
Indices: 17278--17346 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
17268 TGATTATCGA
*
17278 ATTGGTTGTTTTCGGTTCGGATCAATATCAG
1 ATTGGTTGTTTTCGGTTCGAATCAATATCAG
*
17309 ATTGGTTGTTTTCGGTTCGAATCAATATCAT
1 ATTGGTTGTTTTCGGTTCGAATCAATATCAG
17340 ATTGGTT
1 ATTGGTT
17347 AATTTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (31 bp):
ATTGGTTGTTTTCGGTTCGAATCAATATCAG
Found at i:17747 original size:19 final size:18
Alignment explanation
Indices: 17705--17747 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
17695 TATCTATTTA
17705 ATAAAGAAATATTTTTTT
1 ATAAAGAAATATTTTTTT
17723 ATTAAA-AAATTATTTTTATT
1 A-TAAAGAAA-TATTTTT-TT
17743 ATAAA
1 ATAAA
17748 TATAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATAAAGAAATATTTTTTT
Found at i:18759 original size:87 final size:86
Alignment explanation
Indices: 18609--18775 Score: 264
Period size: 87 Copynumber: 1.9 Consensus size: 86
18599 CGATTATGTT
* *
18609 ATATTATTTAATCGGAAATATTATCAAGTACAATAACGTATTAGGTAACGTTTATATAATGTAAT
1 ATATTATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
18674 AGATAGCGCTTATATAATAAA
66 AGATAGCGCTTATATAATAAA
* *
18695 ATATGTATTTAA-CGGGAAATATTATTAAGTACAATAACATATTAGGTAGCGCTTATATAATGTA
1 ATAT-TATTTAATC-GGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTA
*
18759 ATAGGTAGCGCTTATAT
64 ATAGATAGCGCTTATAT
18776 TGACCTATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 5 0.07
87 69 0.93
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (86 bp):
ATATTATTTAATCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAAT
AGATAGCGCTTATATAATAAA
Found at i:22406 original size:183 final size:183
Alignment explanation
Indices: 22098--22668 Score: 975
Period size: 183 Copynumber: 3.1 Consensus size: 183
22088 TTAAAATTAG
* *
22098 CGACACAATATTAAAAAATGTCGATATAGGTTGTAGACCTATTCGCTTATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
22163 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
22228 CACTTTTTGACAATGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
*
22281 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGAATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
22346 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
22411 CACTTTTTGACAAGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
22464 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * * * * *
22529 ATACTGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAATGTTTTTTCAA--T
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
* *
22592 CGATACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
128 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
22648 CGACACAATATTAAAAAGTGT
1 CGACACAATATTAAAAAGTGT
22669 GAAAACTTTG
Statistics
Matches: 368, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
183 289 0.79
184 75 0.20
186 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:25752 original size:200 final size:200
Alignment explanation
Indices: 25430--26548 Score: 1970
Period size: 200 Copynumber: 5.6 Consensus size: 200
25420 CATTAAACAA
* * * * *
25430 TGTCGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGATTAGATTGAA
1 TGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
* * * *
25494 AAATTACCTAATACATTATACTTTTGGGTTTTGATGTTTATGGGATCGACACTTTTTATATATGA
65 AAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGG
* *
25559 ATCGACACTTCATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
130 ATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
25624 CAAAAG
195 CAAAAG
* *
25630 TGTCGACACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
*
25695 AATTACCTATTACACTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
* *
25760 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAATAT
131 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
25825 AAAAG
196 AAAAG
*
25830 TATCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
*
25895 AATTACCTATTACATTATACTTATAGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
* *
25960 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCAACATAAACTAC
131 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
26025 AAAAG
196 AAAAG
* *
26030 TGTCGACACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
* *
26095 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGGCACATTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
26160 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
131 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
26225 AAAAG
196 AAAAG
*
26230 TGTCGATACATTATTTAGACCGATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
*
26295 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
26360 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
131 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
26425 AAAAG
196 AAAAG
*
26430 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
*
26495 AATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTT
26549 ATGGTTGCAC
Statistics
Matches: 875, Mismatches: 43, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
200 871 1.00
201 4 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
AAAAG
Found at i:26815 original size:18 final size:18
Alignment explanation
Indices: 26792--26852 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
26782 TCTCATTCAT
*
26792 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
26810 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
26829 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
26848 AATTA
1 AATTA
26853 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:26828 original size:19 final size:19
Alignment explanation
Indices: 26804--26852 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
26794 TTATATTCAC
26804 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
26823 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
26842 ATACAAAATTA
1 ATACAAAATTA
26853 ACCCTACATT
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:28677 original size:33 final size:33
Alignment explanation
Indices: 28640--28705 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
28630 CATCTTAATA
*
28640 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
28673 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
28706 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:28775 original size:20 final size:20
Alignment explanation
Indices: 28738--28801 Score: 92
Period size: 21 Copynumber: 3.1 Consensus size: 20
28728 CCCCTTATGC
*
28738 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGT-TCTCTTCGACT
28759 CTCTCAAGTTCTCTTCGACT
1 CTCTCAAGTTCTCTTCGACT
*
28779 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAG-TTCTCTTCGACT
28800 CT
1 CT
28802 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.41
Consensus pattern (20 bp):
CTCTCAAGTTCTCTTCGACT
Found at i:31087 original size:20 final size:19
Alignment explanation
Indices: 31032--31078 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
31022 TCCGGTATCG
31032 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
31051 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
31072 TTTTACC
1 TTTTACC
31079 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:31310 original size:180 final size:182
Alignment explanation
Indices: 30999--31469 Score: 680
Period size: 180 Copynumber: 2.6 Consensus size: 182
30989 CGTACTTACG
*
30999 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * * *
31064 TATCATATTTTTACCTGTTATATCGTTGTAGATCGATA-TTTTTTTTAAAGTATCGACATATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCAACATATTAT
* *
31128 AGGCGCTAAAACTGCTTCTATTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTATTTTAAATTCACAAAGTATCGATCCTTATATT
31179 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
31244 TATCATATTTTTATCTGGTATATCGTTTTGGATTGATACATTTTTTAAAAGTATCAA-ACT-TTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCAACA-TATTA
** *
31307 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTATTTTAAATTCACAAAGTATCGATCCTTATATT
* * * * * ** *
31360 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACAGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
31425 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
31470 AATTTGGATC
Statistics
Matches: 260, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
180 147 0.57
181 113 0.43
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCAACATATTAT
AGGAGCTAAAACTGCTTCTATTTTAAATTCACAAAGTATCGATCCTTATATT
Found at i:42439 original size:22 final size:22
Alignment explanation
Indices: 42414--42493 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 22
42404 AAATATTTTA
42414 TATATAAATAATATAAAAATAT
1 TATATAAATAATATAAAAATAT
* *
42436 TATAT--ATTATATATATAAT-T
1 TATATAAATAATATA-AAAATAT
* * *
42456 AATATAAAAAATAT-AAATTAT
1 TATATAAATAATATAAAAATAT
*
42477 TATATATATATATATAA
1 TATATAAATA-ATATAA
42494 TCGGGGCGGG
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
20 15 0.36
21 12 0.29
22 14 0.33
23 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATAAATAATATAAAAATAT
Found at i:42443 original size:33 final size:31
Alignment explanation
Indices: 42406--42493 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 31
42396 GAACCCAAAA
42406 ATATTTTATATATAAATAATATAAAAATATTAT
1 ATATTTTATATATAAATAATATAAAAA-A-TAT
* *
42439 ATATTATATATATAATTAATATAAAAAATAT
1 ATATTTTATATATAAATAATATAAAAAATAT
* *
42470 AAATTATTATATATATAT-ATATAA
1 ATATT-TTATATATAAATAATATAA
42494 TCGGGGCGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 13 0.27
32 10 0.21
33 25 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATATTTTATATATAAATAATATAAAAAATAT
Found at i:42449 original size:31 final size:29
Alignment explanation
Indices: 42402--42493 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 29
42392 ACCCGAACCC
42402 AAAAATAT-T-TTATATATAAATAATATA
1 AAAAATATATATTATATATAAATAATATA
42429 AAAATATTATATATTATATATATAATTAATATA
1 AAAA-A-TATATATTATATATA-AA-TAATATA
* *
42462 AAAAATATAAATTATTATATATATATATATA
1 AAAAATATATATTA-TATATAAATA-ATATA
42493 A
1 A
42494 TCGGGGCGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 3 0.05
30 3 0.05
31 24 0.44
32 9 0.16
33 11 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAAATATATATTATATATAAATAATATA
Found at i:42557 original size:13 final size:13
Alignment explanation
Indices: 42535--42565 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42525 CCGAACCTGA
42535 CCCG-AAAAAATC
1 CCCGAAAAAAATC
42547 CCCGAAAAAAATC
1 CCCGAAAAAAATC
42560 CCCGAA
1 CCCGAA
42566 CCCGAACCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.48, C:0.35, G:0.10, T:0.06
Consensus pattern (13 bp):
CCCGAAAAAAATC
Found at i:42837 original size:16 final size:16
Alignment explanation
Indices: 42816--42848 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42806 CTTCTGAACC
42816 ACCAGAAGGTTTTAAT
1 ACCAGAAGGTTTTAAT
42832 ACCAGAAGGTTTTAAT
1 ACCAGAAGGTTTTAAT
42848 A
1 A
42849 TGTCTTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
ACCAGAAGGTTTTAAT
Found at i:47431 original size:7 final size:7
Alignment explanation
Indices: 47419--47483 Score: 130
Period size: 7 Copynumber: 9.3 Consensus size: 7
47409 AGTCAAGTTG
47419 TCCTTTT
1 TCCTTTT
47426 TCCTTTT
1 TCCTTTT
47433 TCCTTTT
1 TCCTTTT
47440 TCCTTTT
1 TCCTTTT
47447 TCCTTTT
1 TCCTTTT
47454 TCCTTTT
1 TCCTTTT
47461 TCCTTTT
1 TCCTTTT
47468 TCCTTTT
1 TCCTTTT
47475 TCCTTTT
1 TCCTTTT
47482 TC
1 TC
47484 ATTTGTCTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TCCTTTT
Found at i:49571 original size:31 final size:33
Alignment explanation
Indices: 49535--49706 Score: 122
Period size: 33 Copynumber: 5.1 Consensus size: 33
49525 ATTTATATAT
* *
49535 TATATAATTTTGAAGACATTTTGAAATATATGA
1 TATATAGTTTTGAAAACATTTTGAAATATATGA
* * *
49568 TATATAGTTTTTAAAACATTTTAAAAACATTTAT-A
1 TATATAGTTTTGAAAACATTTT--GAA-ATATATGA
* *
49603 TATATAGTTTT-AAAACGTTTTTGAAAAGAAATAT-A
1 TATATAGTTTTGAAAAC-ATTTTG--AA-ATATATGA
*
49638 TATATAGTTTTCAAAACATTTTTGAAA-ATAT-A
1 TATATAGTTTTGAAAACA-TTTTGAAATATATGA
* * *
49670 TTATATAGTTTTTAAAACGTTTTGAAATAGAT-A
1 -TATATAGTTTTGAAAACATTTTGAAATATATGA
49703 TATA
1 TATA
49707 ATATATAATT
Statistics
Matches: 115, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
32 17 0.15
33 40 0.35
34 7 0.06
35 36 0.31
36 15 0.13
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (33 bp):
TATATAGTTTTGAAAACATTTTGAAATATATGA
Found at i:49613 original size:35 final size:35
Alignment explanation
Indices: 49560--49774 Score: 184
Period size: 35 Copynumber: 6.0 Consensus size: 35
49550 ACATTTTGAA
49560 ATATATGATATATAGTTTTTAAAACATTTTAAAAAC
1 ATATAT-ATATATAGTTTTTAAAACATTTTAAAAAC
* * * *
49596 ATTTATATATATAG-TTTTAAAACGTTTTTGAAAAG
1 ATATATATATATAGTTTTTAAAAC-ATTTTAAAAAC
* * **
49631 AAATATATATATAGTTTTCAAAACATTTTTGAAA-
1 ATATATATATATAGTTTTTAAAACATTTTAAAAAC
* * *
49665 ATATAT-TATATAGTTTTTAAAACGTTTTGAAATAG
1 ATATATATATATAGTTTTTAAAACATTTT-AAAAAC
* * *
49700 ATATATAATATATAATTTTTTGAAAAACATTTTGAAAGC
1 ATATAT-ATATAT-AGTTTTT--AAAACATTTTAAAAAC
* *
49739 ATATATAATATGTAATTTTTAAAACATTTTTAAAAA
1 ATATAT-ATATATAGTTTTTAAAACA-TTTTAAAAA
49775 TTATATGGAT
Statistics
Matches: 143, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
33 20 0.14
34 16 0.11
35 41 0.29
36 19 0.13
37 12 0.08
38 12 0.08
39 14 0.10
40 9 0.06
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (35 bp):
ATATATATATATAGTTTTTAAAACATTTTAAAAAC
Found at i:49658 original size:70 final size:70
Alignment explanation
Indices: 49529--49718 Score: 205
Period size: 70 Copynumber: 2.8 Consensus size: 70
49519 TTTTTTATTT
* * * * * *
49529 ATATATTATATAATTTTGAAGACATTTTGAAAT----ATATGATATATAGTTTTTAAAACATTTT
1 ATATATTATATAGTTTTTAAAACGTTTTGAAATAGAAATATAATATATAGTTTTCAAAACATTTT
49590 AAAAA
66 AAAAA
*
49595 CATTTATATATATAG-TTTTAAAACGTTTTTGAAA-AGAAATAT-ATATATAGTTTTCAAAACAT
1 -ATATAT-TATATAGTTTTTAAAACG-TTTTGAAATAGAAATATAATATATAGTTTTCAAAACAT
**
49657 TTTTGAAA
63 TTTAAAAA
* *
49665 ATATATTATATAGTTTTTAAAACGTTTTGAAATAGATATATAATATATAATTTT
1 ATATATTATATAGTTTTTAAAACGTTTTGAAATAGAAATATAATATATAGTTTT
49719 TTGAAAAACA
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
67 12 0.12
68 29 0.28
69 22 0.21
70 36 0.35
71 4 0.04
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (70 bp):
ATATATTATATAGTTTTTAAAACGTTTTGAAATAGAAATATAATATATAGTTTTCAAAACATTTT
AAAAA
Found at i:49755 original size:39 final size:40
Alignment explanation
Indices: 49683--49758 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
49673 TATAGTTTTT
*
49683 AAAACGTTTTGAAATAGATATATAATATATAATTTTTTGA
1 AAAACATTTTGAAATAGATATATAATATATAATTTTTTGA
*
49723 AAAACATTTTG-AA-AGCATATATAATATGTAATTTTT
1 AAAACATTTTGAAATAG-ATATATAATATATAATTTTT
49759 AAAACATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.06
39 21 0.64
40 10 0.30
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (40 bp):
AAAACATTTTGAAATAGATATATAATATATAATTTTTTGA
Found at i:49911 original size:3 final size:3
Alignment explanation
Indices: 49903--49958 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
49893 GTTTTTATAT
* *
49903 TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTT TTA TTA CTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA
49949 TTA TT- TTA TT
1 TTA TTA TTA TT
49959 TTTTTCCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 35 0.78
4 6 0.13
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:49952 original size:25 final size:25
Alignment explanation
Indices: 49900--49963 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
49890 ATAGTTTTTA
*
49900 TATTTATTATTATTATTATTATCAT
1 TATTTATTATTTTTATTATTATCAT
*
49925 TATTTATTATTTTTATTACTTAT-TT
1 TATTTATTATTTTTATTA-TTATCAT
49950 TATTTTATT-TTTTT
1 TA-TTTATTATTTTT
49964 CCGTTTCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 25 0.71
26 10 0.29
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTTATTATTTTTATTATTATCAT
Found at i:56423 original size:165 final size:162
Alignment explanation
Indices: 56147--57115 Score: 1061
Period size: 165 Copynumber: 5.9 Consensus size: 162
56137 TAAACAAACT
* * * ** * *
56147 ATTTGCAGCAT-AGTCTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACT-TAAGTCGAGAAGGGTTATCTGACAAAAGA--CCTTCGAGTTCGACTACG
* * * * *
56210 CTCAGCTTCGAGGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAGA
63 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--A-A
*** * * * *
56275 GACTTTCGAGTTCGACTACACTCAGC-TCCAAGGCACGTC
123 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * *
56314 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-CTAAAGACCTTCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACAAAAGACCTTCGAGTTCGACTACGCTC
* * * * *
56378 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGAC
66 AGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGAC
** * * * * *
56443 CTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATC
126 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * *
56479 ATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACAAAAGACCTTCGAGTTCGACTACG
*
56544 CTCAGCT-CAACGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
63 CTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
56608 CCCGAGTTTGATTACACTCAGCTTCGAGGGCACATC
127 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * *
56644 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACAAAAGACCTTCGAGTTCGACTACG
* * * *
56709 CCCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACTC
63 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
56774 CCGAGTTCGATTACACTCAGCTTCGAGGGCATATC
128 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * ***
56809 ATTTACAGCATAACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGA-CAAAAGACCTTCGAGTTCGACTACG
*
56874 CTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
63 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
56939 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
128 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * *
56974 ATTTACGGCATAACTCAAGGCTAGAAGGGTTATTTGTGATC-AAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTA--TCTGA-CAAAAGACCTTCGAGTTCGACTACG
* *
57038 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCT
63 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
57103 TCGAGTTCGATTA
128 CCGAGTTCGATTA
57116 TATTCAACTT
Statistics
Matches: 719, Mismatches: 66, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
164 124 0.17
165 479 0.67
166 4 0.01
167 41 0.06
168 43 0.06
169 28 0.04
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (162 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACAAAAGACCTTCGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCG
AGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:56584 original size:249 final size:248
Alignment explanation
Indices: 56196--57115 Score: 1070
Period size: 249 Copynumber: 3.7 Consensus size: 248
56186 AAGACCCCCC
* * * *
56196 CGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
* * *
56261 ATCTGCCAACCAGAGACTTTCGAGTTCGACTACACTCAGCTCCAAGGCACGTCATTTGCAGTATA
66 ATCTGCCAA-CAAAGAC-TTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATA
56326 GCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCA
129 GCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCA
56391 CATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGACCTT
194 CATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGACCTT
* * *
56446 CGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
* * * *
56510 ATCTGCCAACAAAAGACCTTTGAGTTTGACTACGCTCAGCT-CAACGGCACATCATTTGCAACAT
66 ATCTGCCAAC-AAAGA-CTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCAT
* ** *
56574 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGC
128 AGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGC
* * * *
56639 ACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTT
193 ACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGACCTT
* * * * * * *
56695 TGAGTTCGACTACGCCCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCT
1 CGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
* * * * * *
56759 ATCTG-C--CAAAGACTCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATA
66 ATCTGCCAACAAAGACT-TCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATA
* * *** * * * * * *
56821 ACTCAAGGATAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAA
129 GCTTAAGTCGAGAAGGGCTATC--TG--CTAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAG
* * * * **
56885 GGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCC
190 GGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGACCTT
* * * * * * * *
56940 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
* ** * *
57005 ATTTGTGATCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAG
66 ATCTGCCAACAAAGA-CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAG
57070 CTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
130 CTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
57116 TATTCAACTT
Statistics
Matches: 562, Mismatches: 93, Indels: 36
0.81 0.13 0.05
Matches are distributed among these distances:
244 23 0.04
245 45 0.08
246 74 0.13
247 1 0.00
248 44 0.08
249 329 0.59
250 46 0.08
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (248 bp):
CGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
ATCTGCCAACAAAGACTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGC
TTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
TCATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAACCAAAGACCTT
Found at i:57020 original size:414 final size:413
Alignment explanation
Indices: 56167--57093 Score: 1247
Period size: 414 Copynumber: 2.2 Consensus size: 413
56157 TAGTCTAAGT
*
56167 CGAGAAGGGCTATCTGCCAAAGACCCCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCAT
1 CGAGAAGGGCTATCTGCCAAAGA--CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* * *
56232 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAGAGACTTTCGAGTTCGACTACACT
64 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACTTTCGAGTTCGACTACACC
* * * *
56297 CAGCTCCAAGGCACGTCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTC
129 CAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCTCC
* * **
56362 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCCAGAAGGGTTA
194 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGACAGAAGGGTTA
* *
56427 TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAA
259 TCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCACAA
* *** * *
56492 CTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGG
324 CTTAAGTCGAGAAGGGCTATCTGCC-ACAAAAGACCCCCGAGTTCGACTACACTCAGCTCAACGG
* * * *
56557 CACATCATTTGCAACATAGCTTAAGT
388 CACATCATTTACAACATAACTCAAGG
*
56583 CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTT
1 CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * *
56648 GCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTT-GAGTTCGACTACGCCC
66 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGA-CTTTCGAGTTCGACTACACCC
56712 AGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGA-CTCCC
130 AGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCT-CC
* *
56776 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGATAGAAGGGTTA
194 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGACAGAAGGGTTA
** *
56841 TCTG-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATA
259 TCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCACA
* * * *
56905 GCTTAAGTCGAGAAGGGCTATCTG-C-C-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
323 ACTTAAGTCGAGAAGGGCTATCTGCCACAAAAGACCCCCGAGTTCGACTACACTCAGC-TCAACG
**
56967 GCACATCATTTACGGCATAACTCAAGG
387 GCACATCATTTACAACATAACTCAAGG
* * * * ** * * * *
56994 CTAGAAGGGTTATTTGTGATCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
1 CGAGAAGGGCTA--TCTG-CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
* *
57058 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
63 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
57094 TAAAGACCTT
Statistics
Matches: 448, Mismatches: 56, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
410 23 0.05
411 36 0.08
413 52 0.12
414 310 0.69
415 4 0.01
416 23 0.05
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (413 bp):
CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACTTTCGAGTTCGACTACACCCA
GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCTCCGA
GTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGACAGAAGGGTTATC
TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCACAACT
TAAGTCGAGAAGGGCTATCTGCCACAAAAGACCCCCGAGTTCGACTACACTCAGCTCAACGGCAC
ATCATTTACAACATAACTCAAGG
Found at i:57886 original size:37 final size:36
Alignment explanation
Indices: 57744--58001 Score: 234
Period size: 37 Copynumber: 6.9 Consensus size: 36
57734 GTTTTTTATT
* * * * *
57744 TATATATTATATAATTTTGAAGACATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAGA
* *
57780 TATGAT-ATATATAGTTTTTAAAACATTTTAAAAACA
1 TAT-ATAATATATAGTTTTTAAAACATTTTGAAAAGA
* *
57816 TTTATATATTATATAG-TTTTAAAACGTTTTTGAAAAGA
1 --TATATAATATATAGTTTTTAAAAC-ATTTTGAAAAGA
* * *
57854 AATATAATATATAGTTTTCAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAAGA
* *
57891 TATATATTATATAGTTTTTAAAACGTTTTGAAAATAGA
1 TATATAATATATAGTTTTTAAAACATTTTG-AAA-AGA
*
57929 TATATAATATATAATTTTTTGAAAAACATTTTG-AAAGCA
1 TATATAATATAT-AGTTTTT--AAAACATTTTGAAAAG-A
* * *
57968 TATATAATATGTAATTTTTAAAACATTTTTAAAA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA
58002 ATTATATGGT
Statistics
Matches: 182, Mismatches: 26, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
36 54 0.30
37 58 0.32
38 40 0.22
39 20 0.11
41 10 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAGA
Found at i:58027 original size:32 final size:32
Alignment explanation
Indices: 57987--58052 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
57977 TGTAATTTTT
*
57987 AAAACATTTTTAAAAATTATATGGTTTTTAAA
1 AAAACATTTTTAAAAATTATATAGTTTTTAAA
* *
58019 AAAACATTTTTGAAAATTATATAGTTTTTTAA
1 AAAACATTTTTAAAAATTATATAGTTTTTAAA
58051 AA
1 AA
58053 TGTTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (32 bp):
AAAACATTTTTAAAAATTATATAGTTTTTAAA
Found at i:58139 original size:3 final size:3
Alignment explanation
Indices: 58131--58192 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
58121 GTTTTTATAT
* *
58131 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TT- TTT TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA
58177 CTTA TT- TTA TT- TTA TT
1 -TTA TTA TTA TTA TTA TT
58193 TTTTTCCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 6 0.12
3 35 0.70
4 9 0.18
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:60134 original size:8 final size:8
Alignment explanation
Indices: 60121--60220 Score: 92
Period size: 8 Copynumber: 12.2 Consensus size: 8
60111 TAATTGCTCG
60121 AACTCTCA
1 AACTCTCA
60129 AACTCTCTTA
1 AACTCTC--A
* *
60139 AATTCTTA
1 AACTCTCA
*
60147 AACTCTCT
1 AACTCTCA
*
60155 AACTCTGA
1 AACTCTCA
*
60163 AACTATCA
1 AACTCTCA
60171 AACTCTCA
1 AACTCTCA
* **
60179 AACTTTTG
1 AACTCTCA
*
60187 AACTTTCA
1 AACTCTCA
60195 AACTCTCA
1 AACTCTCA
60203 AACTCTCA
1 AACTCTCA
*
60211 AATTCTCA
1 AACTCTCA
60219 AA
1 AA
60221 ATGACTTCTA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
8 67 0.92
10 6 0.08
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.33
Consensus pattern (8 bp):
AACTCTCA
Found at i:60798 original size:59 final size:60
Alignment explanation
Indices: 60703--60853 Score: 214
Period size: 59 Copynumber: 2.5 Consensus size: 60
60693 ATAGGGATGT
* ** * * * *
60703 ATTCATCTGCCAACTTCTTTGACGTCAATATGGATATGCCTTTTAGTTCC-AGGGGAGAC
1 ATTCATCTGCCAGCTTCTTCAACCTCAATATAGATATGCCTTCTAGTTCCAAGGGGAAAC
*
60762 ATTCATCTGCTAGCTTCTTCAACCTCAATATAGATATGCCTTCTAGTTCCAAGGGGAAAC
1 ATTCATCTGCCAGCTTCTTCAACCTCAATATAGATATGCCTTCTAGTTCCAAGGGGAAAC
*
60822 ATTCATCTTCCAGCTTCTTCAACCTCAATATA
1 ATTCATCTGCCAGCTTCTTCAACCTCAATATA
60854 CAGATGTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 43 0.53
60 38 0.47
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (60 bp):
ATTCATCTGCCAGCTTCTTCAACCTCAATATAGATATGCCTTCTAGTTCCAAGGGGAAAC
Found at i:62848 original size:15 final size:15
Alignment explanation
Indices: 62828--62856 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62818 ATTCGTCGTT
62828 GTCATCGTCTTGATA
1 GTCATCGTCTTGATA
62843 GTCATCGTCTTGAT
1 GTCATCGTCTTGAT
62857 CATTATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (15 bp):
GTCATCGTCTTGATA
Found at i:64789 original size:14 final size:14
Alignment explanation
Indices: 64770--64797 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64760 ATAAATTATT
64770 TAAATAAATTCTAA
1 TAAATAAATTCTAA
64784 TAAATAAATTCTAA
1 TAAATAAATTCTAA
64798 CAATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATAAATTCTAA
Found at i:66825 original size:29 final size:30
Alignment explanation
Indices: 66731--66825 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66721 TACTTTTTCT
*
66731 TCTTAATTTATTAAATACATTTTATTCTTA
1 TCTTAATTTATTAAATATATTTTATTCTTA
* *
66761 ACTTAATTTATTAAATAT-TTTATATTATTA
1 TCTTAATTTATTAAATATATTT-TATTCTTA
* *
66791 -CTTTAAATT-TTAAATATATTTTATTCCTA
1 TC-TTAATTTATTAAATATATTTTATTCTTA
66820 TCTTAA
1 TCTTAA
66826 CTTAAAAGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
29 22 0.40
30 33 0.60
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (30 bp):
TCTTAATTTATTAAATATATTTTATTCTTA
Found at i:66887 original size:29 final size:29
Alignment explanation
Indices: 66855--66944 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
66845 AAAAGTTACT
*
66855 TTATTCATATCTTAACTTATATATATATA
1 TTATTCTTATCTTAACTTATATATATATA
* * * * *
66884 TTATTCTTATTTTAACTTAAAAACACATA
1 TTATTCTTATCTTAACTTATATATATATA
*
66913 TTTATTCTTAACTTAACTTAATATATATATA
1 -TTATTCTTATCTTAACTT-ATATATATATA
66944 T
1 T
66945 AATCTTAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 23 0.49
30 17 0.36
31 7 0.15
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (29 bp):
TTATTCTTATCTTAACTTATATATATATA
Found at i:66952 original size:29 final size:29
Alignment explanation
Indices: 66856--66957 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
66846 AAAGTTACTT
* *
66856 TATTCATATCTTAACTT-ATATATATATA
1 TATTCTTAACTTAACTTAATATATATATA
** * * * *
66884 TTATTCTTATTTTAACTTAAAAACACATATT
1 -TATTCTTAACTTAACTT-AATATATATATA
66915 TATTCTTAACTTAACTTAATATATATATA
1 TATTCTTAACTTAACTTAATATATATATA
* *
66944 TAATCTTAATTTAA
1 TATTCTTAACTTAA
66958 ACATATTTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
29 35 0.61
30 15 0.26
31 7 0.12
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTCTTAACTTAACTTAATATATATATA
Found at i:71192 original size:30 final size:30
Alignment explanation
Indices: 71152--71224 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
71142 TCCGAATAAC
71152 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
71182 CTATCTAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
71212 CTGTCCATAGGTC
1 CTATCCAGAGGTC
71225 CCGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:71241 original size:30 final size:30
Alignment explanation
Indices: 71198--71278 Score: 72
Period size: 31 Copynumber: 2.6 Consensus size: 30
71188 AGAGGTCATA
* *
71198 AAGATCCTCGGTAACTGTCCATAGGTCCCG
1 AAGAACCTAGGTAACTGTCCATAGGTCCCG
* * * *
71228 AAGAACCTAGGTAAACTATCCATATGTTCCT
1 AAGAACCTAGGT-AACTGTCCATAGGTCCCG
* *
71259 TAGAACATAGGTATACTGTC
1 AAGAACCTAGGTA-ACTGTC
71279 TATATGTCTC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 11 0.28
31 29 0.73
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (30 bp):
AAGAACCTAGGTAACTGTCCATAGGTCCCG
Found at i:72434 original size:64 final size:63
Alignment explanation
Indices: 72363--72503 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 63
72353 CTTTAGCATG
* * *
72363 TGCATCGATGCACAAATCACCTTCGATGTTTTCATTTTAAGGGGATGCATCGATGCAC-TCCTTA
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGG-TGCATCGATGCACTTCC-TA
* ** * *
72427 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGGTGCATCGATGCACTTCCTG
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTTCCTA
*
72490 TGCATCGATACACA
1 TGCATCGATGCACA
72504 CTGAAGAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
63 26 0.39
64 40 0.61
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTTCCTA
Found at i:75039 original size:25 final size:25
Alignment explanation
Indices: 75005--75053 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
74995 GCTGCCAGGT
75005 GAATTACTACTTTCAGCTAATCTAG
1 GAATTACTACTTTCAGCTAATCTAG
75030 GAATTACTACTTTCAGCTAATCTA
1 GAATTACTACTTTCAGCTAATCTA
75054 TCTCTCGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (25 bp):
GAATTACTACTTTCAGCTAATCTAG
Found at i:75910 original size:30 final size:30
Alignment explanation
Indices: 75850--75981 Score: 212
Period size: 30 Copynumber: 4.4 Consensus size: 30
75840 TCCGAAGGAC
*
75850 CTATCCAGAGGTCATAAAGATTCT-GGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
75879 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
75909 CTATCCAGAGGTCATAAAGAGCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
75939 CTATCCAGGGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
75969 CTGTCCATAGGTC
1 CTATCCAGAGGTC
75982 CCGAAGAACC
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 23 0.24
30 72 0.76
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:75998 original size:60 final size:60
Alignment explanation
Indices: 75850--76006 Score: 199
Period size: 60 Copynumber: 2.6 Consensus size: 60
75840 TCCGAAGGAC
* **
75850 CTATCCAGAGGTCATAAAGATTCT-GGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * *
75909 CTATCCAGAGGTCATAAAGAGCCTCGGTAACTATCCAGGGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * *
75969 CTGTCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCCAGAGGTCACAAAGAACCTAGGT-AACTATCCA
76007 TATGTTCCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 22 0.26
60 55 0.64
61 9 0.10
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (60 bp):
CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:76007 original size:31 final size:31
Alignment explanation
Indices: 75967--76058 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
75957 GATCCTCGGT
* *
75967 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * **
75998 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
76029 TACTGTCCATATGTCTCGAAG-ACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
76059 GTTCTTTGAC
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 9 0.18
31 40 0.82
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:77119 original size:24 final size:20
Alignment explanation
Indices: 77066--77142 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
77056 TTTCTCTTAA
77066 AGTGCATCGATGCATTCAAC
1 AGTGCATCGATGCATTCAAC
*
77086 AGTGCATCGATGCATTCTTTAGC
1 AGTGCATCGATGCATTC---AAC
* *
77109 ATGTGCATCGATGCAGT-ACC
1 A-GTGCATCGATGCATTCAAC
*
77129 CGTGCATCGATGCA
1 AGTGCATCGATGCA
77143 CAAATCACCT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
19 13 0.27
20 19 0.39
23 3 0.06
24 14 0.29
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTGCATCGATGCATTCAAC
Done.