Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014274.1 Kokia drynarioides strain JFW-HI SEQ_129307, 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: 333927
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 167 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:522 original size:3 final size:3
Alignment explanation
Indices: 507--585 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
497 TATAATATTC
507 ATA ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
553 ATA ATA ATG ACA TTA ATA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
586 GCATAAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1661 original size:30 final size:29
Alignment explanation
Indices: 1600--2209 Score: 657
Period size: 30 Copynumber: 20.6 Consensus size: 29
1590 GTCCCTAAAC
*
1600 CTTCCAAAAATTCCATTTTTACCCTC-GAA
1 CTTCCAAAAATTCCATTTTTACCC-CAAAA
*
1629 CTTCCAAAAATTCCATTTTTAACCCTAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
*
1659 CTTCCAAAAATTCCATTTTTTACCCCAGAA
1 CTTCCAAAAATTCCA-TTTTTACCCCAAAA
*
1689 CTTCCAAAAATCCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
**
1719 CTTCCAAAAATTCCA-TTTTACCCCCGAA
1 CTTCCAAAAATTCCATTTTTACCCCAAAA
*
1747 CTTCCAAAAATCCCATTTTTAACCCCAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
* *
1777 CTTCCAAAAATTTCATTTTTACACCC-GAA
1 CTTCCAAAAATTCCATTTTTAC-CCCAAAA
* *
1806 CTTCCAAAAATCCCATTTTTGACCCTAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
1836 CTTCCAAAAATTCCATTTTTAGCCCCGAACAA
1 CTTCCAAAAATTCCATTTTTA-CCCC-AA-AA
*
1868 C--CAAAAAATTCCATTTTTAGCCCCAAAA
1 CTTCCAAAAATTCCATTTTTA-CCCCAAAA
* * * *
1896 TTTCCAAAATTTCTATTTTTACCCTC-GAA
1 CTTCCAAAAATTCCATTTTTACCC-CAAAA
* * *
1925 CTTCCAGAAATCCCATTTTTGACCTCAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
*
1955 CTTCCAAAAATTCCA-TTTTACCCCCAAA
1 CTTCCAAAAATTCCATTTTTACCCCAAAA
1983 CTTCCAAAAA-TCTCATTTTTTACCCCAAAA
1 CTTCCAAAAATTC-CA-TTTTTACCCCAAAA
*
2013 GTTCCAAAAATTCCATTTTTACCTCC-AAA
1 CTTCCAAAAATTCCATTTTTACC-CCAAAA
*
2042 CTTCCAAAAATCCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
*
2072 CTTCCAAAAATTCCATTTTTACCCTC-GAA
1 CTTCCAAAAATTCCATTTTTACCC-CAAAA
* *
2101 CTTCCAAAAATACCATTTTTTAACCCCAAAG
1 CTTCCAAAAATTCCA-TTTTT-ACCCCAAAA
* *
2132 CTTCCAAAAATTCCATTTTTAGCCTC-GAA
1 CTTCCAAAAATTCCATTTTTA-CCCCAAAA
* *
2161 CTTCCAAAAATTCCATTTTTAACCCCGAAT
1 CTTCCAAAAATTCCATTTTT-ACCCCAAAA
* *
2191 TTTCCCAAAATTACCATTT
1 CTTCCAAAAATT-CCATTT
2210 CACCCTCGAG
Statistics
Matches: 493, Mismatches: 56, Indels: 62
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.00
28 42 0.09
29 161 0.33
30 251 0.51
31 34 0.07
32 3 0.01
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (29 bp):
CTTCCAAAAATTCCATTTTTACCCCAAAA
Found at i:2010 original size:236 final size:235
Alignment explanation
Indices: 1592--2214 Score: 919
Period size: 236 Copynumber: 2.6 Consensus size: 235
1582 CCCTGAAGGT
* *
1592 CCCTAAACCTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAA
1 CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCCAA
1657 AACTTCCAAAAATTCCATTTTTTACCC-CAGAACTTCCAAAAATCCCATTTTTGACCCCAAAACT
66 AACTTCCAAAAATTCCA-TTTTTACCCTC-GAACTTCCAAAAATCCCATTTTTGACCCCAAAACT
*
1721 TCCAAAAATTCCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAA
129 TCCAAAAATTCCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAA
* *
1786 ATTTCATTTTTACAC-CCGAACTTCCAAAAATCCCATTTTTGA
194 ATTCCATTTTTAC-CTCCAAACTTCCAAAAATCCCATTTTTGA
** *
1828 CCCTAAAACTTCCAAAAATTCCATTTTTAGCCC-CGAACAACCAAAAAATTCCATTTTTAGCCCC
1 CCCTAAAACTTCCAAAAATTCCATTTTTA-CCCTCGAACTTCC-AAAAATTCCATTTTTAACCCC
* * * * *
1892 AAAATTTCCAAAATTTCTATTTTTACCCTCGAACTTCCAGAAATCCCATTTTTGACCTCAAAACT
64 AAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACT
* * *
1957 TCCAAAAATTCCATTTTACCCCCAAACTTCCAAAAATCTCATTTTTTACCCCAAAAGTTCCAAAA
129 TCCAAAAATTCCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAA
2022 ATTCCATTTTTACCTCCAAACTTCCAAAAATCCCATTTTTGA
194 ATTCCATTTTTACCTCCAAACTTCCAAAAATCCCATTTTTGA
* *
2064 CCCCAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATACCATTTTTTAACCCCA
1 CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTTAACCCCA
* * * * * **
2129 AAGCTTCCAAAAATTCCATTTTTAGCCTCGAACTTCCAAAAATTCCATTTTTAACCCCGAATTTT
65 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTT
* *
2194 CCCAAAATTACCATTTCACCC
130 CCAAAAATT-CCATTTTACCC
2215 TCGAGAATCC
Statistics
Matches: 345, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
235 13 0.04
236 283 0.82
237 49 0.14
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (235 bp):
CCCTAAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCCAA
AACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTC
CAAAAATTCCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAAT
TCCATTTTTACCTCCAAACTTCCAAAAATCCCATTTTTGA
Found at i:2228 original size:59 final size:59
Alignment explanation
Indices: 1600--2218 Score: 820
Period size: 59 Copynumber: 10.5 Consensus size: 59
1590 GTCCCTAAAC
* *
1600 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAA
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
*
1659 CTTCCAAAAATTCCATTTTTTACCC-CAGAACTTCCAAAAATCCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCA-TTTTTACCCTC-GAACTTCCAAAAATCCCATTTTTAACCCCAAAA
*
1719 CTTCCAAAAATTCCA-TTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * *
1777 CTTCCAAAAATTTCATTTTTACACC-CGAACTTCCAAAAATCCCATTTTTGACCCTAAAA
1 CTTCCAAAAATTCCATTTTTAC-CCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
** * *
1836 CTTCCAAAAATTCCATTTTTAGCCC-CGAACAACCAAAAAATTCCATTTTTAGCCCCAAAA
1 CTTCCAAAAATTCCATTTTTA-CCCTCGAACTTCC-AAAAATCCCATTTTTAACCCCAAAA
* * * * * *
1896 TTTCCAAAATTTCTATTTTTACCCTCGAACTTCCAGAAATCCCATTTTTGACCTCAAAA
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * * *
1955 CTTCCAAAAATTCCA-TTTTACCCCCAAACTTCCAAAAATCTCATTTTTTACCCCAAAA
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * *
2013 GTTCCAAAAATTCCATTTTTA-CCTCCAAACTTCCAAAAATCCCATTTTTGACCCCAAAA
1 CTTCCAAAAATTCCATTTTTACCCT-CGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* *
2072 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATACCATTTTTTAACCCCAAAG
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCA-TTTTTAACCCCAAAA
* * * *
2132 CTTCCAAAAATTCCATTTTTAGCCTCGAACTTCCAAAAATTCCATTTTTAACCCCGAAT
1 CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
* * *
2191 TTTCCCAAAATTACCA-TTTCACCCTCGA
1 CTTCCAAAAATT-CCATTTTTACCCTCGA
2219 GAATCCAAAA
Statistics
Matches: 497, Mismatches: 50, Indels: 26
0.87 0.09 0.05
Matches are distributed among these distances:
58 107 0.22
59 226 0.45
60 164 0.33
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.32
Consensus pattern (59 bp):
CTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCAAAA
Found at i:3600 original size:655 final size:645
Alignment explanation
Indices: 2351--3650 Score: 2510
Period size: 655 Copynumber: 2.0 Consensus size: 645
2341 TGCATTTTTT
2351 ATTTTTTCGCAAATAATTTATCTTCTTTTTTTTCTTAATTCGCGTTATTTAATATCTATTATTAA
1 ATTTTTTCGCAAATAATTTATCTTCTTTTTTTTCTTAATTCGCGTTATTTAATATCTATTATTAA
2416 CTGATTATTCATATTTAACTCACATGCTTGTTTTCGAAATTGTCTTCTTTTTTTTCAAAAAAAAA
66 CTGATTATTCATATTTAACTCACATGCTTGTTTTCGAAATTGTCTTCTTTTTTTTCAAAAAAAAA
2481 ACTTTAATATCAAGGCAATATTATTTCATTTCGGGTTTCGAAAATTTGCGTCTTAACTCACTAGG
131 ACTTTAATATCAAGGCAATATTATTTCATTTCGGGTTTCGAAAATTTGCGTCTTAACTCACTAGG
2546 TGTAATTTTTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATGTTTCCTTATCTTC
196 TGTAATTTTTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATGTTTCCTTATCTTC
2611 GATTCCGAAATATTGCGGCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAGATAATCAAATA
261 GATTCCGAAATATTGCGGCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAGATAATCAAATA
2676 TCCTTTTCGCAAAGATTTCAAAAGGTTTTACAAAGGAAAGCTCATTATGTCTGGATCTTGAAATG
326 TCCTTTTCGCAAAGATTTCAAAAGGTTTTACAAAGGAAAGCTCATTATGTCTGGATCTTGAAATG
2741 TTATGTCCTAACTTACTGAATGTAACTTTCTTCCTCGATCACTTTGAAATATCGAGATTTCCCAA
391 TTATGTCCTAACTTACTGAATGTAACTTTCTTCCTCGATCACTTTGAAATATCGAGATTTCCCAA
2806 CTAACCCGATTTCTTTTAGATTTAATTCATGTATTCAAGGATCATTTTTTTAAAACTTTATTCGA
456 CTAACCCGATTTCTTTTAGATTTAATTCATGTATTCAAGGATCATTTTTTTAAAACTTTATTCGA
2871 GCTCTTAAGCGTTACAAATCAAGACCCAAAAATAATCAATACGGTACCAATTTTGGGCGTATGAG
521 GCTCTTAAGCGTTACAAATCAAGACCCAAAAATAATCAATACGGTACCAATTTTGGGCGTATGAG
2936 GGTGCTAACCGACTCCCGAACCTATTTTTCTGGATTTCGAAGACTTACATGTTTTCAAAA
586 GGTGCTAACCGACTCCCGAACCTATTTTTCTGGATTTCGAAGACTTACATGTTTTCAAAA
2996 NNNNNNNNNNATTTTTTCGCAAATAATTTATCTTCTTTTTTTTCTTAATTCGCGTTATTTAATAT
1 ----------ATTTTTTCGCAAATAATTTATCTTCTTTTTTTTCTTAATTCGCGTTATTTAATAT
3061 CTATTATTAACTGATTATTCATATTTAACTCACATGCTTGTTTTCGAAATTGTCTTCTTTTTTTT
56 CTATTATTAACTGATTATTCATATTTAACTCACATGCTTGTTTTCGAAATTGTCTTCTTTTTTTT
3126 CAAAAAAAAAACTTTAATATCAAGGCAATATTATTTCATTTCGGGTTTCGAAAATTTGCGTCTTA
121 CAAAAAAAAAACTTTAATATCAAGGCAATATTATTTCATTTCGGGTTTCGAAAATTTGCGTCTTA
3191 ACTCACTAGGTGTAATTTTTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATGTTT
186 ACTCACTAGGTGTAATTTTTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATGTTT
3256 CCTTATCTTCGATTCCGAAATATTGCGGCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAGA
251 CCTTATCTTCGATTCCGAAATATTGCGGCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAGA
3321 TAATCAAATATCCTTTTCGCAAAGATTTCAAAAGGTTTTACAAAGGAAAGCTCATTATGTCTGGA
316 TAATCAAATATCCTTTTCGCAAAGATTTCAAAAGGTTTTACAAAGGAAAGCTCATTATGTCTGGA
3386 TCTTGAAATGTTATGTCCTAACTTACTGAATGTAACTTTCTTCCTCGATCACTTTGAAATATCGA
381 TCTTGAAATGTTATGTCCTAACTTACTGAATGTAACTTTCTTCCTCGATCACTTTGAAATATCGA
3451 GATTTCCCAACTAACCCGATTTCTTTTAGATTTAATTCATGTATTCAAGGATCATTTTTTTAAAA
446 GATTTCCCAACTAACCCGATTTCTTTTAGATTTAATTCATGTATTCAAGGATCATTTTTTTAAAA
3516 CTTTATTCGAGCTCTTAAGCGTTACAAATCAAGACCCAAAAATAATCAATACGGTACCAATTTTG
511 CTTTATTCGAGCTCTTAAGCGTTACAAATCAAGACCCAAAAATAATCAATACGGTACCAATTTTG
3581 GGCGTATGAGGGTGCTAACCGACTCCCGAACCTATTTTTCTGGATTTCGAAGACTTACATGTTTT
576 GGCGTATGAGGGTGCTAACCGACTCCCGAACCTATTTTTCTGGATTTCGAAGACTTACATGTTTT
3646 CAAAA
641 CAAAA
3651 CGGCTTTTAA
Statistics
Matches: 645, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
655 645 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (645 bp):
ATTTTTTCGCAAATAATTTATCTTCTTTTTTTTCTTAATTCGCGTTATTTAATATCTATTATTAA
CTGATTATTCATATTTAACTCACATGCTTGTTTTCGAAATTGTCTTCTTTTTTTTCAAAAAAAAA
ACTTTAATATCAAGGCAATATTATTTCATTTCGGGTTTCGAAAATTTGCGTCTTAACTCACTAGG
TGTAATTTTTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATGTTTCCTTATCTTC
GATTCCGAAATATTGCGGCTTAACTTACTAGGTGCAACCTTTCTTCAAATCGAGATAATCAAATA
TCCTTTTCGCAAAGATTTCAAAAGGTTTTACAAAGGAAAGCTCATTATGTCTGGATCTTGAAATG
TTATGTCCTAACTTACTGAATGTAACTTTCTTCCTCGATCACTTTGAAATATCGAGATTTCCCAA
CTAACCCGATTTCTTTTAGATTTAATTCATGTATTCAAGGATCATTTTTTTAAAACTTTATTCGA
GCTCTTAAGCGTTACAAATCAAGACCCAAAAATAATCAATACGGTACCAATTTTGGGCGTATGAG
GGTGCTAACCGACTCCCGAACCTATTTTTCTGGATTTCGAAGACTTACATGTTTTCAAAA
Found at i:15024 original size:181 final size:181
Alignment explanation
Indices: 14720--15058 Score: 579
Period size: 181 Copynumber: 1.9 Consensus size: 181
14710 ATTATCCACA
*
14720 AAACGACGCGGTCATCTTCCCGATGAGACACTAAGAAGAAGAACAAATCAAACTCAAGCCCGATG
1 AAACGACGCAGTCATCTTCCCGATGAGACACTAAGAAGAAGAACAAATCAAACTCAAGCCCGATG
* * **
14785 TGAGCAAATCTTTGAACCCCAACTTCCTGATGAGATACTGAGAAGTTAGTCGAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAGTCGAAGTAATAAAACG
14850 GTTAGCTTCCTGACCATCTTCCTGATGAGATACAGAGAAGCGAATTGAAAC
131 GTTAGCTTCCTGACCATCTTCCTGATGAGATACAGAGAAGCGAATTGAAAC
* * * * *
14901 AAACGACGCAGTCATCTTCCCGATGAGATACTGAGAAGAAGACCAAATCAAATTCACGCCCGATG
1 AAACGACGCAGTCATCTTCCCGATGAGACACTAAGAAGAAGAACAAATCAAACTCAAGCCCGATG
*
14966 TGAGCAAATCTTCGAACCCCAACTTCTTGATGAGATACTAAGAAGCAAGTCGAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAGTCGAAGTAATAAAACG
15031 GTTAGCTTCCTGACCATCTTCCTGATGA
131 GTTAGCTTCCTGACCATCTTCCTGATGA
15059 CGTACGGAGA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 147 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (181 bp):
AAACGACGCAGTCATCTTCCCGATGAGACACTAAGAAGAAGAACAAATCAAACTCAAGCCCGATG
TGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGCAAGTCGAAGTAATAAAACG
GTTAGCTTCCTGACCATCTTCCTGATGAGATACAGAGAAGCGAATTGAAAC
Found at i:15100 original size:31 final size:31
Alignment explanation
Indices: 15042--15101 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
15032 TTAGCTTCCT
* *
15042 GACCATCTTCCTGATGACGTACGGAGAAGTG
1 GACCATCTTCCTGATGAAGTACAGAGAAGTG
15073 GACCATCTTCCTGAT-AAGATACAGAGAAG
1 GACCATCTTCCTGATGAAG-TACAGAGAAG
15102 CAAATTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (31 bp):
GACCATCTTCCTGATGAAGTACAGAGAAGTG
Found at i:15723 original size:23 final size:22
Alignment explanation
Indices: 15688--15739 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
15678 GGCCCATTGG
* ** *
15688 AAATTGAATTTATTTTTATTTT
1 AAATTTAATTTATTTGAAATTT
15710 AAATTTAAGTTTATTTGAAATTT
1 AAATTTAA-TTTATTTGAAATTT
15733 AAATTTA
1 AAATTTA
15740 TTATAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
AAATTTAATTTATTTGAAATTT
Found at i:15751 original size:17 final size:16
Alignment explanation
Indices: 15702--15756 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
15692 TGAATTTATT
*
15702 TTTATTTTAAATTTAAG
1 TTTA-TTTAAATTTAAA
15719 TTTATTTGAAATTTAAA
1 TTTATTT-AAATTTAAA
*
15736 TTTATTATAAAATTAAA
1 TTTATT-TAAATTTAAA
15753 TTTA
1 TTTA
15757 GAAAAGTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 30 0.88
18 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTTATTTAAATTTAAA
Found at i:16467 original size:3 final size:3
Alignment explanation
Indices: 16452--16506 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
16442 GCTGGCATTC
* * *
16452 ATA ATA TATA ATA ATA ATA ATA ATA ATA ATG ACA TTA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
16498 TTA ATA ATA
1 ATA ATA ATA
16507 GCATAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:16774 original size:7 final size:7
Alignment explanation
Indices: 16762--16786 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16752 ATGGAGGTGA
16762 GTGGCGT
1 GTGGCGT
16769 GTGGCGT
1 GTGGCGT
16776 GTGGCGT
1 GTGGCGT
16783 GTGG
1 GTGG
16787 AAAGCACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.60, T:0.28
Consensus pattern (7 bp):
GTGGCGT
Found at i:17537 original size:29 final size:29
Alignment explanation
Indices: 17493--17700 Score: 202
Period size: 29 Copynumber: 7.4 Consensus size: 29
17483 GTCCCTAAAC
*
17493 CTTCCAAAAATTCCATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTACCCCCAAA
*
17522 CTTCCAAAAATCCCATTTTTGACCCCAAAA
1 CTTCCAAAAATCCCATTTTT-ACCCCCAAA
17552 C-T-------T-CCATTTTTACCCCCAAA
1 CTTCCAAAAATCCCATTTTTACCCCCAAA
**
17572 CTTCCAAAAATCCCATTTTTGACCCTAAAA
1 CTTCCAAAAATCCCATTTTT-ACCCCCAAA
* * * *
17602 CTTCCAAAAAT-TCAATTTTACCCTCGAA
1 CTTCCAAAAATCCCATTTTTACCCCCAAA
**
17630 CTTCCAAAAATCCCATTTTTTGACCCTAAAA
1 CTTCCAAAAATCCCA-TTTTT-ACCCCCAAA
* *
17661 CTTCCAAAAATCCCATTTTTAGCCCCGAA
1 CTTCCAAAAATCCCATTTTTACCCCCAAA
17690 CTTCCAAAAAT
1 CTTCCAAAAAT
17701 TCTATTTTAA
Statistics
Matches: 148, Mismatches: 17, Indels: 28
0.77 0.09 0.15
Matches are distributed among these distances:
20 9 0.06
21 9 0.06
22 1 0.01
28 19 0.13
29 52 0.35
30 36 0.24
31 22 0.15
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (29 bp):
CTTCCAAAAATCCCATTTTTACCCCCAAA
Found at i:17557 original size:50 final size:50
Alignment explanation
Indices: 17496--17666 Score: 216
Period size: 50 Copynumber: 3.2 Consensus size: 50
17486 CCTAAACCTT
*
17496 CCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACC
1 CCAAAACTTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACC
17546 CCAAAACTTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACC
1 CCAAAACTTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACC
* * *
17596 CTAAAACTTCCAAAAATTCAATTTTACCCTCGAACTTCCAAAAATCCCATTTTTTGACC
1 CCAAAACTTCC----A-T---TTTTACCCCCAAACTTCCAAAAATCCCA-TTTTTGACC
*
17655 CTAAAACTTCCA
1 CCAAAACTTCCA
17667 AAAATCCCAT
Statistics
Matches: 108, Mismatches: 4, Indels: 13
0.86 0.03 0.10
Matches are distributed among these distances:
50 59 0.55
54 1 0.01
55 2 0.02
58 26 0.24
59 20 0.19
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (50 bp):
CCAAAACTTCCATTTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACC
Found at i:17561 original size:20 final size:20
Alignment explanation
Indices: 17538--17577 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17528 AAAATCCCAT
17538 TTTTGACCCCAAAACTTCCA
1 TTTTGACCCCAAAACTTCCA
* *
17558 TTTTTACCCCCAAACTTCCA
1 TTTTGACCCCAAAACTTCCA
17578 AAAATCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.03, T:0.33
Consensus pattern (20 bp):
TTTTGACCCCAAAACTTCCA
Found at i:17568 original size:21 final size:21
Alignment explanation
Indices: 17525--17577 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
17515 CCCCAAACTT
* *
17525 CCAAAAATCCCATTTTTGACC
1 CCAAAACTTCCATTTTTGACC
17546 CCAAAACTTCCATTTTT-ACC
1 CCAAAACTTCCATTTTTGACC
*
17566 CCCAAACTTCCA
1 CCAAAACTTCCA
17578 AAAATCCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.32, C:0.38, G:0.02, T:0.28
Consensus pattern (21 bp):
CCAAAACTTCCATTTTTGACC
Found at i:17622 original size:58 final size:60
Alignment explanation
Indices: 17559--17700 Score: 225
Period size: 58 Copynumber: 2.4 Consensus size: 60
17549 AAACTTCCAT
* *
17559 TTTTACCCCCAAACTTCCAAAAATCCCA-TTTTTGACCCTAAAACTTCCAAAAAT-TCAA
1 TTTTACCCCCGAACTTCCAAAAATCCCATTTTTTGACCCTAAAACTTCCAAAAATCCCAA
* *
17617 TTTTACCCTCGAACTTCCAAAAATCCCATTTTTTGACCCTAAAACTTCCAAAAATCCCAT
1 TTTTACCCCCGAACTTCCAAAAATCCCATTTTTTGACCCTAAAACTTCCAAAAATCCCAA
*
17677 TTTTAGCCCCGAACTTCCAAAAAT
1 TTTTACCCCCGAACTTCCAAAAAT
17701 TCTATTTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
58 26 0.34
59 26 0.34
60 24 0.32
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (60 bp):
TTTTACCCCCGAACTTCCAAAAATCCCATTTTTTGACCCTAAAACTTCCAAAAATCCCAA
Found at i:17653 original size:59 final size:58
Alignment explanation
Indices: 17559--17700 Score: 214
Period size: 59 Copynumber: 2.4 Consensus size: 58
17549 AAACTTCCAT
* *
17559 TTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCCTAAAACTTCCAAAAAT-TCAA
1 TTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCTAAAACTTCCAAAAATCCCAA
*
17617 TTTTACCCTCGAACTTCCAAAAATCCCATTTTTTGACCCTAAAACTTCCAAAAATCCCAT
1 TTTTACCC-CGAACTTCCAAAAATCCCA-TTTTTGACCCTAAAACTTCCAAAAATCCCAA
17677 TTTTAGCCCCGAACTTCCAAAAAT
1 TTTTA-CCCCGAACTTCCAAAAAT
17701 TCTATTTTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
57 3 0.04
58 23 0.30
59 26 0.34
60 22 0.29
61 3 0.04
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (58 bp):
TTTTACCCCGAACTTCCAAAAATCCCATTTTTGACCCTAAAACTTCCAAAAATCCCAA
Found at i:17663 original size:31 final size:30
Alignment explanation
Indices: 17546--17680 Score: 168
Period size: 30 Copynumber: 4.6 Consensus size: 30
17536 ATTTTTGACC
* * **
17546 CCAAAACTTCCATTTTT-ACCCCCAAACTT
1 CCAAAAATCCCATTTTTGACCCTAAAACTT
17575 CCAAAAATCCCATTTTTGACCCTAAAACTT
1 CCAAAAATCCCATTTTTGACCCTAAAACTT
* * **
17605 CCAAAAAT-TCAATTTT-ACCCTCGAACTT
1 CCAAAAATCCCATTTTTGACCCTAAAACTT
17633 CCAAAAATCCCATTTTTTGACCCTAAAACTT
1 CCAAAAATCCCA-TTTTTGACCCTAAAACTT
17664 CCAAAAATCCCATTTTT
1 CCAAAAATCCCATTTTT
17681 AGCCCCGAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.20
29 23 0.26
30 27 0.30
31 22 0.24
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (30 bp):
CCAAAAATCCCATTTTTGACCCTAAAACTT
Found at i:25798 original size:209 final size:209
Alignment explanation
Indices: 25523--26701 Score: 1579
Period size: 209 Copynumber: 5.7 Consensus size: 209
25513 TGCGATTATC
* * * *
25523 CAAAACAA-TGAGGCGGTCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTTAATGAAACC
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAATGAAACC
* * *
25586 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTTATGAGATATTGAGAAACAGGTCAAAG
65 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAG
* * * * *
25651 CAATAAAGCGGTTACCTTCTTGATAAGATATAGAGAAGTGAATCAGATCTGTCTTCTTAATGAGA
130 CAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGA
* *
25716 CATAGAGAAGTGGAT
195 CACAAAGAAGTGGAT
* * *
25731 CAAAACAAGTGATGCGGTCATCTTCTTGATGAGATATTGAGAAGTAGACCAAATTAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* * * *
25796 GGCTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCTTGATGAAATACTGAGAAGCAGGTCGAAGC
66 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGC
*
25861 AATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGAC
131 AATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
25926 ACAAAGAAGTGGAT
196 ACAAAGAAGTGGAT
* *
25940 AAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATCC
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-CC
* * * *
26005 -GGCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGTAGGTCGAAG
65 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAG
* * * *
26069 TAATAAAGCAGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGAT-TCGTCTTCCCGATGA
130 CAATAAAGCGGTTACC-TTCCTGATGAGATATAGAGAAGTGAACCAGATCT-GTCTTCCTGATGA
*
26133 GACACAAAGAAGTGGAG
193 GACACAAAGAAGTGGAT
*
26150 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACTAAATCAATGAAACCA
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
* * * * *
26215 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGGTGAGATACTGAGAAGTAAGTCAAAGT
66 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGC
* * * * *
26280 AATAAAGCGGTTACCTTCCTGATGAGATACAGAGAACTGAACCAAATCCGTATTCCTGATGAGAC
131 AATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
* *
26345 ATAGAGAAGTGGAT
196 ACAAAGAAGTGGAT
* *
26359 CAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAT-AAAGTC
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-CC
* * * **
26423 AGGCTCAAAGTGAGCAAATCTTTGAACCTCAGCTACCTGATGAGATACTGAGAAGCAGGTTGAAG
65 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAG
* *
26488 CAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGAT-TCGTCTTCCTGATTAG
130 CAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCT-GTCTTCCTGATGAG
* ** *
26552 ATACAAAGAAGCAGCT
194 ACACAAAGAAGTGGAT
* * * *
26568 CAAAATAAGTAATGTGGTCATCTTCCTAATGAG--A-T-AGAAGTAGACCAAATCAATG-AACCT
1 CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC-
* * * * * *
26628 AAAGCTCGATGTGAGCAAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAACAGGTCAAA
65 -AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAA
*
26693 GTAATAAAG
129 GCAATAAAG
26702 TGGTCGTCTT
Statistics
Matches: 861, Mismatches: 98, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
204 1 0.00
205 21 0.02
206 62 0.07
207 1 0.00
208 11 0.01
209 572 0.66
210 193 0.22
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
CAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGC
AATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGAC
ACAAAGAAGTGGAT
Found at i:26323 original size:419 final size:418
Alignment explanation
Indices: 25524--26701 Score: 1640
Period size: 419 Copynumber: 2.8 Consensus size: 418
25514 GCGATTATCC
* * * * *
25524 AAAACAA-TGAGGCGGTCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTTAATGAAA-CC
1 AAAACAAGTGATGCGATCATCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAATGAAATCC
* * * *
25586 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTTATGAGATATTGAGAAACAGGTCAAAG
65 -GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* * * * *
25651 CAATAAAGCGGTTACCTTCT-TGATAAGATATAGAGAAGTGAATCAGA-TCTGTCTTCTTAATGA
129 CAATAAAGCGGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGATTC-GTCTTCCTGATGA
* * *
25714 GACATAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAGATATTGAGAAGTAGA
193 GACACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATA-TGAGAAGTAGA
* * *
25779 CCAAATTAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCTTGATGAAATACT
257 CCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACT
* * * *
25844 GAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATC
322 GAGAAGCAGGTCAAAGTAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAACTGAACCAAATC
* *
25909 TGTCTTCCTGATGAGACACAAAGAAGTGGATA
387 CGTATTCCTGATGAGACACAAAGAAGTGGATA
25941 AAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATCCG
1 AAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATCCG
* * * *
26006 GCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTAAGAAGTAGGTCGAAGTA
66 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* *
26071 ATAAAGCAGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGATTCGTCTTCCCGATGAGAC
131 ATAAAGCGGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGAC
* *
26136 ACAAAGAAGTGGAGCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACTA
196 ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATA-TGAGAAGTAGACCA
*
26201 AATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGGTGAGATACTGAG
260 AATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAG
* *
26266 AAGTAAGTCAAAGTAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAACTGAACCAAATCCGT
325 AAGCAGGTCAAAGTAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAACTGAACCAAATCCGT
* * *
26331 ATTCCTGATGAGACATAGAGAAGTGGATC
390 ATTCCTGATGAGACACAAAGAAGTGGATA
*
26360 AAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAT-AAAGTCA
1 AAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-TCC
* * * *
26424 GGCTCAAAGTGAGCAAATCTTTGAACCTCAGCTACCTGATGAGATACTGAGAAGCAGGTTGAAGC
65 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* * *
26489 AATAAAGCGGTTACC-TTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGATTAGA
130 AATAAAGCGGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGA
* ** * * * * *
26553 TACAAAGAAGCAGCTCAAAATAAGTAATGTGGTCATCTTCCTAATGAG--AT-AGAAGTAGACCA
195 CACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATGAGAAGTAGACCA
* * * * * *
26615 AATCAATG-AACCTAAAGCTCGATGTGAGCAAAACTTCGAACCCCAACTTCCTGATGAGATACTG
260 AATCAATGAAACC--AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTG
*
26679 AGAAACAGGTCAAAGTAATAAAG
323 AGAAGCAGGTCAAAGTAATAAAG
26702 TGGTCGTCTT
Statistics
Matches: 678, Mismatches: 75, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
413 4 0.01
414 19 0.03
415 64 0.09
416 1 0.00
417 7 0.01
418 207 0.31
419 374 0.55
420 2 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (418 bp):
AAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAATCCG
GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
ATAAAGCGGTTACCTTTTCTGATGAGATATAGAGAAGTGAACCAGATTCGTCTTCCTGATGAGAC
ACAAAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATGAGAAGTAGACCAA
ATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGA
AGCAGGTCAAAGTAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAACTGAACCAAATCCGTA
TTCCTGATGAGACACAAAGAAGTGGATA
Found at i:27122 original size:17 final size:18
Alignment explanation
Indices: 27099--27194 Score: 94
Period size: 17 Copynumber: 5.6 Consensus size: 18
27089 CCAACTTTTA
27099 ATTTTTAAATTTGAATTT
1 ATTTTTAAATTTGAATTT
27117 -TTTTTAAATTTGAATTT
1 ATTTTTAAATTTGAATTT
* *
27134 ATTTTTAAATTTAAATTC
1 ATTTTTAAATTTGAATTT
* * *
27152 A--TTTGAGTTTAAATTT
1 ATTTTTAAATTTGAATTT
* *
27168 A-CTTTAAATTTAAATTT
1 ATTTTTAAATTTGAATTT
27185 A-TTTTAAATT
1 ATTTTTAAATT
27195 AAAAATTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.19
17 39 0.57
18 16 0.24
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTTTTAAATTTGAATTT
Found at i:27146 original size:6 final size:6
Alignment explanation
Indices: 27119--27194 Score: 52
Period size: 6 Copynumber: 13.3 Consensus size: 6
27109 TTGAATTTTT
* ** * * *
27119 TTTAAA TTTGAA TTTATT TTTAAA TTTAAA -TT-CA TTTGAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
27165 TTT-AC TTTAAA TTTAAA TTT-AT TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
27195 AAAAATTAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
4 1 0.02
5 12 0.24
6 38 0.75
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:28972 original size:30 final size:30
Alignment explanation
Indices: 28938--28994 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
28928 TCACGATTTG
28938 ACCCCTAAACTTTCCAAAAA-TATATTTTAA
1 ACCCC-AAACTTTCCAAAAATTATATTTTAA
* * *
28968 ACCCCGAATTTTCTAAAAATTATATTT
1 ACCCCAAACTTTCCAAAAATTATATTT
28995 GGACCCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (30 bp):
ACCCCAAACTTTCCAAAAATTATATTTTAA
Found at i:29038 original size:30 final size:29
Alignment explanation
Indices: 29004--29104 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 29
28994 TGGACCCTTG
*
29004 AACTTCATAAAAATTACATTTTTAGCCCTC
1 AACTTCAAAAAAATTACATTTTTA-CCCTC
* *
29034 AACTTC-CAAAAATTACCA-TTTTACCCCTA
1 AACTTCAAAAAAATTA-CATTTTTA-CCCTC
* *
29063 AACATCAAAAAAATCACATTTTTACCCTC
1 AACTTCAAAAAAATTACATTTTTACCCTC
29092 ATACTTTCAAAAA
1 A-AC-TTCAAAAA
29105 TTTTCGTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
29 29 0.50
30 22 0.38
31 7 0.12
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.32
Consensus pattern (29 bp):
AACTTCAAAAAAATTACATTTTTACCCTC
Found at i:29049 original size:29 final size:28
Alignment explanation
Indices: 29012--29143 Score: 97
Period size: 29 Copynumber: 4.5 Consensus size: 28
29002 TGAACTTCAT
29012 AAAAATTACATTTTTAGCCCTCAACTTCC
1 AAAAATTACATTTTTA-CCCTCAACTTCC
* * *
29041 AAAAATTACCA-TTTTACCCCTAAACATCAA
1 AAAAATTA-CATTTTTA-CCCTCAACTTC-C
* *
29071 AAAAATCACATTTTTACCCTCATACTTTC
1 AAAAATTACATTTTTACCCTCA-ACTTCC
* * *
29100 AAAAATTTTC-GTTTTACCCTCAAACATCC
1 AAAAA-TTACATTTTTACCCTC-AACTTCC
*
29129 GAAAATTATCATTTT
1 AAAAATTA-CATTTT
29144 CGACACTGAG
Statistics
Matches: 78, Mismatches: 17, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
28 2 0.03
29 53 0.68
30 23 0.29
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATTACATTTTTACCCTCAACTTCC
Found at i:29115 original size:59 final size:59
Alignment explanation
Indices: 29012--29127 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
29002 TGAACTTCAT
*
29012 AAAAATTACATTTTTAGCCCTCAACTTCCAAAAATTACCATTTTACCC-CTAAACATCAA
1 AAAAATCACATTTTTAGCCCTCAACTTCCAAAAATTACCATTTTACCCTC-AAACATCAA
* ** *
29071 AAAAATCACATTTTTA-CCCTCATACTTTCAAAAATTTTCGTTTTACCCTCAAACATC
1 AAAAATCACATTTTTAGCCCTCA-ACTTCCAAAAATTACCATTTTACCCTCAAACATC
29128 CGAAAATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 6 0.12
59 43 0.86
60 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.34
Consensus pattern (59 bp):
AAAAATCACATTTTTAGCCCTCAACTTCCAAAAATTACCATTTTACCCTCAAACATCAA
Found at i:37678 original size:20 final size:20
Alignment explanation
Indices: 37653--37692 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37643 TTTCACGTAC
37653 CATAACCTATTTTGCAACGA
1 CATAACCTATTTTGCAACGA
37673 CATAACCTATTTTGCAACGA
1 CATAACCTATTTTGCAACGA
37693 TTACAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
CATAACCTATTTTGCAACGA
Found at i:53131 original size:18 final size:16
Alignment explanation
Indices: 53099--53142 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
53089 ATGAAATGAG
53099 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
53115 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
53129 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
53143 ACTTTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:54653 original size:25 final size:24
Alignment explanation
Indices: 54615--54678 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
54605 ACTATATTTA
*
54615 TTTAAAAATTTTATTTGAAAATAAATT
1 TTTAAAAA--TTATTT-AAAACAAATT
*
54642 TTTAAAAATTATTTATAACAAATT
1 TTTAAAAATTATTTAAAACAAATT
*
54666 TTAAAATAATTAT
1 TTTAAA-AATTAT
54679 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 13 0.39
25 12 0.36
27 8 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAAAATTATTTAAAACAAATT
Found at i:54770 original size:114 final size:114
Alignment explanation
Indices: 54645--54867 Score: 288
Period size: 114 Copynumber: 2.0 Consensus size: 114
54635 ATAAATTTTT
* *
54645 AAAAATTATTTATAACAAATTTTAAAATAATTATATTTT-AAATTAAACAATTTATCGATTAATT
1 AAAAATAATTTATAACAAATTTTAAAAGAATTAT-TTTTAAAATTAAACAATTTATCGATTAATT
* *
54709 -AAATTATAATATTATTTTTAAATCACTTCACAATAACAATTATATTTTCC
65 AAAATT-TAATATTAATTTCAAATCACTTCACAATAACAATTATATTTTCC
* ** * * *
54759 AAAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTAAAATTAAATAATTTCTCTATTAATTA
1 AAAAATAATTTATAACAAATTTTAAAAGAATTATTTTTAAAATTAAACAATTTATCGATTAATTA
* * **
54824 AAATTTGATATTAATTTCAAATCACTTCATAATAATTATTATAT
66 AAATTTAATATTAATTTCAAATCACTTCACAATAACAATTATAT
54868 ACTTAAATAA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
113 4 0.04
114 84 0.90
115 5 0.05
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (114 bp):
AAAAATAATTTATAACAAATTTTAAAAGAATTATTTTTAAAATTAAACAATTTATCGATTAATTA
AAATTTAATATTAATTTCAAATCACTTCACAATAACAATTATATTTTCC
Found at i:54918 original size:144 final size:144
Alignment explanation
Indices: 54760--55044 Score: 534
Period size: 144 Copynumber: 2.0 Consensus size: 144
54750 ATATTTTCCA
54760 AAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTAAAATTAAATAATTTCTCTATTAATTAA
1 AAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTAAAATTAAATAATTTCTCTATTAATTAA
*
54825 AATTTGATATTAATTTCAAATCACTTCATAATAATTATTATATACTTAAATAATATCATCCAAAG
66 AATTTGATATTAATTTCAAATCACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAG
54890 AAAAATTGAGTGGG
131 AAAAATTGAGTGGG
* *
54904 AAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTTAAATTAAATAATTTCTGTATTAATTAA
1 AAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTAAAATTAAATAATTTCTCTATTAATTAA
*
54969 ATTTTGATATTAATTTCAAATCACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAG
66 AATTTGATATTAATTTCAAATCACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAG
55034 AAAAATTGAGT
131 AAAAATTGAGT
55045 ATATCATAAA
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 137 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (144 bp):
AAAATAATTTATTACAGTTTTTAAAAGAATTATTTTTAAAATTAAATAATTTCTCTATTAATTAA
AATTTGATATTAATTTCAAATCACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAG
AAAAATTGAGTGGG
Found at i:55108 original size:144 final size:140
Alignment explanation
Indices: 54785--55113 Score: 346
Period size: 144 Copynumber: 2.3 Consensus size: 140
54775 AGTTTTTAAA
* **
54785 AGAATTATTTT-TAAAATTAAATAATTTCTCTATTAATTAAAATTTGATATTAATTTCAAATCAC
1 AGAATTATTTTATAAAA-CAAAT-ATTTCAATATTAATTAAAATTTGATATTAATTTCAAATCAC
* * *
54849 TTCATAATAATTATTATATACTTAAATAATATCATCCAAAGAAAAATTGAGTGGGAAAATAATTT
64 TTCATAATAATTATTATATACTTAAATAATATCACCCAAAGAAAAATTGAGTGAGAAAATAATTC
* *
54914 ATTACAGTTTTT
129 ATTAAAATTTTT
* ** ** *
54926 AAAAGAATTATTTTTTAAATTAAATAATTTCTGTATTAATTAAATTTTGATATTAATTTCAAATC
1 ---AGAATTATTTTATAAAACAAAT-ATTTCAATATTAATTAAAATTTGATATTAATTTCAAATC
* **
54991 ACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAGAAAAATTGAGT-ATATCATAAA
62 ACTTCATAATAATTATTATATACTTAAATAATATCACCCAAAGAAAAATTGAGTGAGAAAAT-AA
55055 TATCATTATAAATTTTT
126 T-TCATTA-AAATTTTT
* *
55072 -GAATTGTTATTATAAAACAAAT-TTATCCA-A-TAATTAAAATTT
1 AGAATTATT-TTATAAAACAAATATT-TCAATATTAATTAAAATTT
55114 TAAAACAATA
Statistics
Matches: 161, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
140 11 0.07
141 3 0.02
142 9 0.06
143 13 0.08
144 110 0.68
145 9 0.06
146 6 0.04
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (140 bp):
AGAATTATTTTATAAAACAAATATTTCAATATTAATTAAAATTTGATATTAATTTCAAATCACTT
CATAATAATTATTATATACTTAAATAATATCACCCAAAGAAAAATTGAGTGAGAAAATAATTCAT
TAAAATTTTT
Found at i:55133 original size:21 final size:20
Alignment explanation
Indices: 55099--55140 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
55089 CAAATTTATC
55099 CAATAATTAAAATTTTAAAA
1 CAATAATTAAAATTTTAAAA
*
55119 CAATACATTTAAATTTTAAAA
1 CAATA-ATTAAAATTTTAAAA
55140 C
1 C
55141 CAAATCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (20 bp):
CAATAATTAAAATTTTAAAA
Found at i:61939 original size:30 final size:29
Alignment explanation
Indices: 61900--61958 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
61890 GAATTTGATC
* *
61900 AAATCAAAATTCCGTGTATAAAATTACACA
1 AAATCAAAATT-CATATATAAAATTACACA
*
61930 AAATTAAAATTCATATATAAAATTACACA
1 AAATCAAAATTCATATATAAAATTACACA
61959 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (29 bp):
AAATCAAAATTCATATATAAAATTACACA
Found at i:62088 original size:17 final size:18
Alignment explanation
Indices: 62068--62108 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
62058 TATTATTTTT
*
62068 ATTAAATAAA-ATATTAA
1 ATTAAATAAATATATAAA
62085 ATTAAA-AAATATATAAA
1 ATTAAATAAATATATAAA
*
62102 AATAAAT
1 ATTAAAT
62109 TATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTAAATAAATATATAAA
Found at i:62893 original size:66 final size:66
Alignment explanation
Indices: 62787--62918 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
62777 GTCTGTCTCC
*
62787 ACCATCACTTTATTATATCCTCTTGCATGTGTAACTTCAAGACCAATCAAGATCGCCCACAGCTC
1 ACCATCACTTTATTATATCCTCCTGCATGTGTAACTTCAAGACCAATCAAGATCGCCCACAGCTC
62852 G
66 G
62853 ACCATCACTTTATTATATCCTCCTGCATGTGTAACTTCAAGACCAATCAAGATCGCCCACAGCTC
1 ACCATCACTTTATTATATCCTCCTGCATGTGTAACTTCAAGACCAATCAAGATCGCCCACAGCTC
62918 G
66 G
62919 GCATTCAACG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (66 bp):
ACCATCACTTTATTATATCCTCCTGCATGTGTAACTTCAAGACCAATCAAGATCGCCCACAGCTC
G
Found at i:71719 original size:12 final size:12
Alignment explanation
Indices: 71702--71734 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
71692 GCTAGGCTAG
71702 TGGGCATGACTT
1 TGGGCATGACTT
71714 TGGGCATGACTT
1 TGGGCATGACTT
*
71726 TAGGCATGA
1 TGGGCATGA
71735 GAGTCTGACG
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:0.21, C:0.15, G:0.33, T:0.30
Consensus pattern (12 bp):
TGGGCATGACTT
Found at i:78345 original size:3 final size:3
Alignment explanation
Indices: 78339--78390 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
78329 AAATTTATTG
* * * *
78339 AAT AAT AAC AAT AAT AAT AAAT ATT ATT AAT AAT AATT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT
78386 AAT AA
1 AAT AA
78391 CAAAAGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:78361 original size:16 final size:16
Alignment explanation
Indices: 78350--78390 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
78340 ATAATAACAA
*
78350 TAATAATAAATATTAT
1 TAATAATAAATAATAT
*
78366 TAATAATAATTAATAT
1 TAATAATAAATAATAT
78382 TAATAATAA
1 TAATAATAA
78391 CAAAAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAAATAATAT
Found at i:78361 original size:19 final size:19
Alignment explanation
Indices: 78348--78390 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
78338 GAATAATAAC
*
78348 AATAATAATAAATATTATT
1 AATAATAATAAATATTAAT
*
78367 AATAATAATTAATATTAAT
1 AATAATAATAAATATTAAT
78386 AATAA
1 AATAA
78391 CAAAAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAATAATAAATATTAAT
Found at i:79456 original size:29 final size:29
Alignment explanation
Indices: 79423--79621 Score: 97
Period size: 29 Copynumber: 6.8 Consensus size: 29
79413 CCCTAAACTG
79423 TCCAAAAATTACATTTTAACCCTGAATTT
1 TCCAAAAATTACATTTTAACCCTGAATTT
* *
79452 TCC-AAAATTCCATTTTTAACCC-CAATCTT
1 TCCAAAAATTACA-TTTTAACCCTGAAT-TT
* * *
79481 TCAAAAAATTACAATTTT-ACCTTCGAACTT
1 TCCAAAAATTAC-ATTTTAACCCT-GAATTT
* * *
79511 TCC-AAAATTTCATTTTTTGACCTTG-ATTT
1 TCCAAAAATTACA--TTTTAACCCTGAATTT
*** * * *
79540 TTTTAAAATTACCATTTTACCCCCGAACTT
1 TCCAAAAATTA-CATTTTAACCCTGAATTT
* * * *
79570 T-CAAAAACTCCATTTTTGA-CCTCAATTT
1 TCCAAAAATTACA-TTTTAACCCTGAATTT
*
79598 TCCAAAAATTACCATTTTATCCCT
1 TCCAAAAATTA-CATTTTAACCCT
79622 ATATGTCTAA
Statistics
Matches: 123, Mismatches: 31, Indels: 31
0.66 0.17 0.17
Matches are distributed among these distances:
28 21 0.17
29 57 0.46
30 35 0.28
31 10 0.08
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
TCCAAAAATTACATTTTAACCCTGAATTT
Found at i:79606 original size:58 final size:58
Alignment explanation
Indices: 79423--79680 Score: 225
Period size: 59 Copynumber: 4.4 Consensus size: 58
79413 CCCTAAACTG
* * * * * *
79423 TCCAAAAATTA-CATTTTAACCCTGAATTTTCCAAAATTCCATTTTTAACCCCAATCTT
1 TCCAAAAATTACCATTTTACCCCCGAACTTTCAAAAATTCCATTTTTGACCTCAAT-TT
* * ** * * **
79481 TCAAAAAATTACAATTTTACCTTCGAACTTTCCAAAATTTCATTTTTTGACCTTGATTT
1 TCCAAAAATTACCATTTTACCCCCGAACTTTCAAAAATTCCA-TTTTTGACCTCAATTT
*** *
79540 TTTTAAAATTACCATTTTACCCCCGAACTTTCAAAAACTCCATTTTTGACCTCAATTT
1 TCCAAAAATTACCATTTTACCCCCGAACTTTCAAAAATTCCATTTTTGACCTCAATTT
* * * * *
79598 TCCAAAAATTACCATTTTA-TCCCTATA-TGTCTAAAAATTTCATTTTTGACCTCGAACTT
1 TCCAAAAATTACCATTTTACCCCCGA-ACTTTC-AAAAATTCCATTTTTGACCTC-AATTT
* *
79657 TCCCAAAATTACCATTTTATCCCC
1 TCCAAAAATTACCATTTTACCCCC
79681 TTGAATGTCT
Statistics
Matches: 160, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
57 7 0.04
58 60 0.38
59 80 0.50
60 13 0.08
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.40
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCCCGAACTTTCAAAAATTCCATTTTTGACCTCAATTT
Found at i:79665 original size:117 final size:118
Alignment explanation
Indices: 79418--79680 Score: 268
Period size: 117 Copynumber: 2.2 Consensus size: 118
79408 ATGGTCCCTA
* * * * *
79418 AACTGTCCAAAAATTA-CATTTTAACCCTGAATTTTCCAAAATTCCATTTTTAACCCCAATCTTT
1 AACTTTCCAAAAATTACCATTTTAACCCCGAACTTTCAAAAACTCCATTTTTAACCCCAATCTTT
* * *
79482 CAAAAAATTACAATTTTACCTTCGAACTTTCCAAAATTTCATTTTTTGACCTTG
66 CAAAAAATTACAATTTTACC-TCGAACTGTCAAAAATTTCATTTTTTGACCTCG
* *** * * *
79536 -ATTTTTTTAAAATTACCATTTTACCCCCGAACTTTCAAAAACTCCATTTTTGACCTCAAT-TTT
1 AACTTTCCAAAAATTACCATTTTAACCCCGAACTTTCAAAAACTCCATTTTTAACCCCAATCTTT
* * *
79599 CCAAAAATTACCATTTTATCC-CTATA-TGTCTAAAAATTTCA-TTTTTGACCTCG
66 CAAAAAATTACAATTTTA-CCTCGA-ACTGTC-AAAAATTTCATTTTTTGACCTCG
* *
79652 AACTTTCCCAAAATTACCATTTTATCCCC
1 AACTTTCCAAAAATTACCATTTTAACCCC
79681 TTGAATGTCT
Statistics
Matches: 117, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
116 16 0.14
117 62 0.53
118 39 0.33
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (118 bp):
AACTTTCCAAAAATTACCATTTTAACCCCGAACTTTCAAAAACTCCATTTTTAACCCCAATCTTT
CAAAAAATTACAATTTTACCTCGAACTGTCAAAAATTTCATTTTTTGACCTCG
Found at i:81138 original size:12 final size:12
Alignment explanation
Indices: 81121--81147 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
81111 AAAGGAAAAC
81121 AAGTACCTTGAT
1 AAGTACCTTGAT
81133 AAGTACCTTGAT
1 AAGTACCTTGAT
81145 AAG
1 AAG
81148 GTGGAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (12 bp):
AAGTACCTTGAT
Found at i:91067 original size:17 final size:17
Alignment explanation
Indices: 91042--91123 Score: 92
Period size: 17 Copynumber: 4.8 Consensus size: 17
91032 CTGGGCTCAA
*
91042 TAAACTTAAATTTATTT
1 TAAATTTAAATTTATTT
* * *
91059 TAAAATTAAGTTTATTC
1 TAAATTTAAATTTATTT
**
91076 TAAATTTAAATTTAGCT
1 TAAATTTAAATTTATTT
* *
91093 GAAATTTAAATTTATTA
1 TAAATTTAAATTTATTT
91110 TAAATTTAAATTTA
1 TAAATTTAAATTTA
91124 AAATTTATTT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 52 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:91143 original size:24 final size:23
Alignment explanation
Indices: 91094--91143 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
91084 AATTTAGCTG
*
91094 AAATTTAAATTTATTATAAATTT
1 AAATTTAAATTTATTATAAATGT
* *
91117 AAATTTAAAATTTATTTTGAATGT
1 AAATTT-AAATTTATTATAAATGT
91141 AAA
1 AAA
91144 AAGTCCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTTAAATTTATTATAAATGT
Found at i:92165 original size:25 final size:26
Alignment explanation
Indices: 92116--92165 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
92106 TTAAAAAAGG
*
92116 GGAAAAGAGAAGTTTTAAAAGAAAAA
1 GGAAAAGAGAAGTTTTAAAAAAAAAA
92142 GGAAAAGAGAAG-TTTAAAAAAAAA
1 GGAAAAGAGAAGTTTTAAAAAAAAA
92166 GAGGGGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (26 bp):
GGAAAAGAGAAGTTTTAAAAAAAAAA
Found at i:92274 original size:21 final size:21
Alignment explanation
Indices: 92248--92329 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 21
92238 GCGTGACAGG
92248 CGGAGGAGAACGTACGTCTAT
1 CGGAGGAGAACGTACGTCTAT
* * *
92269 CGGAGGATAACGGACGGTGCGTGACAGG
1 CGGAGGAGAACGTAC-GT-C-T---A-T
92297 CGGAGGAGAACGTACGTCTAT
1 CGGAGGAGAACGTACGTCTAT
*
92318 CGGAGGATAACG
1 CGGAGGAGAACG
92330 GACGGTGGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
21 24 0.51
22 3 0.06
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 3 0.06
28 13 0.28
ACGTcount: A:0.28, C:0.18, G:0.39, T:0.15
Consensus pattern (21 bp):
CGGAGGAGAACGTACGTCTAT
Found at i:92303 original size:49 final size:49
Alignment explanation
Indices: 92231--92336 Score: 212
Period size: 49 Copynumber: 2.2 Consensus size: 49
92221 ACAGCCCCAG
92231 GGACGGTGCGTGACAGGCGGAGGAGAACGTACGTCTATCGGAGGATAAC
1 GGACGGTGCGTGACAGGCGGAGGAGAACGTACGTCTATCGGAGGATAAC
92280 GGACGGTGCGTGACAGGCGGAGGAGAACGTACGTCTATCGGAGGATAAC
1 GGACGGTGCGTGACAGGCGGAGGAGAACGTACGTCTATCGGAGGATAAC
92329 GGACGGTG
1 GGACGGTG
92337 GCGCGCGTCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.42, T:0.14
Consensus pattern (49 bp):
GGACGGTGCGTGACAGGCGGAGGAGAACGTACGTCTATCGGAGGATAAC
Found at i:93022 original size:30 final size:28
Alignment explanation
Indices: 92988--93238 Score: 223
Period size: 30 Copynumber: 8.5 Consensus size: 28
92978 AAAACCTCGA
* *
92988 AACTTCCAAAAAATTTTGTTTTTACCTCCG
1 AACTTCC-AAAAATTCTATTTTTACC-CCG
* * * *
93018 AACTTCTAAAAATCCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCTATTTTT-ACCCC-G
93048 AACTTCCAAAAATTCTATTTTTACCCCCG
1 AACTTCCAAAAATTCTATTTTTA-CCCCG
* * *
93077 AACTTCCAAAAATCCAAATTTTAACCCCG
1 AACTTCCAAAAATTC-TATTTTTACCCCG
*
93106 AAACTTCCAAAAATTCTATTTTTACCTCG
1 -AACTTCCAAAAATTCTATTTTTACCCCG
* * *
93135 AAACTTCCAAAAATCCCATTTTTGATCCCG
1 -AACTTCCAAAAATTCTATTTTT-ACCCCG
*
93165 AAACTTCCAAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATTCTATTTTTACCC-CG
* * *
93195 AACTTTCAAAAATTCCATTTTTGACCTCG
1 AACTTCCAAAAATTCTATTTTT-ACCCCG
*
93224 AAACCTCCAAAAATT
1 -AACTTCCAAAAATT
93239 ACCATTTTAC
Statistics
Matches: 185, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
29 90 0.49
30 95 0.51
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (28 bp):
AACTTCCAAAAATTCTATTTTTACCCCG
Found at i:93080 original size:59 final size:59
Alignment explanation
Indices: 92985--93355 Score: 348
Period size: 59 Copynumber: 6.3 Consensus size: 59
92975 CTAAAAACCT
* * * *
92985 CGAAACTTCCAAAAAATTTTGTTTTTACCTCCGAACTTCTAAAAATCCCATTTTTGACCC
1 CGAAACTTCC-AAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC
* * * *
93045 CAAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCAAATTTTAACCC
1 CGAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC
* *
93104 CGAAACTTCCAAAAATTCTATTTTTA-CCTCGAAACTTCCAAAAATCCCATTTTTGATCC
1 CGAAACTTCCAAAAATTCTATTTTTACCCCCG-AACTTCCAAAAATCCCATTTTTGACCC
* * * * *
93163 CGAAACTTCCAAAAATTCCATTTTTACCCTCGAACTTTCAAAAATTCCATTTTTGACCT
1 CGAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC
* * * * * *
93222 CGAAACCTCCAAAAATTACCA-TTTTACCCTCGGA-TGTCCAAAAA-CTCCATTTTTAACCT
1 CGAAACTTCCAAAAATT-CTATTTTTACCCCCGAACT-TCCAAAAATC-CCATTTTTGACCC
** * * *
93281 CGAAAC-TCTC-AAAA-T-TACCCTTTACCCCCGAA-TGTCTAAAAATTCCATTTTTAACCC
1 CGAAACTTC-CAAAAATTCTA-TTTTTACCCCCGAACT-TCCAAAAATCCCATTTTTGACCC
*
93338 CG-AACTTTCCCAAAATTC
1 CGAAAC-TTCCAAAAATTC
93356 CCATTTTGCC
Statistics
Matches: 266, Mismatches: 31, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
55 1 0.00
56 3 0.01
57 35 0.13
58 17 0.06
59 193 0.73
60 17 0.06
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (59 bp):
CGAAACTTCCAAAAATTCTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC
Found at i:93253 original size:30 final size:30
Alignment explanation
Indices: 92982--93362 Score: 291
Period size: 29 Copynumber: 12.9 Consensus size: 30
92972 GCCCTAAAAA
***
92982 CCTCGAAACTTCCAAAAAATTTTGTTTTTA-
1 CCTCGAAACTTCC-AAAAATTCCATTTTTAC
* *
93012 CCTCCG-AACTTCTAAAAATCCCATTTTTGAC
1 CCT-CGAAACTTCCAAAAATTCCATTTTT-AC
* *
93043 CC-CAAAACTTCCAAAAATTCTATTTTTAC
1 CCTCGAAACTTCCAAAAATTCCATTTTTAC
* *
93072 CCCCG-AACTTCCAAAAA-TCCAAATTTTAAC
1 CCTCGAAACTTCCAAAAATTCC--ATTTTTAC
*
93102 CC-CGAAACTTCCAAAAATTCTATTTTTA-
1 CCTCGAAACTTCCAAAAATTCCATTTTTAC
* *
93130 CCTCGAAACTTCCAAAAATCCCATTTTTGAT
1 CCTCGAAACTTCCAAAAATTCCATTTTT-AC
93161 CC-CGAAACTTCCAAAAATTCCATTTTTAC
1 CCTCGAAACTTCCAAAAATTCCATTTTTAC
*
93190 CCTCG-AACTTTCAAAAATTCCATTTTTGA-
1 CCTCGAAACTTCCAAAAATTCCATTTTT-AC
*
93219 CCTCGAAACCTCCAAAAATTACCA-TTTTAC
1 CCTCGAAACTTCCAAAAATT-CCATTTTTAC
* * *
93249 CCTCG-GA-TGTCCAAAAACTCCATTTTTAA
1 CCTCGAAACT-TCCAAAAATTCCATTTTTAC
*
93278 CCTCGAAAC-TCTC-AAAATTACC--CTTTAC
1 CCTCGAAACTTC-CAAAAATT-CCATTTTTAC
* *
93306 CCCCG-AA-TGTCTAAAAATTCCATTTTTAAC
1 CCTCGAAACT-TCCAAAAATTCCATTTTT-AC
*
93336 CC-CG-AACTTTCCCAAAATTCCCATTTT
1 CCTCGAAAC-TTCCAAAAATT-CCATTTT
93363 GCCCCCATAA
Statistics
Matches: 285, Mismatches: 34, Indels: 63
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.01
28 23 0.08
29 123 0.43
30 116 0.41
31 19 0.07
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.32
Consensus pattern (30 bp):
CCTCGAAACTTCCAAAAATTCCATTTTTAC
Found at i:93801 original size:96 final size:96
Alignment explanation
Indices: 93631--93811 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
93621 AAAACTTTAA
* **
93631 AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAATTTGTGCCTTAACTTACTAGGTGCAATT
1 AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACC
93696 TTTCCTCAAATCGAAATAATTGAATACCCTT
66 TTTCCTCAAATCGAAATAATTGAATACCCTT
**
93727 AATCGAGGCAATATT-TCCTTATCTTCGA--TTCTGAAATATTGCGCCTTAACTTACTAGGTGCA
1 AATCGAGGCAATATTCT-CTTAT-TTCGAGTTTCAAAAAT-TTGCGCCTTAACTTACTAGGTGCA
* *
93789 ACCTTTCTTCAAATCGAGATAAT
63 ACCTTTCCTCAAATCGAAATAAT
93812 CAAATATCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 8 0.11
96 62 0.83
97 5 0.07
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (96 bp):
AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACC
TTTCCTCAAATCGAAATAATTGAATACCCTT
Found at i:94419 original size:49 final size:49
Alignment explanation
Indices: 94366--94785 Score: 243
Period size: 49 Copynumber: 8.5 Consensus size: 49
94356 AAAAATGAAA
* **
94366 GGAAAGATTTAAGTCGCAATGGCGAATCCAGTACCAAGAAGATATGGAG
1 GGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCAAGAAGATATAAAG
* * ** *
94415 GGAAAGGTTTAAGTCGCAACGGCGACTCGTGTACCTCAA-AAG-CATAAAG
1 GGAAAGATTTAAGTCGCAACGGCGAATCCAGTA-C-CAAGAAGATATAAAG
* * * *
94464 GGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACAG-AGACATAAAG
1 GGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCA-AGAAGATATAAAG
* * * * *
94513 GGAAAGATCTAAG-CTGCAACGAC-AGATCTAGTACCGCA-AAGATACAAAGG
1 GGAAAGATTTAAGTC-GCAACGGCGA-ATCCAGTACC-AAGAAGATATAAA-G
* * * * * * *
94563 GGAAGGGTTTAAGCCACAACGGTGAATCCAGTACCACAG-AGACATAAAA
1 GGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCA-AGAAGATATAAAG
* ** *
94612 GGAAAGATCTAAG-CTGCAACGGC-AGATCCAGTACTGTA-AAGATACAAAGG
1 GGAAAGATTTAAGTC-GCAACGGCGA-ATCCAGTAC-CAAGAAGATATAAA-G
* * ** * * *
94662 GGAAGGGTTTAAG-CTGCAGTGGCGAATCCAGTACCCAG-AGACATGAAG
1 GGAAAGATTTAAGTC-GCAACGGCGAATCCAGTACCAAGAAGATATAAAG
* ** * * *
94710 GGAAAAGATCTAAGTCGCAACGGCGAATCCAGTACCGCGAAGGTACAAGG
1 GG-AAAGATTTAAGTCGCAACGGCGAATCCAGTACCAAGAAGATATAAAG
* *
94760 GGAAAGGTTTAAGTCGCAATGGCGAA
1 GGAAAGATTTAAGTCGCAACGGCGAA
94786 CCTTATACCT
Statistics
Matches: 282, Mismatches: 65, Indels: 48
0.71 0.16 0.12
Matches are distributed among these distances:
47 2 0.01
48 11 0.04
49 191 0.68
50 72 0.26
51 6 0.02
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.16
Consensus pattern (49 bp):
GGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCAAGAAGATATAAAG
Found at i:94597 original size:99 final size:99
Alignment explanation
Indices: 94373--94785 Score: 414
Period size: 99 Copynumber: 4.2 Consensus size: 99
94363 AAAGGAAAGA
* * * ** * *
94373 TTTAAGTCGCAATGGCGAATCCAGTACCA-AGAAGATATGGAGGGAAAGGTTTAAG-TCGCAACG
1 TTTAAGCCGCAACGGCGAATCCAGTACCACAG-AGACATAAAGGGAAAGATCTAAGCT-GCAACG
** * * *
94436 GC-GACTCGTGTACCTCAAAAGCAT--AAA-GGGAAAGA
64 GCAGA-TCCAGTACCGC-AAAG-ATACAAAGGGGAAGGG
* * *
94471 TTTAAGCCGCAACGGCAAATCTAGTACCACAGAGACATAAAGGGAAAGATCTAAGCTGCAACGAC
1 TTTAAGCCGCAACGGCGAATCCAGTACCACAGAGACATAAAGGGAAAGATCTAAGCTGCAACGGC
*
94536 AGATCTAGTACCGCAAAGATACAAAGGGGAAGGG
66 AGATCCAGTACCGCAAAGATACAAAGGGGAAGGG
* * *
94570 TTTAAGCCACAACGGTGAATCCAGTACCACAGAGACATAAAAGGAAAGATCTAAGCTGCAACGGC
1 TTTAAGCCGCAACGGCGAATCCAGTACCACAGAGACATAAAGGGAAAGATCTAAGCTGCAACGGC
* *
94635 AGATCCAGTACTGTAAAGATACAAAGGGGAAGGG
66 AGATCCAGTACCGCAAAGATACAAAGGGGAAGGG
* ** *
94669 TTTAAGCTGCAGTGGCGAATCCAGTACC-CAGAGACATGAAGGGAAAAGATCTAAG-TCGCAACG
1 TTTAAGCCGCAACGGCGAATCCAGTACCACAGAGACATAAAGGG-AAAGATCTAAGCT-GCAACG
* * *
94732 GC-GAATCCAGTACCGCGAAGGTAC-AAGGGGAAAGG
64 GCAG-ATCCAGTACCGCAAAGATACAAAGGGGAAGGG
* *
94767 TTTAAGTCGCAATGGCGAA
1 TTTAAGCCGCAACGGCGAA
94786 CCTTATACCT
Statistics
Matches: 267, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.01
97 4 0.01
98 102 0.38
99 159 0.60
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.16
Consensus pattern (99 bp):
TTTAAGCCGCAACGGCGAATCCAGTACCACAGAGACATAAAGGGAAAGATCTAAGCTGCAACGGC
AGATCCAGTACCGCAAAGATACAAAGGGGAAGGG
Found at i:95288 original size:6 final size:6
Alignment explanation
Indices: 95279--95372 Score: 59
Period size: 6 Copynumber: 16.0 Consensus size: 6
95269 GATTTATTTC
* ** * * **
95279 TAAATT TAAATT TAAATT TAAATT CATTTT TTATTT TAAATT T-GTTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * *
95326 TAAATT TAAATT TGAAA-- TAATTT TAAACT TAACTT TAAAAT TAAATT
1 TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT TAAATT
95373 CAAAGTCCAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
4 2 0.03
5 4 0.06
6 55 0.86
7 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:95326 original size:17 final size:17
Alignment explanation
Indices: 95289--95339 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
95279 TAAATTTAAA
95289 TTTAAATTTAAATTCAT-T
1 TTTAAATTTAAATT--TGT
* *
95307 TTTTATTTTAAATTTGT
1 TTTAAATTTAAATTTGT
95324 TTTAAATTTAAATTTG
1 TTTAAATTTAAATTTG
95340 AAATAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 12 0.43
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTAAATTTAAATTTGT
Found at i:95357 original size:23 final size:23
Alignment explanation
Indices: 95323--95366 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
95313 TTTAAATTTG
* *
95323 TTTTAAATTTAAATTTGAAATAA
1 TTTTAAACTTAAATTTAAAATAA
*
95346 TTTTAAACTTAACTTTAAAAT
1 TTTTAAACTTAAATTTAAAAT
95367 TAAATTCAAA
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:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTAAACTTAAATTTAAAATAA
Found at i:96123 original size:3 final size:3
Alignment explanation
Indices: 96117--96168 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
96107 AAATTTATTG
* * *
96117 AAT AAT AAC AAT AAT AAT AAAT ATT AAT AAT AAT AATT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT
96164 AAT AA
1 AAT AA
96169 CAAAAAAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:96139 original size:16 final size:16
Alignment explanation
Indices: 96120--96168 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
96110 TTTATTGAAT
*
96120 AATAACAATAATAATA
1 AATAATAATAATAATA
*
96136 AATATTAATAATAATA
1 AATAATAATAATAATA
* *
96152 ATTAATATTAATAATA
1 AATAATAATAATAATA
96168 A
1 A
96169 CAAAAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:96139 original size:19 final size:19
Alignment explanation
Indices: 96126--96168 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
96116 GAATAATAAC
96126 AATAATAATAAATATTAAT
1 AATAATAATAAATATTAAT
*
96145 AATAATAATTAATATTAAT
1 AATAATAATAAATATTAAT
96164 AATAA
1 AATAA
96169 CAAAAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAATAATAAATATTAAT
Found at i:96163 original size:13 final size:13
Alignment explanation
Indices: 96098--96166 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 13
96088 TTCATTTATT
*
96098 ATTAATAATAAATTT
1 ATTAATAAT-AA-TA
*
96113 ATTGAATAATAACA
1 ATT-AATAATAATA
96127 A-TAATAATAA-A
1 ATTAATAATAATA
96138 TATTAATAATAATA
1 -ATTAATAATAATA
*
96152 ATTAATATTAATA
1 ATTAATAATAATA
96165 AT
1 AT
96167 AACAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 1 0.02
12 9 0.19
13 24 0.51
14 2 0.04
15 5 0.11
16 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:97284 original size:58 final size:59
Alignment explanation
Indices: 97196--97386 Score: 203
Period size: 59 Copynumber: 3.2 Consensus size: 59
97186 TAAACTATCT
* * * *
97196 AAAAATTACATTTTTACCC-CTAAATTTTCCAAAATTCCATTTTTGA-CTACTATCTTTCC
1 AAAAATTACATTTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCT-CGATCTTTCC
* *
97255 AAAAATTACA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTTTC
1 AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATCTTTCC
* * * *
97313 AAAAATTCCATTTTTTACCCTCGAAC-TTCCAAAACCTCCA-TTTTAACCCCGATTTTTCC
1 AAAAATTACA-TTTTTACCCTCGAACTTTCCAAAA-TTCCATTTTTAACCTCGATCTTTCC
*
97372 AAAATTTACCATTTT
1 AAAAATTA-CATTTT
97387 ATTGCCGAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
58 46 0.40
59 48 0.42
60 20 0.18
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (59 bp):
AAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATCTTTCC
Found at i:97371 original size:29 final size:29
Alignment explanation
Indices: 97197--97386 Score: 120
Period size: 29 Copynumber: 6.4 Consensus size: 29
97187 AAACTATCTA
* * *
97197 AAAATTACATTTTT-ACCCCTAAATTTTCC
1 AAAATTCCATTTTTAACCCC-GATTTTTCC
* ** * *
97226 AAAATTCCATTTTTGACTACTATCTTTCC
1 AAAATTCCATTTTTAACCCCGATTTTTCC
* **
97255 AAAAATTACA-TTTT-ACCCTCGAACTTTCC
1 -AAAATTCCATTTTTAACCC-CGATTTTTCC
* *
97284 AAAATTCCATTTTTAACCTCGATTTTTTCA
1 AAAATTCCATTTTTAACCCCGA-TTTTTCC
* **
97314 AAAATTCCATTTTTTACCCTCGA-ACTTCC
1 AAAATTCCATTTTTAACCC-CGATTTTTCC
*
97343 AAAACCTCCA-TTTTAACCCCGATTTTTCC
1 AAAA-TTCCATTTTTAACCCCGATTTTTCC
97372 AAAATTTACCATTTT
1 AAAA-TT-CCATTTT
97387 ATTGCCGAAT
Statistics
Matches: 123, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
28 13 0.11
29 62 0.50
30 42 0.34
31 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGATTTTTCC
Found at i:97384 original size:30 final size:30
Alignment explanation
Indices: 97250--97387 Score: 124
Period size: 29 Copynumber: 4.7 Consensus size: 30
97240 GACTACTATC
* **
97250 TTTCCAAAAATTACATTTT-ACCCTCGAAC
1 TTTCCAAAAATTCCATTTTAACCCTCGATT
97279 TTTCC-AAAATTCCATTTTTAA-CCTCGATT
1 TTTCCAAAAATTCCA-TTTTAACCCTCGATT
* * *
97308 TTTTCAAAAATTCCATTTTTTACCCTCGA-A
1 TTTCCAAAAATTCCA-TTTTAACCCTCGATT
* **
97338 CTTCCAAAACCTCCATTTTAACCC-CGATT
1 TTTCCAAAAATTCCATTTTAACCCTCGATT
*
97367 TTTCCAAAATTTACCATTTTA
1 TTTCCAAAAATT-CCATTTTA
97388 TTGCCGAATG
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
28 11 0.12
29 36 0.41
30 35 0.40
31 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTCCAAAAATTCCATTTTAACCCTCGATT
Found at i:104208 original size:21 final size:21
Alignment explanation
Indices: 104184--104261 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
104174 CTTACACAAC
104184 TTTCAGGCTTTGTGCCGGTGT
1 TTTCAGGCTTTGTGCCGGTGT
104205 TTTCAGGCTTTGTGCCGGTGT
1 TTTCAGGCTTTGTGCCGGTGT
*
104226 TTTCAGGCTTTGTGCCAGTGT
1 TTTCAGGCTTTGTGCCGGTGT
104247 TTTCAGGCTTTGTGC
1 TTTCAGGCTTTGTGC
104262 TTAGTAGGCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.06, C:0.19, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTCAGGCTTTGTGCCGGTGT
Found at i:104285 original size:37 final size:37
Alignment explanation
Indices: 104188--104330 Score: 126
Period size: 37 Copynumber: 3.7 Consensus size: 37
104178 CACAACTTTC
* * **
104188 AGGCTTTGTGCCGGTGTTTTCAGGCTTTGTGCCGGTGTTTT
1 AGGCTTCGTGCCGATGTTTTCAGGCTTTGTG-C--T-TAGT
*
104229 CAGGCTTTGTGCC-AGTGTTTTCAGGCTTTGTGCTTAGT
1 -AGGCTTCGTGCCGA-TGTTTTCAGGCTTTGTGCTTAGT
* * *
104267 AGGCTTCGTGCCGATGTTTTCAGACTTTATGCATAGT
1 AGGCTTCGTGCCGATGTTTTCAGGCTTTGTGCTTAGT
* * *
104304 AGGCTTCATGTCGGTGTTTTCAGGCTT
1 AGGCTTCGTGCCGATGTTTTCAGGCTT
104331 CGTGTCAGTG
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
37 54 0.61
38 3 0.03
39 1 0.01
41 1 0.01
42 29 0.33
ACGTcount: A:0.11, C:0.18, G:0.29, T:0.41
Consensus pattern (37 bp):
AGGCTTCGTGCCGATGTTTTCAGGCTTTGTGCTTAGT
Found at i:104328 original size:21 final size:21
Alignment explanation
Indices: 104304--104350 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
104294 TATGCATAGT
*
104304 AGGCTTCATGTCGGTGTTTTC
1 AGGCTTCATGTCAGTGTTTTC
*
104325 AGGCTTCGTGTCAGTGTTTTC
1 AGGCTTCATGTCAGTGTTTTC
104346 AGGCT
1 AGGCT
104351 ATGTTCCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.11, C:0.19, G:0.30, T:0.40
Consensus pattern (21 bp):
AGGCTTCATGTCAGTGTTTTC
Found at i:105401 original size:2 final size:2
Alignment explanation
Indices: 105396--105426 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105386 TCATATATGA
105396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105427 GTATTGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114303 original size:82 final size:83
Alignment explanation
Indices: 114131--114316 Score: 243
Period size: 82 Copynumber: 2.3 Consensus size: 83
114121 TGTTTGGAAT
* ** *
114131 GAAAACGTCGCAAAAGGTAAAGCAAAAGCGGCGTTTATAGGAAAAATCCCGCAAAAGGTAAAGAG
1 GAAAACGCCGCAAAAGGTAAAGCAAAAGCGGCGTTTATACCAAAAATCCCACAAAAGGTAAAGAG
114196 CAATAGCGGTGTTTATGG
66 CAATAGCGGTGTTTATGG
* * * * * *
114214 GAAAACGCCGCAAAAGGTAAGGTAATAGTGGCGTTT-TACCATAAATGCCACAAAAGGT-AA-AG
1 GAAAACGCCGCAAAAGGTAAAGCAAAAGCGGCGTTTATACCAAAAATCCCACAAAAGGTAAAGAG
114276 CAATAGCGGTGTTTATGGGG
66 CAATAGCGGTGTTTAT--GG
114296 GAAAACGCCGCAAAAGGTAAA
1 GAAAACGCCGCAAAAGGTAAA
114317 AAGCATTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 18 0.20
81 2 0.02
82 39 0.43
83 31 0.34
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.17
Consensus pattern (83 bp):
GAAAACGCCGCAAAAGGTAAAGCAAAAGCGGCGTTTATACCAAAAATCCCACAAAAGGTAAAGAG
CAATAGCGGTGTTTATGG
Found at i:114313 original size:42 final size:40
Alignment explanation
Indices: 114131--114316 Score: 178
Period size: 40 Copynumber: 4.5 Consensus size: 40
114121 TGTTTGGAAT
* *
114131 GAAAACGTCGCAAAAGGTAAAGCAAAAGCGGCGTTTATAGG
1 GAAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTAT-GG
* *
114172 AAAAATC-CCGCAAAAGGTAAAGAGCAATAGCGGTGTTTATGG
1 GAAAA-CGCCGCAAAAGGT-AA-AGCAATAGCGGCGTTTATGG
* * * **
114214 GAAAACGCCGCAAAAGGTAAGGTAATAGTGGCGTTT-TAC
1 GAAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTATGG
* * * *
114253 CATAAATGCCACAAAAGGTAAAGCAATAGCGGTGTTTATGGGG
1 GA-AAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTAT--GG
114296 GAAAACGCCGCAAAAGGTAAA
1 GAAAACGCCGCAAAAGGTAAA
114317 AAGCATTAGC
Statistics
Matches: 114, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.02
40 40 0.35
41 18 0.16
42 37 0.32
43 17 0.15
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.17
Consensus pattern (40 bp):
GAAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTATGG
Found at i:115578 original size:42 final size:41
Alignment explanation
Indices: 115479--115619 Score: 160
Period size: 42 Copynumber: 3.3 Consensus size: 41
115469 GTTTTTACAT
* *
115479 AAACGCCGCAAAAGG-AAA-AGCAATAGCGGCGCTTATGGGAA
1 AAACGCCGCAAAAGGTAAAGAG-AATAGCGGTGTTTATGGG-A
* * *
115520 AAACGACACAAAAGGTAAAGAGTAATAGCGATGTTTATGGGA
1 AAACGCCGCAAAAGGTAAAGAG-AATAGCGGTGTTTATGGGA
115562 AAACGCCGCAAAAGGTAAAGAGAATTAGCGGTGTTTATGGGGA
1 AAACGCCGCAAAAGGTAAAGAGAA-TAGCGGTGTTTAT-GGGA
*
115605 AAACGCTGCTAAAAG
1 AAACGCCGC-AAAAG
115620 TTAAGCAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 15 0.18
42 36 0.42
43 29 0.34
44 5 0.06
ACGTcount: A:0.42, C:0.14, G:0.28, T:0.16
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAAGAGAATAGCGGTGTTTATGGGA
Found at i:119728 original size:26 final size:26
Alignment explanation
Indices: 119699--119750 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
119689 CCATTACGCA
119699 AGTAAGTTTTAGAATTTGATAAATAT
1 AGTAAGTTTTAGAATTTGATAAATAT
119725 AGTAAGTTTTAGAATTTGATAAATAT
1 AGTAAGTTTTAGAATTTGATAAATAT
119751 TCATCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (26 bp):
AGTAAGTTTTAGAATTTGATAAATAT
Found at i:122408 original size:66 final size:66
Alignment explanation
Indices: 122314--122438 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
122304 CTTAAATCGG
* * * *
122314 AGGCAGCAGCGAGAGAAGCAGAGGCTCAAAGAAAATATGATGAACTTCAGCTACAACTTGAAGCC
1 AGGCAGCAACAAGAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAGCTACAACTTGAAGCC
122379 A
66 A
* * * *
122380 AGGCAGCAACAAGGGAAGTAGAGTCTCAAAGAAAGTATGACGAACTGCAGCTACAACTT
1 AGGCAGCAACAAGAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAGCTACAACTT
122439 TAAAATATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (66 bp):
AGGCAGCAACAAGAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAGCTACAACTTGAAGCC
A
Found at i:122767 original size:43 final size:43
Alignment explanation
Indices: 122713--123010 Score: 338
Period size: 42 Copynumber: 7.0 Consensus size: 43
122703 TTAGTGGCAC
* * *
122713 TTGTGGAAAAAAAGTCGTTAAAGACCATGTTCTATAGCGGCGT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
* * *
122756 TTGTGAGAAAAACGTTGCT-AAGA-CATGTTCTATAGCAGCGT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
* * * * * *
122797 TTGTGGG-AAAGCATTGATAAAGACCATGTTCTATAGCAGTGT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
* *
122839 TTGT-GGAAAAACGCCACTAAAGACCATGTTCTATAGCGGCGT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
* * * *
122881 TTGTGGG-AAAGCGCCGCTAAAGACCATGTTCTGTAGCGGCAT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
* * *
122923 TTGTGGGAAAAGCG-CTGCTATATACCATGTTCTATAGCGGCGT
1 TTGTGGGAAAAACGTC-GCTAAAGACCATGTTCTATAGCGGCGT
* *
122966 TTGTGGGAAAAGCGTCGCTAAAGATCATGTTCTATAGCGGCGT
1 TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
123009 TT
1 TT
123011 TCCCACATAA
Statistics
Matches: 218, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
40 8 0.04
41 29 0.13
42 95 0.44
43 85 0.39
44 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
TTGTGGGAAAAACGTCGCTAAAGACCATGTTCTATAGCGGCGT
Found at i:122902 original size:84 final size:84
Alignment explanation
Indices: 122726--123010 Score: 376
Period size: 84 Copynumber: 3.4 Consensus size: 84
122716 TGGAAAAAAA
* *
122726 GTCGTTAAAGACCATGTTCTATAGCGGCGTTTGTGAGAAAAACGTTGCT-AAGA-CATGTTCTAT
1 GTCGCTAAAGACCATGTTCTATAGCGGCGTTTGTG-GAAAAACGCTGCTAAAGACCATGTTCTAT
*
122789 AGCAGCGTTTGTGGGAAAGC
65 AGCGGCGTTTGTGGGAAAGC
* * * * * **
122809 ATTGATAAAGACCATGTTCTATAGCAGTGTTTGTGGAAAAACGCCACTAAAGACCATGTTCTATA
1 GTCGCTAAAGACCATGTTCTATAGCGGCGTTTGTGGAAAAACGCTGCTAAAGACCATGTTCTATA
122874 GCGGCGTTTGTGGGAAAGC
66 GCGGCGTTTGTGGGAAAGC
* * * * * *
122893 GCCGCTAAAGACCATGTTCTGTAGCGGCATTTGTGGGAAAAGCGCTGCTATATACCATGTTCTAT
1 GTCGCTAAAGACCATGTTCTATAGCGGCGTTTGT-GGAAAAACGCTGCTAAAGACCATGTTCTAT
122958 AGCGGCGTTTGTGGGAAAAGC
65 AGCGGCGTTTGTGGG-AAAGC
*
122979 GTCGCTAAAGATCATGTTCTATAGCGGCGTTT
1 GTCGCTAAAGACCATGTTCTATAGCGGCGTTT
123011 TCCCACATAA
Statistics
Matches: 172, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
82 10 0.06
83 34 0.20
84 55 0.32
85 40 0.23
86 33 0.19
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (84 bp):
GTCGCTAAAGACCATGTTCTATAGCGGCGTTTGTGGAAAAACGCTGCTAAAGACCATGTTCTATA
GCGGCGTTTGTGGGAAAGC
Found at i:127770 original size:40 final size:40
Alignment explanation
Indices: 127659--127770 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
127649 ATGTTGGAAT
* *
127659 AAACTCAAGCTATGGCTAAGCAGGCTATGAGTTGGTGTCA
1 AAACTCAAGCTATGGCTTAGCAGGCTATGAGCTGGTGTCA
* *
127699 AAACTCAAGCTATGGCATAGCATGCTATGAGCTGGTGTCA
1 AAACTCAAGCTATGGCTTAGCAGGCTATGAGCTGGTGTCA
* * * *
127739 AAACTCAAGCTACGGTTTAGTAGGCTTTGAGC
1 AAACTCAAGCTATGGCTTAGCAGGCTATGAGC
127771 CAGTGTCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (40 bp):
AAACTCAAGCTATGGCTTAGCAGGCTATGAGCTGGTGTCA
Found at i:128568 original size:17 final size:16
Alignment explanation
Indices: 128542--128601 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
128532 CATTTTTAAT
*
128542 TTTAAGTTTAAATTTA
1 TTTAAATTTAAATTTA
*
128558 GTTTAAATTTAAATTCA
1 -TTTAAATTTAAATTTA
128575 TTCTAAATTTAAATTTAA
1 TT-TAAATTTAAATTT-A
*
128593 TTTTAATTT
1 TTTAAATTT
128602 TAAAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 2 0.05
17 32 0.86
18 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAATTTA
Found at i:128594 original size:11 final size:11
Alignment explanation
Indices: 128536--128601 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
128526 TGGACCCATT
*
128536 TTTAATTTTAA
1 TTTAAATTTAA
*
128547 GTTTAAATTTAG
1 -TTTAAATTTAA
128559 TTTAAATTTAA
1 TTTAAATTTAA
* *
128570 ATT-CATTCTAAA
1 TTTAAATT-T-AA
128582 TTTAAATTTAA
1 TTTAAATTTAA
*
128593 TTTTAATTT
1 TTTAAATTT
128602 TAAAAAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 3 0.07
11 23 0.53
12 14 0.33
13 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:129878 original size:36 final size:36
Alignment explanation
Indices: 129837--129905 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
129827 TTAAAGGCCA
*
129837 CCAAAACGACCCCATTTTGGGTATGGCCAAAACACC
1 CCAAAACGACCCCATTTTGAGTATGGCCAAAACACC
* *
129873 CCAAAACGACGCCGTTTTGAGTATGGCCAAAAC
1 CCAAAACGACCCCATTTTGAGTATGGCCAAAAC
129906 TTGAATTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (36 bp):
CCAAAACGACCCCATTTTGAGTATGGCCAAAACACC
Found at i:130436 original size:58 final size:58
Alignment explanation
Indices: 130277--130528 Score: 219
Period size: 58 Copynumber: 4.3 Consensus size: 58
130267 CCAAAATCAT
* *
130277 ATTTTAACCCTCAAACTTCTCAAAAATTACATTTTTGCC-CCTGAACTTCTAAAAAATTAC
1 ATTTTTACCCTCAAACTTCT-AAAAATTACATTTTTGCCTCC-GAAC-TCTCAAAAATTAC
** * * *
130337 ATTTTTACCCCTTGAACTTCCAAAAATTATATTTTTTCCTCCGAACATCTCAAAAATTAC
1 ATTTTTA-CCCTCAAACTTCTAAAAATTACATTTTTGCCTCCGAAC-TCTCAAAAATTAC
* * * *
130397 ATTTTT-CCCTCAAACTTCTAAAAATCACATTTTTGCCTCCAAACTTTCAAAAATCAC
1 ATTTTTACCCTCAAACTTCTAAAAATTACATTTTTGCCTCCGAACTCTCAAAAATTAC
* * * * * *
130454 ATTTTTACCCT-AAATTTTCCT-AAAATGACATTTTTACC-CCTAAAACTTTCCAAAATTAC
1 ATTTTTACCCTCAAA-CTT-CTAAAAATTACATTTTTGCCTCC--GAACTCTCAAAAATTAC
*
130513 ATTTTAACCCT-AAACT
1 ATTTTTACCCTCAAACT
130529 CTCCGAAACT
Statistics
Matches: 161, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
57 22 0.14
58 53 0.33
59 30 0.19
60 44 0.27
61 12 0.07
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.37
Consensus pattern (58 bp):
ATTTTTACCCTCAAACTTCTAAAAATTACATTTTTGCCTCCGAACTCTCAAAAATTAC
Found at i:130518 original size:29 final size:29
Alignment explanation
Indices: 130278--130528 Score: 192
Period size: 30 Copynumber: 8.5 Consensus size: 29
130268 CAAAATCATA
*
130278 TTTTAACCCTCAAACTTCTCAAAAATTACAT
1 TTTTACCCCT-AAACTT-TCAAAAATTACAT
* * *
130309 TTTTGCCCCTGAACTTCTAAAAAATTACAT
1 TTTTACCCCTAAACTT-TCAAAAATTACAT
* * *
130339 TTTTACCCCTTGAACTTCCAAAAATTATAT
1 TTTTACCCC-TAAACTTTCAAAAATTACAT
* * *
130369 TTTTTCCTCC-GAACATCTCAAAAATTACAT
1 TTTTACC-CCTAAAC-TTTCAAAAATTACAT
*
130399 TTTT--CCCTCAAAC-TTCTAAAAATCACAT
1 TTTTACCCCT-AAACTTTC-AAAAATTACAT
* *
130427 TTTTGCCTCC-AAACTTTCAAAAATCACAT
1 TTTTACC-CCTAAACTTTCAAAAATTACAT
* * *
130456 TTTTA-CCCTAAATTTTCCTAAAATGACAT
1 TTTTACCCCTAAACTTT-CAAAAATTACAT
*
130485 TTTTACCCCTAAAACTTTCCAAAATTACA-
1 TTTTACCCCT-AAACTTTCAAAAATTACAT
*
130514 TTTTAACCCTAAACT
1 TTTTACCCCTAAACT
130529 CTCCGAAACT
Statistics
Matches: 183, Mismatches: 23, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
27 6 0.03
28 27 0.15
29 50 0.27
30 75 0.41
31 25 0.14
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTTACCCCTAAACTTTCAAAAATTACAT
Found at i:130543 original size:28 final size:29
Alignment explanation
Indices: 130437--130545 Score: 80
Period size: 29 Copynumber: 3.8 Consensus size: 29
130427 TTTTGCCTCC
* * * *
130437 AAACTTTCAAAAATCACATTTTTACCCT-
1 AAACTCTCCAAAATTACATTTTAACCCTA
* * * *
130465 AAATTTTCCTAAAATGACATTTTTACCCCTA
1 AAACTCTCC-AAAATTACA-TTTTAACCCTA
*
130496 AAACTTTCCAAAATTACATTTTAACCCT-
1 AAACTCTCCAAAATTACATTTTAACCCTA
*
130524 AAACTCTCCGAAACTT-CATTTT
1 AAACTCTCC-AAAATTACATTTT
130546 TGACCCCTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 21 0.31
29 22 0.33
30 16 0.24
31 8 0.12
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACTCTCCAAAATTACATTTTAACCCTA
Found at i:130546 original size:29 final size:30
Alignment explanation
Indices: 130266--130551 Score: 107
Period size: 30 Copynumber: 9.7 Consensus size: 30
130256 CTGTCACTTT
*
130266 TCCAAAA-T-CATATTTTAACCCTCAAACTTC
1 TCCAAAATTACAT-TTTTAACCCTAAAAC-TC
* ** *
130296 TCAAAAATTACATTTTTGCCCCT-GAACTTC
1 TCCAAAATTACATTTTTAACCCTAAAAC-TC
** * **
130326 TAAAAAATTACATTTTTACCCCTTGAACT-
1 TCCAAAATTACATTTTTAACCCTAAAACTC
* ** * *
130355 TCCAAAAATTATATTTTTTCCTCCGAACA-TC
1 TCC-AAAATTACATTTTTAAC-CCTAAAACTC
* *
130386 TCAAAAATTACATTTTT--CCCTCAAACT-
1 TCCAAAATTACATTTTTAACCCTAAAACTC
* * * * *
130413 TCTAAAAATCACATTTTT--GCCTCCAAACTT
1 TC-CAAAATTACATTTTTAACCCT-AAAACTC
* * * *
130443 TCAAAAATCACATTTTT-ACCCT-AAATTT
1 TCCAAAATTACATTTTTAACCCTAAAACTC
* * *
130471 TCCTAAAATGACATTTTTACCCCTAAAACTT
1 TCC-AAAATTACATTTTTAACCCTAAAACTC
130502 TCCAAAATTACA-TTTTAACCCT-AAACTC
1 TCCAAAATTACATTTTTAACCCTAAAACTC
* *
130530 TCCGAAACTT-CATTTTTGACCC
1 TCC-AAAATTACATTTTTAACCC
130552 CTTTTTTTCT
Statistics
Matches: 208, Mismatches: 32, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
27 6 0.03
28 36 0.17
29 57 0.27
30 80 0.38
31 26 0.12
32 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTTAACCCTAAAACTC
Found at i:130552 original size:59 final size:59
Alignment explanation
Indices: 130264--130553 Score: 157
Period size: 58 Copynumber: 4.9 Consensus size: 59
130254 AGCTGTCACT
* * * * * *
130264 TTTCCAAAATCATATTTTAACCCTCAAACT-TCTCAAAAATTACATTTTTGCCCCT-GAAC
1 TTTCAAAAATCACATTTTAACCCT-AAACTCTC-CGAAAATGACATTTTTACCCCTAAAAC
* * * * * * * * * *
130323 TTCTAAAAAATTACATTTTTACCCCTTGAACT-TCCAAAAATTATATTTTTTCCTCCGAACA-
1 TT-TCAAAAATCACA-TTTTAACCC-TAAACTCTCCGAAAATGACATTTTTACC-CCTAAAAC
* * * ** * *
130384 TCTCAAAAATTACATTTT-TCCCTCAAACT-TCTAAAAATCACATTTTTGCCTCC--AAAC
1 TTTCAAAAATCACATTTTAACCCT-AAACTCTCCGAAAATGACATTTTTACC-CCTAAAAC
* * * *
130441 TTTCAAAAATCACATTTTTACCCTAAATTTTCCTAAAATGACATTTTTACCCCTAAAAC
1 TTTCAAAAATCACATTTTAACCCTAAACTCTCCGAAAATGACATTTTTACCCCTAAAAC
* * * *
130500 TTTCCAAAATTACATTTTAACCCTAAACTCTCCGAAACT-TCATTTTTGACCCCT
1 TTTCAAAAATCACATTTTAACCCTAAACTCTCCGAAAATGACATTTTT-ACCCCT
130554 TTTTTTCTTT
Statistics
Matches: 183, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
56 2 0.01
57 23 0.13
58 55 0.30
59 48 0.26
60 36 0.20
61 17 0.09
62 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (59 bp):
TTTCAAAAATCACATTTTAACCCTAAACTCTCCGAAAATGACATTTTTACCCCTAAAAC
Found at i:130980 original size:97 final size:95
Alignment explanation
Indices: 130808--130999 Score: 260
Period size: 97 Copynumber: 2.0 Consensus size: 95
130798 AAAATATTTA
* * **
130808 AAATCGAGGCAATATTCTTTTATTTCGGGTTTTGAAAAATTGTCTTAACTTACTAGGCACGGTTT
1 AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAAATTGTCTTAACTTACTAGGCACGACTT
130873 TTCTTCAAACC-GGAATAATCGAATACCCTT
66 TTCTTCAAACCAGG-ATAATCGAATACCCTT
* * ** **
130903 AAATCGAGGTAATGTTCCTTTATCTCGGGTTTTGAAATTTTGTGCCTTAACTTACTAGGTGCGAC
1 AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAAATTGT--CTTAACTTACTAGGCACGAC
130968 TTTTCTTCAAACCAGGATAATCGAATACCCTT
64 TTTTCTTCAAACCAGGATAATCGAATACCCTT
131000 TTTCAAAGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 37 0.44
97 45 0.54
98 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (95 bp):
AAATCGAGGCAATATTCCTTTATCTCGGGTTTTGAAAAATTGTCTTAACTTACTAGGCACGACTT
TTCTTCAAACCAGGATAATCGAATACCCTT
Found at i:136817 original size:50 final size:49
Alignment explanation
Indices: 136622--136955 Score: 267
Period size: 49 Copynumber: 6.8 Consensus size: 49
136612 AGAAAAATAA
* * *
136622 GAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGTGGACCCAGTACCAT
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
* * * ** ** *
136671 TAATATTTGAAGGGAAAAGTTGAGGCTACAACGGTAAACCCGGTACCAT
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
* * * * * *
136720 GAATATTTAAAGGGAAAAGTTGAGGTCGCAATGGCGAACTC-GATACCTAT
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAG-TACC-AT
* * * *
136770 GAAGATTTTAAGGGAAAGGTTGAGGTCGCAATGGCGAACCCAGTACCTT
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
* * * * * * *
136819 AGAAGATGTGATGGGAAAGATTGAGGCCGTAACGGTGAATCCTGTACCAT
1 -GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
* * * * *
136869 GAA-ATGTGATGGGAAAGGTTGAGGCCACAACGACGAACCCGGTACCAT
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
* * * * * * *
136917 GAAGAGTAGAAGGAAAATGTTAAGGCCACAACAGCGAAC
1 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAAC
136956 TCGATATCTT
Statistics
Matches: 230, Mismatches: 50, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
48 42 0.18
49 106 0.46
50 81 0.35
51 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (49 bp):
GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCAT
Found at i:136890 original size:148 final size:148
Alignment explanation
Indices: 136622--136892 Score: 323
Period size: 148 Copynumber: 1.8 Consensus size: 148
136612 AGAAAAATAA
* * * *
136622 GAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGTGGACCCAGTACCATTAATATTTGAAGGGAA
1 GAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATTAAGATGTGAAGGGAA
* *
136687 AAGTTGAGGCTACAACGGTAAACCCGGTACCATGAATATTTAAAGGGAAAAGTTGAGGTCGCAAT
66 AAGTTGAGGCCACAACGGTAAACCCGGTACCATGAATATGTAAAGGGAAAAGTTGAGGTCGCAAT
136752 GGCGAACTCGATACCTAT
131 GGCGAACTCGATACCTAT
* * * * *
136770 GAAGATTTTAAGGGAAAGGTTGAGGTCGCAATGGCGAACCCAGTACC-TTAGAAGATGTGATGGG
1 GAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATT--AAGATGTGAAGGG
** * * * * * *
136834 -AAAGATTGAGGCCGTAACGGTGAATCCTGTACCATGAA-ATGTGATGGGAAAGGTTGAGG
64 AAAAG-TTGAGGCCACAACGGTAAACCCGGTACCATGAATATGTAAAGGGAAAAGTTGAGG
136893 CCACAACGAC
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
147 2 0.02
148 62 0.61
149 37 0.37
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (148 bp):
GAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCATTAAGATGTGAAGGGAA
AAGTTGAGGCCACAACGGTAAACCCGGTACCATGAATATGTAAAGGGAAAAGTTGAGGTCGCAAT
GGCGAACTCGATACCTAT
Found at i:137343 original size:78 final size:77
Alignment explanation
Indices: 137244--137497 Score: 269
Period size: 78 Copynumber: 3.2 Consensus size: 77
137234 GATTGCAGGT
* * *
137244 ATTCGATCTCTTACCCTGAGCCTGGGGCAGATCATCA-CTAGTCAATCTCTTACCTTGAGCCTAA
1 ATTCGATCTCTTACCCCGAGCCTGGGGCAGATCATCATC-AGTCAATCTCTTACC-CGAGCCTGA
*
137308 GGCAGATTGTAGCC
64 GGCAGATTGTAACC
* ** * * * * *
137322 ATTCGATCTCCTACCCCGAGCCTAAGGCAAATCAACATCAGTAAATCTCTTATCCCGAGCTTGGG
1 ATTCGATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGTCAATCTCTTA-CCCGAGCCTGAG
*
137387 GCATATTGTAACC
65 GCAGATTGTAACC
* * * *
137400 AATTCGATCTCTTACCCTGAGTCTGGGACAGATCATCATCA-ACAAATCTCTTACCCCGAGCCTG
1 -ATTCGATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGTC-AATCTCTTA-CCCGAGCCTG
* *
137464 AGGCAGATTGCAATC
63 AGGCAGATTGTAACC
137479 ATTCGATCTCTTACCCCGA
1 ATTCGATCTCTTACCCCGA
137498 ATTTGAGGCA
Statistics
Matches: 142, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
78 78 0.55
79 64 0.45
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (77 bp):
ATTCGATCTCTTACCCCGAGCCTGGGGCAGATCATCATCAGTCAATCTCTTACCCGAGCCTGAGG
CAGATTGTAACC
Found at i:137488 original size:39 final size:39
Alignment explanation
Indices: 137204--137497 Score: 149
Period size: 39 Copynumber: 7.5 Consensus size: 39
137194 CAGATTGAAG
* * * *
137204 ATTCTGATCTCTTACCCCGAGCTTGGGGTAGATTGCAGGT-
1 ATTC-GATCTCTTACCCCGAGCCTGAGGCAGATTGCA-ATC
* *
137244 ATTCGATCTCTTACCCTGAGCCTGGGGCAGA-T-C-ATC
1 ATTCGATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
* ** * * **
137280 ACTAGTCAATCTCTTACCTTGAGCCTAAGGCAGATTGTAGCC
1 A-T--TCGATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
* * *
137322 ATTCGATCTCCTACCCCGAGCCTAAGGCA-AAT-CAACATC
1 ATTCGATCTCTTACCCCGAGCCTGAGGCAGATTGC-A-ATC
* ** * * * * * *
137361 AGTAAATCTCTTATCCCGAGCTTGGGGCATATTGTAACC
1 ATTCGATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
* *
137400 AATTCGATCTCTTACCCTGAGTCTG-GGACAGA-T-C-ATC
1 -ATTCGATCTCTTACCCCGAGCCTGAGG-CAGATTGCAATC
* *
137437 ATCAACAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
1 AT--TC-GATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
137479 ATTCGATCTCTTACCCCGA
1 ATTCGATCTCTTACCCCGA
137498 ATTTGAGGCA
Statistics
Matches: 188, Mismatches: 46, Indels: 41
0.68 0.17 0.15
Matches are distributed among these distances:
35 1 0.01
36 3 0.02
37 4 0.02
38 5 0.03
39 134 0.71
40 32 0.17
41 2 0.01
42 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (39 bp):
ATTCGATCTCTTACCCCGAGCCTGAGGCAGATTGCAATC
Found at i:137569 original size:39 final size:37
Alignment explanation
Indices: 137509--138283 Score: 392
Period size: 39 Copynumber: 19.9 Consensus size: 37
137499 TTTGAGGCAA
* *
137509 ATCTCTTTGCCCC-AGCTTGGGGCAGATTGCAATCATTCG
1 ATCTC-TTACCCCGAGCCTGGGGCAGATT-C-ATCATTCG
* * * *
137548 ATCTCTTACCCCAAGCCTGGGGCA-AATCATCATCAACAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCAT--TC-G
** * * *
137587 ATCTCTTACCCCGAGCCTGGGATAGAATGCAGCTATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAG-ATTCATC-ATTCG
* * *
137626 ATCTCTTACCCCGAACCTGAGGCA-AATCATCA-TCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATTC-G
* * * *
137662 CAAATCTCTTACCCCAAGCTTGGGGCAGTTTACAACCATTCG
1 ---ATCTCTTACCCCGAGCCTGGGGCAGATT-C-ATCATTCG
** * *
137704 ATCTCTTACCCCGAGCCTACGGTAGA-TCATCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATT---CG
* *
137743 ATCTCTTACCTCGAGCTTGGGGCAGATTACAGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATT-CA-TCATTCG
* * * *
137782 ATCTCTTACCCCGAGTCTAGGGCAGA-TCATCATCAACAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCAT--TC-G
* *
137821 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCAATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATT-C-ATC-ATTCG
137861 ATCTCTTACCCCGAGCCT-GGGCA-ATTCATCA-TCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATTCG
* * *
137895 ACAAATCTCTTACCCCCGAGCTTGGGGCAGATTGCAGCTATTTG
1 ----ATCTCTTA-CCCCGAGCCTGGGGCAGATT-CATC-ATTCG
* * * * *
137939 ATCTTTTATCTCGAACCTGAGGCAGA-TCATCA-TCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATTC-G
* *
137975 CAAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCG
1 ---ATCTCTTACCCCGAGCCTGGGGCAGATT-C-ATCATTCG
* * *
138017 ATCTCTTACCCCAAGCTTGGGGCAGA-TCATCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATT---CG
* * *
138056 ATATCTTACCACAAGCCTGGGGCAGATTGCATCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATT-CAT-CATTCG
* * * * *
138095 ATCTCTTACCCCAAACTTGGGGCAGA-TCATCATCAACAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCAT--TC-G
* * *
138134 ATCTCTTACCTCGAGCCTGAGGCAGATTGCAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATT-C-ATCATTCG
* *
138173 ATCTCTTACCCCGAGCCTGGGGCAGA-TAATCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATT---CG
* * * *
138212 ATCTTTTACCCCGAACCTAGGGCAGATTACAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATT-CA-TCATTCG
* * **
138251 ATCTTTTACGCCGAGGTTGGGGCAGA-TCATCAT
1 ATCTCTTACCCCGAGCCTGGGGCAGATTCATCAT
138284 CAGCCAATCT
Statistics
Matches: 557, Mismatches: 115, Indels: 131
0.69 0.14 0.16
Matches are distributed among these distances:
34 3 0.01
35 3 0.01
36 36 0.06
37 18 0.03
38 29 0.05
39 371 0.67
40 38 0.07
41 18 0.03
42 32 0.06
43 7 0.01
44 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTCATCATTCG
Found at i:137572 original size:64 final size:64
Alignment explanation
Indices: 137442--137575 Score: 182
Period size: 64 Copynumber: 2.1 Consensus size: 64
137432 TCATCATCAA
**
137442 CAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAATCATTCGATCTCTTACCCCGAATTTGAGG
1 CAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAATCATTCGATCTCTTACCCCGAACCTGAGG
* * * *
137506 CAAATCTCTTTGCCCC-AGCTTGGGGCAGATTGCAATCATTCGATCTCTTACCCC-AAGCCTGGG
1 CAAATCTC-TTACCCCGAGCCTGAGGCAGATTGCAATCATTCGATCTCTTACCCCGAA-CCTGAG
137569 G
64 G
137570 CAAATC
1 CAAATC
137576 ATCATCAACA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 2 0.03
64 54 0.87
65 6 0.10
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (64 bp):
CAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAATCATTCGATCTCTTACCCCGAACCTGAGG
Found at i:137629 original size:142 final size:143
Alignment explanation
Indices: 137364--138106 Score: 410
Period size: 156 Copynumber: 4.9 Consensus size: 143
137354 CAACATCAGT
* * * ** *
137364 AAATCTCTTATCCCGAGCTTGGGGCATATTGTAACCAATTCGATCTCTTACCCTGAGTCTGGGAC
1 AAATCTCTTATCCCCAGCTTGGGGCAGATTGCAACCAATTCGATCTCTTACCCCAAGCCTGGGAC
* *
137429 AGATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAATCATTCGATCTCTTACC
66 AAATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGAATGCAATCATTCGATCTCTTACC
**
137494 CCGAATTTGAGGC
131 CCGAACCTGAGGC
* *
137507 AAATCTCTT-TGCCCCAGCTTGGGGCAGATTGCAATC-ATTCGATCTCTTACCCCAAGCCTGGGG
1 AAATCTCTTAT-CCCCAGCTTGGGGCAGATTGCAACCAATTCGATCTCTTACCCCAAGCCTGGGA
* * *
137570 CAAATCATCATCAACAAATCTCTTACCCCGAGCCTG-GGATAGAATGC-AGCTATTTGATCTCTT
65 CAAATCATCATCAACAAATCTCTTACCCCGAGCCTGAGG-CAGAATGCAATC-ATTCGATCTCTT
137633 ACCCCGAACCTGAGGC
128 ACCCCGAACCTGAGGC
* * *
137649 AAATCATCATCAGCAAATCTCTTACCCCAAGCTTGGGGCAGTTTACAACC-ATTCGATCTCTTAC
1 -AA--ATC-T---C---T-T-AT-CCCC-AGCTTGGGGCAGATTGCAACCAATTCGATCTCTTAC
* * * * * * * * * * * * *
137713 CCCGAGCCTACGG-TAGATCATCATTAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTACAGTC
52 CCCAAGCCT-GGGACAAATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGAATGCAATC
**
137777 ATTCGATCTCTTACCCCGAGTCT-AGGGC
116 ATTCGATCTCTTACCCCGAACCTGA-GGC
* * *
137805 AGATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCAATTCGATCTCTTAC
1 A-A--ATC-T---C---T-T-AT-CCCC-AGCTTGGGGCAGATTGCAACCAATTCGATCTCTTAC
* * * * * * *
137870 CCCGAGCCTGGG-CAATTCATCATCGACAAATCTCTTACCCCCGAGCTTGGGGCAGATTGC-AGC
52 CCCAAGCCTGGGACAAATCATCATCAACAAATCTCTTA-CCCCGAGCCTGAGGCAGAATGCAATC
* * * *
137933 TATTTGATCTTTTATCTCGAACCTGAGGC
116 -ATTCGATCTCTTACCCCGAACCTGAGGC
* * *
137962 AGATCATCATCAGCAAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACC-ATTCGATCTCTTAC
1 A-A--ATC-T---C---T-T-AT-CCCC-AGCTTGGGGCAGATTGCAACCAATTCGATCTCTTAC
* * * * * * * * * * *
138026 CCCAAGCTTGGGGCAGATCATCATTAGCCAATATCTTACCACAAGCCTGGGGCAGATTGC-ATCC
52 CCCAAGCCTGGGACAAATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGAATGCAAT-C
138090 ATTCGATCTCTTACCCC
116 ATTCGATCTCTTACCCC
138107 AAACTTGGGG
Statistics
Matches: 492, Mismatches: 80, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
141 4 0.01
142 90 0.18
143 32 0.07
145 3 0.01
146 1 0.00
149 1 0.00
152 1 0.00
153 1 0.00
155 7 0.01
156 217 0.44
157 134 0.27
158 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (143 bp):
AAATCTCTTATCCCCAGCTTGGGGCAGATTGCAACCAATTCGATCTCTTACCCCAAGCCTGGGAC
AAATCATCATCAACAAATCTCTTACCCCGAGCCTGAGGCAGAATGCAATCATTCGATCTCTTACC
CCGAACCTGAGGC
Found at i:137650 original size:78 final size:78
Alignment explanation
Indices: 137505--138300 Score: 825
Period size: 78 Copynumber: 10.2 Consensus size: 78
137495 CGAATTTGAG
* * * *
137505 GCAAATCTCTTTGCCCC-AGCTTGGGGCAGATTGCAATCATTCGATCTCTTACCCC-AAGCCTGG
1 GCAAATCTC-TTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAA-CCTGA
*
137568 GGCAAATCATCATCA
64 GGCAGATCATCATCA
* ** * * * *
137583 ACAAATCTCTTACCCCGAGCCTGGGATAGAATGCAGCTATTTGATCTCTTACCCCGAACCTGAGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGAGG
*
137648 CAAATCATCATCA
66 CAGATCATCATCA
* * * * *
137661 GCAAATCTCTTACCCCAAGCTTGGGGCAGTTTACAACCATTCGATCTCTTACCCCGAGCCT-ACG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGA-G
* *
137725 GTAGATCATCATTA
65 GCAGATCATCATCA
* * * * ** **
137739 GCCAATCTCTTACCTCGAGCTTGGGGCAGATTACAGTCATTCGATCTCTTACCCCGAGTCT-AGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGA-G
137803 GCAGATCATCATCA
65 GCAGATCATCATCA
* * *
137817 ACAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCAATTCGATCTCTTACCCCGAGCCTG-G
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACC-ATTCGATCTCTTACCCCGAACCTGAG
137881 GCA-ATTCATCATC-
65 GCAGA-TCATCATCA
* * * * * * *
137894 GACAAATCTCTTACCCCCGAGCTTGGGGCAGATTGCAGCTATTTGATCTTTTATCTCGAACCTGA
1 G-CAAATCTCTTA-CCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGA
137959 GGCAGATCATCATCA
64 GGCAGATCATCATCA
* * *
137974 GCAAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCGATCTCTTACCCC-AAGCTTGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAA-CCTGAG
*
138038 GCAGATCATCATTA
65 GCAGATCATCATCA
* * * * * * * *
138052 GCCAATATCTTACCACAAGCCTGGGGCAGATTGCATCCATTCGATCTCTTACCCCAAACTTGGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGAGG
138117 CAGATCATCATCA
66 CAGATCATCATCA
* * * * *
138130 ACAAATCTCTTACCTCGAGCCTGAGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGAGG
* *
138195 CAGATAATCATTA
66 CAGATCATCATCA
* * * * * * * * *** *
138208 GCCAATCTTTTACCCCGAACCTAGGGCAGATTACAGCCATTCGATCTTTTACGCCGAGGTTGGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGAGG
138273 CAGATCATCATCA
66 CAGATCATCATCA
*
138286 GCCAATCTCTTACCC
1 GCAAATCTCTTACCC
138301 TGATCATGGG
Statistics
Matches: 604, Mismatches: 101, Indels: 26
0.83 0.14 0.04
Matches are distributed among these distances:
77 10 0.02
78 521 0.86
79 71 0.12
80 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (78 bp):
GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAACCTGAGG
CAGATCATCATCA
Found at i:138320 original size:156 final size:156
Alignment explanation
Indices: 137505--138300 Score: 945
Period size: 156 Copynumber: 5.1 Consensus size: 156
137495 CGAATTTGAG
* * * *
137505 GCAAATCTCTTTGCCCC-AGCTTGGGGCAGATTGCAATCATTCGATCTCTTACCCCAAGCCTGGG
1 GCAAATCTC-TTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGG
* * * * ** * * *
137569 GCAAATCATCATCAACAAATCTCTTACCCCGAGCCTGGGATAGAATGCAGCTATTTGATCTCTTA
65 GCAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTA
* * *
137634 CCCCGAACCTGAGGCAAATCATCATCA
130 CCCCGAACTTGGGGCAGATCATCATCA
* * * * **
137661 GCAAATCTCTTACCCCAAGCTTGGGGCAGTTTACAACCATTCGATCTCTTACCCCGAGCCTACGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
* * * * *
137726 TAGATCATCATTAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTACAGTCATTCGATCTCTTAC
66 CAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTAC
* *
137791 CCCG-AGTCTAGGGCAGATCATCATCA
131 CCCGAACT-TGGGGCAGATCATCATCA
* *
137817 ACAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAACCAATTCGATCTCTTACCCCGAGCCT-GG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACC-ATTCGATCTCTTACCCCGAGCCTGGG
* * * * * *
137881 GCA-ATTCATCA-TCGACAAATCTCTTACCCCCGAGCTTGGGGCAGATTGCAGCTATTTGATCTT
65 GCAGA-TCATCATTAG-CCAATCTCTTA-CCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTC
* * * *
137944 TTATCTCGAACCTGAGGCAGATCATCATCA
127 TTACCCCGAACTTGGGGCAGATCATCATCA
* * *
137974 GCAAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTCGATCTCTTACCCCAAGCTTGGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
* * * *
138039 CAGATCATCATTAGCCAATATCTTACCACAAGCCTGGGGCAGATTGCATCCATTCGATCTCTTAC
66 CAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTAC
*
138104 CCCAAACTTGGGGCAGATCATCATCA
131 CCCGAACTTGGGGCAGATCATCATCA
* * *
138130 ACAAATCTCTTACCTCGAGCCTGAGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
1 GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
* * * * * *
138195 CAGATAATCATTAGCCAATCTTTTACCCCGAACCTAGGGCAGATTACAGCCATTCGATCTTTTAC
66 CAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTAC
* **
138260 GCCGAGGTTGGGGCAGATCATCATCA
131 CCCGAACTTGGGGCAGATCATCATCA
*
138286 GCCAATCTCTTACCC
1 GCAAATCTCTTACCC
138301 TGATCATGGG
Statistics
Matches: 539, Mismatches: 91, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
155 10 0.02
156 395 0.73
157 130 0.24
158 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (156 bp):
GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTGGGG
CAGATCATCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTAC
CCCGAACTTGGGGCAGATCATCATCA
Found at i:138787 original size:17 final size:16
Alignment explanation
Indices: 138759--138821 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
138749 TAATTTTAAG
138759 TTTAAGTTTAAATTTAT
1 TTTAA-TTTAAATTTAT
*
138776 TTTGAATTTAAATTCAT
1 TTT-AATTTAAATTTAT
* *
138793 TCTAAATTTAAATTTAAA
1 T-TTAATTTAAATTT-AT
138811 TTTAATTTAAA
1 TTTAATTTAAA
138822 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 33 0.87
18 5 0.13
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAATTTAAATTTAT
Found at i:138804 original size:6 final size:6
Alignment explanation
Indices: 138747--138821 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
138737 TTGACTCATT
* * * * * *
138747 TTTAAT TTTAAG TTTAAG TTTAAA TTT-AT TTTGAA TTTAAA -TT-CA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
138792 TTCTAAA TTTAAA TTTAAA TTT-AA TTTAAA
1 TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA
138822 AAAATTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 1 0.02
5 12 0.21
6 41 0.72
7 3 0.05
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:140626 original size:30 final size:30
Alignment explanation
Indices: 140500--140792 Score: 226
Period size: 30 Copynumber: 9.9 Consensus size: 30
140490 AAATGTCCTT
* *
140500 GAACTGTC-CAAAAATCATATTTTAACCC-C
1 GAACT-TCTCAAAAATCACATTTTTACCCTC
* * * * * * *
140529 TACACTTTTCCAAAACCATATTTTGACCCCC
1 GA-ACTTCTCAAAAATCACATTTTTACCCTC
* * * *
140560 GAACTTTTCCAAAATCATATTTTGACCCTC
1 GAACTTCTCAAAAATCACATTTTTACCCTC
* * * *
140590 AAACTTCTCAAAATTTACATTTTAACCCTC
1 GAACTTCTCAAAAATCACATTTTTACCCTC
* * * * *
140620 AAACTTCTTAAAAATTACGTTTTTGCTCCT-
1 GAACTTCTCAAAAATCACATTTTTAC-CCTC
*
140650 GAACTT-TCAAAAATCACATTTTTACCCTT
1 GAACTTCTCAAAAATCACATTTTTACCCTC
* * *
140679 AAACTTCTCAAAAATCACATTTTT-GCCTT
1 GAACTTCTCAAAAATCACATTTTTACCCTC
* *
140708 GAACTTCTCAAAAATTACA-TTTTCCCCTC
1 GAACTTCTCAAAAATCACATTTTTACCCTC
*
140737 GAACTTC-CAAAAATCACATTTTTGCCCTC
1 GAACTTCTCAAAAATCACATTTTTACCCTC
140766 GAACTTC-CAAAAATCA-AGTTTTTACCC
1 GAACTTCTCAAAAATCACA-TTTTTACCC
140793 CAAATTTTCC
Statistics
Matches: 221, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
28 18 0.08
29 86 0.39
30 112 0.51
31 5 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (30 bp):
GAACTTCTCAAAAATCACATTTTTACCCTC
Found at i:140685 original size:59 final size:59
Alignment explanation
Indices: 140591--140796 Score: 244
Period size: 59 Copynumber: 3.5 Consensus size: 59
140581 TTGACCCTCA
* * * * * *
140591 AACTTCTCAAAATTTACATTTTAACCCTCAAACTTCTTAAAAATTACGTTTTTGCTCCTG
1 AACTTCTCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATCACATTTTTGC-CCTG
* *
140651 AACTT-TCAAAAATCACATTTTTACCCTTAAACTTCTCAAAAATCACATTTTTGCCTTG
1 AACTTCTCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATCACATTTTTGCCCTG
* * *
140709 AACTTCTCAAAAATTACA-TTTTCCCCTCGAACTTC-CAAAAATCACATTTTTGCCCTCG
1 AACTTCTCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATCACATTTTTGCCCT-G
140767 AACTTC-CAAAAATCA-AGTTTTTACCC-CAAA
1 AACTTCTCAAAAATCACA-TTTTTACCCTCAAA
140797 TTTTCCTAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
56 1 0.01
57 31 0.25
58 36 0.29
59 53 0.42
60 5 0.04
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (59 bp):
AACTTCTCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATCACATTTTTGCCCTG
Found at i:140788 original size:29 final size:30
Alignment explanation
Indices: 140549--140781 Score: 219
Period size: 29 Copynumber: 7.9 Consensus size: 30
140539 CAAAACCATA
* * * *
140549 TTTTGACCCCCGAACTTTTCCAAAATCATA-
1 TTTTG-CCCTCGAACTTCTCAAAAATCACAT
* * *
140579 TTTTGACCCTCAAACTTCTCAAAATTTACAT
1 TTTTG-CCCTCGAACTTCTCAAAAATCACAT
** * * * *
140610 TTTAACCCTCAAACTTCTTAAAAATTACGT
1 TTTTGCCCTCGAACTTCTCAAAAATCACAT
140640 TTTTGCTCCT-GAACTT-TCAAAAATCACAT
1 TTTTGC-CCTCGAACTTCTCAAAAATCACAT
* **
140669 TTTTACCCTTAAACTTCTCAAAAATCACAT
1 TTTTGCCCTCGAACTTCTCAAAAATCACAT
* *
140699 TTTTG-CCTTGAACTTCTCAAAAATTACA-
1 TTTTGCCCTCGAACTTCTCAAAAATCACAT
*
140727 TTTTCCCCTCGAACTTC-CAAAAATCACAT
1 TTTTGCCCTCGAACTTCTCAAAAATCACAT
140756 TTTTGCCCTCGAACTTC-CAAAAATCA
1 TTTTGCCCTCGAACTTCTCAAAAATCA
140782 AGTTTTTACC
Statistics
Matches: 170, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
28 17 0.10
29 76 0.45
30 71 0.42
31 6 0.04
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (30 bp):
TTTTGCCCTCGAACTTCTCAAAAATCACAT
Found at i:140802 original size:29 final size:30
Alignment explanation
Indices: 140501--140837 Score: 123
Period size: 30 Copynumber: 11.4 Consensus size: 30
140491 AATGTCCTTG
* * * *
140501 AACTGTCCAAAAATCATATTTTAACCCCTA
1 AACTTTCCAAAAATCACATTTTTACCCCAA
* * * * **
140531 CACTTTTCC-AAAACCATATTTTGACCCCCG
1 AAC-TTTCCAAAAATCACATTTTTACCCCAA
* *
140561 AACTTTTCC-AAAATCATATTTTGACCCTC-A
1 AAC-TTTCCAAAAATCACATTTTTACCC-CAA
* * *
140591 AAC-TTCTCAAAATTTACATTTTAACCCTC-A
1 AACTTTC-CAAAAATCACATTTTTACCC-CAA
* * * * * **
140621 AAC-TTCTTAAAAATTACGTTTTTGCTCCTG
1 AACTTTC-CAAAAATCACATTTTTACCCCAA
**
140651 AACTTT-CAAAAATCACATTTTTACCCTTA
1 AACTTTCCAAAAATCACATTTTTACCCCAA
* ***
140680 AAC-TTCTCAAAAATCACATTTTT-GCCTTG
1 AACTTTC-CAAAAATCACATTTTTACCCCAA
* **
140709 AAC-TTCTCAAAAATTACA-TTTT-CCCCTCG
1 AACTTTC-CAAAAATCACATTTTTACCCC-AA
* *
140738 AAC-TTCCAAAAATCACATTTTTGCCCTC-G
1 AACTTTCCAAAAATCACATTTTTACCC-CAA
140767 AAC-TTCCAAAAATCA-AGTTTTTACCCC-A
1 AACTTTCCAAAAATCACA-TTTTTACCCCAA
* * *
140795 AATTTTCCTAAAATGACATTTTTACCCCTAA
1 AACTTTCCAAAAATCACATTTTTACCCC-AA
140826 AACTTTCCAAAA
1 AACTTTCCAAAA
140838 TTACATATTA
Statistics
Matches: 249, Mismatches: 41, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
28 25 0.10
29 97 0.39
30 108 0.43
31 19 0.08
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
AACTTTCCAAAAATCACATTTTTACCCCAA
Found at i:140815 original size:58 final size:57
Alignment explanation
Indices: 140566--140817 Score: 226
Period size: 58 Copynumber: 4.3 Consensus size: 57
140556 CCCCGAACTT
* * * * *
140566 TTCC-AAAATCATA-TTTTGACCCTCAAACTTCTCAAAATTTACATTTTAACCCTCAAAC
1 TTCCAAAAATCACATTTTTG-CCCT-GAACTTC-CAAAAATCACATTTTTACCCTCAAAC
* * * * *
140624 TTCTTAAAAATTACGTTTTTGCTCCTGAACTTTCAAAAATCACATTTTTACCCTTAAAC
1 TTC-CAAAAATCACATTTTTGC-CCTGAACTTCCAAAAATCACATTTTTACCCTCAAAC
* * * *
140683 TTCTCAAAAATCACATTTTTGCCTTGAACTTCTCAAAAATTACA-TTTTCCCCTCGAAC
1 TTC-CAAAAATCACATTTTTGCCCTGAACTTC-CAAAAATCACATTTTTACCCTCAAAC
*
140741 TTCCAAAAATCACATTTTTGCCCTCGAACTTCCAAAAATCA-AGTTTTTACCC-CAAATT
1 TTCCAAAAATCACATTTTTGCCCT-GAACTTCCAAAAATCACA-TTTTTACCCTCAAA-C
* *
140799 TTCCTAAAATGACATTTTT
1 TTCCAAAAATCACATTTTT
140818 ACCCCTAAAA
Statistics
Matches: 159, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
56 1 0.01
57 31 0.19
58 56 0.35
59 51 0.32
60 12 0.08
61 8 0.05
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.37
Consensus pattern (57 bp):
TTCCAAAAATCACATTTTTGCCCTGAACTTCCAAAAATCACATTTTTACCCTCAAAC
Found at i:146695 original size:3 final size:3
Alignment explanation
Indices: 146687--146732 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
146677 CGAATGAAAT
146687 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
146733 GAATGCGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:146944 original size:2 final size:2
Alignment explanation
Indices: 146937--146966 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
146927 ATCCCAACTC
146937 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
146967 CCAAGTGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:148462 original size:12 final size:11
Alignment explanation
Indices: 148431--148468 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
148421 AAGTAGCCTA
148431 TCTTT-TTTCCT
1 TCTTTCTTT-CT
148442 TCTTTCTTTCT
1 TCTTTCTTTCT
148453 TCTTTCCTTTCT
1 TCTTT-CTTTCT
148465 TCTT
1 TCTT
148469 CTTCTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TCTTTCTTTCT
Found at i:156997 original size:20 final size:19
Alignment explanation
Indices: 156968--157007 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
156958 AACTTCGAAT
*
156968 AATAAGGAAAAACAAAGATA
1 AATAACGAAAAA-AAAGATA
*
156988 AATAACGAAATAAAAGATA
1 AATAACGAAAAAAAAGATA
157007 A
1 A
157008 GGAGTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (19 bp):
AATAACGAAAAAAAAGATA
Found at i:163190 original size:31 final size:31
Alignment explanation
Indices: 163132--163195 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
163122 ATATTTTAAT
* * * *
163132 TTGATCAGTTTTAGTCACTTTATTTTTCGAA
1 TTGATCAATTTTAATCACTTTACTTTTCAAA
163163 TTGATCAATTTTAATC-CTTATACTTTTCAAA
1 TTGATCAATTTTAATCACTT-TACTTTTCAAA
163194 TT
1 TT
163196 TTGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.52
Consensus pattern (31 bp):
TTGATCAATTTTAATCACTTTACTTTTCAAA
Found at i:163884 original size:30 final size:31
Alignment explanation
Indices: 163819--163884 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
163809 TACAAAATGA
* *
163819 TCACTGAACTATTCGAAAGTTTTCATGCGAG
1 TCACTAAACTATTCGAAAGTTTTCATGCAAG
* * *
163850 TCACTAAATTATTTGAAAGTTTT-ATTCAAG
1 TCACTAAACTATTCGAAAGTTTTCATGCAAG
163880 TCACT
1 TCACT
163885 GAGCTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (31 bp):
TCACTAAACTATTCGAAAGTTTTCATGCAAG
Found at i:165474 original size:15 final size:15
Alignment explanation
Indices: 165438--165475 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
165428 GGTTGCTCTC
*
165438 CATAATT-TTTTTTT
1 CATAATTATTCTTTT
165452 CATAAATTATTCTTTT
1 CAT-AATTATTCTTTT
165468 CATAATTA
1 CATAATTA
165476 AATTGATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 9 0.43
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
CATAATTATTCTTTT
Found at i:186383 original size:16 final size:16
Alignment explanation
Indices: 186364--186395 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
186354 TACATGTGAA
186364 AAATAATAAAATAAAT
1 AAATAATAAAATAAAT
*
186380 AAATAATAAATTAAAT
1 AAATAATAAAATAAAT
186396 TAAAAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAATAAAATAAAT
Found at i:189552 original size:31 final size:31
Alignment explanation
Indices: 189516--189575 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
189506 CTTACACGCG
* * *
189516 AACTCATAGTGTCATGTGAACTTGAAATGCA
1 AACTCATAATGTCACGCGAACTTGAAATGCA
189547 AACTCATAATGTCACGCGAACTTGAAATG
1 AACTCATAATGTCACGCGAACTTGAAATG
189576 TGAACAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTCATAATGTCACGCGAACTTGAAATGCA
Found at i:192592 original size:59 final size:59
Alignment explanation
Indices: 192520--192639 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
192510 TCCATCATCA
*
192520 TCATACTTACCCAATTCCGTATACTCCTCACTTCTCATTTCTTTATTCAATAATTCAAT
1 TCATACTTACCCAATTCCATATACTCCTCACTTCTCATTTCTTTATTCAATAATTCAAT
* **
192579 TCATACTTACCCAATTCCATATACTCCTTACTTCTCATTTCTTTATTCAATGTTTCAAT
1 TCATACTTACCCAATTCCATATACTCCTCACTTCTCATTTCTTTATTCAATAATTCAAT
192638 TC
1 TC
192640 TTTCATTCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (59 bp):
TCATACTTACCCAATTCCATATACTCCTCACTTCTCATTTCTTTATTCAATAATTCAAT
Found at i:202616 original size:18 final size:18
Alignment explanation
Indices: 202595--202651 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
202585 CAAAGTTTTA
* *
202595 AAAAAAAAGAACAATGAG
1 AAAAACAAGAAGAATGAG
* * *
202613 AAAAGCAAGAAGGATGTG
1 AAAAACAAGAAGAATGAG
202631 AAAAACAAGAAGAATGAG
1 AAAAACAAGAAGAATGAG
202649 AAA
1 AAA
202652 GGCTCAGGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.65, C:0.05, G:0.23, T:0.07
Consensus pattern (18 bp):
AAAAACAAGAAGAATGAG
Found at i:202792 original size:28 final size:27
Alignment explanation
Indices: 202760--202863 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 27
202750 TGCAACGATC
*
202760 ATATTGTAATGGTCAGATTCCAACAGCT
1 ATATTGTAATGGTCAGATTTCAAC-GCT
* * *
202788 ATATTGTAATGGTTAGATTTCAATGGT
1 ATATTGTAATGGTCAGATTTCAACGCT
*
202815 CATATTGTAATGGTCAGATTTCAACGACC
1 -ATATTGTAATGGTCAGATTTCAACG-CT
* *
202844 ATATTGTAACGGTCATATTT
1 ATATTGTAATGGTCAGATTT
202864 TTGTATTACC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.03
28 62 0.97
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (27 bp):
ATATTGTAATGGTCAGATTTCAACGCT
Found at i:202860 original size:14 final size:14
Alignment explanation
Indices: 202739--202862 Score: 56
Period size: 14 Copynumber: 8.9 Consensus size: 14
202729 CAAAAAATTC
* *
202739 AACGGGCATATTGC
1 AACGGTCATATTGT
*
202753 AACGATCATATTGT
1 AACGGTCATATTGT
* * **
202767 AATGGTCAGATTCC
1 AACGGTCATATTGT
*
202781 AACAG-CTATATTGT
1 AACGGTC-ATATTGT
* * *
202795 AATGGTTAGATT-T
1 AACGGTCATATTGT
*
202808 CAATGGTCATATTGT
1 -AACGGTCATATTGT
* *
202823 AATGGTCAGATT-T
1 AACGGTCATATTGT
**
202836 CAACGACCATATTGT
1 -AACGGTCATATTGT
202851 AACGGTCATATT
1 AACGGTCATATT
202863 TTTGTATTAC
Statistics
Matches: 78, Mismatches: 26, Indels: 12
0.67 0.22 0.10
Matches are distributed among these distances:
13 3 0.04
14 73 0.94
15 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (14 bp):
AACGGTCATATTGT
Found at i:205422 original size:33 final size:30
Alignment explanation
Indices: 205356--205422 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
205346 TGTTAAATCT
* *
205356 GTTAGTAGTAGTTAGTCTTCTGTTATAATG
1 GTTAGTAGTAGTTAGTCTACTGTTATAAAG
205386 GTTAGTAGTAGTTAGTCTACTTGTATATAAGAG
1 GTTAGTAGTAGTTAGTCTAC-TGT-TATAA-AG
205419 GTTA
1 GTTA
205423 ACAGGCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 19 0.59
31 3 0.09
32 5 0.16
33 5 0.16
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (30 bp):
GTTAGTAGTAGTTAGTCTACTGTTATAAAG
Found at i:209332 original size:25 final size:26
Alignment explanation
Indices: 209266--209341 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
209256 GGAGAAATTT
* *
209266 CTGAATTGGCTCGTAAGAACGATATA
1 CTGAAATGGCTCGTAAGAGCGATATA
*
209292 CTGAACTGGCTCGTAAGAGCGATATA
1 CTGAAATGGCTCGTAAGAGCGATATA
209318 CT-AAATGGCTCGTAAGAGCGATAT
1 CTGAAATGGCTCGTAAGAGCGATAT
209342 CTTGACTGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 21 0.45
26 26 0.55
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (26 bp):
CTGAAATGGCTCGTAAGAGCGATATA
Found at i:210629 original size:29 final size:28
Alignment explanation
Indices: 210572--210631 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
210562 TCTTTGTTTA
* * *
210572 GTTATTGTGTGATATTGATTTGTGATGT
1 GTTATTGTATGATATTGATCTATGATGT
*
210600 GTTATTAGTATGATATTGATCTATGTTGT
1 GTTATT-GTATGATATTGATCTATGATGT
210629 GTT
1 GTT
210632 TTCGCATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.53
Consensus pattern (28 bp):
GTTATTGTATGATATTGATCTATGATGT
Found at i:214710 original size:52 final size:52
Alignment explanation
Indices: 214648--214884 Score: 338
Period size: 52 Copynumber: 4.6 Consensus size: 52
214638 TAAATGAAAA
*
214648 AGGTCAGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
*
214700 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * * *
214752 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCGTTTATGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* *
214804 AGGTCCGATGAC--TGTGTCATCGTGAGCATAT-ATATCCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-AT-CTTTTACGGATTATG
* *
214854 AGGTCCGATGACTTTATGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
214885 TAAATTGGAA
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
49 1 0.01
50 32 0.19
51 10 0.06
52 124 0.74
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
Found at i:216916 original size:18 final size:18
Alignment explanation
Indices: 216895--216948 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
216885 TTTTAGATAA
*
216895 AAGAAGAATGAGAGAAGC
1 AAGAAGAATGAGAGAAAC
* *
216913 AAGAAAAATGAGAGAAAT
1 AAGAAGAATGAGAGAAAC
*
216931 GAGAAGAATGAGAGAAAC
1 AAGAAGAATGAGAGAAAC
216949 TCAGGTTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.59, C:0.04, G:0.30, T:0.07
Consensus pattern (18 bp):
AAGAAGAATGAGAGAAAC
Done.