Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168338.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_560, 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: 22953
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Found at i:183 original size:26 final size:26
Alignment explanation
Indices: 147--199 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
137 GTTGACTTAG
* *
147 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
173 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
199 G
1 G
200 ATCAGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:1009 original size:161 final size:159
Alignment explanation
Indices: 708--1100 Score: 475
Period size: 161 Copynumber: 2.5 Consensus size: 159
698 TAGTGCCCGC
* ** ** * * **
708 GTGCCCGCCCGCTCGTTTTTTCAGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGGTGGG
1 GTGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAG
* * * ** *
773 ACCGGACCGAGGGTTGCGACAGCAGGATCGGCAACACACAAAGGGGAACCTGATTGATTCCCAGC
66 ACCGGACCAAGGGTTGCGACAACAGGATCGGCAACACACAAAGGGGAACCCGACCGATCCCCAGC
*
838 TTGTGCATCTTACCCCTCTGGCCGGCTGA
131 TTGGGCATCTTACCCCTCTGGCCGGCTGA
*
867 GTGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACTGG-GTTCTCATTCCCAGTCTAAGAT
1 GTGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATAC-GGAG-T-TCATTCCCAGTCTAAGAT
* * *
931 CAGACCGGACCAAGGGTTGC-AGCAACAGGATCGGCAACACGCTAAGGGGGACCCGACCGATCCC
63 CAGACCGGACCAAGGGTTGCGA-CAACAGGATCGGCAACACACAAAGGGGAACCCGACCGATCCC
* * *
995 CGGCTTGGGCATCTTGCCCCTCTGGCTGGCTGA
127 CAGCTTGGGCATCTTACCCCTCTGGCCGGCTGA
** * * *
1028 ACGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCTAGCCTAAGATCAA
1 GTGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAG
*
1093 ACTGGACC
66 ACCGGACC
1101 GAGGATTGTG
Statistics
Matches: 200, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
159 59 0.29
160 7 0.04
161 134 0.67
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (159 bp):
GTGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAG
ACCGGACCAAGGGTTGCGACAACAGGATCGGCAACACACAAAGGGGAACCCGACCGATCCCCAGC
TTGGGCATCTTACCCCTCTGGCCGGCTGA
Found at i:2106 original size:26 final size:26
Alignment explanation
Indices: 2069--2121 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2059 GTTGACTTAG
* *
2069 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
2095 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
2121 G
1 G
2122 ATCGGATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:3000 original size:26 final size:26
Alignment explanation
Indices: 2964--3014 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2954 TGACTTAGGC
*
2964 ATACGGAGTTCATTCCCAGTCTAAGT
1 ATACGGAGTTCATTCCCACTCTAAGT
*
2990 ATACGGAGTTCATTCCTACTCTAAG
1 ATACGGAGTTCATTCCCACTCTAAG
3015 ATCGGACTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (26 bp):
ATACGGAGTTCATTCCCACTCTAAGT
Found at i:7253 original size:879 final size:877
Alignment explanation
Indices: 2095--8518 Score: 7995
Period size: 854 Copynumber: 7.4 Consensus size: 877
2085 CCTAGTCTAA
* ** * *
2095 GCATACGAAGTTCATTCCCAGTCTAAGATCGGAT-TGGA-TCAAGGGTTGTGGGTGCACATGCTG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACT-GAGGGTTGCGGGTGCACATGCTG
* ** * ** * *
2158 GGCTCGAGCATGCACTGATGCCACA-TTTTTTTAGCCCAGGGCACCATCG-C----CA------G
65 GGCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGG
* *
2211 AGAACCTGACCGACGGCATTGGTGTTCCGGCGATTGGTGGGGTAAG-GGAGGGGGTGTGCGCACA
130 AGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGG-GGGG---GCCG-GGGGGTGTGCGCACA
* *
2275 TGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCGTATCCCTCATCAAACCTTGAG
190 TGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAG
*
2340 AACTCACACCCCCTTAAAGAGCATTTCAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGT
255 AACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGT
* *
2405 CTGAAATGGGGACACTTTTTTCAAAAGGTCACAAAATCTTGTACACTTCAAGTTTTTAGCTGAAT
320 CTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAAT
*
2470 TTTTTTGTGCATGCCAACAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTC
385 TTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTC
* * *
2535 TGAAAAAATTTTTAAAAAATCTCGAATCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGT
450 TGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGA
*
2600 GTCGTCTTGCCATGAAAATTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAA
515 GTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAA
** *
2665 AAATGGCATTGGTGTGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCA
580 AAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCA
* * *
2730 TGGCTTGCGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGTCCGCCCGCTCGTTTCGTCGG
645 CGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCGG
* * * *
2795 TTGGCTTAGGCATACAAAGTTCATTCCCAATCTAAGATC-GAACCAGACTGAGGATTG-CAGCAG
710 TTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAG-ACCAGACTGAGGGTTGTGA-CAG
* * * *
2858 CAAGATCAGCAGCACACTGAGGGGGACCC-AGCCGATCCCCGACTTGCGCATCCTGCCCCTCTGG
773 CAGGATCGGTAGCACGCTGAGGGGGACCCGA-CCGATCCCCGACTTGCGCATCCTGCCCCTCTGG
* * *
2922 CCGACT-AGCACCCGCACGCTCGTTACGTGGGTTGACTTAG
837 CCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
2962 GCATACGGAGTTCATTCCCAGTCTAAGTATACGGAGTTCATTCCTACTCTAAGATCGGACTGGAC
1 GCATACGGAGTTCATTCCCAGTCTAAG-AT-C-G-G---A----T-C-C----A---GACT-G--
* * *
3027 CAAGGGTTGCAGGTGCACATGCTGGGCTCAGGCATGTGCTGGTGTCACAT-TTTTTTTTCGCCCG
43 --AGGGTTGCGGGTGCACATGCTGGGCTCGGGCATGTGCTGGTG-C-CGTATTTTTTTTCGCCCG
* * * * * * *
3091 GGCCACCATCGCCGGAGCAT-TGCCAGAGAACCTGACCGACAGCATTGGGGTTTCGGTGATT-GG
104 GGGCACCATCGTCGGAGCATCT-TCGGAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGG
* * * *
3154 GGGGCCAGGAGGGGGTTTGCGCAGATGATGTGCGATTGGTACTGGTACTTGGCCCTTATATTGGC
168 GGGGCC--G-GGGGGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGC
* *
3219 CCCCTATCCCTCATCAAACCTCGAGAA-TGCACACCCCTTTAAAGAGCATTTGAGATTTTATAGG
230 CCCCTATCCCTCATCAAACCTCGAGAACT-CACACCCCCTTAAAGAGCATTTGAGATTTTACAGG
*
3283 TTTGCTGCCAATAGCCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCC
294 TTTGCTGCCAGTAGCCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCC
* * * *
3348 TGCACACTTCGAGTTTTTAGCTGAATTTTTTTGTGCATTCCAAAAAAAATACAAGGATCATGTCT
359 TGTACACTTCAAGTTTTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCT
* * * * *
3413 ACCAAGTTTGGGGCCAAAACTCATTCTGAAAAAATTTTAAAAAAATCACGAATCATAAAAACTTT
424 ACCAAGTTTGGGGCCAAAACTCCTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTT
* *
3478 -AAAAATCATGAAAAATAGAAAATGACTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGA
489 CAAAAATCATGAAAAATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGA
* **
3542 CCATTGTATGAATTTACAAGCCATAAAAATGGCATTGGCATGGCAAAAATATGAATTTGTGCCTA
554 CCATTGTATGAATTTACAAGCCATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTA
* * * * *
3607 AACCAACCTACCACCCTATCGATCGACGGCTTGCGCATCCCGTCTCTCTAGCCGGGGTAGTGCCC
619 AACCCACCTACCACCCTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCC
** * * * *
3672 GCCCGCTTGCCCACTCGTTTCGTCAGTTGGCTTAGGCATACAGAGTTCATTCCTAGTCCAAGATC
684 GCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATC
* ** * ** *
3737 AGACTAGACTGAGGGTTGCAACAGCAGGATCGGTAGCACGCTGAGGGAGACCCGGTCGATCGCCG
749 AGACCAGACTGAGGGTTGTGACAGCAGGATCGGTAGCACGCTGAGGGGGACCCGACCGATCCCCG
** * * * * * * *
3802 GTTTACGTATCTTGCCCCTCTGGTCGGTTGAGCACCCGCACGCTCGTTCCGTGGGTTGACTTAG
814 ACTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * *
3866 GCATACGGAGTTCATTCCCAGTCTAAGATCGGA-CCGGA-TCGAGGCTTGTGGGTGCACATGCTG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACT-GAGGGTTGCGGGTGCACATGCTG
* * * * * * *
3929 GGCTCGGGTATGTGCTGGTGCCATATTTTATTTCACCCGGGGCACGATCGTCAGAGCATCGTCGG
65 GGCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGG
* * * * * *
3994 ACAACCT-AGCCAACGGCATTGGGGTTCCAGCGATTAGGGGGTCGGGGGGGTGTGCGCACATGAT
130 AGAACCTGA-CCGACGGCATTGGGGTTCCGGCGATTGGGGGGGCCGGGGGGTGTGCGCACATGAT
* *
4058 GTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCACCTATCCCTCATCAAACCTCAAGAACT
194 GTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACT
4123 CCACACCCCCTTAAAGAG-ATTTGAGATTTTACAGGTTTGCTTGCCAGTAGCACATTAAAGTGTC
259 -CACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGC-TGCCAGTAGC-CATTAAAGTGTC
* * *
4187 TGAAATGGGGACAC--TTTTCAATTGATCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAAAT
321 TGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATT
* * *
4250 CTTTTGTGCATGCCCAAAAAAATACAAGGATCATGTCTACCACA-TTTGGGGCCAAAACTCCTTC
386 TTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCA-AGTTTGGGGCCAAAACTCCTTC
* *
4314 TGAAAAAA-TTTAAAAAAATC-CCAGACCGTAAAAAGTTTCAAAAATCTTGAAAAATAGAAAACG
450 TGAAAAAATTTTAAAAAAATCTCGA-ACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACG
* *
4377 AGTCATCTTGCCATGAAACTTCACATAAAGGCTTAAGGGACCATTGTATGAA-TTACAAGCCAT-
514 AGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATA
* * *
4440 AAAATGGCATTGGCACGGCAAAAATATGAAGATGTGCCTAAACCCACCTACCACCTTATCGATCC
579 AAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCC
* * * *
4505 ACGGCTTGCGCATCCCGCCTCTCTGGTCGACGTAGT--------GCCCGCCCGTTCGTTTCGTCA
644 ACGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCG
* * * * *
4562 GTTAGCTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCAGATCAGACTGAGGGTTGTTG-TAG
709 GTTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTG-TGACAG
* * *
4626 CAGGATCGGTAGCACACTGAGGGGGACCCGATCGATCCCCGACTTTCGCATCCTGCCCCTCTGGC
773 CAGGATCGGTAGCACGCTGAGGGGGACCCGACCGATCCCCGACTTGCGCATCCTGCCCCTCTGGC
* *
4691 CTGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTAG
838 CGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
* *
4731 GCATGCGGAGCTCATTCCCAGTCTAAGCATACAGAGTTTATTCCCAGTCTAAGATCAGACCAGAT
1 GCATACGGAGTTCATTCCCAGTCTAAG-AT-C-G-G---------A-TC------CAGA-C---T
* * * ** *
4796 CGAGGGTTACAGGTGCACATGCTGGGCTTGGGCATGTGCTGGTGCCACA-TTTTTTTCGCTCGGG
42 -GAGGGTTGCGGGTGCACATGCTGGGCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGCCCGGG
* * * * * * * * * * * *
4860 CCACCATCGCCAGTGTATC-GCTAGAGAACTTGACCGACGGTAATGGGGTTCCGGTGATTGGGTG
106 GCACCATCGTCGGAGCATCTTC-GGAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGG
4924 GGCCGGGGGGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCT
170 GGCCGGGGGGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCT
* * *
4989 ATCCCTCATCAAACCTTGAGAACTCGCACACCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCT
235 ATCCCTCATCAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCT
* *
5054 GCCAGTGGCCATTAAAGTGTCTGAAATGGGGACACTTTTTTCGAATGGTCACAAAATCCTGTACA
300 GCCAGTAGCCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACA
* * *
5119 CTTCAAGTTTTTAGCTGAATTTTTTTGTGCATTCCAACAAAAATACAAGGATAACGTCTACCAAG
365 CTTCAAGTTTTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG
* * * * *
5184 TTTGGGGCCAAAACTTCTTCTGAAGAAATTTGAAAAAAATCCCGAACCGTAAAAAGTTTCGAAAA
430 TTTGGGGCCAAAACTCCTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAA
* *
5249 TCATGAAAAATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATCAAGGCTTAAGGGACCATTA
495 TCATGAAAAATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTG
** ** * *
5314 TATGAATTTTTAAGCCATAAAAATGGCATTGGCACAGTAGAAATATGAAGACGTGCCTAAACCCA
560 TATGAATTTACAAGCCATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCA
* * * * *
5379 CCTACCACCCTATCGGTCCACGGCTTGCGCATCCCGCCTCTCTAGCTGGCATAGTGCCCGCTCGC
625 CCTACCACCCTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGC
* * * * *
5444 CTGCCAGCTCGTTTCGTCGGTTGGCTTAGGCAAACAGAGTTCATTCCTAGTCTAAGATCAAACCA
690 CCGCCCGCTCGTTTCGTCGGTTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCA
* * * * * *
5509 GACTGAGGG-T-T----G-AGG--C---AGCACGTTAAGGGGGAACCAACCGATCCTCGGCTTGC
755 GACTGAGGGTTGTGACAGCAGGATCGGTAGCACGCTGAGGGGGACCCGACCGATCCCCGACTTGC
* *
5562 GCATCCTGCCCCTCTGGCCGGCTGAGCGCCTGCACGCTCATTTCGTGGGTTGACTTAG
820 GCATCCTGCCCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * * * * * * *
5620 GCATACGTAGTTCATTCACAGTCTAAGATCAGA-CCGGACCGAGGGTTACGGGTGCACATGGTAG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACTGAGGGTTGCGGGTGCACATGCTGG
* *
5684 GCTCGGGCATGTGCTGGTGCCGTATTTTTTTTTCACCCGGGGCACCATCGTCGGAGGATC-T---
66 GCTCGGGCATGTGCTGGTGCCGTA-TTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGG
* * * * * * *
5745 ---A--T--CCGGCGGCATTGGGGTTCCGACGATTTGGGGGGCCAGGGGGTATACACACATGATG
130 AGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGGCCGGGGGGTGTGCGCACATGATG
* * *
5803 TACGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATGAAACCTTGAGAACTC
195 TGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTC
* *
5868 ACACCCCCTTCAAGAGCATTTGAGATTTTACAGGTTTGTTGCCAGTAGCCATTAAAGTGTCTGAA
260 ACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAA
* *
5933 ATGGGGTCACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTT
325 ATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATTTTTT
* *
5998 TGTGCATACCAAAAAAAATACAAGGATCACATCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAA
390 TGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAA
** * * * *
6063 AAGCTTTAAAAAAATCTCAAATCGTAAAAAGTTTCAAAAATTATGAAAAATAGAAAACGAGTTGT
455 AAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGAGTCGT
* *
6128 CTTGCCATGAAACTTCAAATGAAGGCTTAAGAGACCATTGTATGAATTTACAAGCCATAAAAATG
520 CTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATG
* *
6193 GCATTGGCACT-GTAGAAATATGAAGATGTGCCTAAACCCACCTATCACCCTATCGATCCACGGC
585 GCATTGGCA-TGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGC
* * ** * * *
6257 TTGCGCATCCCGCCTCTTTGGTCGGCGTAGTTACCGCACGCCCGCCCGTTCGTTTCCTCGGTTGG
649 TTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCGGTTGG
* * * *** *
6322 CTTAGGCATACGGAGTTTATTCCCAGTCTAAGATCAGACCAAAAAAAGGGTTGTGACAGTAGGAT
714 CTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGTGACAGCAGGAT
* * ** * * * *
6387 CGGTAGCATGCAGAGGGGGACCCGACTTAT-CTCGATTTGTGCATCCTGCCCCTCTAGCCGGCTG
779 CGGTAGCACGCTGAGGGGGACCCGACCGATCCCCGACTTGCGCATCCTGCCCCTCTGGCCGGCTG
*
6451 AGCGCCCGCACGCTCGTTTTGTGGGTTGACTTAG
844 AGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * **
6485 GCATACGGAGTTCATTCCCAGTCTAAGATTGGATCCAGACTGAGTGTTGTAGGTGCACATGCTGG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACTGAGGGTTGCGGGTGCACATGCTGG
* * *
6550 GCTCGGGCATCTGCTAGTGCCGTATTGTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGGA
66 GCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGGA
* * * *
6615 GAAACTGACTGACGGCATTGGGGTTTCGGCGATTGGGGGTGGCCGGGGGGTGTGCACACATGATG
131 GAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGG-GGCCGGGGGGTGTGCGCACATGATG
* *
6680 TGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCTTATACCTCATCAAACCTCGAGAACTC
195 TGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTC
6745 ACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAA
260 ACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAA
* * * *
6810 ATGGGGGCACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGCTTTTAGCTGAAATTTTT
325 ATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATTTTTT
* * **
6875 TGTGCATGCCAAAGAAAAAATACAAGGATCACATCTACCAAGTTTAGGGCCAAAAAACCTTCTGA
390 TGTGCATGCC-AA-AAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGA
* *
6940 AAAAATTTTAAAAAAATCTCGAACCGTAAAAGGTTTCAAAAATCGTGAAAAATAGAAAACGAGTC
453 AAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGAGTC
*
7005 GTCTTACCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAA
518 GTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAA
* *
7070 TGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACGCACCTACCACCCTATCGATTCACGG
583 TGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGG
* * ** * * ** *
7135 CTTGCGCATGCCACCTCTCTGGCCAACGTAGTGCTCGCCCACCCGCCCGCTCGTTTTATCGATTG
648 CTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCGGTTG
* * ** **
7200 GCTTAGGCATACAAAGTTCATTCCCAGTCTACGATTGGACCAGACTGAGGGTTGTGGTAGCAGGA
713 GCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGTGACAGCAGGA
* * * *
7265 TTGGCAGCACGCTGAGGGGGACCCGACCGATCCCC-AGGTTGCGCATCCTGCCCCTCTGGCCGAC
778 TCGGTAGCACGCTGAGGGGGACCCGACCGATCCCCGA-CTTGCGCATCCTGCCCCTCTGGCCGGC
7329 TGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
842 TGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
** * *
7365 GCATACGGAGTTCATTCCCAGTCTAAGATCAGG--CCAGACCAATGGTTGTGGGTGCACATGCTG
1 GCATACGGAGTTCATTCCCAGTCTAAGATC-GGATCCAGACTGAGGGTTGCGGGTGCACATGCTG
* ** * * * *
7428 GGCTAGGGCATGTGC---ACCCGTAATTTTTTTTCGCTCGGGGCACCATCGTCAGAGCATCATCT
65 GGCTCGGGCATGTGCTGGTGCCGT-ATTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCG
* * * ** * * *
7490 GAGAGCCTGACCGGCGGCATTGTGGTTCCAACGATTGGGGGGCCCGGGGGGTGTGCCCACATTAT
129 GAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGGCCGGGGGGTGTGCGCACATGAT
* * *
7555 CTGCGATGGGTGCTAGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTGGAGAACT
194 GTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACT
* *
7620 CACACCCCCTTAAAAAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTAA
259 CACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGA
7685 AATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATTTTT
324 AATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATTTTT
* *
7750 TTGTGCATGCC-AAAAAAATACAAGGATCACGTCTACCAAATTTGGGGCCAAAAATCCTTCTG-A
389 TTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAA
* * ** *
7813 AAAATTTTAATAAAATCTCGAACCGTAAAAAGTTTTAAAAATTGTGAAAAATAGAAAACGAGTCC
454 AAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGAGTCG
7878 TCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAAT
519 TCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAAT
* * *
7943 GGCATTGGCATGGAAAAAAATATGAAGATGTGCCTAAA--C-CC-ACC-CCCTATCGATCCACTG
584 GGCATTGGCATGG-CAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGG
* * * * *
8003 CTTACGCATCCCGCCTCTTTGGCCGGCGTAGTGCCCGCCCGTCCGCCCGCTTGTTTCTTCGGTTG
648 CTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCGGTTG
* ** * * *
8068 GCTTAGGCGTATGGAGTTTATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGACAGCAGG-
713 GCTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGTGACAGCAGGA
* * *
8132 -C--T---A-----AGGGGGACCCGACCGATCCTCGACTTGTGCATCCTGCCCCTCTGGCCGACT
778 TCGGTAGCACGCTGAGGGGGACCCGACCGATCCCCGACTTGCGCATCCTGCCCCTCTGGCCGGCT
* *
8186 GAGCTCCTGCACGCTCGTTTCGTGGGTTGACTTAG
843 GAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * *
8221 GTATACGGAGTTCATTCCCAGTCTAAGATCAGAT-CGGACTGAGGGTTGCGGGTGCACATGCTGG
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACTGAGGGTTGCGGGTGCACATGCTGG
* * * * *
8285 GCTCGAGCATGTGTTGGTGCCGTATTTTTTTTCGCTCAGGGG-ATCATCGTCGGAGCATCATCGG
66 GCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGC-CCGGGGCACCATCGTCGGAGCATCTTCGG
* **
8349 AGAACCTGACCGGCGGCATTGGGGTTCCGATGATT------G--GGGGGGTGTGCGCACATGATG
130 AGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGGCCGGGGGGTGTGCGCACATGATG
8406 TGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTC
195 TGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTC
* *
8471 ACACCCCCTTAAAGAGCATTTGAGATTTTATAGGTTTGCTACCAGTAG
260 ACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAG
8519 TTGTCATAAC
Statistics
Matches: 4831, Mismatches: 580, Indels: 309
0.84 0.10 0.05
Matches are distributed among these distances:
850 126 0.03
854 557 0.12
855 2 0.00
856 146 0.03
857 1 0.00
858 63 0.01
859 8 0.00
860 1 0.00
861 4 0.00
863 43 0.01
865 336 0.07
866 66 0.01
867 28 0.01
868 124 0.03
869 5 0.00
870 3 0.00
871 2 0.00
872 139 0.03
873 160 0.03
874 38 0.01
875 278 0.06
876 279 0.06
877 368 0.08
878 48 0.01
879 392 0.08
880 90 0.02
881 2 0.00
882 2 0.00
883 2 0.00
885 1 0.00
886 3 0.00
887 1 0.00
888 30 0.01
889 132 0.03
890 270 0.06
891 142 0.03
892 12 0.00
893 125 0.03
894 4 0.00
895 24 0.00
896 1 0.00
897 1 0.00
898 1 0.00
900 4 0.00
901 69 0.01
902 1 0.00
903 306 0.06
904 358 0.07
905 1 0.00
906 32 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (877 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCCAGACTGAGGGTTGCGGGTGCACATGCTGG
GCTCGGGCATGTGCTGGTGCCGTATTTTTTTTCGCCCGGGGCACCATCGTCGGAGCATCTTCGGA
GAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGGCCGGGGGGTGTGCGCACATGATGT
GCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCA
CACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAA
TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCAAGTTTTTAGCTGAATTTTTTT
GTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAA
AATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACGAGTCGTC
TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGG
CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
GCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCT
TAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGTGACAGCAGGATCG
GTAGCACGCTGAGGGGGACCCGACCGATCCCCGACTTGCGCATCCTGCCCCTCTGGCCGGCTGAG
CGCCCGCACGCTCGTTTCGTGGGTTGACTTAG
Found at i:9129 original size:59 final size:58
Alignment explanation
Indices: 8997--9571 Score: 650
Period size: 59 Copynumber: 9.7 Consensus size: 58
8987 TCTTGCGTAG
*
8997 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAA-TATTCTTTTGAAACTTTA-ATTTAGA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATTATT-TTTTGAAACTTTATTTTTA-A
* *
9055 GGAAGATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATT-ATTTTTTGAAACTTTATTTTTAA
* * * * *
9114 GGCAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTAATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TATTTTTT-GAAACTTT-ATTTTTAA
*
9175 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTGGAAACTTTGATTTTCT-A
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTGAAACTTT-ATTTT-TAA
* *
9233 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAGCTT-TTTTTTCAAA-TTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TTATTTTTTGAAACTTTATTTTTAA
* * *
9291 GGAATATTGATACTTTCAACTTTT-CTCCAAAAA-TATTTTTTTAGAAGCTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATTA-TTTTTT-GAAACTTT-ATTTTTAA
* * * *
9351 GGAAGATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAATTTTATTTTTAG
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TTATTTTTTGAAACTTTATTTTTAA
* ** *
9410 GGAAAATTGATACTTTCAACTTTTCCCCAAATTTTTTTTTTTGGAAACTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTT-GAAACTTTATTTTTAA
*
9469 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTATTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTATTTTTT-GAAACTTTATTTTTAA
* *
9529 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTATTTTTT
9572 ATTTTTATTT
Statistics
Matches: 451, Mismatches: 40, Indels: 51
0.83 0.07 0.09
Matches are distributed among these distances:
55 1 0.00
57 10 0.02
58 118 0.26
59 155 0.34
60 106 0.24
61 60 0.13
63 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTGAAACTTTATTTTTAA
Found at i:9540 original size:178 final size:174
Alignment explanation
Indices: 8997--9569 Score: 753
Period size: 178 Copynumber: 3.2 Consensus size: 174
8987 TCTTGCGTAG
* * *
8997 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTCTTTTGAAACTTTA-ATTTAGAGGAAG
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TT-TTTTGAAATTTTATTTTTAG-GGAAA
** *
9060 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAATTTATTTTTAAGGCAAATTGAT
62 ATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTG-AAATTTATTTTTAAGGAAAATTGAT
9125 ACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTAATTTTCAA
126 ACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAA-TTTAATTTTCAA
* *
9175 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCTA-GGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTGAAA-TTTTATTTT-TAGGGAAAA
** * * *
9239 TTGATACTTTCAACTTTTCCTCAAAAAGCTTTTTTTTCAAATTTTTTTTTAAGGAATATTGATAC
63 TTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTATTTTTAAGGAAAATTGATAC
* * * *
9304 TTTCAACTTTTCTCCAAAAATA-TTTTTTTAGAAGCTTTGATTTTCAA
128 TTTCAACTTTTCCCCAAAAATATTTTTTTTGGAA-ATTTAATTTTCAA
*
9351 GGAAGATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAGGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTTTTTGAAATTTTATTTTTAGGGAAAA
* *
9416 TTGATACTTTCAACTTTTCC-CCAAATTTTTTTTTTTGGAAACTTTATTTTTAAGGAAAATTGAT
63 TTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTT-GAAA-TTTATTTTTAAGGAAAATTGAT
*
9480 ACTTTCAACTTTTCCCCAAAAATATTATTTTTTGGAAATTT-ATTTTTAA
126 ACTTTCAACTTTTCCCCAAAAATATT-TTTTTTGGAAATTTAATTTTCAA
*
9529 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTT
9570 TTATTTTTAT
Statistics
Matches: 348, Mismatches: 33, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
176 74 0.21
177 89 0.26
178 165 0.47
179 9 0.03
180 11 0.03
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTGAAATTTTATTTTTAGGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTTT
CAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTAATTTTCAA
Found at i:9568 original size:119 final size:118
Alignment explanation
Indices: 8997--9570 Score: 734
Period size: 119 Copynumber: 4.8 Consensus size: 118
8987 TCTTGCGTAG
* * * * *
8997 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTCTTTTGAAACTTTA-ATTTAGAGGAAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTA-AGGAAA
* *
9060 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTT-GAAAATTT-ATTTTTAA
65 ATTGATACTTTCAACTTTTCCCCAAAAATT--TTTTTTGGAAACTTTGATTTTTAA
* *
9114 GGCAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTAATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAATTTT-ATTTTTAAGGAA
* *
9179 AATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTGGAAACTTTGATTTTCT-A
64 AATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGGAAACTTTGATTTT-TAA
* ** * *
9233 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAGCTTTTTTTTCAAATTTT-TTTTTAAGGAATA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGGAAAA
* * * *
9297 TTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTAGAAGCTTTGATTTTCAA
66 TTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGGAAACTTTGATTTTTAA
* * *** *
9351 GGAAGATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAGGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGGAAAA
**
9416 TTGATACTTTCAACTTTTCCCCAAATTTTTTTTTTTGGAAACTTT-ATTTTTAA
66 TTGATACTTTCAACTTTTCCCCAAA-AATTTTTTTTGGAAACTTTGATTTTTAA
9469 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTATTTTTTGGAAA-TTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTTT-GAAATTTTATTTTTAAGGAA
9533 AATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTT
64 AATTGATACTTTCAACTTTTCCCCAAAA-ATTTTTTTT
9571 TATTTTTATT
Statistics
Matches: 400, Mismatches: 42, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
116 36 0.09
117 38 0.09
118 126 0.31
119 157 0.39
120 40 0.10
121 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGGAAACTTTGATTTTTAA
Found at i:9593 original size:5 final size:5
Alignment explanation
Indices: 9585--9676 Score: 77
Period size: 5 Copynumber: 18.6 Consensus size: 5
9575 TTTATTTAAG
*
9585 AAAAT AAAAT --AAT AAAAC AAAATT AAAAGT GAAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA-T -AAAAT AAAAT AAAAT
* * *
9630 AAAAT AAAAG AAAGT AAAAC AAAA- ATAAA- AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAA
9677 GGTAAAAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 51 0.71
6 6 0.08
7 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:9619 original size:26 final size:26
Alignment explanation
Indices: 9590--9676 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 26
9580 TTAAGAAAAT
*
9590 AAAATAATA-AAACAAAATTAAAAGTG
1 AAAATAAAATAAACAAAA-TAAAAGTG
*
9616 AAAATAAAATAAATAAAATAAAA--G
1 AAAATAAAATAAACAAAATAAAAGTG
* * *
9640 AAAGTAAAACAAA-AATAA-AAAAAT-
1 AAAATAAAATAAACAA-AATAAAAGTG
9664 AAAATAAAATAAA
1 AAAATAAAATAAA
9677 GGTAAAAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.12
24 25 0.49
26 13 0.25
27 7 0.14
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAATAAAATAAACAAAATAAAAGTG
Found at i:9669 original size:34 final size:36
Alignment explanation
Indices: 9616--9683 Score: 113
Period size: 34 Copynumber: 1.9 Consensus size: 36
9606 ATTAAAAGTG
9616 AAAATAAAATAAATAAAATAAAAGAAA-GTAAAACA
1 AAAATAAAATAAATAAAATAAAAGAAAGGTAAAACA
*
9651 AAAATAAAA-AAATAAAATAAAATAAAGGTAAAA
1 AAAATAAAATAAATAAAATAAAAGAAAGGTAAAA
9684 AGGATACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (36 bp):
AAAATAAAATAAATAAAATAAAAGAAAGGTAAAACA
Found at i:9684 original size:24 final size:21
Alignment explanation
Indices: 9616--9676 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 21
9606 ATTAAAAGTG
9616 AAAATAAAATAAATAAAATAAA
1 AAAATAAAATAAATAAAA-AAA
*
9638 AGAAAGTAAAACAAAAATAAAAAAA
1 A-AAA-T-AAA-ATAAATAAAAAAA
9663 TAAAATAAAATAAA
1 -AAAATAAAATAAA
9677 GGTAAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
22 5 0.16
23 6 0.19
24 2 0.06
25 9 0.28
26 10 0.31
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAATAAAAAAA
Found at i:10637 original size:43 final size:41
Alignment explanation
Indices: 10590--10671 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
10580 AACGAAAAAG
*
10590 AAAAAAAATTA-ATAGATAATTAAAA-ATAAAATAAGATAAATCC
1 AAAAAAAATTACA-AGATAA--AAAATAAAAAATAA-ATAAATCC
*
10633 AAAAAATATTACAAGATAAAAAATAAAAAATAAATAAAT
1 AAAAAAAATTACAAGATAAAAAATAAAAAATAAATAAAT
10672 TATAATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 10 0.29
42 8 0.23
43 16 0.46
44 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (41 bp):
AAAAAAAATTACAAGATAAAAAATAAAAAATAAATAAATCC
Found at i:10669 original size:4 final size:4
Alignment explanation
Indices: 10648--10790 Score: 66
Period size: 4 Copynumber: 35.2 Consensus size: 4
10638 ATATTACAAG
*
10648 ATAA A-AA ATAA A-AA ATAA ATAA ATTATA ATATA AT-A ATAA ATAT ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA ATAA ATAA ATAA
* * *
10696 CTAT ATAA ATAAA ATACA TATAA AT-A TTAA CA-AA ATAA ATAA ATAA
1 ATAA ATAA AT-AA ATA-A -ATAA ATAA ATAA -ATAA ATAA ATAA ATAA
* * * * * *
10742 ATAA AGAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATAA AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA
10790 A
1 A
10791 ATGCCTAAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
3 18 0.17
4 67 0.63
5 14 0.13
6 7 0.07
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:10676 original size:11 final size:12
Alignment explanation
Indices: 10648--10790 Score: 57
Period size: 11 Copynumber: 11.7 Consensus size: 12
10638 ATATTACAAG
*
10648 ATAAAAAATA-A
1 ATAATAAATATA
*
10659 AAAATAAATA-A
1 ATAATAAATATA
*
10670 ATTAT-AATATA
1 ATAATAAATATA
10681 ATAATAAATATATA
1 ATAAT-AA-ATATA
*
10695 ACTATATAAATAAA
1 A-TA-ATAAATATA
10709 ATACATATAA-ATA
1 ATA-ATA-AATATA
* *
10722 TTAACAAA-ATAA
1 ATAATAAATAT-A
10734 ATAAATAAATA-A
1 AT-AATAAATATA
* *
10746 AGATATACATATA
1 ATA-ATAAATATA
* *
10759 TTAATACATAGTA
1 ATAATAAATA-TA
10772 ATAATAAATA-A
1 ATAATAAATATA
10783 ATAATAAA
1 ATAATAAA
10791 ATGCCTAAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
10 4 0.04
11 31 0.31
12 19 0.19
13 27 0.27
14 14 0.14
15 4 0.04
16 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:10722 original size:21 final size:19
Alignment explanation
Indices: 10698--10740 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
10688 ATATATAACT
*
10698 ATATAAATAAAATACATATAA
1 ATATAAACAAAATA-A-ATAA
*
10719 ATATTAACAAAATAAATAA
1 ATATAAACAAAATAAATAA
10738 ATA
1 ATA
10741 AATAAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 12 0.60
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
ATATAAACAAAATAAATAA
Found at i:10742 original size:38 final size:36
Alignment explanation
Indices: 10648--10786 Score: 104
Period size: 38 Copynumber: 3.6 Consensus size: 36
10638 ATATTACAAG
10648 ATAAAAAATAAA-AAATAAATAAATTATAATATAATA
1 ATAAAAAATAAATAAATAAATAAA-TATAATATAATA
* * *
10684 ATAAATATATAACTATATAAATAAA-ATACATATAAATA
1 ATAAA-AAATAAATAAATAAATAAATATA-ATAT-AATA
* *
10722 TTAACAAAATAAATAAATAAATAAAGATATACATATATTA
1 ATAA-AAAATAAATAAATAAAT-AA-ATATA-ATATAATA
*
10762 ATACATAGTAAT-AATAAATAAATAA
1 ATA-A-A-AAATAAATAAATAAATAA
10787 TAAAATGCCT
Statistics
Matches: 82, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
36 8 0.10
37 9 0.11
38 30 0.37
39 3 0.04
40 8 0.10
41 21 0.26
42 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (36 bp):
ATAAAAAATAAATAAATAAATAAATATAATATAATA
Found at i:10815 original size:15 final size:16
Alignment explanation
Indices: 10797--10834 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10787 TAAAATGCCT
10797 AAAATAAAAAAAATA-
1 AAAATAAAAAAAATAC
*
10812 AAAATAAAAATAATAC
1 AAAATAAAAAAAATAC
10828 AAAATAA
1 AAAATAA
10835 GAACCGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAAAATAC
Found at i:11002 original size:9 final size:9
Alignment explanation
Indices: 10990--11038 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
10980 AACATTTTCA
10990 TTTTTTTGT
1 TTTTTTTGT
*
10999 TTTTTGTGT
1 TTTTTTTGT
11008 TTTTTTTGT
1 TTTTTTTGT
11017 TTTTTTT-T
1 TTTTTTTGT
11025 TTGTTTTTGT
1 TT-TTTTTGT
11035 TTTT
1 TTTT
11039 GACCAAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 3 0.08
9 30 0.83
10 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:11014 original size:11 final size:11
Alignment explanation
Indices: 10998--11032 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10988 CATTTTTTTG
10998 TTTTTTGTGTT
1 TTTTTTGTGTT
11009 TTTTTTGT-TT
1 TTTTTTGTGTT
*
11019 TTTTTTTTGTT
1 TTTTTTGTGTT
11030 TTT
1 TTT
11033 GTTTTTGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTTTTTGTGTT
Found at i:11037 original size:11 final size:10
Alignment explanation
Indices: 10990--11037 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
10980 AACATTTTCA
10990 TTTTTTTG-T
1 TTTTTTTGTT
*
10999 TTTTTGTGTT
1 TTTTTTTGTT
*
11009 TTTTTTGTTTT
1 TTTTTT-TGTT
11020 TTTTTTTGTT
1 TTTTTTTGTT
11030 TTTGTTTT
1 TTT-TTTT
11038 TGACCAAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 7 0.22
10 12 0.38
11 13 0.41
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:11140 original size:41 final size:42
Alignment explanation
Indices: 11046--11174 Score: 183
Period size: 41 Copynumber: 3.1 Consensus size: 42
11036 TTTGACCAAA
* *
11046 GCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCATGACTTTG-GAAA-AGTAAATT
*
11089 GCTCCTCTAAATAGAGGCACCATGAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATT
*
11130 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATT
11171 GCTC
1 GCTC
11175 ACCACGACTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
40 1 0.01
41 48 0.61
42 7 0.09
43 23 0.29
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATT
Found at i:11177 original size:27 final size:27
Alignment explanation
Indices: 11147--11201 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11137 TAAACAGAGG
11147 CACCACGACTTTGGAAAGTAAATTGCT
1 CACCACGACTTTGGAAAGTAAATTGCT
*
11174 CACCACGACTTTGGAAATTAAATTGCT
1 CACCACGACTTTGGAAAGTAAATTGCT
11201 C
1 C
11202 CTCTAAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (27 bp):
CACCACGACTTTGGAAAGTAAATTGCT
Found at i:11206 original size:68 final size:69
Alignment explanation
Indices: 11106--11243 Score: 226
Period size: 68 Copynumber: 2.0 Consensus size: 69
11096 TAAATAGAGG
* *
11106 CACCATGACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAAT
1 CACCACGACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAAT
11170 TGCT
66 TGCT
*
11174 CACCACGACTTTGG-AAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAA
1 CACCACGAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAA
11238 TTGCT
65 TTGCT
11243 C
1 C
11244 CTCTAAACAG
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 43 0.66
69 22 0.34
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (69 bp):
CACCACGACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAAT
TGCT
Found at i:11238 original size:42 final size:41
Alignment explanation
Indices: 11174--11412 Score: 399
Period size: 42 Copynumber: 5.8 Consensus size: 41
11164 GTAAATTGCT
*
11174 CACCACGACTTTGGAAATTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG
11215 CACCACGACTTTTGGAAAATAAATTGCTCCTCTAAACAGAGG
1 CACCACGAC-TTTGGAAAATAAATTGCTCCTCTAAACAGAGG
11257 CACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGG
*
11298 CACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG
*
11339 CACCACGACTTTTGGAAAATAAATTACTCCTCTAAACAGAGG
1 CACCACGAC-TTTGGAAAATAAATTGCTCCTCTAAACAGAGG
*
11381 CACCACGACTTTTGGAAAGTAAATTGCTCCTC
1 CACCACGAC-TTTGGAAAATAAATTGCTCCTC
11413 GACAAACATG
Statistics
Matches: 188, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
40 5 0.03
41 79 0.42
42 104 0.55
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
CACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG
Found at i:11291 original size:41 final size:42
Alignment explanation
Indices: 11174--11412 Score: 380
Period size: 41 Copynumber: 5.8 Consensus size: 42
11164 GTAAATTGCT
* *
11174 CACCACGAC-TTTGGAAATTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
11215 CACCACGACTTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
11257 CACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
*
11298 CACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGG
1 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
*
11339 CACCACGACTTTTGGAAAA-TAAATTACTCCTCTAAACAGAGG
1 CACCACGACTTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
*
11381 CACCACGACTTTTGGAAAGTAAATTGCTCCTC
1 CACCACGACTTTTGAAAAGTAAATTGCTCCTC
11413 GACAAACATG
Statistics
Matches: 186, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.03
41 88 0.47
42 85 0.46
43 8 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
Found at i:11440 original size:124 final size:124
Alignment explanation
Indices: 11178--11412 Score: 389
Period size: 124 Copynumber: 1.9 Consensus size: 124
11168 ATTGCTCACC
* * *
11178 ACGACTTTGGAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAATTGCT
1 ACGACGTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAATTACT
* * *
11243 CCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
66 CCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCCAAACAGAGCCACA
*
11302 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAATTACT
1 ACGACGTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAATTACT
*
11367 CCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCTC
66 CCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTC
11413 GACAAACATG
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
124 86 0.80
125 21 0.20
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (124 bp):
ACGACGTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAATAAATTACT
CCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCCAAACAGAGCCACA
Found at i:19987 original size:34 final size:34
Alignment explanation
Indices: 19949--20025 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
19939 ATATCCTTGT
19949 CCATTACAGACTAGTAAGGCACCCTAATCCTCAC
1 CCATTACAGACTAGTAAGGCACCCTAATCCTCAC
*
19983 CCATTATAGACTAGTAAGGCACCCTAATCCTCAC
1 CCATTACAGACTAGTAAGGCACCCTAATCCTCAC
20017 CCATTACAG
1 CCATTACAG
20026 GCTACAAGCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.22
Consensus pattern (34 bp):
CCATTACAGACTAGTAAGGCACCCTAATCCTCAC
Found at i:20907 original size:59 final size:58
Alignment explanation
Indices: 20830--21295 Score: 524
Period size: 59 Copynumber: 7.7 Consensus size: 58
20820 ATATTCTTTT
* * *
20830 GGAAGATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTTGAAACTTTATTTTTAA
* * *
20889 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-----TTTTTTTTT-GAAACTTT-ATTTTTAA
* * * *
20954 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAACTTT-ATTTTTAA
* * *
21012 GGAAAATTGATTCTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTTTGAAACTTTATTTTTAA
* *
21071 GGAAAATTGGTACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TTTTTTTTGAAACTTT-ATTTTTAA
* ** *
21131 GGAAGATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTTTGAAACTTTATTTTTAA
* *
21190 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGGAAACTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-A-TTTTTTTTT-GAAACTTTATTTTTAA
*
21252 GGAAAATTGATGCTTTCAACTTTT-CTCCAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAAT-T-TTTTTTT
21296 ATTTAAAGAA
Statistics
Matches: 352, Mismatches: 35, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
58 48 0.14
59 121 0.34
60 69 0.20
61 21 0.06
62 38 0.11
63 6 0.02
64 9 0.03
65 40 0.11
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAACTTTATTTTTAA
Found at i:21149 original size:119 final size:118
Alignment explanation
Indices: 20830--21284 Score: 603
Period size: 119 Copynumber: 3.8 Consensus size: 118
20820 ATATTCTTTT
* * * * *
20830 GGAAGATTGATACTTTCAACTTTTCCTCAAAAAT-TGATTTTTTGAAAATTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAACTTTATTTTCAAGGAAA
* ** *
20894 ATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTTTTTTGGAAATTTTGATTTTCAA
65 ATTGATACTTTCAACTTTTCCTCAAAAA----CCTTTTTTTT-GAAATTTT-ATTTTTAA
*
20954 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTGGAAACTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTT-ATTTTCAAGGAAA
*
21017 ATTGATTCTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAA
65 ATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAA
* * *
21071 GGAAAATTGGTACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAACTTTGATTTTCAAGGAAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTT-ATTTTCAAGGAAA
*
21136 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAA
65 ATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAA
* *
21190 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGGAAACTTTATTTTTAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTT-GAAACTTTATTTTCAAGGA
*
21255 AAATTGATGCTTTCAACTTTT-CTCCAAAAA
63 AAATTGATACTTTCAACTTTTCCT-CAAAAA
21285 TATATTTTTT
Statistics
Matches: 301, Mismatches: 22, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
117 40 0.13
118 8 0.03
119 118 0.39
120 2 0.01
121 43 0.14
122 20 0.07
123 38 0.13
124 32 0.11
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAA
Found at i:21314 original size:5 final size:5
Alignment explanation
Indices: 21304--21411 Score: 90
Period size: 5 Copynumber: 22.6 Consensus size: 5
21294 TTATTTAAAG
*
21304 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T --AAAAT AAAAT AAAAT
* *
21349 AAAAT AAAGA- AAAGT AAAA- CAAA- AAAA- AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
21396 -AAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA
21412 GGTAAAAAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 22
0.75 0.05 0.19
Matches are distributed among these distances:
3 3 0.03
4 20 0.23
5 56 0.65
6 2 0.02
7 1 0.01
8 4 0.05
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:21399 original size:32 final size:31
Alignment explanation
Indices: 21299--21407 Score: 112
Period size: 32 Copynumber: 3.4 Consensus size: 31
21289 TTTTTTTATT
* * *
21299 TAAAGAAAATAAAATAATAAAACAAAATAAAA
1 TAAA-AAAAAAAAAAAATAAAATAAAATAAAA
* * *
21331 GTGAAAAATAAAAAAAATAAAATAAAGA-AAAG
1 -TAAAAAAAAAAAAAAATAAAATAAA-ATAAAA
21363 TAAAACAAAAAAAAAAATAAAATAAAATAAAA
1 TAAAA-AAAAAAAAAAATAAAATAAAATAAAA
*
21395 TAAAAAAATAAAA
1 TAAAAAAAAAAAA
21408 TAAAGGTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
31 12 0.19
32 47 0.75
33 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (31 bp):
TAAAAAAAAAAAAAAATAAAATAAAATAAAA
Found at i:21400 original size:23 final size:22
Alignment explanation
Indices: 21299--21411 Score: 104
Period size: 23 Copynumber: 4.8 Consensus size: 22
21289 TTTTTTTATT
21299 TAAAGAAAATAAAATAATAAAACAA
1 TAAA-AAAATAAAATAA-AAAA-AA
*
21324 -AATAAAAGTGAAAAATAAAAAAAA
1 TAA-AAAAAT--AAAATAAAAAAAA
*
21348 TAAAATAAAGAAAAGTAAAACAAAA
1 TAAAA-AAATAAAA-TAAAA-AAAA
21373 -AAAAAAATAAAATAAAATAAAA
1 TAAAAAAATAAAATAAAA-AAAA
21395 TAAAAAAATAAAATAAA
1 TAAAAAAATAAAATAAA
21412 GGTAAAAAGG
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
22 9 0.12
23 27 0.36
24 19 0.25
25 13 0.17
26 7 0.09
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (22 bp):
TAAAAAAATAAAATAAAAAAAA
Found at i:21419 original size:18 final size:18
Alignment explanation
Indices: 21304--21411 Score: 103
Period size: 18 Copynumber: 5.7 Consensus size: 18
21294 TTATTTAAAG
* *
21304 AAAATAAAATAATAAAAC
1 AAAATAAAATAAAAAAAT
*
21322 AAAATAAAAGTGAAAAATAAAA
1 AAAATAAAA-T--AAAA-AAAT
21344 AAAATAAAATAAAGAAAAGT
1 AAAATAAAATAAA-AAAA-T
*
21364 AAAACAAAA-AAAAAAAT
1 AAAATAAAATAAAAAAAT
21381 AAAATAAAATAAAATAAA-
1 AAAATAAAATAAAA-AAAT
21399 AAAATAAAATAAA
1 AAAATAAAATAAA
21412 GGTAAAAAGG
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
17 9 0.12
18 30 0.39
19 13 0.17
20 9 0.12
21 4 0.05
22 12 0.16
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAAAAAAT
Found at i:21449 original size:4 final size:4
Alignment explanation
Indices: 21442--21484 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
21432 AACCTAATCT
*
21442 AATA AAT- AATA AATA AATA AATA AA-A AACA AAT- AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
21485 AAAAACCTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
3 9 0.26
4 26 0.74
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:21458 original size:11 final size:11
Alignment explanation
Indices: 21441--21484 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
21431 AAACCTAATC
21441 TAATAAAT-AA
1 TAATAAATAAA
21451 TAAATAAATAAA
1 T-AATAAATAAA
* *
21463 TAAAAAACAAA
1 TAATAAATAAA
21474 TAATAAATAAA
1 TAATAAATAAA
21485 AAAAACCTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.04
11 24 0.86
12 3 0.11
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:21460 original size:15 final size:15
Alignment explanation
Indices: 21442--21480 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
21432 AACCTAATCT
* *
21442 AATAAATAATAAATA
1 AATAAATAAAAAACA
21457 AATAAATAAAAAACA
1 AATAAATAAAAAACA
21472 AAT-AATAAA
1 AATAAATAAA
21481 TAAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAATAAAAAACA
Found at i:22355 original size:23 final size:26
Alignment explanation
Indices: 22311--22358 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
22301 CCCTAAAAAA
22311 GAAAAAAAAATTAATAATCAGATAAAC
1 GAAAAAAAAA-TAATAATCAGATAAAC
22338 GAAAAAAAAA-AAT-A-CAGATAA
1 GAAAAAAAAATAATAATCAGATAA
22359 GTTAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 3 0.14
27 10 0.48
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (26 bp):
GAAAAAAAAATAATAATCAGATAAAC
Found at i:22417 original size:25 final size:25
Alignment explanation
Indices: 22396--22444 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
22386 AAAAAATATT
22396 ACAAAA-TAAAAAAATAATAAATAA
1 ACAAAATTAAAAAAATAATAAATAA
* *
22420 ACAAAATTAAAATAAT-ATAAGTAA
1 ACAAAATTAAAAAAATAATAAATAA
22444 A
1 A
22445 ATAATTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (25 bp):
ACAAAATTAAAAAAATAATAAATAA
Found at i:22424 original size:24 final size:24
Alignment explanation
Indices: 22396--22467 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
22386 AAAAAATATT
22396 ACAAAA-TAAAAAAATAATAAATAA
1 ACAAAATTAAAAAAAT-ATAAATAA
* *
22420 ACAAAATTAAAATAATATAAGTAA
1 ACAAAATTAAAAAAATATAAATAA
* * **
22444 A-ATAATTATACTAATATAAATAA
1 ACAAAATTAAAAAAATATAAATAA
22467 A
1 A
22468 AATACCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.46
24 14 0.34
25 8 0.20
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (24 bp):
ACAAAATTAAAAAAATATAAATAA
Done.