Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 78 of 210
Found at i:23372022 original size:105 final size:104
Alignment explanation
Indices: 23371829--23372367 Score: 413
Period size: 105 Copynumber: 5.1 Consensus size: 104
23371819 CAATGTTTCT
* * * * * * * * *
23371829 CCTGATATTTTCACGTATAACATATTGATTGATGCACATTGCAAGGAGGGGACAATTTCGGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * ** * ** **
23371894 TGTAAATATCTTTAATGCGATGAGAAAGCAAGGTGTCAAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* ** * *
23371934 CCTGATGTTGTCACCTATAATATAGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAATC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGAT-ATTTCTGAAGC
* * *
23371999 TTTGGATATGGTTCACACAATGAGAAAGCAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * * * * **
23372039 CCTGATGTTGTCACGTATAGTACATTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * * *
23372104 CGAAGATATTGTTGACACAATGAGAAAGGAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * *
23372144 CCTGATGTTGTGACGTATAATATATTGGTTGATGCGTATTGCAAGGAGAGGAGTATTTCTAAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * ** *
23372209 TGTAGATACCATTGC-CACAATGAGAAAGCAAGGTGTGGAG
65 TGTAGATATCGTT-CACACAATGAGAAAGCAAGGCATTGAG
* ** * *
23372249 CCTGATGTTGTCACCTATAACATATTTATTGATGCACT-TTGCAAGAATG-GGATGGTTTCTGAA
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCA-TATTGCAAGGA-GAGGAT-ATTTCTGAA
* * * *
23372312 GCTGAATG-TATTG-TCGACACAATGAGAAAACAATGCATTGAG
63 GCTGTA-GATATCGTTC-ACACAATGAGAAAGCAAGGCATTGAG
* *
23372354 CCTAATTTTGTCAC
1 CCTGATGTTGTCAC
23372368 ATACAGAACT
Statistics
Matches: 338, Mismatches: 87, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
103 1 0.00
104 2 0.01
105 332 0.98
106 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (104 bp):
CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGATATTTCTGAAGCT
GTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
Found at i:23372230 original size:210 final size:210
Alignment explanation
Indices: 23371932--23372367 Score: 520
Period size: 210 Copynumber: 2.1 Consensus size: 210
23371922 CAAGGTGTCA
* *
23371932 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAA
1 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAA
* * * *** * * **
23371997 TCTTTGGATATGGTTCACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACGTATAGTAC
66 GCTGTAGATACCATTCACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAACAC
* *
23372062 A-TTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAGCCGAA-GATATTGTTGACACAAT
131 ATTTA-TTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATG-TATTGTCGACACAAT
**
23372125 GAGAAAGGAAGGCATTG
194 GAGAAAACAAGGCATTG
* * * * * *
23372142 AGCCTGATGTTGTGACGTATAATATATTGGTTGATGCGTATTGCAAGGAGAGGAGT-ATTTCTAA
1 AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGG-CTAATTTCTAA
**
23372206 AGCTGTAGATACCATTGC-CACAATGAGAAAGCAAGGTGTGGAGCCTGATGTTGTCACCTATAAC
65 AGCTGTAGATACCATT-CACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAAC
* * * * *
23372270 ATATTTATTGATGCACTTTGCAAGAATGGGATGGTTTCTGAAGCTGAATGTATTGTCGACACAAT
129 ACATTTATTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATGTATTGTCGACACAAT
*
23372335 GAGAAAACAATGCATTG
194 GAGAAAACAAGGCATTG
* *
23372352 AGCCTAATTTTGTCAC
1 AGCCTGATGTTGTCAC
23372368 ATACAGAACT
Statistics
Matches: 189, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
210 183 0.97
211 6 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (210 bp):
AGCCTGATGTTGTCACCTATAATATAGTGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAA
GCTGTAGATACCATTCACACAATGAGAAAGCAAGGCATGGAGCCTGATGTTGTCACCTATAACAC
ATTTATTGATGCACATTGCAAGAAGGGGAGGGTTTCTGAAGCCGAATGTATTGTCGACACAATGA
GAAAACAAGGCATTG
Found at i:23373312 original size:22 final size:21
Alignment explanation
Indices: 23373270--23373313 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
23373260 ATCCTCAACA
23373270 CTTCATTGCAAAAGCTCGAAG
1 CTTCATTGCAAAAGCTCGAAG
23373291 CTTCACTTGCTAAAAGCT-GAAG
1 CTTCA-TTGC-AAAAGCTCGAAG
23373313 C
1 C
23373314 AATCGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (21 bp):
CTTCATTGCAAAAGCTCGAAG
Found at i:23375433 original size:33 final size:32
Alignment explanation
Indices: 23375381--23375549 Score: 142
Period size: 33 Copynumber: 5.2 Consensus size: 32
23375371 GTCCATACAG
* *
23375381 AACCTGCACGACCAAATGCTAATCCATAAGACC
1 AACCTGCAC-AGCAAATGCTAATCCATAAGGCC
23375414 AACCTGCACAGCAACATGCTAATCCAT-AGGCTC
1 AACCTGCACAGCAA-ATGCTAATCCATAAGGC-C
* * * *
23375447 AAACTGCACGGCCAAATGCTAATCCACACGGCC
1 AACCTGCACAG-CAAATGCTAATCCATAAGGCC
* * * * * *
23375480 AAACTGCTCAGCCAGTGCTAATGCATATGGCC
1 AACCTGCACAGCAAATGCTAATCCATAAGGCC
* * * *
23375512 AACCTGTACAGCTAAGTGCTAATCCATATGCCC
1 AACCTGCACAGC-AAATGCTAATCCATAAGGCC
23375545 AACCT
1 AACCT
23375550 ACATAGTCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
32 32 0.29
33 74 0.66
34 6 0.05
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (32 bp):
AACCTGCACAGCAAATGCTAATCCATAAGGCC
Found at i:23377236 original size:3 final size:3
Alignment explanation
Indices: 23377228--23377261 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23377218 ATATAAAATA
23377228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23377262 TTGAAAGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23379250 original size:17 final size:18
Alignment explanation
Indices: 23379214--23379251 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23379204 TTATTGCTCG
*
23379214 TGTATTTTATTGCTTATT
1 TGTATTTTATTGATTATT
*
23379232 TGTA-TTTATTGATTCTT
1 TGTATTTTATTGATTATT
23379249 TGT
1 TGT
23379252 CGCTCATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (18 bp):
TGTATTTTATTGATTATT
Found at i:23384894 original size:105 final size:105
Alignment explanation
Indices: 23384741--23385060 Score: 433
Period size: 105 Copynumber: 3.0 Consensus size: 105
23384731 ATATTTTCAT
* * * * ** * **
23384741 GTATAATATGTTGATTGATGCACATTGCAAGGAGGGGACAATTTCTGAAGCTGTAGATACCATTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
23384806 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * * *
23384846 GTATAGTATATTGGTTGATGCACATTGTAAGGAAGGGATGATTCCTGAAGCTAAAGATATTTTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* * *
23384911 AGACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * * *
23384951 GTATAGTATATTGGTCGATGCACTTTGTAAGGAGGGGATGGTTTCTGAAGCTGAAGATATTGTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* *
23385016 ACACAATGAGAAATCAAGGCATTGAGCCTGATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
*
23385056 CTATA
1 GTATA
23385061 ATGCATTGAT
Statistics
Matches: 186, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 186 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (105 bp):
GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
Found at i:23388660 original size:16 final size:17
Alignment explanation
Indices: 23388639--23388676 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23388629 ATTAAAATTT
23388639 TAAAAA-TAATATAAAA
1 TAAAAATTAATATAAAA
* *
23388655 TAAAAATTAATTTTAAA
1 TAAAAATTAATATAAAA
23388672 TAAAA
1 TAAAA
23388677 TTTATTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATTAATATAAAA
Found at i:23391145 original size:25 final size:25
Alignment explanation
Indices: 23391111--23391161 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
23391101 AGAAGAAAGA
23391111 TATAAAACGGCATTTACTGTACCAT
1 TATAAAACGGCATTTACTGTACCAT
23391136 TATAAAACGGCATTTACTGTACCAT
1 TATAAAACGGCATTTACTGTACCAT
23391161 T
1 T
23391162 TGGACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (25 bp):
TATAAAACGGCATTTACTGTACCAT
Found at i:23393868 original size:18 final size:19
Alignment explanation
Indices: 23393819--23393870 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
23393809 TCGTTTCTTT
23393819 AAAGTTTTAAAGTTTCTCC
1 AAAGTTTTAAAGTTTCTCC
23393838 AAAGTTTTAAAGTTTCTCC
1 AAAGTTTTAAAGTTTCTCC
*
23393857 AAA-TTTTTAAGTTT
1 AAAGTTTTAAAGTTT
23393871 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (19 bp):
AAAGTTTTAAAGTTTCTCC
Found at i:23394597 original size:13 final size:13
Alignment explanation
Indices: 23394545--23394597 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
23394535 AGTTCTTCAT
23394545 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
23394558 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
23394571 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
23394584 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
23394597 T
1 T
23394598 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:23395667 original size:9 final size:9
Alignment explanation
Indices: 23395653--23395692 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
23395643 GTTAAACGAA
23395653 TCGAGTTAT
1 TCGAGTTAT
23395662 TCGAGTTAT
1 TCGAGTTAT
*
23395671 TCGAGTTAA
1 TCGAGTTAT
23395680 TCGAGTTAT
1 TCGAGTTAT
23395689 TCGA
1 TCGA
23395693 ATCAACTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23395762 original size:9 final size:9
Alignment explanation
Indices: 23395745--23395781 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23395735 TGAGTTTTCG
23395745 AATTCGAAT
1 AATTCGAAT
*
23395754 AACTCGAAT
1 AATTCGAAT
*
23395763 AATTCGAAA
1 AATTCGAAT
23395772 AATTCGAAT
1 AATTCGAAT
23395781 A
1 A
23395782 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23405742 original size:21 final size:21
Alignment explanation
Indices: 23405709--23405748 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
23405699 GATTCCTAAG
23405709 ATAAACATAAAAGT-AGAGCA
1 ATAAACATAAAAGTGAGAGCA
*
23405729 ATAAATATCAAAAGTGAGAG
1 ATAAACAT-AAAAGTGAGAG
23405749 ATCACTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
ATAAACATAAAAGTGAGAGCA
Found at i:23407612 original size:49 final size:49
Alignment explanation
Indices: 23407480--23407621 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
23407470 GCATTGCAAT
* * **
23407480 TCAGGCTCCCAGTTCATGGTGGTTATACAGTCACAAGTTGAAGTATAAC
1 TCAGGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
* *
23407529 T-AGGGCTCCAAGTTGACGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
1 TCA-GGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
* * *
23407578 TCAGGCCCCCAGTTGATAGTGGTTATGC-GATCACGGGTTCAAGT
1 TCAGGCTCCCAGTTGATGGTGGTTATGCAG-TCACGGGTTGAAGT
23407622 TTCATGATAC
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
48 2 0.03
49 76 0.96
50 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (49 bp):
TCAGGCTCCCAGTTGATGGTGGTTATGCAGTCACGGGTTGAAGTATAAC
Found at i:23408873 original size:20 final size:18
Alignment explanation
Indices: 23408823--23408874 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
23408813 CTAAAAGAAA
23408823 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
23408840 AATATTAAGA-TAATTACTTT
1 AATATTAA-ATTAA-TA-TTT
23408860 AATATTAAATTAATA
1 AATATTAAATTAATA
23408875 CAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 4 0.13
20 14 0.47
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:23415871 original size:49 final size:49
Alignment explanation
Indices: 23415742--23415874 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 49
23415732 ATGTAACGCG
* * * * *
23415742 AACCCGTGACTACATAACCACCGCCAATTGGGGGCTCGAGTTATACTTC
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
*** * * *
23415791 AACCCATGACTGCATAACTGTCGTCAGTTGGGAGCTCTAATTATACTTG
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
* * * *
23415840 AACCTATGATTGTATAACCACCGTAAATTGGGAGC
1 AACCCATGACTGCATAACCACCGTCAATTGGGAGC
23415875 CCAAGTTGCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
AACCCATGACTGCATAACCACCGTCAATTGGGAGCTCGAATTATACTTC
Found at i:23416351 original size:43 final size:43
Alignment explanation
Indices: 23416304--23416481 Score: 241
Period size: 43 Copynumber: 4.1 Consensus size: 43
23416294 AAGAAACGTT
* *
23416304 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
* *
23416347 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAAAAAATGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
* *
23416390 GCTAAAGAACATGACCTTTAGCGGTGCTTTACCAACAAACGCT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
** * * *
23416433 GCTAAAGAACATGATTTTTAGCGGTGCTTTTATC-ACAAACGTC
1 GCTAAAGAACATGACCTTTAGCGGCGC-TTTACCAACAAACGCC
23416476 GCTAAA
1 GCTAAA
23416482 AGTACGGTTC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 116 0.96
44 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTACCAACAAACGCC
Found at i:23416495 original size:86 final size:86
Alignment explanation
Indices: 23416304--23416505 Score: 230
Period size: 86 Copynumber: 2.4 Consensus size: 86
23416294 AAGAAACGTT
* *
23416304 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACCTTTAGC
1 GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
*
23416369 GGCGCTTTACCAAAAAATGCC
66 GGCGCTTTACCAAAAAACGCC
* * * * **
23416390 GCTAAAGAACATGACCTTTAGCGGTGCTTTACCAACAAACGCTGCTAAAGAACATGATTTTTAGC
1 GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
* * * *
23416455 GGTGCTTTTATC-ACAAACGTC
66 GGCGC-TTTACCAAAAAACGCC
* *
23416476 GCTAAAAGTAC-GGTTCTTTAGCGGCG-TTTA
1 GCT-AAAGAACAGGATCTTTAGCGGCGCTTTA
23416506 TGGAAAAACG
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
85 4 0.04
86 83 0.85
87 11 0.11
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (86 bp):
GCTAAAGAACAGGATCTTTAGCGGCGCTTTACCAACAAACGCCGCTAAAGAACATGACCTTTAGC
GGCGCTTTACCAAAAAACGCC
Found at i:23421060 original size:7 final size:7
Alignment explanation
Indices: 23421050--23421194 Score: 52
Period size: 7 Copynumber: 20.9 Consensus size: 7
23421040 TAACCCTTTC
23421050 CCCTAAA
1 CCCTAAA
23421057 CCCTAAA
1 CCCTAAA
*
23421064 -CCTTAA
1 CCCTAAA
* *
23421070 CTC-AAC
1 CCCTAAA
*
23421076 CCCTGAAT
1 CCCT-AAA
23421084 CCCTAAA
1 CCCTAAA
*
23421091 TCCTAAA
1 CCCTAAA
* *
23421098 CCTTTAA
1 CCCTAAA
*
23421105 CCTCTAAC
1 CC-CTAAA
*
23421113 CCCTAAC
1 CCCTAAA
23421120 CCCT-AA
1 CCCTAAA
23421126 CCCTTAAA
1 CCC-TAAA
*
23421134 CCTTAAA
1 CCCTAAA
23421141 TCCC--AA
1 -CCCTAAA
**
23421147 CCCTAGC
1 CCCTAAA
23421154 CCCTAAA
1 CCCTAAA
*
23421161 CCTTAAA
1 CCCTAAA
23421168 TCCC--AA
1 -CCCTAAA
23421174 CCCTTAAA
1 CCC-TAAA
* *
23421182 CCATAAT
1 CCCTAAA
23421189 CCCTAA
1 CCCTAA
23421195 TCCATACTCC
Statistics
Matches: 99, Mismatches: 26, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
5 6 0.06
6 16 0.16
7 55 0.56
8 22 0.22
ACGTcount: A:0.35, C:0.41, G:0.01, T:0.22
Consensus pattern (7 bp):
CCCTAAA
Found at i:23421148 original size:21 final size:21
Alignment explanation
Indices: 23421124--23421191 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 21
23421114 CCTAACCCCT
23421124 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCTTAAATCCC
23421145 AACCCTAGCCCCTAAACCTTAAATCCC
1 AACCCT------TAAACCTTAAATCCC
*
23421172 AACCCTTAAACCAT-AATCCC
1 AACCCTTAAACCTTAAATCCC
23421192 TAATCCATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
20 6 0.15
21 13 0.32
27 21 0.52
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTTAAACCTTAAATCCC
Found at i:23421160 original size:27 final size:27
Alignment explanation
Indices: 23421120--23421177 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
23421110 AACCCCTAAC
*
23421120 CCCTAACCCTTAAACCTTAAATCCCAA
1 CCCTAACCCCTAAACCTTAAATCCCAA
*
23421147 CCCTAGCCCCTAAACCTTAAATCCCAA
1 CCCTAACCCCTAAACCTTAAATCCCAA
23421174 CCCT
1 CCCT
23421178 TAAACCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.45, G:0.02, T:0.21
Consensus pattern (27 bp):
CCCTAACCCCTAAACCTTAAATCCCAA
Found at i:23421652 original size:41 final size:41
Alignment explanation
Indices: 23421594--23421788 Score: 248
Period size: 41 Copynumber: 4.8 Consensus size: 41
23421584 AAATGTTTTT
*
23421594 GCGGCGCTTTTCTAAAAACGCCGCTAAAGCCCCAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * **
23421635 GCGGCACTTTTCCAAAAACACCGCTAAAGCCCCGGGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTA
* * *
23421676 GCGGCACTTTTCCACAAACGCCGCTAAAG-CCCAGAGAATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCA-AGCATTA
* * * *
23421717 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTA
* *
23421758 GCGGCGCTTTTTCAAAAACACCGCTAAAGCC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
23421789 AAGAAAGGTC
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 126 0.95
42 3 0.02
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAAGCATTA
Found at i:23423190 original size:29 final size:29
Alignment explanation
Indices: 23423156--23423232 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
23423146 TCTTTAAAAT
*
23423156 CAAGAGTCTGGCATTGACTATCCACCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
* * ***
23423185 CAAGAGTTTGGCAGTAACTATTTGCCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
*
23423214 CAAGAGTCTAGCAGTGACT
1 CAAGAGTCTGGCAGTGACT
23423233 CTCGTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (29 bp):
CAAGAGTCTGGCAGTGACTATCCACCAAA
Found at i:23433318 original size:29 final size:30
Alignment explanation
Indices: 23433264--23433324 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
23433254 ATAATTTGCA
* *
23433264 AAAATTGAATTAAATTAATATTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
*
23433294 AAAATTGCATAAAATTAA-AGTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
23433323 AA
1 AA
23433325 GATCGTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATTGAATAAAATTAATAGTTCATGTAT
Found at i:23435030 original size:24 final size:24
Alignment explanation
Indices: 23435002--23435054 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
23434992 TTAGTAAGTC
*
23435002 AAATAAACTATACTAAAAAATGCT
1 AAATAAACTATACTAAAAAATACT
* * *
23435026 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAAAAAATACT
23435050 AAATA
1 AAATA
23435055 TTCTAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATAAACTATACTAAAAAATACT
Found at i:23435055 original size:24 final size:24
Alignment explanation
Indices: 23435010--23435055 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23435000 TCAAATAAAC
*
23435010 TATACTAAAAAATGCTAAATATAT
1 TATACTAAAAAATACTAAATATAT
*
23435034 TATACTAATAAATACTAAATAT
1 TATACTAAAAAATACTAAATAT
23435056 TCTAGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (24 bp):
TATACTAAAAAATACTAAATATAT
Found at i:23436998 original size:24 final size:24
Alignment explanation
Indices: 23436971--23437022 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23436961 TTAGTAAGTC
*
23436971 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
23436995 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
23437019 AAAT
1 AAAT
23437023 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:23437709 original size:11 final size:10
Alignment explanation
Indices: 23437684--23437733 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
23437674 TGCTTTACTG
*
23437684 TTGTTTTCCA
1 TTGTTTTCTA
23437694 TTGTTTTGCTA
1 TTGTTTT-CTA
23437705 TTGTTTTTCTA
1 TTG-TTTTCTA
23437716 TTGTTTTCTCA
1 TTGTTTTCT-A
23437727 TTGTTTT
1 TTGTTTT
23437734 GCTACCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 13 0.36
11 19 0.53
12 4 0.11
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.68
Consensus pattern (10 bp):
TTGTTTTCTA
Found at i:23437750 original size:33 final size:32
Alignment explanation
Indices: 23437684--23437750 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
23437674 TGCTTTACTG
*** **
23437684 TTGTTTTCCATTGTTTTGCTATTGTTTTTCTA
1 TTGTTTTCCATTGTTTTGCTACCATTTCACTA
23437716 TTGTTTTCTCATTGTTTTGCTACCATTTCACTA
1 TTGTTTTC-CATTGTTTTGCTACCATTTCACTA
23437749 TT
1 TT
23437751 ATATTGCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.12, C:0.16, G:0.10, T:0.61
Consensus pattern (32 bp):
TTGTTTTCCATTGTTTTGCTACCATTTCACTA
Found at i:23439223 original size:10 final size:10
Alignment explanation
Indices: 23439185--23439227 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
23439175 ATAAATTTAT
23439185 TTATATATTA
1 TTATATATTA
*
23439195 GTA-ATATTA
1 TTATATATTA
23439204 TTTATATATTA
1 -TTATATATTA
*
23439215 TTCTATATTA
1 TTATATATTA
23439225 TTA
1 TTA
23439228 ATAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
TTATATATTA
Found at i:23439446 original size:21 final size:21
Alignment explanation
Indices: 23439406--23439444 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23439396 AAATCATAGA
*
23439406 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCAACTCTTTCT
23439427 TAAATCCAAGCAA-TCTTT
1 TAAATCCAAGCAACTCTTT
23439445 TCGTAGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCAACTCTTTCT
Found at i:23440165 original size:93 final size:93
Alignment explanation
Indices: 23440038--23440207 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
23440028 GCTATTTGTC
* *
23440038 CAAGTATTTTGCGATTCAGAAGCAACTGTTTCTTGTACAGATTATGTATTAATCTACTATAACTA
1 CAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATAACTA
23440103 TAGGATACCCCCACTCCGCGAATCTGTG
66 TAGGATACCCCCACTCCGCGAATCTGTG
* *
23440131 CAAGTATTTTGTGATTCAAAAGCAACTGTGTCTTGTACAGATTGTGTATTAATCTACTATAACTA
1 CAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATAACTA
23440196 TAGGATACCCCC
66 TAGGATACCCCC
23440208 CACACTACGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (93 bp):
CAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGATTATGTATTAATCTACTATAACTA
TAGGATACCCCCACTCCGCGAATCTGTG
Found at i:23442492 original size:18 final size:18
Alignment explanation
Indices: 23442458--23442495 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23442448 TCTCAAATTA
*
23442458 TTATCATAAATTCTATTT
1 TTATCATAAATTATATTT
23442476 TTATC-TAAATTAATATTT
1 TTATCATAAATT-ATATTT
23442494 TT
1 TT
23442496 TTAGTAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATCATAAATTATATTT
Found at i:23442637 original size:8 final size:8
Alignment explanation
Indices: 23442624--23442668 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
23442614 TAAGAATAAT
23442624 TTTTTAAA
1 TTTTTAAA
23442632 TTTTTAAA
1 TTTTTAAA
23442640 TTTTTAAA
1 TTTTTAAA
23442648 TTTTTAAA
1 TTTTTAAA
*
23442656 TTTTTATA
1 TTTTTAAA
23442664 TTTTT
1 TTTTT
23442669 TTTATTTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTTAAA
Found at i:23449945 original size:16 final size:17
Alignment explanation
Indices: 23449907--23449945 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23449897 CTTCAACCCC
23449907 AACTTCTATTCTTCTGA
1 AACTTCTATTCTTCTGA
*
23449924 AA-TTCTATTCTT-TTA
1 AACTTCTATTCTTCTGA
23449939 AACTTCT
1 AACTTCT
23449946 TCAATTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 14 0.70
17 2 0.10
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.51
Consensus pattern (17 bp):
AACTTCTATTCTTCTGA
Found at i:23453337 original size:46 final size:46
Alignment explanation
Indices: 23453268--23453556 Score: 301
Period size: 46 Copynumber: 6.3 Consensus size: 46
23453258 AATCTTCACA
* * * * * * * *
23453268 AATCAGATAATACCACTTGGTCACCCGTTAGGTTTGAACCTATGCG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * *
23453314 AATCAGATAATAGCGTCTAGTCACCCGTTAGGGTTGAACCTATGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * * * *
23453360 AATTAGATAATAGGGTCTGGTCACCCATTAGGGTTTAACCTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* **
23453406 AATCAAATAATATTGCCTAGTCACCCATTAGGGTTGAACCTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
* * * * * *
23453452 AATTAGATAATAGCGCC-AGGTCATCCATTATGGTTTAACATACGGG
1 AATCAGATAATAGCGCCTA-GTCACCCATTAGGGTTGAACCTACGTG
* * *
23453498 AACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTG
1 AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
*
23453544 AATCACATAATAG
1 AATCAGATAATAG
23453557 TGGTTGGTCA
Statistics
Matches: 201, Mismatches: 40, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
AATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTG
Found at i:23453429 original size:92 final size:92
Alignment explanation
Indices: 23453285--23453585 Score: 356
Period size: 92 Copynumber: 3.3 Consensus size: 92
23453275 TAATACCACT
* * * * *
23453285 TGGTCACCCGTTA-GGTTTGAACCTATGCGAATCAGATAATAGCGTCTAGTCACCCGTTAGGGTT
1 TGGTCACCCATTAGGGTTT-AACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTT
*
23453349 GAACCTATGTGAATTAGATAATAGGGTC
65 GAACCTACGTGAATTAGATAATAGGGTC
* * **
23453377 TGGTCACCCATTAGGGTTTAACCTACGTGAATCAAATAATATTGCCTAGTCACCCATTAGGGTTG
1 TGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTTG
* *
23453442 AACCTACGTGAATTAGATAATAGCGCC
66 AACCTACGTGAATTAGATAATAGGGTC
* * * * * * *
23453469 AGGTCATCCATTATGGTTTAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTTG
1 TGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTTG
* *
23453534 AACCTACGTGAATCACATAATAGTGGT-
66 AACCTACGTGAATTAGATAATAG-GGTC
* *
23453561 TGGTCACCCTTTCGGG-TTAACCTAC
1 TGGTCACCCATTAGGGTTTAACCTAC
23453586 ATGAGAAATA
Statistics
Matches: 176, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
91 8 0.05
92 162 0.92
93 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (92 bp):
TGGTCACCCATTAGGGTTTAACCTACGCGAATCAGATAATAGAGCCTAGTCACCCATTAGGGTTG
AACCTACGTGAATTAGATAATAGGGTC
Found at i:23453567 original size:138 final size:138
Alignment explanation
Indices: 23453283--23453585 Score: 358
Period size: 138 Copynumber: 2.2 Consensus size: 138
23453273 GATAATACCA
* * * * *
23453283 CTTGGTCACCCGTTAGGTTTGAACCTATGCGAATCAGATAATAGCGTCTAGTCACCCGTTAGGGT
1 CTTGGTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGTCCAGTCACCCATTAGGGT
* * * ** * * *
23453348 TGAACCTATGTGAATTAGATAATAGGGTCTGGTCACCCATTAGGGTTTAACCTACGTGAATCAAA
66 TGAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTGAATCAAA
*
23453413 TAATATTG
131 TAATAGTG
* * * * * *
23453421 CCTAGTCACCCATTAGGGTTGAACCTACGTGAATTAGATAATAGCG-CCAGGTCATCCATTATGG
1 CTTGGTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGTCCA-GTCACCCATTAGGG
* *
23453485 TTTAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTGAATCAC
65 TTGAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTGAATCAA
23453550 ATAATAGTG
130 ATAATAGTG
* * *
23453559 GTTGGTCACCCTTTCGGGTT-AACCTAC
1 CTTGGTCACCCATTAGGGTTGAACCTAC
23453586 ATGAGAAATA
Statistics
Matches: 137, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 9 0.07
138 128 0.93
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (138 bp):
CTTGGTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGTCCAGTCACCCATTAGGGT
TGAACATACGGGAACCAGATAATAGAGCCTGGTCACCCATTAGGGTTGAACCTACGTGAATCAAA
TAATAGTG
Found at i:23457147 original size:28 final size:27
Alignment explanation
Indices: 23457114--23457212 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
23457104 TAATGAGATT
23457114 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* * **
23457141 ATGCACTAAGTGTACGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
23457170 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
23457198 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23457213 TACTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:23458258 original size:47 final size:47
Alignment explanation
Indices: 23458187--23458434 Score: 392
Period size: 47 Copynumber: 5.3 Consensus size: 47
23458177 AAATTTGACA
* *
23458187 TATAATGCTGTTC-ATTTTAAGTATATTGATGCTATCCATTTTAATG
1 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
* *
23458233 TATAATGCTGTCCAATTTTGAGTATATTGATGCTGCCCATTTTAATG
1 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
*
23458280 TATAATGCTGTCCAATTTTAAGTATATTGATGTTGTCCATTTTAATG
1 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
23458327 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
1 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
* * *
23458374 TATAATGCTATCCAATTTTGAGTATATTGATGTTG-CTCATTTTAATG
1 TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTC-CATTTTAATG
*
23458421 TATAATGTTGTCCA
1 TATAATGCTGTCCA
23458435 NNNNNNNNNN
Statistics
Matches: 187, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
46 13 0.07
47 174 0.93
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (47 bp):
TATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCCATTTTAATG
Found at i:23458587 original size:22 final size:22
Alignment explanation
Indices: 23458549--23458812 Score: 151
Period size: 25 Copynumber: 11.3 Consensus size: 22
23458539 ATATTGATGT
23458549 TGTCC-ATTTTAATGTATAATGC
1 TGTCCAATTTTAA-GTATAATGC
* * * *
23458571 TATCCAATTTTGAGTATATTGA
1 TGTCCAATTTTAAGTATAATGC
*
23458593 TGTTGCTC-ATTTTAATGTATAATGT
1 TG-T-C-CAATTTTAA-GTATAATGC
*
23458618 TGTCCAATTTTGAGTATATTGATGC
1 TGTCCAATTTTAAGTATA---ATGC
23458643 TGTCC-ATTTTAATGTATAATGC
1 TGTCCAATTTTAA-GTATAATGC
*
23458665 TGTCCAATTTTAAGCATATTGATGC
1 TGTCCAATTTTAAG--TA-TAATGC
23458690 TGTCC-ATTTTAATGTATAATGC
1 TGTCCAATTTTAA-GTATAATGC
* * *
23458712 TGTCAAATTTTGAGTATATTTAAGC
1 TGTCCAATTTTAAGTATA---ATGC
* * *
23458737 TGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTAAGTATAATGC
* *
23458759 TGTCC-ATTTTGAGCATATTATTGC
1 TGTCCAATTTTAAG--TA-TAATGC
* * *
23458783 TGTCCAATTTGATGAATAATTGC
1 TGTCCAATTTTAAGTATAA-TGC
23458806 TGTCCAA
1 TGTCCAA
23458813 AACAGGGTTG
Statistics
Matches: 187, Mismatches: 31, Indels: 47
0.71 0.12 0.18
Matches are distributed among these distances:
21 5 0.03
22 51 0.27
23 42 0.22
24 33 0.18
25 56 0.30
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (22 bp):
TGTCCAATTTTAAGTATAATGC
Found at i:23458604 original size:47 final size:47
Alignment explanation
Indices: 23458535--23458812 Score: 364
Period size: 47 Copynumber: 5.9 Consensus size: 47
23458525 NNNNNNNNNN
* *
23458535 GAGTATATTGATGTTGTCCATTTTAATGTATAATGCTATCCAATTTT
1 GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
* *
23458582 GAGTATATTGATGTTG-CTCATTTTAATGTATAATGTTGTCCAATTTT
1 GAGTATATTGATGCTGTC-CATTTTAATGTATAATGCTGTCCAATTTT
23458629 GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
1 GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
* * *
23458676 AAGCATATTGATGCTGTCCATTTTAATGTATAATGCTGTCAAATTTT
1 GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
* * * * *
23458723 GAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTT
1 GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
* * * *
23458769 GAGCATATT-ATTGCTGTCCAATTTGATGAATAATTGCTGTCCAA
1 GAGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGCTGTCCAA
23458813 AACAGGGTTG
Statistics
Matches: 207, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.00
46 33 0.16
47 171 0.83
48 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (47 bp):
GAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTT
Found at i:23463832 original size:12 final size:12
Alignment explanation
Indices: 23463815--23463840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23463805 AAGGGGTACA
23463815 AGAGGCCGTGGT
1 AGAGGCCGTGGT
23463827 AGAGGCCGTGGT
1 AGAGGCCGTGGT
23463839 AG
1 AG
23463841 TACTAGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.50, T:0.15
Consensus pattern (12 bp):
AGAGGCCGTGGT
Found at i:23475778 original size:2 final size:2
Alignment explanation
Indices: 23475771--23475800 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
23475761 CTTTTAGCTT
23475771 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
23475801 CTTTCCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23478266 original size:126 final size:126
Alignment explanation
Indices: 23477993--23478434 Score: 773
Period size: 126 Copynumber: 3.5 Consensus size: 126
23477983 GATAAAATCA
* **
23477993 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGATTGCGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
23478058 AGGTC-TGAAAAATTAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAAACGCTTC
66 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCTTC
*
23478118 AGGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
23478183 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCTTC
66 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCTTC
23478244 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
23478309 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTAT--AAAAACGCTTC
66 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCTTC
* * *
23478368 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCGACGTAGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
23478433 AG
66 AG
23478435 CATGTTTGGG
Statistics
Matches: 305, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
124 75 0.25
125 66 0.22
126 164 0.54
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAAACGCTTC
Found at i:23479313 original size:56 final size:56
Alignment explanation
Indices: 23479251--23479423 Score: 183
Period size: 56 Copynumber: 3.1 Consensus size: 56
23479241 AAAACATTTT
*
23479251 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
* ** * ** ** *
23479307 GTAAAAT-TATCAAATT-ATA-TCAAATTATTAATTGTTAGTACCAGTAAAAATAT-TTT
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTA--A-TTGTATTAAT-TGTTA
23479363 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
*
23479419 ATAAA
1 GTAAA
23479424 TTTATCAAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
53 17 0.19
54 2 0.02
55 8 0.09
56 34 0.38
57 8 0.09
58 2 0.02
59 18 0.20
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (56 bp):
GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTATTAATTGTTA
Found at i:23479518 original size:21 final size:21
Alignment explanation
Indices: 23479492--23479535 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23479482 GGGTTTTGGT
23479492 GTTTTTAAGTTAAGGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGG
23479513 GTTTTTAAGTTAAGGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGG
23479534 GT
1 GT
23479536 GACTGTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (21 bp):
GTTTTTAAGTTAAGGGTTAGG
Found at i:23480344 original size:20 final size:20
Alignment explanation
Indices: 23480307--23480344 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23480297 ATTATTTTTA
*
23480307 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
23480327 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
23480345 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:23483909 original size:21 final size:21
Alignment explanation
Indices: 23483885--23483932 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23483875 GCGGGGGTTG
*
23483885 TGGTTGCTTCGGTAGGG-ATTC
1 TGGTTGCTCCGGTAGGGTA-TC
*
23483906 TGGTTCCTCCGGTAGGGTATC
1 TGGTTGCTCCGGTAGGGTATC
23483927 TGGTTG
1 TGGTTG
23483933 TCGGTGTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.08, C:0.17, G:0.38, T:0.38
Consensus pattern (21 bp):
TGGTTGCTCCGGTAGGGTATC
Found at i:23484199 original size:18 final size:18
Alignment explanation
Indices: 23484173--23484215 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23484163 GACTCGAAAA
* * *
23484173 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
23484191 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
23484209 AGGATAC
1 AGGATAC
23484216 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:23485783 original size:23 final size:23
Alignment explanation
Indices: 23485714--23485786 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
23485704 GTTATTGATC
*
23485714 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATT
23485737 AGTGGTAGCTTCGGCTACATATT
1 AGTGGTAGCTTCGGCTACATATT
*
23485760 AGTGGTAGCTTCGGCTACAAATT
1 AGTGGTAGCTTCGGCTACATATT
23485783 AGTG
1 AGTG
23485787 TGACACTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATT
Found at i:23485958 original size:38 final size:37
Alignment explanation
Indices: 23485916--23485988 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
23485906 ATGTGTGGAA
* *
23485916 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
23485954 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
23485989 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:23488979 original size:11 final size:10
Alignment explanation
Indices: 23488965--23489029 Score: 69
Period size: 11 Copynumber: 6.1 Consensus size: 10
23488955 AAATACGGAT
23488965 TTGAGAGAAA
1 TTGAGAGAAA
23488975 TTTGAGAGAAAA
1 -TTGAGAG-AAA
23488987 TTGAGAGCAAA
1 TTGAGAG-AAA
*
23488998 TTAAGAGGAAA
1 TTGAGA-GAAA
23489009 TTGAGAGGAAA
1 TTGAGA-GAAA
23489020 TT-AGAGAAA
1 TTGAGAGAAA
23489029 T
1 T
23489030 GATTTATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 37 0.76
12 4 0.08
ACGTcount: A:0.49, C:0.02, G:0.28, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:23493133 original size:24 final size:23
Alignment explanation
Indices: 23493097--23493144 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
23493087 CCCGATTTTT
*
23493097 AATAAACACAAAAAATATTTTTAA
1 AATAAAAAC-AAAAATATTTTTAA
*
23493121 AATAAAAATAAAAATATTTTTAA
1 AATAAAAACAAAAATATTTTTAA
23493144 A
1 A
23493145 GTATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAAACAAAAATATTTTTAA
Found at i:23495482 original size:113 final size:112
Alignment explanation
Indices: 23495327--23495715 Score: 306
Period size: 114 Copynumber: 3.4 Consensus size: 112
23495317 AAATCTCAAG
* * * *
23495327 ACCAACACGCAGCGTTCTGGTGC-TGATGTATATTGGC-ATTAGTGGCGCTTACGAACAAACGCC
1 ACCAAAACGCAGAGTT-TGGT-CTTGATGTATATT-TCAATTAGTGGCGCTTAAGAA-AAACGCC
* *
23495390 GGTAATGTGTAGTATTAGCGGCGCTTTGTGGAAGCGCCGCAAAAGATGTTA
62 GGTAATGTGTAGTATTAGCGGCGCTTTGTGGAAGCGCCGCAAAACATCTTA
* * * *
23495441 ACCAAAACACAGAGTTTGGTCTTGATGTATATTTCAATTAGTGGTGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTTCAATTAGTGGCGCTTA-AGA-AAAACGCCGG
* * *** * * *
23495506 TAATGTATAGTATTAGTGGCGCAGAGCCT-TAAACGCCGCAAGACATCTTA
64 TAATGTGTAGTATTAGCGGCGCTTTG--TGGAAGCGCCGCAAAACATCTTA
* * * * * *
23495556 ATCAAAACGCAGCGTGTTGGTCTTGATGTATAATAT-AATTAGTGGCGTTTAAGGAAAACGCCAG
1 ACCAAAACGCAGAGT-TTGGTCTTGATGTAT-ATTTCAATTAGTGGCGCTTAAGAAAAACGCCGG
* * * *
23495620 TAAAG-GATAGT-TATAGCAGCG-TTTGGTGGTAAGCGCCTCAAAATATCTTA
64 TAATGTG-TAGTAT-TAGCGGCGCTTT-GTGG-AAGCGCCGCAAAACATCTTA
* * * **
23495670 ACCAAAATGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCG
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTTCAATTAGTGGCG
23495716 TTNNNNNNNN
Statistics
Matches: 214, Mismatches: 47, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
112 5 0.02
113 53 0.25
114 94 0.44
115 30 0.14
116 29 0.14
117 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTTCAATTAGTGGCGCTTAAGAAAAACGCCGGTA
ATGTGTAGTATTAGCGGCGCTTTGTGGAAGCGCCGCAAAACATCTTA
Found at i:23497011 original size:21 final size:21
Alignment explanation
Indices: 23496961--23497013 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
23496951 TGTTCGGGGT
*
23496961 TTTAAGGTTTAGGGTTTGGGG
1 TTTAAGGTTTAGGGTTTGAGG
** *
23496982 TTTTGGGTTT-GGTTTTTGAGG
1 TTTAAGGTTTAGG-GTTTGAGG
23497003 TTTAAGGTTTA
1 TTTAAGGTTTA
23497014 CAAATTATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTGAGG
Found at i:23500316 original size:13 final size:12
Alignment explanation
Indices: 23500270--23500316 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
23500260 ACTTTATTAT
*
23500270 ATTACTTGAATA
1 ATTACTTAAATA
23500282 TATTACTTAAATA
1 -ATTACTTAAATA
23500295 ATTTACTTAAATA
1 A-TTACTTAAATA
23500308 CATTACTTA
1 -ATTACTTA
23500317 CTAAAATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.45
Consensus pattern (12 bp):
ATTACTTAAATA
Found at i:23500487 original size:48 final size:49
Alignment explanation
Indices: 23500434--23500553 Score: 131
Period size: 52 Copynumber: 2.4 Consensus size: 49
23500424 CAATATTTAT
* *
23500434 TATATTTTTAAATATATTTTTACAATTTA-AT-TTA-ACTTA-TTAATAATA
1 TATATTTTTAAGTATATTTTTAAAATTTATATCTTACA-TTACTT-A-AATA
*
23500482 TATATTCTTAAGTAATAATTTTTTAAAATTTATATCTTACATTACTTAAATA
1 TATATTTTTAAGT-AT-A-TTTTTAAAATTTATATCTTACATTACTTAAATA
23500534 TATATTTTTAAGTATATTTT
1 TATATTTTTAAGTATATTTT
23500554 ACATGACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
48 11 0.18
49 6 0.10
50 2 0.03
51 14 0.23
52 18 0.30
53 7 0.11
54 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (49 bp):
TATATTTTTAAGTATATTTTTAAAATTTATATCTTACATTACTTAAATA
Found at i:23500898 original size:16 final size:16
Alignment explanation
Indices: 23500877--23501201 Score: 81
Period size: 16 Copynumber: 19.8 Consensus size: 16
23500867 ACACTTATTA
23500877 AACTTACATAATACAT
1 AACTTACATAATACAT
*
23500893 AACTTACAT-GT---T
1 AACTTACATAATACAT
23500905 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
23500921 GACTTATATAAAATTCTCAAAT
1 AACTTACAT--AA---T-ACAT
23500943 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
23500960 TAGTTACATAATAACTTATAT
1 AACTTACATAAT-AC----AT
23500981 AAACTTACATAATACA-
1 -AACTTACATAATACAT
*
23500997 CA-TTAC-T--TACAT
1 AACTTACATAATACAT
* * *
23501009 AGCATACATAAGTTACAC
1 AACTTACATAA--TACAT
* *
23501027 AACTTAAATAATACAA
1 AACTTACATAATACAT
23501043 AACTTACATAACCTACAT
1 AACTTACATAA--TACAT
*
23501061 AACCTACATAATACAT
1 AACTTACATAATACAT
*
23501077 AA-TAAC-T--TAC--
1 AACTTACATAATACAT
23501087 AACTTACATAACATACAT
1 AACTTACAT-A-ATACAT
* **
23501105 TACTTTGATAACTTACAT
1 AACTTACATAA--TACAT
*
23501123 AACTTACATAATACAC
1 AACTTACATAATACAT
* * *
23501139 AACTTAAATAGCTTACTT
1 AACTTACATA--ATACAT
23501157 AA--TACATAACTTACAT
1 AACTTACATAA--TACAT
* * *
23501173 AACTTATACACGTACAT
1 AACTTACATA-ATACAT
23501190 AACTTACATAAT
1 AACTTACATAAT
23501202 TGACTTAATA
Statistics
Matches: 219, Mismatches: 47, Indels: 86
0.62 0.13 0.24
Matches are distributed among these distances:
10 2 0.01
11 7 0.03
12 14 0.06
13 5 0.02
14 6 0.03
15 4 0.02
16 77 0.35
17 20 0.09
18 57 0.26
21 7 0.03
22 13 0.06
23 7 0.03
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:23500982 original size:9 final size:9
Alignment explanation
Indices: 23500970--23501200 Score: 144
Period size: 9 Copynumber: 26.4 Consensus size: 9
23500960 TAGTTACATA
*
23500970 ATAACTTAT
1 ATAACTTAC
23500979 ATAAACTTAC
1 AT-AACTTAC
*
23500989 ATAA-TACAC
1 ATAACT-TAC
*
23500998 ATTACTTAC
1 ATAACTTAC
* *
23501007 ATAGCATAC
1 ATAACTTAC
*
23501016 ATAAGTTAC
1 ATAACTTAC
* *
23501025 ACAACTTAA
1 ATAACTTAC
23501034 ATAA--TAC
1 ATAACTTAC
*
23501041 AAAACTTAC
1 ATAACTTAC
*
23501050 ATAACCTAC
1 ATAACTTAC
*
23501059 ATAACCTAC
1 ATAACTTAC
*
23501068 ATAATACATA-
1 AT-A-ACTTAC
23501078 ATAACTTAC
1 ATAACTTAC
23501087 --AACTTAC
1 ATAACTTAC
*
23501094 ATAACATAC
1 ATAACTTAC
* **
23501103 ATTACTTTG
1 ATAACTTAC
23501112 ATAACTTAC
1 ATAACTTAC
23501121 ATAACTTAC
1 ATAACTTAC
23501130 ATAA--TAC
1 ATAACTTAC
* *
23501137 ACAACTTAA
1 ATAACTTAC
*
23501146 ATAGCTTAC
1 ATAACTTAC
*
23501155 TTAA--TAC
1 ATAACTTAC
23501162 ATAACTTAC
1 ATAACTTAC
23501171 ATAACTT--
1 ATAACTTAC
*
23501178 ATACACGTAC
1 ATA-ACTTAC
23501188 ATAACTTAC
1 ATAACTTAC
23501197 ATAA
1 ATAA
23501201 TTGACTTAAT
Statistics
Matches: 167, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
7 27 0.16
8 8 0.05
9 113 0.68
10 15 0.09
11 4 0.02
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:23500992 original size:38 final size:38
Alignment explanation
Indices: 23500905--23500996 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 38
23500895 CTTACATGTT
*
23500905 AACTTACATAATACATGACTTATATAAAATTCTCAAATA
1 AACTTACATAATACATGACTTACATAAAA-TCTCAAATA
* * * *
23500944 AACTTACATAATACATTAGTTACATAATAA-CTTATATA
1 AACTTACATAATACATGACTTACATAA-AATCTCAAATA
23500982 AACTTACATAATACA
1 AACTTACATAATACA
23500997 CATTACTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 21 0.45
39 24 0.51
40 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (38 bp):
AACTTACATAATACATGACTTACATAAAATCTCAAATA
Found at i:23501137 original size:34 final size:33
Alignment explanation
Indices: 23501016--23501201 Score: 122
Period size: 34 Copynumber: 5.7 Consensus size: 33
23501006 CATAGCATAC
* * * *
23501016 ATAAGTTACACAACTTAAATAATACAAAACTTA
1 ATAACTTACATAACTTACATAATACATAACTTA
* *
23501049 CATAACCTACATAACCTACATAATAC---A--TA
1 -ATAACTTACATAACTTACATAATACATAACTTA
* *
23501078 ATAACTTAC--AACTTACATAACATACATTACTTTG
1 ATAACTTACATAACTTACAT-A-ATACATAAC-TTA
*
23501112 ATAACTTACATAACTTACATAATACACAACTTAA
1 ATAACTTACATAACTTACATAATACATAACTT-A
* *
23501146 ATAGCTTACTTAA--TACATAACTTACATAACTT-
1 ATAACTTACATAACTTACATAA--TACATAACTTA
*
23501178 ATACACGTACATAACTTACATAAT
1 ATA-ACTTACATAACTTACATAAT
23501202 TGACTTAATA
Statistics
Matches: 119, Mismatches: 17, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
26 8 0.07
27 1 0.01
28 12 0.10
29 2 0.02
31 2 0.02
32 10 0.08
33 10 0.08
34 57 0.48
35 8 0.07
36 9 0.08
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (33 bp):
ATAACTTACATAACTTACATAATACATAACTTA
Found at i:23501153 original size:25 final size:25
Alignment explanation
Indices: 23501132--23501213 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
23501122 TAACTTACAT
* * *
23501132 AATACACAACTTAAATAGCTTACTT
1 AATACACAACTTACATAACTTACAT
* * *
23501157 AATACATAACTTACATAACTTATAC
1 AATACACAACTTACATAACTTACAT
* * *
23501182 ACGTACATAACTTACATAA-TTGACTT
1 A-ATACACAACTTACATAACTT-ACAT
23501208 AATACA
1 AATACA
23501214 TAAATATATA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
25 26 0.59
26 18 0.41
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (25 bp):
AATACACAACTTACATAACTTACAT
Found at i:23510190 original size:9 final size:9
Alignment explanation
Indices: 23510148--23510191 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
23510138 AAAAATTTAT
*
23510148 TAAAAATTA
1 TAAAAAATA
23510157 TAAAAAATA
1 TAAAAAATA
23510166 T-AAAAATA
1 TAAAAAATA
23510174 GTAAAAAATA
1 -TAAAAAATA
23510184 TAAAAAAT
1 TAAAAAAT
23510192 TGTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
TAAAAAATA
Found at i:23510197 original size:10 final size:10
Alignment explanation
Indices: 23510137--23510198 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
23510127 ATTCAAATAT
*
23510137 TAAAAATTTA
1 TAAAAAATTA
*
23510147 TTAAAAATTA
1 TAAAAAATTA
23510157 TAAAAAA-TA
1 TAAAAAATTA
23510166 T-AAAAA-TA
1 TAAAAAATTA
23510174 GTAAAAAA-TA
1 -TAAAAAATTA
*
23510184 TAAAAAATTG
1 TAAAAAATTA
23510194 TAAAA
1 TAAAA
23510199 TTTTATAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
8 7 0.16
9 11 0.24
10 27 0.60
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:23510198 original size:9 final size:9
Alignment explanation
Indices: 23510121--23510189 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
23510111 TTAAATTTTA
23510121 ATAAAAATT
1 ATAAAAATT
* *
23510130 -CAAATATT
1 ATAAAAATT
*
23510138 A-AAAATTT
1 ATAAAAATT
23510146 ATTAAAAATT
1 A-TAAAAATT
*
23510156 ATAAAAAAT
1 ATAAAAATT
23510165 ATAAAAA-T
1 ATAAAAATT
*
23510173 AGTAAAAAAT
1 A-TAAAAATT
23510183 ATAAAAA
1 ATAAAAA
23510190 ATTGTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
8 14 0.29
9 26 0.53
10 9 0.18
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:23510198 original size:18 final size:18
Alignment explanation
Indices: 23510148--23510238 Score: 78
Period size: 18 Copynumber: 4.9 Consensus size: 18
23510138 AAAAATTTAT
*
23510148 TAAAAATTATAAAAAATA
1 TAAAAATTGTAAAAAATA
*
23510166 TAAAAATAGTAAAAAATA
1 TAAAAATTGTAAAAAATA
* *
23510184 TAAAAAATTGT-AAAATTT
1 T-AAAAATTGTAAAAAATA
*
23510202 TATAAAGTTGTAAGAAAAATA
1 TA-AAAATTGT-A-AAAAATA
23510223 TACAAAA-TGTAAAAAA
1 TA-AAAATTGTAAAAAA
23510239 AATATAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
17 1 0.02
18 35 0.60
19 9 0.16
20 3 0.05
21 10 0.17
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (18 bp):
TAAAAATTGTAAAAAATA
Found at i:23510743 original size:88 final size:85
Alignment explanation
Indices: 23510549--23510759 Score: 226
Period size: 88 Copynumber: 2.4 Consensus size: 85
23510539 TTTAATAAGT
* * * * * *
23510549 AGGGGCTTAATTATTTTTTTGAAACATTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 AGGGGCTTAATTGTTTTTTTGAAA-AATTTGAGGGCCTTGTTAATGCATTTTGAAAGTTCAAGTA
*
23510614 CTCAATTGAGTGAAAAAAGGC
65 CTCAATTGAGTAAAAAAAGGC
* * * *
23510635 ATGAGCTTAATTGCTTTTTTTTGAAGAAGTTTGAGGGCCTTGTTAATGTATTTTGAAAGTTCAAG
1 AGGGGCTTAATTG--TTTTTTTGAA-AAATTTGAGGGCCTTGTTAATGCATTTTGAAAGTTCAAG
*
23510700 TGCTCAATTGAGTAAAAAAAAAGG-
63 TACTCAATTGAGT--AAAAAAAGGC
*
23510724 AGGGGCTTAATTGTATTTTTTCAAAAAATTTGAGGG
1 AGGGGCTTAATTGT-TTTTTT-GAAAAATTTGAGGG
23510760 TTTTTTACGC
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
86 10 0.10
87 1 0.01
88 70 0.68
89 14 0.14
90 8 0.08
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (85 bp):
AGGGGCTTAATTGTTTTTTTGAAAAATTTGAGGGCCTTGTTAATGCATTTTGAAAGTTCAAGTAC
TCAATTGAGTAAAAAAAGGC
Found at i:23523294 original size:8 final size:8
Alignment explanation
Indices: 23523244--23523294 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
23523234 ACCTAAAATA
*
23523244 ATTTTTAT
1 ATTTATAT
*
23523252 ATATATAT
1 ATTTATAT
*
23523260 ATATATAT
1 ATTTATAT
*
23523268 A-TTATAA
1 ATTTATAT
*
23523275 ATTTATAA
1 ATTTATAT
23523283 ATTTATAT
1 ATTTATAT
23523291 ATTT
1 ATTT
23523295 TAAAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 5 0.14
8 32 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTATAT
Found at i:23526385 original size:2 final size:2
Alignment explanation
Indices: 23526378--23526405 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23526368 TTTTAGTAAT
23526378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23526406 ATCTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23528217 original size:24 final size:24
Alignment explanation
Indices: 23528172--23528218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23528162 TATATATACC
23528172 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
23528196 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
23528219 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:23528969 original size:5 final size:5
Alignment explanation
Indices: 23528959--23529007 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
23528949 TTTGCTTTAT
23528959 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
23529008 CTTAATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:23535311 original size:3 final size:3
Alignment explanation
Indices: 23535303--23535350 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
23535293 ATGTTAACAA
*
23535303 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23535351 GCAGTCCGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23537851 original size:17 final size:18
Alignment explanation
Indices: 23537831--23537870 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23537821 GTGGCAAAAG
*
23537831 GAAAATCT-TTGGAATCT
1 GAAAATCTCTTGGAAGCT
*
23537848 GAAAATGTCTTGGAAGCT
1 GAAAATCTCTTGGAAGCT
23537866 GAAAA
1 GAAAA
23537871 GAAACGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (18 bp):
GAAAATCTCTTGGAAGCT
Found at i:23539981 original size:32 final size:33
Alignment explanation
Indices: 23539945--23540010 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
23539935 ATTAGCCATT
*
23539945 TGCTGTTACATGCAT-TTTGCAATGTTTTCCTG
1 TGCTGTTACATGCATGTTTACAATGTTTTCCTG
* * *
23539977 TGCTGTTACTTGCATGTTTATAATGTTTTGCTG
1 TGCTGTTACATGCATGTTTACAATGTTTTCCTG
23540010 T
1 T
23540011 TGGCTTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (33 bp):
TGCTGTTACATGCATGTTTACAATGTTTTCCTG
Found at i:23540024 original size:35 final size:34
Alignment explanation
Indices: 23539944--23540046 Score: 113
Period size: 35 Copynumber: 3.1 Consensus size: 34
23539934 TATTAGCCAT
* * *
23539944 TTGCTGTTACATGCAT-TTTGCAATGTTTTCCTG
1 TTGCTGTTACTTGCATATTTGAAATGTTTTGCTG
*
23539977 -TGCTGTTACTTGCATGTTT-ATAATGTTTTGCTG
1 TTGCTGTTACTTGCATATTTGA-AATGTTTTGCTG
* *
23540010 TTGGCTTTTACTTGCATATTTGAAATGCTTTGCTG
1 TT-GCTGTTACTTGCATATTTGAAATGTTTTGCTG
23540045 TT
1 TT
23540047 TATTTGGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
32 14 0.24
33 14 0.24
34 1 0.02
35 29 0.49
36 1 0.02
ACGTcount: A:0.16, C:0.15, G:0.19, T:0.50
Consensus pattern (34 bp):
TTGCTGTTACTTGCATATTTGAAATGTTTTGCTG
Found at i:23544785 original size:108 final size:105
Alignment explanation
Indices: 23544595--23544793 Score: 281
Period size: 108 Copynumber: 1.9 Consensus size: 105
23544585 TGGATTAAGA
* * * *
23544595 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAACCCAGCACATTAGGGCACATTTC
1 TTTAAAAGGATATTTGGCTATTTGATCAAAAGAAAAATCGAACCCAGCACATTAGGGCACATTTC
* * * *
23544660 CTTGAATTTTCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
*
23544700 TTTAAAAGGATATTTGGCTATTTGATCGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATC-AA-AAGAAAAATCG-AACCCAGCACATTAGGGCACAT
*
23544765 TTTCTCGAATCTCCAAACGCAAAACATTG
63 TTCCTCGAATCTCCAAACGCAAAACATTG
23544794 CCTGATAGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 25 0.31
106 2 0.02
107 9 0.11
108 45 0.56
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (105 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAAAGAAAAATCGAACCCAGCACATTAGGGCACATTTC
CTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:23548926 original size:87 final size:87
Alignment explanation
Indices: 23548816--23549314 Score: 827
Period size: 87 Copynumber: 5.7 Consensus size: 87
23548806 TAGGGAAGAT
23548816 AAGATTCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
1 AAGA-TCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
*
23548881 CTTCGCTGTTAACGCAAGAAGGC
65 CTTCGCTGTTAACGCAGGAAGGC
* * *
23548904 AAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGGTCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
* *
23548969 TTCGCTGTTAACGCAGGAATGT
66 TTCGCTGTTAACGCAGGAAGGC
* *
23548991 AAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGA
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
23549056 TTCGCTGTTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
* * * ** *
23549078 AAGATCTGCTATCTTTAACCAGCCCCACTACAATCGATGGAGGCAATACTTTGTTTTCAATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
*
23549143 TTCGCTATTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
*
23549165 AAGATATGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
*
23549230 TTCGCTATTAACGCAGGAAGGC
66 TTCGCTGTTAACGCAGGAAGGC
*
23549252 AAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
23549315 TCACTGATCT
Statistics
Matches: 382, Mismatches: 29, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
87 378 0.99
88 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
TTCGCTGTTAACGCAGGAAGGC
Found at i:23554804 original size:108 final size:106
Alignment explanation
Indices: 23554617--23554816 Score: 274
Period size: 108 Copynumber: 1.9 Consensus size: 106
23554607 TGAATTAAGA
* * * * * *
23554617 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCAAAACCCAGCACATTAGGGTACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAAAGAAAAATCAAAACCCAACACATTAGGGCACATTT
* *
23554682 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* *
23554723 TTTAAAAGGATATTTGGCTATTTGATCGAACAAGAAAAATCGAAACCCAACACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATC-AA-AAGAAAAATCAAAACCCAACACATTAGGGCACAT
* *
23554788 TTTCTCGAATCTCCAAATGCAAAACATTG
64 TTCCTCGAATCTCCAAACGCAAAACATTG
23554817 CCTTTATTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 25 0.31
107 2 0.03
108 53 0.66
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAAAGAAAAATCAAAACCCAACACATTAGGGCACATTT
CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:23558477 original size:20 final size:20
Alignment explanation
Indices: 23558452--23558518 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
23558442 ATATACTATT
*
23558452 ACTATTTATGACATGACCTC
1 ACTATTCATGACATGACCTC
* *
23558472 ACTATTCATGACTTGACCCC
1 ACTATTCATGACATGACCTC
* * ** *
23558492 GCTGTTCATGATTTGACCCC
1 ACTATTCATGACATGACCTC
23558512 ACTATTC
1 ACTATTC
23558519 CTAGGACTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (20 bp):
ACTATTCATGACATGACCTC
Found at i:23562067 original size:70 final size:70
Alignment explanation
Indices: 23561647--23562069 Score: 494
Period size: 70 Copynumber: 6.0 Consensus size: 70
23561637 CCTGAAGATT
* * ** * *
23561647 ATAGCTAGGAGCTTTTAACTCTCGCTAATTATTTAAAGGTTGCGGTATTAAACTTGCGAGCCTTA
1 ATAGCTTGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTA
23561712 AAATG
66 AAATG
* ** * * *
23561717 -TCAGCTAGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTTTGGAATTAAACCTGCAAGCCTC
1 AT-AGCTTGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTT
23561781 AAAATG
65 AAAATG
** * *
23561787 GCAG-TTGGGAGCTTTTAACTCTCGCTAACCATTTGGAGGCTGTGGTATTAAACCTGCGAGCCTT
1 ATAGCTT-GGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTT
*
23561851 AAAATT
65 AAAATG
* * * * *
23561857 ACAGCTGGGAGCTTTTAACTCTCGCTAACTATTTAGAGGCTG-GGATATTAAATCTGCAAGCCTT
1 ATAGCTTGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGG-TATTAAACCTGCGAGCCTT
23561921 AAAATG
65 AAAATG
* * *
23561927 ATAG-TTGGGAGCTTTTAACTCTTGCTAACTATTTGGAGGCTGCGATATTAAACTTGCGAGCCTT
1 ATAGCTT-GGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTT
23561991 AAAATG
65 AAAATG
** * * ** *
23561997 ATAGCTTAAAGCTTTTAACTCTCACTAACTGTTTGGAGGCCACAGTATTAAACCTGCGAGCCTTA
1 ATAGCTTGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTA
23562062 AAATG
66 AAATG
23562067 ATA
1 ATA
23562070 AATACAAATA
Statistics
Matches: 302, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
69 5 0.02
70 293 0.97
71 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (70 bp):
ATAGCTTGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTA
AAATG
Found at i:23568302 original size:14 final size:15
Alignment explanation
Indices: 23568270--23568302 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23568260 TAATTTTTTT
*
23568270 AATTTGAATATTACA
1 AATTTAAATATTACA
23568285 AATTTAAATATT-CA
1 AATTTAAATATTACA
23568299 AATT
1 AATT
23568303 ATTATTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
AATTTAAATATTACA
Found at i:23570896 original size:18 final size:18
Alignment explanation
Indices: 23570873--23570910 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23570863 GAAAGAACGA
23570873 GTGAGTTCCATCAGTGAT
1 GTGAGTTCCATCAGTGAT
23570891 GTGAGTTCCATCAGTGAT
1 GTGAGTTCCATCAGTGAT
23570909 GT
1 GT
23570911 TTCCGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (18 bp):
GTGAGTTCCATCAGTGAT
Found at i:23573246 original size:63 final size:63
Alignment explanation
Indices: 23573124--23573246 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 63
23573114 CTACAATCCA
* *
23573124 GACAATCAAACAAAACTTAGTTTAATCAATTGAAACATAAAAATATTTGTCATTAGATGACCG
1 GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGACCG
* * * * * * * *
23573187 GACATTCAAACAAAACTTGGTTTCATCTATAGAAATATACAAATCTTTGTCATCCGATGA
1 GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGA
23573247 ACCAGACTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (63 bp):
GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGACCG
Found at i:23574937 original size:13 final size:13
Alignment explanation
Indices: 23574919--23574943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23574909 CAATATATTT
23574919 ATTAATTAAAAAC
1 ATTAATTAAAAAC
23574932 ATTAATTAAAAA
1 ATTAATTAAAAA
23574944 TAAAAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:23582826 original size:16 final size:15
Alignment explanation
Indices: 23582801--23582843 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
23582791 TAAACAAGTA
* *
23582801 AATAAAAACTAGCTAT
1 AATAATAACTAACT-T
23582817 AATAATAACTAACTT
1 AATAATAACTAACTT
23582832 AACTAATAACTA
1 AA-TAATAACTA
23582844 TGGAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAATAACTAACTT
Found at i:23609319 original size:42 final size:43
Alignment explanation
Indices: 23609218--23609391 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
23609208 AGCTTGTACA
* * *
23609218 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* *
23609261 ATGCCACTGTCCCAGACA-GCGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATG-GTCTTACATGAAATCAAATATCG
* *
23609303 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAATA--G
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAA--TCAAATATCG
* * * * * * *
23609347 ATGCTAACGTCCCAGACGTGATCTTACACGAGATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
23609390 AT
1 AT
23609392 ATCCTATGTC
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
41 6 0.06
42 28 0.26
43 42 0.39
44 26 0.24
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:23617044 original size:42 final size:43
Alignment explanation
Indices: 23616978--23617119 Score: 155
Period size: 42 Copynumber: 3.3 Consensus size: 43
23616968 TCTTATATGT
* * *
23616978 AATCAAATATCGATGTCACTGTCCCAGACAGGGTCTTACACGA
1 AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGA
*
23617021 AATCATATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACG-A
* * *
23617064 AATC-TCAAATCGATGCCAACGTCCCAGAC-GTGATCTTACACGA
1 AATCAT-ATATCGATGCCAATGTCCCAGACAG-GGTCTTACACGA
* *
23617107 GATCACATATCGA
1 AATCATATATCGA
23617120 AATCCTATGT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
42 30 0.36
43 25 0.30
44 28 0.34
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGA
Found at i:23617091 original size:44 final size:42
Alignment explanation
Indices: 23616978--23617111 Score: 146
Period size: 44 Copynumber: 3.1 Consensus size: 42
23616968 TCTTATATGT
* *
23616978 AATCAAATATCGATGTC-ACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGA
* *
23617021 AATCATATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-A
* *
23617064 AATCTCAAAT-CGATGCCAACGTCCCAGACGTGATCTTACACGA
1 AA--TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
*
23617107 GATCA
1 AATCA
23617112 CATATCGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
41 3 0.04
42 27 0.35
43 14 0.18
44 29 0.37
45 5 0.06
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
Found at i:23621441 original size:31 final size:31
Alignment explanation
Indices: 23621376--23621448 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
23621366 GGGATCAAGT
* * *
23621376 AAAAATTTT-AAAAATTTTAGGAGTTTAATG
1 AAAAATTTTAAAAAAATTAAGGAGTCTAATG
*
23621406 AAAAAATTTTAAAAAAATTAAGG-GTCTAATT
1 -AAAAATTTTAAAAAAATTAAGGAGTCTAATG
23621437 AAAAATTTTAAA
1 AAAAATTTTAAA
23621449 TTTTTTTGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 12 0.32
31 15 0.41
32 10 0.27
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.36
Consensus pattern (31 bp):
AAAAATTTTAAAAAAATTAAGGAGTCTAATG
Found at i:23622989 original size:21 final size:21
Alignment explanation
Indices: 23622963--23623015 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
23622953 AGCGGTGGCG
*
23622963 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
23622984 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
23623005 GTGAGATTAGA
1 GTGAGATTAGA
23623016 AACAGCGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:23623862 original size:11 final size:12
Alignment explanation
Indices: 23623833--23623865 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23623823 TTCAGCTTGG
*
23623833 ATGCTGGTCTGC
1 ATGCTGGTTTGC
23623845 ATGCTGGTTTGC
1 ATGCTGGTTTGC
23623857 -TGCTGGTTT
1 ATGCTGGTTT
23623866 CCTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:23627160 original size:12 final size:13
Alignment explanation
Indices: 23627143--23627177 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23627133 GCAACCCAAG
23627143 GGGAAGGGGAA-A
1 GGGAAGGGGAAGA
23627155 GGGAAGGGGAAGA
1 GGGAAGGGGAAGA
*
23627168 GGAAAGGGGA
1 GGGAAGGGGA
23627178 GAAGAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (13 bp):
GGGAAGGGGAAGA
Found at i:23627163 original size:18 final size:18
Alignment explanation
Indices: 23627140--23627175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23627130 TTTGCAACCC
*
23627140 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGAGGAAAGGG
23627158 AAGGGGAAGAGGAAAGGG
1 AAGGGGAAGAGGAAAGGG
23627176 GAGAAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGAGGAAAGGG
Found at i:23631550 original size:16 final size:16
Alignment explanation
Indices: 23631525--23631572 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
23631515 TACATAGATT
23631525 TTATTATATTATTATTA
1 TTATT-TATTATTATTA
23631542 TTATTTATTATTA-TA
1 TTATTTATTATTATTA
*
23631557 TT-TTT-TTATTTTTA
1 TTATTTATTATTATTA
23631571 TT
1 TT
23631573 TATGCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 4 0.14
16 8 0.28
17 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:23631936 original size:112 final size:108
Alignment explanation
Indices: 23631806--23632104 Score: 415
Period size: 108 Copynumber: 2.7 Consensus size: 108
23631796 ATATTTAGCA
* * *
23631806 TTTGGAAACTCGAAAAAACGTCCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCAACCAAATAG
*
23631871 CTAAGA-ATCCGTTTAAAAAAAATTTCAAAATAAGACAATGTTTTGCG
65 CCAA-ATATCC-TTT--AAAAAATTTCAAAATAAGACAATGTTTTGCG
23631918 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATAGC
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATAGC
* * * *
23631983 CAAATATCCTTTCAAAAATTTTACAATAAGGCAATGTTTTGCG
66 CAAATATCCTTTAAAAAATTTCAAAATAAGACAATGTTTTGCG
* * **
23632026 TTTGGAAATTCGAG-GAACATGCCCTAATGTGCTGGGTTTCGA-TTTCTCGTTGGACCAAATAGC
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATAGC
23632089 CAAATATCCTCTTAAA
66 CAAATATCCT-TTAAA
23632105 TTTTAATTCA
Statistics
Matches: 172, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
106 29 0.17
107 30 0.17
108 41 0.24
110 4 0.02
111 28 0.16
112 40 0.23
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (108 bp):
TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCAACCAAATAGC
CAAATATCCTTTAAAAAATTTCAAAATAAGACAATGTTTTGCG
Found at i:23632037 original size:108 final size:109
Alignment explanation
Indices: 23631781--23632104 Score: 422
Period size: 112 Copynumber: 3.0 Consensus size: 109
23631771 AAAATAAATT
* * * * * * * *
23631781 TTTCTAAATGAGGCAATATTTAGCATTTGGAAACTCGAAAAAACGTCCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
23631846 CGATTTTTCTCGTTCAACCAAATAGCTAAGA-ATCCGTTTAAAAAAAA
66 CGA-TTTTCTCGTTCAACCAAATAGCCAA-ATATCC-TTT-AAAAAAA
*
23631893 TTTCAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
23631958 CGATTTTCTCGTTCAACCAAATAGCCAAATATCCTTT-CAAAAA
66 CGATTTTCTCGTTCAACCAAATAGCCAAATATCCTTTAAAAAAA
* * * *
23632001 TTTTACAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
**
23632065 CGA-TTTCTCGTTGGACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTCTCGTTCAACCAAATAGCCAAATATCCT-TTAAA
23632105 TTTTAATTCA
Statistics
Matches: 190, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
106 29 0.15
107 28 0.15
108 42 0.22
110 4 0.02
111 28 0.15
112 59 0.31
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTCTCGTTCAACCAAATAGCCAAATATCCTTTAAAAAAA
Found at i:23638449 original size:29 final size:29
Alignment explanation
Indices: 23638378--23638449 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
23638368 ATTGATATTG
* * *
23638378 ATAAAAAAT-ATTTAAATATTTAAATATT
1 ATAAAAAATCATTTAAATATGTAAAAACT
23638406 ATAAAAAATGC-TTTAAAT-TGTAAAAACT
1 ATAAAAAAT-CATTTAAATATGTAAAAACT
23638434 AGTAAAAAATCATTTA
1 A-TAAAAAATCATTTA
23638450 TTTTTTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (29 bp):
ATAAAAAATCATTTAAATATGTAAAAACT
Found at i:23638802 original size:20 final size:20
Alignment explanation
Indices: 23638777--23638816 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23638767 CGTAAAATGA
* *
23638777 TTTCTGGAAACTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
23638797 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
23638817 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:23641354 original size:15 final size:16
Alignment explanation
Indices: 23641329--23641361 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23641319 CATATCTCTT
*
23641329 TTTTTTAAATAATTTA
1 TTTTTTAAATAAATTA
23641345 TTTTTT-AATAAATTA
1 TTTTTTAAATAAATTA
23641360 TT
1 TT
23641362 GTATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTTAAATAAATTA
Found at i:23646992 original size:105 final size:105
Alignment explanation
Indices: 23646881--23647107 Score: 296
Period size: 105 Copynumber: 2.2 Consensus size: 105
23646871 ATTAATGCAT
* * * *
23646881 TATATGTGACAACATCAGGCTCAATGCCTTTCTTTCTCATTGTATCAACAATATCTTCAGCTTTA
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGCATCAACAATATCTACAGCTTCA
23646946 GAAACCATTCC-C-TCTTTGCAATGTGCATCAACCAATATAC
66 GAAACCA-TCCTCTTC-TTGCAATGTGCATCAACCAATATAC
* * * *
23646986 TGTATGTGACAACATTAGGTTCAATGCCTTGCTTTCTCATTGCATCAACAGTATCTACAGCTTCA
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGCATCAACAATATCTACAGCTTCA
* * * *
23647051 GAAATCATCCTCTTCTTGCAATGTGCATCTATCAATATAT
66 GAAACCATCCTCTTCTTGCAATGTGCATCAACCAATATAC
* *
23647091 TATACGTGACAATATCA
1 TATATGTGACAACATCA
23647108 AGAGAAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
104 3 0.03
105 99 0.95
106 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (105 bp):
TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGCATCAACAATATCTACAGCTTCA
GAAACCATCCTCTTCTTGCAATGTGCATCAACCAATATAC
Found at i:23649371 original size:27 final size:24
Alignment explanation
Indices: 23649337--23649390 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 24
23649327 ATATTTTTCA
23649337 TAATTTTTGAAAATTTTAAAATTTATT
1 TAATTTTTGAAAA--TTAAAA-TTATT
*
23649364 TAATTTTTTAAAATTAAAATTATT
1 TAATTTTTGAAAATTAAAATTATT
23649388 TAA
1 TAA
23649391 AAAAAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 6 0.23
27 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TAATTTTTGAAAATTAAAATTATT
Found at i:23649909 original size:2 final size:2
Alignment explanation
Indices: 23649902--23649936 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23649892 TTTGTTGAAT
23649902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23649937 GAATCCGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23659509 original size:39 final size:41
Alignment explanation
Indices: 23659439--23659528 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 41
23659429 AAAAAGTATT
* *
23659439 TATATTAAAAAAACACTACCATAAATATAATAAATGTTTTAC
1 TATATT-AAAAAACACTACAATAAATATAATAAATATTTTAC
* *
23659481 TATATTAAAAAACAC-A-AATAAATATAATATATATTTTAT
1 TATATTAAAAAACACTACAATAAATATAATAAATATTTTAC
*
23659520 TGTATTAAA
1 TATATTAAA
23659529 TATAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 27 0.63
40 1 0.02
41 9 0.21
42 6 0.14
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (41 bp):
TATATTAAAAAACACTACAATAAATATAATAAATATTTTAC
Found at i:23663241 original size:131 final size:131
Alignment explanation
Indices: 23662993--23663280 Score: 407
Period size: 131 Copynumber: 2.2 Consensus size: 131
23662983 TATTGTTTAC
* **
23662993 TTTATATATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTTCAAACAGCTTGT
1 TTTAT-TATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCAT
* * * *
23663058 TGATTTAATATCGCAGTTGATATCGTTAAGGTTTGCTGATTTGAATTCGCAATCTAAGTTCATTC
65 TGATTTAATATCGCAGCTGATATCGTTAAAGTTAGCTAATTTGAATTCGCAATCTAAGTTCATTC
23663123 AA
130 AA
*
23663125 TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAAACAGCTCATT
1 TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
* * * *
23663190 TATTTAATATCGCGGCTGATATTGTTAAAGTTAGCTAATTT-AATATTGCAATCTAAGTTCATTC
66 GATTTAATATCGCAGCTGATATCGTTAAAGTTAGCTAATTTGAAT-TCGCAATCTAAGTTCATTC
*
23663254 GA
130 AA
* * *
23663256 TTCAATATCATGAACAATCTCATTT
1 TTTATTATCATGAACAATCTTATTT
23663281 TTGTTACCTA
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
130 3 0.02
131 131 0.94
132 5 0.04
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (131 bp):
TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
GATTTAATATCGCAGCTGATATCGTTAAAGTTAGCTAATTTGAATTCGCAATCTAAGTTCATTCA
A
Found at i:23671527 original size:103 final size:104
Alignment explanation
Indices: 23671278--23671583 Score: 407
Period size: 103 Copynumber: 2.9 Consensus size: 104
23671268 TTATGACTTA
* * * * ** *
23671278 AGCTGGATTTTAGTAATTGATAATGGGTTAATGAAATGGGGTTATTGTTGATGGTTAAATTATGT
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* *
23671343 AGGAATTTTGTGGGTTTACAACTTAAAAAATTGGTGGTTTC
66 AGGAAATTTATGGGTTTACAACTT--AAAATTGGTGGTTTC
* *
23671384 AGCTAGATTTTAGTAATTGCTAGTGGATTTATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* * *
23671449 AGGAAATTTATGGGTTTATAGCTT-AAATTGGTGGTTTT
66 AGGAAATTTATGGGTTTACAACTTAAAATTGGTGGTTTC
* * *
23671487 AGTTGGATTTTAGTATTTGCTAGTGGATTAATGAAATGGGGTGATTGTTGATTGTTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* * *
23671552 AAGAAATTTATGCGTTTACCACTTAAAATTGG
66 AGGAAATTTATGGGTTTACAACTTAAAATTGG
23671584 CAACTTTTAG
Statistics
Matches: 175, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
103 92 0.53
104 7 0.04
106 76 0.43
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (104 bp):
AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
AGGAAATTTATGGGTTTACAACTTAAAATTGGTGGTTTC
Found at i:23674860 original size:27 final size:27
Alignment explanation
Indices: 23674827--23674899 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
23674817 TATGTCGAAT
23674827 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
23674854 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
23674886 TTGTTGGATATTGA
1 TTGTTAGATATTGA
23674900 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:23674879 original size:32 final size:32
Alignment explanation
Indices: 23674840--23674900 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
23674830 TTAGATATTG
23674840 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
23674872 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
23674901 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:23685071 original size:33 final size:33
Alignment explanation
Indices: 23685029--23685286 Score: 153
Period size: 33 Copynumber: 7.6 Consensus size: 33
23685019 TCTCCCAAGG
23685029 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
23685062 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CAT-T---GGT
*
23685104 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
23685131 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
23685164 GGTTGCTAAGTGCTGATTCCACCGTATCTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA---TT-CAT-T---GGT
*
23685207 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* * * *
23685234 GGTTGCTAAGTGTTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
23685267 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
23685287 ACCATATCTT
Statistics
Matches: 178, Mismatches: 16, Indels: 62
0.70 0.06 0.24
Matches are distributed among these distances:
27 42 0.24
28 4 0.02
31 3 0.02
32 4 0.02
33 60 0.34
34 4 0.02
35 3 0.02
37 2 0.01
38 4 0.02
39 3 0.02
40 1 0.01
41 2 0.01
42 24 0.13
43 22 0.12
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
Found at i:23685244 original size:103 final size:103
Alignment explanation
Indices: 23685005--23685331 Score: 550
Period size: 103 Copynumber: 3.2 Consensus size: 103
23684995 GTAAAGTGTA
* * *
23685005 TGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTA
1 TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTA
23685070 AGTGCTGATTCCACCGTATC-TTAAATGTGAAGGGGGT
66 AGTGCTGATTCCACCGTATCTTTAAATGTGAAGGGGGT
23685107 TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTA
1 TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTA
23685172 AGTGCTGATTCCACCGTATCTTTAAATGTGAAGGGGGT
66 AGTGCTGATTCCACCGTATCTTTAAATGTGAAGGGGGT
* *
23685210 TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGAATGATTGGTGGTTGCTA
1 TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTA
* * * *
23685275 AGTGCTGATTCCACCATATCTTTGAA-GGGAGGAGGGGT
66 AGTGCTGATTCCACCGTATCTTTAAATGTGAAG-GGGGT
23685313 TGCTAAGTGCTGATTCCCC
1 TGCTAAGTGCTGATTCCCC
23685332 GAATCACTGG
Statistics
Matches: 214, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
102 86 0.40
103 128 0.60
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (103 bp):
TGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTA
AGTGCTGATTCCACCGTATCTTTAAATGTGAAGGGGGT
Found at i:23688965 original size:19 final size:20
Alignment explanation
Indices: 23688940--23688996 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
23688930 ATCCAAACAC
23688940 CAGAAAAGTAAATCATTTCT
1 CAGAAAAGTAAATCATTTCT
*
23688960 -AGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTCT
* *
23688979 CAGAAAAGAAAATTATTT
1 CAGAAAAGTAAATCATTT
23688997 TCCAGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTCT
Found at i:23688985 original size:20 final size:20
Alignment explanation
Indices: 23688940--23689004 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
23688930 ATCCAAACAC
*
23688940 CAGAAAAGTAAATCATTTCT
1 CAGAAAAGTAAATCATTTTT
23688960 -AGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTTT
* * *
23688979 CAGAAAAGAAAATTATTTTC
1 CAGAAAAGTAAATCATTTTT
23688999 CAGAAA
1 CAGAAA
23689005 TTATTTTCCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.45
20 22 0.55
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTTT
Found at i:23689020 original size:15 final size:15
Alignment explanation
Indices: 23688985--23689025 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23688975 TTTTCAGAAA
23688985 AGAAAATTATTTTCC
1 AGAAAATTATTTTCC
23689000 AG-AAATTATTTTCC
1 AGAAAATTATTTTCC
*
23689014 GGAAAA-TATTTT
1 AGAAAATTATTTT
23689026 ACTAACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (15 bp):
AGAAAATTATTTTCC
Found at i:23690389 original size:105 final size:105
Alignment explanation
Indices: 23690065--23690485 Score: 474
Period size: 104 Copynumber: 4.0 Consensus size: 105
23690055 TCCCTACTTG
* * ***
23690065 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTGGTGCTTCA-A
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* *
23690129 AACCATCCCCTTCTTGCAATGTGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
23690169 TGA-GTGTCAACGTCAGGTTCAATACCTTGCTTTCTCA-TCGTGTCAACAATATCTTCAGCTT-A
1 T-ATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTC-TGTCAACAATATCTTCAGCTTCA
* * * * **
23690231 GGAACCATTCCCTCCTTGCAATGCGCATTAACCAACATGTTA
64 GAAACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
23690273 TATGTGACAACATCAGGCTCAATGCCTAGCTTTTTCATACTGTCAACAATATCTTCAGCTTTAGA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * *
23690338 AATCATTCCCTTCTTGCAATATGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * ** * *
23690378 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTTAACAATATCTAGAACTTCAAA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * * *
23690443 AATCATTCCCTCCTTG-AAGTGTGCATCAATCAATCTATTA
66 AACCATTCCCTCCTTGCAA-TGTGCATCAACCAATATACTA
23690483 TAT
1 TAT
23690486 ATAAAAATAT
Statistics
Matches: 262, Mismatches: 48, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
103 3 0.01
104 133 0.51
105 126 0.48
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (105 bp):
TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
Found at i:23706448 original size:12 final size:12
Alignment explanation
Indices: 23706431--23706460 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23706421 CCTCACACGT
23706431 TCGTGTGCTAGG
1 TCGTGTGCTAGG
23706443 TCGTGTGCTAGG
1 TCGTGTGCTAGG
*
23706455 CCGTGT
1 TCGTGT
23706461 AACTGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCTAGG
Found at i:23710615 original size:85 final size:85
Alignment explanation
Indices: 23710479--23710642 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
23710469 CACTTTCACC
* * * * *
23710479 ATAAGTAAGATACTGTCAAAGATCATGTAAAAATCCAATTTGAGATGATCCTGTGACATACTTGC
1 ATAACTAAGATAATGTCAAAGATCATGTAAAAATCCAATTTGAGATAATCCTATGACATACCTGC
23710544 AACAACACAAGTATTTCAAA
66 AACAACACAAGTATTTCAAA
* * * * * ** *
23710564 ATAACTAAGATAATGTCAGAGATCATGTCAGAATCTAATTTTAGATAATCCTATGATGTGCCTGC
1 ATAACTAAGATAATGTCAAAGATCATGTAAAAATCCAATTTGAGATAATCCTATGACATACCTGC
*
23710629 AACAACATAAGTAT
66 AACAACACAAGTAT
23710643 GTAGAGCATT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (85 bp):
ATAACTAAGATAATGTCAAAGATCATGTAAAAATCCAATTTGAGATAATCCTATGACATACCTGC
AACAACACAAGTATTTCAAA
Found at i:23712473 original size:28 final size:28
Alignment explanation
Indices: 23712442--23712588 Score: 133
Period size: 28 Copynumber: 5.2 Consensus size: 28
23712432 AGACTTATTC
**
23712442 TTTCATATTACGCCACAAAGAAATTTCT
1 TTTCATATTACGCCACAAAGGCATTTCT
* * *
23712470 TTTCATA-AATCGTCACAAAGGCTTATTC-
1 TTTCATATTA-CGCCACAAAGGCAT-TTCT
23712498 TTTCATATTACGCCACAAAGGCATTTCT
1 TTTCATATTACGCCACAAAGGCATTTCT
* *
23712526 TTTCATGAAT-CGCCACAGAGG-ATTAT-T
1 TTTCAT-ATTACGCCACAAAGGCATT-TCT
* *
23712553 CTTTCATATTATGCCACAAAGACATTTCT
1 -TTTCATATTACGCCACAAAGGCATTTCT
23712582 TTTCATA
1 TTTCATA
23712589 AATTGCCACA
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
27 10 0.11
28 75 0.79
29 10 0.11
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (28 bp):
TTTCATATTACGCCACAAAGGCATTTCT
Found at i:23712495 original size:56 final size:56
Alignment explanation
Indices: 23712412--23712601 Score: 272
Period size: 56 Copynumber: 3.4 Consensus size: 56
23712402 CAAGGTTATC
* * * * *
23712412 CTTTTCATGAATCGCTACAGAGACTTATTCTTTCATATTACGCCACAAAGAAATTT
1 CTTTTCATAAATCGCCACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* *
23712468 CTTTTCATAAATCGTCACAAAGGCTTATTCTTTCATATTACGCCACAAAGGCATTT
1 CTTTTCATAAATCGCCACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* * * *
23712524 CTTTTCATGAATCGCCACAGAGGATTATTCTTTCATATTATGCCACAAAGACATTT
1 CTTTTCATAAATCGCCACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
*
23712580 CTTTTCATAAATTGCCACAAAG
1 CTTTTCATAAATCGCCACAAAG
23712602 TCTTCCATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (56 bp):
CTTTTCATAAATCGCCACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
Found at i:23717086 original size:21 final size:22
Alignment explanation
Indices: 23717062--23717106 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
23717052 GTTGAGAAGG
*
23717062 AAGTTGCTACTGTAGAA-AAAA
1 AAGTTGCTACTGAAGAAGAAAA
* *
23717083 AAGTTGTTGCTGAAGAAGAAAA
1 AAGTTGCTACTGAAGAAGAAAA
23717105 AA
1 AA
23717107 TTACTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGTTGCTACTGAAGAAGAAAA
Done.