Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009631.1 Hibiscus syriacus cultivar Beakdansim tig00117027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 652059
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:320 original size:21 final size:20
Alignment explanation
Indices: 290--360 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 20
280 GATAGACACT
*
290 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
*
311 TTACATTATATAAACGATACCTA
1 TTACATTATA-ACAC--TACCTA
*
334 TTACATTATAAGCGCTACCTA
1 TTACATTATAA-CACTACCTA
355 TTACAT
1 TTACAT
361 CATATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 23 0.55
22 2 0.05
23 17 0.40
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:331 original size:23 final size:23
Alignment explanation
Indices: 305--365 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
295 ATATAACCAC
305 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
328 TACCTATTACA-T-TATAAGCGC
1 TACCTATTACATTATATAAACGA
*
349 TACCTATTACATCATAT
1 TACCTATTACATTATAT
366 TTTTACCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:757 original size:23 final size:23
Alignment explanation
Indices: 720--791 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
710 ACACTTTACA
*
720 ATAAACCACTACCTATTACATTAT
1 ATAAACGA-TACCTATTACATTAT
744 ATAAACGATACCTATTACATTAT
1 ATAAACGATACCTATTACATTAT
* * *
767 ATAAGCGCTACCTATTACATCAT
1 ATAAACGATACCTATTACATTAT
790 AT
1 AT
792 TTTACCTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 37 0.84
24 7 0.16
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
ATAAACGATACCTATTACATTAT
Found at i:797 original size:425 final size:427
Alignment explanation
Indices: 1--1000 Score: 1831
Period size: 425 Copynumber: 2.3 Consensus size: 427
1 TTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTAC-A-ATTAATTTA
1 TTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTA
64 ATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTT
66 ATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAA-TT
129 TTAATTTAACAACATTAAATATATATCGTAAGTAAAAAATAAATCATTAGACGCCTATAATTACT
130 TTAATTTAACAACATT-AATATATATCGTAAGTAAAAAATAAATCATTAGACGCCTATAATTACT
194 AAATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
194 AAATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
259 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
259 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
324 ACGATACCTATTACATTATAAGCGCTACCTATTACATCATATTTTTACCT-TTATATTGAAAGTG
324 ACGATACCTATTACATTATAAGCGCTACCTATTACATCATATTTTTACCTATTATA-TGAAAGTG
*
388 TCCATACTTTTTATAAAAAGGATCGATACTTC-TTTAAAG
388 TCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAG
427 TTATGTAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTA
1 TTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTA
490 ATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTT
66 ATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTT
555 TAATTTAACAACATTAA-ATATATCGTAACGTAAAAAATAAATCA-TAGACGCCTATAATTACTA
131 TAATTTAACAACATTAATATATATCGTAA-GTAAAAAATAAATCATTAGACGCCTATAATTACTA
618 AATTAAAATCTTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
195 AATTAAAATC--TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
683 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATA-AACCACTACCTATTACATTATATA
258 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
747 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATGAAAG
323 AACGATACCTATTACA-T-TATAAGCGCTACCTATTACATCATATTTTTACCTATTATATGAAAG
811 TGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAG
386 TGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAG
853 TTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTT
1 TTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTT
*
918 AATAATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATT
65 AATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATT
983 TTAATTTAACAACATTAA
130 TTAATTTAACAACATTAA
1001 CCAAAGATAA
Statistics
Matches: 560, Mismatches: 2, Indels: 21
0.96 0.00 0.04
Matches are distributed among these distances:
423 40 0.07
424 57 0.10
425 191 0.34
426 143 0.26
427 5 0.01
428 40 0.07
429 84 0.15
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (427 bp):
TTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTA
ATAATTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTT
TAATTTAACAACATTAATATATATCGTAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
ATTAAAATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
TGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAAC
GATACCTATTACATTATAAGCGCTACCTATTACATCATATTTTTACCTATTATATGAAAGTGTCC
ATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAG
Found at i:1261 original size:39 final size:39
Alignment explanation
Indices: 1207--1286 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
1197 CAGTTGTAGA
*
1207 TTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGAAT
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGAAT
* *
1246 TTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGGAT
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGAAT
1285 TT
1 TT
1287 GATGAGCATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (39 bp):
TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGAAT
Found at i:1566 original size:18 final size:18
Alignment explanation
Indices: 1543--1579 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1533 CGAAATATAT
1543 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1561 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1579 A
1 A
1580 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2023 original size:28 final size:26
Alignment explanation
Indices: 1991--2052 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
1981 GATAGATACT
*
1991 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
2019 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
2042 TTACATTATAT
1 TTACAATATAT
2053 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:2030 original size:23 final size:23
Alignment explanation
Indices: 2000--2053 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
1990 TTTACAATAT
* *
2000 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
2023 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
2046 ATTATATA
1 ATTATATA
2054 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:5254 original size:180 final size:182
Alignment explanation
Indices: 4528--5510 Score: 1773
Period size: 181 Copynumber: 5.4 Consensus size: 182
4518 CGACACATTT
* * * *
4528 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4593 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
4658 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
4710 TAGGTTGTAGACCTATTCGCTCATACAACCGG--TATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4773 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTTAAATCGTATCGACACAT
*
4838 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTTGATA
130 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
4891 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4956 ATTACATTAT-ATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
5020 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
5072 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
*
5137 ATTACATTATAA-T-TGGGTTCCGATGTGTAAATGTCGACAATTTTTAAATCGTATCGACACATT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
*
5200 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTTGATA
131 TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
5252 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTAC-AAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
5316 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTTAAATCGTATCGACACAT
5381 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
130 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * *
5434 TAGGTTGTAGACCTATTCGCGCATA-AACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
**
5498 ATTTTATTATAAT
66 ATTACATTATAAT
5511 ATGTTGAAAG
Statistics
Matches: 776, Mismatches: 17, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
179 21 0.03
180 228 0.29
181 309 0.40
182 177 0.23
183 41 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (182 bp):
TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTAAATCGTATCGACACATT
TTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:6977 original size:3 final size:3
Alignment explanation
Indices: 6969--7043 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
6959 ACTTGTTTGG
* * * ** * *
6969 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
7017 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
7044 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:6986 original size:12 final size:12
Alignment explanation
Indices: 6973--7055 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
6963 GTTTGGATCA
*
6973 TCATCTTCATCA
1 TCATCTTCATCG
* * *
6985 TCATCATCGTCA
1 TCATCTTCATCG
6997 TCATCTTCATCG
1 TCATCTTCATCG
* *
7009 CCAGCTTCATCG
1 TCATCTTCATCG
*
7021 TCATCATCATCG
1 TCATCTTCATCG
7033 TCATCTTCATCG
1 TCATCTTCATCG
*
7045 TCAGCTTCATC
1 TCATCTTCATC
7056 TTCTGCGACC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:7017 original size:36 final size:36
Alignment explanation
Indices: 6977--7055 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
6967 GGATCATCAT
*
6977 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
7013 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
7049 CTTCATC
1 CTTCATC
7056 TTCTGCGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:7056 original size:18 final size:18
Alignment explanation
Indices: 6997--7058 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
6987 ATCATCGTCA
*
6997 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
7015 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
7033 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
7051 TCATCTTC
1 TCATCTTC
7059 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:7058 original size:6 final size:6
Alignment explanation
Indices: 6973--7058 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
6963 GTTTGGATCA
* * * * * * * *
6973 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
7021 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
7059 TGCGACCGCT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:8855 original size:197 final size:197
Alignment explanation
Indices: 8512--9787 Score: 2448
Period size: 197 Copynumber: 6.5 Consensus size: 197
8502 TTTAAATTAG
8512 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
8576 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
8641 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
8706 AA
196 AA
8708 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
8773 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
8838 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTTTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
8903 AA
196 AA
8905 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
8970 ATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
9035 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
9100 AA
196 AA
9102 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9167 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
9232 CGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
9297 AAA
195 AAA
9300 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9365 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
9430 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
9495 AA
196 AA
*
9497 TATCGACATAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9562 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
9627 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
9692 AAA
195 AAA
* *
9695 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACATATTCTCACATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9760 ATTGTACCGGTTAGATTG-AAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
9788 CCTTTTGGCC
Statistics
Matches: 1066, Mismatches: 11, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
196 8 0.01
197 775 0.73
198 283 0.27
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:9556 original size:395 final size:394
Alignment explanation
Indices: 8512--9787 Score: 2448
Period size: 395 Copynumber: 3.2 Consensus size: 394
8502 TTTAAATTAG
8512 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
8576 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
8641 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
8706 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
8771 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
8836 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTTTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
8901 TAAA
391 TAAA
8905 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
8970 ATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
9035 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
9100 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
9165 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
9230 ATCGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
326 ATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAA
9295 ATAAA
390 ATAAA
9300 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9365 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
9430 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
*
9495 AATATCGACATAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
9560 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
9625 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AA
*
9690 AAAAA
390 ATAAA
* *
9695 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACATATTCTCACATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9760 ATTGTACCGGTTAGATTG-AAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
9788 CCTTTTGGCC
Statistics
Matches: 870, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
393 8 0.01
394 386 0.44
395 476 0.55
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (394 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
TAAA
Found at i:9643 original size:592 final size:592
Alignment explanation
Indices: 8512--9787 Score: 2450
Period size: 592 Copynumber: 2.2 Consensus size: 592
8502 TTTAAATTAG
8512 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
8576 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
8641 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
8706 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
8771 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
8836 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTTTGGAAA
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
*
8901 TAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
391 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
*
8966 TATAATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
456 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
9031 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-
521 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGA
*
9095 AAATAAA
586 AAAAAAA
9102 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9167 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
9232 CGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
9297 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
9362 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
9427 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAA
*
9492 AAAAATATCGACATAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCG
390 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCG
9557 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
455 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
9622 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG
520 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG
9687 AAAAAAAA
585 AAAAAAAA
* *
9695 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACATATTCTCACATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
9760 ATTGTACCGGTTAGATTG-AAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
9788 CCTTTTGGCC
Statistics
Matches: 675, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
590 8 0.01
591 152 0.23
592 428 0.63
593 87 0.13
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (592 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGA
AAAAAAA
Found at i:9945 original size:19 final size:19
Alignment explanation
Indices: 9917--9960 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9907 TTCACAAACG
9917 AAAA-TATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
9935 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
9954 AAAATTA
1 AAAATTA
9961 ACCCTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:11792 original size:32 final size:32
Alignment explanation
Indices: 11750--11810 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
11740 TTAATATCAC
*
11750 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
11782 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
11811 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:11884 original size:21 final size:21
Alignment explanation
Indices: 11844--11908 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
11834 CCCCTTATGC
* *
11844 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
11865 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
11886 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
11907 CT
1 CT
11909 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:14157 original size:17 final size:18
Alignment explanation
Indices: 14135--14177 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
14125 ATATATCCGG
14135 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
14152 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
14172 TATCAT
1 TATCAT
14178 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:14195 original size:20 final size:19
Alignment explanation
Indices: 14140--14186 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
14130 TCCGGTATCA
14140 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
14159 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
14180 TTTTACC
1 TTTTACC
14187 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:14334 original size:20 final size:20
Alignment explanation
Indices: 14308--14353 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
14298 CACGTTTAAA
14308 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
14327 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
14348 TTTACC
1 TTTACC
14354 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:15256 original size:33 final size:33
Alignment explanation
Indices: 15210--15296 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
15200 TTTAATTATT
* * *
15210 AAATAAAACTAATGGCATGTTTTTACATAAAAG
1 AAATATAATTAATGACATGTTTTTACATAAAAG
15243 AAATATAATTAATGACATGTTTTTACATAAAAG
1 AAATATAATTAATGACATGTTTTTACATAAAAG
15276 AAATATAATTAATGACATGTT
1 AAATATAATTAATGACATGTT
15297 GAATTATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (33 bp):
AAATATAATTAATGACATGTTTTTACATAAAAG
Found at i:17750 original size:41 final size:41
Alignment explanation
Indices: 17700--17793 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
17690 AACAATCCCT
*
17700 ATCCTTATCCCCATTTGAGCTTTGGGGATAAAACTTCCCCC
1 ATCCCTATCCCCATTTGAGCTTTGGGGATAAAACTTCCCCC
* *
17741 ATCTCTATCCCCATTTGAGCTTTGGGGATAAAACTTCTCCC
1 ATCCCTATCCCCATTTGAGCTTTGGGGATAAAACTTCCCCC
17782 ATCCCTATCCCC
1 ATCCCTATCCCC
17794 GTGGGTGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (41 bp):
ATCCCTATCCCCATTTGAGCTTTGGGGATAAAACTTCCCCC
Found at i:18699 original size:24 final size:25
Alignment explanation
Indices: 18654--18702 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
18644 ATCATGTATG
*
18654 AATTTAGTTGAGATATATTATGATA
1 AATTTAGTTGAGATATAATATGATA
*
18679 AATTTA-TTTAGATATAATATGATA
1 AATTTAGTTGAGATATAATATGATA
18703 GTAACCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
AATTTAGTTGAGATATAATATGATA
Found at i:20773 original size:21 final size:20
Alignment explanation
Indices: 20749--20803 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
20739 TTTTTACCAC
20749 TTTTTTATATTTCTTTATACA
1 TTTTTTATATTT-TTTATACA
**
20770 TTTTTGTA-ATATTTTTATTTA
1 TTTTT-TATAT-TTTTTATACA
20791 TTTTTTATATTTT
1 TTTTTTATATTTT
20804 AAACAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 20 0.69
22 4 0.14
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTATATTTTTTATACA
Found at i:20856 original size:16 final size:17
Alignment explanation
Indices: 20810--20858 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
20800 TTTTAAACAA
*
20810 TTTAAATATGTTTTTACAT
1 TTTAAATAT-TTTGT-CAT
*
20829 TTTCAATATTTTGTCAT
1 TTTAAATATTTTGTCAT
20846 TTTAAAT-TTTTGT
1 TTTAAATATTTTGT
20859 AGAGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 4 0.15
19 8 0.30
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTAAATATTTTGTCAT
Found at i:27057 original size:20 final size:20
Alignment explanation
Indices: 27032--27078 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
27022 AACGCGATTT
27032 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
*
27052 T-TAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
27071 TGAAAAAT
1 TGAAAAAT
27079 CCAAAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:28216 original size:12 final size:12
Alignment explanation
Indices: 28199--28236 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
28189 AACCATGTTA
28199 GCATCATGAACC
1 GCATCATGAACC
28211 GCATCATGAACC
1 GCATCATGAACC
28223 GCATCATGAACC
1 GCATCATGAACC
28235 GC
1 GC
28237 CACATCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (12 bp):
GCATCATGAACC
Found at i:28830 original size:31 final size:33
Alignment explanation
Indices: 28770--28830 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
28760 TAAAAGAAAA
*
28770 AATAATTTTGAAAGTTAGAGTGATTAAATTAGG
1 AATAATTTTGAAAGTTAGAGTAATTAAATTAGG
28803 AATAA-TTTGAAAGTTA-AGTAATTAAATT
1 AATAATTTTGAAAGTTAGAGTAATTAAATT
28831 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 11 0.41
32 11 0.41
33 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (33 bp):
AATAATTTTGAAAGTTAGAGTAATTAAATTAGG
Found at i:36218 original size:20 final size:20
Alignment explanation
Indices: 36193--36288 Score: 174
Period size: 20 Copynumber: 4.8 Consensus size: 20
36183 TCTTGGGTAC
36193 TTTCGAAACTCTTGTAGAAG
1 TTTCGAAACTCTTGTAGAAG
36213 TTTCGAAACTCTTGTAGAAG
1 TTTCGAAACTCTTGTAGAAG
36233 TTTCGAAACTCTTGTAGAAG
1 TTTCGAAACTCTTGTAGAAG
36253 TTTCGAAACTCTTGTAGAAG
1 TTTCGAAACTCTTGTAGAAG
*
36273 TTTTGAAACTTCTTGT
1 TTTCGAAAC-TCTTGT
36289 CAATGCTTGT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
20 68 0.92
21 6 0.08
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (20 bp):
TTTCGAAACTCTTGTAGAAG
Found at i:45521 original size:41 final size:41
Alignment explanation
Indices: 45428--45655 Score: 340
Period size: 41 Copynumber: 5.6 Consensus size: 41
45418 ATTCGCGTTG
*
45428 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
45469 CA-TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
45509 CATTTCGCGTTGCTATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
45550 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
45591 CATTTCGCGTTGCGATAGTCT-ACAAT-GTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTC
* *
45632 CAAATT--CGTTGCGATAGTTAAAAA
1 C-ATTTCGCGTTGCGATAGTTGAAAA
45656 AAAAGATTTT
Statistics
Matches: 174, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
39 1 0.01
40 54 0.31
41 115 0.66
42 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:45624 original size:21 final size:19
Alignment explanation
Indices: 45598--45649 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
45588 TTCCATTTCG
*
45598 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATAGTCCA-AAT-T
**
45619 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
45638 CGTTGCGATAGT
1 CGTTGCGATAGT
45650 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:45738 original size:6 final size:6
Alignment explanation
Indices: 45727--45759 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45717 GACACGTATT
45727 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
45760 CTACCCGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:46423 original size:22 final size:22
Alignment explanation
Indices: 46398--46467 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
46388 AATTTGGAAA
46398 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* **
46420 ATCGCAACG--AA-TTTAGAAA
1 ATCGCAACGACAACTGTAGACT
46439 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
46461 ATCGCAA
1 ATCGCAA
46468 TGCGAACTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 14 0.36
20 2 0.05
21 2 0.05
22 21 0.54
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:46433 original size:41 final size:41
Alignment explanation
Indices: 46376--46489 Score: 167
Period size: 41 Copynumber: 2.8 Consensus size: 41
46366 TTTTTTTTTA
* *
46376 ACTATCACAATGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
46417 ACTATCGCAACGAATTTAGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
46458 ACTATCGCAATGCGAA-CTGGAAAATCGCAACG
1 ACTATCGCAA--CGAATTTGGAAAATCGCAACG
46490 CGATTTTCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 48 0.73
42 14 0.21
43 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:46442 original size:19 final size:19
Alignment explanation
Indices: 46387--46448 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
46377 CTATCACAAT
*
46387 GAATTTGGAAAATCGCAAC
1 GAATTTAGAAAATCGCAAC
* **
46406 GACAACTGTAGACTATCGCAAC
1 G--AA-TTTAGAAAATCGCAAC
46428 GAATTTAGAAAATCGCAAC
1 GAATTTAGAAAATCGCAAC
46447 GA
1 GA
46449 CAACTGTAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 16 0.48
20 2 0.06
21 2 0.06
22 13 0.39
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (19 bp):
GAATTTAGAAAATCGCAAC
Found at i:46475 original size:22 final size:21
Alignment explanation
Indices: 46409--46476 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
46399 TCGCAACGAC
46409 AACTGTAGACTATCGCAA-CG
1 AACTGTAGACTATCGCAAGCG
* **
46429 AA-TTTAGAAAATCGCAA-CG
1 AACTGTAGACTATCGCAAGCG
46448 ACAACTGTAGACTATCGCAATGCG
1 --AACTGTAGACTATCGCAA-GCG
46472 AACTG
1 AACTG
46477 GAAAATCGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 14 0.38
20 2 0.05
21 2 0.05
22 17 0.46
24 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
AACTGTAGACTATCGCAAGCG
Found at i:46486 original size:20 final size:20
Alignment explanation
Indices: 46461--46594 Score: 124
Period size: 20 Copynumber: 6.6 Consensus size: 20
46451 ACTGTAGACT
* *
46461 ATCGCAATGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
46481 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
46502 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
46522 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
* *
46543 ATCGCAACGCGAACTAGAAA
1 ATCGCAACGCGAAATGGAAA
46563 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
46583 ATCGCAACGCGA
1 ATCGCAACGCGA
46595 TTTTCGCAAC
Statistics
Matches: 89, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
20 59 0.66
21 30 0.34
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:46503 original size:41 final size:41
Alignment explanation
Indices: 46458--46794 Score: 207
Period size: 41 Copynumber: 8.4 Consensus size: 41
46448 ACAACTGTAG
*
46458 ACTATCGCAATGCGAACTGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
*
46499 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
* ** **
46540 ACTATCGCAACGCGAACTAGAAAATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
* ** * **
46581 A-AATCGCAACGCG-A-T----TTTCGCAACG-AATTTGGA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
* ** * **
46614 A-AATCGCAACGAC-AACTGTAGACTATCGCAACG-AATTTGGA
1 ACTATCGCAACG-CGAACTG--GAAAATCGCAACGCGATTTTCA
* **
46655 A-AATCGCAACGAC-AACTGTAGACTATCGCAACGCGATTTTCA
1 ACTATCGCAACG-CGAACTG--GAAAATCGCAACGCGATTTTCA
** **
46697 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
* ** ** *
46738 A-AATCGCAACGCGATTTTCAACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAACTGGAA-AATCGCAACGCGATTTTCA
* *
46779 ATTATCGTAACGCGAA
1 ACTATCGCAACGCGAA
46795 ATGCAACGCG
Statistics
Matches: 244, Mismatches: 38, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
33 16 0.07
34 10 0.04
35 1 0.00
38 1 0.00
39 1 0.00
40 26 0.11
41 157 0.64
42 18 0.07
43 14 0.06
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAACTGGAAAATCGCAACGCGATTTTCA
Found at i:46503 original size:82 final size:81
Alignment explanation
Indices: 46417--46574 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 81
46407 ACAACTGTAG
* * *
46417 ACTATCGCAA-CGAATTTAGAAAATCGCAACGACAACTGT-AGACTATCGCAATGCGAACTGGAA
1 ACTATCGCAACCGAA-ATAGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAACTAGAA
46480 AATCGCAACGCGATTTTCA
63 AATCGCAACGCGATTTTCA
* * * *
46499 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAACTAGAAAA
1 ACTATCGCAAC-CGAAATAGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAACTAGAAAA
46564 TCGCAACGCGA
65 TCGCAACGCGA
46575 AATGGAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
82 47 0.71
83 15 0.23
84 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (81 bp):
ACTATCGCAACCGAAATAGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAACTAGAAAAT
CGCAACGCGATTTTCA
Found at i:46507 original size:21 final size:21
Alignment explanation
Indices: 46481--46554 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
46471 GAACTGGAAA
46481 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
46502 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
46522 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
46543 ATCGCAACGCGA
1 ATCGCAACGCGA
46555 ACTAGAAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:46622 original size:19 final size:19
Alignment explanation
Indices: 46598--46666 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
46588 AACGCGATTT
46598 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
46617 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
46639 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
46658 TCGCAACGA
1 TCGCAACGA
46667 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:46644 original size:22 final size:22
Alignment explanation
Indices: 46616--46687 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
46606 AATTTGGAAA
46616 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
46638 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
46657 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
46679 ATCGCAACG
1 ATCGCAACG
46688 CGATTTTCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:46702 original size:21 final size:21
Alignment explanation
Indices: 46676--46793 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
46666 ACAACTGTAG
46676 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
46697 ACTATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGATTTTCA
* ** **
46718 A-AATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGATTTTCA
*
46738 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
46758 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
* *
46779 ATTATCGTAACGCGA
1 ACTATCGCAACGCGA
46794 AATGCAACGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 35 0.42
21 49 0.58
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:46725 original size:20 final size:20
Alignment explanation
Indices: 46700--46751 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
46690 ATTTTCAACT
46700 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
46720 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
46740 ATCGCAACGCGA
1 ATCGCAACGCGA
46752 TTTTCAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.25, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAACTGGAAA
Found at i:46726 original size:177 final size:176
Alignment explanation
Indices: 46421--46751 Score: 452
Period size: 177 Copynumber: 1.9 Consensus size: 176
46411 CTGTAGACTA
46421 TCGCAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAATGCGAACTGGAAAATCGC
1 TCGCAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAA-GCGAACTGGAAAATCGC
* * * * ** * *
46486 AACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAAC
65 AACGCAACTGTCAACTATCGCAACGCGAAATGCAAAATCGCAACGCGAACTGCAACAATCGCAAC
46551 GCGAACTAGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
130 GCGAACTAGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
* *
46598 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATTTGGAAAATCGC
1 TCGCAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAAGCGAA-CTGGAAAATCGC
** * * *
46662 AACGACAACTGT-AGACTATCGCAACGCGATTTTCAACTATCGCAACGCGAACTGGAA-AATCGC
65 AACG-CAACTGTCA-ACTATCGCAACGCGAAATGCAA-AATCGCAACGCGAACTGCAACAATCGC
*
46725 AACGCGAACTGGAAAATCGCAACGCGA
127 AACGCGAACTAGAAAATCGCAACGCGA
46752 TTTTCAACTA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
175 4 0.03
176 16 0.12
177 99 0.74
178 15 0.11
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (176 bp):
TCGCAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCGCAAGCGAACTGGAAAATCGCA
ACGCAACTGTCAACTATCGCAACGCGAAATGCAAAATCGCAACGCGAACTGCAACAATCGCAACG
CGAACTAGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
Found at i:46759 original size:61 final size:63
Alignment explanation
Indices: 46635--46772 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 63
46625 ACAACTGTAG
* **
46635 ACTATCGCAA--CGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATCTGGAAAATCGCAACGACAACTG-AGAAAATCGCAACGCGATTTTCA
46697 ACTATCGCAACGCGAA-CTGGAAAATCGCAACG-CGAACTG-GAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATCTGGAAAATCGCAACGAC-AACTGAGAAAATCGCAACGCGATTTTCA
46758 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
46773 TTTTCAATTA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
61 35 0.50
62 11 0.16
63 20 0.29
64 4 0.06
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (63 bp):
ACTATCGCAACGCGAATCTGGAAAATCGCAACGACAACTGAGAAAATCGCAACGCGATTTTCA
Found at i:47771 original size:20 final size:20
Alignment explanation
Indices: 47748--47815 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
47738 GTTATAAATG
*
47748 TTATATTATAATTATTAATA
1 TTATATTATAACTATTAATA
*
47768 TTATATTATAACTATTATTA
1 TTATATTATAACTATTAATA
* *
47788 -T-TATTATAACAATTAAAA
1 TTATATTATAACTATTAATA
47806 TTATAATTAT
1 TTAT-ATTAT
47816 TATTAGTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.35
19 2 0.05
20 19 0.47
21 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATATTATAACTATTAATA
Found at i:47788 original size:3 final size:3
Alignment explanation
Indices: 47751--47837 Score: 50
Period size: 3 Copynumber: 29.3 Consensus size: 3
47741 ATAAATGTTA
* * * * * *
47751 TAT TAT AAT TAT TAA TAT TA- TAT TAT AAC TAT TAT TAT TAT TAT AAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
47798 AAT TAA AAT TAT AAT TAT TAT TAG TAT CAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47838 GCTTATGTTT
Statistics
Matches: 59, Mismatches: 24, Indels: 2
0.69 0.28 0.02
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (3 bp):
TAT
Found at i:53550 original size:20 final size:20
Alignment explanation
Indices: 53525--53581 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
53515 GCGAATATCC
53525 AGATTCGCAATGCGATTGTA
1 AGATTCGCAATGCGATTGTA
*
53545 AGATTCGCAACGCGATTGTA
1 AGATTCGCAATGCGATTGTA
53565 AGATTCGCAATGCGATT
1 AGATTCGCAATGCGATT
53582 TTGAAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (20 bp):
AGATTCGCAATGCGATTGTA
Found at i:53660 original size:19 final size:20
Alignment explanation
Indices: 53583--53672 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 20
53573 AATGCGATTT
*
53583 TGAAAAATGTGTTACGATAG
1 TGAAAAATGTGTTGCGATAG
* *
53603 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
53622 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
53647 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
53666 TGAAAAA
1 TGAAAAA
53673 ATCCAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
19 33 0.56
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:53660 original size:44 final size:41
Alignment explanation
Indices: 53581--53662 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
53571 GCAATGCGAT
* *
53581 TTTGAAAAATGTGTTACGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTACGATAGTGAAAAAGTGTTGCGAGAG
*
53622 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTACGATAGTGAAAAAGTGTTGCGA
53663 TAGTGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
43 2 0.06
44 24 0.69
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTACGATAGTGAAAAAGTGTTGCGAGAG
Found at i:53985 original size:6 final size:6
Alignment explanation
Indices: 53974--54000 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
53964 TCCCGTCTCG
53974 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
54001 AATATGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:54114 original size:21 final size:21
Alignment explanation
Indices: 54090--54191 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
54080 CGTTGCGATT
54090 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAACGCGAAC
** * *
54111 TTGGACTATCGCAA--CAAAT
1 TTGGAAAATCGCAACGCGAAC
54130 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAACGCGAAC
* ** * *
54151 TTCGACTATCGCAA--TGAAT
1 TTGGAAAATCGCAACGCGAAC
*
54170 TTGGAAAATCGCAACGTGAAC
1 TTGGAAAATCGCAACGCGAAC
54191 T
1 T
54192 CCGACCATCG
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 29 0.48
21 31 0.52
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (21 bp):
TTGGAAAATCGCAACGCGAAC
Found at i:54144 original size:40 final size:40
Alignment explanation
Indices: 54089--54214 Score: 198
Period size: 40 Copynumber: 3.1 Consensus size: 40
54079 TCGTTGCGAT
* *
54089 TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACAAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
54129 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* * *
54169 TTTGGAAAATCGCAACGTGAACTCCGACCATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
54209 TTTGGA
1 TTTGGA
54215 CTAAAGTAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (40 bp):
TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
Found at i:54182 original size:19 final size:20
Alignment explanation
Indices: 54089--54184 Score: 79
Period size: 19 Copynumber: 4.8 Consensus size: 20
54079 TCGTTGCGAT
54089 TTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAAC-CGAA
* ** *
54110 CTTGGACTATCGCAA-CAAA
1 TTTGGAAAATCGCAACCGAA
54129 TTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAAC-CGAA
* * ** *
54150 CTTCGACTATCGCAA-TGAA
1 TTTGGAAAATCGCAACCGAA
54169 TTTGGAAAATCGCAAC
1 TTTGGAAAATCGCAAC
54185 GTGAACTCCG
Statistics
Matches: 55, Mismatches: 17, Indels: 7
0.70 0.22 0.09
Matches are distributed among these distances:
19 29 0.53
21 26 0.47
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TTTGGAAAATCGCAACCGAA
Found at i:54257 original size:21 final size:22
Alignment explanation
Indices: 54233--54278 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
54223 AATTTGGAAA
54233 ATCGCATTGCG-ATTTTGTATT
1 ATCGCATTGCGAATTTTGTATT
*
54254 ATCGCGTTGCGATATTTTGTATT
1 ATCGCATTGCGA-ATTTTGTATT
54277 AT
1 AT
54279 TGTGTTGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (22 bp):
ATCGCATTGCGAATTTTGTATT
Found at i:54274 original size:23 final size:23
Alignment explanation
Indices: 54244--54290 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
54234 TCGCATTGCG
54244 ATTTTGTATTATCGCGTTGCGAT
1 ATTTTGTATTATCGCGTTGCGAT
* *
54267 ATTTTGTATTATTGTGTTGCGAT
1 ATTTTGTATTATCGCGTTGCGAT
54290 A
1 A
54291 GTCAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (23 bp):
ATTTTGTATTATCGCGTTGCGAT
Found at i:54428 original size:20 final size:19
Alignment explanation
Indices: 54405--54450 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54395 AGAAACTGAT
* *
54405 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
54425 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
54444 TTGCGAT
1 TTGCGAT
54451 TTTGTTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:54440 original size:19 final size:19
Alignment explanation
Indices: 54416--54452 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54406 TGCGATACTG
*
54416 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
54435 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
54453 TGTTTGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:58819 original size:42 final size:41
Alignment explanation
Indices: 58758--58854 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
58748 ACAATTTAAG
* * * *
58758 TCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGAGTCATCAGTAAGCCTTTAGAGCAAGATGAT-AAA
* *
58800 TCCTTCGAGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
1 TCCTTCGAGTCATCAGTAAGCCTTTAGAGCAAGATGATAAA
* *
58841 TCATTCGGGTCATC
1 TCCTTCGAGTCATC
58855 CATAAGACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (41 bp):
TCCTTCGAGTCATCAGTAAGCCTTTAGAGCAAGATGATAAA
Found at i:59040 original size:41 final size:41
Alignment explanation
Indices: 58974--59064 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
58964 ACTTAGTAAG
* *
58974 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTC-GGCCATCAATAAGCCTTTCGAGCATGATGATTAAA
*
59016 TCCTTCGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAA
1 TCCTTCGGCCATCAATAAGCCTTTCGAGCATGATGATTAAA
*
59057 TCTTTCGG
1 TCCTTCGG
59065 GTAATTTGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.87
42 6 0.13
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (41 bp):
TCCTTCGGCCATCAATAAGCCTTTCGAGCATGATGATTAAA
Found at i:59193 original size:42 final size:41
Alignment explanation
Indices: 59134--59216 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 41
59124 TAAGTCTTTC
*
59134 GAGCATGATGATAAAGTCCTTCGGGCCATCAGTAAGCCTTCA
1 GAGCATGATGATAAAGTCATTCGGGCCATC-GTAAGCCTTCA
* *
59176 GAGCATGATGATTAAGTCATTCGGGCCATCTTAAGCCTTCA
1 GAGCATGATGATAAAGTCATTCGGGCCATCGTAAGCCTTCA
59217 CAGAAGAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (41 bp):
GAGCATGATGATAAAGTCATTCGGGCCATCGTAAGCCTTCA
Found at i:59230 original size:134 final size:134
Alignment explanation
Indices: 58985--59235 Score: 373
Period size: 134 Copynumber: 1.9 Consensus size: 134
58975 CCTTCGGGCC
*
58985 ATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGCCATCAGTAAGCCTTTCGAGCATGAT
1 ATCAATAAGTCTTTCGAGCATGATGCATAAATCCTTCGGCCATCAGTAAGCCTTTCGAGCATGAT
* * * ** *
59050 GATTAAATCTTTCGGGTAATTTGTAAGCCTTCATGGAAGAGTAGTGAAGCAATCCCATTAGTAAG
66 GATTAAATCATTCGGGCAATCTGTAAGCCTTCACAGAAGAGCAGTGAAGCAATCCCATTAGTAAG
59115 TGAT
131 TGAT
59119 ATCAATAAGTCTTTCGAGCATGATG-ATAAAGTCCTTCGGGCCATCAGTAAGCC-TTCAGAGCAT
1 ATCAATAAGTCTTTCGAGCATGATGCATAAA-TCCTTC-GGCCATCAGTAAGCCTTTC-GAGCAT
* *
59182 GATGATTAAGTCATTCGGGCCATCT-TAAGCCTTCACAGAAGAGCAGTGAAGCAA
63 GATGATTAAATCATTCGGGCAATCTGTAAGCCTTCACAGAAGAGCAGTGAAGCAA
59236 ACCATCTTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
133 4 0.04
134 60 0.57
135 41 0.39
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (134 bp):
ATCAATAAGTCTTTCGAGCATGATGCATAAATCCTTCGGCCATCAGTAAGCCTTTCGAGCATGAT
GATTAAATCATTCGGGCAATCTGTAAGCCTTCACAGAAGAGCAGTGAAGCAATCCCATTAGTAAG
TGAT
Found at i:59270 original size:36 final size:36
Alignment explanation
Indices: 59201--59271 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
59191 GTCATTCGGG
*
59201 CCATCTTAAGCCTTCACAGAAGAGCAGTGAAGCAAA
1 CCATCTTAAGCCTTCACAGAAGAGCAGTAAAGCAAA
** * *
59237 CCATCTTAAGCCTTCATGGAAGTGTAGTAAAGCAA
1 CCATCTTAAGCCTTCACAGAAGAGCAGTAAAGCAA
59272 GTCATCAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (36 bp):
CCATCTTAAGCCTTCACAGAAGAGCAGTAAAGCAAA
Found at i:59502 original size:53 final size:53
Alignment explanation
Indices: 59435--59606 Score: 240
Period size: 53 Copynumber: 3.2 Consensus size: 53
59425 AGAATCACAC
59435 CAGAAGATTGTTCGAGTTCTACTCCTTAAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCTTAAAGCAAGAGGGAGCGAACCCGTAGG
* *
59488 CAGAAGATTATTCGAGTTCTACTCCCTGAAA-CAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACT-CCTTAAAGCAAGAGGGAGCGAACCCGTAGG
* * * * * *
59541 CAGAAGATTGTTTGAGTTCTACTCCCTGAAGCAAGAGGGAACGAATCCGCTAGT
1 CAGAAGATTGTTCGAGTTCTACTCCTTAAAGCAAGAGGGAGCGAACCCG-TAGG
59595 C-GAAGATTGTTC
1 CAGAAGATTGTTC
59607 AAAGAAGAGG
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
52 4 0.04
53 91 0.87
54 10 0.10
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCTTAAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:59779 original size:9 final size:9
Alignment explanation
Indices: 59767--59855 Score: 65
Period size: 9 Copynumber: 9.7 Consensus size: 9
59757 ATAAATATTA
59767 TATTATAAT
1 TATTATAAT
59776 TATTAATAAT
1 TATT-ATAAT
*
59786 ATATTATAAC
1 -TATTATAAT
*
59796 TATTATTAT
1 TATTATAAT
*
59805 TATTATAAC
1 TATTATAAT
* *
59814 AATTAAAAT
1 TATTATAAT
* *
59823 TATAATTAT
1 TATTATAAT
59832 TATTAGT-AT
1 TATTA-TAAT
59841 TATTATTAA-
1 TATTA-TAAT
59850 TATTAT
1 TATTAT
59856 TTATGTTTTC
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
8 1 0.02
9 46 0.74
10 11 0.18
11 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (9 bp):
TATTATAAT
Found at i:59802 original size:3 final size:3
Alignment explanation
Indices: 59762--59856 Score: 59
Period size: 3 Copynumber: 32.3 Consensus size: 3
59752 GGGTTATAAA
* * * * *
59762 TAT TA- TAT TAT AAT TAT TAA TAA TA- TAT TAT AAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
59808 TAT AAC AAT TAA AAT TAT AAT TAT TAT TAG TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59856 T
1 T
59857 TATGTTTTCA
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
2 4 0.06
3 65 0.94
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (3 bp):
TAT
Found at i:59811 original size:23 final size:20
Alignment explanation
Indices: 59755--59846 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
59745 TTTGTCTGGG
*
59755 TTATAAATATTATATTATAA
1 TTATTAATATTATATTATAA
*
59775 TTATTAATAATATATTATAA
1 TTATTAATATTATATTATAA
* *
59795 CTATTATTA-T-TATTATAA
1 TTATTAATATTATATTATAA
** * *
59813 CAATTAAAATTATAATTATTA
1 TTATTAATATTAT-ATTATAA
* *
59834 TTAGTATTATTAT
1 TTATTAATATTAT
59847 TAATATTATT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
18 14 0.25
19 2 0.04
20 26 0.46
21 14 0.25
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (20 bp):
TTATTAATATTATATTATAA
Found at i:62054 original size:17 final size:16
Alignment explanation
Indices: 62032--62065 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
62022 TAAAAACAGT
62032 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
62049 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
62065 A
1 A
62066 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:65020 original size:341 final size:338
Alignment explanation
Indices: 64400--65082 Score: 1330
Period size: 341 Copynumber: 2.0 Consensus size: 338
64390 ACCGATATGG
64400 GGTGAAGTAACGATCATGACATCTTATTTTGGCCCGTTAATTTGAATCTTTGAGCTGTAGTGTTC
1 GGTGAAGTAACGATCATGACATCTTATTTTGGCCCGTTAATTTGAATCTTTGAGCTGTAGTGTTC
*
64465 GTCTGATTCATGTAGTAATCCTGTCCTGGTATTACGTGAATCAAGGTTACTAGTAGATATTTCAT
66 GTCTGATTCATGTAGTAATCCTGTCCTGGTATTACGTGAATCAAGGTTACTAGTAGATACTTCAT
64530 GCTGAACTCGAGTATCTGGCTCAGTAGTTGGTCTATGATCCGATTCAAATTTCCCCTTTCCCGAT
131 GCTGAACTCGAGTATCTGGCTCAGTAGTTGGTCTATGATCCGATTCAAATTTCCCCTTTCCCGAT
64595 TGTGGTTTAAAATCAATTCTTTTTTGCAGTATCAGTTTGTTTGATTTGTGATAACTCCAATGTTG
196 TGTGGTTTAAAATCAATTCTTTTTTGCAGTATCAGTTTGTTTGATTTGTGATAACTCCAATGTTG
64660 CCTTCCATTTGTTAATGTGATGGAGGTGAAAACCAAGGAAGATAATCTTCCTACAGCCACACCAT
261 CCTTCCATTTGTTAATGTGATGGAGGTGAAAACCAAGGAAGATAATCTTCCTACAGCCACACCAT
64725 CCGTTCAGATAAA
326 CCGTTCAGATAAA
64738 GGTGAAGTAACGATCATGACATCTTATTTTGGCCCGTTAATTTGAATCTTTGAGCTGTAGTGTTC
1 GGTGAAGTAACGATCATGACATCTTATTTTGGCCCGTTAATTTGAATCTTTGAGCTGTAGTGTTC
64803 GTCTGATTCATGTAGTTGTAATCCTGTCCTGGTATTACGTGAATCAAGGTTACTAGTAGATACTT
66 GTCTGATTCATGTA---GTAATCCTGTCCTGGTATTACGTGAATCAAGGTTACTAGTAGATACTT
64868 CATGCTGAACTCGAGTATCTGGCTCAGTAGTTGGTCTATGATCCGATTCAAATTTCCCCTTTCCC
128 CATGCTGAACTCGAGTATCTGGCTCAGTAGTTGGTCTATGATCCGATTCAAATTTCCCCTTTCCC
64933 GATTGTGGTTTAAAATCAATTCTTTTTTGCAGTATCAGTTTGTTTGATTTGTGATAACTCCAATG
193 GATTGTGGTTTAAAATCAATTCTTTTTTGCAGTATCAGTTTGTTTGATTTGTGATAACTCCAATG
64998 TTGCCTTCCATTTGTTAATGTGATGGAGGTGAAAACCAAGGAAGATAATCTTCCTACAGCCACAC
258 TTGCCTTCCATTTGTTAATGTGATGGAGGTGAAAACCAAGGAAGATAATCTTCCTACAGCCACAC
65063 CATCCGTTCAGATAAA
323 CATCCGTTCAGATAAA
65079 GGTG
1 GGTG
65083 TTGTTCTTTG
Statistics
Matches: 341, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
338 79 0.23
341 262 0.77
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (338 bp):
GGTGAAGTAACGATCATGACATCTTATTTTGGCCCGTTAATTTGAATCTTTGAGCTGTAGTGTTC
GTCTGATTCATGTAGTAATCCTGTCCTGGTATTACGTGAATCAAGGTTACTAGTAGATACTTCAT
GCTGAACTCGAGTATCTGGCTCAGTAGTTGGTCTATGATCCGATTCAAATTTCCCCTTTCCCGAT
TGTGGTTTAAAATCAATTCTTTTTTGCAGTATCAGTTTGTTTGATTTGTGATAACTCCAATGTTG
CCTTCCATTTGTTAATGTGATGGAGGTGAAAACCAAGGAAGATAATCTTCCTACAGCCACACCAT
CCGTTCAGATAAA
Found at i:77317 original size:60 final size:61
Alignment explanation
Indices: 77249--77391 Score: 195
Period size: 60 Copynumber: 2.4 Consensus size: 61
77239 TTTTTAAATG
* * *
77249 TTTCAATTTTATCCCTAAACTATGAC-TATCATTCT-AATTTAATCCTCAAAC-TTTTGAGCA
1 TTTCAATTTCATCCCTAAACTATGACAT-TCATTCTAAATTGAATCC-CAAACTTTTTGAACA
**
77309 TTTCAATTTCATCCCTAAACTATGACATTCATTCTAAATTGGTTCCCAAACTTTTTGAACA
1 TTTCAATTTCATCCCTAAACTATGACATTCATTCTAAATTGAATCCCAAACTTTTTGAACA
77370 TTTCAATTTCATCCC-AAACTAT
1 TTTCAATTTCATCCCTAAACTAT
77392 ATGTATATAC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
60 44 0.59
61 31 0.41
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (61 bp):
TTTCAATTTCATCCCTAAACTATGACATTCATTCTAAATTGAATCCCAAACTTTTTGAACA
Found at i:77328 original size:29 final size:29
Alignment explanation
Indices: 77249--77334 Score: 72
Period size: 30 Copynumber: 2.9 Consensus size: 29
77239 TTTTTAAATG
*
77249 TTTCAATTTTATCCCTAAAC-TATGACTA
1 TTTCAATTTAATCCCTAAACTTATGACTA
*
77277 TCATTCTAATTTAAT-CCTCAAACTTTTGAGC-A
1 T--TTC-AATTTAATCCCT-AAACTTATGA-CTA
*
77309 TTTCAATTTCATCCCTAAAC-TATGAC
1 TTTCAATTTAATCCCTAAACTTATGAC
77335 ATTCATTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 11 0.23
30 12 0.26
31 11 0.23
32 6 0.13
33 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (29 bp):
TTTCAATTTAATCCCTAAACTTATGACTA
Found at i:77567 original size:60 final size:59
Alignment explanation
Indices: 77497--77648 Score: 184
Period size: 60 Copynumber: 2.5 Consensus size: 59
77487 TTTGTATGAA
*
77497 TTTAGGGATGAAATTAGAATATTCAAAAGTTT-GGCCTCTAATTTAGAAAGAGG-ATCATAG
1 TTTAGGGATGAAATTAGAATATTCAAAAGTTTAGG--ACTAATTTAGAAAG-GGAATCATAG
* * *
77557 TTTAGAGATGAAATTA-AAGTGTTCAAAAGTTTAAGGACTAATTTAGAATGGGAATCATAG
1 TTTAGGGATGAAATTAGAA-TATTCAAAAGTTT-AGGACTAATTTAGAAAGGGAATCATAG
* *
77617 TTTGGGGATGAAATTAGAATATTTAAAAGTTT
1 TTTAGGGATGAAATTAGAATATTCAAAAGTTT
77649 CTAGGATCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
59 4 0.05
60 71 0.90
61 2 0.03
62 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (59 bp):
TTTAGGGATGAAATTAGAATATTCAAAAGTTTAGGACTAATTTAGAAAGGGAATCATAG
Found at i:78978 original size:44 final size:44
Alignment explanation
Indices: 78929--79032 Score: 208
Period size: 44 Copynumber: 2.4 Consensus size: 44
78919 TAACTCGAAC
78929 TTAATATTCGTATGTTCACACGTACTAATTTCCAAAATTTGAAG
1 TTAATATTCGTATGTTCACACGTACTAATTTCCAAAATTTGAAG
78973 TTAATATTCGTATGTTCACACGTACTAATTTCCAAAATTTGAAG
1 TTAATATTCGTATGTTCACACGTACTAATTTCCAAAATTTGAAG
79017 TTAATATTCGTATGTT
1 TTAATATTCGTATGTT
79033 AACTCGAACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (44 bp):
TTAATATTCGTATGTTCACACGTACTAATTTCCAAAATTTGAAG
Found at i:86484 original size:15 final size:17
Alignment explanation
Indices: 86451--86484 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
86441 CGTATCCAAT
86451 AGTTCCAGATTATTAGA
1 AGTTCCAGATTATTAGA
86468 AGTTCCA-ATTA-TAGA
1 AGTTCCAGATTATTAGA
86483 AG
1 AG
86485 CTTCTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (17 bp):
AGTTCCAGATTATTAGA
Found at i:92288 original size:235 final size:235
Alignment explanation
Indices: 91836--92302 Score: 783
Period size: 234 Copynumber: 2.0 Consensus size: 235
91826 ACGATAATGA
* *
91836 TTCATATTATATAGATTTTGACACAGTCATATGTTATTACTATGCTTGTACTTTTTTTCATGTCA
1 TTCATATTATATAGATTTTGACACAGTCATATATTATTACTATGCTTGTACTTTTTTCCATGTCA
* *
91901 TGGTTTCTGTGATTGCTCTAATGTCGAATCCAGCATTACCAGGTCCAATCTAGTTTAGCTGTAGC
66 TGGTTTCAGTGATTGCTATAATGTCGAATCCAGCATTACCAGGTCCAATCTAGTTTAGCTGTAGC
* *
91966 TGGTGTTTTATAGCGTTAGTATGTGAAACTGAACCATCTGCTTGCTAGTGTATGATTGCACGAAA
131 TGGTGTTTTATAGCGTTAGTATGTGAAACAGAACCATCTGCATGCTAGTGTATGATTGCACGAAA
** *
92031 ATGTCTCACATCATTGAATCCTTATAATGTCATATATCCG
196 ATGTCTCACATCATCAAATCCTTATAATGTCACATATCCG
* ** * *
92071 TTCATATTATATAGATTTTGACACGGTTGTATATTATTACTATGTTTGTGC-TTTTTCCATGTCA
1 TTCATATTATATAGATTTTGACACAGTCATATATTATTACTATGCTTGTACTTTTTTCCATGTCA
92135 TGGTTTCAGTGATTGCTATAATGTCGAATCCAGCATTACCAGGTCCAATCTAGTTTAGCTGTAGC
66 TGGTTTCAGTGATTGCTATAATGTCGAATCCAGCATTACCAGGTCCAATCTAGTTTAGCTGTAGC
*
92200 TGGTGTTTTATAGCGTTAGTATGTGAAAGAGAACCATCTGCATGCTAAGTGTATGATTGCACGAA
131 TGGTGTTTTATAGCGTTAGTATGTGAAACAGAACCATCTGCATGCT-AGTGTATGATTGCACGAA
92265 AATGTCTCACATCATCAAATCCTTATAATGTCACATAT
195 AATGTCTCACATCATCAAATCCTTATAATGTCACATAT
92303 TCATATGATT
Statistics
Matches: 216, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
234 118 0.55
235 98 0.45
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (235 bp):
TTCATATTATATAGATTTTGACACAGTCATATATTATTACTATGCTTGTACTTTTTTCCATGTCA
TGGTTTCAGTGATTGCTATAATGTCGAATCCAGCATTACCAGGTCCAATCTAGTTTAGCTGTAGC
TGGTGTTTTATAGCGTTAGTATGTGAAACAGAACCATCTGCATGCTAGTGTATGATTGCACGAAA
ATGTCTCACATCATCAAATCCTTATAATGTCACATATCCG
Found at i:99361 original size:16 final size:16
Alignment explanation
Indices: 99340--99370 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99330 TCCAATCGAA
*
99340 TGATGTCATATGTCAC
1 TGATGTCACATGTCAC
99356 TGATGTCACATGTCA
1 TGATGTCACATGTCA
99371 TCATTCTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
TGATGTCACATGTCAC
Found at i:100511 original size:21 final size:21
Alignment explanation
Indices: 100461--100511 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
100451 AGGATTAGAG
* *
100461 TTTAGGATTTAGGGTTTAATA
1 TTTAGGTTTTAGAGTTTAATA
*
100482 TTTAAGTTTTAGAGTTT-ATGA
1 TTTAGGTTTTAGAGTTTAAT-A
100503 TTTAGGTTT
1 TTTAGGTTT
100512 GGGATTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (21 bp):
TTTAGGTTTTAGAGTTTAATA
Found at i:104452 original size:20 final size:20
Alignment explanation
Indices: 104429--104603 Score: 172
Period size: 20 Copynumber: 8.7 Consensus size: 20
104419 GTTTCCAGAT
*
104429 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* *
104449 TCGCATTGCGATTTTCCGACTA
1 TCGCAATGCGA--TTCTGACTA
* * *
104471 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
*
104491 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTCTGACTA
*
104511 TCACAATGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* *
104531 TCGCAACGAGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * *
104551 TCGCAACGCGATTCTTACTG
1 TCGCAATGCGATTCTGACTA
* *
104571 TCGCAACGCGATGCTGACTA
1 TCGCAATGCGATTCTGACTA
*
104591 TCGTAATGCGATT
1 TCGCAATGCGATT
104604 TTCAAAGTGC
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.01
20 107 0.84
21 1 0.01
22 18 0.14
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:104808 original size:22 final size:22
Alignment explanation
Indices: 104783--104826 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104773 ACATCCGTCC
104783 CCATCTCCGACGAAATCAGTCT
1 CCATCTCCGACGAAATCAGTCT
* * *
104805 CCATCTTCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCAGTCT
104827 ATCTCCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.25
Consensus pattern (22 bp):
CCATCTCCGACGAAATCAGTCT
Found at i:105248 original size:20 final size:20
Alignment explanation
Indices: 105219--105268 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
105209 GCGATTTTAG
*
105219 TTTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
**
105239 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATAGTCAT
105259 TTTCGTGTTG
1 TTTCGTGTTG
105269 TAATTTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:105274 original size:20 final size:20
Alignment explanation
Indices: 105235--105275 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
105225 GTTGCGATAG
*
105235 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCAATTT
*
105255 TCATTTTCGTGTTGTAATTT
1 TCATTTTCGTGTTGCAATTT
105275 T
1 T
105276 AAGTTTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.59
Consensus pattern (20 bp):
TCATTTTCGTGTTGCAATTT
Found at i:105282 original size:20 final size:20
Alignment explanation
Indices: 105239--105282 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
105229 CGATAGTCAT
* * *
105239 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
*
105259 TTTCGTGTTGTAATTTTAAG
1 TTTCGTGTTGCAATTTTAAG
105279 TTTC
1 TTTC
105283 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:106670 original size:21 final size:20
Alignment explanation
Indices: 106599--106671 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
106589 CACCACTTCG
106599 AGAGCCATCACCTCAC--CC
1 AGAGCCATCACCTCACAACC
*
106617 AGAGCCATCACCTGATCAACC
1 AGAGCCATCACCTCA-CAACC
* * *
106638 CGA-CTATACACCTCCACAACG
1 AGAGCCAT-CACCT-CACAACC
106659 AGAGCCATCACCT
1 AGAGCCATCACCT
106672 ATTTTGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.33
19 1 0.02
20 3 0.07
21 20 0.48
22 4 0.10
ACGTcount: A:0.32, C:0.42, G:0.12, T:0.14
Consensus pattern (20 bp):
AGAGCCATCACCTCACAACC
Found at i:107267 original size:20 final size:20
Alignment explanation
Indices: 107242--107328 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
107232 GCGATTCTCT
107242 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
107262 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* **
107282 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
107302 CGTTGCGATAGT--AATTCG
1 CGTTGCGATAGTCAAATTCG
*
107320 TGTTGCGAT
1 CGTTGCGAT
107329 TTTAAGTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.20
20 48 0.80
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:107856 original size:18 final size:19
Alignment explanation
Indices: 107817--107858 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
107807 CTCACCTGTC
107817 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
107838 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
107856 ATC
1 ATC
107859 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:109344 original size:14 final size:14
Alignment explanation
Indices: 109306--109368 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
109296 TTGCTTGTTT
*
109306 AAATTGATTTATAA
1 AAATTGATTTGTAA
109320 AAATTGATTTGTAA
1 AAATTGATTTGTAA
* *
109334 AAGTTGATTTGTTTA
1 AAATTGATTTG-TAA
* *
109349 ATATTGATGTGTAA
1 AAATTGATTTGTAA
109363 ATAATT
1 A-AATT
109369 CTTATTTGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
AAATTGATTTGTAA
Found at i:109510 original size:20 final size:20
Alignment explanation
Indices: 109473--109511 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
109463 ACTCTAAACT
* *
109473 CAAAATCGCAATGTGAAAGA
1 CAAAATCGCAACGCGAAAGA
109493 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
109512 TCAATTCGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGA
Found at i:109527 original size:19 final size:20
Alignment explanation
Indices: 109505--109547 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
109495 AAATCGCAAC
*
109505 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
109524 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
109544 GCGA
1 GCGA
109548 TTACTCATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:109580 original size:20 final size:20
Alignment explanation
Indices: 109555--109831 Score: 223
Period size: 20 Copynumber: 14.8 Consensus size: 20
109545 CGATTACTCA
* *
109555 TTGCGATAGTCAAATACCCG
1 TTGCGATAGTCAAATTCGCG
* *
109575 TTGCGATAATCAAATTTGCG
1 TTGCGATAGTCAAATTCGCG
* * *
109595 TTGTGATACTCAAATTCGAG
1 TTGCGATAGTCAAATTCGCG
*
109615 TTGCGAT--T----TTCTCG
1 TTGCGATAGTCAAATTCGCG
* *
109629 TTGTGATAGTCAAA-TAGTCG
1 TTGCGATAGTCAAATTCG-CG
* *
109649 TTGCGATAATCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
109669 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
109689 TTGCGATAGACAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
109709 TTGCGAT--T----TTTGCG
1 TTGCGATAGTCAAATTCGCG
* *
109723 TTGCGATAGTCATATTCGTG
1 TTGCGATAGTCAAATTCGCG
109743 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
109763 TTGCGAT--T----TTTGAG
1 TTGCGATAGTCAAATTCGCG
*
109777 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
109797 TTGCGATAGTCAAATTCTCG
1 TTGCGATAGTCAAATTCGCG
*
109817 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
109832 GAATGTGTAA
Statistics
Matches: 203, Mismatches: 34, Indels: 40
0.73 0.12 0.14
Matches are distributed among these distances:
14 33 0.16
16 3 0.01
18 2 0.01
19 1 0.00
20 162 0.80
21 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:109642 original size:54 final size:54
Alignment explanation
Indices: 109573--109675 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
109563 GTCAAATACC
* * *
109573 CGTTGCGATAATCAAAT-TTGCGTTGTGATACTCAAATTCGAGTTGCGATTTTCT
1 CGTTGCGATAATCAAATAGT-CGTTGCGATAATCAAATTCGAGTTGCGATTTTCT
* * *
109627 CGTTGTGATAGTCAAATAGTCGTTGCGATAATCAAATTCGTGTTGCGAT
1 CGTTGCGATAATCAAATAGTCGTTGCGATAATCAAATTCGAGTTGCGAT
109676 AGTCAAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (54 bp):
CGTTGCGATAATCAAATAGTCGTTGCGATAATCAAATTCGAGTTGCGATTTTCT
Found at i:109651 original size:74 final size:74
Alignment explanation
Indices: 109514--109831 Score: 239
Period size: 74 Copynumber: 4.3 Consensus size: 74
109504 CGCGAAAGTC
* * * **
109514 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGA-TTACTCATTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATACTCAAATTCGAGTTGCGATTTACTCATTGCGATAGTCAAATACCCGTTG
109578 CGATAATCA
66 CGATAATCA
* * * * * **
109587 AATTTGCGTTGTGATACTCAAATTCGAGTTGCGATTTTCTCGTTGTGATAGTCAAATAGTCGTTG
1 AATTCGCGTTGCGATACTCAAATTCGAGTTGCGATTTACTCATTGCGATAGTCAAATACCCGTTG
109652 CGATAATCA
66 CGATAATCA
* * * ** ** * ** ***
109661 AATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCG-TTG-CGATTTTTGCGT
1 AATTCGCGTTGCGATACTCAAATTCGAGTTGCGATTTACTCATT-GCGATAGTC-AAATACCCGT
*
109724 TGCGATAGTCA
64 TGCGATAATCA
* * * * * * * * *
109735 TATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTT-TTGAGTTGCGATAATCAAATTCGCGTT
1 AATTCGCGTTGCGATACTCAAATTCGAGTTGCGATTTACTCA-TTGCGATAGTCAAATACCCGTT
*
109799 GCGATAGTCA
65 GCGATAATCA
* *
109809 AATTCTCGTTGCGATATTCAAAT
1 AATTCGCGTTGCGATACTCAAAT
109832 GAATGTGTAA
Statistics
Matches: 193, Mismatches: 46, Indels: 11
0.77 0.18 0.04
Matches are distributed among these distances:
73 32 0.17
74 158 0.82
75 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (74 bp):
AATTCGCGTTGCGATACTCAAATTCGAGTTGCGATTTACTCATTGCGATAGTCAAATACCCGTTG
CGATAATCA
Found at i:109675 original size:94 final size:94
Alignment explanation
Indices: 109555--109769 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 94
109545 CGATTACTCA
* * * * *
109555 TTGCGATAGTCAAATACCCGTTGCGATAATCAAATTTGCGTTGTGATACTCAAATTCGAGTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATACACAAATTCGAGTTGCG
*
109620 ATTTTCT-CGTTGTGATAGTCA-AATAGTCG
66 ATTTT-TGCGTTGCGATAGTCATAATAGT-G
* * * * *
109649 TTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATACACAAATTCGAGTTGCG
* *
109714 ATTTTTGCGTTGCGATAGTCATATTCGTG
66 ATTTTTGCGTTGCGATAGTCATAATAGTG
109743 TTGCGATAGTCAAATTCGCGTTGCGAT
1 TTGCGATAGTCAAATTCGCGTTGCGAT
109770 TTTTGAGTTG
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 1 0.01
94 99 0.95
95 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (94 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATACACAAATTCGAGTTGCG
ATTTTTGCGTTGCGATAGTCATAATAGTG
Found at i:109726 original size:54 final size:54
Alignment explanation
Indices: 109668--109823 Score: 258
Period size: 54 Copynumber: 2.9 Consensus size: 54
109658 TCAAATTCGT
* *
109668 GTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATTTTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
* *
109722 GTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
* *
109776 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCTCGTTGCGAT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
109824 ATTCAAATGA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (54 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
Found at i:110135 original size:18 final size:18
Alignment explanation
Indices: 110112--110146 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
110102 AAGCCGGTTG
*
110112 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
110130 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
110147 GACTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:112018 original size:14 final size:14
Alignment explanation
Indices: 111999--112035 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
111989 TCTCGTGGTA
111999 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
112013 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
112027 TTCTTCTTC
1 TT-TTCTTC
112036 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:113207 original size:40 final size:40
Alignment explanation
Indices: 113096--113231 Score: 184
Period size: 40 Copynumber: 3.4 Consensus size: 40
113086 ACAGTCAGAA
* * * * * * *
113096 TCGCGTTGCGACAGTCAGAATCGCGTTGCGATAGT-CAGAG
1 TCGCATTGCGATAGTCATAATCGCATTGCGAT-TTACATAT
113136 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
*
113176 TCGCGTTGCGATAGTCATAATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
113216 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
113232 GGAAAATCGC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
Found at i:113214 original size:20 final size:20
Alignment explanation
Indices: 113081--113231 Score: 153
Period size: 20 Copynumber: 7.5 Consensus size: 20
113071 AAATTCAGTG
* * *
113081 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCA
* * *
113101 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCA
* *
113121 TTGCGATAGTCAGAGTCGCA
1 TTGCGATAGTCATAATCGCA
113141 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCATAATCGCA
* * *
113161 TTGCGAT-TTACATATTCGCG
1 TTGCGATAGT-CATAATCGCA
113181 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCATAATCGCA
* *
113201 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CATAATCGCA
113221 TTGCGATAGTC
1 TTGCGATAGTC
113232 GGAAAATCGC
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 109 0.96
21 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCATAATCGCA
Found at i:124099 original size:20 final size:20
Alignment explanation
Indices: 124074--124164 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
124064 TAAATTAAAT
*
124074 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
124094 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
124114 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
124126 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
124146 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
124165 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:124151 original size:52 final size:52
Alignment explanation
Indices: 124073--124220 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
124063 CTAAATTAAA
*
124073 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
124125 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
124178 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
124221 ATGTTGCTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:124204 original size:20 final size:20
Alignment explanation
Indices: 124179--124218 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
124169 TCTATTAGTT
*
124179 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
124199 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
124219 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:126219 original size:20 final size:20
Alignment explanation
Indices: 126194--126232 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
126184 TAAATTAAAT
*
126194 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
126214 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
126233 TATTCTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:126271 original size:52 final size:52
Alignment explanation
Indices: 126193--126340 Score: 253
Period size: 53 Copynumber: 2.8 Consensus size: 52
126183 CTAAATTAAA
* *
126193 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTCTTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
*
126245 TATTAGATAAGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
126298 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
126341 ATGTTGCTAA
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 8 0.09
52 34 0.37
53 49 0.54
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:126279 original size:20 final size:21
Alignment explanation
Indices: 126246--126285 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
126236 TCTCTTAGTT
126246 ATTAGATAAGATCA-TTTTTA
1 ATTAGATAAGATCAGTTTTTA
126266 ATTAGAT-AGAATCAGTTTTT
1 ATTAGATAAG-ATCAGTTTTT
126286 TATTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTAGATAAGATCAGTTTTTA
Found at i:126341 original size:19 final size:19
Alignment explanation
Indices: 126297--126341 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
126287 ATTCTATTAG
*
126297 TTATTAGATAGGATCATTT
1 TTATTAGATAGAATCATTT
126316 TTAATTAGATAGAATCATTT
1 TT-ATTAGATAGAATCATTT
126336 TTATTA
1 TTATTA
126342 TGTTGCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (19 bp):
TTATTAGATAGAATCATTT
Found at i:131418 original size:15 final size:15
Alignment explanation
Indices: 131398--131430 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
131388 GCCTCCATTG
131398 TGTGCAACCCCAATT
1 TGTGCAACCCCAATT
131413 TGTGCAACCCCAATT
1 TGTGCAACCCCAATT
131428 TGT
1 TGT
131431 TACTCGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (15 bp):
TGTGCAACCCCAATT
Found at i:133346 original size:28 final size:28
Alignment explanation
Indices: 133306--133373 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
133296 AAAGGAGGTC
133306 GGCGGCGGACGGTGGTCGGAGTACGACA
1 GGCGGCGGACGGTGGTCGGAGTACGACA
* *
133334 GGCGGCGGACGGTGGTCGTAGTACGACG
1 GGCGGCGGACGGTGGTCGGAGTACGACA
133362 GGCGGCGGACGG
1 GGCGGCGGACGG
133374 CAAGCGACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.15, C:0.22, G:0.53, T:0.10
Consensus pattern (28 bp):
GGCGGCGGACGGTGGTCGGAGTACGACA
Found at i:139800 original size:14 final size:14
Alignment explanation
Indices: 139783--139816 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
139773 CCCTAAACCT
139783 TAAACTATAAATCA
1 TAAACTATAAATCA
*
139797 TAAACCATAAATCA
1 TAAACTATAAATCA
139811 TAAACT
1 TAAACT
139817 CCCGAACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACTATAAATCA
Found at i:140678 original size:39 final size:33
Alignment explanation
Indices: 140606--140668 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
140596 TTTGGCAAAC
140606 CTGGTTACAGGACAGGCATAGACATGGGAAAAA
1 CTGGTTACAGGACAGGCATAGACATGGGAAAAA
140639 CTGGTTACAGGACAGGCATAGACATGGGAA
1 CTGGTTACAGGACAGGCATAGACATGGGAA
140669 TCAGTAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.16
Consensus pattern (33 bp):
CTGGTTACAGGACAGGCATAGACATGGGAAAAA
Found at i:141191 original size:33 final size:34
Alignment explanation
Indices: 141144--141207 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
141134 AGTACAAAGA
141144 TTAAGTGAAAACCAATTAACAATGTCATCGATGT
1 TTAAGTGAAAACCAATTAACAATGTCATCGATGT
141178 TTAA-TGAAAACCAATTAACAATGTCATCGA
1 TTAAGTGAAAACCAATTAACAATGTCATCGA
141208 AGTTGTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (34 bp):
TTAAGTGAAAACCAATTAACAATGTCATCGATGT
Found at i:146580 original size:24 final size:24
Alignment explanation
Indices: 146553--146600 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
146543 TTCACGAGAT
*
146553 ATAAGATTATCAGTG-AGAATAAGA
1 ATAAGATCATCAGTGTA-AATAAGA
146577 ATAAGATCATCAGTGTAAATAAGA
1 ATAAGATCATCAGTGTAAATAAGA
146601 TTACGGGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (24 bp):
ATAAGATCATCAGTGTAAATAAGA
Found at i:153515 original size:215 final size:215
Alignment explanation
Indices: 153144--153568 Score: 832
Period size: 215 Copynumber: 2.0 Consensus size: 215
153134 GTTTAATCAC
153144 AGGAAAAGCTAGTCATTCATACATTTCAAGGCCAGGGATTCGATACATGTTGACACTATTCAAGA
1 AGGAAAAGCTAGTCATTCATACATTTCAAGGCCAGGGATTCGATACATGTTGACACTATTCAAGA
*
153209 GTTAAAAAAAATATGACCGATTCGAGTCCAACAGAATGGGTTAATTTACGACAATGCTGATCGAA
66 GTTAAAAAAAATATGACCGATTCGAGTCCAACAGAATGGGTTAATTTACGACAATGCTGATCAAA
153274 CGAAATCCGCGGATGAGAGCTGATGCAGTGTTTACCAGTATTAACTCCAGGAAATCTCGAATTGT
131 CGAAATCCGCGGATGAGAGCTGATGCAGTGTTTACCAGTATTAACTCCAGGAAATCTCGAATTGT
153339 ATTCAAGTTCTGATAATTAT
196 ATTCAAGTTCTGATAATTAT
*
153359 AGGAAAAGCTAGTCATTCATACATTTCAAGGCCAGGGATTCGATACATGTTGTCACTATTCAAGA
1 AGGAAAAGCTAGTCATTCATACATTTCAAGGCCAGGGATTCGATACATGTTGACACTATTCAAGA
153424 GTTAAAAAAAATATGACCGATTCGAGTCCAACAGAATGGGTTAATTTACGACAATGCTGATCAAA
66 GTTAAAAAAAATATGACCGATTCGAGTCCAACAGAATGGGTTAATTTACGACAATGCTGATCAAA
153489 CGAAATCCGCGGATGAGAGCTGATGCAGTGTTTACCAGTATTAACTCCAGGAAATCTCGAATTGT
131 CGAAATCCGCGGATGAGAGCTGATGCAGTGTTTACCAGTATTAACTCCAGGAAATCTCGAATTGT
153554 ATTCAAGTTCTGATA
196 ATTCAAGTTCTGATA
153569 TTTTAAGCAT
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 208 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (215 bp):
AGGAAAAGCTAGTCATTCATACATTTCAAGGCCAGGGATTCGATACATGTTGACACTATTCAAGA
GTTAAAAAAAATATGACCGATTCGAGTCCAACAGAATGGGTTAATTTACGACAATGCTGATCAAA
CGAAATCCGCGGATGAGAGCTGATGCAGTGTTTACCAGTATTAACTCCAGGAAATCTCGAATTGT
ATTCAAGTTCTGATAATTAT
Found at i:157614 original size:112 final size:112
Alignment explanation
Indices: 157397--157967 Score: 894
Period size: 112 Copynumber: 5.1 Consensus size: 112
157387 TCGGTTTGTA
* * * * *
157397 TCGATACTTTATAAAAATATATTGATCCATAATAATATAACAAGT-AAAAAATGATAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
* * *
157461 CTATAAATGACAAAATAGGTAAAGCGCTACCAGATATATTGAAAGTA
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
* *
157508 TCGCTACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
* * *
157573 CTATAAATGAAAAAACATGTAAAGCGCTACTGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
157620 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGATAAAAAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
*
157685 CTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
157732 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
* * *
157796 CTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
* *
157843 TCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAACCAG
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGG
* * * * *
157908 TCTATAACTGACAAAACAGGTAAAGCGCAACCGAATATGTTGATAGTG
65 TCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
157956 TCGATACTTTAT
1 TCGATACTTTAT
157968 TATAAGTATC
Statistics
Matches: 428, Mismatches: 29, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
111 147 0.34
112 208 0.49
113 73 0.17
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (112 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGT
CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
Found at i:158147 original size:182 final size:182
Alignment explanation
Indices: 157839--158290 Score: 699
Period size: 182 Copynumber: 2.5 Consensus size: 182
157829 ATATGTTGAT
* *
157839 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATATGACAAAA
* ** * * *
157904 CCAGTCTATAACTGACAAAACAGGTAAAGCGCAACCGAATATGTTGATAGTGTCGATACTTTATT
65 CCGGTCTCGAAATGACAAAACCGGTAAAGAGCAACCGAATATGTTGATAGTGTCGATACTTTATT
*
157969 ATAAGTATCGACACTTTTGGAATTTAAAA-GAGAAGAAGTTATAGCGCTAATAA
130 ATAAGTATCGACACTTTTGGAATTTAAAAGGA-AAGAAGTTATAGCGCCAATAA
*
158022 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
** *
158087 CGGTCTCGAAATGACAAAACCGGTAAAGAGTTACCGGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCAACCGAATATGTTGATAGTGTCGATACTTTATTA
*
158152 TAAGTATCGACACTTTTGGAATTTAAAAGGAAATAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGGAAAGAAGTTATAGCGCCAATAA
* * * * *
158204 AGTGTCGATATTTTATAAAATTGTATCGATCCAAAACAATATAACATGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
*
158269 CGATCTCGAAATGACAAAACCG
66 CGGTCTCGAAATGACAAAACCG
158291 TTAGTAAAAA
Statistics
Matches: 247, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
182 198 0.80
183 49 0.20
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
CGGTCTCGAAATGACAAAACCGGTAAAGAGCAACCGAATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGGAAAGAAGTTATAGCGCCAATAA
Found at i:158624 original size:20 final size:20
Alignment explanation
Indices: 158582--158624 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
158572 GATAATTATT
**
158582 ATGTAACAGGTAAATTTACA
1 ATGTAACAGGTAAAAATACA
* *
158602 ATGTAACCGGTAAAAATATA
1 ATGTAACAGGTAAAAATACA
158622 ATG
1 ATG
158625 GGTAATTAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTAACAGGTAAAAATACA
Found at i:158874 original size:23 final size:23
Alignment explanation
Indices: 158845--158892 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
158835 AAATAGGTCA
*
158845 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
158868 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
158891 AT
1 AT
158893 TGTACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:159820 original size:23 final size:24
Alignment explanation
Indices: 159791--159847 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
159781 TAATTCTTTT
159791 ATTTATTTACTATT-TTT-ATATTA
1 ATTTATTTA-TATTGTTTAATATTA
159814 ATTTATTT-TATTGTTTAATATTA
1 ATTTATTTATATTGTTTAATATTA
159837 ATTTGATTTAT
1 ATTT-ATTTAT
159848 TTTTAGGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 4 0.13
25 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTATTTATATTGTTTAATATTA
Done.