Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 70 of 295
Found at i:21201820 original size:6 final size:6
Alignment explanation
Indices: 21201811--21201897 Score: 106
Period size: 6 Copynumber: 14.3 Consensus size: 6
21201801 CTGTCACCTA
* *
21201811 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
21201860 ATTCTG ATTCTG ATTCTG ACTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
21201898 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
5 2 0.03
6 63 0.90
7 4 0.06
8 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21201820 original size:19 final size:19
Alignment explanation
Indices: 21201793--21201865 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
21201783 CTGATTCTGG
* *
21201793 TTCTAATTCTGTCACCTAA
1 TTCTGATTCTGTCACCTGA
**
21201812 TTCTGATTCTGATTCTGATTTTGA
1 TTCTGATTCTG--TC--ACCT-GA
21201836 TTCTGATTCTGTCACCTGA
1 TTCTGATTCTGTCACCTGA
21201855 TTCTGATTCTG
1 TTCTGATTCTG
21201866 ATTCTGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 23 0.53
20 2 0.05
21 2 0.05
22 2 0.05
23 2 0.05
24 12 0.28
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.48
Consensus pattern (19 bp):
TTCTGATTCTGTCACCTGA
Found at i:21201824 original size:43 final size:43
Alignment explanation
Indices: 21201777--21201888 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
21201767 ATTCTGTTAC
* *
21201777 CTGATACTGATTCTGGTTCTAATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATT
* * *
21201820 CTGATTCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATT
* *
21201863 CTGATTCTGATTCTGACTCTGATTCT
1 CTGATTCTGATTCTGATTCTAATTCT
21201889 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATTCTGATT
Found at i:21207937 original size:30 final size:30
Alignment explanation
Indices: 21207903--21207963 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
21207893 TTCTCGAGCC
21207903 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
21207933 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21207963 T
1 T
21207964 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21214370 original size:28 final size:28
Alignment explanation
Indices: 21214337--21214395 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
21214327 CCAGTACATT
21214337 TTCTTCAAATCATTATACATCTTGGTAC
1 TTCTTCAAATCATTATACATCTTGGTAC
21214365 TTCTTCAAATCATTATACATCTTGGTAC
1 TTCTTCAAATCATTATACATCTTGGTAC
21214393 TTC
1 TTC
21214396 CAGGATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (28 bp):
TTCTTCAAATCATTATACATCTTGGTAC
Found at i:21215663 original size:19 final size:19
Alignment explanation
Indices: 21215639--21215677 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21215629 TAACTGGTAG
21215639 TACCCGGATCTCAAATCTA
1 TACCCGGATCTCAAATCTA
21215658 TACCCGGATCTCAAATCTA
1 TACCCGGATCTCAAATCTA
21215677 T
1 T
21215678 CTTAGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (19 bp):
TACCCGGATCTCAAATCTA
Found at i:21222216 original size:31 final size:31
Alignment explanation
Indices: 21222178--21222237 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21222168 TTCATATTTC
21222178 ATATTTCATAACACTAGGCCGAAGCCTTTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTTTT
** * *
21222209 ATATTTCATATTATTGGGCCGAAGCCTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTT
21222238 ACTGTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (31 bp):
ATATTTCATAACACTAGGCCGAAGCCTTTTT
Found at i:21222475 original size:25 final size:24
Alignment explanation
Indices: 21222431--21222575 Score: 170
Period size: 24 Copynumber: 6.0 Consensus size: 24
21222421 GCTTTATCAT
*
21222431 ATAACTGGAGGCCT-AGCCTTTTTTA
1 ATAACTGG-GGCATAAGCC-TTTTTA
21222456 ATAACTGGGGCA-AAGTCC-TTTTA
1 ATAACTGGGGCATAAG-CCTTTTTA
* *
21222479 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
*
21222503 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
* *
21222527 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAG-CCTTTTTA
*
21222552 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTTTTTA
21222576 CACTTCCTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
23 18 0.17
24 57 0.54
25 31 0.29
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCTTTTTA
Found at i:21222499 original size:24 final size:24
Alignment explanation
Indices: 21222451--21222575 Score: 207
Period size: 24 Copynumber: 5.2 Consensus size: 24
21222441 GCCTAGCCTT
*
21222451 TTTTAATAACTGGGGCA-AAGTCC
1 TTTTAATAACTGGGGCATAAGCCC
*
21222474 TTTTAATAACTAGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
21222498 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
21222522 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
21222546 TTTATCATAACTGGGGCATAAGCCC
1 TTT-TAATAACTGGGGCATAAGCCC
21222571 TTTTA
1 TTTTA
21222576 CACTTCCTCC
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 16 0.17
24 56 0.59
25 23 0.24
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:21222649 original size:20 final size:20
Alignment explanation
Indices: 21222624--21222670 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
21222614 TTATGAATAC
21222624 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21222644 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21222664 ACCATGT
1 ATCATGT
21222671 TTACTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21230192 original size:31 final size:31
Alignment explanation
Indices: 21230154--21230213 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
21230144 TTCATATTTC
21230154 ATATTTCATAACACTGGGACGAAGCCTTTTT
1 ATATTTCATAACACTGGGACGAAGCCTTTTT
** *
21230185 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGACGAAGCCTTT
21230214 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGACGAAGCCTTTTT
Found at i:21230355 original size:24 final size:24
Alignment explanation
Indices: 21230282--21230401 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
21230272 GCTTTATCAT
*
21230282 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
21230307 ATAACTGGGGCA-AAGTCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21230330 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
**
21230354 ATAACTGGGGCATAATACCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21230378 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21230402 CACTTCCTCC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 18 0.21
24 60 0.70
25 8 0.09
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:21230475 original size:20 final size:20
Alignment explanation
Indices: 21230450--21230496 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
21230440 TTATGAATAC
21230450 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21230470 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21230490 ACCATGT
1 ATCATGT
21230497 TTACTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21237219 original size:16 final size:15
Alignment explanation
Indices: 21237192--21237221 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21237182 TTGATGAAGT
21237192 AAAATTAAATTAATC
1 AAAATTAAATTAATC
21237207 AAAATTAAAATTAAT
1 AAAATT-AAATTAAT
21237222 ATGATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAAATTAATC
Found at i:21247829 original size:21 final size:21
Alignment explanation
Indices: 21247804--21247876 Score: 110
Period size: 21 Copynumber: 3.5 Consensus size: 21
21247794 TGTGGTCCAA
*
21247804 GGGACTCGCCTGTGTGACCCT
1 GGGACACGCCTGTGTGACCCT
21247825 GGGACACGCCTGTGTGACCCT
1 GGGACACGCCTGTGTGACCCT
* * *
21247846 AGGACACACCTGTGTGACCTT
1 GGGACACGCCTGTGTGACCCT
21247867 GGGACACGCC
1 GGGACACGCC
21247877 CTTGTTGGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.19
Consensus pattern (21 bp):
GGGACACGCCTGTGTGACCCT
Found at i:21253430 original size:40 final size:40
Alignment explanation
Indices: 21253348--21253609 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
21253338 AAACCAAGTA
* * *
21253348 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
21253387 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
21253427 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
21253467 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
21253507 CCTTCGGGACTTAGCCCGGTTATAGTAACCCGCACAAATT
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
21253547 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
21253587 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
21253610 CATCCGAATA
Statistics
Matches: 203, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.07
40 189 0.93
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:21266582 original size:40 final size:40
Alignment explanation
Indices: 21266500--21266761 Score: 384
Period size: 40 Copynumber: 6.6 Consensus size: 40
21266490 AAACCAAGTA
* ** *
21266500 CCTTCGGGAATTAG-CCGAATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* * *
21266539 CCTTCGGGATTTAGCCCGGTTATAGTAACTCTCACAAACG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
21266579 CCTTTGGGACTTAGCCCGGGTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
21266619 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
21266659 CCTTCGGGACTTAGCCCGGTTATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
21266699 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
21266739 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
21266762 CATCCGAATA
Statistics
Matches: 201, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 14 0.07
40 187 0.93
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:21280475 original size:21 final size:21
Alignment explanation
Indices: 21280435--21280476 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21280425 TTGGTAAATG
*
21280435 GCATTTGAATGTAATTTTGGT
1 GCATTTGAATGTAATATTGGT
21280456 GCATTTGAATG-ACATATTGGT
1 GCATTTGAATGTA-ATATTGGT
21280477 TAGATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (21 bp):
GCATTTGAATGTAATATTGGT
Found at i:21281613 original size:25 final size:25
Alignment explanation
Indices: 21281574--21281621 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21281564 TTCTAAAGAG
*
21281574 AAAATTCTCTGAAGAAATTATTTCAA
1 AAAATTCTCTAAAGAAATT-TTTCAA
*
21281600 AAAATT-TCTAAAGATATTTTTC
1 AAAATTCTCTAAAGAAATTTTTC
21281622 TCATTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATTCTCTAAAGAAATTTTTCAA
Found at i:21287131 original size:41 final size:40
Alignment explanation
Indices: 21286998--21287221 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
21286988 AACCCAAGTA
* * * *
21286998 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
21287037 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21287077 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
21287118 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21287158 CCTTCGGGACTTAGCCCGGATATTGTCACTAGCACAAAGTC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
*
21287199 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21287222 CATCCGAATA
Statistics
Matches: 163, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 11 0.07
40 93 0.57
41 59 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21287222 original size:81 final size:80
Alignment explanation
Indices: 21287028--21287222 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 80
21287018 ATAGCAAATC
* * * *
21287028 GCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAGCC
21287093 CGGATATAGTCACTA
66 CGGATATAGTCACTA
* * *
21287108 GCACAAAATGCCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 GCAC-AAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAGC
*
21287173 CCGGATATTGTCACTA
65 CCGGATATAGTCACTA
*
21287189 GCACAAAGTCCCTTCGGGTCTTAGCCCGGATATC
1 GCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
21287223 ATCCGAATAA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
80 7 0.07
81 97 0.93
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATCGTAACTAGCACAAATGCCTTCGAGACTTAGCC
CGGATATAGTCACTA
Found at i:21290712 original size:13 final size:14
Alignment explanation
Indices: 21290689--21290717 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21290679 AGATGTGACA
21290689 TTTAGGTTTTTATT
1 TTTAGGTTTTTATT
21290703 TTTA-GTTTTTATT
1 TTTAGGTTTTTATT
21290716 TT
1 TT
21290718 ATTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (14 bp):
TTTAGGTTTTTATT
Found at i:21304633 original size:43 final size:42
Alignment explanation
Indices: 21304572--21304746 Score: 178
Period size: 43 Copynumber: 4.1 Consensus size: 42
21304562 TCACATATAT
* *
21304572 CATAT-AATGCCAACGTCCCAGACGTGGTCTTACATGCAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACG-AATCA
21304614 CATATCAATGCC-ACTGTCCCAGACATGGTCTTACACGAATCA
1 CATATCAATGCCAAC-GTCCCAGACATGGTCTTACACGAATCA
* ** * *
21304656 AATA-CGGTGCCAATGTCCCAGACATGGTCTTACACATAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACAC-GAATCA
* * * *
21304698 CATATCGATGCCAACATCCCAGA-AGTGGTCTTACTCGAGAACA
1 CATATCAATGCCAACGTCCCAGACA-TGGTCTTACACGA-ATCA
21304741 CATATC
1 CATATC
21304747 GAAAATCCTA
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
41 26 0.23
42 26 0.23
43 60 0.54
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
CATATCAATGCCAACGTCCCAGACATGGTCTTACACGAATCA
Found at i:21309549 original size:27 final size:27
Alignment explanation
Indices: 21309519--21309662 Score: 139
Period size: 27 Copynumber: 5.3 Consensus size: 27
21309509 TATTTACTTG
21309519 AAAATGACTGAAATACCCCCATAGGAT
1 AAAATGACTGAAATACCCCCATAGGAT
* * * *
21309546 AAAATGACCGAAATACCCCTATGGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
** * *
21309573 AAAATGACAAAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
*
21309600 AAAATGATTGAAATA-CCCCAGTAGGAT
1 AAAATGACTGAAATACCCCCA-TAGGAT
* * **
21309627 AAAATGATTGTAATACCCCTGTAAGG-T
1 AAAATGACTGAAATACCCCCAT-AGGAT
21309654 AAAATGACT
1 AAAATGACT
21309663 ATTTTGCCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.04
27 86 0.90
28 6 0.06
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGAT
Found at i:21309681 original size:27 final size:26
Alignment explanation
Indices: 21309651--21309778 Score: 123
Period size: 27 Copynumber: 4.8 Consensus size: 26
21309641 ACCCCTGTAA
21309651 GGTAAAATGACTATTTTGCCTTCATGT
1 GGTAAAATGACTATTTTGCCTT-ATGT
** *
21309678 GGTAAAATGACGGTTTTGCCCTCATGT
1 GGTAAAATGACTATTTTG-CCTTATGT
*
21309705 GGCAAAATGA-TAGTTTTGCCCTTATGT
1 GGTAAAATGACTA-TTTTG-CCTTATGT
** *
21309732 GGTAAAATGACTAATTTACCCTTAGGT
1 GGTAAAATGACT-ATTTTGCCTTATGT
* *
21309759 GGTAAGATGACTGTTTTGCC
1 GGTAAAATGACTATTTTGCC
21309779 CCAACGTGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
26 5 0.06
27 69 0.84
28 7 0.09
29 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (26 bp):
GGTAAAATGACTATTTTGCCTTATGT
Found at i:21309775 original size:54 final size:55
Alignment explanation
Indices: 21309651--21309779 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 55
21309641 ACCCCTGTAA
* ** * *
21309651 GGTAAAATGACTATTTTG-CCTTCATGTGGTAAAATGACGGTTTTGCCCTCATGT
1 GGTAAAATGACTGTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
* * *
21309705 GGCAAAATGA-TAGTTTTGCCCTT-ATGTGGTAAAATGACTAATTTACCCTTAGGT
1 GGTAAAATGACT-GTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
*
21309759 GGTAAGATGACTGTTTTGCCC
1 GGTAAAATGACTGTTTTGCCC
21309780 CAACGTGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 56 0.90
55 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (55 bp):
GGTAAAATGACTGTTTTGCCCTTCATGTGGTAAAATGACGAATTTACCCTCAGGT
Found at i:21312242 original size:27 final size:27
Alignment explanation
Indices: 21312212--21312389 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
21312202 ATATTGAGTC
* * * *
21312212 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21312239 CGCACACTTAGTGCTACGTAATCAAATCT
1 CGCACACTTAGTGCTACATAGTCAAA--T
* *
21312268 CGCACACTTAGTGC-ACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
** **
21312294 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21312321 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21312348 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21312375 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21312390 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 16 0.12
27 92 0.70
28 8 0.06
29 15 0.11
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21320293 original size:27 final size:27
Alignment explanation
Indices: 21320263--21320466 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
21320253 ATATTGAGTC
* * * *
21320263 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21320290 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
21320317 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
21320345 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21320372 CGCACACTTAGTGC-ATCAT-TTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21320398 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21320425 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21320452 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21320467 GTACAATTTA
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.14
27 110 0.71
28 23 0.15
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21320422 original size:53 final size:54
Alignment explanation
Indices: 21320263--21320465 Score: 232
Period size: 53 Copynumber: 3.8 Consensus size: 54
21320253 ATATTGAGTC
* * * * * *
21320263 CGCACACTCAGTGCTATATAATCA-ACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATA-TCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
21320317 CGCACACTTAGTGCTACATAGTCAATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-ATATCGCACACTTAGTGCAACATAGTCAAAT
* *
21320372 CGCACACTTAGTGC-ATCAT-TTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCATATCGCACACTTAGTGCAACATAGTCAAAT
*
21320425 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCATATCGCACACTTAGTGC
21320466 TGTACAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
53 43 0.34
54 42 0.34
55 40 0.32
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCATATCGCACACTTAGTGCAACATAGTCAAAT
Found at i:21323947 original size:43 final size:43
Alignment explanation
Indices: 21323886--21323969 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
21323876 AGGTGCCATT
* *
21323886 CTGTATGGAGATATCGATATCGGAGTTGTCCGAGGCACTAATC
1 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAATC
21323929 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAA
1 CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAA
21323970 CTCAATACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (43 bp):
CTGTACGGAGATATCGATATCGGAGTTGTCCCAGGCACTAATC
Found at i:21327903 original size:43 final size:42
Alignment explanation
Indices: 21327837--21327990 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
21327827 ATATCGTACA
** ** *
21327837 ATGCCAACATCCCAGACGTGGTCTTACGTGCAATCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
21327880 ATGCCACTGTCCCAGACAG-GGTCTTAAACGAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAATCACATATCG
* *
21327921 ATGCCAATGTCCCAGGCATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
21327964 ATGCCAATGTCCCAAACGTGGTCTTAC
1 ATGCCAATGTCCCAGACGTGGTCTTAC
21327991 TTGAACACAC
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 26 0.29
42 16 0.18
43 48 0.53
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:21327935 original size:41 final size:43
Alignment explanation
Indices: 21327868--21327977 Score: 143
Period size: 41 Copynumber: 2.6 Consensus size: 43
21327858 TCTTACGTGC
* * *
21327868 AATCACATATTGATGCCACTGTCCCAGACAGGGTCTTAAACG-
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
* * *
21327910 AATCAAATA-CGATGCCAATGTCCCAGGCATGGTCTTACACGT
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
*
21327952 AATCACATATCGATGCCAATGTCCCA
1 AATCAAATATCGATGCCAATGTCCCA
21327978 AACGTGGTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 27 0.46
42 16 0.27
43 16 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTAAACGT
Found at i:21332841 original size:24 final size:24
Alignment explanation
Indices: 21332779--21332842 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
21332769 ATATCCATTA
*
21332779 AATAATAA-TAATTATAAAACCAT
1 AATAATAATTAAATATAAAACCAT
* **
21332802 AATAATGATTTTATATAAAACCAT
1 AATAATAATTAAATATAAAACCAT
**
21332826 GGTAATAATTAAATATA
1 AATAATAATTAAATATA
21332843 TATAATACAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (24 bp):
AATAATAATTAAATATAAAACCAT
Found at i:21339071 original size:55 final size:53
Alignment explanation
Indices: 21338984--21339222 Score: 231
Period size: 55 Copynumber: 4.5 Consensus size: 53
21338974 ATTAGGGTTT
*
21338984 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
21339039 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATGAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTA--AGGC
* * * *
21339094 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
21339147 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * *
21339196 AAAGATACCACGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGCCAAG
21339223 TCATAGCAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 24 0.16
52 6 0.04
53 41 0.27
54 13 0.08
55 66 0.43
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:21339190 original size:108 final size:110
Alignment explanation
Indices: 21338991--21339191 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
21338981 TTTAAGGATA
*
21338991 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
21339056 CCATGTCAAGACATGGCATTGATAAGTTACTATGAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATGAGGCAAAGGTC
* * *
21339101 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
21339163 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
21339192 TCAAAAAGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATGAGGCAAAGGTC
Found at i:21344956 original size:86 final size:86
Alignment explanation
Indices: 21344810--21345011 Score: 230
Period size: 86 Copynumber: 2.3 Consensus size: 86
21344800 GGTTACCGAG
* * *
21344810 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGTATTGTGATTACATATAAGACCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCGTAATGCGATTACATATAAGACCAT
* *
21344875 GTCTGGGACATTGGCATTG-T
66 GTCTAGGACAGTGGCATTGAT
* *** *
21344895 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATTTTGTGTAAGACC
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCG-TAATGCGATTACATATAAGACC
*
21344959 CTGTCTAGGACAGTGGCATTGAT
64 ATGTCTAGGACAGTGGCATTGAT
* * *
21344982 AGGTGATAACATGTATA-ACCATATCTGGGA
1 ATGTGATTACATGTA-AGACCATGTCTGGGA
21345012 TATGGCAGTG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
85 1 0.01
86 92 0.93
87 6 0.06
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (86 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATCGTAATGCGATTACATATAAGACCAT
GTCTAGGACAGTGGCATTGAT
Found at i:21344958 original size:43 final size:43
Alignment explanation
Indices: 21344811--21344934 Score: 230
Period size: 43 Copynumber: 2.9 Consensus size: 43
21344801 GTTACCGAGA
*
21344811 TGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
21344854 TGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
21344897 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
21344935 CGTTAATCGA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:21344964 original size:43 final size:43
Alignment explanation
Indices: 21344814--21344977 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
21344804 ACCGAGATGT
* * * *
21344814 GATTACATGTAAGACCATGTCTGGGACATTGGAATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* * * *
21344857 GATTACATATAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
21344900 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
*** * * *
21344943 GATTTTGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
21344978 TGATAGGTGA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
43 105 0.97
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:21345665 original size:22 final size:22
Alignment explanation
Indices: 21345635--21345676 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21345625 TTTTTGGATA
*
21345635 CTTGTAAGTTGG-AGTATTATTG
1 CTTGAAAGTTGGCA-TATTATTG
21345657 CTTGAAAGTTGGCATATTAT
1 CTTGAAAGTTGGCATATTAT
21345677 GGTTTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (22 bp):
CTTGAAAGTTGGCATATTATTG
Found at i:21345683 original size:22 final size:22
Alignment explanation
Indices: 21345635--21345683 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
21345625 TTTTTGGATA
* *
21345635 CTTGTAAGTTGGAGTATTATTG
1 CTTGAAAGTTGGAGTATTATGG
21345657 CTTGAAAGTTGGCA-TATTATGG
1 CTTGAAAGTTGG-AGTATTATGG
*
21345679 TTTGA
1 CTTGA
21345684 TTTTGAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (22 bp):
CTTGAAAGTTGGAGTATTATGG
Found at i:21352580 original size:14 final size:14
Alignment explanation
Indices: 21352561--21352590 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21352551 TGACATTAGG
21352561 TTACCGAGATGTGA
1 TTACCGAGATGTGA
21352575 TTACCGAGATGTGA
1 TTACCGAGATGTGA
21352589 TT
1 TT
21352591 GCATGTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (14 bp):
TTACCGAGATGTGA
Found at i:21352645 original size:43 final size:43
Alignment explanation
Indices: 21352584--21352775 Score: 244
Period size: 43 Copynumber: 4.5 Consensus size: 43
21352574 ATTACCGAGA
*
21352584 TGTGATTGCATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
21352627 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
21352670 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATTGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * * * * *
21352714 T-TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
21352755 AGGTGATAACATGTAAGACCA
1 -TGTGATTACATGTAAGACCA
21352776 CATCTCGGAT
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
43 126 0.97
44 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:21356336 original size:140 final size:140
Alignment explanation
Indices: 21356084--21356592 Score: 590
Period size: 140 Copynumber: 3.6 Consensus size: 140
21356074 TTCTAAGACG
* ** * ***
21356084 ACACTTTTGTGCCAACACTTTTATAAGTGTTGGGATAGACTTGCCAACATACGTTTTGGCCAACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * ** *
21356149 CTTTATATAAGGGTTGGGATATGTATGCCTAATTCAACGCTTAAATAAGAGTCAGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
21356214 CACTATGCCA
131 CACTATGCCA
* ** *
21356224 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGAATAGACTTGTTGACATATACTTTGGCAAACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * *
21356289 CTTTGTATAAGGGTTGGGATATGCATACTTAAAACAATGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
21356354 CACTATGCCGA
131 CACTATGCC-A
** * * * *
21356365 A-ACTTTTGGGCTGACACTTTCCTAAATGTGGGGATAGACTTGTCGAAATATGA-TTTGGCCAAC
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATAT-ACTTTGGCCAAC
* * ** * * *
21356428 TCTTTATAAAAGGGTTGGGATATGTATGCTTAAGGCGACGCTTAAATAAGAGTCGGTTTTGTCAA
65 TCTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCA
* * *
21356493 ACATTACGCCG
130 ACACTATGCCA
* * * * *
21356504 ACCCTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGTCGACT
1 ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
* * * *
21356569 CTTTGTATAAAGGTCGGGACATGC
66 CTTTATATAAGGGTTGGGATATGC
21356593 CTTTTCTAAC
Statistics
Matches: 310, Mismatches: 55, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
139 1 0.00
140 306 0.99
141 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
ACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATACTTTGGCCAACT
CTTTATATAAGGGTTGGGATATGCATGCTTAAAACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGCCA
Found at i:21358800 original size:19 final size:18
Alignment explanation
Indices: 21358778--21358817 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21358768 TGAATAAAAC
21358778 TTATATACCTAAATAAGAT
1 TTATATACCTAAATAA-AT
*
21358797 TTATCTACCTAAATAAAT
1 TTATATACCTAAATAAAT
21358815 TTA
1 TTA
21358818 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATATACCTAAATAAAT
Found at i:21363473 original size:19 final size:18
Alignment explanation
Indices: 21363451--21363490 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
21363441 TGAATAAAAC
21363451 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
21363470 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
21363488 TTA
1 TTA
21363491 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:21364456 original size:42 final size:43
Alignment explanation
Indices: 21364342--21364456 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
21364332 AGTATCACAC
* * *
21364342 CAATGCCATATCCCAGATATGGTCTTACA-TAGGATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAGAATCTCATAT
* *
21364384 CAATGCCAATAGCCCAGCTATGGTCTTACACGA-AATCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAGAATCTCATAT
* *
21364427 CGATGCCATATCCCAGATATGCTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
21364457 ATAAGCTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.55
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (43 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAGAATCTCATAT
Found at i:21372441 original size:10 final size:10
Alignment explanation
Indices: 21372412--21372465 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
21372402 TCACATTTTC
*
21372412 CTCTCAACTT
1 CTCTCAAATT
21372422 -TCTC-AATT
1 CTCTCAAATT
21372430 CTCTCAAATT
1 CTCTCAAATT
*
21372440 CTCTCAAACT
1 CTCTCAAATT
*
21372450 CTCTC-AAGT
1 CTCTCAAATT
21372459 CTCTCAA
1 CTCTCAA
21372466 GTCTCTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 3 0.08
9 16 0.42
10 19 0.50
ACGTcount: A:0.26, C:0.35, G:0.02, T:0.37
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:21372466 original size:9 final size:9
Alignment explanation
Indices: 21372412--21372471 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
21372402 TCACATTTTC
21372412 CTCTCAACT
1 CTCTCAACT
* *
21372421 TTCTCAATT
1 CTCTCAACT
*
21372430 CTCTCAAATT
1 CTCTC-AACT
21372440 CTCTCAAACT
1 CTCTC-AACT
*
21372450 CTCTCAAGT
1 CTCTCAACT
*
21372459 CTCTCAAGT
1 CTCTCAACT
21372468 CTCT
1 CTCT
21372472 TGTTTTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
9 27 0.60
10 18 0.40
ACGTcount: A:0.23, C:0.35, G:0.03, T:0.38
Consensus pattern (9 bp):
CTCTCAACT
Found at i:21376989 original size:86 final size:85
Alignment explanation
Indices: 21376869--21377025 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
21376859 TTCTGATATG
* * * *
21376869 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATTGACT-TTTGTTTTACGTGTAAGACCATG
1 TGATTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGA-TGTTTG-ATTACATGTAAGACCATG
*
21376933 TCTGGGACATTGACATCGTATC
64 TATGGGACATTGACATCGTATC
*
21376955 TGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATGTTTGATTACATGTAAGACCATG
1 TGATTTCGTGTAAGACCAC-ATCTGGGA-AGTTGGCATCGATGTTTGATTACATGTAAGACCATG
21377018 TATGGGAC
64 TATGGGAC
21377026 GTTGGTATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 25 0.40
86 36 0.58
87 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCACATCTGGGAAGTTGGCATCGATGTTTGATTACATGTAAGACCATGTA
TGGGACATTGACATCGTATC
Found at i:21376992 original size:42 final size:43
Alignment explanation
Indices: 21376916--21377025 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
21376906 GACTTTTGTT
*
21376916 TTACGTGTAAGACCATGTCTGGGACATTGACATCG-TATCTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
* * * * * *
21376958 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
* *
21377001 TTACATGTAAGACCATGTATGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
21377026 GTTGGTATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 30 0.55
43 25 0.45
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATCTGA
Found at i:21379581 original size:210 final size:210
Alignment explanation
Indices: 21379213--21379629 Score: 753
Period size: 210 Copynumber: 2.0 Consensus size: 210
21379203 TGGCCTCCTG
* *
21379213 GTTATACTTGAACTCGTGACTGCATCACGGCTGTCGATTAGGACCTTCACGTTGAATTCAACCCC
1 GTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAACCCC
*
21379278 TGATTGCATCATGCATTATTGCCTTGAAATCGAATTTCCCCACAATGGGTTTCTAAGGTTATGGA
66 TGATTGCATCATGCATTATTGCCTTGAAATCAAATTTCCCCACAATGGGTTTCTAAGGTTATGGA
*
21379343 ATTCCCCTAAAAAATACCTAAAAATTTCTACCGTTTCAGTCGAAAACCCTGAACACTTTCAAAAT
131 ATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAAAAT
21379408 ACCCTAAACCCTCTA
196 ACCCTAAACCCTCTA
*
21379423 GTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTGGGACCTTCACGTTGAATTCAACCCC
1 GTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAACCCC
* *
21379488 TGATTGTATCATGCATTATTGCGTTGAAATCAAATTTCCCCACAATGGGTTTCTAAGGTTATGGA
66 TGATTGCATCATGCATTATTGCCTTGAAATCAAATTTCCCCACAATGGGTTTCTAAGGTTATGGA
* *
21379553 TTTCCCCTAAAAAATACCTAAGAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAAAAT
131 ATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAAAAT
21379618 ACCCTAAACCCT
196 ACCCTAAACCCT
21379630 AACTCTAGGA
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 198 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (210 bp):
GTTATACTTGAACTCGTGACTGCATCACGGCTATCGACTAGGACCTTCACGTTGAATTCAACCCC
TGATTGCATCATGCATTATTGCCTTGAAATCAAATTTCCCCACAATGGGTTTCTAAGGTTATGGA
ATTCCCCTAAAAAATACCTAAAAATTTCTACCATTTCAGTCGAAAACCCTGAACACTTTCAAAAT
ACCCTAAACCCTCTA
Found at i:21381032 original size:24 final size:24
Alignment explanation
Indices: 21381005--21381052 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21380995 GGATTTTTAT
21381005 CATGATCAAGATAAAGTTTTGGTA
1 CATGATCAAGATAAAGTTTTGGTA
21381029 CATGATCAAGATAAAGTTTTGGTA
1 CATGATCAAGATAAAGTTTTGGTA
21381053 TACTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
CATGATCAAGATAAAGTTTTGGTA
Found at i:21384876 original size:26 final size:26
Alignment explanation
Indices: 21384846--21384953 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
21384836 TGAAATGCCC
21384846 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
21384872 ATCATGGAATATTTACTTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
21384898 ATCATGGAATATTTACCTGATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21384924 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21384950 ATCA
1 ATCA
21384954 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21390974 original size:13 final size:13
Alignment explanation
Indices: 21390956--21390989 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21390946 TATGGATAAG
21390956 AATACTAAAAACT
1 AATACTAAAAACT
*
21390969 AATACTAACAACT
1 AATACTAAAAACT
*
21390982 ATTACTAA
1 AATACTAA
21390990 TTGTACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (13 bp):
AATACTAAAAACT
Found at i:21415012 original size:43 final size:43
Alignment explanation
Indices: 21414944--21415148 Score: 196
Period size: 43 Copynumber: 4.8 Consensus size: 43
21414934 TATGTGATAT
* *
21414944 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGA
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGA
* * *
21414987 TTACATGTAGGACCATGTCTAGGACGTTGGCATCAATATGTGA
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGA
* * * *
21415030 TTACGTGTAAGACCACGGCTAGGATGTTGGCATCGATATGTGT
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGA
* * ** * * * * *
21415073 TTATGAGTAAGACCTTGTCTGGGACAG-TGGCCTCGATATGAGG
1 TTACGTGTAAGACCACGTCTAGGAC-GTTGGCATCAATATGTGA
* * * *
21415116 TTACATGTAAGACCACATCTGGGACATTGGCAT
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCAT
21415149 TGTACGATAT
Statistics
Matches: 130, Mismatches: 30, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
43 129 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGA
Found at i:21415046 original size:86 final size:86
Alignment explanation
Indices: 21414944--21415148 Score: 225
Period size: 86 Copynumber: 2.4 Consensus size: 86
21414934 TATGTGATAT
*
21414944 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGATTA-CATGTAGGACCATGTCTA
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGATTATCA-GTAAGACCATGTCTA
*
21415008 GGAC-GTTGGCATCAATATGTGA
65 GGACAG-TGGCATCAATATGAGA
* * * ** * * * *
21415030 TTACGTGTAAGACCACGGCTAGGATGTTGGCATCGATATGTGTTTATGAGTAAGACCTTGTCTGG
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGATTATCAGTAAGACCATGTCTAG
* * *
21415095 GACAGTGGCCTCGATATGAGG
66 GACAGTGGCATCAATATGAGA
* * *
21415116 TTACATGTAAGACCACATCTGGGACATTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
21415149 TGTACGATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
86 95 0.98
87 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (86 bp):
TTACGTGTAAGACCACGTCTGGGACGTTGGCATAAATATGTGATTATCAGTAAGACCATGTCTAG
GACAGTGGCATCAATATGAGA
Found at i:21417629 original size:15 final size:16
Alignment explanation
Indices: 21417600--21417629 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21417590 CAAAAATGCT
21417600 TTAACACATTATCAAA
1 TTAACACATTATCAAA
21417616 TTAACACA-TATCAA
1 TTAACACATTATCAA
21417630 CAATGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:21419882 original size:25 final size:25
Alignment explanation
Indices: 21419789--21419874 Score: 145
Period size: 25 Copynumber: 3.4 Consensus size: 25
21419779 AGCCCATGTA
21419789 AGCATACTGATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
**
21419814 AGCATACCAATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
*
21419839 AGCATACTGATCTATAGCTCGCGAG
1 AGCATACTGATCTATAGCTCGTGAG
21419864 AGCATACTGAT
1 AGCATACTGAT
21419875 TTTCAGCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCATACTGATCTATAGCTCGTGAG
Found at i:21427870 original size:39 final size:40
Alignment explanation
Indices: 21427749--21427880 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
21427739 GCTACTCGTT
* * *
21427749 CAAATGCCTTCGGGACATAAGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
* * *
21427789 CAATTGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* *
21427829 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
21427868 CAAATGCCTTCGG
1 CAAATGCCTTCGG
21427881 ATATTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.41
40 46 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:21427933 original size:40 final size:40
Alignment explanation
Indices: 21427730--21427933 Score: 165
Period size: 40 Copynumber: 5.1 Consensus size: 40
21427720 CGGAATTTAA
** *
21427730 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGACATAAG-
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGAC-TTAGC
* * *
21427770 CCGGTTATAGTAAC-TCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
* *
21427810 CTGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
* *
21427849 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTC-GGATATTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGA-CTTAGC
* *
21427889 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
21427929 CCGGA
1 CCGGA
21427934 CATCATTCAA
Statistics
Matches: 134, Mismatches: 19, Indels: 22
0.77 0.11 0.13
Matches are distributed among these distances:
38 3 0.02
39 32 0.24
40 85 0.63
41 13 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21440065 original size:48 final size:48
Alignment explanation
Indices: 21439946--21440069 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 48
21439936 TCCAGATATA
* * * *
21439946 GTCTTACATGGGATCACATACCAATTCCAATGCCATGTCCTAGACACG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAAACACG
*
21439994 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCGC-AAACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTC-CTAAACACG
*
21440042 GTCTTACATGGGATCACACATCGATGCC
1 GTCTTACATGGGATCACATATCGATGCC
21440070 GATAGCCCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
48 68 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAAACACG
Found at i:21440500 original size:14 final size:13
Alignment explanation
Indices: 21440476--21440505 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21440466 GGTTGTTTAT
21440476 TAAACTAATTAAC
1 TAAACTAATTAAC
21440489 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
21440503 TAA
1 TAA
21440506 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:21452822 original size:28 final size:28
Alignment explanation
Indices: 21452780--21452875 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
21452770 TAGGTGGGAA
21452780 GTGATTGGGCCTGATGGGCCATATGAAT
1 GTGATTGGGCCTGATGGGCCATATGAAT
* *
21452808 TTGATTGGGCTTGATGGGCCATATGAAT
1 GTGATTGGGCCTGATGGGCCATATGAAT
*
21452836 GTGATTGGGCCTGATGGGCCATGTGAAT
1 GTGATTGGGCCTGATGGGCCATATGAAT
* *
21452864 GAGATTAGGCCT
1 GTGATTGGGCCT
21452876 AAAGGGGCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.30
Consensus pattern (28 bp):
GTGATTGGGCCTGATGGGCCATATGAAT
Found at i:21453222 original size:27 final size:27
Alignment explanation
Indices: 21453192--21453478 Score: 275
Period size: 27 Copynumber: 10.7 Consensus size: 27
21453182 TAATAAAGAG
21453192 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21453219 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACTGAAATACCCTCGATT-TGTA
* * * *
21453245 AAATTACCGAAATACCCCCAATATGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21453272 AAATTA-TCAAA-ACACTCTCGATTTGTA
1 AAATTACTGAAATAC-C-CTCGATTTGTA
* * * *
21453299 AAATTACTGGAACACCATTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21453326 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
21453353 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
21453380 AAATTACAGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21453407 AAATTACCGAAACACCC-CTAGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* *
21453434 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
21453461 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
21453479 TGTAGTGTAA
Statistics
Matches: 214, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.02
26 26 0.12
27 175 0.82
28 7 0.03
29 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:21453489 original size:81 final size:81
Alignment explanation
Indices: 21453192--21453480 Score: 354
Period size: 81 Copynumber: 3.6 Consensus size: 81
21453182 TAATAAAGAG
* *
21453192 AAATTA-CTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTATG--AAATTACCG
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTGATT-TGTAAAATTACCG
* * * *
21453254 AAATACCCCCAATATGTA
64 AAACACCCCTAGTTTGTA
* * * * * *
21453272 AAATTATCAAAACACTCTCGATTTGTAAAATTACTGGAACACCATTGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCGAA
*
21453337 ACA-CCCTCGATTTGTA
66 ACACCCCTAG-TTTGTA
* *
21453353 AAATTATCGAAATACCCTCGATTTGTAAAATTACAGAAATACCTTTGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCGAA
21453418 ACACCCCTAGTTTGTA
66 ACACCCCTAGTTTGTA
* *
21453434 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACTGAAATACCCTTG
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCTTG
21453481 TAGTGTAAAG
Statistics
Matches: 178, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 44 0.25
81 127 0.71
82 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (81 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCGAA
ACACCCCTAGTTTGTA
Found at i:21453502 original size:27 final size:27
Alignment explanation
Indices: 21453322--21453518 Score: 154
Period size: 27 Copynumber: 7.3 Consensus size: 27
21453312 ACCATTGATT
* * * *
21453322 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
21453349 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
21453376 TGTAAAATTA-CAGAAATACCTTTG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* * * *
21453403 TGTAAAATTACCGAAACACCCCTAGT-T
1 TGTAAAATTATCGAAATA-CCCTTGTAG
21453430 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
21453457 TGTAAAATTA-CTGAAATACCCTTGTAG
1 TGTAAAATTATC-GAAATACCCTTGTAG
* * *
21453484 TGTAAAGTGATCGACATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
21453511 GGTAAAAT
1 TGTAAAAT
21453519 GACTGTTTTG
Statistics
Matches: 147, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.05
27 133 0.90
28 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:21454598 original size:17 final size:18
Alignment explanation
Indices: 21454576--21454610 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21454566 TTTTGAGTAG
21454576 TAAGAA-AGGGTTTTCAA
1 TAAGAACAGGGTTTTCAA
*
21454593 TAAGAACATGGTTTTCAA
1 TAAGAACAGGGTTTTCAA
21454611 AAAACACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (18 bp):
TAAGAACAGGGTTTTCAA
Found at i:21482676 original size:48 final size:48
Alignment explanation
Indices: 21482611--21482836 Score: 250
Period size: 48 Copynumber: 4.8 Consensus size: 48
21482601 CATGGTAGGG
* *
21482611 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATA-CTGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC-GA
21482659 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
* * *
21482707 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACACATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
* * * * * ** *
21482755 TGTCGAT---A-G-CCC-AGCTATGGTCTAACACGATATTACATATCGA
1 TGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATATCGA
* *
21482798 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
21482837 GTACATAACC
Statistics
Matches: 145, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 28 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.76
49 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
Found at i:21484975 original size:5 final size:5
Alignment explanation
Indices: 21484965--21485036 Score: 66
Period size: 5 Copynumber: 15.4 Consensus size: 5
21484955 GTATTTTTTA
* * *
21484965 TTCTT TTCTT TTCTT TT-TT TT-TGT TT-TT TTGTT TTATT TT-TA TT-TT
1 TTCTT TTCTT TTCTT TTCTT TTCT-T TTCTT TTCTT TTCTT TTCTT TTCTT
21485011 TTCTT TTCTT TTCTT TTCTT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
21485037 AGAACAATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
4 18 0.30
5 43 0.70
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (5 bp):
TTCTT
Found at i:21484982 original size:1 final size:1
Alignment explanation
Indices: 21484958--21485036 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
21484948 TCTATATGTA
* * * * * * * * * *
21484958 TTTTTTATTCTTTTCTTTTCTTTTTTTTTGTTTTTTTGTTTTATTTTTATTTTTTCTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
21485023 CTTTTCTTTTTTTT
1 TTTTTTTTTTTTTT
21485037 AGAACAATAA
Statistics
Matches: 54, Mismatches: 24, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.04, C:0.09, G:0.03, T:0.85
Consensus pattern (1 bp):
T
Found at i:21487723 original size:3 final size:3
Alignment explanation
Indices: 21487709--21487765 Score: 53
Period size: 3 Copynumber: 17.7 Consensus size: 3
21487699 AGAGTAGAAA
*
21487709 AAT AAT AGAT AAT AAAC AAT AAAT AAAT AAT AAT AA- AAT AACT AAT
1 AAT AAT A-AT AAT -AAT AAT -AAT -AAT AAT AAT AAT AAT AA-T AAT
21487755 AAT AAT AAT AA
1 AAT AAT AAT AA
21487766 ACAAGAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 2 0.04
3 30 0.64
4 15 0.32
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:21487732 original size:21 final size:20
Alignment explanation
Indices: 21487708--21487776 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 20
21487698 AAGAGTAGAA
21487708 AAATAATAGATAATAAACAAT
1 AAATAATA-ATAATAAACAAT
*
21487729 AAATAAATAATAATAAAATAACT
1 AAAT-AATAATAAT-AAACAA-T
*
21487752 -AATAATAATAATAAACAAG
1 AAATAATAATAATAAACAAT
21487771 AAATAA
1 AAATAA
21487777 ATAAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.24
21 18 0.44
22 12 0.29
23 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATAATAATAATAAACAAT
Found at i:21487738 original size:18 final size:18
Alignment explanation
Indices: 21487712--21487780 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 18
21487702 GTAGAAAAAT
*
21487712 AATAGATAATAAACAATA
1 AATAAATAATAAACAATA
*
21487730 AATAAATAATAATAAAATAA
1 AATAAATAATAA-ACAAT-A
*
21487750 CTAATAATAATAATAAACAAGA
1 --AAT-A-AATAATAAACAATA
21487772 AATAAATAA
1 AATAAATAA
21487781 AAAAATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 16 0.39
19 5 0.12
20 4 0.10
22 4 0.10
23 4 0.10
24 8 0.20
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAATAATAAACAATA
Found at i:21488692 original size:4 final size:4
Alignment explanation
Indices: 21488683--21488708 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21488673 TTAAAAACAC
21488683 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
21488709 TGAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:21498399 original size:41 final size:41
Alignment explanation
Indices: 21498339--21498417 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
21498329 TTGGTCCAAC
21498339 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
1 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
*
21498380 TGTATTAATTAAAGCAAGATCAATAAATAGCATAAAAT
1 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAAT
21498418 AATTAAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.30
Consensus pattern (41 bp):
TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
Found at i:21500723 original size:46 final size:46
Alignment explanation
Indices: 21500658--21500758 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
21500648 TCAGACTTGA
*
21500658 TCTTACACTGACTATCATCTCGTA-GCCGATTCATGTCCCAAACATG
1 TCTTACACTGACTATCATCTCG-AGGCCGATGCATGTCCCAAACATG
* **
21500704 TCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCTGACATG
1 TCTTACACTGACTAT-CATCTCGAGGCCGATGCATGTCCCAAACATG
21500750 TCTTACACT
1 TCTTACACT
21500759 AGCTCACAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (46 bp):
TCTTACACTGACTATCATCTCGAGGCCGATGCATGTCCCAAACATG
Found at i:21508851 original size:22 final size:22
Alignment explanation
Indices: 21508771--21508878 Score: 83
Period size: 22 Copynumber: 4.9 Consensus size: 22
21508761 ACAACACACT
* * *
21508771 AGAGAGCAACATAGTGCTAAAC
1 AGAGAGCACCAAAGTGCTAAGC
* ***
21508793 AGATAGCAATTAAGTGCTAAGC
1 AGAGAGCACCAAAGTGCTAAGC
* *
21508815 AGAAAGCACCGAAGTGCTAAGC
1 AGAGAGCACCAAAGTGCTAAGC
* * * *
21508837 AGAGACCACTAAAGTGTTTAA-T
1 AGAGAGCACCAAAGTG-CTAAGC
21508859 AGAGAGCACCAAAGTGCTAA
1 AGAGAGCACCAAAGTGCTAA
21508879 ACCCATACAA
Statistics
Matches: 67, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
21 3 0.04
22 61 0.91
23 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (22 bp):
AGAGAGCACCAAAGTGCTAAGC
Found at i:21511763 original size:50 final size:49
Alignment explanation
Indices: 21511641--21511920 Score: 271
Period size: 50 Copynumber: 5.6 Consensus size: 49
21511631 ATCTGGTACG
* * * **
21511641 CATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCCAGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACATTTGA-TACA
** *
21511690 TGTAGTAGCCTACACTTAGTACTACACACATGACCTAACCATTTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CATTTGATACA
* * * *
21511740 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-GTTGTCGGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACATT-T--GATACA
* * *
21511791 CATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC-ATTTGATACA
* * *
21511841 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAACATCTT-AAACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCT---AACAT-TTGATACA
21511893 CATAGTAGCCTACA-TATAGTACTACACA
1 CATAGTAGCCTACACT-TAGTACTACACA
21511921 TGTGTTGTAA
Statistics
Matches: 189, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
48 2 0.01
49 31 0.16
50 76 0.40
51 44 0.23
52 31 0.16
53 5 0.03
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACATTTGATACA
Found at i:21511838 original size:101 final size:99
Alignment explanation
Indices: 21511629--21511920 Score: 336
Period size: 101 Copynumber: 2.9 Consensus size: 99
21511619 GTAACCAAAG
* * * **
21511629 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCAGTACATGTA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACATA
*
21511694 GTAGCCTACACTTAGTACTACACACATGACCTAA
66 GTAGCCTACACTTAGTACTACACACACGACCTAA
* * *** **
21511728 CCATTTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGTTGTCGGGTACACA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA-CAATCCAGTACACA
**
21511793 TAGTAGCCTACACTTAGTACTACACATGCGACCTAA
64 TAGTAGCCTACACTTAGTACTACACACACGACCTAA
* * * *
21511829 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAACATCTTA-AACA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC--AACA-ATC-CAGTACA
21511893 CATAGTAGCCTACA-TATAGTACTACACA
62 CATAGTAGCCTACACT-TAGTACTACACA
21511921 TGTGTTGTAA
Statistics
Matches: 162, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
99 42 0.26
100 2 0.01
101 85 0.52
102 33 0.20
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (99 bp):
CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACATA
GTAGCCTACACTTAGTACTACACACACGACCTAA
Found at i:21513997 original size:27 final size:27
Alignment explanation
Indices: 21513959--21514090 Score: 146
Period size: 27 Copynumber: 4.9 Consensus size: 27
21513949 TAAGACCTCG
* *
21513959 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTATCGAAATACCCCTA
*
21513986 GTTTGTAAAATTATCGAAATA-CCCTC
1 GTTTGTAAAATTATCGAAATACCCCTA
21514012 GATTTGTAAAATTATCGAAATACCTCC-A
1 G-TTTGTAAAATTATCGAAATACC-CCTA
* * *
21514040 GTTTATAAAATTA-CGAAATA-CCTTT
1 GTTTGTAAAATTATCGAAATACCCCTA
*
21514065 GTAGTGTAAAATTATCGAAATACCCC
1 GT-TTGTAAAATTATCGAAATACCCC
21514091 GGTAGGGTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 21 0.24
27 57 0.65
28 4 0.05
29 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
GTTTGTAAAATTATCGAAATACCCCTA
Found at i:21514043 original size:54 final size:52
Alignment explanation
Indices: 21513954--21514090 Score: 168
Period size: 54 Copynumber: 2.6 Consensus size: 52
21513944 GTCGTTAAGA
* * *
21513954 CCTCGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATAC
1 CCTC-GTTTGTAAAATTATCGAAATACCCCTAGTTTATAAAATTA-CGAAATAC
21514008 CCTCGATTTGTAAAATTATCGAAATACCTCC-AGTTTATAAAATTACGAAATAC
1 CCTCG-TTTGTAAAATTATCGAAATACC-CCTAGTTTATAAAATTACGAAATAC
* * *
21514061 CTTTGTAGTGTAAAATTATCGAAATACCCC
1 CCTCGT-TTGTAAAATTATCGAAATACCCC
21514091 GGTAGGGTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
52 3 0.04
53 32 0.43
54 37 0.50
55 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (52 bp):
CCTCGTTTGTAAAATTATCGAAATACCCCTAGTTTATAAAATTACGAAATAC
Found at i:21514079 original size:53 final size:54
Alignment explanation
Indices: 21513962--21514090 Score: 165
Period size: 53 Copynumber: 2.4 Consensus size: 54
21513952 GACCTCGGTT
* * * *
21513962 TGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGATT
1 TGTAAAATTATCGAAATACCCCTAGTTTATAAAATTATCGAAATACCCTCGATG
* *
21514016 TGTAAAATTATCGAAATACCTCC-AGTTTATAAAATTA-CGAAATACCTTTG-TAG
1 TGTAAAATTATCGAAATACC-CCTAGTTTATAAAATTATCGAAATACCCTCGAT-G
21514069 TGTAAAATTATCGAAATACCCC
1 TGTAAAATTATCGAAATACCCC
21514091 GGTAGGGTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
52 3 0.04
53 31 0.46
54 31 0.46
55 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TGTAAAATTATCGAAATACCCCTAGTTTATAAAATTATCGAAATACCCTCGATG
Found at i:21517901 original size:27 final size:27
Alignment explanation
Indices: 21517857--21518028 Score: 136
Period size: 27 Copynumber: 6.3 Consensus size: 27
21517847 TTGGGTCATT
*
21517857 AATA-CCCTAGTTTTTAAAATTATCGA
1 AATACCCCTAGTTTGTAAAATTATCGA
*
21517883 AATACCCCCAGTTTGTAAAATTA-CTGA
1 AATACCCCTAGTTTGTAAAATTATC-GA
* * *
21517910 AATACCCATAATTTGTAAAATTA-CTAA
1 AATACCCCTAGTTTGTAAAATTATC-GA
* * *
21517937 AATACCCCCAATTTGTAAAAATTATTGA
1 AATACCCCTAGTTTGT-AAAATTATCGA
* *
21517965 AATACCCTTAGTTTGTAAAAAAATTATCAA
1 AATACCCCTAGTTTGT---AAAATTATCGA
* * *
21517995 AATA-CCCTAATTTTTTAAAATTACCGA
1 AATACCCCT-AGTTTGTAAAATTATCGA
21518022 AATACCC
1 AATACCC
21518029 TTGTAGTGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.04
27 68 0.58
28 23 0.19
29 3 0.03
30 19 0.16
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (27 bp):
AATACCCCTAGTTTGTAAAATTATCGA
Found at i:21518014 original size:29 final size:30
Alignment explanation
Indices: 21517909--21518007 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 30
21517899 AAAATTACTG
*
21517909 AAATACCCATAATTTGT---AAAATTA-CTA
1 AAATACCCTTAATTTGTAAAAAAATTATC-A
** **
21517936 AAATACCCCCAATTTGT--AAAAATTATTG
1 AAATACCCTTAATTTGTAAAAAAATTATCA
*
21517964 AAATACCCTTAGTTTGTAAAAAAATTATCA
1 AAATACCCTTAATTTGTAAAAAAATTATCA
21517994 AAATACCC-TAATTT
1 AAATACCCTTAATTT
21518008 TTTAAAATTA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 15 0.26
28 21 0.36
29 5 0.09
30 17 0.29
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATACCCTTAATTTGTAAAAAAATTATCA
Found at i:21518014 original size:30 final size:30
Alignment explanation
Indices: 21517953--21518014 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
21517943 CCCAATTTGT
** *
21517953 AAAAATTATTGAAATACCCTTAGTTTGTAA
1 AAAAATTATCAAAATACCCTAAGTTTGTAA
* *
21517983 AAAAATTATCAAAATACCCTAATTTTTTAA
1 AAAAATTATCAAAATACCCTAAGTTTGTAA
21518013 AA
1 AA
21518015 TTACCGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAAATTATCAAAATACCCTAAGTTTGTAA
Found at i:21518039 original size:57 final size:58
Alignment explanation
Indices: 21517882--21518041 Score: 154
Period size: 57 Copynumber: 2.8 Consensus size: 58
21517872 AAAATTATCG
* * * * *
21517882 AAATACCCCCAGTTTGT-AAAATTACTGAAATACCCATAATTTGT---AAAATTACTA
1 AAATACCCCCAATTTGTAAAAATTACCGAAATACCCTTAGTGTGTAAAAAAATTACTA
** *
21517936 AAATACCCCCAATTTGTAAAAATTATTGAAATACCCTTAGTTTGTAAAAAAATTA-TCA
1 AAATACCCCCAATTTGTAAAAATTACCGAAATACCCTTAGTGTGTAAAAAAATTACT-A
* * *
21517994 AAATA-CCCTAATTTTTTAAAATTACCGAAATACCCTT-GTAGTGTAAAA
1 AAATACCCCCAATTTGTAAAAATTACCGAAATACCCTTAGT-GTGTAAAA
21518042 TTACTGAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
54 16 0.18
55 24 0.27
56 2 0.02
57 35 0.39
58 13 0.14
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (58 bp):
AAATACCCCCAATTTGTAAAAATTACCGAAATACCCTTAGTGTGTAAAAAAATTACTA
Found at i:21518066 original size:26 final size:27
Alignment explanation
Indices: 21518010--21518068 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
21518000 CCTAATTTTT
*
21518010 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGGG
* *
21518037 TAAAATTACTGAAATGCCC-TGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
21518063 TAAAAT
1 TAAAAT
21518069 GACAATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGGG
Found at i:21518826 original size:27 final size:27
Alignment explanation
Indices: 21518759--21518826 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
21518749 TGTTACTGAG
* * ** *
21518759 ATGGGC-TAGGCCCAATTGATTTTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
21518785 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
21518812 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
21518827 CTTATGCTAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:21521265 original size:39 final size:39
Alignment explanation
Indices: 21521182--21521332 Score: 112
Period size: 40 Copynumber: 3.8 Consensus size: 39
21521172 TTGAATGCTG
* *
21521182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
21521221 ATCCGGACTAAGAT-CGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAAT
** *
21521261 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT
** *
21521301 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG
21521333 TTTTAAAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 17 0.18
40 73 0.79
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21521279 original size:40 final size:40
Alignment explanation
Indices: 21521235--21521364 Score: 190
Period size: 40 Copynumber: 3.2 Consensus size: 40
21521225 GGACTAAGAT
*
21521235 CGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
* * *
21521275 CGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
* *
21521315 CGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTCC
21521355 CGAAGGCATT
1 CGAAGGCATT
21521365 GAATGAGTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCC
Found at i:21521385 original size:39 final size:38
Alignment explanation
Indices: 21521262--21521410 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
21521252 GTTATTAATT
* ** * *
21521262 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
21521302 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
21521341 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
21521381 CCGGGCTATGT-CCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21521411 GAGCTAAATC
Statistics
Matches: 92, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
38 9 0.10
39 28 0.30
40 55 0.60
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:21532800 original size:22 final size:21
Alignment explanation
Indices: 21532772--21532836 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
21532762 GCAAATACAT
21532772 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
*
21532794 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACA-AACCATA-ATCAGG
*
21532816 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
21532837 AATAATTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:21533043 original size:41 final size:41
Alignment explanation
Indices: 21532980--21533100 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
21532970 AAAGCCACCA
* * *
21532980 GTGGATCCACAGTCATCAAGCAACCATGCGATCCTTAATAG
1 GTGGATCCACAGTCGTCGAGCAACCATGCGATCCTCAATAG
*
21533021 GTGGATCCAC-GATCGTCGAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACAG-TCGTCGAGCAACCATGCGATCCTCAATAG
21533062 GTGGATCCACAGTCGT-GAAGCAACCATGCGATCCTCAAT
1 GTGGATCCACAGTCGTCG-AGCAACCATGCGATCCTCAAT
21533101 TTCTTCTTCC
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 2 0.03
41 70 0.96
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
GTGGATCCACAGTCGTCGAGCAACCATGCGATCCTCAATAG
Found at i:21533390 original size:27 final size:27
Alignment explanation
Indices: 21533358--21533709 Score: 194
Period size: 27 Copynumber: 13.0 Consensus size: 27
21533348 TTGGTAAATC
*
21533358 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
21533385 TGCAAACCAATGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
** * * *
21533412 TTGAAAGTTAAGGGCATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTT
** *
21533440 TGTAAATC-AGAGGTATTTCTATAATTT
1 TACAAATCAAG-GGTATTTCGATAATTT
* *
21533467 TCCAAATTAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
21533494 TTCAAAT-TAGAGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGATAATTT
* * * *
21533521 TATAAATCGAGGATATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* ** *
21533548 TACAAGTTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* ** * *
21533575 TATAGGTCGAGGGTATTTC-AGTAGTTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * *
21533602 CACAAATCAGGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
21533629 TACAAA-CTATGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCGATAATTT
* * * * *
21533656 TTCTAATCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
21533683 TGTAAACCAAGGGTATTTAG-TAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
21533709 T
1 T
21533710 GTAAACTAAG
Statistics
Matches: 256, Mismatches: 58, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
26 12 0.05
27 218 0.85
28 26 0.10
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:21533519 original size:54 final size:55
Alignment explanation
Indices: 21533340--21533709 Score: 244
Period size: 54 Copynumber: 6.8 Consensus size: 55
21533330 TCACCCTACA
* * * * * * *
21533340 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAACCA-
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCGATAATTTTTCAAATCAG
* * * *
21533394 ATGGTATTTCT-GTAATTTT-TGAAAGTTAAGGGCATTTCTATAATTTTGT-AAATCAG
1 AGGGTATTT-TGGTAATTTTAT-AAA-TCAAGGGTATTTCGATAATTTT-TCAAATCAG
* ** * *
21533450 A-GGTATTTCT-ATAATTTTCCAAATTAAGGGTATTTCGATAATTTTTCAAATTAG
1 AGGGTATTT-TGGTAATTTTATAAATCAAGGGTATTTCGATAATTTTTCAAATCAG
* * * * * *
21533504 A-GGTATTTTGGTAATTTTATAAATCGAGGATATTTTGATAATTTTACAAGT-TG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCGATAATTTTTCAAATCAG
* ** * * **
21533557 AGGGTATTTCGGTAATTTTATAGGTCGAGGGTATTTC-AGTAGTTTCACAAATCAG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCGA-TAATTTTTCAAATCAG
* * * * * *
21533612 -GGGTATTTTGATAATTTTACAAA-CTATGGGTATTTTGGTAATTTTTCTAATC-G
1 AGGGTATTTTGGTAATTTTATAAATC-AAGGGTATTTCGATAATTTTTCAAATCAG
* * *
21533665 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAG-TAATTTT
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCGATAATTTT
21533710 GTAAACTAAG
Statistics
Matches: 248, Mismatches: 53, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
53 14 0.06
54 188 0.76
55 45 0.18
56 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (55 bp):
AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCGATAATTTTTCAAATCAG
Found at i:21533697 original size:81 final size:81
Alignment explanation
Indices: 21533340--21533727 Score: 279
Period size: 81 Copynumber: 4.8 Consensus size: 81
21533330 TCACCCTACA
* * * * * * * *
21533340 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAACCAAT-GGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAA-CTATGGGTATTTC
* * **
21533404 TGTAATTTTTGAAAGTTA
65 GGTAATTTTTCAAA-TCG
* * * * * *
21533422 AGGGCATTTCT-ATAATTTTGTAAATC-AGAGGTATTTCT-ATAATTTTCCAAATTAAGGGTATT
1 AGGGTATTT-TGGTAATTTTATAAATCAAG-GGTATTT-TGATAATTTTACAAACTATGGGTATT
* *
21533484 TCGATAATTTTTCAAAT-T
63 TCGGTAATTTTTCAAATCG
* * **
21533502 AGAGGTATTTTGGTAATTTTATAAATCGAGGATATTTTGATAATTTTACAAGTTGA-GGGTATTT
1 AG-GGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACT-ATGGGTATTT
**
21533566 CGGTAATTTTAT-AGGTCG
64 CGGTAATTTT-TCAAATCG
** * * * * *
21533584 AGGGTATTTCAGTAGTTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTATGGGTATTTTG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTCG
*
21533649 GTAATTTTTCTAATCG
66 GTAATTTTTCAAATCG
* * * ** * *
21533665 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAG-TAATTTTGTAAACTAAGCGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTC
21533728 AATACTTCTA
Statistics
Matches: 238, Mismatches: 55, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
80 26 0.11
81 151 0.63
82 60 0.25
83 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTCG
GTAATTTTTCAAATCG
Found at i:21533715 original size:26 final size:26
Alignment explanation
Indices: 21533665--21533726 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
21533655 TTTCTAATCG
*
21533665 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTA-TTTAGTAATTTTGTAAACCA
*
21533692 AGGGTATTTAGTAATTTTGTAAACTA
1 AGGGTATTTAGTAATTTTGTAAACCA
*
21533718 AGCGTATTT
1 AGGGTATTT
21533727 CAATACTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTGTAAACCA
Found at i:21533763 original size:27 final size:27
Alignment explanation
Indices: 21533723--21533789 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
21533713 AACTAAGCGT
* * * *
21533723 ATTTCAATACTTCTATCCTACATGGGT
1 ATTTCAGTAATTCTATCCTACAGGGGC
* *
21533750 ATTTTAGTAATTCTATCCTATAGGGGC
1 ATTTCAGTAATTCTATCCTACAGGGGC
21533777 ATTTCAGTAATTC
1 ATTTCAGTAATTC
21533790 AAACCTATAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (27 bp):
ATTTCAGTAATTCTATCCTACAGGGGC
Found at i:21541790 original size:27 final size:27
Alignment explanation
Indices: 21541750--21541861 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
21541740 AGGAAGCGTC
*
21541750 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
21541777 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
21541804 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
21541832 CAGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
21541858 CTGG
1 CTGG
21541862 CAGCCATGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.67
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:21541856 original size:54 final size:54
Alignment explanation
Indices: 21541750--21541861 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
21541740 AGGAAGCGTC
* * *
21541750 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCAGGTGACTCTGCCACATATATCTGTT
* * *
21541804 CTGGTGGCTCTGCCACGATTATCTGTATCAGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCAGGTGACTCTGCCACATATATCTGTT
21541858 CTGG
1 CTGG
21541862 CAGCCATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCAGGTGACTCTGCCACATATATCTGTT
Found at i:21548252 original size:22 final size:22
Alignment explanation
Indices: 21548227--21548269 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21548217 ATCACTCTTC
* *
21548227 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
21548249 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
21548270 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:21548942 original size:28 final size:27
Alignment explanation
Indices: 21548849--21548955 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
21548839 AGGAAGCGTC
*
21548849 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
21548876 CTTGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
21548903 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
21548931 CTGGTGACTCTGTCACATCATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
21548956 TCTAGCAGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:21548955 original size:54 final size:53
Alignment explanation
Indices: 21548849--21548958 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 53
21548839 AGGAAGCGTC
* *
21548849 CTGGTGGCTATGCCACAATTATCTGATCTTGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATA-TTCTGTT
* * *
21548903 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATCA-TCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACAT-ATTCTGTT
21548957 CT
1 CT
21548959 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 31 0.63
55 17 0.35
56 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTCTGTT
Found at i:21562566 original size:47 final size:47
Alignment explanation
Indices: 21562459--21562935 Score: 742
Period size: 47 Copynumber: 10.1 Consensus size: 47
21562449 GAAATGATAG
*
21562459 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
21562508 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21562555 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21562602 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21562649 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21562696 T-AGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21562742 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21562789 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21562836 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21562883 TAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21562929 CAAGGCC
1 TAAGGCC
21562936 GAGTGGCCAA
Statistics
Matches: 408, Mismatches: 19, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
46 82 0.20
47 291 0.71
49 35 0.09
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:21562977 original size:187 final size:188
Alignment explanation
Indices: 21562459--21562979 Score: 776
Period size: 187 Copynumber: 2.8 Consensus size: 188
21562449 GAAATGATAG
* *
21562459 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
21562524 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
21562589 TGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
129 TGTATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * *
21562649 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGAT-AGGCCTAATAGCCGAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
21562713 GTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
21562778 TATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
131 TATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
21562836 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-AT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * * * *
21562900 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
21562965 CATAAATGTGATAAG
131 TATATATGTGATAAG
21562980 TCCCGAAAGG
Statistics
Matches: 295, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
187 239 0.81
188 23 0.08
190 33 0.11
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (188 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:21563153 original size:37 final size:37
Alignment explanation
Indices: 21563097--21563175 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21563087 CCGAGCTCTA
* * *
21563097 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21563134 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21563171 AAGAC
1 AAGAC
21563176 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21565168 original size:43 final size:43
Alignment explanation
Indices: 21565025--21565169 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
21565015 TTGGTTTTCA
*
21565025 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
21565068 GCACTAAGTGTGC-GGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
21565110 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
21565153 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
21565170 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
42 41 0.41
43 59 0.59
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:21565186 original size:29 final size:29
Alignment explanation
Indices: 21565151--21565224 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
21565141 GTTGTGAGAT
* *
21565151 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
21565180 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
21565209 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21565225 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:21565585 original size:40 final size:40
Alignment explanation
Indices: 21565537--21565692 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
21565527 TTGAATGATG
*
21565537 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
21565577 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
21565617 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
21565657 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
21565693 CGTGTATTCG
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:21569262 original size:22 final size:22
Alignment explanation
Indices: 21569191--21569262 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
21569181 AGTGTATATA
21569191 GTGATAAGGCCTAATGGCCGAT
1 GTGATAAGGCCTAATGGCCGAT
* * ***
21569213 GTGATGAATG--TGAAAGTGTATAT
1 GTGAT-AAGGCCT-AATG-GCCGAT
21569236 GTGATAAGGCCTAATGGCCGAT
1 GTGATAAGGCCTAATGGCCGAT
21569258 GTGAT
1 GTGAT
21569263 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 19 0.54
23 14 0.40
24 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
GTGATAAGGCCTAATGGCCGAT
Found at i:21569652 original size:47 final size:47
Alignment explanation
Indices: 21569148--21569623 Score: 787
Period size: 47 Copynumber: 10.1 Consensus size: 47
21569138 GAAATATAGT
*
21569148 TAAGGCCTAATGGCCGAATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATAGCCG-ATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569195 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569240 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569287 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569334 TAAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAA-GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21569382 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21569429 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21569476 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21569523 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569570 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21569617 CAAGGCC
1 TAAGGCC
21569624 GAGTGGCCAA
Statistics
Matches: 412, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
44 4 0.01
45 40 0.10
46 20 0.05
47 301 0.73
48 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:21569841 original size:37 final size:37
Alignment explanation
Indices: 21569785--21569863 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21569775 CCGAGCTCTA
* * *
21569785 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21569822 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21569859 AAGAC
1 AAGAC
21569864 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21572290 original size:40 final size:40
Alignment explanation
Indices: 21572206--21572389 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21572196 TTGAATGCTG
* * * *
21572206 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21572245 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21572286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21572326 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21572366 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21572390 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21572343 original size:80 final size:81
Alignment explanation
Indices: 21572206--21572386 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21572196 TTGAATGCTG
* * *
21572206 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21572270 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21572286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21572347 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21572366 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21572387 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21572410 original size:39 final size:38
Alignment explanation
Indices: 21572287--21572436 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
21572277 GTTATTAATT
* ** * *
21572287 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
21572327 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
21572366 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
21572406 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21572437 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:21580187 original size:40 final size:40
Alignment explanation
Indices: 21580103--21580286 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21580093 TTGAATGCTG
* * * *
21580103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21580142 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21580183 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21580223 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21580263 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21580287 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21580240 original size:80 final size:81
Alignment explanation
Indices: 21580103--21580283 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21580093 TTGAATGCTG
* * *
21580103 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21580167 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21580183 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21580244 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21580263 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21580284 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21580307 original size:39 final size:38
Alignment explanation
Indices: 21580184--21580333 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
21580174 GTTATTAATT
* ** * *
21580184 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
21580224 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
21580263 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
21580303 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21580334 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:21584182 original size:15 final size:15
Alignment explanation
Indices: 21584171--21584207 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
21584161 TTAAGAAGTT
*
21584171 CAAGATAGAGAAATC
1 CAAGATAAAGAAATC
21584186 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
21584201 CAAGATA
1 CAAGATA
21584208 CAATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
CAAGATAAAGAAATC
Found at i:21588072 original size:50 final size:50
Alignment explanation
Indices: 21587938--21588182 Score: 237
Period size: 50 Copynumber: 4.9 Consensus size: 50
21587928 CCGAAGCTAT
* * * * *
21587938 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGA-C
* *
21587988 C-GGTACACGTAGTAGCCTACACTTAGT-CTACACACATGACCTAACGAC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGAC
* * * * **
21588036 CTGCTACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGT
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACG--AC
* * * * * * * *
21588087 CGGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTAT
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGAC
*
21588137 CTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
21588183 AACCATCTTA
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
48 13 0.08
49 51 0.33
50 55 0.35
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGAC
Done.