Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 52 of 199
Found at i:20514902 original size:24 final size:24
Alignment explanation
Indices: 20514848--20514912 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
20514838 TAATCCATAC
*
20514848 ATATATACATACATTTTCTATAAT
1 ATATATACATACATTTTCTAAAAT
* *
20514872 ATATATACGTACATTTTTTAAAAT
1 ATATATACATACATTTTCTAAAAT
* *
20514896 -TATTATAAATATATTTT
1 ATA-TATACATACATTTT
20514913 TTTGCATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATATACATACATTTTCTAAAAT
Found at i:20514995 original size:23 final size:22
Alignment explanation
Indices: 20514939--20514998 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
20514929 TATATATACT
* *
20514939 TATATATATACGTATTTTAATA
1 TATACATATACATATTTTAATA
*
20514961 TATACATATACATATTTTCATAA
1 TATACATATACATATTTTAAT-A
* *
20514984 TTTACTTATACATAT
1 TATACATATACATAT
20514999 ATCATACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TATACATATACATATTTTAATA
Found at i:20515012 original size:23 final size:24
Alignment explanation
Indices: 20514956--20515013 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
20514946 ATACGTATTT
* *
20514956 TAATATATACATATACATATTTTCA
1 TAAT-TATACTTATACATATTATCA
20514981 TAATT-TACTTATACATA-TATCA
1 TAATTATACTTATACATATTATCA
*
20515003 TACTTATACTT
1 TAATTATACTT
20515014 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.28
23 16 0.55
24 1 0.03
25 4 0.14
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATTATACTTATACATATTATCA
Found at i:20515396 original size:13 final size:14
Alignment explanation
Indices: 20515377--20515416 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
20515367 ACATACATAC
20515377 ATATATTTATTTTT
1 ATATATTTATTTTT
20515391 -TATATTGTATTTTT
1 ATATATT-TATTTTT
*
20515405 ATTTATTTATTT
1 ATATATTTATTT
20515417 CTATTACGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
ATATATTTATTTTT
Found at i:20515421 original size:20 final size:20
Alignment explanation
Indices: 20515382--20515421 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20515372 CATACATATA
*
20515382 TTTATTTTTTATATTGTATT
1 TTTATTTTTTATATTCTATT
20515402 TTTATTTATTTAT-TTCTATT
1 TTTATTT-TTTATATTCTATT
20515422 ACGGTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTATTTTTTATATTCTATT
Found at i:20516953 original size:18 final size:17
Alignment explanation
Indices: 20516921--20516954 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20516911 ACTCAATGAT
20516921 ATAATCATCCATATATC
1 ATAATCATCCATATATC
*
20516938 ATAATTATCACATATAT
1 ATAATCATC-CATATAT
20516955 ATATGTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATCATCCATATATC
Found at i:20518018 original size:23 final size:23
Alignment explanation
Indices: 20517992--20518113 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
20517982 ATAAGTGCCA
20517992 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20518015 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20518038 CACTGAAATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20518061 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20518084 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20518107 CACTGAT
1 CACTGAT
20518114 CAATAACACT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20518365 original size:18 final size:17
Alignment explanation
Indices: 20518339--20518377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20518329 ATTTTTCTTC
20518339 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
20518356 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
20518374 CACA
1 CACA
20518378 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:20521053 original size:31 final size:31
Alignment explanation
Indices: 20521017--20521109 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
20521007 AAAAAACTTA
* **
20521017 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
20521048 AATATAATGATTAATGATATTTAAATAAAAT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
20521079 AAAATAATAATATATGAAATATTTAACATAA
1 AATATAATAATAAATG--ATATTTAA-ATAA
20521110 TGAAACATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
31 38 0.76
33 8 0.16
34 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
AATATAATAATAAATGATATTTAAATAAAAT
Found at i:20524689 original size:120 final size:120
Alignment explanation
Indices: 20524476--20524706 Score: 358
Period size: 120 Copynumber: 1.9 Consensus size: 120
20524466 TTAGCCTTTG
* * * *
20524476 CCCCCATAGATCCCCTTATTTTGTCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
1 CCCCCACAGATCCCCCTATTTTGTCACTATATTTTATTTCTTTAACAAGAATTTGGGTCACACAA
*
20524541 CTCTAACAATCTTCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
66 CTCTAACAATCTCCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
*
20524596 CCCCCACAGATCCCCCTATTTTG-CTACTATATTTTATTTCTTTAACAAGAATTTGGGTCATACA
1 CCCCCACAGATCCCCCTATTTTGTC-ACTATATTTTATTTCTTTAACAAGAATTTGGGTCACACA
* *
20524660 ATTCTAACAATCTCCTCCTT-GACACGAATTCTCAACGGACAAGTTCT
65 ACTCTAACAATCTCCTCCTTAG-CACGAATTCTCAACGAACAAGTTCT
20524707 TCATCACGAA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.02
120 99 0.98
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (120 bp):
CCCCCACAGATCCCCCTATTTTGTCACTATATTTTATTTCTTTAACAAGAATTTGGGTCACACAA
CTCTAACAATCTCCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
Found at i:20529695 original size:2 final size:2
Alignment explanation
Indices: 20529671--20529710 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
20529661 AATTATATGG
* * *
20529671 TA TA GA TA TA TA GA TA TA GA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20529711 ACATGGGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:20533303 original size:3 final size:3
Alignment explanation
Indices: 20533295--20533336 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
20533285 AACAAAAGAA
20533295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20533337 CTGAATTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20536164 original size:43 final size:46
Alignment explanation
Indices: 20536103--20536190 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 46
20536093 AATAATTATC
*
20536103 TTTATCTTTATCTTTATAT-TA-TAT-TACAATATTTATTTTATTT
1 TTTATCTTTATCTTTATATATATTATATACAATATTGATTTTATTT
*
20536146 TTTATCTTTATTTTTATATATATTATAATACAATATTGATTTTAT
1 TTTATCTTTATCTTTATATATATTAT-ATACAATATTGATTTTAT
20536191 AGATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 18 0.46
44 2 0.05
45 3 0.08
47 16 0.41
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (46 bp):
TTTATCTTTATCTTTATATATATTATATACAATATTGATTTTATTT
Found at i:20536182 original size:47 final size:49
Alignment explanation
Indices: 20536098--20536190 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 49
20536088 AATAAAATAA
* * * *
20536098 TTATCTTTATCTTTATCTTTATATTATATTACAATATTTATTTTATTTT
1 TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTATTTT
20536147 TTATCTTTAT-TTT-TATATATATTATAATACAATATTGATTTTAT
1 TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTAT
20536191 AGATTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 27 0.68
48 3 0.08
49 10 0.25
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (49 bp):
TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTATTTT
Found at i:20537471 original size:30 final size:30
Alignment explanation
Indices: 20537435--20537519 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
20537425 CCAATATCTC
20537435 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
20537465 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
20537495 GATACCCATATCTTTGATTTTCCAT
1 GATACCCATATCTTTGACTTTCCAT
20537520 AAATATGGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCATTATTT
Found at i:20537480 original size:15 final size:15
Alignment explanation
Indices: 20537435--20537512 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
20537425 CCAATATCTC
20537435 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20537450 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
20537465 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
20537480 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
20537495 GATACCCATATCTTT
1 GATACCCATATCTTT
20537510 GAT
1 GAT
20537513 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 9 0.20
15 27 0.60
16 9 0.20
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:20542133 original size:30 final size:30
Alignment explanation
Indices: 20542087--20542180 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
20542077 TTTTATTATG
*
20542087 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
20542118 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
20542148 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
20542178 CCA
1 CCA
20542181 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:20542142 original size:15 final size:15
Alignment explanation
Indices: 20542097--20542174 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
20542087 CCAATATCTC
20542097 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20542112 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
20542127 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
20542142 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
20542157 GATACCCATATCTTT
1 GATACCCATATCTTT
20542172 GAT
1 GAT
20542175 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:20551867 original size:25 final size:25
Alignment explanation
Indices: 20551833--20551892 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
20551823 CGCAGTTCGT
20551833 ATGAGCTTCCCGTTATAT-AGCTCGC
1 ATGAGCTTCCCGTTAT-TCAGCTCGC
*
20551858 ATGAGCTTCCCGTTATTCAGCTCGG
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
20551883 AGGAGCTTCC
1 ATGAGCTTCC
20551893 TGTTTACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:20556554 original size:19 final size:19
Alignment explanation
Indices: 20556519--20556584 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
20556509 TATTGCTAAT
20556519 TAATTTTTAA-AAA-TTTA
1 TAATTTTTAATAAATTTTA
* *
20556536 TAATTTTTTATAATTTTTA
1 TAATTTTTAATAAATTTTA
* *
20556555 TACTTTTTAATAAATTTAA
1 TAATTTTTAATAAATTTTA
*
20556574 TAAATTTTAAT
1 TAATTTTTAAT
20556585 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.23
18 2 0.05
19 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATTTTTAATAAATTTTA
Found at i:20558378 original size:27 final size:26
Alignment explanation
Indices: 20558329--20558379 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
20558319 ACAAGGAAAA
* * *
20558329 CCACGATCCTAATTTTCTGGAGATAG
1 CCACAATCCTAATTCTCTAGAGATAG
20558355 CCACAATCCTAAATTCTCTAGAGAT
1 CCACAATCCT-AATTCTCTAGAGAT
20558380 TAATCAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (26 bp):
CCACAATCCTAATTCTCTAGAGATAG
Found at i:20560847 original size:12 final size:12
Alignment explanation
Indices: 20560822--20560860 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20560812 CAAAACGCAC
*
20560822 ACACAAATATAT
1 ACACATATATAT
*
20560834 ACACATATACAT
1 ACACATATATAT
*
20560846 ACATATATATAT
1 ACACATATATAT
20560858 ACA
1 ACA
20560861 TTCAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (12 bp):
ACACATATATAT
Found at i:20565499 original size:106 final size:106
Alignment explanation
Indices: 20565329--20565621 Score: 453
Period size: 106 Copynumber: 2.8 Consensus size: 106
20565319 TATTTGGACG
* * * * ** * ***
20565329 AACGAGAAATCGAAATCCAGCACGTTAGGATACGTTCTCC-CGAATTTCCAAATACAAAATATTG
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTT-TCCTCGATTTTCCAAACGTAAAATATTG
20565393 CCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
65 CCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
*
20565435 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGC
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAATATTGC
20565500 CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
66 CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
*
20565541 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGTAAAATATTGC
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAATATTGC
20565606 CTTATTTTGAAAATTT
66 CTTATTTT-AAAATTT
20565622 TATTTTTTTA
Statistics
Matches: 172, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
105 3 0.02
106 162 0.94
107 7 0.04
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (106 bp):
AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAATATTGC
CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
Found at i:20567335 original size:92 final size:92
Alignment explanation
Indices: 20567162--20567335 Score: 312
Period size: 92 Copynumber: 1.9 Consensus size: 92
20567152 AAAACAGGAG
*
20567162 TAGAAACTTGAAGATAAAATAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
*
20567227 CGATTGATCTTCTTTTTGTTTTTTTTT
66 CGATTAATCTTCTTTTTGTTTTTTTTT
20567254 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
* *
20567319 CGATTAATTTTTTTTTT
66 CGATTAATCTTCTTTTT
20567336 ACAAGGTTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.51
Consensus pattern (92 bp):
TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
CGATTAATCTTCTTTTTGTTTTTTTTT
Found at i:20568191 original size:131 final size:131
Alignment explanation
Indices: 20568056--20568436 Score: 579
Period size: 131 Copynumber: 2.9 Consensus size: 131
20568046 GCCATATTCG
* * ** * *
20568056 ATCTGCTCCACTACTGCTTAGGGAA-ATAAGATAT-TCTATCTTCGACCCGCTCCACTACTGCTT
1 ATCTGCTTCACTACTGCTTA-GGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
20568119 AGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCT
64 AGGGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCT
20568184 TAA
129 TAA
20568187 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
20568252 GGAGATAAGATCTTCTATCTTCGACCTGTTCCGCTACTGCTTAGGAGGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTA
20568317 A
131 A
* *
20568318 ATCCGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
20568383 GGAGATAAGATCTTCTATCTTCGACCCGCTCCACTACTGCTTAAGGA-GATAGGA
66 GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTT-AGGAGGATAGGA
20568437 TTTACCATCT
Statistics
Matches: 230, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
130 5 0.02
131 221 0.96
132 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (131 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTA
A
Found at i:20568270 original size:175 final size:173
Alignment explanation
Indices: 20567974--20568482 Score: 585
Period size: 175 Copynumber: 2.9 Consensus size: 173
20567964 ATTCTGTCTT
20567974 CTCCACTACTGCTTAGG-GAGATAGGACTGGTGGCTTAAATATGCTTCACTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGAG-GATAGGACTGGTGGCTTAAATATGCTTCACTACTGCTTAGGAAGA
* * * *
20568038 TGAGATTCGCCATATTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATATTCTATCTTCGACC
65 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTCTATCTTCGACC
* * **
20568103 CGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA-CCTG
129 TGCTCCACTACTGCTTAGGGAGATAGGA-CTACCAGCTTAAATCC-G
*
20568149 CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT
1 CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATATGCTTCACTACTGCTTAGGAAGAT
*
20568214 AAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACCT
66 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTCTATCTTCGACCT
* * ****
20568279 GTTCCGCTACTGCTTA-GGAGGATAGGACTGGTGGCTTAAATCCG
130 GCTCCACTACTGCTTAGGGA-GATAGGACTACCAGCTTAAATCCG
* * * * *** * ** * * *
20568323 CTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGAGGATAGGACT-GGTGGCTTAAATATGCTTCACTACTGCTTAGGAAGA
* * * * * * *
20568388 TAAGA-TCTTCTATCTTCGACCCGCTCCACTACTGCTTAAGGAGATAGGATTTACCATCTTCGAC
65 TAAGATTC-ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTT-CTATCTTCGAC
20568452 CTGCTCCACTACTGCTTAGGGAGATAGGACT
128 CTGCTCCACTACTGCTTAGGGAGATAGGACT
20568483 GGATAAGATG
Statistics
Matches: 287, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
174 38 0.13
175 245 0.85
176 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (173 bp):
CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATATGCTTCACTACTGCTTAGGAAGAT
AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTCTATCTTCGACCTG
CTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAATCCG
Found at i:20568478 original size:44 final size:44
Alignment explanation
Indices: 20568015--20568480 Score: 356
Period size: 44 Copynumber: 10.6 Consensus size: 44
20568005 GGCTTAAATA
* * ** * *
20568015 TGCTTCACTACTGCTTAGGAAGAT-GAGATTCGCCATATTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAG-GATTTACCATCTTCGACC
* * *
20568059 TGCTCCACTACTGCTTAGGGAAATAAGATATT-CTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGAT-TTACCATCTTCGACC
* * *
20568103 CGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATTTACCATCTTCGACC
* ***** ** *
20568147 TGCTCCACTACTGCTTA-GGAGGATAGGA-CTGGTGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGA-GATAGGATTTACCATCTTCGACC
* * * * * *
20568190 TGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAGGATTTACCATCTTCGACC
* *
20568234 TGCTCCACTACTGCTTAGGGAGATAAGATCTT-CTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGAT-TTACCATCTTCGACC
* * * ***** **
20568278 TGTTCCGCTACTGCTTA-GGAGGATAGGA-CTGGTGGCTTAAATCC
1 TGCTCCACTACTGCTTAGGGA-GATAGGATTTACCATCTTCGA-CC
* * * * * **
20568322 -GCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATT
1 TGCTCCACTACTGCTTAGGGAGATAGGATTTACCATCTTCGACC
* *
20568365 TGCTCCACTACTGCTTAGGGAGATAAGATCTT-CTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGAT-TTACCATCTTCGACC
* *
20568409 CGCTCCACTACTGCTTAAGGAGATAGGATTTACCATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATTTACCATCTTCGACC
20568453 TGCTCCACTACTGCTTAGGGAGATAGGA
1 TGCTCCACTACTGCTTAGGGAGATAGGA
20568481 CTGGATAAGA
Statistics
Matches: 330, Mismatches: 77, Indels: 30
0.76 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 62 0.19
44 264 0.80
45 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAGGATTTACCATCTTCGACC
Found at i:20569724 original size:15 final size:14
Alignment explanation
Indices: 20569701--20569733 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
20569691 CCTTCCTTCT
20569701 TTTTATTATTATTA
1 TTTTATTATTATTA
20569715 TTTTATTTATTATTA
1 TTTTA-TTATTATTA
20569730 TTTT
1 TTTT
20569734 TAAGCGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:20580300 original size:106 final size:106
Alignment explanation
Indices: 20580190--20580427 Score: 440
Period size: 106 Copynumber: 2.2 Consensus size: 106
20580180 TTCCAAATAC
20580190 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
1 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
*
20580255 ACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGT
66 ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
20580296 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
1 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
*
20580361 ACCTAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
66 ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
*
20580402 AAAATATTGCCTTATTTTGAAAATTT
1 AAAACATTGCCTTATTTT-AAAATTT
20580428 TATTTTTTTA
Statistics
Matches: 128, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 121 0.95
107 7 0.05
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (106 bp):
AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
Found at i:20582114 original size:85 final size:85
Alignment explanation
Indices: 20581971--20582142 Score: 326
Period size: 85 Copynumber: 2.0 Consensus size: 85
20581961 AAAACAGGAG
20581971 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
* *
20582036 CGATTGATCTTTTTTTTTTT
66 CGATTGATCTTCTTCTTTTT
20582056 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
20582121 CGATTGATCTTCTTCTTTTT
66 CGATTGATCTTCTTCTTTTT
20582141 TA
1 TA
20582143 CAAGGTTATT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (85 bp):
TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
CGATTGATCTTCTTCTTTTT
Found at i:20582688 original size:31 final size:32
Alignment explanation
Indices: 20582651--20582712 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
20582641 TATATATTGA
*
20582651 AATTTTTTA-CACTTATATATTTTT-AATTTT
1 AATTTTTTATAACTTATATATTTTTAAATTTT
*
20582681 AATTTTTTATAATTTATATATTTTTAAATTTT
1 AATTTTTTATAACTTATATATTTTTAAATTTT
20582713 TAAGATCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 13 0.46
32 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (32 bp):
AATTTTTTATAACTTATATATTTTTAAATTTT
Found at i:20582710 original size:16 final size:16
Alignment explanation
Indices: 20582663--20582711 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
20582653 TTTTTTACAC
*
20582663 TTATATATTTTTAATT
1 TTATATATTTTTAAAT
20582679 TTA-AT-TTTTTATAAT
1 TTATATATTTTTA-AAT
20582694 TTATATATTTTTAAAT
1 TTATATATTTTTAAAT
20582710 TT
1 TT
20582712 TTAAGATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 10 0.34
17 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATATTTTTAAAT
Found at i:20584971 original size:12 final size:12
Alignment explanation
Indices: 20584954--20584999 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
20584944 CCATTAAAAA
*
20584954 TCCATGTCCATG
1 TCCATGTCTATG
*
20584966 TCCATGTTTATTG
1 TCCATGTCTA-TG
*
20584979 TCTATGTCTATG
1 TCCATGTCTATG
20584991 TCCATGTCT
1 TCCATGTCT
20585000 TGTTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (12 bp):
TCCATGTCTATG
Found at i:20590259 original size:12 final size:11
Alignment explanation
Indices: 20590237--20590276 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
20590227 TAAAACAAAT
20590237 AAAAAAGAAAAG
1 AAAAAA-AAAAG
20590249 ATAAAAAAAAAG
1 A-AAAAAAAAAG
20590261 AAAAAAAAGAAG
1 AAAAAAAA-AAG
20590273 AAAA
1 AAAA
20590277 TATACAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.27
12 14 0.54
13 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:20597011 original size:19 final size:18
Alignment explanation
Indices: 20596976--20597011 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20596966 TAATTTTTCA
*
20596976 TCAAATTAACTCTAAAAC
1 TCAAATTAACACTAAAAC
20596994 TCAAATTAAACACTAAAA
1 TCAAATT-AACACTAAAA
20597012 AGTTAACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (18 bp):
TCAAATTAACACTAAAAC
Found at i:20603128 original size:41 final size:41
Alignment explanation
Indices: 20603064--20603254 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 41
20603054 GACTATACGT
* * **
20603064 CTAGCAGACTAAGTACCAATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
20603105 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
20603146 CTAGAAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
20603187 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
20603228 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
20603255 TTAAATTAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 132 0.96
42 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:20621110 original size:25 final size:24
Alignment explanation
Indices: 20621069--20621117 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
20621059 AAAATATTGT
20621069 AAAATTCAAAATAAATAAATACAA
1 AAAATTCAAAATAAATAAATACAA
* *
20621093 AAAATTTAAAACTTAATAAATACAA
1 AAAATTCAAAA-TAAATAAATACAA
20621118 TATTGCCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTCAAAATAAATAAATACAA
Found at i:20622113 original size:12 final size:12
Alignment explanation
Indices: 20622096--20622120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20622086 TACTCACCAG
20622096 CCCCCGCCCCCC
1 CCCCCGCCCCCC
20622108 CCCCCGCCCCCC
1 CCCCCGCCCCCC
20622120 C
1 C
20622121 TTTGTCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.92, G:0.08, T:0.00
Consensus pattern (12 bp):
CCCCCGCCCCCC
Found at i:20622680 original size:21 final size:21
Alignment explanation
Indices: 20622632--20622682 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
20622622 AAAATATATA
*
20622632 TATAAATTTTTTTTTTAAAAT
1 TATAAATTTATTTTTTAAAAT
*
20622653 TAAAAATTTATTTTTTAAAACT
1 TATAAATTTATTTTTTAAAA-T
20622675 T-TAAATTT
1 TATAAATTT
20622683 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAAATTTATTTTTTAAAAT
Found at i:20624078 original size:20 final size:20
Alignment explanation
Indices: 20624030--20624079 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20624020 TATTGAAGAT
20624030 TAAATATTCAAATACAAATA
1 TAAATATTCAAATACAAATA
* *
20624050 T-TATAATTCGAATACAAATA
1 TAAAT-ATTCAAATACAAATA
20624070 TAAATATTCA
1 TAAATATTCA
20624080 TAAAGATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 20 0.83
21 2 0.08
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATATTCAAATACAAATA
Found at i:20631839 original size:12 final size:12
Alignment explanation
Indices: 20631822--20631846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20631812 GGAAAGCCCC
20631822 TTTTTTTGTTTT
1 TTTTTTTGTTTT
20631834 TTTTTTTGTTTT
1 TTTTTTTGTTTT
20631846 T
1 T
20631847 GTTGTTGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:20645556 original size:25 final size:25
Alignment explanation
Indices: 20645528--20645576 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
20645518 AGCACTCTCT
*
20645528 TGAGCCATATAACAGGAAGCTTATA
1 TGAGCCATATAACAAGAAGCTTATA
*
20645553 TGAGCCATGTAACAAGAAGCTTAT
1 TGAGCCATATAACAAGAAGCTTAT
20645577 CCTGGTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
TGAGCCATATAACAAGAAGCTTATA
Found at i:20648576 original size:46 final size:45
Alignment explanation
Indices: 20648524--20648803 Score: 299
Period size: 46 Copynumber: 6.6 Consensus size: 45
20648514 TTTGACTACT
20648524 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
20648570 TCTGATCAAGAAACAAAGTGATAAGT-G--G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
**
20648607 TCTGATCAAGAAACAAAGTGATAA---GT-G----GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
* *
20648644 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
* *
20648690 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
** **
20648736 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
20648781 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGTGACAAAGTGATAAG
20648804 AGGTCATATG
Statistics
Matches: 211, Mismatches: 11, Indels: 27
0.85 0.04 0.11
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 61 0.29
40 3 0.01
41 1 0.00
43 11 0.05
44 1 0.00
45 22 0.10
46 110 0.52
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:20648603 original size:37 final size:37
Alignment explanation
Indices: 20648562--20648672 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
20648552 TAGTTTTAGC
20648562 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
20648599 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
20648636 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
20648673 AGCTTCAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:20650940 original size:125 final size:125
Alignment explanation
Indices: 20650718--20651094 Score: 517
Period size: 125 Copynumber: 3.0 Consensus size: 125
20650708 TTAGGGTTTT
* * * * *
20650718 TAGGTCCTGGAAGAAATAATTTAGAGTTAACGTTTCTGTGTAAATAGTATAAAATCACTTTTACC
1 TAGGTCCTGGAAGAAATAATTTAGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACC
* *
20650783 AGGATGCTTTATGAGAAGAATTTGTTAAATCGCGCCCACATGGACGCGCTTTTGCTACAG
66 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
20650843 TAGGTCCT-GAAAAAATTATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAT-GCTTCAA
1 TAGGTCCTGGAAGAAATAATTTAGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCTA
* * * *
20650906 GCTGGATGCTATT-TGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
64 CCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
20650968 TTGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAGATAGTATAAAATCGCTTCTACC
1 TAGGTCCTGGAAGAAATAATTTAGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACC
* * *
20651033 AGGTTGCTTTATGAGAAGAATTTGTGAAATCTCGCCCACGTGGACGCGCTTTTGCTATAG
66 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
20651093 TA
1 TA
20651095 ACATGTTTGG
Statistics
Matches: 217, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
124 42 0.19
125 131 0.60
126 44 0.20
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCCTGGAAGAAATAATTTAGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACC
AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
Found at i:20654399 original size:11 final size:11
Alignment explanation
Indices: 20654385--20654459 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
20654375 TTAAATATGG
20654385 ATTTGAGAGAA
1 ATTTGAGAGAA
*
20654396 ATTTG-GAAGGA
1 ATTTGAG-AGAA
20654407 ATTTGAGAGCAA
1 ATTTGAGAG-AA
20654419 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
20654430 ATTT-AG-GGA
1 ATTTGAGAGAA
20654439 A-TTGAGAAGAA
1 ATTTGAG-AGAA
20654450 ATTTGAGAGA
1 ATTTGAGAGA
20654460 GGATTAGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
8 2 0.04
9 5 0.10
10 1 0.02
11 32 0.63
12 11 0.22
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:20654428 original size:22 final size:22
Alignment explanation
Indices: 20654385--20654459 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
20654375 TTAAATATGG
20654385 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAA-TTGAGAAGGA
20654407 ATTTGAGAGCAAATTGAG-AGGAA
1 ATTTGAGAG-AAATTGAGAAGG-A
* *
20654430 ATTT-AG-GGAATTGAGAAGAA
1 ATTTGAGAGAAATTGAGAAGGA
20654450 ATTTGAGAGA
1 ATTTGAGAGA
20654460 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 12 0.27
21 5 0.11
22 18 0.41
23 9 0.20
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAAGGA
Found at i:20656205 original size:6 final size:6
Alignment explanation
Indices: 20656194--20656220 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20656184 AATACGAACC
20656194 ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATA
20656221 GTTAACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:20656874 original size:7 final size:7
Alignment explanation
Indices: 20656862--20656890 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20656852 GTCAAGACTT
20656862 CTAACTA
1 CTAACTA
20656869 CTAACTA
1 CTAACTA
20656876 CTAACTA
1 CTAACTA
20656883 CTAACTA
1 CTAACTA
20656890 C
1 C
20656891 CATAGCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (7 bp):
CTAACTA
Found at i:20661123 original size:25 final size:25
Alignment explanation
Indices: 20661095--20661154 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 25
20661085 ATTATATATT
20661095 AAATATATATTTTTTATTTTTAATA
1 AAATATATATTTTTTATTTTTAATA
*
20661120 AAATATATA--TTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATA
20661143 AAATATATATTT
1 AAATATATATTT
20661155 AAAATGGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 22 0.69
25 10 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATA
Found at i:20666355 original size:82 final size:82
Alignment explanation
Indices: 20666214--20666382 Score: 293
Period size: 82 Copynumber: 2.1 Consensus size: 82
20666204 CGTTCGTTTG
* * *
20666214 CTAACTTCTTTTTCCTCTTTAATTTGGAAAGGGGCAACCCGATTTTCCTGTTACCATTTCTGGGT
1 CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
20666279 TTAGTATATAAAATTTA
66 TTAGTATATAAAATTTA
* *
20666296 CTAACTTCTTTTTCTTCTTTAATTCGGAAACGGGCAACCCGATTTTCTTGTTACAATTTCTGGGT
1 CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
20666361 TTAGTATATAAAATTTA
66 TTAGTATATAAAATTTA
20666378 CTAAC
1 CTAAC
20666383 CCGCACTAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (82 bp):
CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
TTAGTATATAAAATTTA
Found at i:20667764 original size:141 final size:141
Alignment explanation
Indices: 20667510--20667774 Score: 476
Period size: 141 Copynumber: 1.9 Consensus size: 141
20667500 TTCAAGTTAC
*
20667510 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCGTGTTGTAACATTTT
1 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
*
20667575 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAGTAAGTTGACGTGGCACGTTAAATCATC
66 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACGTGGCACGTTAAATCATC
20667640 ATTTCAAACAA
131 ATTTCAAACAA
* *
20667651 ATTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
1 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
* *
20667716 AGTCACTGAGTCGTTAATTGTCGTTAACAGTGTAACAGTAAGCTGACGTGGCACGTTAA
66 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACGTGGCACGTTAA
20667775 CAAATTTTAG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 118 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (141 bp):
ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAGTAAGCTGACGTGGCACGTTAAATCATC
ATTTCAAACAA
Found at i:20669804 original size:34 final size:35
Alignment explanation
Indices: 20669766--20669845 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
20669756 ATCTTTTTAG
* *
20669766 CTTTTATATTTTATAGATATATACATATTCAT-TT
1 CTTTTATATTTTAAAGATATATACATATACATATT
** * *
20669800 CTTTTATGCTGTAAATATATATACATATACATATT
1 CTTTTATATTTTAAAGATATATACATATACATATT
20669835 -TTTTATATTTT
1 CTTTTATATTTT
20669846 CATTTTACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (35 bp):
CTTTTATATTTTAAAGATATATACATATACATATT
Found at i:20671748 original size:13 final size:13
Alignment explanation
Indices: 20671730--20671755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20671720 AAAGAGATTT
20671730 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
20671743 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
20671756 AAATTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:20680263 original size:111 final size:111
Alignment explanation
Indices: 20680069--20680325 Score: 487
Period size: 111 Copynumber: 2.3 Consensus size: 111
20680059 TTTCTTCAAA
*
20680069 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCGGCTTATCTTCG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCGGCCTATCTTCG
20680134 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
66 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
*
20680180 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCGGCCTATCTTCG
*
20680245 TGGAAATTATAAATTTAGAATATAAAATATATGGTTAAATTATAAT
66 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
20680291 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAG
20680326 TTTTGATGTA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 143 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (111 bp):
TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCGGCCTATCTTCG
TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
Found at i:20680313 original size:22 final size:23
Alignment explanation
Indices: 20680279--20680322 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
20680269 AAATATATGG
*
20680279 TTAAATTATAATT-TTTAAATAT
1 TTAAATTAAAATTATTTAAATAT
*
20680301 TTAATTTAAAATTAGTTTAAAT
1 TTAAATTAAAATTA-TTTAAAT
20680323 TAGTTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATTAAAATTATTTAAATAT
Found at i:20695391 original size:3 final size:3
Alignment explanation
Indices: 20695383--20695451 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
20695373 TTCAGTAATT
*
20695383 TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TT- TATA TTA TTG
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA
*
20695428 TTA CTTA TCA -TA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA
20695452 CATAATAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 3 0.05
3 48 0.86
4 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:20695407 original size:18 final size:18
Alignment explanation
Indices: 20695380--20695451 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
20695370 TTTTTCAGTA
20695380 ATTT-TATTATTATTATT
1 ATTTCTATTATTATTATT
20695397 ATTTCTATTATTATTATT
1 ATTTCTATTATTATTATT
* *
20695415 ATTTATATTATTGTTACTT
1 ATTTCTATTATTATTA-TT
20695434 A--TCATATTATTATTATT
1 ATTTC-TATTATTATTATT
20695451 A
1 A
20695452 CATAATAGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.17
18 37 0.77
19 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTTCTATTATTATTATT
Found at i:20700308 original size:13 final size:13
Alignment explanation
Indices: 20700261--20700321 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
20700251 TATCCGATTC
*
20700261 GAAAAAAGGAAAA
1 GAAAAAAGAAAAA
20700274 GAAAAGAGAGAAAAA
1 GAAAA-A-AGAAAAA
* *
20700289 -ATCAAAATAAAAA
1 GA-AAAAAGAAAAA
*
20700302 TAAAAAAGAAAAA
1 GAAAAAAGAAAAA
20700315 GAAAAAA
1 GAAAAAA
20700322 AATCAAAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
13 26 0.68
14 4 0.11
15 8 0.21
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:20700354 original size:29 final size:27
Alignment explanation
Indices: 20700305--20700369 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
20700295 ATAAAAATAA
20700305 AAAAGAAAAAGAAAAAAAATCAAAGGT
1 AAAAGAAAAAGAAAAAAAATCAAAGGT
** *
20700332 AAAAGCAAAAAGATAAATCAATCAAAGTT
1 AAAAG-AAAAAGA-AAAAAAATCAAAGGT
*
20700361 AAAATAAAA
1 AAAAGAAAA
20700370 TATGAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 11 0.34
29 16 0.50
ACGTcount: A:0.71, C:0.06, G:0.11, T:0.12
Consensus pattern (27 bp):
AAAAGAAAAAGAAAAAAAATCAAAGGT
Found at i:20700788 original size:13 final size:13
Alignment explanation
Indices: 20700756--20700796 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
20700746 AAATAAAAAG
*
20700756 ATGAAGAATGAAA
1 ATGAAAAATGAAA
*
20700769 ATGGAAAATGGAAA
1 ATGAAAAAT-GAAA
20700783 ATGAAAAATGAAA
1 ATGAAAAATGAAA
20700796 A
1 A
20700797 AAGAAAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:20700797 original size:7 final size:7
Alignment explanation
Indices: 20700744--20700803 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
20700734 ATGAAGTTCA
*
20700744 AAAAATA
1 AAAAATG
20700751 AAAAGATG
1 AAAA-ATG
*
20700759 AAGAATG
1 AAAAATG
20700766 -AAAATG
1 AAAAATG
*
20700772 GAAAATG
1 AAAAATG
*
20700779 GAAAATG
1 AAAAATG
20700786 AAAAATG
1 AAAAATG
*
20700793 AAAAAAG
1 AAAAATG
20700800 AAAA
1 AAAA
20700804 GAGTAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 5 0.11
7 36 0.78
8 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:20702204 original size:87 final size:87
Alignment explanation
Indices: 20702043--20703238 Score: 1890
Period size: 87 Copynumber: 13.7 Consensus size: 87
20702033 GTGAAGATAA
* *
20702043 AAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20702108 GCGTTAACAGTGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* * *
20702130 AAAATAAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20702195 GCGTTAACAGCGAAACAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* *
20702217 AAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCAT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
**
20702282 GTATTAACAGCGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* * * *
20702304 AAAACAAAGCCTTACCTCCATCGGTTGCGGTGGAGCTGGTTAAAGATAATAGATTTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
20702369 ACGTTAACAGCAAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* *
20702391 AAAACAAAGCCTTGCCTTCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* * * *
20702456 ACGTTAACAGCGAAGTAGACCA
66 GCGTTAACAGCGAAGCAGATCG
* *
20702478 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20702543 ACGTTAACAGCGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* * * ** *
20702565 AAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAAATAGTAGATCTTGCATTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
20702630 GCGTTAACAGCGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* *
20702652 AAAACAAAGCCTTGCCTCTATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20702717 GCGTTAACAGTGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* * *
20702739 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAATAAATCTTACCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
20702804 GCGTTAACAGCGAAGTAGA-CTA
66 GCGTTAACAGCGAAGCAGATC-G
* * *
20702826 AAAACAAAGCCTTGCTTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAAATCTTGCCTTACT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20702891 GCGTTAACAGCAAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
* *
20702913 AAAACAAAGCCTTGCCTTCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
20702978 GCGTTAACAGCAAAGCAGATCC
66 GCGTTAACAGCGAAGCAGATCG
*
20703000 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCATTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
* *
20703065 GCGTTAACAGCAAAGCAGATCA
66 GCGTTAACAGCGAAGCAGATCG
*
20703087 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
*
20703152 GCGTTAACAGTGAAGCAGATCG
66 GCGTTAACAGCGAAGCAGATCG
*
20703174 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
20703239 AAGTACTAGC
Statistics
Matches: 1021, Mismatches: 86, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
86 1 0.00
87 1019 1.00
88 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCT
GCGTTAACAGCGAAGCAGATCG
Found at i:20709503 original size:18 final size:17
Alignment explanation
Indices: 20709470--20709508 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20709460 TTTTATAAAT
20709470 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20709488 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20709505 TGTG
1 TGTG
20709509 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20709762 original size:23 final size:23
Alignment explanation
Indices: 20709736--20709832 Score: 140
Period size: 23 Copynumber: 4.2 Consensus size: 23
20709726 TGTTATTGAT
20709736 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* * **
20709759 CAGTGATAGCTTCGGCTGCATTT
1 CAGTGGTAGCTTCGGCTACATAA
20709782 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* *
20709805 CAGTGGTAGCTTCAGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
20709828 CAGTG
1 CAGTG
20709833 TTGCACTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:20709788 original size:46 final size:46
Alignment explanation
Indices: 20709734--20709832 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
20709724 AGTGTTATTG
* *
20709734 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCAGCTACAT
* *
20709780 TTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCAGCTACAT
20709826 ATCAGTG
1 ATCAGTG
20709833 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCAGCTACAT
Found at i:20735129 original size:13 final size:13
Alignment explanation
Indices: 20735077--20735137 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
20735067 CTTACTACAT
20735077 TACTTTTGAGAAG
1 TACTTTTGAGAAG
**
20735090 TGTTTTTGAGAAG
1 TACTTTTGAGAAG
* * *
20735103 TGC-TGTGAAAAAG
1 TACTTTTG-AGAAG
20735116 TACTTTTGAGAAG
1 TACTTTTGAGAAG
*
20735129 TTCTTTTGA
1 TACTTTTGA
20735138 AAAATTTGAG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 3 0.08
13 31 0.84
14 3 0.08
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.41
Consensus pattern (13 bp):
TACTTTTGAGAAG
Found at i:20735140 original size:26 final size:26
Alignment explanation
Indices: 20735079--20735140 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
20735069 TACTACATTA
* **
20735079 CTTTTGAGAAGTGTTTTTGAGAAGTG
1 CTTTTGAAAAGTACTTTTGAGAAGTG
* *
20735105 C-TGTGAAAAAGTACTTTTGAGAAGTT
1 CTTTTG-AAAAGTACTTTTGAGAAGTG
20735131 CTTTTGAAAA
1 CTTTTGAAAA
20735141 ATTTGAGGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
25 3 0.11
26 22 0.79
27 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTGAGAAGTG
Found at i:20735301 original size:10 final size:10
Alignment explanation
Indices: 20735288--20735312 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20735278 ATATAAAAAA
20735288 ATAATTTATT
1 ATAATTTATT
20735298 ATAATTTATT
1 ATAATTTATT
20735308 ATAAT
1 ATAAT
20735313 ATTTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAATTTATT
Found at i:20738371 original size:3 final size:3
Alignment explanation
Indices: 20738365--20738401 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
20738355 TACTACTACC
20738365 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20738402 GTAGTAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20738406 original size:3 final size:3
Alignment explanation
Indices: 20738400--20738455 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
20738390 TTATTATTAT
* * *
20738400 TAG TAG TAG TAG TAG TAG TGG TGG TGG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
20738448 TAG TAG TA
1 TAG TAG TA
20738456 TTTTATTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:20753285 original size:24 final size:24
Alignment explanation
Indices: 20753222--20753273 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20753212 TTTCTAGAAG
* * *
20753222 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
20753246 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
20753270 ATTT
1 ATTT
20753274 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:20757710 original size:24 final size:24
Alignment explanation
Indices: 20757648--20757698 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
20757638 TTCTAAAAGG
* * *
20757648 TTTAGTATTTATGAGTATAATATA
1 TTTAGCATTTATTAGCATAATATA
20757672 TTTAGCATTTATTAGCATAATATA
1 TTTAGCATTTATTAGCATAATATA
20757696 TTT
1 TTT
20757699 GACTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTAGCATTTATTAGCATAATATA
Found at i:20762171 original size:15 final size:16
Alignment explanation
Indices: 20762151--20762184 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20762141 AATTTTTTAA
20762151 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
20762166 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
20762182 AAA
1 AAA
20762185 ATTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:20764110 original size:63 final size:63
Alignment explanation
Indices: 20764010--20764216 Score: 202
Period size: 63 Copynumber: 3.3 Consensus size: 63
20764000 TGTGAGGTCG
* * * * *
20764010 TGTAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGACACAGGCATGTGTCTAAGCCT
1 TGTAACTCATTGTTTTAGCTTTAGAGTCACACGGGCTAGGGACACAGGCATGTGTCTAAGCCT
* * * * * * * *
20764073 TGTAACTTATTGTTTTAGCTTTAGAGTCAAACGGGCTAAGGACAGAAGCCTGTGTCTAGGCCA
1 TGTAACTCATTGTTTTAGCTTTAGAGTCACACGGGCTAGGGACACAGGCATGTGTCTAAGCCT
* * * * * * *
20764136 TGTAACTCACTATTTTGGCTTTAGAGTCACCCGGGCTAGAGACAC-GGACGTGTGTCCAAG-CT
1 TGTAACTCATTGTTTTAGCTTTAGAGTCACACGGGCTAGGGACACAGG-CATGTGTCTAAGCCT
20764198 GTGTAACTCATTGTTTTAG
1 -TGTAACTCATTGTTTTAG
20764217 AGTTTGAGTC
Statistics
Matches: 112, Mismatches: 30, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
62 2 0.02
63 110 0.98
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (63 bp):
TGTAACTCATTGTTTTAGCTTTAGAGTCACACGGGCTAGGGACACAGGCATGTGTCTAAGCCT
Found at i:20764240 original size:126 final size:126
Alignment explanation
Indices: 20764010--20764242 Score: 310
Period size: 126 Copynumber: 1.8 Consensus size: 126
20764000 TGTGAGGTCG
* * *
20764010 TGTAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGACACAGGCATGTGTCTAAGCCTTG
1 TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGGCATGTGTCCAAGCCTTG
* * *
20764075 TAACTTATTGTTTTAGCTTTAGAGTCAAACGGGCTAAGGACAGAAGCCTGTGTCTAGGCCA
66 TAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCCAAGGACAGAAGCCTGTGTCTAGGCCA
* * *
20764136 TGTAACTCACTATTTTGGCTTTAGAGTCACCCGGGCTAGAGACAC-GGACGTGTGTCCAAG-CTG
1 TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGG-CATGTGTCCAAGCCT-
* **
20764199 TGTAACTCATTGTTTTAGAGTTT-GAGTCGCACAGGCCAAGGACA
64 TGTAACTCATTGTTTTAG-CTTTAGAGTCAAACAGGCCAAGGACA
20764243 CGGGCGTATG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
125 4 0.04
126 85 0.92
127 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (126 bp):
TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGGCATGTGTCCAAGCCTTG
TAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCCAAGGACAGAAGCCTGTGTCTAGGCCA
Found at i:20776221 original size:20 final size:20
Alignment explanation
Indices: 20776196--20776264 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
20776186 TATAGAAATA
20776196 AATAATATTGTTAAAATTAT
1 AATAATATTGTTAAAATTAT
* * *
20776216 AATAATGTTGATATTAATATAT
1 AATAATATTGTTA-AAAT-TAT
*
20776238 ACATAAATATT-TTTAAATTAT
1 A-AT-AATATTGTTAAAATTAT
20776259 AATAAT
1 AATAAT
20776265 GTAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.08
20 13 0.34
21 7 0.18
22 7 0.18
23 3 0.08
24 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (20 bp):
AATAATATTGTTAAAATTAT
Found at i:20777471 original size:19 final size:19
Alignment explanation
Indices: 20777431--20777483 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
20777421 TTAATTTTTT
*
20777431 AAAAATAAAAAAAATTATA
1 AAAAATAAAAATAATTATA
*
20777450 AAAAATAAAAATTATTGA-A
1 AAAAATAAAAATAATT-ATA
*
20777469 AAAGCATAAAAATAA
1 AAA-AATAAAAATAA
20777484 AAAATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAATAAAAATAATTATA
Found at i:20778885 original size:19 final size:20
Alignment explanation
Indices: 20778845--20778889 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
20778835 CAGAAATATT
20778845 TTTAAATATCAAATTAATAA
1 TTTAAATATCAAATTAATAA
*
20778865 TTTAAAT-TTAAATTTAA-AA
1 TTTAAATATCAAA-TTAATAA
20778884 TTTAAA
1 TTTAAA
20778890 AATTCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAATATCAAATTAATAA
Found at i:20781886 original size:12 final size:13
Alignment explanation
Indices: 20781864--20781892 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20781854 CATAAAAATT
20781864 TAAACTAAATAAA
1 TAAACTAAATAAA
20781877 TAAA-TAAATAAA
1 TAAACTAAATAAA
20781889 TAAA
1 TAAA
20781893 AATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAACTAAATAAA
Found at i:20783301 original size:23 final size:22
Alignment explanation
Indices: 20783249--20783301 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
20783239 TCCGCGTCTT
*
20783249 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
20783271 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
20783294 TTTCTTTT
1 TTTCTTTT
20783302 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:20797815 original size:21 final size:21
Alignment explanation
Indices: 20797789--20797829 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20797779 ATCTGCTCAA
* *
20797789 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
20797810 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
20797830 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:20809964 original size:19 final size:21
Alignment explanation
Indices: 20809931--20809972 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
20809921 TGTAAATTGA
20809931 TTTTTTAAAATTTTAT-ATAT
1 TTTTTTAAAATTTTATAATAT
*
20809951 TTTTTTTAAA-TTTATAATAT
1 TTTTTTAAAATTTTATAATAT
20809971 TT
1 TT
20809973 ATAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTAAAATTTTATAATAT
Found at i:20809966 original size:17 final size:18
Alignment explanation
Indices: 20809930--20810029 Score: 82
Period size: 17 Copynumber: 5.7 Consensus size: 18
20809920 ATGTAAATTG
* *
20809930 ATTTTTTAAAATTTTATAT
1 ATTTTTTATAATATT-TAT
*
20809949 ATTTTTTTTAA-ATTTAT
1 ATTTTTTATAATATTTAT
* * *
20809966 AATATTTATAATATTTAG
1 ATTTTTTATAATATTTAT
20809984 ATTTTTTA-AATATTTAT
1 ATTTTTTATAATATTTAT
* *
20810001 -GTTTTTA-AATATTTTTT
1 ATTTTTTATAATA-TTTAT
20810018 ATTTTTTATAAT
1 ATTTTTTATAAT
20810030 TAGGATTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
16 10 0.16
17 23 0.36
18 19 0.30
19 12 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTATAATATTTAT
Found at i:20812017 original size:11 final size:12
Alignment explanation
Indices: 20812002--20812040 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
20811992 ATACTAGATA
*
20812002 ATTAATTTAAAT
1 ATTAATATAAAT
20812014 -TTAATATAAAT
1 ATTAATATAAAT
*
20812025 ATTAAGATAAAT
1 ATTAATATAAAT
20812037 ATTA
1 ATTA
20812041 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
ATTAATATAAAT
Found at i:20812033 original size:32 final size:32
Alignment explanation
Indices: 20811973--20812034 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
20811963 AGTGATAAGA
*
20811973 AATTTAAATATTAAGATGAATACTAGATAATT
1 AATTTAAATATTAAGATAAATACTAGATAATT
* *
20812005 AATTTAAAT-TTAATATAAATATTAAGATAA
1 AATTTAAATATTAAGATAAATACT-AGATAA
20812035 ATATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (32 bp):
AATTTAAATATTAAGATAAATACTAGATAATT
Found at i:20814265 original size:3 final size:3
Alignment explanation
Indices: 20814257--20814281 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20814247 CCTTCTCAAT
20814257 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
20814282 AACTTAGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20818666 original size:12 final size:12
Alignment explanation
Indices: 20818649--20818673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20818639 ACGCGAATAC
20818649 GGTATTGATGGA
1 GGTATTGATGGA
20818661 GGTATTGATGGA
1 GGTATTGATGGA
20818673 G
1 G
20818674 AAGACCTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (12 bp):
GGTATTGATGGA
Found at i:20823097 original size:19 final size:20
Alignment explanation
Indices: 20823065--20823102 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20823055 TTATTCTATG
*
20823065 ATTTTTACATATTTTTAATA
1 ATTTTTACATATTTGTAATA
*
20823085 ATTTTTATA-ATTTGTAAT
1 ATTTTTACATATTTGTAAT
20823103 TTTATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTTACATATTTGTAATA
Found at i:20824276 original size:22 final size:22
Alignment explanation
Indices: 20824230--20824295 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
20824220 TGGCCCGATT
* ** *
20824230 TTGTTGTTTTGCAGCTGTTTTG
1 TTGTTGTTTTGCTGCCATTTCG
20824252 TTGTTGTTTTGCTGCCATTTCG
1 TTGTTGTTTTGCTGCCATTTCG
* * * *
20824274 TTGCTATTTTGGTACCATTTCG
1 TTGTTGTTTTGCTGCCATTTCG
20824296 CAATTAAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.08, C:0.15, G:0.23, T:0.55
Consensus pattern (22 bp):
TTGTTGTTTTGCTGCCATTTCG
Found at i:20825803 original size:12 final size:12
Alignment explanation
Indices: 20825786--20825822 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
20825776 TAGAAAGCTT
20825786 GAATTAAGTTAA
1 GAATTAAGTTAA
20825798 GAATTAAGTT-A
1 GAATTAAGTTAA
20825809 GAAATTAAGTTAA
1 G-AATTAAGTTAA
20825822 G
1 G
20825823 TTTATTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (12 bp):
GAATTAAGTTAA
Found at i:20841151 original size:25 final size:25
Alignment explanation
Indices: 20841123--20841186 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 25
20841113 GACAACCATA
*
20841123 AAAATAAAAATATAGTTCAA-AAGAT
1 AAAATAAAAATA-AGTTCAAGAAAAT
*
20841148 AAAA-ACAAAATAAGTTTAAGAAAAT
1 AAAATA-AAAATAAGTTCAAGAAAAT
*
20841173 AACAATAAACATAA
1 AA-AATAAAAATAA
20841187 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.22
25 16 0.50
26 8 0.25
27 1 0.03
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAATAAAAATAAGTTCAAGAAAAT
Found at i:20841191 original size:12 final size:12
Alignment explanation
Indices: 20841168--20841205 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20841158 TAAGTTTAAG
*
20841168 AAAATAACAATA
1 AAAATAAAAATA
*
20841180 AACATAAAAATA
1 AAAATAAAAATA
20841192 AAAAT-AAAATA
1 AAAATAAAAATA
20841203 AAA
1 AAA
20841206 CAAATGGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:20841191 original size:18 final size:17
Alignment explanation
Indices: 20841168--20841205 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
20841158 TAAGTTTAAG
*
20841168 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
20841186 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
20841203 AAA
1 AAA
20841206 CAAATGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:20842862 original size:21 final size:22
Alignment explanation
Indices: 20842833--20842873 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20842823 TTAAGAATAC
*
20842833 AAATTAAATGATAA-AAAAATG
1 AAATAAAATGATAATAAAAATG
*
20842854 AAATAAAATTATAATAAAAA
1 AAATAAAATGATAATAAAAA
20842874 CAACCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
AAATAAAATGATAATAAAAATG
Found at i:20842915 original size:23 final size:23
Alignment explanation
Indices: 20842883--20842960 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
20842873 ACAACCAGTA
*
20842883 AAAAAT-ATATATAACT-AATAAT
1 AAAAATAATATATAA-TAAACAAT
20842905 AAAAATAATATATAATAAACAAT
1 AAAAATAATATATAATAAACAAT
* *
20842928 --AAATAATAAACAATAAACAA-
1 AAAAATAATATATAATAAACAAT
20842948 ATAAAATAATATA
1 A-AAAATAATATA
20842961 ACTAATAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
21 18 0.38
22 7 0.15
23 22 0.47
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAATAATATATAATAAACAAT
Found at i:20842919 original size:7 final size:7
Alignment explanation
Indices: 20842893--20842968 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
20842883 AAAAATATAT
*
20842893 ATAACTA
1 ATAAATA
20842900 AT-AATA
1 ATAAATA
20842906 A-AAATA
1 ATAAATA
*
20842912 ATATATA
1 ATAAATA
*
20842919 ATAAACA
1 ATAAATA
20842926 ATAAATA
1 ATAAATA
*
20842933 ATAAACA
1 ATAAATA
*
20842940 ATAAACAA
1 ATAAA-TA
20842948 ATAAAATA
1 AT-AAATA
20842956 ATATAACTA
1 ATA-AA-TA
20842965 ATAA
1 ATAA
20842969 GAAAAATAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
6 9 0.16
7 29 0.53
8 9 0.16
9 8 0.15
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (7 bp):
ATAAATA
Found at i:20842976 original size:21 final size:22
Alignment explanation
Indices: 20842882--20842974 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 22
20842872 AACAACCAGT
20842882 AAAAAATATATATAACTAAT-AA
1 AAAAAATA-ATATAACTAATAAA
*
20842904 TAAAAATAATAT-A-TAATAAA
1 AAAAAATAATATAACTAATAAA
*
20842924 CAATAAATAATA-AAC-AATAAACA
1 -AAAAAATAATATAACTAAT-AA-A
*
20842947 AATAAAATAATATAACTAATAAG
1 AA-AAAATAATATAACTAATAAA
20842970 AAAAA
1 AAAAA
20842975 TAGATAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
19 4 0.07
20 3 0.05
21 17 0.30
22 14 0.25
23 11 0.19
24 5 0.09
25 3 0.05
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAAAATAATATAACTAATAAA
Found at i:20842976 original size:44 final size:46
Alignment explanation
Indices: 20842906--20843008 Score: 114
Period size: 44 Copynumber: 2.4 Consensus size: 46
20842896 ACTAATAATA
*
20842906 AAAATAATAT-ATAATAAACAATAAATA-ATAA-ACAATAAACAAAT
1 AAAATAATATAATAATAAACAATAAATAGATAAGA-AACAAACAAAT
*
20842950 AAAATAATATAACTAAT-AAGAA-AAATAGATAAGAAACAAACAAAT
1 AAAATAATATAA-TAATAAACAATAAATAGATAAGAAACAAACAAAT
20842995 -AAATAA-ATAA-AATA
1 AAAATAATATAATAATA
20843009 GGCAAACGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
41 3 0.06
43 4 0.08
44 21 0.40
45 19 0.37
46 5 0.10
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (46 bp):
AAAATAATATAATAATAAACAATAAATAGATAAGAAACAAACAAAT
Found at i:20849480 original size:24 final size:26
Alignment explanation
Indices: 20849444--20849512 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 26
20849434 TCAACGAACA
20849444 AAGAG-AG-GAAGAAA-AA-AGGAAT
1 AAGAGAAGAGAAGAAACAAGAGGAAT
*
20849466 AAGAGAAGAGAAGAAACAAGTTGGAAT
1 AAGAGAAGAGAAGAAACAAG-AGGAAT
* *
20849493 GAGAGAATAGAAGAAACAAG
1 AAGAGAAGAGAAGAAACAAG
20849513 TTTGAATGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.13
23 2 0.05
24 7 0.18
25 2 0.05
27 23 0.59
ACGTcount: A:0.59, C:0.03, G:0.30, T:0.07
Consensus pattern (26 bp):
AAGAGAAGAGAAGAAACAAGAGGAAT
Found at i:20849520 original size:27 final size:27
Alignment explanation
Indices: 20849461--20849520 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
20849451 GAAGAAAAAA
*
20849461 GGAATAAGAGAAGAGAAGAAACAAGTT
1 GGAATGAGAGAAGAGAAGAAACAAGTT
*
20849488 GGAATGAGAGAATAGAAGAAACAAGTT
1 GGAATGAGAGAAGAGAAGAAACAAGTT
*
20849515 TGAATG
1 GGAATG
20849521 GGAAAAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.30, T:0.15
Consensus pattern (27 bp):
GGAATGAGAGAAGAGAAGAAACAAGTT
Found at i:20852704 original size:51 final size:51
Alignment explanation
Indices: 20852623--20852788 Score: 305
Period size: 51 Copynumber: 3.3 Consensus size: 51
20852613 CGGATCACAT
* *
20852623 TTATTACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
20852674 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
20852725 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
20852776 TTATCACTTGTCA
1 TTATCACTTGTCA
20852789 TTGATCAGAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 111 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:20857756 original size:3 final size:3
Alignment explanation
Indices: 20857750--20857857 Score: 216
Period size: 3 Copynumber: 36.0 Consensus size: 3
20857740 CAGAAGAATC
20857750 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20857798 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20857846 AGA AGA AGA AGA
1 AGA AGA AGA AGA
20857858 TAAAAACAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20858258 original size:239 final size:239
Alignment explanation
Indices: 20857839--20858318 Score: 960
Period size: 239 Copynumber: 2.0 Consensus size: 239
20857829 GAAGAAGAAG
20857839 AAGAAGAAGAAGAAGAAGATAAAAACAAAATAGATATATGTATACCGTTGTCTCTTCAGCATGGC
1 AAGAAGAAGAAGAAGAAGATAAAAACAAAATAGATATATGTATACCGTTGTCTCTTCAGCATGGC
20857904 TTGTATTCTTTAGTGTATTCGTAAATTAGATGTCTTCGTTAATCTTGAATTAATATTTGCAACTA
66 TTGTATTCTTTAGTGTATTCGTAAATTAGATGTCTTCGTTAATCTTGAATTAATATTTGCAACTA
20857969 ATTAAGTTGTTCATACCGTTAGTATTAAACCGTGACAAATTATTCACTACTTTCTCCCCTTTTAA
131 ATTAAGTTGTTCATACCGTTAGTATTAAACCGTGACAAATTATTCACTACTTTCTCCCCTTTTAA
20858034 TAAATTCTTCCTTGATTTATAAAGGGTCTATATATACATATATA
196 TAAATTCTTCCTTGATTTATAAAGGGTCTATATATACATATATA
20858078 AAGAAGAAGAAGAAGAAGATAAAAACAAAATAGATATATGTATACCGTTGTCTCTTCAGCATGGC
1 AAGAAGAAGAAGAAGAAGATAAAAACAAAATAGATATATGTATACCGTTGTCTCTTCAGCATGGC
20858143 TTGTATTCTTTAGTGTATTCGTAAATTAGATGTCTTCGTTAATCTTGAATTAATATTTGCAACTA
66 TTGTATTCTTTAGTGTATTCGTAAATTAGATGTCTTCGTTAATCTTGAATTAATATTTGCAACTA
20858208 ATTAAGTTGTTCATACCGTTAGTATTAAACCGTGACAAATTATTCACTACTTTCTCCCCTTTTAA
131 ATTAAGTTGTTCATACCGTTAGTATTAAACCGTGACAAATTATTCACTACTTTCTCCCCTTTTAA
20858273 TAAATTCTTCCTTGATTTATAAAGGGTCTATATATACATATATA
196 TAAATTCTTCCTTGATTTATAAAGGGTCTATATATACATATATA
20858317 AA
1 AA
20858319 TATACATTGA
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 241 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (239 bp):
AAGAAGAAGAAGAAGAAGATAAAAACAAAATAGATATATGTATACCGTTGTCTCTTCAGCATGGC
TTGTATTCTTTAGTGTATTCGTAAATTAGATGTCTTCGTTAATCTTGAATTAATATTTGCAACTA
ATTAAGTTGTTCATACCGTTAGTATTAAACCGTGACAAATTATTCACTACTTTCTCCCCTTTTAA
TAAATTCTTCCTTGATTTATAAAGGGTCTATATATACATATATA
Found at i:20860570 original size:11 final size:11
Alignment explanation
Indices: 20860550--20860588 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
20860540 AGCTCGACCC
*
20860550 ATATTAAATAT
1 ATATTTAATAT
20860561 ATATTTAATAT
1 ATATTTAATAT
**
20860572 ATATACAATAT
1 ATATTTAATAT
20860583 ATATTT
1 ATATTT
20860589 GATTAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTTAATAT
Found at i:20864711 original size:13 final size:13
Alignment explanation
Indices: 20864693--20864721 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20864683 CAAATTTCTT
20864693 GTTTTCAATCCAA
1 GTTTTCAATCCAA
20864706 GTTTTCAATCCAA
1 GTTTTCAATCCAA
20864719 GTT
1 GTT
20864722 AACACATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
GTTTTCAATCCAA
Found at i:20868801 original size:34 final size:34
Alignment explanation
Indices: 20868763--20868827 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
20868753 CCGCCAATAA
** *
20868763 ATCGATAGCATCAATTTCTAACACAAAATAACAG
1 ATCGATAGCATCAACGTCAAACACAAAATAACAG
*
20868797 ATCGATAGTATCAACGTCAAACACAAAATAA
1 ATCGATAGCATCAACGTCAAACACAAAATAA
20868828 TTTATTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (34 bp):
ATCGATAGCATCAACGTCAAACACAAAATAACAG
Found at i:20873617 original size:21 final size:21
Alignment explanation
Indices: 20873593--20873647 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
20873583 AAAGAATGAG
*
20873593 TTTTATAGGAAATTACTTGGAT
1 TTTTATAGGAAA-AACTTGGAT
* * *
20873615 TTTTTTATGAAAAATTTGGA-
1 TTTTATAGGAAAAACTTGGAT
20873635 TTTTATAGGAAAA
1 TTTTATAGGAAAA
20873648 CCCATTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.41
21 6 0.22
22 10 0.37
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (21 bp):
TTTTATAGGAAAAACTTGGAT
Found at i:20877543 original size:17 final size:17
Alignment explanation
Indices: 20877521--20877554 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20877511 ATCCACTAAT
*
20877521 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20877538 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20877555 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20882173 original size:17 final size:17
Alignment explanation
Indices: 20882151--20882184 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20882141 ATCCACTAAT
*
20882151 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20882168 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20882185 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20885583 original size:21 final size:21
Alignment explanation
Indices: 20885559--20885612 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
20885549 TGAGCAAAAT
*
20885559 TTTGCTAATGAGAAAAAGGAG
1 TTTGCTATTGAGAAAAAGGAG
* * *
20885580 TTTGCTATTGTGGAATAGGAG
1 TTTGCTATTGAGAAAAAGGAG
20885601 TTTGCTATTGAG
1 TTTGCTATTGAG
20885613 GAGCTTCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.35
Consensus pattern (21 bp):
TTTGCTATTGAGAAAAAGGAG
Found at i:20904115 original size:58 final size:58
Alignment explanation
Indices: 20904041--20904156 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
20904031 CTTCACAATT
20904041 GAATTCGTATTACGAAACTTTAAAAAATAGAAGAAGAATGACTATTCTGCAGAATCTC
1 GAATTCGTATTACGAAACTTTAAAAAATAGAAGAAGAATGACTATTCTGCAGAATCTC
*
20904099 GAATTCGTATTACGAAACTTTAAGAAATAGAAGAAGAATGACTATTCTGCAGAATCTC
1 GAATTCGTATTACGAAACTTTAAAAAATAGAAGAAGAATGACTATTCTGCAGAATCTC
20904157 TCGTTCAGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (58 bp):
GAATTCGTATTACGAAACTTTAAAAAATAGAAGAAGAATGACTATTCTGCAGAATCTC
Found at i:20907312 original size:44 final size:43
Alignment explanation
Indices: 20907252--20907867 Score: 430
Period size: 44 Copynumber: 14.3 Consensus size: 43
20907242 CTGTGACTTC
* *
20907252 AGGGAGACAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTT-TGATCTGCTCCACTACTGCTT
*
20907295 AGGGAGATAAGACTTGG----TGTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTGGTTTCTTTGATCTGCTCCACTACTGCTT
* * * * **
20907335 AGGGAGATAAGATCT-GTGAT-TTTAATCCGCTCCACTGCAACTTT
1 AGGGAGATAAGAT-TGGT-TTCTTTGATCTGCTCCACTACTGC-TT
*
20907379 AGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTGGTTTC-TTTGATCTGCTCCACTACTGCTT
*
20907422 AGGGAGATAAGACTTGG-TGC---GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTGGTTTCTTTGATCTGCTCCACTACTGCTT
* **** * * *
20907462 AGGGAGATAGGATCTACCATATTTGACCTACTCCACTACTGCTT
1 AGGGAGATAAGAT-TGGTTTCTTTGATCTGCTCCACTACTGCTT
* * ** ** * *
20907506 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTTTGATCTGCTCCACTACTGCTT
* * ** *
20907549 AGGAAGATGAGATTTGCCATT-TTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTG-GTTTCTTTGATCTGCTCCACTACTGCTT
**** *
20907593 AGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 AGGGAGATAAGAT-TGGTTTCTTTGATCTGCTCCACTACTGCTT
* * ** ** *
20907637 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTTTGATCTGCTCCACTACTGCTT
* * * *
20907680 AGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTGGT-TTCTTTGATCTGCTCCACTACTGCTT
* **** *
20907724 AGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTT
1 AGGGAGATAAGAT-TGGTTTCTTTGATCTGCTCCACTACTGCTT
* * ** ** *
20907768 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTTTGATCTGCTCCACTACTGCTT
* * * *
20907811 AGGAAGATGATATTCGGTTTCTTTCATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATT-GGTTTCTTTGATCTGCTCCACTACTGCTT
20907855 AGGGAGATAAGAT
1 AGGGAGATAAGAT
20907868 CTGAAATTCT
Statistics
Matches: 442, Mismatches: 106, Indels: 49
0.74 0.18 0.08
Matches are distributed among these distances:
39 6 0.01
40 62 0.14
43 138 0.31
44 232 0.52
45 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
AGGGAGATAAGATTGGTTTCTTTGATCTGCTCCACTACTGCTT
Found at i:20907459 original size:87 final size:84
Alignment explanation
Indices: 20907277--20907866 Score: 372
Period size: 87 Copynumber: 6.9 Consensus size: 84
20907267 GTTTCTTCTG
* *
20907277 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGG-----TGTGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-TTGGTATCTTTTGATCTGCTCCACTACTGCTTAG
* **
20907337 GGAGATAAGATCTGTGATTTTAA
65 GGAGATAAGA-CT-TG-GTGCAA
* * ** *
20907360 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTTTG-TCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGATTGGTATCTTTTGATCTGCTCCACTACTGCTTAG
*
20907424 GGAGATAAGACTTGGTGCGA
65 GGAGATAAGACTTGGTGCAA
* * * *
20907444 TCTGCTCCACTACTGCTTAGGGAGATAGGA-T-CTACCATATTTGACCTACTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATC-T-TTTGATCTGCTCCACTACTGCTTA
*
20907507 GGGAGATAGGAC-TGGTGGCTTAAA
64 GGGAGATAAGACTTGGT-GC---AA
* * * ** *
20907531 TCTACTTCACTACTGCTTAGGAAGAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GA-TTGGTATCTTTTGATCTGCTCCACTACTGCTTA
**
20907594 GGGAGATAAGATCTACCATCTTTG--A
64 GGGAGATAAGA-CT----T-GGTGCAA
* * ** ** *
20907619 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGC-TTAAATCTGCTTCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATCTTTTGATCTGCTCCACTACTGCTTAGG
* * *
20907683 AAGATAAGA-TTCGTCGTCTTCGA
66 GAGATAAGACTT-G--G--TGCAA
*** *
20907706 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATC-TTTGACCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGAT-TGGTATCTTTTGATCTGCTCCACTACTGCTTAG
*
20907770 GGAGATAGGAC-TGGTGGCTTAAA
65 GGAGATAAGACTTGGT-GC---AA
* * * * *
20907793 TCTGCTTCACTACTGCTTAGGAAGAT-GATATTCGGTTTC-TTTCATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATT-GGTATCTTTTGATCTGCTCCACTACTGCTTA
20907856 GGGAGATAAGA
64 GGGAGATAAGA
20907867 TCTGAAATTC
Statistics
Matches: 394, Mismatches: 73, Indels: 76
0.73 0.13 0.14
Matches are distributed among these distances:
81 4 0.01
82 2 0.01
83 39 0.10
84 58 0.15
85 5 0.01
86 5 0.01
87 212 0.54
88 62 0.16
89 2 0.01
90 2 0.01
93 2 0.01
94 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (84 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATCTTTTGATCTGCTCCACTACTGCTTAGG
GAGATAAGACTTGGTGCAA
Found at i:20907599 original size:131 final size:131
Alignment explanation
Indices: 20907315--20907869 Score: 730
Period size: 131 Copynumber: 4.3 Consensus size: 131
20907305 GACTTGGTGT
*** * * **
20907315 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAT-TTTAATCC-GCTCCACTGCAACTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA-CCTGCTCCACTACTGC-T
* ** *** * * *
20907378 TAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTT-G----
64 TAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGA-TTCGCCAT
* *
20907438 GTGC
128 TTTC
* * *
20907442 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATATTTGACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* *
20907507 GGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATGAGATTTGCCATTTT
66 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCATTTT
20907572 C
131 C
20907573 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* * * *
20907638 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTT
66 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCATTTT
20907703 C
131 C
*
20907704 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* ***
20907769 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGATATTCGGTTTCTT
66 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCAT-TT
20907834 TC
130 TC
20907836 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
20907870 GAAATTCTTC
Statistics
Matches: 382, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
126 2 0.01
127 86 0.23
128 13 0.03
131 278 0.73
132 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATGAGATTCGCCATTTT
C
Found at i:20908206 original size:44 final size:44
Alignment explanation
Indices: 20907970--20908656 Score: 313
Period size: 44 Copynumber: 15.6 Consensus size: 44
20907960 ATTTTAATCC
* ** *
20907970 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-CTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGACTGGT-GTCTTCGATCT
** * * * *
20908014 GCTCTGCTGTAATCTCAGGGAGATAAAATCTGAAAT-TTTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CTG--GTGTCTTCGATCT
** * * *
20908060 ATTCCACTGTAATCTCAGGAAAATAAGACCTGATG----CGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CTGGTGTCTTCGATCT
* * * * ** *
20908101 ACTCTACTGTAA-CTTCAGAGAGATAAGA----T-CCTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGACTGGTGTCTTCGATCT
* *
20908140 GCTCCACTGTAATCTCAAGGAGATAGGACTGGTGTCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGACTGGTGTCTTCGATCT
* * * *
20908184 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CTGGTGTCTTCGATCT
* * * * * *
20908228 GTTCCACCGTAACCTCAGGGAGATAAGATTTGAAAT-TCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CTG--GTGTCTTCGATCT
* * ** *
20908274 ACTCCACTGTAATCTTAGGGAGATAAGACCTAAAAT-TCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CT--GGTGTCTTCGATCT
* * * * * * *
20908320 ACTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAACCT
1 GCTCCACTGTAATCTCAGGGAGATAAGACTGGTGTCTTCGATCT
* ** * *
20908364 GCCCCACTGTAA-CTTCAGGGAGATAAGGTTCGTGGCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGACTGGTGTCTTCGATCT
* * *
20908408 GCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGA-CTG--GTGTCTTCGATCT
* * ** * * *
20908454 ACTCCACTGTAATCTCAGGGAGATAAGACTTGCATATTCAACCT
1 GCTCCACTGTAATCTCAGGGAGATAAGACTGGTGTCTTCGATCT
* * * *
20908498 GCCCCACTGTAA-CTTCAGGGAGATAAGATTTGTGGCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGACTGGTGTCTTCGATCT
** * * * * ** *
20908542 GCTCTTCTGTAA-CTTCAGAGAGATAGGATCCT-TTAT-TTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGA--CTGGTGTCTTCGATCT
* * *
20908586 GCTCCACTATAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGACTGGTGTCTTCGATCT
*
20908629 GCTCCGCTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
20908657 TCTCTGGCTC
Statistics
Matches: 482, Mismatches: 126, Indels: 71
0.71 0.19 0.10
Matches are distributed among these distances:
36 1 0.00
39 24 0.05
40 2 0.00
41 27 0.06
42 2 0.00
43 32 0.07
44 247 0.51
45 10 0.02
46 134 0.28
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGACTGGTGTCTTCGATCT
Found at i:20908297 original size:46 final size:46
Alignment explanation
Indices: 20908230--20908481 Score: 248
Period size: 46 Copynumber: 5.6 Consensus size: 46
20908220 TTCAATCTGT
* *
20908230 TCCACCGTAACCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTAC
* ** *
20908276 TCCACTGTAATCTTAGGGAGATAAGACCTAAAATTCTTCGGTCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTAC
* * * ** *
20908322 TCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAAC---CTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTTG-AAATTCTTCGGTCTAC
* * * * * *
20908366 CCCACTGTAA-CTTCAGGGAGATAAGGTTCG---TGGCTTCGATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTTGAAAT-TCTTCGGTCTAC
* *
20908410 TCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTAC
20908456 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
20908482 CTTGCATATT
Statistics
Matches: 166, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
43 1 0.01
44 54 0.33
45 1 0.01
46 100 0.60
47 7 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (46 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTAC
Found at i:20908402 original size:180 final size:180
Alignment explanation
Indices: 20908141--20908482 Score: 490
Period size: 180 Copynumber: 1.9 Consensus size: 180
20908131 CTTTAATCCG
* * * * * * * *
20908141 CTCCACTGTAATCTCAAGGAGATAGGACTGGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAACCTCAAGGAGATAAGACTGGTATATTCAACCTGCCCCACTGTAATCTCAGGGAG
* *
20908206 ATAAGATCTCTGGCTTCAATCTGTTCCACCGTAACCTCAGGGAGATAAGATTTGAAATTCTTCGG
66 ATAAGATCTCTGGCTTCAATCTGCTCCACCGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
*
20908271 TCTACTCCACTGTAATCTTAGGGAGATAAGACCTAAAATTCTTCGGTCTA
131 TCTACTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
* *
20908321 CTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAACCTGCCCCACTGTAA-CTTCAGGGA
1 CTCCACTGTAACCTCAAGGAGATAAGACTGGTATATTCAACCTGCCCCACTGTAATC-TCAGGGA
* * * * *
20908385 GATAAGGT-TCGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
65 GATAAGATCTC-TGGCTTCAATCTGCTCCACCGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
20908449 GGTCTACTCCACTGTAATCTCAGGGAGATAAGAC
129 GGTCTACTCCACTGTAATCTCAGGGAGATAAGAC
20908483 TTGCATATTC
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
179 3 0.02
180 139 0.98
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (180 bp):
CTCCACTGTAACCTCAAGGAGATAAGACTGGTATATTCAACCTGCCCCACTGTAATCTCAGGGAG
ATAAGATCTCTGGCTTCAATCTGCTCCACCGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGG
TCTACTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
Found at i:20908457 original size:134 final size:131
Alignment explanation
Indices: 20907973--20908571 Score: 556
Period size: 134 Copynumber: 4.5 Consensus size: 131
20907963 TTAATCCGCT
*
20907973 CCACTGTAA-TCTCAGGGAGATAAGATTAC-TAGCTTCAATCTGCT-CTGCTGTAATCTCAGGGA
1 CCACTGTAACT-TCAGGGAGATAAGATT-CGT-GCTTCGATCTGCTCCT-CTGTAATCTCAGGGA
* * * * * * * * *
20908035 GATAAAATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGAAAATAAGACCTG-ATGCGAT
62 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACTTGTATTCAAC
* *
20908099 CTACT
127 CTGCC
* * ** * * *
20908104 CTACTGTAACTTCAGAGAGATAAGA-TC---CTTTAATCCGCTCCACTGTAATCTCAAGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATTCGTGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATA
* * * * * ** *
20908165 GGA-CTG--GTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATC
66 AGATCTGAAAT-TCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGA-CT-TGTATTCAACC
**
20908227 TGTT
128 TGCC
* * * * * * * *
20908231 CCACCGTAACCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAATCTTAGGGAG
1 CCACTGTAACTTCAGGGAGATAAGATTCG---TGCTTCGATCTGCTCCTCTGTAATCTCAGGGAG
* * *
20908296 ATAAGACCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAA
63 ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACTTG--TATTCAA
20908361 CCTGCC
126 CCTGCC
*
20908367 CCACTGTAACTTCAGGGAGATAAGGTTCGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTCGT-GCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
20908432 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACTTGCATATTCAACC
65 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACTTG--TATTCAACC
20908497 TGCC
128 TGCC
* * *
20908501 CCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTCGATCTGCTCTTCTGTAA-CTTCAGAGAGA
1 CCACTGTAACTTCAGGGAGATAAGATTCGT-GCTTCGATCTGCTCCTCTGTAATC-TCAGGGAGA
*
20908565 TAGGATC
64 TAAGATC
20908572 CTTTATTTTA
Statistics
Matches: 384, Mismatches: 64, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
123 1 0.00
124 31 0.08
125 4 0.01
126 31 0.08
127 29 0.08
128 1 0.00
129 1 0.00
130 1 0.00
131 21 0.05
132 1 0.00
133 2 0.01
134 189 0.49
135 4 0.01
136 67 0.17
137 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
CCACTGTAACTTCAGGGAGATAAGATTCGTGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATA
AGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACTTGTATTCAACCTGC
C
Found at i:20909951 original size:7 final size:7
Alignment explanation
Indices: 20909935--20909986 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
20909925 GCCTCTCCAT
*
20909935 TTTTTTA
1 TTTTTCA
20909942 TTTTTCA
1 TTTTTCA
*
20909949 -TTTTCT
1 TTTTTCA
20909955 TTTTTCA
1 TTTTTCA
*
20909962 ATTTTCA
1 TTTTTCA
*
20909969 -TTCTCA
1 TTTTTCA
20909975 TTTTTCA
1 TTTTTCA
20909982 TTTTT
1 TTTTT
20909987 TCAGAGTGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Done.