Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 65 of 135
Found at i:19271123 original size:16 final size:16
Alignment explanation
Indices: 19271092--19271128 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19271082 ACTTGAAGAA
19271092 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19271108 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19271124 TATTA
1 TATTA
19271129 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19271218 original size:38 final size:39
Alignment explanation
Indices: 19271142--19271219 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
19271132 TAAAATTGAA
* *
19271142 ATATTAAATAATTTATTAAATTAATAAATTATATTAATT
1 ATATTAAATAATTTATTAAATGAATAAATTATAATAATT
* *
19271181 ATATT-AATAATTTATTATATGACTAAA-TATAAATAATT
1 ATATTAAATAATTTATTAAATGAATAAATTAT-AATAATT
19271219 A
1 A
19271220 AATATGCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.09
38 26 0.76
39 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (39 bp):
ATATTAAATAATTTATTAAATGAATAAATTATAATAATT
Found at i:19272337 original size:6 final size:6
Alignment explanation
Indices: 19272326--19272360 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
19272316 ATGTTTCTCA
19272326 AAATGG AAATGG AAATGG AAATGG AAATGAG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAAT
19272361 TATACATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:19287562 original size:17 final size:17
Alignment explanation
Indices: 19287537--19287576 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
19287527 TATTTTTTAT
19287537 ATATATTATAATTAAAA
1 ATATATTATAATTAAAA
* *
19287554 ATATCTTATAATTATAA
1 ATATATTATAATTAAAA
19287571 AT-TATT
1 ATATATT
19287577 TTTTTAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTATAATTAAAA
Found at i:19289331 original size:32 final size:32
Alignment explanation
Indices: 19289290--19289356 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
19289280 TTCTATTAGT
19289290 AAAGAAAGATTATTTTATTATTAAAAAGAAAG
1 AAAGAAAGATTATTTTATTATTAAAAAGAAAG
*
19289322 AAAGAAAGATTATTTTATTATTACAAAGAAAG
1 AAAGAAAGATTATTTTATTATTAAAAAGAAAG
19289354 AAA
1 AAA
19289357 AAAACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.57, C:0.01, G:0.12, T:0.30
Consensus pattern (32 bp):
AAAGAAAGATTATTTTATTATTAAAAAGAAAG
Found at i:19289741 original size:25 final size:26
Alignment explanation
Indices: 19289689--19289744 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
19289679 ATATTTTATA
19289689 ATTT-TTATATAAATTTTAATAAGCAT
1 ATTTATTATATAAATTTTAATAA-CAT
* *
19289715 ATTTATTATATAATTTTTTATAA-AT
1 ATTTATTATATAAATTTTAATAACAT
19289740 ATTTA
1 ATTTA
19289745 ATAACCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 7 0.26
26 4 0.15
27 16 0.59
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
ATTTATTATATAAATTTTAATAACAT
Found at i:19293230 original size:70 final size:67
Alignment explanation
Indices: 19293154--19293304 Score: 178
Period size: 70 Copynumber: 2.2 Consensus size: 67
19293144 AATAAAAGTT
* * *
19293154 GAGGGATTTGAATATATTATACCATGATACTTTAGTCTTTTTATTTT-AAAAATAATAATAAATA
1 GAGGGATTTGAATATATTAT-CCAAGATACTATAATCTTTTTATTTTAAAAAATAA-AAT--ATA
19293218 TATATA
62 TATATA
** * * *
19293224 GAGGGATTTGAATATATTATTGAAGGTACTATAATCTTTTTATTTTAAAAAATAAAATGTGTATA
1 GAGGGATTTGAATATATTATCCAAGATACTATAATCTTTTTATTTTAAAAAATAAAATATATATA
19293289 TA
66 TA
*
19293291 GAGGAATTTGAATA
1 GAGGGATTTGAATA
19293305 AAGTTAATTA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
67 20 0.28
69 23 0.32
70 28 0.39
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (67 bp):
GAGGGATTTGAATATATTATCCAAGATACTATAATCTTTTTATTTTAAAAAATAAAATATATATA
TA
Found at i:19293404 original size:20 final size:19
Alignment explanation
Indices: 19293377--19293419 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19293367 TTATACATAC
* * *
19293377 TTTATTATCTTTATTATTT
1 TTTATTATATTGATTATTA
19293396 TTTATTTATATTGATTATTA
1 TTTA-TTATATTGATTATTA
19293416 TTTA
1 TTTA
19293420 AACCCCTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTATATTGATTATTA
Found at i:19295214 original size:15 final size:16
Alignment explanation
Indices: 19295182--19295215 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19295172 TCCAGTTAGA
*
19295182 TCTGGATTTCATAATT
1 TCTGGATGTCATAATT
19295198 TCTGGATGTCA-AATT
1 TCTGGATGTCATAATT
19295213 TCT
1 TCT
19295216 TTAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (16 bp):
TCTGGATGTCATAATT
Found at i:19302904 original size:24 final size:24
Alignment explanation
Indices: 19302871--19302945 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
19302861 CTTTCAACTG
19302871 AGCGCGTTAAGGAAAAGCGCTTTC
1 AGCGCGTTAAGGAAAAGCGCTTTC
* *
19302895 AGCGCTTTAAGGAAAAGCGCTTTG
1 AGCGCGTTAAGGAAAAGCGCTTTC
19302919 AGCGCGTTAAGGAAAAGCGCTTTC
1 AGCGCGTTAAGGAAAAGCGCTTTC
19302943 AGC
1 AGC
19302946 TCAGCGTGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (24 bp):
AGCGCGTTAAGGAAAAGCGCTTTC
Found at i:19303050 original size:15 final size:14
Alignment explanation
Indices: 19303009--19303050 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
19302999 TAAATTAGGA
19303009 TTTTAGGGTTTTAT
1 TTTTAGGGTTTTAT
*
19303023 TTTTA-AGTGTTTAT
1 TTTTAGGGT-TTTAT
19303037 TATTTAGGGTTTTA
1 T-TTTAGGGTTTTA
19303051 AAGTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 11 0.48
15 8 0.35
16 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (14 bp):
TTTTAGGGTTTTAT
Found at i:19303082 original size:46 final size:44
Alignment explanation
Indices: 19303024--19303117 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 44
19303014 GGGTTTTATT
*
19303024 TTTAAGTGTTTATTATTTAGG-GTTTTAAAGTTTATTTAAATTAAGG
1 TTTAAGTGTTTATTA-TTAGGAGTTTTAAAGTTCA--TAAATTAAGG
* *
19303070 TTTAAG-GTTTTATTATTAGGATTTTTAATGTTCATAAATTAAGG
1 TTTAAGTG-TTTATTATTAGGAGTTTTAAAGTTCATAAATTAAGG
19303114 TTTA
1 TTTA
19303118 TGATTTGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
44 14 0.33
45 6 0.14
46 23 0.53
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (44 bp):
TTTAAGTGTTTATTATTAGGAGTTTTAAAGTTCATAAATTAAGG
Found at i:19312276 original size:23 final size:23
Alignment explanation
Indices: 19312233--19312277 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19312223 AAAAAAATTC
**
19312233 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
19312256 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
19312278 ATTCAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:19312368 original size:20 final size:20
Alignment explanation
Indices: 19312343--19312383 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19312333 GATAGTAGAC
19312343 TAACCTCATGGAAGATGGAA
1 TAACCTCATGGAAGATGGAA
19312363 TAACCTCATGGAAGATGGAA
1 TAACCTCATGGAAGATGGAA
19312383 T
1 T
19312384 GTGTGCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (20 bp):
TAACCTCATGGAAGATGGAA
Found at i:19312763 original size:5 final size:5
Alignment explanation
Indices: 19312753--19312780 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
19312743 AAAATTATAA
19312753 AATGC AATGC AATGC AATGC AATGC AAT
1 AATGC AATGC AATGC AATGC AATGC AAT
19312781 AAAATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (5 bp):
AATGC
Found at i:19317034 original size:22 final size:21
Alignment explanation
Indices: 19317001--19317041 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19316991 TTCTTTTTTC
19317001 TTTTTTTCTTTCTGTCTGTAA
1 TTTTTTTCTTTCTGTCTGTAA
* *
19317022 TTTTTATTTTTTCTTTCTGT
1 TTTTT-TTCTTTCTGTCTGT
19317042 CAAACTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTTTCTTTCTGTCTGTAA
Found at i:19317341 original size:18 final size:17
Alignment explanation
Indices: 19317303--19317342 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19317293 AAAAATTAAT
*
19317303 AAAAATAAAATTTAGAT
1 AAAAATAAAATTTAGAA
* *
19317320 AAAAATATAATTTAGGA
1 AAAAATAAAATTTAGAA
19317337 AAAAAT
1 AAAAAT
19317343 TTAAGAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AAAAATAAAATTTAGAA
Found at i:19317342 original size:17 final size:17
Alignment explanation
Indices: 19317301--19317334 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19317291 GAAAAAATTA
19317301 ATAAAAATAAAATTTAG
1 ATAAAAATAAAATTTAG
*
19317318 ATAAAAATATAATTTAG
1 ATAAAAATAAAATTTAG
19317335 GAAAAAATTT
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:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
ATAAAAATAAAATTTAG
Found at i:19323825 original size:37 final size:37
Alignment explanation
Indices: 19323738--19323825 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 37
19323728 TGCACCCAAG
19323738 ACTGTCGCTGCATTAATATTCTTCAAATTGCATCCAGA
1 ACTGTCGCTGCA-TAATATTCTTCAAATTGCATCCAGA
* *
19323776 ACTATCGTTGCATAAGTATTCTTC-AATTGCA-CCTAGGA
1 ACTGTCGCTGCATAA-TATTCTTCAAATTGCATCC-A-GA
19323814 A-TGTCGCTGCAT
1 ACTGTCGCTGCAT
19323826 GAGCGTGTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 2 0.05
37 20 0.47
38 21 0.49
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (37 bp):
ACTGTCGCTGCATAATATTCTTCAAATTGCATCCAGA
Found at i:19324662 original size:16 final size:16
Alignment explanation
Indices: 19324641--19324671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19324631 TTGTAGATCC
19324641 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
19324657 CATTTTATCTTTATT
1 CATTTTACCTTTATT
19324672 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:19330899 original size:16 final size:16
Alignment explanation
Indices: 19330878--19330910 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19330868 CCCCTCTAAA
19330878 TTTTTATTTTTCATCC
1 TTTTTATTTTTCATCC
19330894 TTTTTATTTTTCATCC
1 TTTTTATTTTTCATCC
19330910 T
1 T
19330911 CTATCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATTTTTCATCC
Found at i:19332889 original size:30 final size:29
Alignment explanation
Indices: 19332849--19332917 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
19332839 GATAATAATT
*
19332849 TATAAGAATTAAATC-AAATCAAAATTTCATG
1 TATAA-AATTAAA-CAAAATC-AAAGTTCATG
*
19332880 TATAAAATTACACAAAATCAAAGTTCATG
1 TATAAAATTAAACAAAATCAAAGTTCATG
*
19332909 TATACAATT
1 TATAAAATT
19332918 GCACATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.53
30 11 0.32
31 5 0.15
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.32
Consensus pattern (29 bp):
TATAAAATTAAACAAAATCAAAGTTCATG
Found at i:19332907 original size:29 final size:30
Alignment explanation
Indices: 19332864--19332922 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
19332854 GAATTAAATC
*
19332864 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
* *
19332894 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
19332923 TTAAACCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:19332941 original size:31 final size:29
Alignment explanation
Indices: 19332874--19332942 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
19332864 AAATCAAAAT
*
19332874 TTCATGTATAAAATTACACAAAATCAAAG
1 TTCATGTATAAAATTACACAAAACCAAAG
* *
19332903 TTCATGTATACAATTGCACATTAAACCACAA-
1 TTCATGTATAAAATTACACA--AAACCA-AAG
19332934 TTCATGTAT
1 TTCATGTAT
19332943 GGTTTTGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.53
31 14 0.41
32 2 0.06
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.32
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAACCAAAG
Found at i:19335415 original size:78 final size:77
Alignment explanation
Indices: 19335322--19335699 Score: 226
Period size: 78 Copynumber: 4.9 Consensus size: 77
19335312 CATTCTTTTA
* *
19335322 CACATTAATCGCATTAATCACATGAGTACTAAAACATTTAACACGA-CACATATTAATCACATTT
1 CACATTAATCACATTAATCACATGAATACTAAAACATTTAACAC-ATCACATATTAATCACATTT
19335386 AATCACATATAAT
65 AATCACATATAAT
* * ** * *
19335399 CACATATAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACATATTAATCACATTT
1 CACAT-TAATCACATTAATCACATGAATACTAAAACATTTAACACATCACATATTAATCACATTT
*
19335464 AGTCACATATAAT
65 AATCACATATAAT
* * ** * *
19335477 CACA-T--T--C----GTCACATGAATATTTTAGCATTTATCACATCACATATTAATCACATTTA
1 CACATTAATCACATTAATCACATGAATACTAAAACATTTAACACATCACATATTAATCACATTTA
* *
19335533 CTCACATTTAAT
66 ATCACATATAAT
* * ** * * * ** * *
19335545 CACATTAGTCACATGAAT-ATTTCAACATTTATCACATTTAATCACTTGA-ATATT--TCAGCAT
1 CACATTAATCACATTAATCACATGAATA-CTAAAACATTTAA-CACATCACATATTAATCA-CA-
19335606 TTATCACATCACATATTAAT
62 TT-T-A-ATCACATA-TAAT
* * ** * * *
19335626 CACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCACATCACATATTAATTACATT
1 CACA-TTAATCACA-TTAATCACATGAATACTAAAACATTTAACACATCACATATTAATCACATT
*
19335691 TAACCACAT
64 TAATCACAT
19335700 GAATATTTCA
Statistics
Matches: 237, Mismatches: 39, Indels: 47
0.73 0.12 0.15
Matches are distributed among these distances:
68 62 0.26
69 1 0.00
71 1 0.00
72 1 0.00
73 1 0.00
74 1 0.00
75 3 0.01
76 8 0.03
77 23 0.10
78 71 0.30
79 1 0.00
80 12 0.05
81 9 0.04
82 15 0.06
83 19 0.08
84 7 0.03
85 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (77 bp):
CACATTAATCACATTAATCACATGAATACTAAAACATTTAACACATCACATATTAATCACATTTA
ATCACATATAAT
Found at i:19335437 original size:23 final size:23
Alignment explanation
Indices: 19335408--19335581 Score: 111
Period size: 23 Copynumber: 7.7 Consensus size: 23
19335398 TCACATATAA
19335408 TCACA-TTAGTCACATGAATATT
1 TCACATTTAGTCACATGAATATT
*
19335430 TCAGCATTTA-TCACATCACATATT
1 TCA-CATTTAGTCACATGA-ATATT
*
19335454 AATCACATTTAGTCACAT--ATA-A
1 --TCACATTTAGTCACATGAATATT
*
19335476 TCACA-TTCGTCACATGAATATT
1 TCACATTTAGTCACATGAATATT
* *
19335498 TTAGCATTTA-TCACATCACATATT
1 TCA-CATTTAGTCACATGA-ATATT
* * *
19335522 AATCACATTTACTCACAT--TTA-A
1 --TCACATTTAGTCACATGAATATT
19335544 TCACA-TTAGTCACATGAATATT
1 TCACATTTAGTCACATGAATATT
19335566 TCAACATTTA-TCACAT
1 TC-ACATTTAGTCACAT
19335582 TTAATCACTT
Statistics
Matches: 119, Mismatches: 13, Indels: 39
0.70 0.08 0.23
Matches are distributed among these distances:
19 18 0.15
20 10 0.08
21 5 0.04
22 7 0.06
23 32 0.27
24 18 0.15
25 12 0.10
26 17 0.14
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TCACATTTAGTCACATGAATATT
Found at i:19335458 original size:68 final size:68
Alignment explanation
Indices: 19335377--19335581 Score: 340
Period size: 68 Copynumber: 3.0 Consensus size: 68
19335367 ACACATATTA
*
19335377 ATCACAT-TTAATCACATATAATCACATATAATCACATTAGTCACATGAATATTTCAGCATTTAT
1 ATCACATATTAATCACATTTAATCACATATAATCACATTAGTCACATGAATATTTCAGCATTTAT
19335441 CAC
66 CAC
* * *
19335444 ATCACATATTAATCACATTTAGTCACATATAATCACATTCGTCACATGAATATTTTAGCATTTAT
1 ATCACATATTAATCACATTTAATCACATATAATCACATTAGTCACATGAATATTTCAGCATTTAT
19335509 CAC
66 CAC
* * *
19335512 ATCACATATTAATCACATTTACTCACATTTAATCACATTAGTCACATGAATATTTCAACATTTAT
1 ATCACATATTAATCACATTTAATCACATATAATCACATTAGTCACATGAATATTTCAGCATTTAT
19335577 CAC
66 CAC
19335580 AT
1 AT
19335582 TTAATCACTT
Statistics
Matches: 128, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
67 7 0.05
68 121 0.95
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (68 bp):
ATCACATATTAATCACATTTAATCACATATAATCACATTAGTCACATGAATATTTCAGCATTTAT
CAC
Found at i:19335595 original size:33 final size:33
Alignment explanation
Indices: 19335536--19335614 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
19335526 ACATTTACTC
*
19335536 ACATTTAATCACA-TTAGTCACATGAATATTTCA
1 ACATTT-ATCACATTTAATCACATGAATATTTCA
*
19335569 ACATTTATCACATTTAATCACTTGAATATTTCA
1 ACATTTATCACATTTAATCACATGAATATTTCA
*
19335602 GCATTTATCACAT
1 ACATTTATCACAT
19335615 CACATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 6 0.14
33 36 0.86
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (33 bp):
ACATTTATCACATTTAATCACATGAATATTTCA
Found at i:19335657 original size:35 final size:33
Alignment explanation
Indices: 19335603--19335673 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
19335593 AATATTTCAG
19335603 CATTTATCACATCACATATTAATCA-CATTTAGTCA
1 CATTTATCACATCACATATT--TCAGCATTTA-TCA
*
19335638 CATTTAATCACATGA-ATATTTCAGCATTTATCA
1 CATTT-ATCACATCACATATTTCAGCATTTATCA
19335671 CAT
1 CAT
19335674 CACATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.27
34 6 0.18
35 10 0.30
36 8 0.24
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (33 bp):
CATTTATCACATCACATATTTCAGCATTTATCA
Found at i:19335672 original size:23 final size:23
Alignment explanation
Indices: 19335638--19335753 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 23
19335628 CATTTAGTCA
19335638 CATTTAATCACATGAATATTTCAG
1 CATTT-ATCACATGAATATTTCAG
* *
19335662 CATTTATCACATCACATATTAATTA-
1 CATTTATCACATGA-ATATT--TCAG
*
19335687 CATTTAACCACATGAATATTTCAG
1 CATTT-ATCACATGAATATTTCAG
*** * *
19335711 CACAAATCACATTAATATTTAAG
1 CATTTATCACATGAATATTTCAG
*** *
19335734 CACAAATCACATTAATATTT
1 CATTTATCACATGAATATTT
19335754 ATGCGTAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
23 45 0.59
24 12 0.16
25 10 0.13
26 9 0.12
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
CATTTATCACATGAATATTTCAG
Found at i:19335720 original size:49 final size:48
Alignment explanation
Indices: 19335624--19335722 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 48
19335614 TCACATATTA
* * ***
19335624 ATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCAC
1 ATCACATTTAATCACATTTAACCACATGAATATTTCAGCACAAATCAC
*
19335672 ATCACATATTAATTACATTTAACCACATGAATATTTCAGCACAAATCAC
1 ATCACAT-TTAATCACATTTAACCACATGAATATTTCAGCACAAATCAC
19335721 AT
1 AT
19335723 TAATATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 7 0.16
49 37 0.84
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (48 bp):
ATCACATTTAATCACATTTAACCACATGAATATTTCAGCACAAATCAC
Found at i:19335754 original size:23 final size:23
Alignment explanation
Indices: 19335695--19335801 Score: 160
Period size: 23 Copynumber: 4.7 Consensus size: 23
19335685 TACATTTAAC
* *
19335695 CACATGAATATTTCAGCACAAAT
1 CACATTAATATTTAAGCACAAAT
19335718 CACATTAATATTTAAGCACAAAT
1 CACATTAATATTTAAGCACAAAT
* **
19335741 CACATTAATATTTATGCGTAAAT
1 CACATTAATATTTAAGCACAAAT
*
19335764 CACATTAATATTTAAGCGCAAAT
1 CACATTAATATTTAAGCACAAAT
19335787 CACATTAATATTTAA
1 CACATTAATATTTAA
19335802 ACATATAACT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.33
Consensus pattern (23 bp):
CACATTAATATTTAAGCACAAAT
Found at i:19336269 original size:36 final size:36
Alignment explanation
Indices: 19336221--19336415 Score: 266
Period size: 36 Copynumber: 5.4 Consensus size: 36
19336211 TTAGCACAAT
* * * *
19336221 ATATTCACTGTCACATGGCATGAATAACTTACCTAT
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
19336257 ATATTTATTGTCACATGACATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
19336293 ACATTTACTGTCACATGGCATGAATAACATACCTAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
19336329 ATATTTACTGTCACATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* * *
19336365 ATATGTACTATCTCATGGCATGAATAACATTA-CCAC
1 ATATTTACTGTCACATGGCATGAATAACA-TACCCAC
*
19336401 ATATTTACTTTCACA
1 ATATTTACTGTCACA
19336416 ATAGTTATCA
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
36 138 0.99
37 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:19349137 original size:37 final size:37
Alignment explanation
Indices: 19349095--19349277 Score: 201
Period size: 37 Copynumber: 5.0 Consensus size: 37
19349085 ACATCTAAGA
*
19349095 ATTCGGACTATGTGCCTAGCAGGCTTTGTGTCGGTGT
1 ATTCGGACTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * * **
19349132 ATTCGGGCTATGTTCCTAGCAGACTTTGTGCCAATGT
1 ATTCGGACTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
19349169 ATTTGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
1 ATTCGGACTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
19349206 ATTCAGG-CTATGTGCCTAGTAGGCTTCGTGCCGGTGT
1 ATTC-GGACTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * * *
19349243 ATTCAGAC--TGTGTCTAGCAAGCCTTTGTGTCGGTG
1 ATTCGGACTATGTGCCTAGC-AGGCTTTGTGCCGGTG
19349278 ACTCAAGAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
35 8 0.07
36 14 0.11
37 99 0.80
38 2 0.02
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.34
Consensus pattern (37 bp):
ATTCGGACTATGTGCCTAGCAGGCTTTGTGCCGGTGT
Found at i:19349212 original size:21 final size:21
Alignment explanation
Indices: 19349188--19349248 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
19349178 ATGTGCCTAG
19349188 CAGGCTTTGTGCCGGTGTATT
1 CAGGCTTTGTGCCGGTGTATT
* *
19349209 CAGGCTATGTGCC----TAGT
1 CAGGCTTTGTGCCGGTGTATT
*
19349226 -AGGCTTCGTGCCGGTGTATT
1 CAGGCTTTGTGCCGGTGTATT
19349246 CAG
1 CAG
19349249 ACTGTGTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 10 0.33
17 3 0.10
20 3 0.10
21 14 0.47
ACGTcount: A:0.13, C:0.21, G:0.33, T:0.33
Consensus pattern (21 bp):
CAGGCTTTGTGCCGGTGTATT
Found at i:19359902 original size:18 final size:18
Alignment explanation
Indices: 19359863--19359916 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
19359853 ACTACAATGC
* *
19359863 AAATGCACTAACAAAT-A
1 AAATGCAATGACAAATAA
19359880 AAATGCAATGACAAATAA
1 AAATGCAATGACAAATAA
*
19359898 AAATGCAATGACAACTAA
1 AAATGCAATGACAAATAA
19359916 A
1 A
19359917 TAAAATGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.17
Consensus pattern (18 bp):
AAATGCAATGACAAATAA
Found at i:19360353 original size:12 final size:12
Alignment explanation
Indices: 19360338--19360365 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19360328 TTCATTCTTT
19360338 TTCTCTTCTTCC
1 TTCTCTTCTTCC
19360350 TTCTCTTCTTCC
1 TTCTCTTCTTCC
19360362 TTCT
1 TTCT
19360366 TTTCCTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCTCTTCTTCC
Found at i:19362202 original size:16 final size:16
Alignment explanation
Indices: 19362178--19362222 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
19362168 CATAGAATCT
*
19362178 AAAAAGAAATAGA-TA
1 AAAAAGAAATAAAGTA
19362193 AAAGAAGAAATAAAGTA
1 AAA-AAGAAATAAAGTA
19362210 AAAAAGAAATAAA
1 AAAAAGAAATAAA
19362223 CATAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
AAAAAGAAATAAAGTA
Found at i:19375523 original size:37 final size:37
Alignment explanation
Indices: 19375468--19375687 Score: 264
Period size: 37 Copynumber: 6.0 Consensus size: 37
19375458 ACATCTAAGA
* * *
19375468 ATTCGGGATATGTGCCTAGCAGGCTTTGTGGCAGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * *
19375505 ATTCGGGCTATGTTCCTAGCAGGCTTTGTGTCAGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
19375542 ATTCGGGCCATGTTCCTAGCAGGCTTTGTGCCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
19375579 ATTCGGGCTATGTGCCTAGTAGGCTTTGTGTCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * * * *
19375616 ATTTGGGCTATATGCCTAGTAGGCTTCGTACCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
19375653 ATTCGGACTATGT--CTAGCAAGCCTTTGTGCCGGTG
1 ATTCGGGCTATGTGCCTAGC-AGGCTTTGTGCCGGTG
19375688 ATTTAAGAAC
Statistics
Matches: 160, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 4 0.03
36 13 0.08
37 143 0.89
ACGTcount: A:0.14, C:0.20, G:0.32, T:0.35
Consensus pattern (37 bp):
ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
Found at i:19379446 original size:40 final size:40
Alignment explanation
Indices: 19379402--19379583 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
19379392 ATATGTGCTT
* * *
19379402 CTGATAGCACTATAGTGCTCTTGAAAGTACTTTTGTACAC
1 CTGATAGCACTACAGTGCTCTTGAAAGTACTTTCGTACTC
* * **
19379442 CTGATAGCACTACAGTGCCCCT-AACAAAACTTTCGTACTC
1 CTGATAGCACTACAGTGCTCTTGAA-AGTACTTTCGTACTC
* ** *
19379482 CTGATAGCACTACGGTGCTCCCG-ACGATACTTTCGTACTC
1 CTGATAGCACTACAGTGCTCTTGAAAG-TACTTTCGTACTC
* *
19379522 CTGATAGCACTACAGTTCTCTTGACAGTACTTTCGTACTC
1 CTGATAGCACTACAGTGCTCTTGAAAGTACTTTCGTACTC
* *
19379562 CTGTTAGCACTACGGTGCTCTT
1 CTGATAGCACTACAGTGCTCTT
19379584 AATAGCATAT
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 113 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (40 bp):
CTGATAGCACTACAGTGCTCTTGAAAGTACTTTCGTACTC
Found at i:19379535 original size:80 final size:80
Alignment explanation
Indices: 19379429--19379581 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
19379419 CTCTTGAAAG
*
19379429 TACTTTTGTACACCTGATAGCACTACAGTGCCCCTAACAAAACTTTCGTACTCCTGATAGCACTA
1 TACTTTCGTACACCTGATAGCACTACAGTGCCCCTAACAAAACTTTCGTACTCCTGATAGCACTA
19379494 CGGTGCTCCCGACGA
66 CGGTGCTCCCGACGA
* * * * * ** *
19379509 TACTTTCGTACTCCTGATAGCACTACAGTTCTCTTGACAGTACTTTCGTACTCCTGTTAGCACTA
1 TACTTTCGTACACCTGATAGCACTACAGTGCCCCTAACAAAACTTTCGTACTCCTGATAGCACTA
19379574 CGGTGCTC
66 CGGTGCTC
19379582 TTAATAGCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (80 bp):
TACTTTCGTACACCTGATAGCACTACAGTGCCCCTAACAAAACTTTCGTACTCCTGATAGCACTA
CGGTGCTCCCGACGA
Found at i:19384840 original size:24 final size:24
Alignment explanation
Indices: 19384807--19384853 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19384797 GTTAAGAGTA
*
19384807 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAGAGCAAAT-TAATAT
19384832 AAAA-TGTCAGAGCAAATTAATA
1 AAAATTGTCAGAGCAAATTAATA
19384854 AAAGATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAGAGCAAATTAATAT
Found at i:19387498 original size:15 final size:15
Alignment explanation
Indices: 19387475--19387518 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19387465 GTCGGGGCAA
19387475 TTCTGTCTTCTTCT-T
1 TTCT-TCTTCTTCTCT
19387490 TTCTCTCTTCTTCTCT
1 TTCT-TCTTCTTCTCT
*
19387506 TGCTTCTTCTTCT
1 TTCTTCTTCTTCT
19387519 ACTACAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.00, C:0.32, G:0.05, T:0.64
Consensus pattern (15 bp):
TTCTTCTTCTTCTCT
Found at i:19394136 original size:17 final size:17
Alignment explanation
Indices: 19394106--19394146 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
19394096 AAACTAAAAG
19394106 GAATGCAGTGACAATTAA
1 GAATGCAGTGACAA-TAA
19394124 -AATGCAG-GCACAATAA
1 GAATGCAGTG-ACAATAA
19394140 GAATGCA
1 GAATGCA
19394147 TGAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (17 bp):
GAATGCAGTGACAATAA
Found at i:19402363 original size:7 final size:7
Alignment explanation
Indices: 19402351--19402378 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19402341 TAAATCAAAT
19402351 GTGTTGA
1 GTGTTGA
19402358 GTGTTGA
1 GTGTTGA
19402365 GTGTTGA
1 GTGTTGA
19402372 GTGTTGA
1 GTGTTGA
19402379 ATATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTGTTGA
Found at i:19407242 original size:23 final size:24
Alignment explanation
Indices: 19407196--19407244 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
19407186 GAGTAAAAAT
* *
19407196 TGTCAGTGCAAATGTAATATAAGA
1 TGTCAGAGCAAATGTAATAAAAGA
19407220 TGTCAGAGCAAAT-TAATAAAAGA
1 TGTCAGAGCAAATGTAATAAAAGA
19407243 TG
1 TG
19407245 AATGGATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (24 bp):
TGTCAGAGCAAATGTAATAAAAGA
Found at i:19410523 original size:70 final size:67
Alignment explanation
Indices: 19410392--19410524 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 67
19410382 ATAAACAATA
* ** * * * *
19410392 TAATGGTTTTGCCTTTTAACTTAATGAGTAAATATTTATTAAAATGAAGTAGTTTTTCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGAAGTAGTTTTCCCTTTTAA
19410457 CT
66 CT
19410459 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACA-TAGTTTTCCCTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACGA-AGTAGTTTTCCCTT
19410523 TT
62 TT
19410525 CTTATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
67 19 0.35
68 3 0.05
69 2 0.04
70 30 0.55
71 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGAAGTAGTTTTCCCTTTTAA
CT
Found at i:19411953 original size:24 final size:24
Alignment explanation
Indices: 19411889--19411961 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
19411879 CTTCCAAATT
* *
19411889 TTAGCTCATACGAGCCTAGACAAA-A
1 TTAGCTCTTACGAGCCTA-A-AAAGG
* * *
19411914 TTACCTCTCACAAGCCTAAAAAGG
1 TTAGCTCTTACGAGCCTAAAAAGG
*
19411938 TTAGCTCTTACGAGCCTAGAAAGG
1 TTAGCTCTTACGAGCCTAAAAAGG
19411962 CTAACTAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.08
24 21 0.55
25 14 0.37
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCTAAAAAGG
Found at i:19433200 original size:3 final size:3
Alignment explanation
Indices: 19433182--19433238 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
19433172 GTGACAAAAA
* *
19433182 CTT CCT CTT TTT CTT CTT CTTT CTT -TT CTT CTT CTT CCTT C-T CTT
1 CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT -CTT CTT CTT
19433227 CCTT CTT CTT CT
1 -CTT CTT CTT CT
19433239 CGATAACCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 4 0.09
3 32 0.71
4 9 0.20
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:19433208 original size:15 final size:15
Alignment explanation
Indices: 19433190--19433234 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
19433180 AACTTCCTCT
*
19433190 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTCC
19433205 TTTTCTTCTTCTTCC
1 TTTTCTTCTTCTTCC
*
19433220 TTCTCTTCCTTCTTC
1 TTTTCTT-CTTCTTC
19433235 TTCTCGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTCTTCTTCC
Found at i:19435157 original size:186 final size:186
Alignment explanation
Indices: 19434836--19435204 Score: 648
Period size: 186 Copynumber: 2.0 Consensus size: 186
19434826 GAAACATTTC
* * * * *
19434836 ACTGTGATGAGTCAGCAAGTAAATTACGTCGACAAGTAGTGTTTTCTGTGCATTGACAAAAAGGA
1 ACTGTGATGAGTAAACAAGTAAATTACGTCGACAAGTAGTGTTTTCTGTGCATCGAAAAAAAAGA
* *
19434901 TAGCTTTATTCCTGTAAAAGAACTAAAGAGATAATTGAAATAAAATAAAATACAAAAAGTAAATA
66 TAGCTTTAGTCCTGTAAAAGAACTAAAGAGATAATTGAAATAAAATAAAATACAAAAAGTAAACA
*
19434966 GAAAAAATTGTAATGACATGTTAAGAAAATGTGACTAGATTAATGGTCTCGTTTTG
131 GAAAAAATTGTAATGACATGTTAAGAAAATGTGACTAGATTAATCGTCTCGTTTTG
* *
19435022 ACTGTGATGAGTAAACAAGTAAATTGCGTCGACAAGTAGTGTTTTCTGTGCGTCGAAAAAAAAGA
1 ACTGTGATGAGTAAACAAGTAAATTACGTCGACAAGTAGTGTTTTCTGTGCATCGAAAAAAAAGA
19435087 TAGCTTTAGTCCTGTAAAAGAACTAAAGAGATAATTGAAATAAAATAAAATACAAAAAGTAAACA
66 TAGCTTTAGTCCTGTAAAAGAACTAAAGAGATAATTGAAATAAAATAAAATACAAAAAGTAAACA
19435152 GAAAAAATTGTAATGACATGTTAAGAAAATGTGACTAGATTAATCGTCTCGTT
131 GAAAAAATTGTAATGACATGTTAAGAAAATGTGACTAGATTAATCGTCTCGTT
19435205 CTGCTCGTGT
Statistics
Matches: 173, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 173 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (186 bp):
ACTGTGATGAGTAAACAAGTAAATTACGTCGACAAGTAGTGTTTTCTGTGCATCGAAAAAAAAGA
TAGCTTTAGTCCTGTAAAAGAACTAAAGAGATAATTGAAATAAAATAAAATACAAAAAGTAAACA
GAAAAAATTGTAATGACATGTTAAGAAAATGTGACTAGATTAATCGTCTCGTTTTG
Found at i:19439471 original size:18 final size:18
Alignment explanation
Indices: 19439450--19439491 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19439440 GCTGTATTTA
* *
19439450 AGCATGTGATTTCATCTG
1 AGCATGTGACTGCATCTG
19439468 AGCATGTGACTGCATCTG
1 AGCATGTGACTGCATCTG
*
19439486 ATCATG
1 AGCATG
19439492 ATGTGCCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (18 bp):
AGCATGTGACTGCATCTG
Found at i:19443685 original size:24 final size:24
Alignment explanation
Indices: 19443631--19443688 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
19443621 GTGGGTCATT
19443631 CATAAATTA-ATTAAATATGAAAA
1 CATAAATTATATTAAATATGAAAA
* *
19443654 CATAAAATTATATTTAATAATTAAAA
1 CAT-AAATTATATTAAAT-ATGAAAA
19443680 -ATAAATTAT
1 CATAAATTAT
19443689 TTCATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 13 0.43
25 8 0.27
26 6 0.20
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (24 bp):
CATAAATTATATTAAATATGAAAA
Found at i:19448604 original size:20 final size:20
Alignment explanation
Indices: 19448579--19448769 Score: 109
Period size: 20 Copynumber: 9.6 Consensus size: 20
19448569 AATACTTTCA
*
19448579 TACTCCTGATAGCACTACGG
1 TACTCCTGATAGCACTACAG
* * * * *
19448599 TGCTCCCGACAGTACTTTC-G
1 TACTCCTGATAGCAC-TACAG
*
19448619 TACTCTTGATAGCACTACAG
1 TACTCCTGATAGCACTACAG
* * * *
19448639 TTCTCCTGACAGTACTTTC-G
1 TACTCCTGATAGCAC-TACAG
* * *
19448659 TACTCTTGATAACACTACGG
1 TACTCCTGATAGCACTACAG
* * * *
19448679 TGCTCCTGACAACACTACAA
1 TACTCCTGATAGCACTACAG
* *
19448699 TACTCCAGATAGCACTATAG
1 TACTCCTGATAGCACTACAG
* * * *
19448719 TGCTCCTGATAGTATTTC-G
1 TACTCCTGATAGCACTACAG
*
19448738 TACTCCTAATAGCACTACAG
1 TACTCCTGATAGCACTACAG
*
19448758 TGCTCCTGATAG
1 TACTCCTGATAG
19448770 TACTTTCCTA
Statistics
Matches: 120, Mismatches: 46, Indels: 10
0.68 0.26 0.06
Matches are distributed among these distances:
19 18 0.15
20 98 0.82
21 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (20 bp):
TACTCCTGATAGCACTACAG
Found at i:19448615 original size:40 final size:40
Alignment explanation
Indices: 19448545--19448781 Score: 271
Period size: 40 Copynumber: 6.0 Consensus size: 40
19448535 TAAGTGCTTT
* * *
19448545 TGATTGCACTACAGTGCTCCTGACAATACTTTCATACTCC
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACTCC
* * *
19448585 TGATAGCACTACGGTGCTCCCGACAGTACTTTCGTACTCT
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACTCC
* *
19448625 TGATAGCACTACAGTTCTCCTGACAGTACTTTCGTACTCT
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACTCC
* * ** * *
19448665 TGATAACACTACGGTGCTCCTGACAACAC-TACAATACTCC
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTC-GTACTCC
* * *
19448705 AGATAGCACTATAGTGCTCCTGATAGTA-TTTCGTACTCC
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACTCC
* * *
19448744 TAATAGCACTACAGTGCTCCTGATAGTACTTTCCTACT
1 TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACT
19448782 TTTGTTTGCA
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 33 0.20
40 131 0.80
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (40 bp):
TGATAGCACTACAGTGCTCCTGACAGTACTTTCGTACTCC
Found at i:19448870 original size:39 final size:39
Alignment explanation
Indices: 19448827--19448910 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 39
19448817 TGCCCCTGTT
* *
19448827 TGCACTAAGGTGTCTTGTTTGCACTTCAGTGCTCCAGTA
1 TGCACTAAGGTGCCTTGTTAGCACTTCAGTGCTCCAGTA
*** * *
19448866 TGCACTTTTGTGCCTTGTTAGCACTTCGGTGCTCCTGTA
1 TGCACTAAGGTGCCTTGTTAGCACTTCAGTGCTCCAGTA
19448905 TGCACT
1 TGCACT
19448911 TTTGTGCCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
TGCACTAAGGTGCCTTGTTAGCACTTCAGTGCTCCAGTA
Found at i:19448871 original size:20 final size:20
Alignment explanation
Indices: 19448846--19448911 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
19448836 GTGTCTTGTT
*
19448846 TGCACTTCAGTGCTCCAGTA
1 TGCACTTCAGTGCTCCTGTA
** *
19448866 TGCACTTTTGTGC-CTTGT-
1 TGCACTTCAGTGCTCCTGTA
*
19448884 TAGCACTTCGGTGCTCCTGTA
1 T-GCACTTCAGTGCTCCTGTA
19448905 TGCACTT
1 TGCACTT
19448912 TTGTGCCCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 1 0.03
19 13 0.36
20 21 0.58
21 1 0.03
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (20 bp):
TGCACTTCAGTGCTCCTGTA
Found at i:19448891 original size:19 final size:19
Alignment explanation
Indices: 19448867--19448928 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
19448857 GCTCCAGTAT
19448867 GCACTTTTGTGCCTTGTTA
1 GCACTTTTGTGCCTTGTTA
** *
19448886 GCACTTCGGTGCTCCTG-TA
1 GCACTTTTGTGC-CTTGTTA
19448905 TGCACTTTTGTGCCCTT-TTA
1 -GCACTTTTGTG-CCTTGTTA
19448925 GCAC
1 GCAC
19448929 CTCGGTGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 16 0.48
20 16 0.48
21 1 0.03
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.40
Consensus pattern (19 bp):
GCACTTTTGTGCCTTGTTA
Found at i:19448911 original size:39 final size:40
Alignment explanation
Indices: 19448840--19448939 Score: 150
Period size: 39 Copynumber: 2.5 Consensus size: 40
19448830 ACTAAGGTGT
* *
19448840 CTTGTTTGCACTTCAGTGCTCCAGTATGCACTTTTGTG-C
1 CTTGTTAGCACTTCGGTGCTCCAGTATGCACTTTTGTGCC
*
19448879 CTTGTTAGCACTTCGGTGCTCCTGTATGCACTTTTGTGCC
1 CTTGTTAGCACTTCGGTGCTCCAGTATGCACTTTTGTGCC
*
19448919 CTT-TTAGCACCTCGGTGCTCC
1 CTTGTTAGCACTTCGGTGCTCC
19448940 CTGATATTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 52 0.93
40 4 0.07
ACGTcount: A:0.11, C:0.29, G:0.21, T:0.39
Consensus pattern (40 bp):
CTTGTTAGCACTTCGGTGCTCCAGTATGCACTTTTGTGCC
Found at i:19448917 original size:20 final size:20
Alignment explanation
Indices: 19448855--19448917 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
19448845 TTGCACTTCA
*
19448855 GTGCTCCAGTATGCACTTTT
1 GTGCTCCTGTATGCACTTTT
* **
19448875 GTGC-CTTGT-TAGCACTTCG
1 GTGCTCCTGTAT-GCACTTTT
19448894 GTGCTCCTGTATGCACTTTT
1 GTGCTCCTGTATGCACTTTT
19448914 GTGC
1 GTGC
19448918 CCTTTTAGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
20 18 0.55
21 1 0.03
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (20 bp):
GTGCTCCTGTATGCACTTTT
Found at i:19451028 original size:27 final size:27
Alignment explanation
Indices: 19450994--19451051 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
19450984 TTGTGGCGTG
19450994 ATCTATGAACTGGAAGCCATTTTGGCT
1 ATCTATGAACTGGAAGCCATTTTGGCT
19451021 ATCTATGAACTGGAAGCCATTTTGGCT
1 ATCTATGAACTGGAAGCCATTTTGGCT
19451048 ATCT
1 ATCT
19451052 TTTGAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTATGAACTGGAAGCCATTTTGGCT
Found at i:19452822 original size:10 final size:11
Alignment explanation
Indices: 19452791--19452825 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
19452781 CTACAACTAC
19452791 CTCACTTTTCA
1 CTCACTTTTCA
19452802 CTCACTTTTCA
1 CTCACTTTTCA
19452813 CTCA-TTTTCA
1 CTCACTTTTCA
19452823 CTC
1 CTC
19452826 GAATTGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCACTTTTCA
Found at i:19461284 original size:150 final size:145
Alignment explanation
Indices: 19461147--19461643 Score: 604
Period size: 150 Copynumber: 3.4 Consensus size: 145
19461137 TAATTAAAAC
* *
19461147 AAAATTACTACTTTACTTCAAAATCAAAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTA-AAAAAATCAAAACTT
* *
19461212 TGTTTAAAAATTTAAACTTTTTTCTTTAAAATCACTAAAAACATATTTTTATTTTTTAAAATATA
65 TGTTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAA-AT-TTTTTATTTTTAAAAATATA
19461277 AACTTTCTTTTTTTTTAAAG
128 AACTTTC--TTTTTTTAAAG
* **
19461297 AAAATCAATACTCCACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
* *
19461362 TATTTAAAAATTTAAAC-TTTTTCTTTAAAATAACTACAAAATTTTTTATTTTTAAAAATATAAA
65 TGTTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAATTTTTTATTTTTAAAAATATAAA
*
19461426 CTTTCTCTTTTTTAATG
130 CTTTCT-TTTTTTAAAG
* * * * *
19461443 AAAGTCACTTCTTT-CTTAAAAATCTAAACTTTTATTTCGAAATAATTAAAAAAATCAAAATTTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* *
19461507 GTTTAAAAATTTAAAC--TTTTC--TAAAA-AAC----AGA-TTTTTATTTTTAAAAATCTAAAC
66 GTTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAATTTTTTATTTTTAAAAATATAAAC
19461562 TTTCTCTTTTTTAAAG
131 TTTCT-TTTTTTAAAG
** * * * * * *
19461578 AAAATCGTTATTTTACTTAAAAATTAAAGCTTTTATTTCTAAATTGTTTAAAAAAACCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG-TTAAAAAAATCAAAACTT
19461643 T
65 T
19461644 TCCCAAAATC
Statistics
Matches: 308, Mismatches: 35, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
135 46 0.15
136 27 0.09
137 17 0.06
140 3 0.01
141 5 0.02
143 5 0.02
144 31 0.10
145 32 0.10
146 18 0.06
147 26 0.08
148 2 0.01
149 21 0.07
150 74 0.24
151 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.42
Consensus pattern (145 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
GTTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAATTTTTTATTTTTAAAAATATAAAC
TTTCTTTTTTTAAAG
Found at i:19461393 original size:52 final size:51
Alignment explanation
Indices: 19461173--19461393 Score: 118
Period size: 52 Copynumber: 4.4 Consensus size: 51
19461163 TTCAAAATCA
** * *
19461173 AAACTTTTATTTCGAAATAGTTAGAAAAAATCAAAACTTTGTTTAAAAATTT
1 AAACTTTT-TTTTAAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
* * **** *
19461225 AAACTTTTTTCTTTAAAATCA-CTAAAAACATATTTTTA-TTT-TTT-AAAATAT
1 AAAC-TTTTT-TTTAAAAT-AGTTAAAAA-AAATCAAAACTTTATTTAAAAATTT
* * * ** * **
19461276 AAACTTTCTTTTT----T-TTTAAAGAAAATCAATACTCCACTTAAAAATCA
1 AAACTTT-TTTTTAAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
**
19461323 AAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
1 AAACTTTT-TTTTAAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
19461375 AAACTTTTTCTTTAAAATA
1 AAACTTTTT-TTTAAAATA
19461394 ACTACAAAAT
Statistics
Matches: 121, Mismatches: 32, Indels: 32
0.65 0.17 0.17
Matches are distributed among these distances:
44 5 0.04
45 6 0.05
46 4 0.03
47 15 0.12
50 6 0.05
51 14 0.12
52 48 0.40
53 18 0.15
54 5 0.04
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (51 bp):
AAACTTTTTTTTAAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTT
Found at i:19462641 original size:42 final size:42
Alignment explanation
Indices: 19462542--19463061 Score: 690
Period size: 42 Copynumber: 12.5 Consensus size: 42
19462532 TTTATGCCTA
* * *
19462542 GGCCTCTAAATGCAATAAAAAGTAAATGGGCCTCTACA-CTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* ** * *
19462583 GGCTTCTAAATATAATGAAAAGTAAATGGACCTCCTCACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * * *
19462625 GGTCTCTAAATGTAATGCAAAGTAAATGGTCCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * * *
19462667 GACCTCTAAATACAATGAAAAGTAAATGGGCCTCCACATCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
*
19462709 GGCCTCTAAATGCAAT-AAACAGTAAATAGG-CCTCCACACCTC
1 GGCCTCTAAATGCAATGAAA-AGTAAAT-GGACCTCCACACCTG
* * *
19462751 GGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCATACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
19462793 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCATACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
19462835 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
19462877 GGCCTATAAATGCAATGAAAAGTAAATGGACCTCCACACGTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
19462919 GCCCTCTGAATGCAATGAAAAGTAAATGGACCTCCACACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
19462961 TGCCTCTAAATACAATGAAAAGTAAATGGGCCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
19463003 GGCCTCTGAATGCGATGAAAAGTAAATAGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
19463045 GGCCTCT--ATGCAATGAA
1 GGCCTCTAAATGCAATGAA
19463062 TGTTTTCCTT
Statistics
Matches: 420, Mismatches: 54, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
40 9 0.02
41 35 0.08
42 371 0.88
43 5 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (42 bp):
GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
Found at i:19463494 original size:18 final size:18
Alignment explanation
Indices: 19463471--19463508 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19463461 TCTTTCTATT
19463471 TTTTTTTCT-TTTTTCTTC
1 TTTTTTTCTATTTTT-TTC
*
19463489 TTTTTTTGTATTTTTTTC
1 TTTTTTTCTATTTTTTTC
19463507 TT
1 TT
19463509 GGTTTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (18 bp):
TTTTTTTCTATTTTTTTC
Found at i:19463495 original size:21 final size:22
Alignment explanation
Indices: 19463464--19463508 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
19463454 TACTCTCTCT
*
19463464 TTCTATTTTTT-TTTCTTTTTTC
1 TTCTATTTTTTGTAT-TTTTTTC
19463486 TTCT-TTTTTTGTATTTTTTTC
1 TTCTATTTTTTGTATTTTTTTC
19463507 TT
1 TT
19463509 GGTTTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (22 bp):
TTCTATTTTTTGTATTTTTTTC
Found at i:19475434 original size:6 final size:6
Alignment explanation
Indices: 19475409--19475453 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
19475399 ACAATTCATA
* * *
19475409 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
19475454 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:19477542 original size:15 final size:14
Alignment explanation
Indices: 19477503--19477553 Score: 63
Period size: 11 Copynumber: 3.7 Consensus size: 14
19477493 CAGCAAATGA
19477503 TTTAAAATT--AA-
1 TTTAAAATTAAAAT
19477514 TTTAAAATTAAAAT
1 TTTAAAATTAAAAT
19477528 TTTAAAATATAAAAT
1 TTTAAAAT-TAAAAT
19477543 TATTAAAATTA
1 T-TTAAAATTA
19477554 TTATATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.26
13 2 0.06
14 8 0.23
15 9 0.26
16 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAAAATTAAAAT
Found at i:19477550 original size:16 final size:15
Alignment explanation
Indices: 19477504--19477553 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 15
19477494 AGCAAATGAT
19477504 TTAAAATTAATTTAAAA
1 TTAAAATT-A-TTAAAA
19477521 TTAAAATT-TTAAAA
1 TTAAAATTATTAAAA
19477535 TATAAAATTATTAAAA
1 T-TAAAATTATTAAAA
19477551 TTA
1 TTA
19477554 TTATATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 7 0.23
17 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAAATTATTAAAA
Found at i:19477551 original size:9 final size:9
Alignment explanation
Indices: 19477520--19477596 Score: 57
Period size: 9 Copynumber: 9.7 Consensus size: 9
19477510 TTAATTTAAA
19477520 ATTAAAATT
1 ATTAAAATT
19477529 -TTAAAA-T
1 ATTAAAATT
19477536 A-TAAAATT
1 ATTAAAATT
19477544 ATTAAAATT
1 ATTAAAATT
*
19477553 ATT-ATATT
1 ATTAAAATT
19477561 ATT----TT
1 ATTAAAATT
* *
19477566 TTTGAAA-T
1 ATTAAAATT
19477574 A-TAAAATT
1 ATTAAAATT
19477582 ATTAAAATT
1 ATTAAAATT
19477591 ATTAAA
1 ATTAAA
19477597 TAATTTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
5 4 0.07
7 10 0.18
8 18 0.33
9 23 0.42
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
ATTAAAATT
Found at i:19477579 original size:38 final size:38
Alignment explanation
Indices: 19477527--19477603 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
19477517 AAAATTAAAA
* *
19477527 TTTTAAAATATAAAATTATTAAAATTATTATATTATTT
1 TTTTAAAATATAAAATTATTAAAATTATTAAATAATTT
*
19477565 TTTTGAAATATAAAATTATTAAAATTATTAAATAATTT
1 TTTTAAAATATAAAATTATTAAAATTATTAAATAATTT
19477603 T
1 T
19477604 AATCTCATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (38 bp):
TTTTAAAATATAAAATTATTAAAATTATTAAATAATTT
Found at i:19478285 original size:96 final size:96
Alignment explanation
Indices: 19478137--19478324 Score: 286
Period size: 96 Copynumber: 2.0 Consensus size: 96
19478127 GAAAAAAACG
* * * * *
19478137 AGATGACTGTTCAATTCATCATGTTTGAGTTCACTATCAAAACTTTACTACAAAAATTAAAATCC
1 AGATGACTGTTCAATTCACCATGTCTGAATCCACCATCAAAACTTTACTACAAAAATTAAAATCC
*
19478202 ATCAAAAATAAGGAAAAAAGAAACCCAGAAA
66 ATCAAAAACAAGGAAAAAAGAAACCCAGAAA
* * *
19478233 AGATGATTGTTCAATTCACCATGTCTGAATCCACCATTAAAACTTTACTACAAAAATTAAAATTC
1 AGATGACTGTTCAATTCACCATGTCTGAATCCACCATCAAAACTTTACTACAAAAATTAAAATCC
*
19478298 ATCAAAAACAGGGAAAAAAGAAACCCA
66 ATCAAAAACAAGGAAAAAAGAAACCCA
19478325 TAAACTAAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.24
Consensus pattern (96 bp):
AGATGACTGTTCAATTCACCATGTCTGAATCCACCATCAAAACTTTACTACAAAAATTAAAATCC
ATCAAAAACAAGGAAAAAAGAAACCCAGAAA
Found at i:19478659 original size:37 final size:37
Alignment explanation
Indices: 19478609--19478684 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
19478599 AGATAAGATT
* *
19478609 AAAATTATTTAATAATTTTAATAATTTTATATTTCAA
1 AAAATAATATAATAATTTTAATAATTTTATATTTCAA
* * * *
19478646 AAAATAATATAATATTTTTAATATTTTTATGTTTTAA
1 AAAATAATATAATAATTTTAATAATTTTATATTTCAA
19478683 AA
1 AA
19478685 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
AAAATAATATAATAATTTTAATAATTTTATATTTCAA
Found at i:19479448 original size:236 final size:235
Alignment explanation
Indices: 19479030--19479500 Score: 702
Period size: 236 Copynumber: 2.0 Consensus size: 235
19479020 TAAAAAATGC
* *
19479030 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAATTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTGAAAACTTAAATT
* * *
19479095 AGAGATTTTTACTCATAATAAGAACCTTAAAGGATATCTAAATAATTCTAATAAAATACTTTCAA
66 AGAGATTTTTACTCATAACAAGAACCTTAAAAGATATCTAAATAATTCTAATAAAATACCTTCAA
19479160 TTCTTAAAATTAATTCTATTTTAGATAAAAAGAACGTAAAAAAATTACTAATGAATTAAGAAAAA
131 TTCTTAAAATTAATTCTATTTTAGATAAAAAGAACGT-AAAAAATTACTAATGAATTAAGAAAAA
*
19479225 TATTAAAATTTATCTACAACTTATT-GAATCTTTTATCATTA
195 TATTAAAATTCATCTACAACTTATTCG-ATCTTTTATCATTA
* *
19479266 CTCCGATTTACTTGTAACTTGACTAGGACGTGTTCACCAAACTTATCTAATTGAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTGAAAACTTAAATT
* * *
19479331 AGAGATTTTTACTTC-TAACGAGAATCTTAAAAGATA-CTTAAATAATTCTAGTAAAATACCTTC
66 AGAGATTTTTAC-TCATAACAAGAACCTTAAAAGATATC-TAAATAATTCTAATAAAATACCTTC
* *
19479394 AATTCTTAAAATTAATTCTATTTTAGAATCCTAAAAA-ATC-T-AAAAGTTACTAATGAATTAAG
129 AATTCTTAAAATTAATTCTATTTTAG-A---TAAAAAGAACGTAAAAAATTACTAATGAATTAAG
*
19479456 AGAAATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATT
190 AAAAATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATT
19479501 TTTATGATTT
Statistics
Matches: 214, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
235 1 0.00
236 200 0.93
237 4 0.02
238 1 0.00
239 2 0.01
240 6 0.03
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (235 bp):
CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTGAAAACTTAAATT
AGAGATTTTTACTCATAACAAGAACCTTAAAAGATATCTAAATAATTCTAATAAAATACCTTCAA
TTCTTAAAATTAATTCTATTTTAGATAAAAAGAACGTAAAAAATTACTAATGAATTAAGAAAAAT
ATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTA
Found at i:19482872 original size:51 final size:49
Alignment explanation
Indices: 19482819--19483002 Score: 130
Period size: 50 Copynumber: 3.7 Consensus size: 49
19482809 GAAATAGTTA
19482819 AAAAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAATTAACT
1 AAAAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAATTAA-T
* ** * * *
19482869 AAAAAAT-AGATTTTTATTTTAAAAATATAAACTTTCTCCTTT--TTTAAT
1 AAAAAATCAAAACTTTA-TTTAAAAATTTAAACTTT-TTCTTTAAATTAAT
* ** * * *
19482917 GAAAAA-CACTACTTT-CTTAAAAATCTAAACTTTTAT-TTCGAAA-TAATT
1 AAAAAATCAAAACTTTATTTAAAAATTTAAACTTTT-TCTT-TAAATTAA-T
*
19482965 AAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTT
1 --AAAAAATCAAAACTTTATTTAAAAATTTAAACTTTT
19483003 CTAAAAAAAC
Statistics
Matches: 101, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
45 3 0.03
46 16 0.16
47 3 0.03
48 11 0.11
49 10 0.10
50 29 0.29
51 12 0.12
52 17 0.17
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (49 bp):
AAAAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAATTAAT
Found at i:19482991 original size:148 final size:148
Alignment explanation
Indices: 19482695--19483119 Score: 527
Period size: 148 Copynumber: 2.9 Consensus size: 148
19482685 AAAAAAATCA
* *
19482695 AAACTTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTCAAAAATCTTAACTTTCTTTT
1 AAAC-TTTTTCTTT-AAAT-ACTAAAAAACAGATTTTTATTTTT-AAAAATCTAAACTTTC-TCT
* *
19482760 TTTTTTAAT-AAAAATCACTACTTTACTTAAAAATCTAAACTTATATTTCGAAATAGTT-AAAAA
61 TTTTTTAATGAAAAA-CACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAATTAAAAAA
19482823 AATCAAAACTTTATTTAAAAATTT
125 AATCAAAACTTTATTTAAAAATTT
* * *
19482847 AAACTTTTTCTTTAAATTAACTAAAAAATAGATTTTTA-TTTTAAAAATATAAACTTTCTCCTTT
1 AAACTTTTTCTTTAAA-T-ACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTT
19482911 TTTAATGAAAAACACTACTTT-CTTAAAAATCTAAACTTTTATTTCGAAATAATTAAAAAAAATC
64 TTTAATGAAAAACACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAATTAAAAAAAATC
*
19482975 AAAACTTTGTTTAAAAATTT
129 AAAACTTTATTTAAAAATTT
19482995 AAAC-TTTTC------TA--AAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTT
1 AAACTTTTTCTTTAAATACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTT
* ** * ** *
19483051 TAAAGAAAGTCACTATTTTACTTAAAAATC-AAAGCTTTTATTTCGAAATTGTTTAAAAAAAACC
66 TAATGAAAAACACTACTTTACTTAAAAATCTAAA-CTTTTATTTCGAAA-TAATTAAAAAAAATC
19483115 AAAAC
129 AAAAC
19483120 ATTTCCCAAA
Statistics
Matches: 247, Mismatches: 19, Indels: 26
0.85 0.07 0.09
Matches are distributed among these distances:
137 15 0.06
138 44 0.18
139 25 0.10
140 18 0.07
147 36 0.15
148 51 0.21
149 19 0.08
150 7 0.03
151 28 0.11
152 4 0.02
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (148 bp):
AAACTTTTTCTTTAAATACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTT
TAATGAAAAACACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAATTAAAAAAAATCAA
AACTTTATTTAAAAATTT
Found at i:19483038 original size:138 final size:139
Alignment explanation
Indices: 19482869--19483119 Score: 373
Period size: 138 Copynumber: 1.8 Consensus size: 139
19482859 TAAATTAACT
* *
19482869 AAAAAATAGATTTTTATTTTAAAAATATAAACTTTCTCCTTTTTTAATGAAAAACACTACTTT-C
1 AAAAAACAGATTTTTATTTTAAAAATATAAACTTTCTCCTTTTTTAAAGAAAAACACTACTTTAC
*
19482933 TTAAAAATCTAAA-CTTTTATTTCGAAA-TAATTAAAAAAAATCAAAACTTTGTTTAAAAATTTA
66 TTAAAAATC-AAAGCTTTTATTTCGAAATTAATTAAAAAAAACCAAAACTTTGTTTAAAAATTTA
19482996 AACTTTTCTA
130 AACTTTTCTA
* * ** *
19483006 AAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTAAAGAAAGTCACTATTTTA
1 AAAAAACAGATTTTTA-TTTTAAAAATATAAACTTTCTCCTTTTTTAAAGAAAAACACTACTTTA
**
19483071 CTTAAAAATCAAAGCTTTTATTTCGAAATTGTTTAAAAAAAACCAAAAC
65 CTTAAAAATCAAAGCTTTTATTTCGAAATTAATTAAAAAAAACCAAAAC
19483120 ATTTCCCAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
137 15 0.15
138 44 0.44
139 24 0.24
140 17 0.17
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.40
Consensus pattern (139 bp):
AAAAAACAGATTTTTATTTTAAAAATATAAACTTTCTCCTTTTTTAAAGAAAAACACTACTTTAC
TTAAAAATCAAAGCTTTTATTTCGAAATTAATTAAAAAAAACCAAAACTTTGTTTAAAAATTTAA
ACTTTTCTA
Found at i:19483549 original size:3 final size:3
Alignment explanation
Indices: 19483541--19483571 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19483531 CATGAAACCC
19483541 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
19483572 TTGGGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19484449 original size:41 final size:43
Alignment explanation
Indices: 19484253--19484475 Score: 274
Period size: 43 Copynumber: 5.3 Consensus size: 43
19484243 TCACTTGGCG
19484253 TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
1 TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
* *
19484296 TAAATGGAAGACTCATGTCTCAGGATAAGCATGAGATTATGTA
1 TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
* * *
19484339 TAAATGAAAGACTCATGTCTCGGGATGAGCATGAGATTATGTA
1 TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
* * *
19484382 TAAATGGAAGACTCGTGACTC-GAAATGAGCATGGGATTATGT-
1 TAAATGGAAGACTCGTGTCTCAG-GATGAGCATGAGATTATGTA
* * ** * * *
19484424 TTAA-GGAAGACTCGTGACTCAAAATGAGCATAAGATTATTTT
1 TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
19484466 TAAA-GGAAGA
1 TAAATGGAAGA
19484476 TTTATGACTT
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
41 32 0.20
42 13 0.08
43 116 0.72
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAATGGAAGACTCGTGTCTCAGGATGAGCATGAGATTATGTA
Found at i:19487527 original size:21 final size:21
Alignment explanation
Indices: 19487498--19487551 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
19487488 GGAGTTTCTA
*
19487498 GTATTGGTAGAAG-CATGACTT
1 GTATCGGTAGAAGTCAT-ACTT
* *
19487519 GTATCGGTAAAAGTTATACTT
1 GTATCGGTAGAAGTCATACTT
*
19487540 GTATCAGTAGAA
1 GTATCGGTAGAA
19487552 CTAGCACAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACTT
Found at i:19488655 original size:18 final size:17
Alignment explanation
Indices: 19488625--19488659 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
19488615 TTGACTACTC
19488625 AATAAAAAATAAAATAA
1 AATAAAAAATAAAATAA
19488642 AATAAAATAATAAAATAA
1 AATAAAA-AATAAAATAA
19488660 TAGAATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAAAAATAAAATAA
Found at i:19491829 original size:43 final size:43
Alignment explanation
Indices: 19491776--19491978 Score: 257
Period size: 43 Copynumber: 4.8 Consensus size: 43
19491766 GCGTAAATAA
*
19491776 AAGACTCATGTCTCGGGATAAGCATGAGATTATGTATAAATGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
19491819 AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
* *
19491862 AAGACTCATGTCTCGAGACGAGCATGAGATTATGTATAAATGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
* * *** * * *
19491905 AAGACTCGTGACTCCAAATGAGCATGGGATTATCTTTAAA--G
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
* * **
19491946 AAGACTCGTGACTCGAAATGAGCATGAGATTAT
1 AAGACTCATGTCTCGGGATGAGCATGAGATTAT
19491979 TTTTAAAGGG
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 32 0.22
43 115 0.78
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (43 bp):
AAGACTCATGTCTCGGGATGAGCATGAGATTATGTATAAATGG
Found at i:19491926 original size:86 final size:84
Alignment explanation
Indices: 19491776--19492001 Score: 265
Period size: 86 Copynumber: 2.7 Consensus size: 84
19491766 GCGTAAATAA
* * * ***
19491776 AAGACTCATGTCTCGGGATAAGCATGAGATTATGTATAAATGGAAGACTCATGTCTCGGGATGAG
1 AAGACTCATGTCTCGAGATGAGCATGAGATTATGTATAAATGGAAGACTCATGACTCCAAATGAG
*
19491841 CATGAGATTATGTATAAATGG
66 CATGAGATTATCTATAAA--G
* *
19491862 AAGACTCATGTCTCGAGACGAGCATGAGATTATGTATAAATGGAAGACTCGTGACTCCAAATGAG
1 AAGACTCATGTCTCGAGATGAGCATGAGATTATGTATAAATGGAAGACTCATGACTCCAAATGAG
* *
19491927 CATGGGATTATCTTTAAAG
66 CATGAGATTATCTATAAAG
* * * * * * *
19491946 AAGACTCGTGACTCGAAATGAGCATGAGATTATTTTTAAA-GGGAGACTTATGACTC
1 AAGACTCATGTCTCGAGATGAGCATGAGATTATGTATAAATGGAAGACTCATGACTC
19492002 GATAGAGCAT
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
83 13 0.11
84 35 0.29
86 72 0.60
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (84 bp):
AAGACTCATGTCTCGAGATGAGCATGAGATTATGTATAAATGGAAGACTCATGACTCCAAATGAG
CATGAGATTATCTATAAAG
Found at i:19491957 original size:41 final size:42
Alignment explanation
Indices: 19491796--19492032 Score: 235
Period size: 43 Copynumber: 5.6 Consensus size: 42
19491786 TCTCGGGATA
* * **
19491796 AGCATGAGATTATGTATAAATGGAAGACTCATGTCTCGGGATG
1 AGCATGAGATTATGTATAAA-GGAAGACTCGTGACTCGAAATG
* * * *
19491839 AGCATGAGATTATGTATAAATGGAAGACTCATGTCTCGAGACG
1 AGCATGAGATTATGTATAAA-GGAAGACTCGTGACTCGAAATG
*
19491882 AGCATGAGATTATGTATAAATGGAAGACTCGTGACTCCAAATG
1 AGCATGAGATTATGTATAAA-GGAAGACTCGTGACTCGAAATG
* * *
19491925 AGCATGGGATTATCTTTAAA-GAAGACTCGTGACTCGAAATG
1 AGCATGAGATTATGTATAAAGGAAGACTCGTGACTCGAAATG
* * * ** *
19491966 AGCATGAGATTATTTTTAAAGGGAGACTTATGACTCGATA-G
1 AGCATGAGATTATGTATAAAGGAAGACTCGTGACTCGAAATG
* * * *
19492007 AGCATAAGATTGTTTAAAAAGGAAGA
1 AGCATGAGATTATGTATAAAGGAAGA
19492033 TTTACGACTC
Statistics
Matches: 171, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 60 0.35
42 15 0.09
43 96 0.56
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (42 bp):
AGCATGAGATTATGTATAAAGGAAGACTCGTGACTCGAAATG
Found at i:19492042 original size:41 final size:42
Alignment explanation
Indices: 19491955--19492045 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
19491945 GAAGACTCGT
* * ** * *
19491955 GACTCGAAATGAGCATGAGATTATTTTTAAAGGGAGACTTAT
1 GACTCGATATGAGCATAAGATTATTTAAAAAGGAAGACTTAC
* *
19491997 GACTCGATA-GAGCATAAGATTGTTTAAAAAGGAAGATTTAC
1 GACTCGATATGAGCATAAGATTATTTAAAAAGGAAGACTTAC
19492038 GACTCGAT
1 GACTCGAT
19492046 TGTTAAATGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 33 0.80
42 8 0.20
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (42 bp):
GACTCGATATGAGCATAAGATTATTTAAAAAGGAAGACTTAC
Found at i:19492652 original size:21 final size:21
Alignment explanation
Indices: 19492628--19492679 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
19492618 AGTTTCTAGC
19492628 ATCGGTAGAAG-CATGACTTGT
1 ATCGGTAGAAGTCAT-ACTTGT
* *
19492649 ATCGGTATAAGTTATACTTGT
1 ATCGGTAGAAGTCATACTTGT
19492670 ATCGGTAGAA
1 ATCGGTAGAA
19492680 CTAGCACAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
ATCGGTAGAAGTCATACTTGT
Found at i:19495500 original size:23 final size:25
Alignment explanation
Indices: 19495474--19495519 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19495464 CCAATTAGAG
19495474 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
19495497 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
19495520 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:19504427 original size:15 final size:14
Alignment explanation
Indices: 19504407--19504437 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
19504397 TCAAGCCAAA
19504407 TACATTTATTATTAT
1 TACATTTATT-TTAT
19504422 TACATTTATTTTAT
1 TACATTTATTTTAT
19504436 TA
1 TA
19504438 GTTATATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (14 bp):
TACATTTATTTTAT
Found at i:19508719 original size:109 final size:111
Alignment explanation
Indices: 19508497--19508719 Score: 243
Period size: 109 Copynumber: 2.0 Consensus size: 111
19508487 ATGTACAATG
* * * * *
19508497 AAATGGAATGGAATCAGAAAACACGAAATGGAACATACAAAGAGCAAATACTTGAAAGCAATGAA
1 AAATGAAATGGAAACAGAAAACACGAAACGGAACATACAAAGACCAAACACTTGAAAGCAATGAA
* * **** *
19508562 CTAGAAAACCCGAAAAACTCACTCCATTTAGTGGATGGAAAATGCA
66 ATAGAAAACCCGAAAAACTCACTCCATTCAACCCATGGAAAATACA
* * * * *
19508608 AAATGAAATGGAAACAGAAAACA-GCAACGGAACTTATAAAGACCAGACACTTGAAAGCAGTGAA
1 AAATGAAATGGAAACAGAAAACACGAAACGGAACATACAAAGACCAAACACTTGAAAGCAATGAA
* * * *
19508672 AT-GGAAACCCGGAAAAGTTACTCCATTCAACCCATGGAAAATACA
66 ATAGAAAACCCGAAAAACTCACTCCATTCAACCCATGGAAAATACA
19508717 AAA
1 AAA
19508720 CGTAAAATGA
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
109 36 0.40
110 34 0.37
111 21 0.23
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.15
Consensus pattern (111 bp):
AAATGAAATGGAAACAGAAAACACGAAACGGAACATACAAAGACCAAACACTTGAAAGCAATGAA
ATAGAAAACCCGAAAAACTCACTCCATTCAACCCATGGAAAATACA
Found at i:19508892 original size:115 final size:115
Alignment explanation
Indices: 19508600--19509041 Score: 341
Period size: 115 Copynumber: 3.8 Consensus size: 115
19508590 TAGTGGATGG
* * *
19508600 AAAATGCAAAATGAAATGGAAACAGAAAACA-GCAACGGAACTTATAAAGACCAGACACTTGAAA
1 AAAATGTAAAATGAAATGGAAACAGAAAACACG-AACAGAACTCATAAAGACCAGACACTTGAAA
* * * * * ** *
19508664 GCAGTGAAATGGAAACCCGGAAAA-GTTACTCCATTCAACCCATGGAAAATAC
65 GAACTGAAAAGGAAA-CCTGAAAACGTCACTCCATTCAA-TGATGGAAAATGC
* * * * * * * * * *
19508716 AAAACGTAAAATGAAATGG-GATAGAAGATACGATCGGACCTTATAAAGACCAGACAATTGAAAG
1 AAAATGTAAAATGAAATGGAAACAGAAAACACGAACAGAACTCATAAAGACCAGACACTTGAAAG
*
19508780 AACTGAAAAGGAAACCTGAAAACGTCAGTCCATTCAATGGATGGAAAATGC
66 AACTGAAAAGGAAACCTGAAAACGTCACTCCATTCAAT-GATGGAAAATGC
* * * **
19508831 AAAATGTATAATGAAATGGAAACAGAAAACATGAACAGAACTCAT-AGGACCAGATGCTTGAAAT
1 AAAATGTAAAATGAAATGGAAACAGAAAACACGAACAGAACTCATAAAGACCAGACACTTGAAA-
* * *
19508895 CG-AC--AAAATGAAAAACCTGAAAAAC-TCACTCCACTGAACTGATGGAAAATGC
65 -GAACTGAAAA-G-GAAACCTG-AAAACGTCACTCCATTCAA-TGATGGAAAATGC
* * * * * *
19508947 -AAATGT-ACATGAAATGGAAAACAAAAAACACGATCAAAACTCTTAAAGACCAGATACTTTGAA
1 AAAATGTAAAATGAAATGG-AAACAGAAAACACGAACAGAACTCATAAAGACCAGACAC-TTGAA
*
19509010 AGCAA-TGACAAGGAAACCTGAAAAAC-TCACTC
64 AG-AACTGAAAAGGAAACCTG-AAAACGTCACTC
19509042 TGATCAAGAG
Statistics
Matches: 261, Mismatches: 48, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
114 20 0.08
115 129 0.49
116 94 0.36
117 15 0.06
118 3 0.01
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (115 bp):
AAAATGTAAAATGAAATGGAAACAGAAAACACGAACAGAACTCATAAAGACCAGACACTTGAAAG
AACTGAAAAGGAAACCTGAAAACGTCACTCCATTCAATGATGGAAAATGC
Found at i:19509027 original size:116 final size:116
Alignment explanation
Indices: 19508451--19509041 Score: 336
Period size: 115 Copynumber: 5.1 Consensus size: 116
19508441 GAAAACCCAA
* * * * * * *
19508451 AAAAACTCGCACCATTCAATGAATAGAAAATGCAAAATGTACAATGAAATGGAATGGAATCAGAA
1 AAAAACTCACTCCACTCAATGGATGGAAAATGCAAAATGTATAATGAAATGG-A---AA-CAAAA
* * * * * * *
19508516 AACACGAA-ATGGAACAT-ACAAAGAGCAAATACTTGAAAGCAATGAACTAGAAAACCCG
61 AACACGAACA--AAAC-TCATAAAGACCAGATACTTGAAAGCAATGAA-AAGGAAACCTG
* * * *
19508574 AAAAACTCACTCCATTTAGTGGATGGAAAATGC---A---A-AATGAAATGGAAACAGAAAACA-
1 AAAAACTCACTCCACTCAATGGATGGAAAATGCAAAATGTATAATGAAATGGAAACAAAAAACAC
** * * * * *
19508631 GCAACGGAACTTATAAAGACCAGACACTTGAAAGCAGTGAAATGGAAACCCG
66 G-AACAAAACTCATAAAGACCAGATACTTGAAAGCAATGAAAAGGAAACCTG
* * * * *** * * * * * * * *
19508683 GAAAAGTTACTCCATTCAACCCATGGAAAATACAAAACGTAAAATGAAATGG-GATAGAAGATAC
1 AAAAACTCACTCCACTCAATGGATGGAAAATGCAAAATGTATAATGAAATGGAAACAAAAAACAC
* ** * * * *
19508747 GATCGGACCTTATAAAGACCAGACAATTGAAAG-AACTGAAAAGGAAACCTG
66 GAACAAAACTCATAAAGACCAGATACTTGAAAGCAA-TGAAAAGGAAACCTG
* * *
19508798 -AAAACGTCAGTCCATTCAATGGATGGAAAATGCAAAATGTATAATGAAATGGAAACAGAAAACA
1 AAAAAC-TCACTCCACTCAATGGATGGAAAATGCAAAATGTATAATGAAATGGAAACAAAAAACA
* * * * * * * *
19508862 TGAACAGAACTCAT-AGGACCAGATGCTTGAAATCGA-CAAAATGAAAAACCTG
65 CGAACAAAACTCATAAAGACCAGATACTTGAAAGCAATGAAAA-G-GAAACCTG
* *
19508914 AAAAACTCACTCCACTGAACT-GATGGAAAATGC-AAATGTA-CATGAAATGGAAAACAAAAAAC
1 AAAAACTCACTCCACTCAA-TGGATGGAAAATGCAAAATGTATAATGAAATGG-AAACAAAAAAC
* * *
19508976 ACGATCAAAACTCTTAAAGACCAGATACTTTGAAAGCAATGACAAGGAAACCTG
64 ACGAACAAAACTCATAAAGACCAGATAC-TTGAAAGCAATGAAAAGGAAACCTG
19509030 AAAAACTCACTC
1 AAAAACTCACTC
19509042 TGATCAAGAG
Statistics
Matches: 369, Mismatches: 76, Indels: 53
0.74 0.15 0.11
Matches are distributed among these distances:
109 33 0.09
110 29 0.08
111 11 0.03
112 3 0.01
114 18 0.05
115 132 0.36
116 96 0.26
117 16 0.04
118 3 0.01
120 1 0.00
123 27 0.07
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (116 bp):
AAAAACTCACTCCACTCAATGGATGGAAAATGCAAAATGTATAATGAAATGGAAACAAAAAACAC
GAACAAAACTCATAAAGACCAGATACTTGAAAGCAATGAAAAGGAAACCTG
Found at i:19514221 original size:49 final size:49
Alignment explanation
Indices: 19514164--19514265 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
19514154 CTTTAGTTAA
19514164 GATGGGTGCACAAAATAGGATAAAATTAAGAAGATGGTAATATGGCTAT
1 GATGGGTGCACAAAATAGGATAAAATTAAGAAGATGGTAATATGGCTAT
19514213 GATGGGTGCACAAAATAGGATAAAATTAAGAAGATGGTAATATGGCTAT
1 GATGGGTGCACAAAATAGGATAAAATTAAGAAGATGGTAATATGGCTAT
19514262 GATG
1 GATG
19514266 TAGGTAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.25
Consensus pattern (49 bp):
GATGGGTGCACAAAATAGGATAAAATTAAGAAGATGGTAATATGGCTAT
Found at i:19517100 original size:75 final size:75
Alignment explanation
Indices: 19517008--19517155 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
19516998 CTCAAAAGAG
* * * * * *
19517008 TTTGTGCCTAGAGCTAGTCAGATAAACTAACAATATTAATT-GTGAACCCAGCTCTAGTTGGATA
1 TTTGTGCCCAAAGCTAGTCAGATAAACTAACAATATT-ATTAATGAACCCAACTCTAGCTGAATA
19517072 AACCAACGATA
65 AACCAACGATA
* * * * *
19517083 TTTGTGCCCAAAGCTAGTCGGATAAATTGACGATATTATTAATGAGCCCAACTCTAGCTGAATAA
1 TTTGTGCCCAAAGCTAGTCAGATAAACTAACAATATTATTAATGAACCCAACTCTAGCTGAATAA
19517148 ACCAACGA
66 ACCAACGA
19517156 AAATGTGCCC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 3 0.05
75 58 0.95
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (75 bp):
TTTGTGCCCAAAGCTAGTCAGATAAACTAACAATATTATTAATGAACCCAACTCTAGCTGAATAA
ACCAACGATA
Found at i:19525598 original size:16 final size:17
Alignment explanation
Indices: 19525574--19525613 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19525564 ATTGTTAGTA
*
19525574 TTGTTAATGCAA-TAAG
1 TTGTCAATGCAAGTAAG
19525590 TTGTCAATGCAAGTTAAG
1 TTGTCAATGCAAG-TAAG
19525608 TTGTCA
1 TTGTCA
19525614 GAGCAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (17 bp):
TTGTCAATGCAAGTAAG
Found at i:19527365 original size:16 final size:15
Alignment explanation
Indices: 19527334--19527383 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
19527324 TTTATCATAA
19527334 TTTT-TTTTTCTTCT
1 TTTTCTTTTTCTTCT
19527348 TTTTCTTTTTCTTCCT
1 TTTTCTTTTTCTT-CT
*
19527364 TTTTCTCATTT-TTCT
1 TTTTCT-TTTTCTTCT
19527379 TTTTC
1 TTTTC
19527384 AAGTGACTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.12
15 15 0.47
16 10 0.31
17 3 0.09
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:19530143 original size:16 final size:17
Alignment explanation
Indices: 19530122--19530158 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
19530112 GTTAGTACTA
19530122 TCAATGCAA-TAAGTTG
1 TCAATGCAAGTAAGTTG
19530138 TCAATGCAAGTTAAGTTG
1 TCAATGCAAG-TAAGTTG
19530156 TCA
1 TCA
19530159 GAGCAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (17 bp):
TCAATGCAAGTAAGTTG
Found at i:19531889 original size:15 final size:15
Alignment explanation
Indices: 19531869--19531917 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
19531859 TTTATCATAA
19531869 TTCTTTTTCTTCTTT
1 TTCTTTTTCTTCTTT
19531884 TTCTTTTTCTTCCTTT
1 TTCTTTTTCTT-CTTT
*
19531900 TTCTCATTT-TTCTTT
1 TTCT-TTTTCTTCTTT
19531915 TTC
1 TTC
19531918 AAGTAACTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 18 0.58
16 10 0.32
17 3 0.10
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTTTCTTCTTT
Found at i:19541588 original size:21 final size:21
Alignment explanation
Indices: 19541539--19541590 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
19541529 TGATCTAATA
* *
19541539 CGACGAGAAGGTAGCTACTTG
1 CGACGAGAAGGCAACTACTTG
*
19541560 CGATGAGAAGGCAACTACTT-
1 CGACGAGAAGGCAACTACTTG
19541580 CTGACGAGAAG
1 C-GACGAGAAG
19541591 TGTCTAAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (21 bp):
CGACGAGAAGGCAACTACTTG
Found at i:19547515 original size:51 final size:50
Alignment explanation
Indices: 19547438--19547539 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 50
19547428 TTTAAAAATT
*
19547438 ACGGTGTGAAGCATCGTATGACAACCACATATCATCTGTAAACAAATGGCC
1 ACGGTGTGAAGCATCGCATGACAACCACATAT-ATCTGTAAACAAATGGCC
*
19547489 ACGGTGTGAAGCATCGCATGGA-AACCACTTATATCTGTAAACAAATGGCC
1 ACGGTGTGAAGCATCGCAT-GACAACCACATATATCTGTAAACAAATGGCC
19547539 A
1 A
19547540 AACTGAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
50 19 0.40
51 27 0.56
52 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (50 bp):
ACGGTGTGAAGCATCGCATGACAACCACATATATCTGTAAACAAATGGCC
Found at i:19549971 original size:3 final size:3
Alignment explanation
Indices: 19549965--19550012 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
19549955 GGAAGAGGAG
*
19549965 GAA GAA G-A GAA GAGA GAA GAA GCAA G-A GAA AAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GA-A GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA
19550010 GAA
1 GAA
19550013 TTTGTTACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19549985 original size:15 final size:15
Alignment explanation
Indices: 19549965--19550012 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
19549955 GGAAGAGGAG
19549965 GAAGAAGAGAAGAGA
1 GAAGAAGAGAAGAGA
*
19549980 GAAGAAG-CAAGAGA
1 GAAGAAGAGAAGAGA
19549994 -AA-AAGAAGAAGA-A
1 GAAGAAG-AGAAGAGA
19550007 GAAGAA
1 GAAGAA
19550013 TTTGTTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 12 0.44
15 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAGAAGAGAAGAGA
Found at i:19551065 original size:22 final size:23
Alignment explanation
Indices: 19551024--19551067 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19551014 AAAAAAGGAG
*
19551024 AGAAAGAAAATAAATTTATAAAA
1 AGAAAGAAAATAAATATATAAAA
*
19551047 AGAAA-AAAATACATATATAAA
1 AGAAAGAAAATAAATATATAAA
19551068 TATGTATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
AGAAAGAAAATAAATATATAAAA
Found at i:19551777 original size:564 final size:564
Alignment explanation
Indices: 19550709--19551830 Score: 2172
Period size: 564 Copynumber: 2.0 Consensus size: 564
19550699 TTGTATCCTT
19550709 CTATTTTTGGATGAATGGTTAAAATTGCATTAGTAATAAATGAGTAGTATCATTATTAATTAACT
1 CTATTTTTGGATGAATGGTTAAAATTGCATTAGTAATAAATGAGTAGTATCATTATTAATTAACT
19550774 GACCATTTGCAGCTATGTATATAATTATATCTACTAATAAAAGACACTCCAATATGAGTGCATTG
66 GACCATTTGCAGCTATGTATATAATTATATCTACTAATAAAAGACACTCCAATATGAGTGCATTG
19550839 TGACTTATCAAAGGGGAACACTCCAATGCAAGTGTTAGAAAAATCATCTAGCCAAAGGCTGTCAC
131 TGACTTATCAAAGGGGAACACTCCAATGCAAGTGTTAGAAAAATCATCTAGCCAAAGGCTGTCAC
*
19550904 TACAAGAGTGTGTGTTGGTGCAATTACATACTCCTTGGGGATTTGTTGCACCCCATCATTACTAC
196 TACAAGAGTGTGTGTTGGTGCAATTACATACTCCCTGGGGATTTGTTGCACCCCATCATTACTAC
* *
19550969 CCAGAAACAAGGATATAGTAATGCAATGACATCTCTTAGTCACATAAAAAAGGAGAGAAAGAAAA
261 CCAGAAAAAAGGATATAGGAATGCAATGACATCTCTTAGTCACATAAAAAAGGAGAGAAAGAAAA
19551034 TAAATTTATAAAAAGAAAAAAATACATATATAAATATGTATAGAATAATAAATGCTGTATTGGTT
326 TAAATTTATAAAAAGAAAAAAATACATATATAAATATGTATAGAATAATAAATGCTGTATTGGTT
*
19551099 AAGAGGATTTAAGATTTAAAGCATGATGCTAGCAGTAGTGAAGTTGCAGTTTTTACTATTCATAC
391 AAGAGGATTTAAGATTTAAAGCATGATGCTAGCACTAGTGAAGTTGCAGTTTTTACTATTCATAC
19551164 CTATAAATTGTCGACGCAATCTTCTATCATATGAGTGTAATTTATACATTAGGATCCCAAAGAAT
456 CTATAAATTGTCGACGCAATCTTCTATCATATGAGTGTAATTTATACATTAGGATCCCAAAGAAT
*
19551229 TTAAGTTGCTAGAATGATTATTGCACTGACAAGAATTTAAGTTG
521 TTAAGTTGCTAGAATGATTATTCCACTGACAAGAATTTAAGTTG
19551273 CTATTTTTGGATGAATGGTTAAAATTGCATTAGTAATAAATGAGTAGTATCATTATTAATTAACT
1 CTATTTTTGGATGAATGGTTAAAATTGCATTAGTAATAAATGAGTAGTATCATTATTAATTAACT
19551338 GACCATTTGCAGCTATGTATATAATTATATCTACTAATAAAAGACACTCCAATATGAGTGCATTG
66 GACCATTTGCAGCTATGTATATAATTATATCTACTAATAAAAGACACTCCAATATGAGTGCATTG
*
19551403 TGACTTATCAAGGGGGAACACTCCAATGCAAGTGTTAGAAAAATCATCTAGCCAAAGGCTGTCAC
131 TGACTTATCAAAGGGGAACACTCCAATGCAAGTGTTAGAAAAATCATCTAGCCAAAGGCTGTCAC
19551468 TACAAGAGTGTGTGTTGGTGCAATTACATACTCCCTGGGGATTTGTTGCACCCCATCATTACTAC
196 TACAAGAGTGTGTGTTGGTGCAATTACATACTCCCTGGGGATTTGTTGCACCCCATCATTACTAC
19551533 CCAGAAAAAAGGATATAGGAATGCAATGACATCTCTTAGTCACATAAAAAAGGAGAGAAAGAAAA
261 CCAGAAAAAAGGATATAGGAATGCAATGACATCTCTTAGTCACATAAAAAAGGAGAGAAAGAAAA
* *
19551598 TAAATTTATAAAAAGAAAAAAATACATATATATATATGTATAGAATAATAAATGTTGTATTGGTT
326 TAAATTTATAAAAAGAAAAAAATACATATATAAATATGTATAGAATAATAAATGCTGTATTGGTT
19551663 AAGAGGATTTAAGATTTAAAGCATGATGCTAGCACTAGTGAAGTTGCAGTTTTTACTATTCATAC
391 AAGAGGATTTAAGATTTAAAGCATGATGCTAGCACTAGTGAAGTTGCAGTTTTTACTATTCATAC
19551728 CTATAAATTGTCGACGCAATCTTCTATCATATGAGTGTAATTTATACATTAGGATCCCAAAGAAT
456 CTATAAATTGTCGACGCAATCTTCTATCATATGAGTGTAATTTATACATTAGGATCCCAAAGAAT
19551793 TTAAGTTGCTAGAATGATTATTCCACTGACAAGAATTT
521 TTAAGTTGCTAGAATGATTATTCCACTGACAAGAATTT
19551831 TGATATGACT
Statistics
Matches: 550, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
564 550 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (564 bp):
CTATTTTTGGATGAATGGTTAAAATTGCATTAGTAATAAATGAGTAGTATCATTATTAATTAACT
GACCATTTGCAGCTATGTATATAATTATATCTACTAATAAAAGACACTCCAATATGAGTGCATTG
TGACTTATCAAAGGGGAACACTCCAATGCAAGTGTTAGAAAAATCATCTAGCCAAAGGCTGTCAC
TACAAGAGTGTGTGTTGGTGCAATTACATACTCCCTGGGGATTTGTTGCACCCCATCATTACTAC
CCAGAAAAAAGGATATAGGAATGCAATGACATCTCTTAGTCACATAAAAAAGGAGAGAAAGAAAA
TAAATTTATAAAAAGAAAAAAATACATATATAAATATGTATAGAATAATAAATGCTGTATTGGTT
AAGAGGATTTAAGATTTAAAGCATGATGCTAGCACTAGTGAAGTTGCAGTTTTTACTATTCATAC
CTATAAATTGTCGACGCAATCTTCTATCATATGAGTGTAATTTATACATTAGGATCCCAAAGAAT
TTAAGTTGCTAGAATGATTATTCCACTGACAAGAATTTAAGTTG
Found at i:19575333 original size:7 final size:7
Alignment explanation
Indices: 19575321--19575355 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
19575311 ATTTAAATAT
19575321 TCAACAC
1 TCAACAC
19575328 TCAACAC
1 TCAACAC
19575335 TCAACAC
1 TCAACAC
19575342 TCAACAC
1 TCAACAC
19575349 TCAACAC
1 TCAACAC
19575356 ATTTGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
TCAACAC
Found at i:19576660 original size:21 final size:23
Alignment explanation
Indices: 19576634--19576679 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
19576624 ATGTCTCGAT
19576634 GGCAAGGCAAAGAA-AGAGA-AA
1 GGCAAGGCAAAGAAGAGAGATAA
* *
19576655 GGCAAGTCGAAGAAGAGAGATAA
1 GGCAAGGCAAAGAAGAGAGATAA
19576678 GG
1 GG
19576680 AATCCCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.50, C:0.09, G:0.37, T:0.04
Consensus pattern (23 bp):
GGCAAGGCAAAGAAGAGAGATAA
Found at i:19583336 original size:34 final size:35
Alignment explanation
Indices: 19583247--19583336 Score: 85
Period size: 35 Copynumber: 2.6 Consensus size: 35
19583237 TTAATTATGA
* * *
19583247 GCCCAGCTCTAGTTAGATAAACCAACGATATTTGC
1 GCCCAGCACTAGTCAGATAAACCAACGATATGTGC
* ** * *
19583282 ACCCAGGGCTAGTCTA-ATAAACCGACGA-ATGTGT
1 GCCCAGCACTAGTC-AGATAAACCAACGATATGTGC
19583316 GCCCAGCACTAGTCAGATAAA
1 GCCCAGCACTAGTCAGATAAA
19583337 TTGACGATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
33 1 0.02
34 20 0.47
35 21 0.49
36 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (35 bp):
GCCCAGCACTAGTCAGATAAACCAACGATATGTGC
Found at i:19596062 original size:19 final size:19
Alignment explanation
Indices: 19596051--19596085 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
19596041 GAATTAAAAC
19596051 AAATAAATTGAAATAAATA
1 AAATAAATTGAAATAAATA
19596070 AAATAAA-T-AAATAAAT
1 AAATAAATTGAAATAAAT
19596086 TGAATCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATAAATTGAAATAAATA
Found at i:19596079 original size:13 final size:14
Alignment explanation
Indices: 19596051--19596089 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
19596041 GAATTAAAAC
*
19596051 AAATAAATTGAAAT
1 AAATAAAATGAAAT
19596065 AAATAAAAT-AAAT
1 AAATAAAATGAAAT
*
19596078 AAATAAATTGAA
1 AAATAAAATGAA
19596090 TCTATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:19616432 original size:14 final size:14
Alignment explanation
Indices: 19616415--19616452 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
19616405 TAATTTTGTT
19616415 TTAGTCAAATAAGC
1 TTAGTCAAATAAGC
19616429 TTAGTCAAATAAGC
1 TTAGTCAAATAAGC
19616443 TTAGTCAAAT
1 TTAGTCAAAT
19616453 TTTGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
TTAGTCAAATAAGC
Found at i:19618484 original size:18 final size:18
Alignment explanation
Indices: 19618434--19618485 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
19618424 CAAAACCAAA
19618434 AGAAAGGAAGAGAAAGCGC
1 AGAAAGGAAGA-AAAGCGC
***
19618453 TCCAAGGATA-AAAAGCGC
1 AGAAAGGA-AGAAAAGCGC
19618471 AGAAAGGAAGAAAAG
1 AGAAAGGAAGAAAAG
19618486 AAGAGAAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
17 1 0.04
18 17 0.68
19 6 0.24
20 1 0.04
ACGTcount: A:0.54, C:0.12, G:0.31, T:0.04
Consensus pattern (18 bp):
AGAAAGGAAGAAAAGCGC
Found at i:19618626 original size:17 final size:17
Alignment explanation
Indices: 19618604--19618636 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19618594 TATTAGTGTA
*
19618604 CATTGTCATTGCATTTC
1 CATTGTCATTACATTTC
19618621 CATTGTCATTACATTT
1 CATTGTCATTACATTT
19618637 TAGTGTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (17 bp):
CATTGTCATTACATTTC
Found at i:19626315 original size:17 final size:17
Alignment explanation
Indices: 19626289--19626322 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19626279 CACTAACACT
*
19626289 AAAATGCAATGACAATG
1 AAAATACAATGACAATG
19626306 AAAATACAATGACAATG
1 AAAATACAATGACAATG
19626323 CTTACTAACA
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:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATACAATGACAATG
Found at i:19628767 original size:38 final size:38
Alignment explanation
Indices: 19628687--19628775 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
19628677 CTGAACATCG
* * ** ***
19628687 TCATGCAGTGACAATTTTGGGCGCAATTCTGGATATTG
1 TCATGCAGTGACAATTCTGGGCACAATTCTAAATAGAC
*
19628725 TCATGTAGTGACAATTCTGGGCACAATTCTAAATAGAC
1 TCATGCAGTGACAATTCTGGGCACAATTCTAAATAGAC
*
19628763 TCATGCAGCGACA
1 TCATGCAGTGACA
19628776 TTAGTAGTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (38 bp):
TCATGCAGTGACAATTCTGGGCACAATTCTAAATAGAC
Found at i:19631244 original size:10 final size:9
Alignment explanation
Indices: 19631207--19631240 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
19631197 AGTTATTGAA
*
19631207 TAAAATGTG
1 TAAAAAGTG
19631216 TAAAAAGTG
1 TAAAAAGTG
19631225 TAAAAAGTG
1 TAAAAAGTG
19631234 TAAAAAG
1 TAAAAAG
19631241 GTGTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (9 bp):
TAAAAAGTG
Found at i:19646300 original size:30 final size:30
Alignment explanation
Indices: 19646228--19646302 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
19646218 ATAATTCCCA
*
19646228 ATATCTCGTTCAAGAACTTGAGAAGACTCG
1 ATATCTCGTTCAGGAACTTGAGAAGACTCG
* * *
19646258 ATATCTCATTCAGGAGCTTGGGAAGACTCG
1 ATATCTCGTTCAGGAACTTGAGAAGACTCG
19646288 ATATCTCGTTCAGGA
1 ATATCTCGTTCAGGA
19646303 TCTTCAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (30 bp):
ATATCTCGTTCAGGAACTTGAGAAGACTCG
Found at i:19655276 original size:79 final size:80
Alignment explanation
Indices: 19655148--19655839 Score: 769
Period size: 79 Copynumber: 8.8 Consensus size: 80
19655138 GTTTGTAAAT
* * * * * *
19655148 AGAAATT-AATTGAATAATTTTATTTCAGGA-TTTATTCCTTTCGTTCAACAGAATTTATTTGA-
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
*
19655210 TTTTTGTTTCCAAAC
66 TTTCTGTTTCCAAAC
* * * *
19655225 AAAAATTAAATTGAGCAATTCTGTTTCAGGATTTTATTCCTGGT-GTTCAACAAAATTTATTCGA
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCT-GTCGTTCAACAGAATTTATTCGA
*
19655289 GTTTCTATTTCCAAAC
65 GTTTCTGTTTCCAAAC
* * * * ** * * *
19655305 AGAAATT-AATTGAATAATTCTGTTTTAGGATTTTATCCCTACCGTTCTATAGAATTTA-TCTAA
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTC-GA
19655368 GTTTCTGTTTCCAAAC
65 GTTTCTGTTTCCAAAC
* * * * * * *
19655384 AAAAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCT-AA-AAAAATTATTCGAG
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
* * *
19655447 TTTCTATTTTCAAAT
66 TTTCTGTTTCCAAAC
* * *
19655462 AGAAATT-AATTAAACAATTATGTTTCAGGATTCTATTCCTGTCGTTTAACAGAATTTATTCGAG
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
** * *
19655526 TTTCCATTTTCGAAC
66 TTTCTGTTTCCAAAC
* * * * * *
19655541 AGGAATT-AATTGAACAATTCTG-TTCTAGGATTTTATTCTTGTTGTTCAACAAAATTTATTTGA
1 AGAAATTAAATTAAACAATTCTGTTTC-AGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGA
19655604 GTTTCTGTTTCCAAAC
65 GTTTCTGTTTCCAAAC
* * * * *
19655620 AGAAATTAAATTAAACAATTCTATTTTAGGATTTTATTCCTTTCGTTCAATAAAATTTATTCGAG
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
* *
19655685 TTTCTATTTTCAAAC
66 TTTCTGTTTCCAAAC
* **
19655700 AAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTACCGTTCAACAGAATTTATTCGAG
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
19655765 TTTCTGTTTCCAAAC
66 TTTCTGTTTCCAAAC
* *
19655780 AGAAA-TAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCCTTCAATAGAATTTATT
1 AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATT
19655840 TGATTTTTGT
Statistics
Matches: 514, Mismatches: 88, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
77 39 0.08
78 52 0.10
79 236 0.46
80 185 0.36
81 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (80 bp):
AGAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAGAATTTATTCGAG
TTTCTGTTTCCAAAC
Found at i:19655563 original size:236 final size:239
Alignment explanation
Indices: 19655150--19655838 Score: 854
Period size: 236 Copynumber: 2.9 Consensus size: 239
19655140 TTGTAAATAG
* * * * * * * * * *
19655150 AAATT-AATTGAATAATTTTATTTCAGGA-TTTATTCCTTTCGTTCAACAGAATTTATTTGA-TT
1 AAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCTCAATAAAAATTATTCGAGTT
* * * * *
19655212 TTTGTTTCCAAACAAAAATTAAATTGAGCAATTCTGTTTCAGGATTTTATTCCTGGT-GTTCAAC
66 TCTATTTTCAAACAAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCT-GTCGTTCAAC
* *
19655276 AAAATTTATTCGAGTTTCTATTTCCAAACAGAAATTAATTGAATAATTCTGTTTTAGGATTTTAT
130 AGAATTTATTCGAGTTTCTATTTCCAAACAGAAATTAATTGAACAATTCTGTTTTAGGATTTTAT
* *
19655341 CCCTACCGTTCTATAGAATTTATCTAAGTTTCTGTTTCCAAACAA
195 TCCTACCGTTCAATAGAATTTATCTAAGTTTCTGTTTCCAAACAA
19655386 AAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCT-AA-AAAAATTATTCGAGTT
1 AAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCTCAATAAAAATTATTCGAGTT
* * * * *
19655449 TCTATTTTCAAATAGAAATT-AATTAAACAATTATGTTTCAGGATTCTATTCCTGTCGTTTAACA
66 TCTATTTTCAAACAAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACA
* * * * *
19655513 GAATTTATTCGAGTTTCCATTTTCGAACAGGAATTAATTGAACAATTCTGTTCTAGGATTTTATT
131 GAATTTATTCGAGTTTCTATTTCCAAACAGAAATTAATTGAACAATTCTGTTTTAGGATTTTATT
* *** * * * * *
19655578 CTTGTTGTTCAACAAAATTTATTTGAGTTTCTGTTTCCAAACAG
196 CCTACCGTTCAATAGAATTTATCTAAGTTTCTGTTTCCAAACAA
* * * * *
19655622 AAATTAAATTAAACAATTCTATTTTAGGATTTTATTCCTTTCGTTCAATAAAATTTATTCGAGTT
1 AAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCTCAATAAAAATTATTCGAGTT
**
19655687 TCTATTTTCAAACAAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTACCGTTCAACA
66 TCTATTTTCAAACAAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACA
* * * *
19655752 GAATTTATTCGAGTTTCTGTTTCCAAACAGAAATAAATTAAACAATTCTGTTTCAGGATTTTATT
131 GAATTTATTCGAGTTTCTATTTCCAAACAGAAATTAATTGAACAATTCTGTTTTAGGATTTTATT
*
19655817 CCTGTCC-TTCAATAGAATTTAT
196 CCT-ACCGTTCAATAGAATTTAT
19655839 TTGATTTTTG
Statistics
Matches: 381, Mismatches: 64, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
235 2 0.01
236 183 0.48
237 40 0.10
238 46 0.12
239 110 0.29
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (239 bp):
AAATTAAATTAAACAATTCTATTTCAAGATTTTATTCCTATCGCTCAATAAAAATTATTCGAGTT
TCTATTTTCAAACAAAAATTAAATTAAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACA
GAATTTATTCGAGTTTCTATTTCCAAACAGAAATTAATTGAACAATTCTGTTTTAGGATTTTATT
CCTACCGTTCAATAGAATTTATCTAAGTTTCTGTTTCCAAACAA
Found at i:19662477 original size:16 final size:17
Alignment explanation
Indices: 19662441--19662480 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
19662431 GGAGGTATGG
*
19662441 CGATGATAAGTGTGTGA
1 CGATGATAAGTGTGCGA
*
19662458 CGATGATAGGTG-GCGA
1 CGATGATAAGTGTGCGA
19662474 CGATGAT
1 CGATGAT
19662481 CGACGTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.28, C:0.10, G:0.38, T:0.25
Consensus pattern (17 bp):
CGATGATAAGTGTGCGA
Found at i:19662921 original size:13 final size:13
Alignment explanation
Indices: 19662897--19662921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19662887 ATTAAAAAAC
19662897 AACAATAAAAATG
1 AACAATAAAAATG
19662910 AACAATAAAAAT
1 AACAATAAAAAT
19662922 TTCGAAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (13 bp):
AACAATAAAAATG
Done.