Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 68 of 290
Found at i:20585721 original size:65 final size:65
Alignment explanation
Indices: 20585603--20585872 Score: 174
Period size: 65 Copynumber: 4.1 Consensus size: 65
20585593 CTATCGAATG
** * * * *
20585603 TGAAAAGGAAAGGTATACCTTGTGTATACCACATG-AAAAG-ACTATGTGCACTTTGTGTGTACA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAATATAT--ACTTTGTGTGTACA
20585666 CT
64 CT
* *
20585668 TGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAATATATACTTTGTGTATAC-CA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAATATATACTTTGTGTGTACAC-
20585732 T
65 T
* * * ** * * * *
20585733 ACGAAAAGG-AATGGTATACTTTGTGTATACCACT-TGAAAAGGAAAGGTACACTATATGAGTAC
1 -TGAAAAGGTTA-GGTATACTTTGTGTATACCA-TATGAAAAAGAAATATATACTTTGTGTGTAC
20585796 ACT
63 ACT
* ** * * * * ** * *
20585799 TGAAAAGGTTATGTGCACTTTGTGTGTA-CAAATTGGAAAGGGTATGTACACTTTGTGTGTACCA
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATA-TGAAAAAGAAATATATACTTTGTGTGTA-CA
20585863 CT
64 CT
20585865 TGAAAAGG
1 TGAAAAGG
20585873 GAATGTGCAC
Statistics
Matches: 161, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
64 3 0.02
65 85 0.53
66 66 0.41
67 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (65 bp):
TGAAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAATATATACTTTGTGTGTACACT
Found at i:20585839 original size:33 final size:33
Alignment explanation
Indices: 20585798--20585904 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 33
20585788 ATGAGTACAC
*
20585798 TTGAAAAGGTTATGTGCACTTTGTGTGTACAAA
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
* * * *
20585831 TTGGAAAGGGTATGTACACTTTGTGTGTACCAC
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
* * * *
20585864 TTGAAAAGGGAATGTGCACCTTGAGTGTACAAC
1 TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
*
20585897 TAGAAAAG
1 TTGAAAAG
20585905 AAAAGGTCCA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (33 bp):
TTGAAAAGGGTATGTGCACTTTGTGTGTACAAA
Found at i:20585870 original size:131 final size:131
Alignment explanation
Indices: 20585603--20585877 Score: 286
Period size: 131 Copynumber: 2.1 Consensus size: 131
20585593 CTATCGAATG
* * * * * * *
20585603 TGAAAAGGAAAGGTATACCTTGTGTATACCACATGAAAAGACTATGTGCACTTTGTGTGTACACT
1 TGAAAAGGAATGGTATACCTTGTGTATACCACATGAAAAGACAAGGTACACTATATGAGTACACT
* * * *
20585668 TGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAAGAAATATATACTTTGTGTATACCAT
66 TGAAAAGGTTAGGTACACTTTGTGTATACAATATGAAAAAGAAATATACACTTTGTGTATACCAT
20585733 A
131 A
* * *
20585734 CGAAAAGGAATGGTATACTTTGTGTATACCACTTGAAAAGGA-AAGGTACACTATATGAGTACAC
1 TGAAAAGGAATGGTATACCTTGTGTATACCACATGAAAA-GACAAGGTACACTATATGAGTACAC
* * * * * ** * *
20585798 TTGAAAAGGTTATGTGCACTTTGTGTGTACAA-ATTGGAAAGGGTATGTACACTTTGTGTGTACC
65 TTGAAAAGGTTAGGTACACTTTGTGTATACAATA-TGAAAAAGAAATATACACTTTGTGTATACC
20585862 ACT-
129 A-TA
20585865 TGAAAAGGGAATG
1 TGAAAA-GGAATG
20585878 TGCACCTTGA
Statistics
Matches: 116, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
130 1 0.01
131 106 0.91
132 9 0.08
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (131 bp):
TGAAAAGGAATGGTATACCTTGTGTATACCACATGAAAAGACAAGGTACACTATATGAGTACACT
TGAAAAGGTTAGGTACACTTTGTGTATACAATATGAAAAAGAAATATACACTTTGTGTATACCAT
A
Found at i:20589267 original size:46 final size:46
Alignment explanation
Indices: 20589215--20589350 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
20589205 GCTCTCTAAT
* *
20589215 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
20589261 ATGAAATGTGTAAGACCATGGTTGAAAAATACGATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
20589307 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
20589351 TCAAAGATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 78 0.99
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:20589660 original size:17 final size:16
Alignment explanation
Indices: 20589632--20589664 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
20589622 TGATGGTGCA
20589632 TGAAATATTGATATAT
1 TGAAATATTGATATAT
20589648 TGAAATGATTGATATAT
1 TGAAAT-ATTGATATAT
20589665 ACTTGTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
TGAAATATTGATATAT
Found at i:20591935 original size:47 final size:46
Alignment explanation
Indices: 20591806--20591942 Score: 154
Period size: 46 Copynumber: 3.0 Consensus size: 46
20591796 TACCATAATC
** * *
20591806 TCAA-CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTG-T
1 TCAATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCT
* *
20591850 TCAAATCCATAATGAATTCAGAACACAACTCAACGAGTTCGGATGCT
1 TC-AATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCT
* *
20591897 TGC-ATCCATAGTTGAACTCAGAACGCAACTCAATGAGTTCGGATGC
1 T-CAATCCATA-ATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
20591943 CTCATAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 40 0.51
47 33 0.42
48 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (46 bp):
TCAATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCT
Found at i:20594948 original size:6 final size:6
Alignment explanation
Indices: 20594920--20594987 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
20594910 AAAGAATAAC
* * *
20594920 AAGATG AAGAT- AATGTTG GAGATG AAGATG AAGATG AAAATGG AAG-TG
1 AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGAT-G AAGATG
* *
20594968 GAGATG GAGATG AAGATG AA
1 AAGATG AAGATG AAGATG AA
20594988 TGACAATGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.10
6 41 0.82
7 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (6 bp):
AAGATG
Found at i:20595625 original size:13 final size:13
Alignment explanation
Indices: 20595589--20595626 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20595579 TATATATATT
*
20595589 TAAAAAATTTATA
1 TAAAAAATTAATA
*
20595602 TAATAAA-TAATA
1 TAAAAAATTAATA
20595614 TAAAAAATTAATA
1 TAAAAAATTAATA
20595627 CGGACTGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:20598248 original size:29 final size:31
Alignment explanation
Indices: 20598194--20598259 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
20598184 AAATTTACCG
*
20598194 TATATTTTTTAATATAATATAAAAAA-TATT
1 TATAATTTTTAATATAATATAAAAAATTATT
* **
20598224 TGTAATTTTT-ATATAATATTTAAAATTATT
1 TATAATTTTTAATATAATATAAAAAATTATT
20598254 TATAAT
1 TATAAT
20598260 CTTTCTCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
TATAATTTTTAATATAATATAAAAAATTATT
Found at i:20603896 original size:16 final size:16
Alignment explanation
Indices: 20603875--20603909 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20603865 TGCCATGCTA
20603875 CATATATTACAGAATT
1 CATATATTACAGAATT
20603891 CATATATTACAGAATT
1 CATATATTACAGAATT
20603907 CAT
1 CAT
20603910 GTGAATCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (16 bp):
CATATATTACAGAATT
Found at i:20610506 original size:21 final size:21
Alignment explanation
Indices: 20610482--20610524 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20610472 ACCTTTTCTA
**
20610482 AAGTTAAAAGTTAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
20610503 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
20610524 A
1 A
20610525 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:20611215 original size:20 final size:19
Alignment explanation
Indices: 20611192--20611256 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
20611182 CAAAGATTAC
20611192 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAAT-AATTTT
20611212 AAAAA-TCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
20611230 AAAAAATCCAAAATATATATTT
1 -AAAAATTCAAAATA-AT-TTT
20611252 AAAAA
1 AAAAA
20611257 ATTATAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 12 0.32
20 11 0.29
21 5 0.13
22 3 0.08
23 2 0.05
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:20611262 original size:32 final size:30
Alignment explanation
Indices: 20611226--20611295 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 30
20611216 ATCAAAATAT
20611226 TTATAAAAAATCCAAAATATATATT-TAAAAAA
1 TTATAAAAAATCCAAAA-A-A-ATTCTAAAAAA
*
20611258 TTATAAAAAATTCAAAAAAATTCTAAAAAA
1 TTATAAAAAATCCAAAAAAATTCTAAAAAA
20611288 TATATAAA
1 T-TATAAA
20611296 GTAAGTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 3 0.09
30 9 0.26
31 7 0.20
32 16 0.46
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (30 bp):
TTATAAAAAATCCAAAAAAATTCTAAAAAA
Found at i:20611266 original size:10 final size:10
Alignment explanation
Indices: 20611251--20611295 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
20611241 AATATATATT
20611251 TAAAAAATTA
1 TAAAAAATTA
20611261 TAAAAAATTCA
1 TAAAAAATT-A
*
20611272 -AAAAAATTC
1 TAAAAAATTA
20611281 TAAAAAATATA
1 TAAAAAAT-TA
20611292 TAAA
1 TAAA
20611296 GTAAGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 24 0.80
11 6 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:20613281 original size:70 final size:70
Alignment explanation
Indices: 20613198--20613371 Score: 199
Period size: 70 Copynumber: 2.5 Consensus size: 70
20613188 ATAATTGGCC
* * * * * *
20613198 TACCGGAGACTACAAAATAAATCTCCA-CTTTTATAGTGATCTACTAGTCCAGTTAGCAATGTAC
1 TACCGGAGGCTACACAATATATCTCCATC-TTCATAGTGATATACTAGTCCAGTTAGCAATATAC
*
20613262 TTGCCT
65 ATGCCT
* * * * * *
20613268 TACCAGAGGCTACACAATATATTTCCATCTTCATAGTGATATGCTTGTTCGGTTAGCAATATACA
1 TACCGGAGGCTACACAATATATCTCCATCTTCATAGTGATATACTAGTCCAGTTAGCAATATACA
20613333 TGCCT
66 TGCCT
*
20613338 TACCGGAGGCTGCACAATATATCTCC-TCTTCATA
1 TACCGGAGGCTACACAATATATCTCCATCTTCATA
20613372 TTTATACATA
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
69 8 0.09
70 78 0.90
71 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (70 bp):
TACCGGAGGCTACACAATATATCTCCATCTTCATAGTGATATACTAGTCCAGTTAGCAATATACA
TGCCT
Found at i:20613670 original size:23 final size:23
Alignment explanation
Indices: 20613640--20613685 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20613630 ATAAGAATGA
*
20613640 TATACAAAATTTGGCTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
*
20613663 TATACAAAATTTAGTTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
20613686 CTCATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (23 bp):
TATACAAAATTTAGCTTTAGAGG
Found at i:20618676 original size:17 final size:17
Alignment explanation
Indices: 20618650--20618684 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20618640 GATAGTGTAT
*
20618650 ACTGAAACTGTAGTAAA
1 ACTGAAACTGTAGCAAA
*
20618667 ACTGAGACTGTAGCAAA
1 ACTGAAACTGTAGCAAA
20618684 A
1 A
20618685 TTGATTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (17 bp):
ACTGAAACTGTAGCAAA
Found at i:20620980 original size:564 final size:563
Alignment explanation
Indices: 20619899--20621028 Score: 1794
Period size: 564 Copynumber: 2.0 Consensus size: 563
20619889 GGCTGTGGTC
* * * * *
20619899 AGGCTAGGGGTGAAATGGTATGGGCCGTAGTCAGAGAGCATCGTGCAGAGGTGCTGGACAGGCTG
1 AGGCTAGGGGTGAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACTA
* * * * * *
20619964 AGGCAAGATAGTCTGTTCTTGTTTATGCTGCATGTCGCTGAGAGGACAAATATGCTCTGGATGTT
66 AGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACGTT
* * * *
20620029 ATCACCGGTATGTTCTTGATGTATGATGTACCTTACTTTGCTTTAGTAGACATAAGTTTCATAGA
131 AACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAGTTTCATAGA
* *
20620094 TTCCTATGTAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTGCTCCTAGAGAGG
196 TTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAGG
* *
20620159 TGAGTGTACTAAGTCCACTGAAGTAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTTA
261 TGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTTA
* *
20620224 GAGGTTCAAGCGTTGGTATTTCTGGCTAATCTGATGGTGCTTCTGTTTGGGGAGTTTGACTTGAT
326 GAGGTTCAAGCGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTGAT
* * * *
20620289 TCTGGGTATGGACTGGTTGGTCAAGCACCGTGTCACTTTGGATTGCGCGACTAAGAGGGTCATCT
391 TCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCATCT
*
20620354 TGAGAACTGAGGAGGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
456 TGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
* *
20620419 ATCTCTATACCGGTAGCTGAGAAACTAGTTCGTAAAGGATGTG
521 ATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
* * * *
20620462 AGGCTAGGGGTGGTAATGGTATGGGCTATGGTCAGAGAGCATCGGGCAGAAGTGCTGGATAGACT
1 AGGCTAGGGGT-GAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACT
* * *
20620527 AAGGCGAGACAGCCTGTTCTTGTTTATGCTGCACGTCATTGAAAGGACAGATATGCTCTGGACGT
65 AAGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACGT
* * * *
20620592 TAACGCCGATATGTTCTTGATTTATGATATACTTTACTTTGCTTTGGAAGACAT-AGATTTCATA
130 TAACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAG-TTTCATA
* *
20620656 GATTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTTCTAGTGA
194 GATTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGA
** *
20620721 GGTGAGAGTACTAAGTCCACTGGGGCAATTGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGT
259 GGTGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGT
*
20620786 TAGAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTG
324 TAGAGGTTCAAGCGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTG
* *
20620851 ATTCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCGT
389 ATTCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCAT
*
20620916 CTTGAGAACTGAGGAAGATAATGAGGTAGTCGTGATTGGAGAGCGTTGGAACTACTTGGCTAACG
454 CTTGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACG
*
20620981 TGATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
519 TGATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
20621026 AGG
1 AGG
20621029 TGTACTTGGC
Statistics
Matches: 516, Mismatches: 49, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
563 13 0.03
564 503 0.97
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (563 bp):
AGGCTAGGGGTGAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACTA
AGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACGTT
AACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAGTTTCATAGA
TTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAGG
TGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGTTA
GAGGTTCAAGCGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTGAT
TCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCATCT
TGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
ATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
Found at i:20623204 original size:19 final size:19
Alignment explanation
Indices: 20623180--20623222 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
20623170 GGTTAATTGG
20623180 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
20623199 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
20623218 AGAGG
1 AGAGG
20623223 ATGTTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (19 bp):
AGAGGGTGATTTAGATACT
Found at i:20626309 original size:25 final size:27
Alignment explanation
Indices: 20626272--20626324 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
20626262 TCAAACATGC
20626272 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
20626298 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
20626324 A
1 A
20626325 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:20627839 original size:26 final size:26
Alignment explanation
Indices: 20627809--20627890 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
20627799 TGAAATTCCC
20627809 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20627835 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20627861 ATCATGAAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
20627887 ATCA
1 ATCA
20627891 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20630951 original size:186 final size:186
Alignment explanation
Indices: 20630634--20630976 Score: 535
Period size: 186 Copynumber: 1.8 Consensus size: 186
20630624 GATGAATTTT
* * *
20630634 CTTGTGTTTAGATCCTAGACAAAAATTGAAATATATTAAATTTGCACTTAGTGAAATGTCTAGTG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
* * * *
20630699 CTGAAAAAGCTTGTGAAATGATGTAAAAGTTGAAATAAAATTTATATGAATTGTTTGATGAGTGT
66 CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
20630764 AAGCCTCCACTTCATAATGCTTGTAGCTAATCGGGTGTGTTTTCTTGTGTTTGTTG
131 AAGCCTCCACTTCATAATGCTTGTAGCTAATCGGGTGTGTTTTCTTGTGTTTGTTG
* * *
20630820 CTTGTGTTTAGTTCCTAGAAAAAAATTGAAGTATATTGAATTTGCACTTAATGAAATGTCTAATG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
** **
20630885 CTGAAAAAGCTTATGAAATGAT-TCAACGGTTGAAAGAAGTTTTACATGAATTGTTTGATAAGTG
66 CTGAAAAAGCTTATGAAATGATGT-AAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTG
*
20630949 TAAGCCTCCACTTCATAGTGCTTGTAGC
130 TAAGCCTCCACTTCATAATGCTTGTAGC
20630977 CAATTGAGTA
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
185 1 0.01
186 140 0.99
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (186 bp):
CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
AAGCCTCCACTTCATAATGCTTGTAGCTAATCGGGTGTGTTTTCTTGTGTTTGTTG
Found at i:20635454 original size:15 final size:14
Alignment explanation
Indices: 20635434--20635463 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
20635424 GGATTTATTA
20635434 TTTTTTTTTGGTTTG
1 TTTTTTTTT-GTTTG
20635449 TTTTTTTTTGTTTG
1 TTTTTTTTTGTTTG
20635463 T
1 T
20635464 AGTAGGTCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGTTTG
Found at i:20635724 original size:44 final size:44
Alignment explanation
Indices: 20635661--20636325 Score: 250
Period size: 44 Copynumber: 14.8 Consensus size: 44
20635651 TAATTTCAAC
*
20635661 CTACTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
*
20635705 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGT-TGTAGCTATAGT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA--TCT-T---TA-A-T
* * * * * *
20635756 TTATTCCACTGTAACTTCAGGGAGATAAGACTTGCTATATTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTTAAT
* * * **
20635801 CTACTCAACTGCAACTTCAGGGGGATAATATTTGTGGCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * * * *
20635845 ATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATG-ATGACTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATT-----TGTAT--CTTTAAT
* * * * * ** *
20635895 CCA-TCTTACTGCAACTTCAGAGG-TATAGGACTTGTCGCTTCAAT
1 CTACTC-CACTGCAACTTCAG-GGAGATAAGATTTGTATCTTTAAT
* * * * *
20635939 CTACTCCACTACAACTTCAGAGAGATAA-ATATG---CTTCACT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * * * * **** * *
20635979 ACAACTTCA-GGGAGA--TAAGATTCACAATGA--TG-A-CTTCAAT
1 -CTACTCCACTGCA-ACTTCAGGGAGATAA-GATTTGTATCTTTAAT
* * * * ** *
20636019 CCA-TCCTACTGCAACTTCAGAGG-TATAGGACTTGTCGCTTCAAT
1 CTACTCC-ACTGCAACTTCAG-GGAGATAAGATTTGTATCTTTAAT
* * *
20636063 CTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * *
20636107 CTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-TTTCGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTT-AAT
* * * * * * *
20636152 CTACTCCATTGCAACTTCAAGGAGATATGATCTATAGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * * *
20636196 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATATTTGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTTAAT
* * * * * *
20636241 CTATTCCATTGCAACTTCAAGGAGAAAAAATCTGTAACTTGTAGCTTTAAT
1 CTACTCCACTGCAACTTC-AGG-GAGATAA---G--ATTTGTATCTTTAAT
*
20636292 CTACTCTACTGCAACTTCAGGGAGATAAGATTTG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG
20636326 CCACGATAAC
Statistics
Matches: 454, Mismatches: 118, Indels: 98
0.68 0.18 0.15
Matches are distributed among these distances:
38 2 0.00
39 13 0.03
40 17 0.04
41 13 0.03
42 2 0.00
43 5 0.01
44 198 0.44
45 90 0.20
46 6 0.01
47 6 0.01
49 10 0.02
50 31 0.07
51 55 0.12
52 6 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
Found at i:20636062 original size:124 final size:124
Alignment explanation
Indices: 20635842--20636090 Score: 480
Period size: 124 Copynumber: 2.0 Consensus size: 124
20635832 TTGTGGCTTT
*
20635842 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCTTACTGC
1 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
20635907 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTACAACTTCAGAGAGATA
66 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTACAACTTCAGAGAGATA
20635966 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
1 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
*
20636031 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGAGAGATA
66 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTACAACTTCAGAGAGATA
20636090 A
1 A
20636091 GATTTGTAGC
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 123 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (124 bp):
AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTACAACTTCAGAGAGATA
Found at i:20636155 original size:45 final size:45
Alignment explanation
Indices: 20636012--20636326 Score: 266
Period size: 44 Copynumber: 6.9 Consensus size: 45
20636002 ACAATGATGA
* * * *
20636012 CTTCAATCCA-TCCTACTGCAACTTCAGAG-GTATAGGACTTG-TCG
1 CTTCAATCTACTCC-ACTGCAACTTCAGAGAG-ATAAGATTTGCTAG
20636056 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTG-TAG
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTAG
* *
20636100 CTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTAG
* * * * * *
20636145 TTTCGATCTACTCCATTGCAACTTCA-AGGAGATATGATCT-ATAG
1 CTTCAATCTACTCCACTGCAACTTCAGA-GAGATAAGATTTGCTAG
* *
20636189 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTAG
* ** * * * * *
20636234 ATTTGATCTATTCCATTGCAACTTCA-AGGAGAAAAAATCTGTAACTTGTAG
1 CTTCAATCTACTCCACTGCAACTTCAGA-GAGATAAGAT-T-T-GC---TAG
* * *
20636285 CTTTAATCTACTCTACTGCAACTTCAGGGAGATAAGATTTGC
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGC
20636327 CACGATAACT
Statistics
Matches: 216, Mismatches: 41, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
44 110 0.51
45 69 0.32
46 1 0.00
47 1 0.00
48 2 0.01
49 1 0.00
50 1 0.00
51 31 0.14
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCTAG
Found at i:20636177 original size:89 final size:89
Alignment explanation
Indices: 20636061--20636326 Score: 338
Period size: 89 Copynumber: 2.9 Consensus size: 89
20636051 TGTCGCTTCA
*
20636061 ATCTACTCCACTGCAACTTC-AGAGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTC
1 ATCTACTCCATTGCAACTTCAAG-GAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTC
20636125 AGAGAGATAAGATTTGCTAT-TTTCG
65 AGAGAGATAAGATTTGCTATATTT-G
* * * * *
20636150 ATCTACTCCATTGCAACTTCAAGGAGATATGATCTATAGCTTCAATCTGCTCCACTGCAACTTCA
1 ATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTCA
20636215 GAGAGATAAGATTTGCTATATTTG
66 GAGAGATAAGATTTGCTATATTTG
* * * *
20636239 ATCTATTCCATTGCAACTTCAAGGAGAAAAAATCTGTAACTTGTAGCTTTAATCTACTCTACTGC
1 ATCTACTCCATTGCAACTTCAAGGAG--ATAA---G--ATTTGTAGCTTCAATCTACTCTACTGC
*
20636304 AACTTCAGGGAGATAAGATTTGC
59 AACTTCAGAGAGATAAGATTTGC
20636327 CACGATAACT
Statistics
Matches: 152, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
89 101 0.66
90 5 0.03
91 2 0.01
94 1 0.01
96 43 0.28
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (89 bp):
ATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTCA
GAGAGATAAGATTTGCTATATTTG
Found at i:20648072 original size:3 final size:3
Alignment explanation
Indices: 20648046--20648095 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
20648036 GTACAATTTG
*
20648046 TAA TAA -AA TATA TAAA TGA TAA TAA TAA TAA TAGA TAA -AA TAA TAA
1 TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
20648092 TAA T
1 TAA T
20648096 GAGAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 4 0.10
3 28 0.70
4 7 0.17
5 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:20648089 original size:15 final size:16
Alignment explanation
Indices: 20648048--20648093 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
20648038 ACAATTTGTA
20648048 ATAAAATATATAA-ATG
1 ATAAAATA-ATAATATG
20648064 ATAATAATAATAATA-G
1 ATAA-AATAATAATATG
20648080 ATAAAATAATAATA
1 ATAAAATAATAATA
20648094 ATGAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAAAATAATAATATG
Found at i:20648106 original size:21 final size:18
Alignment explanation
Indices: 20648066--20648104 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
20648056 TATAAATGAT
*
20648066 AATAATAATAATAGATAA
1 AATAATAATAATAGAAAA
20648084 AATAATAATAATGAGAAAA
1 AATAATAATAAT-AGAAAA
20648103 AA
1 AA
20648105 AAGGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (18 bp):
AATAATAATAATAGAAAA
Found at i:20648135 original size:22 final size:24
Alignment explanation
Indices: 20648100--20648145 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
20648090 AATAATGAGA
20648100 AAAAAAAGGAAAAAACAAATAAAT
1 AAAAAAAGGAAAAAACAAATAAAT
20648124 AAAAAAA-G-AAAAACAAATAAAT
1 AAAAAAAGGAAAAAACAAATAAAT
20648146 GTATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (24 bp):
AAAAAAAGGAAAAAACAAATAAAT
Found at i:20649919 original size:14 final size:15
Alignment explanation
Indices: 20649893--20649922 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20649883 ATCGTTTATA
20649893 TATTATATTTTTTTC
1 TATTATATTTTTTTC
20649908 TATTAT-TTTTTTTC
1 TATTATATTTTTTTC
20649922 T
1 T
20649923 CTTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTATATTTTTTTC
Found at i:20655532 original size:33 final size:33
Alignment explanation
Indices: 20655495--20655565 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
20655485 TTTCCCCCAA
* * *
20655495 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
* *
20655528 TACTTAACCTGCTTATAGGGGCACCATCACTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
20655561 TACTT
1 TACTT
20655566 GGCCTGCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (33 bp):
TACTTAACCTGATTATAGAGGCACCATCACTGC
Found at i:20655572 original size:33 final size:32
Alignment explanation
Indices: 20655514--20655630 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 32
20655504 TGATTATTGA
**
20655514 GGCATCATCGCTGCTACTTAACCTGCTTATAGG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
* **
20655547 GGCACCATCACTGCTACTTGGCCTGCTTATTTG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
** * * *
20655580 AACATCATTCCTACTACTTGGGCTGCATATAGG
1 GGCATCA-TCCTGCTACTTGGCCTGCTTATAGG
20655613 GGCATCATCCCTGCTACT
1 GGCATCAT-CCTGCTACT
20655631 AGTCCGGATT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
32 1 0.02
33 62 0.95
34 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.31
Consensus pattern (32 bp):
GGCATCATCCTGCTACTTGGCCTGCTTATAGG
Found at i:20668177 original size:24 final size:25
Alignment explanation
Indices: 20668150--20668283 Score: 79
Period size: 23 Copynumber: 5.4 Consensus size: 25
20668140 ACATTTTAAA
20668150 ATTTTAAAT-ATAATAATA-AATAAT
1 ATTTTAAATAAT-ATAATATAATAAT
* *
20668174 A-TTTAAATAATTTAATATAATGAT
1 ATTTTAAATAATATAATATAATAAT
20668198 ATTTGTAAATAATAT--T-TAA-ACAT
1 ATTT-TAAATAATATAATATAATA-AT
*
20668221 -TTTTAGGAAAAATATAATAATAAATAAT
1 ATTTTA--AATAATATAAT-AT-AATAAT
* *
20668249 A-TTTAAATAATTTAATATAATGAT
1 ATTTTAAATAATATAATATAATAAT
**
20668273 ACATTAAATAA
1 ATTTTAAATAA
20668284 AAATTAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 29
0.69 0.07 0.23
Matches are distributed among these distances:
21 2 0.02
22 3 0.03
23 24 0.28
24 16 0.19
25 13 0.15
26 18 0.21
27 1 0.01
28 8 0.09
29 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (25 bp):
ATTTTAAATAATATAATATAATAAT
Found at i:20668207 original size:37 final size:37
Alignment explanation
Indices: 20668159--20668273 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
20668149 AATTTTAAAT
20668159 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
* ** * * *
20668196 ATATTTGTAAATAATATTTAAACATTTTTAGGA-AAAAT-
1 ATAATAATAAATAATATTTAAATA-ATTTA--ATATAATG
20668234 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
20668271 ATA
1 ATA
20668274 CATTAAATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 27 0.44
38 24 0.39
39 4 0.07
40 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (37 bp):
ATAATAATAAATAATATTTAAATAATTTAATATAATG
Found at i:20668311 original size:75 final size:75
Alignment explanation
Indices: 20668152--20668311 Score: 196
Period size: 75 Copynumber: 2.1 Consensus size: 75
20668142 ATTTTAAAAT
** * *
20668152 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATATTTGTAAATAATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
20668217 ACATTTTTAG
66 ACAAATTGAG
***
20668227 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
20668291 TATAAATTGAG
66 -ACAAATTGAG
*
20668302 TTTAGATATA
1 TTTAAATATA
20668312 CAAATACTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
74 12 0.17
75 57 0.83
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:20668854 original size:21 final size:21
Alignment explanation
Indices: 20668813--20668856 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20668803 TAAAAAATTC
* *
20668813 AAATCAAATATTAATATTTTA
1 AAATAAAATATTAATAATTTA
20668834 AAATAAAAT-TTAATAAATTTA
1 AAATAAAATATTAAT-AATTTA
20668855 AA
1 AA
20668857 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATAAAATATTAATAATTTA
Found at i:20668857 original size:20 final size:21
Alignment explanation
Indices: 20668807--20668857 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
20668797 CTTTAATAAA
* *
20668807 AAATTCAAATCAAATATTAAT
1 AAATTTAAATAAAATATTAAT
*
20668828 -ATTTTAAAATAAAAT-TTAAT
1 AAATTT-AAATAAAATATTAAT
20668848 AAATTTAAAT
1 AAATTTAAAT
20668858 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATTTAAATAAAATATTAAT
Found at i:20678598 original size:43 final size:44
Alignment explanation
Indices: 20678551--20678641 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
20678541 TTATATTAAT
* *
20678551 AAATTCAAAGGTTAGATTATTAAGATATTGA-T-AGAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATT-ATTAAAAAAATTATG
* * *
20678594 AAATTTAACGGTTAAATTATTATGATATTATTAAAAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATTATTAAAAAAATTATG
20678638 AAAT
1 AAAT
20678642 AATATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 26 0.63
44 14 0.34
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.37
Consensus pattern (44 bp):
AAATTCAAAGGTTAAATTATTAAGATATTATTAAAAAAATTATG
Found at i:20681374 original size:90 final size:89
Alignment explanation
Indices: 20681222--20681507 Score: 268
Period size: 81 Copynumber: 3.3 Consensus size: 89
20681212 CACACTTGGT
* * * * * * *
20681222 TGTGGATAAACCA-CAAAGTTGTAGGTTAATATGCTGCCAAATGGTTTTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
20681286 TGCAGATAAGAGCTGCCAAAATATG
66 TGCAGATAAGAGCTGCCAAAA-ATG
* *
20681311 TGTGGATGAACCACCAGTGTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
**
20681376 TGC---T----GCT-AAAAAAATG
66 TGCAGATAAGAGCTGCCAAAAATG
* * * * * * ** *
20681392 GGTGGGTGTACCA-CAAGTGTTGTAGGTTAATGCACTGCCAGATAGTTGTGAATATACAACATGT
1 TGTGGATGAACCACCAA-TGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATAT
* *
20681456 TTGCAGATAAGAACTGCCGGAAAAATT
65 TTGCAGATAAGAGCTGCC--AAAAATG
20681483 TGTGGATGAACCACCAATGTTGCAG
1 TGTGGATGAACCACCAATGTTGCAG
20681508 ATTATTAAAC
Statistics
Matches: 154, Mismatches: 30, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
80 2 0.01
81 57 0.37
82 4 0.03
83 3 0.02
84 1 0.01
87 1 0.01
88 2 0.01
89 12 0.08
90 46 0.30
91 23 0.15
92 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (89 bp):
TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
TGCAGATAAGAGCTGCCAAAAATG
Found at i:20691453 original size:24 final size:25
Alignment explanation
Indices: 20691416--20691467 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
20691406 CCTTGTTTCG
* *
20691416 TTTTCTATTATGTTCTCGTTTCTTTT
1 TTTTCTATTATGTT-TCATTTATTTT
20691442 TTTTCT-TT-TGTTTCATTTATTTT
1 TTTTCTATTATGTTTCATTTATTTT
20691465 TTT
1 TTT
20691468 ATTCTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 4 0.17
25 2 0.08
26 6 0.25
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTTCTATTATGTTTCATTTATTTT
Found at i:20691488 original size:5 final size:5
Alignment explanation
Indices: 20691478--20691545 Score: 136
Period size: 5 Copynumber: 13.6 Consensus size: 5
20691468 ATTCTTTTAT
20691478 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
20691528 TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TAT
20691546 TTACTTAAGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 63 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:20691586 original size:19 final size:19
Alignment explanation
Indices: 20691562--20691600 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20691552 AAGTAATAAG
20691562 TAAATAGA-TTATTATTATT
1 TAAATAGATTTATT-TTATT
*
20691581 TAAATATATTTATTTTATT
1 TAAATAGATTTATTTTATT
20691600 T
1 T
20691601 TAGCACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TAAATAGATTTATTTTATT
Found at i:20698178 original size:42 final size:43
Alignment explanation
Indices: 20698131--20698231 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 43
20698121 TTTTGTGTGA
* * * *
20698131 AAGACCATGTCTGGGACATTGCCGTCG-TATCTGATTTCGTGT
1 AAGACCATGTCTGGGACAGTGCCATCGATATCTGATTACATGT
* * * * *
20698173 AAGACCCTGTCTTGGATAGTGGCATCGATATTTGATTACATGT
1 AAGACCATGTCTGGGACAGTGCCATCGATATCTGATTACATGT
*
20698216 AAGACCACGTCTGGGA
1 AAGACCATGTCTGGGA
20698232 TGTTGGCATT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
42 21 0.46
43 25 0.54
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
AAGACCATGTCTGGGACAGTGCCATCGATATCTGATTACATGT
Found at i:20701594 original size:46 final size:46
Alignment explanation
Indices: 20701523--20701611 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
20701513 AGTAGTTATG
**
20701523 TAGGAATCAAATTCCTAAAAAATAATATTTCATAATAATATCCCAT
1 TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCCCAT
* *
20701569 TAGGAATCAAATTGCTAAAAGATAATATCACATAATAATATCC
1 TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCC
20701612 TAACATCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (46 bp):
TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCCCAT
Found at i:20701697 original size:15 final size:15
Alignment explanation
Indices: 20701677--20701721 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
20701667 ACTATGACTA
20701677 AAACTATTAATACAT
1 AAACTATTAATACAT
**
20701692 AAACTACCAAT--A-
1 AAACTATTAATACAT
20701704 AAACTATTAATACAT
1 AAACTATTAATACAT
20701719 AAA
1 AAA
20701722 TAACTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 1 0.04
15 12 0.52
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACTATTAATACAT
Found at i:20706491 original size:20 final size:20
Alignment explanation
Indices: 20706474--20706514 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
20706464 CCACAAAAGC
20706474 CAAA-ACCAAAAAACAAAAA
1 CAAACACCAAAAAACAAAAA
*
20706493 CAAACACCAAAAGA-AAAAA
1 CAAACACCAAAAAACAAAAA
20706512 CAA
1 CAA
20706515 CCCAACAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.76, C:0.22, G:0.02, T:0.00
Consensus pattern (20 bp):
CAAACACCAAAAAACAAAAA
Found at i:20710400 original size:18 final size:19
Alignment explanation
Indices: 20710362--20710402 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
20710352 TGGTTCATGT
20710362 TTTCAATCTCATATATCAA
1 TTTCAATCTCATATATCAA
20710381 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATATCAA
20710399 TTTC
1 TTTC
20710403 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATATCAA
Found at i:20712133 original size:5 final size:5
Alignment explanation
Indices: 20712123--20712179 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
20712113 TTACTTATTT
* *
20712123 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
20712171 ATAT- ATATA
1 ATATA ATATA
20712180 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:20712139 original size:12 final size:12
Alignment explanation
Indices: 20712122--20712177 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
20712112 TTTACTTATT
20712122 TATATAATATAA
1 TATATAATATAA
20712134 TATATAATATAATA
1 TATATAATAT-A-A
20712148 TACTATAATATAA
1 TA-TATAATATAA
*
20712161 TA-ATAATTTAA
1 TATATAATATAA
20712172 TATATA
1 TATATA
20712178 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:20712192 original size:26 final size:26
Alignment explanation
Indices: 20712124--20712179 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
20712114 TACTTATTTA
*
20712124 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
20712151 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
20712176 TATA
1 TATA
20712180 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:20712370 original size:13 final size:13
Alignment explanation
Indices: 20712354--20712388 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
20712344 ATTGACTTCG
20712354 TAAATATTTTTAA
1 TAAATATTTTTAA
20712367 TAAATATTTTTAA
1 TAAATATTTTTAA
20712380 TAAATATTT
1 TAAATATTT
20712389 ATGAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:20721840 original size:16 final size:16
Alignment explanation
Indices: 20721815--20721845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20721805 TAAGGCTTGA
20721815 GTTGTAGAAAAAAATT
1 GTTGTAGAAAAAAATT
*
20721831 GTTGTGGAAAAAAAT
1 GTTGTAGAAAAAAAT
20721846 GTTCTTTAAA
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:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (16 bp):
GTTGTAGAAAAAAATT
Found at i:20726171 original size:21 final size:21
Alignment explanation
Indices: 20726145--20726195 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
20726135 GTGTGAAAGG
20726145 AGGCACATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
20726166 AGGCACATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
20726187 AGGCACATG
1 AGGCACATG
20726196 CCCGTGTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGCACATGACATTGTGGCTA
Found at i:20732578 original size:47 final size:47
Alignment explanation
Indices: 20732499--20732657 Score: 221
Period size: 47 Copynumber: 3.4 Consensus size: 47
20732489 ATGACAACTC
* * *
20732499 GCACATACATTCCAAAGACAGCTCACAAATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
* * * *
20732546 GCACATACATTTCAAATATAG-TTAGCACATGCATGGTAAAACAGCTC
1 GCACATACATTTCAAAGATAGCTCA-CACATGCATGGTAAAACTGCTT
**
20732593 GTGCATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
20732640 GCACATACATTTCAAAGA
1 GCACATACATTTCAAAGA
20732658 CAACTAGCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.02
47 91 0.96
48 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
Found at i:20733404 original size:40 final size:40
Alignment explanation
Indices: 20733353--20733449 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
20733343 AAACCAATAA
20733353 GGGCACCGAAGTGC-ATACAGGGACACCAAAGTGCAACCAG
1 GGGCACCGAAGTGCAAT-CAGGGACACCAAAGTGCAACCAG
* * * * *
20733393 GGGCACGGAAGTGCAATCAGGGGCACCAGAGTGCAATTCAA
1 GGGCACCGAAGTGCAATCAGGGACACCAAAGTGCAA-CCAG
*
20733434 GGGCACCGGAGTGCAA
1 GGGCACCGAAGTGCAA
20733450 ATCATACATC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 30 0.62
41 18 0.38
ACGTcount: A:0.32, C:0.25, G:0.34, T:0.09
Consensus pattern (40 bp):
GGGCACCGAAGTGCAATCAGGGACACCAAAGTGCAACCAG
Found at i:20733429 original size:20 final size:20
Alignment explanation
Indices: 20733353--20733449 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
20733343 AAACCAATAA
20733353 GGGCACC-GAAGTGC-ATACAG
1 GGGCACCAG-AGTGCAAT-CAG
* * *
20733373 GGACACCAAAGTGCAACCAG
1 GGGCACCAGAGTGCAATCAG
*
20733393 GGGCA-CGGAAGTGCAATCAG
1 GGGCACCAG-AGTGCAATCAG
*
20733413 GGGCACCAGAGTGCAATTCAA
1 GGGCACCAGAGTGCAA-TCAG
*
20733434 GGGCACCGGAGTGCAA
1 GGGCACCAGAGTGCAA
20733450 ATCATACATC
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 40 0.65
21 21 0.34
ACGTcount: A:0.32, C:0.25, G:0.34, T:0.09
Consensus pattern (20 bp):
GGGCACCAGAGTGCAATCAG
Found at i:20737720 original size:12 final size:13
Alignment explanation
Indices: 20737695--20737729 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
20737685 ATTATTACGT
20737695 ATTTAAATAAAAA
1 ATTTAAATAAAAA
*
20737708 ATTTAAAAAAAAA
1 ATTTAAATAAAAA
*
20737721 AGTTAAATA
1 ATTTAAATA
20737730 TGACATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
ATTTAAATAAAAA
Found at i:20738543 original size:29 final size:30
Alignment explanation
Indices: 20738504--20738563 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
20738494 TAATTACACA
20738504 AACCTTTAAGTAATGGCAGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
*
20738534 AACC-TTAAGTAATGGCGGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
20738563 A
1 A
20738564 TATTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
AACCTTTAAGTAATGGCAGTTATAATTTTT
Found at i:20739135 original size:3 final size:3
Alignment explanation
Indices: 20739129--20739159 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
20739119 AAATCCTAAA
*
20739129 AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
20739160 GACTGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20739141 original size:12 final size:12
Alignment explanation
Indices: 20739126--20739159 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20739116 AAAAAATCCT
20739126 AAAAAGAAGAAG
1 AAAAAGAAGAAG
20739138 AAAAAGAAGAAG
1 AAAAAGAAGAAG
*
20739150 AAGAAGAAGA
1 AAAAAGAAGA
20739160 GACTGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:20746424 original size:14 final size:13
Alignment explanation
Indices: 20746402--20746443 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
20746392 AGATAAAATA
20746402 AATTATTTTTTAT
1 AATTATTTTTTAT
*
20746415 AATTGTTTTTTAT
1 AATTATTTTTTAT
20746428 AATTATATTTTTAT
1 AATTAT-TTTTTAT
20746442 AA
1 AA
20746444 AATAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
AATTATTTTTTAT
Found at i:20746733 original size:21 final size:21
Alignment explanation
Indices: 20746707--20746773 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
20746697 CATGTTTGAT
20746707 ATTATAAATTTTAATTATAAA
1 ATTATAAATTTTAATTATAAA
*
20746728 ATTATATAATTTATAATTTTAAA
1 ATTATA-AATTT-TAATTATAAA
* *
20746751 AATAT-TA-TTT-ATTATAAA
1 ATTATAAATTTTAATTATAAA
20746769 ATTAT
1 ATTAT
20746774 TAGTATGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.28
19 1 0.03
20 2 0.05
21 7 0.18
22 5 0.13
23 13 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATAAATTTTAATTATAAA
Found at i:20747551 original size:31 final size:31
Alignment explanation
Indices: 20747513--20747575 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
20747503 TAAAGTGGAA
*
20747513 GAAAAAGATTGTGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
20747544 GAAAAAGATTATGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
20747575 G
1 G
20747576 TTTATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
GAAAAAGATTATGATTTCTCAGTCAAACTTT
Found at i:20749949 original size:100 final size:100
Alignment explanation
Indices: 20749830--20750029 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
20749820 ATGCAAATTA
*
20749830 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTTAAATTTATGGTATCTAAATAATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATAATCTGT
20749895 ATGAATGTGTCTGAAGGTTGATAAATTTCATATTG
66 ATGAATGTGTCTGAAGGTTGATAAATTTCATATTG
*
20749930 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATAATCTGT
*
20749995 ATGAATGTGTCTGAAGGTTGATAAATTTCCTATTG
66 ATGAATGTGTCTGAAGGTTGATAAATTTCATATTG
20750030 TGTGACAATG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (100 bp):
ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATAATCTGT
ATGAATGTGTCTGAAGGTTGATAAATTTCATATTG
Found at i:20762434 original size:17 final size:17
Alignment explanation
Indices: 20762412--20762448 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20762402 CAAGGATTAT
20762412 TACCCATGTAATTTAAC
1 TACCCATGTAATTTAAC
20762429 TACCCATGTAATTTAAC
1 TACCCATGTAATTTAAC
20762446 TAC
1 TAC
20762449 TCGTTCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (17 bp):
TACCCATGTAATTTAAC
Found at i:20764682 original size:13 final size:13
Alignment explanation
Indices: 20764664--20764690 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20764654 GCTCGACAGC
20764664 GACACGCCCGTGT
1 GACACGCCCGTGT
20764677 GACACGCCCGTGT
1 GACACGCCCGTGT
20764690 G
1 G
20764691 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:20765469 original size:36 final size:36
Alignment explanation
Indices: 20765422--20765494 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
20765412 ATGCATGAAA
20765422 TTTCCTGGTTACCAAGCCTAGCCGAATATTTTTCAT
1 TTTCCTGGTTACCAAGCCTAGCCGAATATTTTTCAT
20765458 TTTCCTGGTTACCAAGCCTAGCCGAATATTTTTCAT
1 TTTCCTGGTTACCAAGCCTAGCCGAATATTTTTCAT
20765494 T
1 T
20765495 CTTATAGCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCTGGTTACCAAGCCTAGCCGAATATTTTTCAT
Found at i:20774671 original size:16 final size:16
Alignment explanation
Indices: 20774650--20774682 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20774640 GTTTGGCTAT
20774650 TAGAAATGGTTGTTAA
1 TAGAAATGGTTGTTAA
20774666 TAGAAATGGTTGTTAA
1 TAGAAATGGTTGTTAA
20774682 T
1 T
20774683 GACTTTTGTA
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:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
TAGAAATGGTTGTTAA
Found at i:20776986 original size:17 final size:18
Alignment explanation
Indices: 20776964--20776997 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20776954 CACATTGAAG
20776964 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
20776981 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
20776998 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:20778283 original size:28 final size:28
Alignment explanation
Indices: 20778241--20778343 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
20778231 TGGCCCCTTT
*
20778241 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
20778269 -GAGCCCAATCACATTCATATGGCCCATT
1 AG-GCCCAATCACATTCATATGGCCCATC
* ** *
20778297 AGGCCCAATCACTTTTGTATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
20778325 AGGCCCAATCACACTCATA
1 AGGCCCAATCACATTCATA
20778344 GTCATGCAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:20778318 original size:56 final size:57
Alignment explanation
Indices: 20778224--20778343 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
20778214 ATCCATACTT
* * *
20778224 ATTCATTTGGCCCCTTTAGGCCCAATCTCATTCATATGGCCCATC-GAGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAG-GCCCAATCAC
* ** *
20778281 ATTCATATGG-CCCATTAGGCCCAATCACTTTTGTATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
*
20778337 ACTCATA
1 ATTCATA
20778344 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 44 0.81
57 10 0.19
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (57 bp):
ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
Found at i:20778791 original size:21 final size:21
Alignment explanation
Indices: 20778767--20778806 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20778757 ACCAAACAAC
20778767 AAGTGACTCGCAAATCATCTT
1 AAGTGACTCGCAAATCATCTT
* **
20778788 AAGTTACTCTTAAATCATC
1 AAGTGACTCGCAAATCATC
20778807 CATGATCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTGACTCGCAAATCATCTT
Found at i:20784226 original size:39 final size:39
Alignment explanation
Indices: 20784172--20784251 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
20784162 GGTGGAGTCG
* *
20784172 TATATTTATAGCTGTTTTTAAGGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
20784211 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
20784250 TA
1 TA
20784252 GTAGCGTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (39 bp):
TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
Found at i:20794105 original size:19 final size:20
Alignment explanation
Indices: 20794081--20794118 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20794071 TAATGTTTAT
*
20794081 TTAACC-AAATTAACTGAAA
1 TTAACCAAAAGTAACTGAAA
20794100 TTAACCAAAAGTAACTGAA
1 TTAACCAAAAGTAACTGAA
20794119 TTGGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAACCAAAAGTAACTGAAA
Found at i:20802533 original size:48 final size:48
Alignment explanation
Indices: 20802478--20802709 Score: 243
Period size: 48 Copynumber: 4.8 Consensus size: 48
20802468 GAATTACCGT
* * *
20802478 TGCCATGTTTCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGA
1 TGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * * *
20802526 TGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCAATGCCGA
1 TGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * * * *
20802574 TGCCATGTCTCAGACATGGTCTTACATTGGCTCTCACAAC-ATCGCCGA
1 TGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCGA-GGCCGA
* * *
20802622 TGCCATGT-TCCAAACATGGTCTTACATTGGCTCTCATATCGTGGCCGA
1 TGCCATGTCT-CAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * *
20802670 CGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATC
1 TGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATC
20802710 ACTCAAATGT
Statistics
Matches: 154, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.01
48 152 0.99
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
Found at i:20816743 original size:8 final size:8
Alignment explanation
Indices: 20816730--20816825 Score: 71
Period size: 8 Copynumber: 12.0 Consensus size: 8
20816720 TTATGTTTAG
20816730 TATATTAT
1 TATATTAT
20816738 TATATTAT
1 TATATTAT
20816746 TATATTAT
1 TATATTAT
*
20816754 TATATAATAAA
1 TATAT--T-AT
20816765 TATATT-T
1 TATATTAT
20816772 TATATT-T
1 TATATTAT
20816779 TA-ATTA-
1 TATATTAT
20816785 TAT-TATAT
1 TATAT-TAT
20816793 TATATTA-
1 TATATTAT
20816800 TAT-TATAT
1 TATAT-TAT
20816808 TATATTATAT
1 TATA-T-TAT
20816818 TATATTAT
1 TATATTAT
20816826 ATAAACTAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 24
0.74 0.02 0.24
Matches are distributed among these distances:
6 7 0.09
7 16 0.22
8 32 0.43
9 3 0.04
10 10 0.14
11 6 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:20816745 original size:5 final size:5
Alignment explanation
Indices: 20816735--20816827 Score: 102
Period size: 5 Copynumber: 18.6 Consensus size: 5
20816725 TTTAGTATAT
* * * *
20816735 TATTA TA-T- TATTA TATTA T-TATA TAATA AATATA TTTTA TATTT TAATTA
1 TATTA TATTA TATTA TATTA TAT-TA TATTA TAT-TA TATTA TATTA T-ATTA
20816785 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
20816828 AAACTAAAGA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
3 2 0.03
4 3 0.04
5 62 0.84
6 7 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:20816842 original size:9 final size:9
Alignment explanation
Indices: 20816828--20816857 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
20816818 TATATTATAT
20816828 AAACTAAAG
1 AAACTAAAG
20816837 AAACTAAAG
1 AAACTAAAG
*
20816846 AAACAAAAG
1 AAACTAAAG
20816855 AAA
1 AAA
20816858 GGAAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (9 bp):
AAACTAAAG
Found at i:20816907 original size:24 final size:25
Alignment explanation
Indices: 20816880--20816932 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
20816870 AGAATGAAAC
* * *
20816880 GAAACAGAGAGCAGGGGAGAAAA-A
1 GAAACAAAGAGAAAGGGAGAAAAGA
*
20816904 GAAAGAAAGAGAAAGGGAGAAAAGA
1 GAAACAAAGAGAAAGGGAGAAAAGA
20816929 GAAA
1 GAAA
20816933 ATTTAAGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.60, C:0.04, G:0.36, T:0.00
Consensus pattern (25 bp):
GAAACAAAGAGAAAGGGAGAAAAGA
Found at i:20818481 original size:45 final size:45
Alignment explanation
Indices: 20818412--20818585 Score: 285
Period size: 45 Copynumber: 3.9 Consensus size: 45
20818402 TACTTCTACT
* *
20818412 GTTATCAATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACC
1 GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
*
20818457 GTTACCAATTCGGCACTTTGTGTGTCAAATATTGTTACTATTACC
1 GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
*
20818502 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
1 GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
* * *
20818547 GTTACCGATTCGGCACTTTGTGTGTTGGATATTGTTACT
1 GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACT
20818586 GTACTGTTAC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (45 bp):
GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
Found at i:20818598 original size:6 final size:6
Alignment explanation
Indices: 20818579--20818617 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
20818569 TGTTGGATAT
*
20818579 TGTTAC TG-TAC TGTTAC TGTTAC TATTAC TGTTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTT
20818618 TCGGATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
TGTTAC
Found at i:20818814 original size:18 final size:18
Alignment explanation
Indices: 20818793--20818947 Score: 116
Period size: 18 Copynumber: 8.6 Consensus size: 18
20818783 TAACTGATTA
*
20818793 TTACTGAATAATTGACTT
1 TTACTGAATAATTGACTG
* *
20818811 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
20818829 CTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
20818847 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
20818865 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* ** *
20818883 TTACTGAATAACTGGTTA
1 TTACTGAATAATTGACTG
* * *
20818901 TTATTGAATATTTGATTG
1 TTACTGAATAATTGACTG
* *
20818919 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
20818937 TTACTGAATAA
1 TTACTGAATAA
20818948 ATAATTGTTC
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
17 4 0.04
18 102 0.94
19 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:20818955 original size:36 final size:36
Alignment explanation
Indices: 20818781--20818956 Score: 131
Period size: 36 Copynumber: 4.9 Consensus size: 36
20818771 AAAGGTATAA
* *
20818781 AATAACTGATTATTACTGAATAATTGACTT-TTACCG
1 AATAACTGACTATTACTGAATAATT-AATTGTTACCG
* * ** * * *
20818817 GATAATTGACTGCTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGACTATTACTGAATAATTA-ATTGTTACCG
* * ** *
20818853 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTATTACTGAATAATTAATTGTTACCG
** * * *
20818889 AATAACTGGTTATTATTGAATATTTGATTGTTACCG
1 AATAACTGACTATTACTGAATAATTAATTGTTACCG
* *
20818925 AATAACTGACTGTTACTGAATAAATAATTGTT
1 AATAACTGACTATTACTGAATAATTAATTGTT
20818957 CTGAGAGTTA
Statistics
Matches: 104, Mismatches: 33, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
34 1 0.01
35 4 0.04
36 96 0.92
37 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (36 bp):
AATAACTGACTATTACTGAATAATTAATTGTTACCG
Found at i:20820606 original size:48 final size:48
Alignment explanation
Indices: 20820551--20820788 Score: 268
Period size: 48 Copynumber: 5.0 Consensus size: 48
20820541 AGAGTGAATT
*
20820551 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
* * * * *
20820599 GCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCACACATATTAAT
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAAG
* **
20820647 GCCGATGCCATG-TCCTAGACATGGTCTTACACTGGATCTCACA-A-CATC
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGG--CTCACATATCAAG
* * **
20820695 GCCGATGCCTTGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
* * *
20820743 GCCGACGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
20820789 CCTAAATGTC
Statistics
Matches: 162, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
46 5 0.03
47 4 0.02
48 144 0.89
49 4 0.02
50 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:20830024 original size:22 final size:22
Alignment explanation
Indices: 20829999--20830045 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
20829989 TTAATTTCCT
20829999 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
20830021 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
20830043 AAT
1 AAT
20830046 CCTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AATTAAATAGTCTTCTCAACCC
Found at i:20830221 original size:56 final size:58
Alignment explanation
Indices: 20830131--20830243 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
20830121 TTTTCAGGTC
* *
20830131 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-CATTTCTCCATTTTA
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
* * *
20830188 ATTTTCATTTTGGA-AAAATCACATTTATTTCCAAAAGTTTCTCATTTTTCAATTTT
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTT
20830244 CACCATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 24 0.48
57 26 0.52
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
Found at i:20832989 original size:24 final size:24
Alignment explanation
Indices: 20832962--20833008 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
20832952 AAGTGAGAGT
20832962 TAGTATGTTAAGTATGGTAGTTGG
1 TAGTATGTTAAGTATGGTAGTTGG
20832986 TAGTATGTTAAGTATGGTAGTTG
1 TAGTATGTTAAGTATGGTAGTTG
20833009 TTGTATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.43
Consensus pattern (24 bp):
TAGTATGTTAAGTATGGTAGTTGG
Found at i:20833019 original size:20 final size:22
Alignment explanation
Indices: 20832969--20833020 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
20832959 AGTTAGTATG
20832969 TTAAGTATGGTAGTTGGTAGTA
1 TTAAGTATGGTAGTTGGTAGTA
*
20832991 TGTTAAGTATGGTAGTT-GTTGTA
1 --TTAAGTATGGTAGTTGGTAGTA
20833014 -TAAGTAT
1 TTAAGTAT
20833021 ATATCTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 7 0.26
23 5 0.19
24 15 0.56
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
TTAAGTATGGTAGTTGGTAGTA
Found at i:20833913 original size:40 final size:39
Alignment explanation
Indices: 20833860--20833949 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
20833850 TCCCACCCAG
* *
20833860 CACACC-ATATGGGGATAAAATCGA-CCAGCCTAGCCCTA
1 CACACCAATATGGGGATAAAATCAACCCAGCC-AACCCTA
*
20833898 CACACCAAGTATGGGGATAAAATCAACCCATCCAACCCTA
1 CACACCAA-TATGGGGATAAAATCAACCCAGCCAACCCTA
20833938 CACACCAA-ATGG
1 CACACCAATATGG
20833950 TACCGTATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 10 0.22
39 1 0.02
40 30 0.65
41 5 0.11
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (39 bp):
CACACCAATATGGGGATAAAATCAACCCAGCCAACCCTA
Found at i:20835890 original size:23 final size:23
Alignment explanation
Indices: 20835862--20835905 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
20835852 GACACTGAAA
20835862 CCCATACAGTCTTACTATCTCAC
1 CCCATACAGTCTTACTATCTCAC
20835885 CCCATACAGTCTTACTATCTC
1 CCCATACAGTCTTACTATCTC
20835906 TGAGATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.39, G:0.05, T:0.32
Consensus pattern (23 bp):
CCCATACAGTCTTACTATCTCAC
Found at i:20844915 original size:14 final size:14
Alignment explanation
Indices: 20844896--20844930 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
20844886 CCTTTTTAGA
20844896 GATTAACCAAGAAC
1 GATTAACCAAGAAC
20844910 GATTAACCAAGAAC
1 GATTAACCAAGAAC
20844924 GATTAAC
1 GATTAAC
20844931 AATAGACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (14 bp):
GATTAACCAAGAAC
Found at i:20850003 original size:25 final size:25
Alignment explanation
Indices: 20849975--20850046 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
20849965 CCTCTTTCGA
20849975 TAACTGGGGCAAAACCCTTTTTGAT
1 TAACTGGGGCAAAACCCTTTTTGAT
* *
20850000 TAACTGGGGCAAAA-CCTTTTCGGT
1 TAACTGGGGCAAAACCCTTTTTGAT
* *
20850024 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAACCCTTTTTG
20850047 CACTTCTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAACCCTTTTTGAT
Found at i:20850028 original size:24 final size:25
Alignment explanation
Indices: 20849969--20850044 Score: 102
Period size: 24 Copynumber: 3.1 Consensus size: 25
20849959 GCCTAGCCTC
20849969 TTTCGAT-AACTGGGGCAAAACCCT
1 TTTCGATAAACTGGGGCAAAACCCT
* *
20849993 TTTTGATTAACTGGGGCAAAA-CCT
1 TTTCGATAAACTGGGGCAAAACCCT
* *
20850017 TTTCGGTAAACTGGGGCAAAGCCCT
1 TTTCGATAAACTGGGGCAAAACCCT
20850042 TTT
1 TTT
20850045 TGCACTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.58
25 19 0.42
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
TTTCGATAAACTGGGGCAAAACCCT
Found at i:20850106 original size:11 final size:11
Alignment explanation
Indices: 20850078--20850142 Score: 71
Period size: 11 Copynumber: 6.1 Consensus size: 11
20850068 ACCCAACCCA
*
20850078 TGCATATAATG
1 TGCATATCATG
* *
20850089 AGTATATCATG
1 TGCATATCATG
20850100 TGCATATCAT-
1 TGCATATCATG
**
20850110 AACATATCATG
1 TGCATATCATG
20850121 TGCATATCATG
1 TGCATATCATG
20850132 T-CATATCATG
1 TGCATATCATG
20850142 T
1 T
20850143 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
10 18 0.41
11 26 0.59
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (11 bp):
TGCATATCATG
Found at i:20850118 original size:21 final size:21
Alignment explanation
Indices: 20850092--20850142 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
20850082 TATAATGAGT
20850092 ATATCATGTGCATATCATAAC
1 ATATCATGTGCATATCATAAC
**
20850113 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
20850134 ATATCATGT
1 ATATCATGT
20850143 ATATCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:20858064 original size:25 final size:25
Alignment explanation
Indices: 20858036--20858108 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
20858026 CCTCTTTTAA
*
20858036 TAACTAGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
20858061 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
20858086 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
20858109 CACTTCTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:20858179 original size:21 final size:21
Alignment explanation
Indices: 20858154--20858204 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
20858144 TATAATGAGT
*
20858154 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
20858175 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
20858196 ATATCATGT
1 ATATCATGT
20858205 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:20863237 original size:43 final size:44
Alignment explanation
Indices: 20863172--20863262 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 44
20863162 CTATCAAAAT
* *
20863172 ATGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
1 ATGATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAA
*
20863216 ATGATA-TCGGGCTTTGAGCCTAGCAGGCTATAATACCGGTGAA
1 ATGATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAA
20863259 ATGA
1 ATGA
20863263 AATGTTATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 38 0.86
44 6 0.14
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
ATGATATTCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAA
Found at i:20863602 original size:38 final size:38
Alignment explanation
Indices: 20863538--20863732 Score: 291
Period size: 38 Copynumber: 5.1 Consensus size: 38
20863528 ATTTGATGTG
*
20863538 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* * *
20863578 TATCCGGGGTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
20863616 TATCCGGGTTAAATACCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
20863654 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
20863692 TATCCGGGTTAAATCCCGCAGGCCTAGTACTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
20863730 TAT
1 TAT
20863733 TCAGGCCTTA
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
38 130 0.92
39 4 0.03
40 8 0.06
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:20864725 original size:19 final size:20
Alignment explanation
Indices: 20864701--20864738 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20864691 CACAACCAAA
*
20864701 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
20864720 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
20864739 ATGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:20874310 original size:27 final size:27
Alignment explanation
Indices: 20874272--20874328 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
20874262 GTTTTTATTA
20874272 TCTGAATTGTATGTTAAATATCTAACT
1 TCTGAATTGTATGTTAAATATCTAACT
20874299 TCTGAATTGTATGTTAAATATCTAACT
1 TCTGAATTGTATGTTAAATATCTAACT
20874326 TCT
1 TCT
20874329 TCTTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (27 bp):
TCTGAATTGTATGTTAAATATCTAACT
Found at i:20877117 original size:21 final size:19
Alignment explanation
Indices: 20877064--20877117 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
20877054 TAAAAATGAT
20877064 TTTTATTTCTATTTAATAA
1 TTTTATTTCTATTTAATAA
*
20877083 TTTT-TCATCT-TTTAATAA
1 TTTTAT-TTCTATTTAATAA
20877101 TTTTGATTTCTAATTTA
1 TTTT-ATTTCT-ATTTA
20877118 GTCCTTAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 13 0.46
19 10 0.36
20 1 0.04
21 4 0.14
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTATTTCTATTTAATAA
Found at i:20886195 original size:37 final size:37
Alignment explanation
Indices: 20886141--20886240 Score: 114
Period size: 37 Copynumber: 2.7 Consensus size: 37
20886131 TTCTAACCAA
* *
20886141 AACACCCCAAATTCTCATAAGAGCTAATCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
* * * *
20886178 AGCACACCAAATGCTCATAAAAGCCAGTCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
20886215 AACACA-CAAATGGCTCCA-AAGAGCTA
1 AACACACCAAAT-GCT-CATAAGAGCTA
20886241 GTCTAACCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 5 0.10
37 45 0.87
38 2 0.04
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (37 bp):
AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
Found at i:20888647 original size:18 final size:17
Alignment explanation
Indices: 20888624--20888701 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
20888614 TTAATGGGCC
20888624 CACATGCCTATGTGTG-CT
1 CACATGCC-A-GTGTGACT
*
20888642 CACATGCCAGTATGACT
1 CACATGCCAGTGTGACT
** *
20888659 CACATGCTTGTGTGGGCT
1 CACATGCCAGTGT-GACT
* * *
20888677 CACACGCCAGTGTGTCC
1 CACATGCCAGTGTGACT
20888694 CACATGCC
1 CACATGCC
20888702 CAGATTGGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
16 4 0.09
17 22 0.47
18 21 0.45
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (17 bp):
CACATGCCAGTGTGACT
Found at i:20888698 original size:35 final size:35
Alignment explanation
Indices: 20888622--20888701 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
20888612 GATTAATGGG
* *
20888622 CCCACATGCCTATGTGTGCTCACATGCCAGTATGA
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
* * * * *
20888657 CTCACATGCTTGTGTGGGCTCACACGCCAGTGTGT
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
20888692 CCCACATGCC
1 CCCACATGCC
20888702 CAGATTGGCC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.34, G:0.23, T:0.25
Consensus pattern (35 bp):
CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
Found at i:20894547 original size:33 final size:35
Alignment explanation
Indices: 20894499--20894563 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
20894489 GGACATATCG
*
20894499 AAACATTTCATTATCAT-TTCACAT-TCAACAGTC
1 AAACATTTCATTATCATATTCAAATATCAACAGTC
20894532 AAACATTTTCA-TATCATATTCAAATATCAACA
1 AAACA-TTTCATTATCATATTCAAATATCAACA
20894564 ATAAGTCCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 11 0.39
34 11 0.39
35 6 0.21
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.35
Consensus pattern (35 bp):
AAACATTTCATTATCATATTCAAATATCAACAGTC
Found at i:20896055 original size:42 final size:42
Alignment explanation
Indices: 20895947--20896111 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 42
20895937 AGCTCGTACA
* * * *
20895947 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
20895990 ATGCCACTGTCCCAGGCAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
20896032 ATGCCGATGTCCCAGATATGGTCTTACACGTAAATCTCAA-ATCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * * * *
20896076 ACGCCAACGTCTCAGACGTGGTCTTACACAAAATCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCA
20896112 TAGTGAAAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
42 27 0.28
43 45 0.46
44 26 0.27
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:20896067 original size:43 final size:43
Alignment explanation
Indices: 20895947--20896067 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
20895937 AGCTCGTACA
* * *
20895947 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
20895990 ATGCCACTGTCCCAGGCAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
20896032 ATGCCGATGTCCCAGATATGGTCTTACACGTAAATC
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATC
20896068 TCAAATCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:20902870 original size:159 final size:156
Alignment explanation
Indices: 20902668--20903216 Score: 572
Period size: 159 Copynumber: 3.6 Consensus size: 156
20902658 ATTAAATGTG
* * *
20902668 TTACACTTATTCG-CATTTGCAAATTACTCTTGTTTTTCTTTATTGAAGGAAAATAAGATTTTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAA-GAAAATAA-A-TTTCT
* * * ** *
20902732 CTAAAAAAATTATACTATAATTAAAACTTTTATTTAAATTGAGGTCACGAGTCAATCGAACATTA
63 CTAAAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAA
*
20902797 ATTCAAGTGAAAAATAAATGAAAAAAATA
128 ATTCAATTGAAAAATAAATGAAAAAAATA
* * *
20902826 TTACATTTATTGGTCATTTGCACATTATTCTTATTTTTCTTTATTTAAGAAAGATAAAATTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAA-AT-AAATT-TCT
* * * * *
20902891 CTAAAAAAATTATACTGTAAATAAAAATCTTATTTCAATTG-GCATCACAAGTCAACCGAGTATA
63 CTAAAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAG-ATCACAAGTCAATCGAGTATA
20902955 AATTCAATTGAAAAATAAATG--AAAAATA
127 AATTCAATTGAAAAATAAATGAAAAAAATA
* * *
20902983 TTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAAG-AAAT--A------TA
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
* * * * * * * *
20903039 TATATA-TATAATGTAATTAAAACTCTTA-TTAAATTGACATCACAAGTAAATCGAGTATCAATT
66 AAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAAATT
* *
20903102 CAATTGAAAAATGAACGAAAAAAATA
131 CAATTGAAAAATAAATGAAAAAAATA
* * * *
20903128 TTAC-GTTTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAGAAAGAAATTTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGA-AAATAAATTTCTCT
* *
20903192 AAAAAAAAGTATACTATAGTTAAAA
65 -AAAAAAATTATACTATAATTAAAA
20903217 TTTTTTACTA
Statistics
Matches: 321, Mismatches: 50, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
143 44 0.14
144 57 0.18
145 16 0.05
146 3 0.01
148 1 0.00
152 1 0.00
154 1 0.00
155 6 0.02
156 15 0.05
157 50 0.16
158 18 0.06
159 107 0.33
160 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (156 bp):
TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
AAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAAATT
CAATTGAAAAATAAATGAAAAAAATA
Found at i:20903171 original size:144 final size:144
Alignment explanation
Indices: 20902901--20903176 Score: 376
Period size: 144 Copynumber: 1.9 Consensus size: 144
20902891 CTAAAAAAAT
* * * *
20902901 TATACTGTAAATAAAAATCTTATTTCAATTGGCATCACAAGTCAACCGAGTATAAATTCAATTGA
1 TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
*
20902966 AAAATAAATGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
66 AAAATAAACGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
20903031 GAAATATATATATA
131 GAAATATATATATA
* * * *
20903045 TATAATGTAATTAAAACTCTTA-TTAAATTGACATCACAAGTAAATCGAGTATCAATTCAATTGA
1 TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
* * * * * * *
20903109 AAAATGAACGAAAAAAATATTAC-GTTTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTT
66 AAAATAAACG--AAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTT
20903173 AAGA
129 AAGA
20903177 GAAAGAAATT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 45 0.39
144 58 0.51
145 11 0.10
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (144 bp):
TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
AAAATAAACGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
GAAATATATATATA
Found at i:20903215 original size:144 final size:143
Alignment explanation
Indices: 20902927--20903202 Score: 304
Period size: 143 Copynumber: 1.9 Consensus size: 143
20902917 ATCTTATTTC
* * *
20902927 AATTGGCATCACAAGTCAACCGAGTATAAATTCAATTGAAAAATAAATGAAAAATATTACACTTA
1 AATTGACATCACAAGTAAACCGAGTATAAATTCAATTGAAAAATAAACGAAAAATATTACACTTA
* * *** *
20902992 TTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAAGAAATATATATATATATAATGTAATT
66 TTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAAGAAAGAAATATATATATAAAAAAAGT
*
20903057 AAAACTCTTATTA
131 AAAACTCATATTA
* * * *
20903070 AATTGACATCACAAGTAAATCGAGTATCAATTCAATTGAAAAATGAACGAAAAAAATATTAC-GT
1 AATTGACATCACAAGTAAACCGAGTATAAATTCAATTGAAAAATAAACG--AAAAATATTACACT
* * * * * * * *
20903134 TTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAGAAAGAAATTTCTCTA-AAAAA
64 TATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTT-A-AGAAAGAAATATATATATAAAAA
20903198 AAGTA
127 AAGTA
20903203 TACTATAGTT
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
143 43 0.40
144 35 0.32
145 18 0.17
146 12 0.11
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (143 bp):
AATTGACATCACAAGTAAACCGAGTATAAATTCAATTGAAAAATAAACGAAAAATATTACACTTA
TTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAAGAAAGAAATATATATATAAAAAAAGT
AAAACTCATATTA
Found at i:20905152 original size:53 final size:52
Alignment explanation
Indices: 20905077--20905217 Score: 162
Period size: 53 Copynumber: 2.7 Consensus size: 52
20905067 CGGATCACAT
* *
20905077 ATCATACCGATGTCATATCCCAGATATGGTCTTATAC-GGAATCAC-ATTATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGGGAA-CACGA--ATCAC
* *
20905130 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACGAATCAC
1 ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACGAATCAC
** *
20905182 ATTGTACCGATGCCATAGCTC-GACTATGGTCTTATA
1 ATCATACCGATGCCATAGCCCAGA-TATGGTCTTATA
20905218 TGAAAGCATA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
51 1 0.01
52 34 0.45
53 36 0.47
54 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACGAATCAC
Found at i:20905199 original size:52 final size:52
Alignment explanation
Indices: 20905036--20905236 Score: 168
Period size: 52 Copynumber: 4.0 Consensus size: 52
20905026 CACATCACAC
* * * *
20905036 ACCGAAGCCATAGCCCTGCCATGGTCTTACACGG-ATCAC--AT---ATCAT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATCAT
* * * *
20905082 ACCGATGTCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCACATCAT
**
20905135 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGA-ATCACATTGT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCAC-ATATCACATCAT
* * * * *
20905187 ACCGATGCCATAGCTC-GACTATGGTCTTATATGAAAGCATATATCACATC
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATATCACATC
20905237 TTTTTCGTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.22
47 5 0.04
50 2 0.02
51 5 0.04
52 44 0.35
53 36 0.29
54 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATCAT
Found at i:20909277 original size:31 final size:31
Alignment explanation
Indices: 20909239--20909301 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20909229 GTTTTTAGAC
20909239 TTAGTTAGTTTTGCATTTGAATTCAATAAAA
1 TTAGTTAGTTTTGCATTTGAATTCAATAAAA
20909270 TTAGTTAGTTTTGCATTTGAATTCAATAAAA
1 TTAGTTAGTTTTGCATTTGAATTCAATAAAA
20909301 T
1 T
20909302 GAGCTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (31 bp):
TTAGTTAGTTTTGCATTTGAATTCAATAAAA
Found at i:20909974 original size:22 final size:23
Alignment explanation
Indices: 20909940--20909983 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
20909930 AATAAATAGG
20909940 AATAAATAAAAT-AAAATTTTAA
1 AATAAATAAAATAAAAATTTTAA
* *
20909962 AATAATTAGAATAAAAATTTTA
1 AATAAATAAAATAAAAATTTTA
20909984 GGTGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAAATAAAATAAAAATTTTAA
Found at i:20911282 original size:21 final size:21
Alignment explanation
Indices: 20911256--20911299 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
20911246 GGCTCAAAAA
20911256 GTAAGGTGATAACACTTGAAT
1 GTAAGGTGATAACACTTGAAT
20911277 GTAAGGTGATAACACTTGAAT
1 GTAAGGTGATAACACTTGAAT
20911298 GT
1 GT
20911300 GCATAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (21 bp):
GTAAGGTGATAACACTTGAAT
Found at i:20911968 original size:45 final size:45
Alignment explanation
Indices: 20911900--20911997 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
20911890 GGTTTTACAT
*
20911900 TTTTCAGTCTTATCTACAGTTTTCACAAAACACCAACACTAGTTA
1 TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
* * *
20911945 TTTTCAGTCTTATCTATAATTTTCACAAAACACTAACGCTAGTTA
1 TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
20911990 TTTTCAGT
1 TTTTCAGT
20911998 ATTTTTAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (45 bp):
TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
Found at i:20913951 original size:42 final size:42
Alignment explanation
Indices: 20913892--20913976 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
20913882 GAGTCCCAGT
20913892 GAATGTAAGGGATTGTTTTTTTACTATTTATG-CTGTAAAGGA
1 GAATGTAAGGGATTGTTTTTTTACTATTTATGTC-GTAAAGGA
20913934 GAATGTAAGGGATTGTTTTTTTACTATTTATGTCGTAAAGGA
1 GAATGTAAGGGATTGTTTTTTTACTATTTATGTCGTAAAGGA
20913976 G
1 G
20913977 TTTGAATGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (42 bp):
GAATGTAAGGGATTGTTTTTTTACTATTTATGTCGTAAAGGA
Done.