Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 156 of 311
Found at i:53122452 original size:64 final size:64
Alignment explanation
Indices: 53122371--53122554 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53122361 AGACATTATG
* *
53122371 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53122435 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53122500 AA
63 AA
* * * *
53122502 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53122555 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53126851 original size:68 final size:67
Alignment explanation
Indices: 53126779--53126928 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53126769 CATCATGTGT
* * * *
53126779 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53126841 ATGTAG
62 ATGTAG
** * *
53126847 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53126912 AG
66 AG
53126914 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53126929 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53126884 original size:64 final size:64
Alignment explanation
Indices: 53126803--53126986 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53126793 AGACATTATG
* *
53126803 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53126867 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53126932 AA
63 AA
* * * *
53126934 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53126987 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53132587 original size:25 final size:25
Alignment explanation
Indices: 53132559--53132606 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53132549 TTATAATATG
** *
53132559 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
53132584 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
53132607 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:53132847 original size:25 final size:26
Alignment explanation
Indices: 53132739--53132834 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
53132729 GAGGAAGTGC
*
53132739 AAAAGGGC-TATGCCCCAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
53132763 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* * *
53132788 AAAAGGGCTTTTGTCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCG
53132814 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
53132835 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 17 0.26
25 14 0.22
26 34 0.52
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:53133092 original size:31 final size:31
Alignment explanation
Indices: 53133053--53133128 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
53133043 ATTGTTGCAG
53133053 TAAAGGCTTCGGCCCAGTGATATGAATAATGA
1 TAAAGGCTTCGGCCCAGTGATATGAATAAT-A
53133085 -AAAGGCTTCGGCCCAGTGATATGAATAATA
1 TAAAGGCTTCGGCCCAGTGATATGAATAATA
53133115 TAAAGGCTTCGGCC
1 TAAAGGCTTCGGCC
53133129 AGGTATATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
TAAAGGCTTCGGCCCAGTGATATGAATAATA
Found at i:53136300 original size:45 final size:41
Alignment explanation
Indices: 53136210--53136315 Score: 104
Period size: 45 Copynumber: 2.5 Consensus size: 41
53136200 AATGCCACTT
* * * *
53136210 TCCCAGACAGGGTCTTACACGAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAACCAAATACGATGCCAACG
*
53136251 TCCCAGACATGGTCTTACACGTAACCACATATATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AACCA-A-ATA-CGATGCCAACG
* **
53136296 TCCCACAGGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
53136316 AAAATCACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 20 0.38
42 4 0.08
43 1 0.02
44 3 0.06
45 25 0.47
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAACCAAATACGATGCCAACG
Found at i:53140294 original size:14 final size:15
Alignment explanation
Indices: 53140275--53140303 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53140265 TCACAAAATT
53140275 TTCACACAT-ATAAA
1 TTCACACATAATAAA
53140289 TTCACACATAATAAA
1 TTCACACATAATAAA
53140304 CTCAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:53143377 original size:43 final size:43
Alignment explanation
Indices: 53143221--53143378 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
53143211 TATGTTTTTT
* * *
53143221 CGTGTAACACCACGT-TTGGACGTTGGCGTCGA-ATTATAATTTA
1 CGTGTAACACCACGTCTGGGATGTTGGCATCGATATT-TAA-TTA
* * * *
53143264 CGTGTAACACCATGTCTGAGATGTTGGCATC-ATATTTGATTT
1 CGTGTAACACCACGTCTGGGATGTTGGCATCGATATTTAATTA
* * * *
53143306 CGTGTAAGACC-CTGCCTAGGACAG-TGGCATCGATATTTAATTA
1 CGTGTAACACCAC-GTCTGGGA-TGTTGGCATCGATATTTAATTA
* *
53143349 CATGTAAAACCACGTCTGGGATGTTGGCAT
1 CGTGTAACACCACGTCTGGGATGTTGGCAT
53143379 TGTATGAGAT
Statistics
Matches: 88, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
42 25 0.28
43 48 0.55
44 15 0.17
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
CGTGTAACACCACGTCTGGGATGTTGGCATCGATATTTAATTA
Found at i:53143753 original size:20 final size:20
Alignment explanation
Indices: 53143716--53143753 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53143706 TTAAGCTTCG
*
53143716 ATTTAGTTAATTGCACTTGA
1 ATTTAGTTAATAGCACTTGA
*
53143736 ATTTAGTTAATAGGACTT
1 ATTTAGTTAATAGCACTT
53143754 ATGTGTGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (20 bp):
ATTTAGTTAATAGCACTTGA
Found at i:53145362 original size:40 final size:40
Alignment explanation
Indices: 53145305--53145522 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
53145295 CGGATGACAA
* *
53145305 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
53145345 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53145385 ACGGGTTAAG-CCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
*
53145425 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
53145465 CCGGGATATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
53145505 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53145523 TACCTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.11
40 138 0.88
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53147804 original size:22 final size:23
Alignment explanation
Indices: 53147779--53147821 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
53147769 AAAGCCGAGG
53147779 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
53147801 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
53147822 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:53153468 original size:40 final size:40
Alignment explanation
Indices: 53153399--53153576 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
53153389 CGGATGATAA
*
53153399 CCGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
53153439 TCGGGTTAAGCCCCGAAGGCATTTATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53153479 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
53153519 CTGGGCTATGTCCCAAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
53153559 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53153577 TACCTGGCTT
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.12
40 102 0.88
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53162377 original size:43 final size:42
Alignment explanation
Indices: 53162276--53162388 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
53162266 ATGATTTAGG
* * * * * **
53162276 TGTAACACCATATCTGGGATGTTGGCATCGTATTTGATTTTA
1 TGTAAGACCCTATCTGAGACGTTGGCATCATATTTGATTACA
53162318 TGTAAGACCCTATCTGAGACAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCCTATCTGAGAC-GTTGGCATC-ATATTTGATTACA
*
53162361 TGTAAGACCAC-GTCTGAGACGTTGGCAT
1 TGTAAGACC-CTATCTGAGACGTTGGCAT
53162389 TGTGTGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 24 0.41
43 34 0.58
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TGTAAGACCCTATCTGAGACGTTGGCATCATATTTGATTACA
Found at i:53166225 original size:14 final size:14
Alignment explanation
Indices: 53166206--53166239 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
53166196 TGCATGTGTG
53166206 AAATTTTCGTATGA
1 AAATTTTCGTATGA
53166220 AAATTTTCGTATGA
1 AAATTTTCGTATGA
53166234 AAATTT
1 AAATTT
53166240 AATTGTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (14 bp):
AAATTTTCGTATGA
Found at i:53188154 original size:43 final size:43
Alignment explanation
Indices: 53188041--53188211 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
53188031 CATTTAGCAC
* * * *
53188041 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
** * * * * *
53188082 ATATTGATGCCACTGTCCCAAACAGGGTCTTATACG-AATTCA-T
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAA-TCACA
*
53188125 ATAACGATGCCAATG-CCCTAGACATGGTCTTACACGTAATCACA
1 AT-ACAATGCCAATGTCCC-AGACATGGTCTTACACGTAATCACA
* *
53188169 ATACAATGCCAATGTCCCAGACATGGTCATACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
53188212 TCTCGGTAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 82 0.80
44 8 0.08
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
Found at i:53193987 original size:15 final size:15
Alignment explanation
Indices: 53193967--53194002 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
53193957 TTTTATGTTA
*
53193967 GATTTCTATATTATG
1 GATTTCTACATTATG
*
53193982 GATTTCTCCATTATG
1 GATTTCTACATTATG
53193997 GATTTC
1 GATTTC
53194003 CTTATCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (15 bp):
GATTTCTACATTATG
Found at i:53196354 original size:17 final size:17
Alignment explanation
Indices: 53196332--53196391 Score: 102
Period size: 17 Copynumber: 3.5 Consensus size: 17
53196322 AGGGCTATGT
53196332 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
*
53196349 GGGCCCATTGGGCCTAC
1 GGGCCCAATGGGCCTAC
*
53196366 GGGCCCAATGAGCCTAC
1 GGGCCCAATGGGCCTAC
53196383 GGGCCCAAT
1 GGGCCCAAT
53196392 TGGATAAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.13
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:53196592 original size:27 final size:25
Alignment explanation
Indices: 53196547--53196635 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 25
53196537 CCCTGTTTAG
* * *
53196547 AATACTTTAGTTTACTAAAATCACCGA
1 AATACCTTAGTTT-GTAAAAT-ACTGA
53196574 AATACGCTTAGTTTGTAAAAATACTGA
1 AATAC-CTTAGTTTGT-AAAATACTGA
* *
53196601 AATACCCTCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTGTAAAA-TACTGA
53196628 AATACCTT
1 AATACCTT
53196636 CGACTTGTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.13
27 33 0.63
28 12 0.23
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (25 bp):
AATACCTTAGTTTGTAAAATACTGA
Found at i:53196638 original size:27 final size:27
Alignment explanation
Indices: 53196562--53196651 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
53196552 TTTAGTTTAC
* * *
53196562 TAAAATCACCGAAATACGCTTAG-TTTG
1 TAAAATTACTGAAATAC-CTTCGATTTG
* *
53196589 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
53196616 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
53196643 TAAAATTAC
1 TAAAATTAC
53196652 CAAAGTACCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:53196676 original size:27 final size:27
Alignment explanation
Indices: 53196657--53196837 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
53196647 ATTACCAAAG
*
53196657 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53196684 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53196711 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
53196738 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
53196765 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
53196792 TACCTTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
53196819 TACCCTCGATTTACA-AATT
1 TACCCTCGATTTACAGAATT
53196838 TACTAAAATA
Statistics
Matches: 135, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.03
27 131 0.97
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:53196705 original size:81 final size:81
Alignment explanation
Indices: 53196603--53196813 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 81
53196593 AATACTGAAA
*
53196603 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTA-A-AATTACCAAAGTACCCCCG
1 TACCCTCGATTTATAAAATTACTGAAATACCCTT-GA-TT-TACAGAATTACCAAAGTACCCCCG
53196665 ATTTACAGAATTACCATTT
63 ATTTACAGAATTACCATTT
* * * *** * **** *
53196684 TACCCTCGATTTACATAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTGAAATACCCTTGATTTACAGAATTACCAAAGTACCCCCGATT
53196749 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* *** * *
53196765 TACCCTCGATTTATAGAATTACTGTTTTACCTTTGATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTACTGAAATACCCTTGATTTACAGAATTAC
53196814 TATTTTACCC
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.02
80 3 0.03
81 99 0.92
82 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTGAAATACCCTTGATTTACAGAATTACCAAAGTACCCCCGATT
TACAGAATTACCATTT
Found at i:53196820 original size:81 final size:81
Alignment explanation
Indices: 53196657--53196837 Score: 276
Period size: 81 Copynumber: 2.2 Consensus size: 81
53196647 ATTACCAAAG
* *
53196657 TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACATAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
* *
53196722 TACAGAATTATCGTTT
66 TACAAAATTATCATTT
* * *
53196738 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCTTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
53196803 TACAAAATTA-CTATTT
66 TACAAAATTATC-ATTT
53196819 TACCCTCGATTTACA-AATT
1 TACCCTCGATTTACAGAATT
53196838 TACTAAAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 5 0.05
81 87 0.95
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
TACAAAATTATCATTT
Found at i:53196849 original size:27 final size:27
Alignment explanation
Indices: 53196590--53196988 Score: 144
Period size: 27 Copynumber: 14.7 Consensus size: 27
53196580 CTTAGTTTGT
* * **
53196590 AAAAATACTGAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
53196617 AAAATTACTGAAATACCTTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * *
53196644 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * ***
53196671 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***** *
53196698 ATAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* **
53196725 AGAATTATCGT--TTTACCCTCGATTTAC
1 AAAATTA-C-TAAAATACCCTCGATTTAC
* * *** *
53196752 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
* **** * *
53196779 AGAATTACTGTTTTACCTTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
***
53196806 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
53196833 AAATTTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* ** * **
53196860 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
*
53196887 AAAATTACCAAAATACCC-CTGATTTAC
1 AAAATTACTAAAATACCCTC-GATTTAC
* *
53196914 AAAGTTAC-AGAAATACCCTTGACTTT-C
1 AAAATTACTA-AAATACCCTCGA-TTTAC
* * *
53196941 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTCGATTTAC
53196970 AAAATTACTAAAATACCCT
1 AAAATTACTAAAATACCCT
53196989 TGGTTTGTAG
Statistics
Matches: 300, Mismatches: 59, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 269 0.90
28 9 0.03
29 19 0.06
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:53197088 original size:27 final size:27
Alignment explanation
Indices: 53197058--53197112 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
53197048 GGTAAAAATT
*
53197058 CCGTAA-AGCCCCTGTAGGGTAAAGTGA
1 CCGTAATA-CCCCTGTAGGGTAAAATGA
*
53197085 CCGTAATACCCCTGTATGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
53197112 C
1 C
53197113 GAATATGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (27 bp):
CCGTAATACCCCTGTAGGGTAAAATGA
Found at i:53198300 original size:25 final size:25
Alignment explanation
Indices: 53198271--53198318 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53198261 TTATAACATG
* * *
53198271 AAAATGATCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53198296 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53198319 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53201207 original size:47 final size:47
Alignment explanation
Indices: 53201153--53201464 Score: 491
Period size: 47 Copynumber: 6.6 Consensus size: 47
53201143 TTAGGATTTT
** * *
53201153 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
53201200 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
53201247 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
53201294 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
53201341 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
53201388 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
53201435 ATGTGATGAATGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGCATATATGTG
53201465 GCGAAGCCGA
Statistics
Matches: 246, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 245 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:53201253 original size:22 final size:22
Alignment explanation
Indices: 53201226--53201300 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
53201216 CATGCATATG
53201226 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
53201248 TGTGATGAATGTG-AGCAT-G-CATA
1 TGTGAT-AA-G-GCCGAATGGCCA-A
53201271 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
53201295 TGTGAT
1 TGTGAT
53201301 GAATATGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53203115 original size:40 final size:40
Alignment explanation
Indices: 53203055--53203433 Score: 626
Period size: 40 Copynumber: 9.6 Consensus size: 40
53203045 GTTATATATA
53203055 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
53203095 TATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
53203135 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
53203175 TGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
53203215 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
53203255 TATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
53203295 TATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
53203334 TATCCGGGCTAAGT--TGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * * *
53203372 TATCCGTGCTAA--CCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
53203410 TAT-CGGGCTAGGTCCCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCA
53203434 ATCATGCCGG
Statistics
Matches: 321, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
37 6 0.02
38 57 0.18
39 49 0.15
40 209 0.65
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:53208801 original size:24 final size:22
Alignment explanation
Indices: 53208751--53208910 Score: 166
Period size: 24 Copynumber: 7.0 Consensus size: 22
53208741 AGTGCAAAAG
53208751 GGCTTATGCCCCCA-TTA-TAAA
1 GGCTTATG-CCCCAGTTATTAAA
53208772 GCGCTTATGCCCCAGTTTTATTAAA
1 G-GCTTATGCCCCAG--TTATTAAA
53208797 GGCTTATGCCCCAG-TATT-AA
1 GGCTTATGCCCCAGTTATTAAA
*
53208817 GGCGTTGTGCCCCAGTTATTAAA
1 GGC-TTATGCCCCAGTTATTAAA
53208840 GGGCTTATGCCGCCAGTTATTAAA
1 -GGCTTATGCC-CCAGTTATTAAA
*
53208864 GGGTTATGCCCCAGTTATTAAAA
1 GGCTTATGCCCCAGTTATT-AAA
* *
53208887 GGGCTTTTGTCCCAGTTTATTAAA
1 -GGCTTATGCCCCAG-TTATTAAA
53208911 AGAGGCTAGC
Statistics
Matches: 120, Mismatches: 6, Indels: 23
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.04
21 20 0.17
22 20 0.17
23 20 0.17
24 45 0.38
25 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (22 bp):
GGCTTATGCCCCAGTTATTAAA
Found at i:53208878 original size:46 final size:45
Alignment explanation
Indices: 53208747--53208910 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
53208737 AGGAAGTGCA
*
53208747 AAAGGGCTTATGCCCCCA-TTA-TAAAGCGCTTATGCCCCAGTTTTATT
1 AAAGGGCTTATG-CCCCAGTTATTAAAG-GGTTATGCCCCAG--TTATT
*
53208794 AAA-GGCTTATGCCCCAG-TATT-AAGGCGTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGG-GTTATGCCCCAGTTATT
53208837 AAAGGGCTTATGCCGCCAGTTATTAAAGGGTTATGCCCCAGTTATT
1 AAAGGGCTTATGCC-CCAGTTATTAAAGGGTTATGCCCCAGTTATT
* *
53208883 AAAAGGGCTTTTGTCCCAGTTTATTAAA
1 -AAAGGGCTTATGCCCCAG-TTATTAAA
53208911 AGAGGCTAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
43 8 0.08
44 11 0.11
45 24 0.23
46 33 0.32
47 27 0.26
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGTTATGCCCCAGTTATT
Found at i:53209180 original size:29 final size:30
Alignment explanation
Indices: 53209119--53209180 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
53209109 CGTTTACAGT
* *
53209119 AAAGGCTTCGGCCCAGTAATATGAATTTTGA
1 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
53209150 AAAGGCTTCGG-CCATGT-TATGAAATATGA
1 AAAGGCTTCGGCCCA-GTATATGAAATATGA
53209179 AA
1 AA
53209181 TATAAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.43
30 3 0.11
31 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAAATATGA
Found at i:53212527 original size:47 final size:47
Alignment explanation
Indices: 53212461--53212907 Score: 837
Period size: 47 Copynumber: 9.5 Consensus size: 47
53212451 GAAATGATAG
53212461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53212508 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53212555 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212602 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
53212651 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212698 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212745 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212791 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212836 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53212883 TAAGGCCTAATGGCCGATGTGATGA
1 TAAGGCCTAATGGCCGATGTGATGA
53212908 TGATGGCCTA
Statistics
Matches: 394, Mismatches: 2, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
45 45 0.11
46 46 0.12
47 257 0.65
49 46 0.12
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53212717 original size:143 final size:140
Alignment explanation
Indices: 53212461--53212907 Score: 835
Period size: 143 Copynumber: 3.2 Consensus size: 140
53212451 GAAATGATAG
53212461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53212526 GTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
53212591 TATATATATGA
130 TATATATGTGA
53212602 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
53212667 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
53212732 TGTATATATGTGA
128 TGTATATATGTGA
53212745 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53212809 GTGATGAATGTGAAAGTGTATATA-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
53212873 ATATATGTGA
131 ATATATGTGA
53212883 TAAGGCCTAATGGCCGATGTGATGA
1 TAAGGCCTAATGGCCGATGTGATGA
53212908 TGATGGCCTA
Statistics
Matches: 302, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
138 75 0.25
140 46 0.15
141 42 0.14
143 139 0.46
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (140 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGA
Found at i:53212970 original size:73 final size:73
Alignment explanation
Indices: 53212839--53212979 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
53212829 TATATGATAA
* * * *
53212839 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTG
53212904 ATGATGAT
66 ATGATGAT
* *
53212912 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTG
53212977 ATG
66 ATG
53212980 GATGTGAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (73 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTG
ATGATGAT
Found at i:53213180 original size:36 final size:37
Alignment explanation
Indices: 53213125--53213202 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
53213115 CCGAGCTCTA
* *
53213125 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53213161 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53213198 AAGAC
1 AAGAC
53213203 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53215113 original size:43 final size:43
Alignment explanation
Indices: 53215065--53215167 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
53215055 TTGGTTTTCA
53215065 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53215108 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53215151 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53215168 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53215184 original size:29 final size:29
Alignment explanation
Indices: 53215149--53215222 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53215139 GTTGTGAGAT
* *
53215149 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53215178 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53215207 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53215223 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53215631 original size:39 final size:41
Alignment explanation
Indices: 53215535--53215638 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 41
53215525 TCGAATGATG
*
53215535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCATA
* *
53215575 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGAT-ACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TGACCATA
53215614 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
53215639 CATACTAGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
38 1 0.02
39 17 0.31
40 28 0.51
41 9 0.16
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCATA
Found at i:53215657 original size:40 final size:40
Alignment explanation
Indices: 53215613--53215847 Score: 321
Period size: 40 Copynumber: 5.9 Consensus size: 40
53215603 CGAGATACTA
*
53215613 ATCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
53215653 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
**
53215692 ATCCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
53215732 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * * *
53215772 ATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
53215811 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
53215848 CGTGTATTCG
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 71 0.40
40 106 0.60
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:53215677 original size:79 final size:79
Alignment explanation
Indices: 53215535--53215834 Score: 308
Period size: 79 Copynumber: 3.8 Consensus size: 79
53215525 TCGAATGATG
** ** *
53215535 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGATCCGAAGAGCA
* *
53215597 TTTGTGCGAGAT-ACTAA
64 TTCGTGCTAG-TGA-TAA
*
53215614 TCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATGTATCCGGGCTAAG-TCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGATCCGAAGAGCATT
* *
53215678 CATGCTAGTGATGTA
66 CGTGCTAGTGAT-AA
** *
53215693 TCCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGATCCGAAGAGCATT
53215758 CGTGCTAGTGATATA
66 CGTGCTAGTGATA-A
* * * * * * *
53215773 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCT-AGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGAT-CCGAAGAGCA
53215835 ATCATGCTGG
Statistics
Matches: 189, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
78 12 0.06
79 131 0.69
80 41 0.22
81 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGATCCGAAGAGCATT
CGTGCTAGTGATAA
Found at i:53215750 original size:119 final size:119
Alignment explanation
Indices: 53215613--53215847 Score: 326
Period size: 119 Copynumber: 2.0 Consensus size: 119
53215603 CGAGATACTA
* **
53215613 ATCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATATATCCGGGCTAAACCCGAAGAGCATT
* ** *
53215678 CATGCTAGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGT
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
* * * *
53215732 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCGAAGAGCATT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATATATCCGGGCTAAACCCGAAGAGCATT
* * * * *
53215797 CGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGA
53215848 CGTGTATTCG
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 100 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATATATCCGGGCTAAACCCGAAGAGCATT
CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
Found at i:53219367 original size:49 final size:49
Alignment explanation
Indices: 53219298--53219669 Score: 639
Period size: 47 Copynumber: 7.7 Consensus size: 49
53219288 GAAATGATAG
53219298 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
53219347 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
53219396 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
53219447 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
53219494 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
53219541 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
53219588 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
53219637 TAGGGCCTAATGGCCGAGGTGATGAATGTGAAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA
53219670 ATAAGGCCTA
Statistics
Matches: 313, Mismatches: 6, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
47 138 0.44
49 126 0.40
51 49 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:53219590 original size:94 final size:95
Alignment explanation
Indices: 53219298--53219768 Score: 657
Period size: 94 Copynumber: 5.0 Consensus size: 95
53219288 GAAATGATAG
53219298 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
53219363 ATGTGATGAATGTGAAAGTGTATATATATGTGA
65 ATGTGATGAATGTGAAAGTG--TATATATGTGA
53219396 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG---ATATATATGTGATAAGGCCTAATGGC
*
53219461 CGATGTGATGAATGTGAAAGTGTATATACGTGA
63 CGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53219494 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
*
53219558 TGTGATGAATGTGAAAGTGTATATATGAGA
66 TGTGATGAATGTGAAAGTGTATATATGTGA
*
53219588 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCG
*
53219653 A-G-G-TG-A--TGAATGTG-A-A-A----A
65 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
53219671 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
* * *
53219735 CGTGATGGATGTGAAAGTGTATAAATGTGA
66 TGTGATGAATGTGAAAGTGTATATATGTGA
53219765 TAAG
1 TAAG
53219769 TCCCGAAGGG
Statistics
Matches: 344, Mismatches: 12, Indels: 38
0.87 0.03 0.10
Matches are distributed among these distances:
81 24 0.07
82 1 0.00
83 38 0.11
84 2 0.01
85 1 0.00
87 8 0.02
88 2 0.01
89 2 0.01
90 8 0.02
92 1 0.00
93 2 0.01
94 97 0.28
95 1 0.00
96 26 0.08
98 82 0.24
100 49 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (95 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53219942 original size:37 final size:37
Alignment explanation
Indices: 53219886--53219964 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53219876 CCGAGCTCTA
* * * *
53219886 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
*
53219923 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
53219960 AAGAC
1 AAGAC
53219965 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53229987 original size:28 final size:28
Alignment explanation
Indices: 53229907--53229988 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
53229897 TCCGTTGAAT
** * *
53229907 ACTCAATGCCTCACACACTAAGTGCCAT
1 ACTCAATATCTCACACACTAAGTGTCAC
53229935 ACTCAATATCTCACACACTAAGTGTCAC
1 ACTCAATATCTCACACACTAAGTGTCAC
**
53229963 ACTCAATATCTTGCACACTAAGTGTC
1 ACTCAATATCTCACACACTAAGTGTC
53229989 GTACATGGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.33, C:0.32, G:0.10, T:0.26
Consensus pattern (28 bp):
ACTCAATATCTCACACACTAAGTGTCAC
Found at i:53239456 original size:27 final size:27
Alignment explanation
Indices: 53239425--53239819 Score: 384
Period size: 27 Copynumber: 14.6 Consensus size: 27
53239415 TTAGTTTACC
* *
53239425 AAATTACTAAAAT-GCCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
* *
53239452 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
*
53239479 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* *
53239506 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
* *
53239533 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
** * * *
53239560 AAATTACTGAAATA-CCCTCGACTTATA
1 AAATTACCAAAATACCCCT-AATTTGTA
*
53239587 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
* * * *
53239614 AAATTACTAAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* ** **
53239641 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAATTTGTA
*
53239668 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* *
53239695 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
* *
53239722 AAATTACCAAAATA-CCCTCAGTTTGCA
1 AAATTACCAAAATACCCCT-AATTTGTA
** *
53239749 AAATTACTGAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
* * *
53239776 AAATTACTAAAATACCCTTAACTTGTAA
1 AAATTACCAAAATACCCCTAATTTGT-A
* *
53239804 AAATTTCCAAAGTACC
1 AAATTACCAAAATACC
53239820 TTCGATTTAC
Statistics
Matches: 312, Mismatches: 50, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.03
27 279 0.89
28 25 0.08
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:53239491 original size:54 final size:54
Alignment explanation
Indices: 53239445--53239819 Score: 427
Period size: 54 Copynumber: 6.9 Consensus size: 54
53239435 AATGCCCTCA
53239445 ATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-
1 ATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
* *
53239498 AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTG
1 A-TTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
* * * * * *
53239553 ATTTGTGAAATTACTGAAATA-CCCTCGACTTATAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTG
* * * *
53239607 ATTTGTGAAATTACTAAAATA-CCCTTGACTTGTAAAATTACCAAAATACCCTTG
1 ATTTGTAAAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTG
* ** *
53239661 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
* * * **
53239715 ATTTGTGAAATTACCAAAATA-CCCTCAGTTTGCAAAATTACTGAAATA-CCCTCG
1 ATTTGTAAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCT-G
* ** * *
53239769 ATTTGTAAAATTACTAAAATACCCTTAACTTGTAAAAATTTCCAAAGTACC
1 ATTTGTAAAATTACTAAAATACCCCTAGTTTGT-AAAATTACCAAAATACC
53239820 TTCGATTTAC
Statistics
Matches: 273, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
53 14 0.05
54 238 0.87
55 20 0.07
56 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
ATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTG
Found at i:53239551 original size:81 final size:81
Alignment explanation
Indices: 53239416--53239819 Score: 440
Period size: 81 Copynumber: 5.0 Consensus size: 81
53239406 TTAAAAAAAT
* * * *
53239416 TAGTTTACCAAATTACTAAAAT-GCCCTCAATTTGTAAAATTACTAAAATACCCCT-AGTTTGTA
1 TAGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCCTGA-TTTGTA
53239479 AAATTACCAAAATACCCC
64 AAATTACCAAAATACCCC
** * * *
53239497 TAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAA
1 TAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAA
**
53239562 ATTACTGAAATA-CCC
66 ATTACCAAAATACCCC
* * * * * * *
53239577 TCGACTTATAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTTGACTTGTAA
1 TAG-TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAA
*
53239642 AATTACCAAAATACCCT
65 AATTACCAAAATACCCC
* * *
53239659 TGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAA
1 TAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAA
53239724 ATTACCAAAATA-CCC
66 ATTACCAAAATACCCC
* ** * * * *
53239739 TCAGTTTGCAAAATTACTGAAATA-CCCTCGATTTGTAAAATTACTAAAATACCCTTAACTTGTA
1 T-AGTTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTGATTTGT-
* *
53239803 AAAATTTCCAAAGTACC
63 AAAATTACCAAAATACC
53239820 TTCGATTTAC
Statistics
Matches: 271, Mismatches: 44, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
80 13 0.05
81 236 0.87
82 21 0.08
83 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAA
ATTACCAAAATACCCC
Found at i:53239835 original size:27 final size:27
Alignment explanation
Indices: 53239533--53239863 Score: 129
Period size: 27 Copynumber: 12.2 Consensus size: 27
53239523 CTAGTTTGTG
* ***
53239533 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAGTACCCTC-GATTTACA
* * *
53239560 AAATTACTGAAA-TACCCTCGACTTATA
1 AAATTAC-CAAAGTACCCTCGATTTACA
* * ***
53239587 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAGTACCCTC-GATTTACA
* * * * **
53239614 AAATTACTAAAATACCCTTGACTTGTA
1 AAATTACCAAAGTACCCTCGATTTACA
* * *
53239641 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAGTACCCTCGATTTACA
* * **
53239668 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAGTACCCTCGA-TTTACA
* ***
53239695 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAGTACCCTC-GATTTACA
* *
53239722 AAATTACCAAAATACCCTC-AGTTTGCA
1 AAATTACCAAAGTACCCTCGA-TTTACA
* **
53239749 AAATTACTGAAA-TACCCTCGATTTGTA
1 AAATTAC-CAAAGTACCCTCGATTTACA
* * **
53239776 AAATTACTAAAATACCCTTAACTTGTA-A
1 AAATTACCAAAGTACCCTCGA-TT-TACA
* *
53239804 AAATTTCCAAAGTACCTTCGATTTACA
1 AAATTACCAAAGTACCCTCGATTTACA
* ***
53239831 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAGTACCCTCGATTTACA
53239858 AAATTA
1 AAATTA
53239864 TTGAATACCC
Statistics
Matches: 242, Mismatches: 47, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
26 10 0.04
27 203 0.84
28 28 0.12
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAGTACCCTCGATTTACA
Found at i:53239939 original size:54 final size:54
Alignment explanation
Indices: 53239867--53239999 Score: 196
Period size: 54 Copynumber: 2.5 Consensus size: 54
53239857 AAAATTATTG
* *
53239867 AATACCCCTGTAGCGTAGAATTA-TCGAAATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTACCGA
53239921 AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA
* * * *
53239975 GATACCCTTATGGGGTAAAATTACT
1 AATACCCTTGTAGGGTAGAATTACT
53240000 ATTTTGCCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (54 bp):
AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA
Found at i:53239991 original size:27 final size:27
Alignment explanation
Indices: 53239867--53239981 Score: 185
Period size: 27 Copynumber: 4.3 Consensus size: 27
53239857 AAAATTATTG
* *
53239867 AATACCCCTGTAGCGTAGAATTATCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
53239894 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
53239921 AATACCCTTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGA
53239948 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
53239975 GATACCC
1 AATACCC
53239982 TTATGGGGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGA
Found at i:53239996 original size:27 final size:27
Alignment explanation
Indices: 53239867--53239998 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
53239857 AAAATTATTG
* * *
53239867 AATACCCCTGTAGCGTAGAATTATCGA
1 AATACCCTTGTAGGGTAGAATTACCGA
*
53239894 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACCGA
*
53239921 AATACCCTTGTAGGGTAGAATTACTGA
1 AATACCCTTGTAGGGTAGAATTACCGA
*
53239948 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACCGA
* * * *
53239975 GATACCCTTATGGGGTAAAATTAC
1 AATACCCTTGTAGGGTAGAATTAC
53239999 TATTTTGCCT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAGAATTACCGA
Found at i:53240273 original size:24 final size:25
Alignment explanation
Indices: 53240202--53240271 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
53240192 AGGAAGTGCT
* * *
53240202 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
53240227 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
53240252 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53240272 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:53240284 original size:24 final size:25
Alignment explanation
Indices: 53240214--53240284 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
53240204 AAGGGCTATG
* *
53240214 CCCCAGTTTACCGAAAAG-GGCTTTG
1 CCCCAGTTTATC-AAAAGAGGCTTTA
53240239 CCCCAGTTTATCAAAA-AGGGCTTTA
1 CCCCAGTTTATCAAAAGA-GGCTTTA
*
53240264 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAGAGGCT
53240285 AGGCCTCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 16 0.40
25 24 0.60
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAGAGGCTTTA
Found at i:53251828 original size:30 final size:30
Alignment explanation
Indices: 53251794--53251854 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
53251784 TCCTTTACTC
*
53251794 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
53251824 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
53251854 A
1 A
53251855 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:53253859 original size:27 final size:27
Alignment explanation
Indices: 53253821--53253880 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
53253811 CACAACATTA
53253821 CTCATAGTGATTAAAATGTATATGATC
1 CTCATAGTGATTAAAATGTATATGATC
* *
53253848 CTCATAGTGATTAATATGTATATGATT
1 CTCATAGTGATTAAAATGTATATGATC
53253875 CTCATA
1 CTCATA
53253881 CTTGAGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
CTCATAGTGATTAAAATGTATATGATC
Found at i:53256623 original size:44 final size:43
Alignment explanation
Indices: 53256530--53256637 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 43
53256520 ATTTATGAAC
* * * *
53256530 TCGCACACTTAGTGCCAATTAATTAGCCGAAGTTATAATAATA
1 TCGCACACTTAGTGCCATTTAATAAACCGAACTTATAATAATA
* * * **
53256573 TTGCACACTTAGTGCCATTTCACTAAACCGAACTTATATTGGTA
1 TCGCACACTTAGTGCCATTT-AATAAACCGAACTTATAATAATA
* *
53256617 TCGCACATTTAGTACCATTTA
1 TCGCACACTTAGTGCCATTTA
53256638 TTCAGTCATC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 19 0.37
44 33 0.63
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (43 bp):
TCGCACACTTAGTGCCATTTAATAAACCGAACTTATAATAATA
Found at i:53257820 original size:26 final size:27
Alignment explanation
Indices: 53257791--53257846 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
53257781 TGCTCAATAC
53257791 AGTCATACAT-CTCATAAGGGCATAAT
1 AGTCATACATCCTCATAAGGGCATAAT
*** *
53257817 AGTCATTTTTCCTCATAGGGGCATAAT
1 AGTCATACATCCTCATAAGGGCATAAT
53257844 AGT
1 AGT
53257847 TATTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (27 bp):
AGTCATACATCCTCATAAGGGCATAAT
Found at i:53258123 original size:78 final size:78
Alignment explanation
Indices: 53258027--53258179 Score: 261
Period size: 78 Copynumber: 2.0 Consensus size: 78
53258017 GCCTTAGCCA
*
53258027 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTGTAGGCCCAC
1 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTATAGGCCCAC
53258092 ATGCCCGTGGTCG
66 ATGCCCGTGGTCG
* * *
53258105 TGTGAACTACACAGCCTGGCCCAATCTTCTCTACACGTCTATGTGGTTTACCCGTATGGGCCCAT
1 TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTATAGGCCCAC
*
53258170 ATGCTCGTGG
66 ATGCCCGTGG
53258180 GGCCTACACA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.27
Consensus pattern (78 bp):
TGTGAACTACACAGCCTGGCCCAATCTTCTCCACACGTCTATGTGGTTTACCCGTATAGGCCCAC
ATGCCCGTGGTCG
Found at i:53263502 original size:15 final size:15
Alignment explanation
Indices: 53263461--53263502 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
53263451 ATTTCAACTC
53263461 TTTGAGTTATTTCTCT
1 TTTGA-TTATTTCTCT
*
53263477 TTATGA-GATTTCTCT
1 TT-TGATTATTTCTCT
53263492 TTTGATTATTT
1 TTTGATTATTT
53263503 TAGAGGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 2 0.09
17 3 0.14
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTGATTATTTCTCT
Found at i:53264901 original size:3 final size:3
Alignment explanation
Indices: 53264893--53264924 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
53264883 TGATAACAGC
*
53264893 TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53264925 GTTGTTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:53266723 original size:21 final size:21
Alignment explanation
Indices: 53266699--53266738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53266689 TAAAATAACG
*
53266699 TAGTTTGGCCTTTTAACTTGA
1 TAGTTTGGACTTTTAACTTGA
*
53266720 TAGTTTTGACTTTTAACTT
1 TAGTTTGGACTTTTAACTT
53266739 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (21 bp):
TAGTTTGGACTTTTAACTTGA
Found at i:53267054 original size:17 final size:16
Alignment explanation
Indices: 53267038--53267086 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
53267028 CCAAAATTAT
53267038 TATTTTTTATTTTTTA
1 TATTTTTTATTTTTTA
53267054 TATTTTTTTATTTTTTAA
1 TA-TTTTTTATTTTTT-A
* *
53267072 AATTTTTAATTTTTT
1 TATTTTTTATTTTTT
53267087 TTAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTTTATTTTTTA
Found at i:53267057 original size:9 final size:9
Alignment explanation
Indices: 53267040--53267086 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 9
53267030 AAAATTATTA
53267040 TTTTT-TAT
1 TTTTTATAT
53267048 TTTTTATAT
1 TTTTTATAT
53267057 TTTTT-TAT
1 TTTTTATAT
* *
53267065 TTTTTAAAA
1 TTTTTATAT
53267074 TTTTTA-AT
1 TTTTTATAT
53267082 TTTTT
1 TTTTT
53267087 TTAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTATAT
Found at i:53267100 original size:18 final size:19
Alignment explanation
Indices: 53267064--53267102 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53267054 TATTTTTTTA
* *
53267064 TTTTTTAAAATTTTTAATT
1 TTTTTTAAAATTATAAATT
53267083 TTTTTTAAAA-TATAAATT
1 TTTTTTAAAATTATAAATT
53267101 TT
1 TT
53267103 AAAACTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAAATTATAAATT
Found at i:53267141 original size:19 final size:19
Alignment explanation
Indices: 53267117--53267167 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
53267107 CTTCTATAAA
53267117 TATTTTGAATTTTAAAAAT
1 TATTTTGAATTTTAAAAAT
* *
53267136 TATTTTCAAATTTTGAAAAT
1 TATTTT-GAATTTTAAAAAT
*
53267156 TACTTTG-ATTTT
1 TATTTTGAATTTT
53267168 TTTGTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 16 0.59
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (19 bp):
TATTTTGAATTTTAAAAAT
Found at i:53268964 original size:21 final size:21
Alignment explanation
Indices: 53268929--53268969 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53268919 TCAACTATAA
*
53268929 TAAATTTGAAGAATTGACAAC
1 TAAATTTGAAGAATTAACAAC
53268950 TAAAGTTTGAA-AATTAACAA
1 TAAA-TTTGAAGAATTAACAA
53268970 TTATGTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAATTTGAAGAATTAACAAC
Found at i:53275238 original size:19 final size:19
Alignment explanation
Indices: 53275211--53275275 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
53275201 TTGAATCGTG
*
53275211 TTTTATATTTTTTAATATT
1 TTTTTTATTTTTTAATATT
53275230 TTTTTTATTTTTTAA-ATT
1 TTTTTTATTTTTTAATATT
* * *
53275248 TTTTATGAATTATTTAATAAT
1 TTTT-T-TATTTTTTAATATT
53275269 TTTTTTA
1 TTTTTTA
53275276 ATAGAAACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.18
19 16 0.42
20 9 0.24
21 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTATTTTTTAATATT
Found at i:53275258 original size:11 final size:10
Alignment explanation
Indices: 53275211--53275277 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 10
53275201 TTGAATCGTG
53275211 TTTTAT-ATT
1 TTTTATAATT
53275220 TTTTA-ATATT
1 TTTTATA-ATT
*
53275230 TTTT-TTATT
1 TTTTATAATT
53275239 TTTTA-AATT
1 TTTTATAATT
53275248 TTTTATGAATT
1 TTTTAT-AATT
*
53275259 ATTTAATAATT
1 -TTTTATAATT
53275270 TTTT-TAAT
1 TTTTATAAT
53275278 AGAAACTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 24 0.51
10 10 0.21
11 8 0.17
12 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:53279987 original size:19 final size:20
Alignment explanation
Indices: 53279963--53280007 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
53279953 CCAAAGTTTT
* *
53279963 ATTTTAA-GTTATTTTGTAC
1 ATTTTAATGTTATTATGCAC
*
53279982 ATTTTAATTTTATTATGCAC
1 ATTTTAATGTTATTATGCAC
53280002 ATTTTA
1 ATTTTA
53280008 TTAACTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTAATGTTATTATGCAC
Found at i:53283304 original size:19 final size:19
Alignment explanation
Indices: 53283280--53283321 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
53283270 TCGGAGGCAG
53283280 CATCACACTATCGAGACAT
1 CATCACACTATCGAGACAT
53283299 CATCACACTATCGAGACAT
1 CATCACACTATCGAGACAT
53283318 CATC
1 CATC
53283322 TTTGGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (19 bp):
CATCACACTATCGAGACAT
Found at i:53286608 original size:38 final size:38
Alignment explanation
Indices: 53286566--53286719 Score: 134
Period size: 38 Copynumber: 4.0 Consensus size: 38
53286556 ATGCTGGAAT
*
53286566 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAA
1 TATATCCGGGTTAAATCCCACAGGCTTAGTGCTAGTAA
* * * *
53286604 TATATCTGGGTTAAAT-CTAGCAGGCTTCGTGCT-GGAA
1 TATATCCGGGTTAAATCCCA-CAGGCTTAGTGCTAGTAA
* * * *
53286641 TTATGTCCGGGTTAAATCCCGCAGG-TCTAGTGCTGGTAT
1 -TATATCCGGGTTAAATCCCACAGGCT-TAGTGCTAGTAA
* * *
53286680 TATATCTGAGCTTAAAGTCCCGCAGGCTTAGTGCTAGTAA
1 TATATCCG-GGTTAAA-TCCCACAGGCTTAGTGCTAGTAA
53286720 CTGGACTTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
37 6 0.06
38 58 0.62
39 9 0.10
40 19 0.20
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCTTAGTGCTAGTAA
Found at i:53286641 original size:76 final size:78
Alignment explanation
Indices: 53286535--53286714 Score: 215
Period size: 76 Copynumber: 2.3 Consensus size: 78
53286525 GTGTATCCGG
* * *
53286535 GCTTAAAGACCCGCAGGCTATA-TGCTGGAATTATATCCGGGTTAAATCCCACAGG-CTTCGTGC
1 GCTTAAAGTCCAGCAGGCT-TAGTGCTGGAATTATATCCGGGTTAAATCCCACAGGTC-TAGTGC
53286598 TAGTAATATATCTG-
64 TAGTAATATATCTGA
* * * * * *
53286612 GGTTAAA-TCTAGCAGGCTTCGTGCTGGAATTATGTCCGGGTTAAATCCCGCAGGTCTAGTGCTG
1 GCTTAAAGTCCAGCAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCACAGGTCTAGTGCTA
*
53286676 GTATTATATCTGA
66 GTAATATATCTGA
*
53286689 GCTTAAAGTCCCGCAGGCTTAGTGCT
1 GCTTAAAGTCCAGCAGGCTTAGTGCT
53286715 AGTAACTGGA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 56 0.66
77 13 0.15
78 15 0.18
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (78 bp):
GCTTAAAGTCCAGCAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCACAGGTCTAGTGCTA
GTAATATATCTGA
Found at i:53289312 original size:46 final size:46
Alignment explanation
Indices: 53289245--53289413 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
53289235 AACCCGCCCC
* *
53289245 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
53289291 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
53289339 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
53289384 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
53289414 TGGATGCTCA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.55
47 27 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:53289358 original size:93 final size:93
Alignment explanation
Indices: 53289250--53289420 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53289240 GCCCCTAAGT
* *
53289250 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53289315 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
53289343 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53289408 CGAGTTTGGATGC
66 CGAGTTCGGATGC
53289421 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53300904 original size:15 final size:14
Alignment explanation
Indices: 53300857--53300906 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 14
53300847 GGTTTTGTAA
53300857 CTTGGATTTCTTAAT
1 CTTGGATTTCTT-AT
53300872 CTTGGGAGTTTCTTTAT
1 CTT-GGA-TTTC-TTAT
53300889 CTTGGATTTCTCTAT
1 CTTGGATTTCT-TAT
53300904 CTT
1 CTT
53300907 AGACTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 13 0.42
16 6 0.19
17 9 0.29
18 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.54
Consensus pattern (14 bp):
CTTGGATTTCTTAT
Found at i:53309055 original size:33 final size:34
Alignment explanation
Indices: 53308977--53309063 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
53308967 GTTTCAGTTA
* * *
53308977 GGGCCTTAGCCCATTTCAGTAACAGTAGTAGTCT
1 GGGCCTAAGCCCATTTCAATAACAGTAGTAGTCG
* *
53309011 GGGCCTGAGCCCATTTCAATAACAGTATTAGT-G
1 GGGCCTAAGCCCATTTCAATAACAGTAGTAGTCG
*
53309044 GGGCCTAAGCCCATTACAAT
1 GGGCCTAAGCCCATTTCAAT
53309064 GTCAGTACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 18 0.38
34 29 0.62
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAATAACAGTAGTAGTCG
Found at i:53322905 original size:17 final size:17
Alignment explanation
Indices: 53322883--53322917 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53322873 CATAATATGC
53322883 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
53322900 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
53322917 A
1 A
53322918 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
ACTAAATATAGACATAA
Found at i:53323134 original size:17 final size:17
Alignment explanation
Indices: 53323112--53323146 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53323102 CATAATATGC
53323112 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
53323129 ACTAAATATAGACATAA
1 ACTAAATATAGACATAA
53323146 A
1 A
53323147 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (17 bp):
ACTAAATATAGACATAA
Found at i:53323272 original size:229 final size:230
Alignment explanation
Indices: 53322865--53323313 Score: 828
Period size: 229 Copynumber: 2.0 Consensus size: 230
53322855 CATGACTAAC
53322865 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
1 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
*
53322930 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAATAGCCCCCTAA
66 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCCTAA
53322995 ACCCTAGAGTTCGTTAAAACTTGGAATTCGCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
131 ACCCTAGAGTTCGTTAAAACTTGGAATTCGCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
*
53323060 AAAAAA-AATACTGTACTTACTCAAAATATAGACA
196 AAAAAAGAATACTATACTTACTCAAAATATAGACA
*
53323094 TAAGTTATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
1 TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
** *
53323159 GCGAACTTAACGAGTTTGCTCAAAACATCTGGGGTGGGCGGATATTTAATAGAAGAGCCCCCTAA
66 GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCCTAA
*
53323224 ACCCTAGAGTTCGTTAAAACTTGGAATTCTCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
131 ACCCTAGAGTTCGTTAAAACTTGGAATTCGCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
53323289 AAAAAAGAATACTATACTTACTCAA
196 AAAAAAGAATACTATACTTACTCAA
53323314 TTAACCAGCT
Statistics
Matches: 212, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
229 195 0.92
230 17 0.08
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (230 bp):
TAAGTCATCATAATATGCACTAAATATAGACATAAACTAAATATAGACATAAATCTATTAAAATT
GCGAACTTAACGAGTTCACTCAAAACATCTGGGGTGGGCGGATATTTAATAAAAGAGCCCCCTAA
ACCCTAGAGTTCGTTAAAACTTGGAATTCGCCAGAAGGTGAATCCAACAGAGTACGCCACTCAAT
AAAAAAGAATACTATACTTACTCAAAATATAGACA
Found at i:53323719 original size:28 final size:28
Alignment explanation
Indices: 53323679--53323733 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
53323669 TTGTTTAACT
*
53323679 TTAAGAGTTGTATCATAGATGGTTACCC
1 TTAAGAGTCGTATCATAGATGGTTACCC
* *
53323707 TTAAGAGTCGTATCGTGGATGGTTACC
1 TTAAGAGTCGTATCATAGATGGTTACC
53323734 ATTAGGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (28 bp):
TTAAGAGTCGTATCATAGATGGTTACCC
Found at i:53327444 original size:75 final size:75
Alignment explanation
Indices: 53327316--53327465 Score: 248
Period size: 75 Copynumber: 2.0 Consensus size: 75
53327306 AAGGAAAACC
53327316 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
1 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
53327381 AAAAGAATAT
66 AAAAGAATAT
* * *
53327391 ATGATTATTCTCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAGA-GAATTATATTCTTTT
1 ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAA-ATGAATTATATTCTTTC
*
53327455 CAAAGGAATAT
65 CAAAAGAATAT
53327466 TAATTTCCAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 69 0.99
76 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (75 bp):
ATGATTATTCCCTTATAAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
AAAAGAATAT
Found at i:53327700 original size:138 final size:138
Alignment explanation
Indices: 53327441--53328134 Score: 1050
Period size: 138 Copynumber: 5.0 Consensus size: 138
53327431 TAGAAAAGAG
* * *
53327441 AATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTATATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
53327506 TATAACTGCTTATATTAATAAATTTGGTAAAATATATACAACTAATATCTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53327571 CATATACT
131 CATATATT
* * *
53327579 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGATCGAAATTAGTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
53327644 TATAACTGTTTATATTAATAAATTCT-GTAAAATATATACAAATAACATTTTATATGAATCAAAT
66 TATAACTGTTTATATTAATAAATT-TGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
53327708 TCATATATT
130 TCATATATT
* * * **
53327717 AATTACATTCTTTCCGAAAGAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* ** * *
53327782 TCTAACTGTTTATATTAATAAATTCAGTAAATAAATATACAATTAATATTTTGTATGAACCAAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAA-ATATATACAATTAATATTTTGTATGAATCAAAT
*
53327847 TCATGTATT
130 TCATATATT
**
53327856 AATTATATTCTTTCCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
53327921 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATGTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53327986 CATAGATT
131 CATATATT
* * *
53327994 AATTATATT-TTTCCAAAAGAATATTACTTTCCGTGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
53328058 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53328123 CGTATATT
131 CATATATT
53328131 AATT
1 AATT
53328135 TTATCTATGT
Statistics
Matches: 505, Mismatches: 48, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
137 122 0.24
138 259 0.51
139 124 0.25
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:53327940 original size:277 final size:275
Alignment explanation
Indices: 53327441--53328134 Score: 1059
Period size: 277 Copynumber: 2.5 Consensus size: 275
53327431 TAGAAAAGAG
* * *
53327441 AATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTATATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAA-GAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
53327506 TATAACTGCTTATATTAATAAATTTGGTAAAATATATACAACTAATATCTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
53327571 CATATACTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGATCGAAA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAAA
* *
53327636 TTAGTTAATATAACTGTTTATATTAATAAATTCT-GTAAAATATATACAAATAACATTTTATATG
195 TTAATTAATATAACTGTTTATATTAATAAATT-TGGTAAAATATATACAAATAACATGTTATATG
*
53327700 AATCAAATTCATATATT
259 AATCAAATTCATAGATT
* * *
53327717 AATTACATTCTTTCCGAAAGAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTCTTTCC-AAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
53327782 TCTAACTGTTTATATTAATAAATTCAGTAAATAAATATACAATTAATATTTTGTATGAACCAAAT
65 TATAACTGTTTATATTAATAAATTTAGTAAA-ATATATACAATTAATATTTTGTATGAATCAAAT
* ** *
53327847 TCATGTATTAATTATATTCTTTCCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAA
129 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAA
* * * *
53327912 ATTAATTAATATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATGTTGTATG
194 ATTAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAAATAACATGTTATATG
53327977 AATCAAATTCATAGATT
259 AATCAAATTCATAGATT
* *
53327994 AATTATATT-TTTCCAAAAGAATATTACTTTCCGTGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCC-AAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
53328058 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
53328123 CGTATATTAATT
130 CATATATTAATT
53328135 TTATCTATGT
Statistics
Matches: 376, Mismatches: 39, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
275 42 0.11
276 162 0.43
277 172 0.46
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (275 bp):
AATTATATTCTTTCCAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAAAT
TAATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAAATAACATGTTATATGAA
TCAAATTCATAGATT
Found at i:53331195 original size:12 final size:12
Alignment explanation
Indices: 53331176--53331205 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53331166 TAAGGGATGA
53331176 GAGGAGAGATTT
1 GAGGAGAGATTT
*
53331188 GGGGAGAGATTT
1 GAGGAGAGATTT
53331200 GAGGAG
1 GAGGAG
53331206 TGGATCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:53338971 original size:12 final size:12
Alignment explanation
Indices: 53338952--53338981 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53338942 TGAGGGATGA
53338952 GAGGAGAGATTT
1 GAGGAGAGATTT
*
53338964 GGGGAGAGATTT
1 GAGGAGAGATTT
53338976 GAGGAG
1 GAGGAG
53338982 TGGATCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:53340287 original size:19 final size:19
Alignment explanation
Indices: 53340255--53340308 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
53340245 GGGCTTATTA
53340255 GGCC-ACAT-GGTCGTGTG
1 GGCCAACATGGGTCGTGTG
*
53340272 GGCCAACATGGGTCGTATG
1 GGCCAACATGGGTCGTGTG
*
53340291 GGCTAACATGGGTCGTGT
1 GGCCAACATGGGTCGTGT
53340309 TATGGGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 24 0.75
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (19 bp):
GGCCAACATGGGTCGTGTG
Found at i:53354957 original size:46 final size:46
Alignment explanation
Indices: 53354900--53355168 Score: 262
Period size: 46 Copynumber: 5.8 Consensus size: 46
53354890 TGATTGAGCA
* *
53354900 TCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAGG
* * * * *
53354946 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAAGG
* *
53354991 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAGG
* * * *
53355039 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAAGG
* *
53355084 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAGG
* * *
53355132 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53355169 GCGGGTTACA
Statistics
Matches: 180, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
45 6 0.03
46 101 0.56
47 67 0.37
48 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAGG
Found at i:53355012 original size:47 final size:47
Alignment explanation
Indices: 53354950--53355114 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 47
53354940 CGAATGTCCA
53354950 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * *
53354997 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
53355043 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
53355090 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
53355115 ACTTATGGAT
Statistics
Matches: 103, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 29 0.28
47 54 0.52
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
Found at i:53355056 original size:93 final size:93
Alignment explanation
Indices: 53354897--53355161 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
53354887 GGATGATTGA
* * *
53354897 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
53354962 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
53354990 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
53355055 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53355083 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
53355148 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53355162 CTTATGGGCG
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53359198 original size:43 final size:42
Alignment explanation
Indices: 53359078--53359199 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
53359068 ACACGTATCG
* * * *
53359078 ATGCCACTGTCCCACACAGGGTGTTACACG-AAGTCGATTAACG
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAA-TC-ATAAACA
* * * * *
53359121 ATGCCAATGTTCCACACATGATCTTACACATAATCATAATACA
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAATCATAA-ACA
*
53359164 ATGCCACTGTCCCACACAAGGTCTTACATGTAATCA
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAATCA
53359200 CATCTCAATA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.05
43 58 0.92
44 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCACACAAGGTCTTACACGTAATCATAAACA
Found at i:53364053 original size:43 final size:43
Alignment explanation
Indices: 53364006--53364113 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
53363996 GATTAATGAG
53364006 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
* * * *
53364049 ATGTGATTACGTGTAAGACCATGTCTAGGATATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
* *
53364092 ATTTGATT-TCGAGTAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
53364114 AGCTAAGCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
Found at i:53372993 original size:27 final size:27
Alignment explanation
Indices: 53372961--53373013 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53372951 ACAGTCATAC
*
53372961 ATCTCATA-AGGGCATAATAGTCATTTT
1 ATCTCATAGA-GGCATAACAGTCATTTT
*
53372988 ATCTCATGGAGGCATAACAGTCATTT
1 ATCTCATAGAGGCATAACAGTCATTT
53373014 ATCACTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (27 bp):
ATCTCATAGAGGCATAACAGTCATTTT
Found at i:53381676 original size:36 final size:36
Alignment explanation
Indices: 53381629--53381703 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
53381619 GGGTGTCGTC
53381629 TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
1 TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
53381665 TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
1 TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
53381701 TTT
1 TTT
53381704 CTCTTTGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (36 bp):
TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
Found at i:53384471 original size:99 final size:98
Alignment explanation
Indices: 53384346--53384524 Score: 259
Period size: 99 Copynumber: 1.8 Consensus size: 98
53384336 AAAACTATGA
* * ** *
53384346 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATT-GGTCACATGTGTAGTAC
53384411 TAAGTACAGGCTACTACGTGTACAGGATAATTGG
65 TAAGTACAGGCTACTACGTGTACAGGATAATTGG
* **
53384445 TCACGTGTGTAGTATTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
* *
53384510 ATGTGCAGGCTACTA
66 AAGTACAGGCTACTA
53384525 TGCGTACCAG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
98 30 0.43
99 40 0.57
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
AAGTACAGGCTACTACGTGTACAGGATAATTGG
Found at i:53384532 original size:49 final size:49
Alignment explanation
Indices: 53384300--53384537 Score: 255
Period size: 49 Copynumber: 4.8 Consensus size: 49
53384290 TGAGGTCGCA
* * ** * *
53384300 TGTGCAGTACTAAGTGCAGGCTACTATGCATACTC-GAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-T-TGGTCACG
* * **
53384351 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
53384401 TGTGTAGTACTAAGTACAGGCTACTACGTGTA-CAGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATAATTGGTCACG
* * * *
53384450 TGTGTAGTATTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
53384499 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
53384538 GCTTTGGCTA
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 87 0.54
50 44 0.28
51 29 0.18
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:53388657 original size:12 final size:12
Alignment explanation
Indices: 53388642--53388701 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
53388632 CTTATTCTCA
53388642 TTTTATTTTGAT
1 TTTTATTTTGAT
53388654 TTTTATTTTGAT
1 TTTTATTTTGAT
*
53388666 TTTTATTTTCAT
1 TTTTATTTTGAT
**
53388678 TTCAATTTT-ATT
1 TTTTATTTTGA-T
53388690 ATTTTATTTTGA
1 -TTTTATTTTGA
53388702 AAGACATATC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
11 1 0.03
12 31 0.77
13 7 0.17
14 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (12 bp):
TTTTATTTTGAT
Found at i:53388672 original size:35 final size:37
Alignment explanation
Indices: 53388611--53388701 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 37
53388601 ATCATCCTAT
*
53388611 TTTTATT-TATTTATTCTT-ATTCTTATTCTCATTT-TA
1 TTTTATTAT-TTTATT-TTGATTCTTATTCTCATTTCAA
* *
53388647 TTTTGA-T-TTTTATTTTGATTTTTATTTTCATTTCAA
1 TTTT-ATTATTTTATTTTGATTCTTATTCTCATTTCAA
53388683 TTTTATTATTTTATTTTGA
1 TTTTATTATTTTATTTTGA
53388702 AAGACATATC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
34 2 0.04
35 21 0.45
36 12 0.26
37 12 0.26
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (37 bp):
TTTTATTATTTTATTTTGATTCTTATTCTCATTTCAA
Found at i:53399052 original size:41 final size:42
Alignment explanation
Indices: 53398995--53399079 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 42
53398985 ATCAGAATTA
*
53398995 TCTTTCAAATGTGATTTCTGCACTTA-TGCTGAGAAGTTGGT
1 TCTTTCAAATGTGATTTCTGCACTTAGAGCTGAGAAGTTGGT
53399036 TCTTTCAAATGTGATTTCTGCACTTAGAGCTGAGAAGTTGGT
1 TCTTTCAAATGTGATTTCTGCACTTAGAGCTGAGAAGTTGGT
53399078 TC
1 TC
53399080 ATAAGGGTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 26 0.62
42 16 0.38
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (42 bp):
TCTTTCAAATGTGATTTCTGCACTTAGAGCTGAGAAGTTGGT
Found at i:53409428 original size:15 final size:14
Alignment explanation
Indices: 53409403--53409432 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
53409393 CTTCTTTCTT
53409403 TTTCTTATTCTTTC
1 TTTCTTATTCTTTC
53409417 TTTCTATATTCTTTC
1 TTTCT-TATTCTTTC
53409432 T
1 T
53409433 CTTTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTATTCTTTC
Found at i:53409435 original size:21 final size:20
Alignment explanation
Indices: 53409394--53409439 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
53409384 TCCCTTTTCC
*
53409394 TTCTTTCTTTTTCTTATTCT
1 TTCTTTCTTATTCTTATTCT
53409414 TTCTTTCTATATTCTT-TCTCT
1 TTCTTTCT-TATTCTTAT-TCT
53409435 TTCTT
1 TTCTT
53409440 CTTCCCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTTCTTATTCTTATTCT
Found at i:53412600 original size:47 final size:47
Alignment explanation
Indices: 53412545--53412743 Score: 353
Period size: 47 Copynumber: 4.2 Consensus size: 47
53412535 TAGTATTAAT
53412545 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
53412592 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGCAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
53412639 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
* * *
53412686 TATGTGATAAGGCTGAATGGCCAATGTAATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
53412733 AATGTGATAAG
1 TATGTGATAAG
53412744 TCCCGAAGGG
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 146 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
Found at i:53415544 original size:23 final size:23
Alignment explanation
Indices: 53415514--53415561 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
53415504 TTTGAGTCCC
*
53415514 TTTA-TTTTACTATGAATTTTATT
1 TTTATTTTTA-TATAAATTTTATT
*
53415537 TTTATTTTTATTTAAATTTTATT
1 TTTATTTTTATATAAATTTTATT
53415560 TT
1 TT
53415562 CTCTTCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATTTTTATATAAATTTTATT
Found at i:53430589 original size:47 final size:47
Alignment explanation
Indices: 53430532--53430835 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
53430522 ATTGATGTAC
* * *
53430532 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
53430579 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * * *
53430628 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
53430675 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
53430722 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
53430769 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
53430816 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
53430836 TTCCGAAGGG
Statistics
Matches: 236, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 190 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:53433951 original size:94 final size:94
Alignment explanation
Indices: 53433786--53434042 Score: 290
Period size: 94 Copynumber: 2.7 Consensus size: 94
53433776 TTTGTGCGCC
* * * * *
53433786 AGTGTAAGACATGTCTGGGACATGC-TTCGGCCACATTATGAGAGGCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATT-GGCCATACTATGATAGCCAGTGTAAGACCATGTCTG
* * *
53433850 GGGCATGGCATCGACATC-CAGACAAGGGCT
65 GGACATGGCACCGACA-CAAAGACAAGGGCT
*
53433880 AGTGTAAGACATGTCTAGGACATGCATTAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* ** *
53433945 GACATGGCACCGGCACAAAGATGAGTGCT
66 GACATGGCACCGACACAAAGACAAGGGCT
* * *
53433974 AGTATAAGACATGTCTAGGACATGCATTGGCC-T-CGATAGAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCATAC--TA-TGATAGCCAGTGTAAGACCATGTC
53434036 TGGGACA
63 TGGGACA
53434043 CGCATCGGCT
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.01
94 120 0.85
95 18 0.13
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTAGGACATGCATTGGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCACCGACACAAAGACAAGGGCT
Found at i:53434029 original size:47 final size:44
Alignment explanation
Indices: 53433783--53434097 Score: 179
Period size: 47 Copynumber: 6.8 Consensus size: 44
53433773 TAATTTGTGC
* * * * *
53433783 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATA-GA-GATA
* * * *
53433829 GGCAGTGTAAGACCATGTCTGGGGCATGGCATCGAC-ATCCAGACA-A
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAT--AGAGATA
* * ** * *
53433875 GGGCTAGTGTAAGACATGTCTAGGACATGCATTAGCCATACTATGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATA-GA-GATA
* * *
53433923 GCCAGTGTAAGACCATGTCTGGGACATGGCACCGGC-ACAAAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATAGAGAT-A
* * * *
53433969 GTGCTAGTATAAGACATGTCTAGGACATGCATTGGCCTCGATAGAGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--ATAGAGATA
* * *
53434018 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATAGAGATA
*
53434061 TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
53434098 AATATATCCC
Statistics
Matches: 207, Mismatches: 40, Indels: 44
0.71 0.14 0.15
Matches are distributed among these distances:
43 6 0.03
44 12 0.06
45 16 0.08
46 46 0.22
47 86 0.42
48 33 0.16
49 2 0.01
50 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATAGAGATA
Found at i:53441482 original size:47 final size:46
Alignment explanation
Indices: 53441422--53441688 Score: 215
Period size: 47 Copynumber: 5.7 Consensus size: 46
53441412 GACAAGGGCT
*
53441422 AGTGTAAGACATGTCTGGGACATGCATTAGC-CATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACATA-TATGATAGCC
* * * *
53441468 AGTGTAAGACCATGTCTGGGACATGGCACCGGCACAGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATATATGA-TAGCC
* * * * *
53441516 AGTATAAGACATGTCTGGGACATGCATCGGCCTCA-ACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACATATA-TGATAGCC
* ** * *
53441563 AGTGTAAGACGTGTCTGGGACACACATCAGCTA-AGAGT-TG-TA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACATA-TATGATAGCC
* *
53441607 AGTGTAAGACATGTCTGGGACATGCATCAACACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CATATATGATAGCC
*
53441655 AGTGTAAGACCATGTTTGGGACATGGCATCAGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA
53441689 GTGTATCCCA
Statistics
Matches: 175, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 3 0.02
46 25 0.14
47 63 0.36
48 30 0.17
49 17 0.10
50 8 0.05
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATATATGATAGCC
Found at i:53441493 original size:94 final size:93
Alignment explanation
Indices: 53441328--53441684 Score: 295
Period size: 94 Copynumber: 3.8 Consensus size: 93
53441318 TTTGCGCGCC
* * * * * *
53441328 AGTGTAAGACGTGTCT-GGAGCATGCTTTGGCCACATTATGAGAGCCACTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGA-CATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCT-
* *
53441392 GGG-CATGGCATCGACATCCAGACAAGGGCT
64 GGGACATGGCATCGACAT-CAGAGAAGTGCT
*
53441422 AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
53441487 GACATGGCACCGGCA-CAGAGATGAGTGCC
66 GACATGGCATCGACATCAGAGA--AGTGCT
* ** *
53441516 AGTATAAGACATGTCTGGGACATGCATCGGCC-TCAAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
** * ** *
53441577 CTGGGACA-CACATC-AGC-TAAGAGTTGTACT
62 CTGGGACATGGCATCGA-CATCAGAGAAGTGCT
* * *
53441607 AGTGTAAGACATGTCTGGGACATGCATCAACACGCATA-TATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCAT-TA-GC-CATACTATGAGAGCCAGTGTAAGACCATGTC
53441671 TGGGACATGGCATC
63 TGGGACATGGCATC
53441685 AGCAGTGTAT
Statistics
Matches: 211, Mismatches: 34, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
91 29 0.14
92 18 0.09
93 28 0.13
94 117 0.55
95 19 0.09
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAGAGAAGTGCT
Found at i:53455905 original size:46 final size:46
Alignment explanation
Indices: 53455852--53456027 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
53455842 TGGTTAAGCA
53455852 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53455898 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53455943 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTCTGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
53455991 CCCGAGCTCTTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53456028 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53456008 original size:93 final size:93
Alignment explanation
Indices: 53455849--53456020 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
53455839 GGATGGTTAA
* *
53455849 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
53455914 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
53455942 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTCTGGATGCGAATGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
53456007 TGAGTCCAAGTTCG
66 TGAGTCCAAGTTCG
53456021 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:53461098 original size:46 final size:46
Alignment explanation
Indices: 53461042--53461170 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
53461032 TGGTTAAGCA
*
53461042 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
53461088 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
53461134 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53461171 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53462767 original size:134 final size:134
Alignment explanation
Indices: 53462604--53462878 Score: 453
Period size: 134 Copynumber: 2.1 Consensus size: 134
53462594 GAGGAACAAC
*
53462604 AGAAAGAATCGGTTCCTAGAAGCTCAATGCAGGAGCACAATTCGACCAACAAGGATTAGATTGCA
1 AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCGACCAACAAGGATTAGATTGCA
*
53462669 CTGAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAACTGAATGAGATAGA
66 CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAACTGAATGAGATAGA
53462734 GAGG
131 GAGG
* * *
53462738 AGAAAGAATCAGTTCCTAGAAGGTTAATGCAGGAGCACTATTCGACCAACAAGGATTAGATTGCA
1 AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCGACCAACAAGGATTAGATTGCA
* * * * *
53462803 CTAAAGAGAGGGGAGAAAGAAAAAGAATGACTCGGTCACCATAAGCCAAAATTGAATGAGATGGA
66 CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAACTGAATGAGATAGA
53462868 GAGG
131 GAGG
53462872 A-AAAGAA
1 AGAAAGAA
53462879 GATACAATCG
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
133 6 0.05
134 125 0.95
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (134 bp):
AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCGACCAACAAGGATTAGATTGCA
CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAACTGAATGAGATAGA
GAGG
Found at i:53465437 original size:16 final size:17
Alignment explanation
Indices: 53465406--53465437 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53465396 TTTTTTTCAA
53465406 AATTTTTTAAAGAATTC
1 AATTTTTTAAAGAATTC
53465423 AATTTTTTAAA-AATT
1 AATTTTTTAAAGAATT
53465438 GTTTTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTTTTAAAGAATTC
Found at i:53468429 original size:193 final size:193
Alignment explanation
Indices: 53468096--53468481 Score: 675
Period size: 193 Copynumber: 2.0 Consensus size: 193
53468086 TGTCTAATTT
* * *
53468096 GATAAAAGGACTTAATCGTGAAAATTGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGTT
1 GATAAAAGGACTTAATAGTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGCT
* * *
53468161 ATGGTTTCTTAATTTTAAAGTCCTTAAAATGGAATTTGGCCATTGAAAAACGAGATTGATGGTTA
66 ATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACGGTTA
*
53468226 TGGGTTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
131 TGGATTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
53468289 GATAAAAGGACTTAATTAG-GAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGC
1 GATAAAAGGACTTAA-TAGTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGC
* *
53468353 TATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAATGGGATGGACGGTT
65 TATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACGGTT
53468418 ATGGATTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
130 ATGGATTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
53468482 ATAGGTAATA
Statistics
Matches: 183, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
193 181 0.99
194 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (193 bp):
GATAAAAGGACTTAATAGTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGCT
ATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACGGTTA
TGGATTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
Found at i:53471314 original size:50 final size:53
Alignment explanation
Indices: 53471257--53471367 Score: 192
Period size: 50 Copynumber: 2.2 Consensus size: 53
53471247 ATGTCATTTT
*
53471257 CATTTTCATTTTGGAGAAAA-CACA-TTCATTTCCAAATGTTTCC-ATTTCTC
1 CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
53471307 CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
1 CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
53471360 CATTTTCA
1 CATTTTCA
53471368 CCATTTCAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 20 0.35
51 4 0.07
52 19 0.33
53 14 0.25
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (53 bp):
CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
Found at i:53474022 original size:39 final size:39
Alignment explanation
Indices: 53473968--53474044 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
53473958 ACCATAAAGA
53473968 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
1 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
53474007 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATA
1 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATA
53474045 TACACATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (39 bp):
TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
Found at i:53480160 original size:16 final size:16
Alignment explanation
Indices: 53480119--53480170 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
53480109 GTAATAGACT
* *
53480119 AGCTTGTAAACTAAGG
1 AGCTTGTAAACTGACG
* *
53480135 AGCACT-TAAACTGATG
1 AGC-TTGTAAACTGACG
53480151 AGCTTGTAAACTGACG
1 AGCTTGTAAACTGACG
53480167 AGCT
1 AGCT
53480171 CACACGACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (16 bp):
AGCTTGTAAACTGACG
Found at i:53481505 original size:28 final size:28
Alignment explanation
Indices: 53481474--53481573 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
53481464 GTGGAAGTTT
53481474 GTCAAGACTATCTTATATGTTGAAGTCC
1 GTCAAGACTATCTTATATGTTGAAGTCC
* *
53481502 GTCAGGACTATCTTATATGTTGAAGTCT
1 GTCAAGACTATCTTATATGTTGAAGTCC
* * *
53481530 GTCAGGACTATCTTATATGTGGAA-CCC
1 GTCAAGACTATCTTATATGTTGAAGTCC
* *
53481557 ATCAAGACTATATTATA
1 GTCAAGACTATCTTATA
53481574 AGTGGAAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 15 0.23
28 49 0.77
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (28 bp):
GTCAAGACTATCTTATATGTTGAAGTCC
Found at i:53482116 original size:48 final size:48
Alignment explanation
Indices: 53482036--53482132 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
53482026 TAAGTGAATA
53482036 AGGATTCCATGTCAGATTACTAAGATTATTGGAATGAGAGTTGTGGTT
1 AGGATTCCATGTCAGATTACTAAGATTATTGGAATGAGAGTTGTGGTT
* * *
53482084 AGGATTCCATGTTAGATTACTATGATTGTTGGAATGAGAGTTGTGGTT
1 AGGATTCCATGTCAGATTACTAAGATTATTGGAATGAGAGTTGTGGTT
53482132 A
1 A
53482133 TGTAAAATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (48 bp):
AGGATTCCATGTCAGATTACTAAGATTATTGGAATGAGAGTTGTGGTT
Done.