Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 119 of 378
Found at i:33258581 original size:29 final size:30
Alignment explanation
Indices: 33258515--33258582 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
33258505 ATAATTTGTG
* * *
33258515 AAAATTAGATCAAATTAAAATTTCATATAT
1 AAAATTACATAAAATCAAAATTTCATATAT
* *
33258545 AAAATTACATAAAATCAAAATTT-TTGTAT
1 AAAATTACATAAAATCAAAATTTCATATAT
33258574 AAAATTACA
1 AAAATTACA
33258583 CATTAGACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATAAAATCAAAATTTCATATAT
Found at i:33264307 original size:3 final size:3
Alignment explanation
Indices: 33264299--33264355 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
33264289 GTTATAATAC
33264299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33264347 ATT ATT ATT
1 ATT ATT ATT
33264356 GTAATTTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33268246 original size:133 final size:133
Alignment explanation
Indices: 33268092--33268360 Score: 538
Period size: 133 Copynumber: 2.0 Consensus size: 133
33268082 TTATAAATCT
33268092 TTGCAAGTAAAAGGAAAAACAATTAAGATTTAAGTTTAGCTTTAAGATTGATTTGATCATAATCT
1 TTGCAAGTAAAAGGAAAAACAATTAAGATTTAAGTTTAGCTTTAAGATTGATTTGATCATAATCT
33268157 TTTTGGATGATTTACCTTTAAATTATAGTTTGTTGTCTACTGGAATAATTTTTAGAATAAATAAA
66 TTTTGGATGATTTACCTTTAAATTATAGTTTGTTGTCTACTGGAATAATTTTTAGAATAAATAAA
33268222 TGG
131 TGG
33268225 TTGCAAGTAAAAGGAAAAACAATTAAGATTTAAGTTTAGCTTTAAGATTGATTTGATCATAATCT
1 TTGCAAGTAAAAGGAAAAACAATTAAGATTTAAGTTTAGCTTTAAGATTGATTTGATCATAATCT
33268290 TTTTGGATGATTTACCTTTAAATTATAGTTTGTTGTCTACTGGAATAATTTTTAGAATAAATAAA
66 TTTTGGATGATTTACCTTTAAATTATAGTTTGTTGTCTACTGGAATAATTTTTAGAATAAATAAA
33268355 TGG
131 TGG
33268358 TTG
1 TTG
33268361 GCAGCCCATT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 136 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (133 bp):
TTGCAAGTAAAAGGAAAAACAATTAAGATTTAAGTTTAGCTTTAAGATTGATTTGATCATAATCT
TTTTGGATGATTTACCTTTAAATTATAGTTTGTTGTCTACTGGAATAATTTTTAGAATAAATAAA
TGG
Found at i:33270345 original size:23 final size:24
Alignment explanation
Indices: 33270314--33270359 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33270304 ATTAAAAAAA
*
33270314 AGATATATT-TTTATATTTTAGATT
1 AGATATATTGTTAAT-TTTTAGATT
33270338 AGAT-TATTGTTAATTTTTAGAT
1 AGATATATTGTTAATTTTTAGAT
33270360 ATAACTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (24 bp):
AGATATATTGTTAATTTTTAGATT
Found at i:33272992 original size:58 final size:58
Alignment explanation
Indices: 33272927--33273048 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
33272917 GGGTATCGAT
33272927 ACTTAATTTTTCAAACATATAGGAAAAGTCATTATATTGATAAAAACATTTAAGATAC
1 ACTTAATTTTTCAAACATATAGGAAAAGTCATTATATTGATAAAAACATTTAAGATAC
33272985 ACTTAATTTTTCAAACATATAGGAAAAGTCATTATATTGATAAAAACATTTAAGATAC
1 ACTTAATTTTTCAAACATATAGGAAAAGTCATTATATTGATAAAAACATTTAAGATAC
*
33273043 ATTTAA
1 ACTTAA
33273049 ACATGGGGTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (58 bp):
ACTTAATTTTTCAAACATATAGGAAAAGTCATTATATTGATAAAAACATTTAAGATAC
Found at i:33282352 original size:14 final size:14
Alignment explanation
Indices: 33282333--33282361 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33282323 TTTATGTTAG
33282333 AGTCCTAATTAATA
1 AGTCCTAATTAATA
33282347 AGTCCTAATTAATA
1 AGTCCTAATTAATA
33282361 A
1 A
33282362 CTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AGTCCTAATTAATA
Found at i:33286469 original size:42 final size:42
Alignment explanation
Indices: 33286364--33286507 Score: 173
Period size: 44 Copynumber: 3.4 Consensus size: 42
33286354 CGATATGTGT
* *
33286364 TTTCGTGTAAGACCACGTCTAGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTTTAGGACATTGGCATCGTA-TT-TGA
*
33286407 TTTACGTGTAAGACCATGTTTAGGACATTAGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTTTAGGACATTGGCATCGTATTTGA
* * *
33286450 TTTCGTGTAAGACCTTGTTTGGGACAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCATGTTTAGGACATTGGCATCG-TATTTGA
* *
33286493 TTACATGTAAGACCA
1 TTTCGTGTAAGACCA
33286508 CATCTGGGAC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
42 28 0.32
43 28 0.32
44 31 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTTTAGGACATTGGCATCGTATTTGA
Found at i:33286522 original size:42 final size:42
Alignment explanation
Indices: 33286369--33286524 Score: 118
Period size: 42 Copynumber: 3.7 Consensus size: 42
33286359 TGTGTTTTCG
* * * *
33286369 TGTAAGACCACGTCTAGGACATTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACATCTGGGACAGTGGCATCGTA-TT-TGA-TTACA
** * * * * * *
33286413 TGTAAGACCATGTTTAGGACATTAGCATCGTATTTGATTTCG
1 TGTAAGACCACATCTGGGACAGTGGCATCGTATTTGATTACA
*** *
33286455 TGTAAGACCTTGTTTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACATCTGGGACAGTGGCATCG-TATTTGATTACA
33286498 TGTAAGACCACATCTGGGAC-GTGGCAT
1 TGTAAGACCACATCTGGGACAGTGGCAT
33286525 TTTGCGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 37 0.39
43 29 0.30
44 29 0.30
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:33289506 original size:68 final size:67
Alignment explanation
Indices: 33289434--33289581 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
33289424 CATCATGTGT
* * * *
33289434 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
33289496 ATGTAG
62 ATGTAG
* * *
33289502 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
33289567 AG
66 AG
33289569 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
33289582 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:33290736 original size:2 final size:2
Alignment explanation
Indices: 33290729--33290757 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33290719 TCATGACATG
33290729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33290758 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33293597 original size:39 final size:39
Alignment explanation
Indices: 33293460--33293644 Score: 210
Period size: 40 Copynumber: 4.7 Consensus size: 39
33293450 TCGGATGATA
* * **
33293460 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACT-AT
* * * *
33293500 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
* * * *
33293539 ATCTGGGCTAAGTCCCGAAGGCGTTTGTGCCAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
33293579 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
*
33293618 AACCGGGTTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
33293645 AGCTAGTGGC
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 36 0.29
40 85 0.69
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
Found at i:33293658 original size:40 final size:40
Alignment explanation
Indices: 33293457--33293667 Score: 207
Period size: 40 Copynumber: 5.3 Consensus size: 40
33293447 TGTTCGGATG
* *
33293457 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGACT
* * *
33293497 A-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * * * * *
33293537 ATATCTGGGCTAAGTCCCGAAGGCGTTTGTGCCAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33293577 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
33293616 ATAACCGGGTTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
33293656 ATATCC-GGCTAA
1 ATAACCGGGCTAA
33293668 ACTCCGAAGG
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
39 41 0.29
40 98 0.69
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:33293677 original size:79 final size:80
Alignment explanation
Indices: 33293457--33293667 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 80
33293447 TGTTCGGATG
33293457 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
*
33293520 CATTCGTGCGAGCTACT
64 CATTCGTGCAAGCTACT
* * * * * ***
33293537 ATATCTGGGCTAAGTCCCGAAGGCGTTTGTGCCAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
33293601 TTTGTGCAAGTTACT
66 TTCGTGCAAGCTACT
*
33293616 ATAACCGGGTTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
33293668 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 73 0.68
80 32 0.30
81 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACT
Found at i:33298702 original size:15 final size:15
Alignment explanation
Indices: 33298682--33298711 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33298672 CAAACTATGT
*
33298682 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
33298697 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
33298712 GATAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:33305810 original size:16 final size:17
Alignment explanation
Indices: 33305771--33305815 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
33305761 GCACCCCAAG
*
33305771 GCAAAAAGC-TTGGCCTT
1 GCAAAAA-CTTTGGCCTC
33305788 GCAAAAACTTTGGCCTC
1 GCAAAAACTTTGGCCTC
33305805 GCAAAAACTTT
1 GCAAAAACTTT
33305816 ATCCGTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
GCAAAAACTTTGGCCTC
Found at i:33309253 original size:18 final size:18
Alignment explanation
Indices: 33309230--33309265 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33309220 CCTTTATATA
33309230 AAGTAAGCTCAGAGGAGC
1 AAGTAAGCTCAGAGGAGC
33309248 AAGTAAGCTCAGAGGAGC
1 AAGTAAGCTCAGAGGAGC
33309266 CCGATTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.33, T:0.11
Consensus pattern (18 bp):
AAGTAAGCTCAGAGGAGC
Found at i:33316810 original size:19 final size:19
Alignment explanation
Indices: 33316783--33316819 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33316773 ACTTAATACT
*
33316783 TAAGCATATAATAAAATAA
1 TAAGAATATAATAAAATAA
33316802 TAAGAATATAATAAAATA
1 TAAGAATATAATAAAATA
33316820 TAAAAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAGAATATAATAAAATAA
Found at i:33316831 original size:19 final size:19
Alignment explanation
Indices: 33316788--33316842 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
33316778 ATACTTAAGC
*
33316788 ATATAATAAAATAATAAGA
1 ATATAATAAAATAAAAAGA
33316807 ATATAATAAAATATAAAAGA
1 ATATAATAAAATA-AAAAGA
33316827 A-ATAA-AGAAATAAAAA
1 ATATAATA-AAATAAAAA
33316843 CAAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 5 0.15
19 22 0.67
20 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
ATATAATAAAATAAAAAGA
Found at i:33317733 original size:44 final size:44
Alignment explanation
Indices: 33317683--33317771 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
33317673 TGTACAGAGA
33317683 TACTTTGACCTTGAGTCGATGAGGCACTAAT-AGTGTCATACTGT
1 TACTTTGACCTTGAGTCGATGAGGCACT-ATGAGTGTCATACTGT
* * * *
33317727 TACTTTGACTTTGTGTCGATGAGGCACTTTGTGTGTCATACTGT
1 TACTTTGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
33317771 T
1 T
33317772 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (44 bp):
TACTTTGACCTTGAGTCGATGAGGCACTATGAGTGTCATACTGT
Found at i:33321401 original size:43 final size:42
Alignment explanation
Indices: 33321327--33321487 Score: 196
Period size: 42 Copynumber: 3.8 Consensus size: 42
33321317 CTTACCAATT
* * ** *
33321327 CCATATCCCAGATATGGTCTTACATGTAATCTTGTATAGATG
1 CCATATCCCATATATGGTCTTACATGAAATCTCATATCGATG
* *
33321369 CCAATAGCCCATCTATGGTCTTACATGAAATCTCATATCGATG
1 CC-ATATCCCATATATGGTCTTACATGAAATCTCATATCGATG
* * *
33321412 CCATATCCCATATATGGTCTTATACGAAGTCTCATATCGATG
1 CCATATCCCATATATGGTCTTACATGAAATCTCATATCGATG
* * *
33321454 CCATATCCCAGATATGGTCTTACACGTAATCTCA
1 CCATATCCCATATATGGTCTTACATGAAATCTCA
33321488 GTAGCCTTAA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 67 0.66
43 35 0.34
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
CCATATCCCATATATGGTCTTACATGAAATCTCATATCGATG
Found at i:33325076 original size:49 final size:48
Alignment explanation
Indices: 33324965--33325325 Score: 207
Period size: 49 Copynumber: 7.6 Consensus size: 48
33324955 GGGATAAGAT
* * * * *
33324965 GCTGACGCCATGTCCCAGACATGGTCTTACACTGGCTAACACAT-TAAAG
1 GCTGATGCCATGTCCCAGACA-GGTCTTACACTGACT-TCATATATCAAG
* * *
33325014 TC-GATGCCGTGTCCCAGACAGGTCTTACATTGACTTTCATATATCAAG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCAAG
*
33325062 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATCTATC-AG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCAAG
* * * * *
33325110 TGTTTG-TACCATGTCCCAGACAGGTCTTACATTGAC-ACACA-A-CAA-
1 -G-CTGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAG
** * * * * *
33325155 GCTGACACCATGTCCCAGATAGGTTTTACACT-AGCTTGTATATCTCGAG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-CATATATCAAG
* * * * * *
33325204 GCCGATG-CATGTCCCAGACATGTCTTACACT-AGC-TCTTGTCTCAAT
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATATATCAAG
* * * * *
33325250 GCTGATG-CATGTCCCGGACATGTCTTACAATGGCTCTCATA-ATC-TG
1 GCTGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCAAG
*
33325296 GTCT-ATG-CATGTCCCAGACATGTCTTACAC
1 G-CTGATGCCATGTCCCAGACAGGTCTTACAC
33325326 CGGCTCACAT
Statistics
Matches: 244, Mismatches: 50, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.01
44 25 0.10
45 1 0.00
46 64 0.26
47 23 0.09
48 54 0.22
49 72 0.30
50 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAG
Found at i:33328049 original size:256 final size:256
Alignment explanation
Indices: 33327594--33328107 Score: 992
Period size: 256 Copynumber: 2.0 Consensus size: 256
33327584 TTGGAAATTC
*
33327594 TTATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTATAATC
1 TTATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATC
33327659 AAGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGA
66 AAGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGA
*
33327724 AAGAAATAGAAGAGAAGAAACTGCGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATC
131 AAGAAATAGAAGAGAAGAAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATC
*
33327789 TCATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTTTGAAT
196 TCATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAAT
33327850 TTATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATC
1 TTATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATC
33327915 AAGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGA
66 AAGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGA
*
33327980 AAGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATC
131 AAGAAATAGAAGAGAAGAAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATC
33328045 TCATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAAT
196 TCATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAAT
33328106 TT
1 TT
33328108 TATTTAAGTA
Statistics
Matches: 254, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
256 254 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (256 bp):
TTATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATC
AAGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGA
AAGAAATAGAAGAGAAGAAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATC
TCATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAAT
Found at i:33331764 original size:40 final size:40
Alignment explanation
Indices: 33331718--33331902 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
33331708 CTCGCACAAG
*
33331718 GCCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAG-TCACTAGCACAAAT
* *
33331758 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * * *
33331798 GCCTTCGGGTTTTGGCCCAGATATAGTAACTCGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
** * * *
33331838 GCCTTCGTATCTTAGTCCGGATATAGTCACTTAACACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
33331879 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
33331903 CATTCGAATA
Statistics
Matches: 117, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 90 0.77
41 27 0.23
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:33340913 original size:10 final size:11
Alignment explanation
Indices: 33340889--33340926 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
33340879 GATACTTAAA
*
33340889 ATAAAAATGAA
1 ATAAAAATGAT
33340900 ATAAAAA-GAT
1 ATAAAAATGAT
33340910 ATAAAAATGAT
1 ATAAAAATGAT
33340921 ATAAAA
1 ATAAAA
33340927 CAAGCTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (11 bp):
ATAAAAATGAT
Found at i:33342447 original size:42 final size:42
Alignment explanation
Indices: 33342384--33342469 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
33342374 TTTATTTTGC
* *
33342384 ACATTGTCCCTAATTTGCACCTTATAGATAAGAGAGGAGACT
1 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
33342426 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
1 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
33342468 AC
1 AC
33342470 CCGATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (42 bp):
ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
Found at i:33347407 original size:40 final size:40
Alignment explanation
Indices: 33347360--33347543 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
33347350 CACTCACAAG
* *
33347360 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
33347400 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
33347440 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* *** * *
33347480 GCCTTCGGATCTTAGTTTGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
33347520 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
33347544 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 117 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:33347455 original size:80 final size:79
Alignment explanation
Indices: 33347327--33347543 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
33347317 ACCCAAGTAT
* * *
33347327 CTTCGGGATTTAGCCGGATATAA-CACT--CAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
33347388 -ACT-AGCATAAATGC
65 AACTCA-CACAAATGC
* *
33347402 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
33347467 AACTCACACAAATGC
65 AACTCACACAAATGC
** * * *
33347482 CTTC-GGATCTTAGTTTGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
33347544 CATTCGAATA
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
75 12 0.10
76 10 0.08
77 3 0.02
79 7 0.06
80 88 0.73
81 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCACACAAATGC
Found at i:33362938 original size:40 final size:40
Alignment explanation
Indices: 33362893--33363060 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33362883 CGGAATACAA
33362893 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
33362933 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
33362973 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
33363013 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
33363053 CCGGATAT
1 CCGGATAT
33363061 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:33365407 original size:40 final size:40
Alignment explanation
Indices: 33365324--33365543 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
33365314 ACCCAAGTAT
** * *
33365324 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33365362 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
33365402 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
33365442 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * * *
33365482 CTTCGGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
33365522 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
33365544 CATTCGAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 121 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33379254 original size:79 final size:81
Alignment explanation
Indices: 33379133--33379324 Score: 225
Period size: 79 Copynumber: 2.4 Consensus size: 81
33379123 GGATATAACG
* * **
33379133 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATC
*
33379196 TTAACCCA-AGTTTAGTC
65 TTAACCCAGA-TATAGTC
*
33379213 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
** *
33379276 TAGTCCGGATATAGTC
66 TAACCCAGATATAGTC
*
33379292 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
33379325 CATCATTCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 53 0.55
80 41 0.42
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
TAACCCAGATATAGTC
Found at i:33379324 original size:40 final size:40
Alignment explanation
Indices: 33379133--33379324 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
33379123 GGATATAACG
* * ** *
33379133 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
33379173 ACTCGCACGAATGCCTTCGGGACTTAACCC-AAGTTTAGTC
1 ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGA-TATAGTA
* *
33379213 ACTCGCAC-AAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
33379252 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
33379292 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAAAGCCTTCGGGACTTAGCCCGGA
33379325 CATCATTCAA
Statistics
Matches: 123, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.02
39 28 0.23
40 85 0.69
41 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:33382760 original size:19 final size:19
Alignment explanation
Indices: 33382738--33382776 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33382728 CGCCAATCAA
33382738 TAGATTCTCTTTGTGAGTT
1 TAGATTCTCTTTGTGAGTT
33382757 TAGATTCTCTTTGTGAGTT
1 TAGATTCTCTTTGTGAGTT
33382776 T
1 T
33382777 TGTGTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (19 bp):
TAGATTCTCTTTGTGAGTT
Found at i:33394900 original size:2 final size:2
Alignment explanation
Indices: 33394893--33394945 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
33394883 ATAATAATTA
* *
33394893 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A- AT GT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33394933 ACT AT -T AT AT AT A
1 A-T AT AT AT AT AT A
33394946 ACTATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 3 0.07
2 38 0.88
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33395369 original size:18 final size:18
Alignment explanation
Indices: 33395327--33395375 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
33395317 TATAATTATA
33395327 ACTAAAAATATAAAATATT
1 ACTAAAAAT-TAAAATATT
* * *
33395346 ATTAAAAATTAATATTTT
1 ACTAAAAATTAAAATATT
33395364 ACTAAAATATTA
1 ACTAAAA-ATTA
33395376 TTTTTGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
ACTAAAAATTAAAATATT
Found at i:33395820 original size:15 final size:16
Alignment explanation
Indices: 33395786--33395823 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33395776 TATTGTATGT
*
33395786 AAAATTAAAATATTTA
1 AAAATTAAAATAATTA
*
33395802 AAAATTAAAA-AATTC
1 AAAATTAAAATAATTA
33395817 AAAATTA
1 AAAATTA
33395824 TTTGAATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTAAAATAATTA
Found at i:33395820 original size:16 final size:16
Alignment explanation
Indices: 33395786--33395820 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33395776 TATTGTATGT
* *
33395786 AAAATTAAAATATTTA
1 AAAATTAAAAAATTCA
33395802 AAAATTAAAAAATTCA
1 AAAATTAAAAAATTCA
33395818 AAA
1 AAA
33395821 TTATTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAAAAATTCA
Found at i:33396316 original size:16 final size:16
Alignment explanation
Indices: 33396295--33396343 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
33396285 TGACAAACTG
33396295 AAAAATTAAGTGTTGA
1 AAAAATTAAGTGTTGA
33396311 AAAAATTAAGTGTTG-
1 AAAAATTAAGTGTTGA
*
33396326 -AAAATTAAGTATTGA
1 AAAAATTAAGTGTTGA
33396341 AAA
1 AAA
33396344 TTTAAGTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 13 0.43
16 17 0.57
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
AAAAATTAAGTGTTGA
Found at i:33396329 original size:14 final size:14
Alignment explanation
Indices: 33396296--33396350 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 14
33396286 GACAAACTGA
33396296 AAAATTAAGTGTTG
1 AAAATTAAGTGTTG
33396310 AAAAAATTAAGTGTTG
1 --AAAATTAAGTGTTG
*
33396326 AAAATTAAGTATTG
1 AAAATTAAGTGTTG
33396340 AAAATTTAAGT
1 AAAA-TTAAGT
33396351 ACTAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 17 0.46
15 6 0.16
16 14 0.38
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (14 bp):
AAAATTAAGTGTTG
Found at i:33396720 original size:17 final size:19
Alignment explanation
Indices: 33396684--33396726 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
33396674 ATTTTTGAAT
33396684 TATTAAA-CATGTGTAAAA
1 TATTAAACCATGTGTAAAA
33396702 TATTAAACCAT-TG-AAAA
1 TATTAAACCATGTGTAAAA
33396719 TATTAAAC
1 TATTAAAC
33396727 TTAGGTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.50
18 9 0.38
19 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
TATTAAACCATGTGTAAAA
Found at i:33399292 original size:3 final size:3
Alignment explanation
Indices: 33399284--33399310 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33399274 TTCGAAAACG
33399284 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
33399311 GTTTTGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:33399957 original size:24 final size:24
Alignment explanation
Indices: 33399930--33399989 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
33399920 CACTTTTTTC
33399930 TTTTCTGTCTCTTTTTCT-TTCATA
1 TTTTCT-TCTCTTTTTCTCTTCATA
*
33399954 TTTTCTTTTCTTTTTCTCTTCAT-
1 TTTTCTTCTCTTTTTCTCTTCATA
*
33399977 TTCTTCTCCTCTT
1 TT-TTCTTCTCTT
33399990 ACTAATAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTCTTCTCTTTTTCTCTTCATA
Found at i:33402141 original size:7 final size:7
Alignment explanation
Indices: 33402131--33402155 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33402121 ATACTTTTAA
33402131 TTTTAGT
1 TTTTAGT
33402138 TTTTAGT
1 TTTTAGT
33402145 TTTTAGT
1 TTTTAGT
33402152 TTTT
1 TTTT
33402156 TTTTCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTAGT
Found at i:33402288 original size:13 final size:13
Alignment explanation
Indices: 33402270--33402295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33402260 CACGCTTCAA
33402270 TTTAATTATTAAT
1 TTTAATTATTAAT
33402283 TTTAATTATTAAT
1 TTTAATTATTAAT
33402296 GAACGTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTATTAAT
Found at i:33404535 original size:15 final size:15
Alignment explanation
Indices: 33404517--33404549 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
33404507 AAAATTTTTT
33404517 TAAGGATTTGAATGG
1 TAAGGATTTGAATGG
33404532 TAAGGATTTGAATGG
1 TAAGGATTTGAATGG
33404547 TAA
1 TAA
33404550 TTATACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (15 bp):
TAAGGATTTGAATGG
Found at i:33407074 original size:40 final size:40
Alignment explanation
Indices: 33407018--33407096 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
33407008 GAAATTGATG
33407018 AATGAATTGATAGATATAAATGGATGCTAAATGGCTATGC
1 AATGAATTGATAGATATAAATGGATGCTAAATGGCTATGC
*
33407058 AATGAATTGATTGATATAAATGGATGCTAAATGGCTATG
1 AATGAATTGATAGATATAAATGGATGCTAAATGGCTATG
33407097 TTACAAGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (40 bp):
AATGAATTGATAGATATAAATGGATGCTAAATGGCTATGC
Found at i:33408770 original size:49 final size:49
Alignment explanation
Indices: 33408692--33408879 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 49
33408682 TAGCCAAAGC
* *
33408692 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * * *
33408741 AATCTGGTACACGTAGTACCCTGCTCTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
33408792 TTTCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
33408841 TAT-TCGGTACATGTAGTAGCCTGTACTTAGTACTACACA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
33408880 CATGACCTCA
Statistics
Matches: 109, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 70 0.64
50 2 0.02
51 37 0.34
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:33408811 original size:100 final size:100
Alignment explanation
Indices: 33408697--33408880 Score: 300
Period size: 100 Copynumber: 1.8 Consensus size: 100
33408687 AAAGCTATCT
*
33408697 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAA-TCTGGTACACGTAGTACC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTC-GGTACACGTAGTACC
33408761 CTGCT-CTTAGTACTACACACGTGATCACAGTTTTCG
65 CTG-TACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
33408797 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATTATTCGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTACCC
33408862 TGTACTTAGTACTACACAC
66 TGTACTTAGTACTACACAC
33408881 ATGACCTCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
99 1 0.01
100 75 0.96
101 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (100 bp):
GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTACCC
TGTACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:33419355 original size:30 final size:31
Alignment explanation
Indices: 33419312--33419369 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
33419302 CAAAATCATA
*
33419312 TTTTGGCAAAATTACAGTTTTGCCCCTAAAG
1 TTTTGGCAAAATTACACTTTTGCCCCTAAAG
*
33419343 TTTT-GCATAATTACACTTTTGCCCCTA
1 TTTTGGCAAAATTACACTTTTGCCCCTA
33419370 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (31 bp):
TTTTGGCAAAATTACACTTTTGCCCCTAAAG
Found at i:33421983 original size:40 final size:40
Alignment explanation
Indices: 33421905--33422043 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
33421895 ACCCAAGTAT
* *
33421905 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
33421944 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
33421984 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
33422024 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGAT
33422044 GTCATCCGAA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 11 0.12
40 76 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:33424622 original size:15 final size:15
Alignment explanation
Indices: 33424593--33424642 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
33424583 CAAAGATAAC
*
33424593 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33424607 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
33424622 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
33424637 AAGAAA
1 AAGAAA
33424643 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33424651 original size:15 final size:15
Alignment explanation
Indices: 33424604--33424651 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
33424594 AGAAAACCGA
33424604 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
33424618 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
33424634 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
33424649 ATA
1 ATA
33424652 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:33427697 original size:47 final size:49
Alignment explanation
Indices: 33427579--33427757 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 49
33427569 TGTAACCCGC
* * * *
33427579 CCATAAGCAAACTCGGACTCAACTCAATGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
33427625 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* *
33427675 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
* *
33427718 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
33427758 TCAACCATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 2 0.02
46 59 0.54
47 29 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:33427747 original size:93 final size:93
Alignment explanation
Indices: 33427588--33427757 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
33427578 CCCATAAGCA
* * * * *
33427588 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
33427653 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* *
33427681 AACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
*
33427746 GAGTTTGGATGC
66 GAGTTCGGATGC
33427758 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:33428224 original size:30 final size:31
Alignment explanation
Indices: 33428181--33428238 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
33428171 CAAAATCATA
*
33428181 TTTTGGCAAAATTACAGTTTTGCCCCTAAAC
1 TTTTGGCAAAATTACACTTTTGCCCCTAAAC
*
33428212 TTTT-GCATAATTACACTTTTGCCCCTA
1 TTTTGGCAAAATTACACTTTTGCCCCTA
33428239 GGCTCGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (31 bp):
TTTTGGCAAAATTACACTTTTGCCCCTAAAC
Found at i:33431713 original size:12 final size:12
Alignment explanation
Indices: 33431696--33431723 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33431686 TGTGAAAAAT
33431696 AAAATAAAATAA
1 AAAATAAAATAA
33431708 AAAATAAAATAA
1 AAAATAAAATAA
33431720 AAAA
1 AAAA
33431724 CATACAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:33440873 original size:46 final size:46
Alignment explanation
Indices: 33440821--33440911 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
33440811 TATATATACA
* *
33440821 CATCTCATACATATCTCACATTAGCCATTTGACTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGACTTTACCACATATC
* * *
33440867 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGACTTTACCACATAT
33440912 ATATACACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGACTTTACCACATATC
Found at i:33440962 original size:49 final size:48
Alignment explanation
Indices: 33440885--33441127 Score: 271
Period size: 47 Copynumber: 5.1 Consensus size: 48
33440875 ACACATTTCG
* * * * *
33440885 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATACA-TGTTCACATTCATCA
* * *
33440934 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTTCACATTCATCA
* * * *
33440981 CATTGGCCATTTGGCCTTATCAC-ATATGTGCATGTTCAAATAT-ATCA
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTTCACAT-TCATCA
* *
33441028 CATTGGCCAGTCGGCCTTATCACACATATGTACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATACATGTTCACATTCATCA
* *
33441077 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTTCACATTCATCA
33441124 CATT
1 CATT
33441128 TGCCTTGGCT
Statistics
Matches: 169, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 105 0.62
48 2 0.01
49 61 0.36
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCACAATATATACATGTTCACATTCATCA
Found at i:33440983 original size:47 final size:47
Alignment explanation
Indices: 33440927--33441127 Score: 296
Period size: 47 Copynumber: 4.2 Consensus size: 47
33440917 CACTTCCACG
* *
33440927 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * * * *
33440974 TTTATCACATTGGCCATTTGGCCTTATCACATATGTGCATGTTCAAA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
33441021 TAT-ATCACATTGGCCAGTCGGCCTTATCACACATATGTACATGTTCACA
1 T-TCATCACATTGGCCATTCGGCCTTATCACACATATG--CATGTTCACA
33441070 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
33441117 TTCATCACATT
1 TTCATCACATT
33441128 TGCCTTGGCT
Statistics
Matches: 139, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
47 94 0.68
48 2 0.01
49 43 0.31
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:33441007 original size:96 final size:96
Alignment explanation
Indices: 33440885--33441105 Score: 252
Period size: 96 Copynumber: 2.3 Consensus size: 96
33440875 ACACATTTCG
* * * ** * *
33440885 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGT-TCATCACATTGGCCATTCTG
1 CATTGGCCATTCGGCCTTATCACA-ATATATACA-TGTCCAAATAT-ATCACATTGGCCAGTCGG
* *
33440948 CCTTATCACATATATG-CATGTTCACATTTATCA
63 CCTTATCACACATATGACATGTTCACATTCATCA
* * * *
33440981 CATTGGCCATTTGGCCTTATCAC-ATATGTGCATGTTCAAATATATCACATTGGCCAGTCGGCCT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCAAATATATCACATTGGCCAGTCGGCCT
33441045 TATCACACATATGTACATGTTCACATTCATCA
66 TATCACACATATG-ACATGTTCACATTCATCA
33441077 CATTGGCCATTCGGCCTTATCACACATAT
1 CATTGGCCATTCGGCCTTATCACA-ATAT
33441106 GCATGTTCAC
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
93 1 0.01
94 42 0.40
95 1 0.01
96 57 0.54
98 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACAATATATACATGTCCAAATATATCACATTGGCCAGTCGGCCT
TATCACACATATGACATGTTCACATTCATCA
Found at i:33441109 original size:96 final size:94
Alignment explanation
Indices: 33440927--33441127 Score: 296
Period size: 96 Copynumber: 2.1 Consensus size: 94
33440917 CACTTCCACG
* * * *
33440927 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCAGTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* * *
33440992 TGGCCTTATCACATATGTGCATGTTCAAA
66 CGGCCTTATCACACATATGCATGTTCAAA
33441021 TAT-ATCACATTGGCCAGTCGGCCTTATCACACATATGTACATGTTCACATTCATCACATTGGCC
1 T-TCATCACATTGGCCAGTCGGCCTTATCACACATATG--CATGTTCACATTCATCACATTGGCC
*
33441085 ATTCGGCCTTATCACACATATGCATGTTCACA
63 ATTCGGCCTTATCACACATATGCATGTTCAAA
33441117 TTCATCACATT
1 TTCATCACATT
33441128 TGCCTTGGCT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
94 32 0.34
95 2 0.02
96 61 0.64
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (94 bp):
TTCATCACATTGGCCAGTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATATGCATGTTCAAA
Found at i:33443214 original size:40 final size:40
Alignment explanation
Indices: 33443177--33443360 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
33443167 GCTACTCGTT
*
33443177 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
33443217 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
33443257 C-CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
33443295 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33443336 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33443361 CATTATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 19 0.15
40 66 0.53
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33443299 original size:78 final size:80
Alignment explanation
Indices: 33443179--33443365 Score: 238
Period size: 78 Copynumber: 2.4 Consensus size: 80
33443169 TACTCGTTCA
* *
33443179 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
33443242 ATTTAATAAC-TCGCAC
64 ATTTAATAACTTAGCAC
* **
33443258 CATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
33443322 TTAGTCACTTAGCAC
66 TTAATAACTTAGCAC
*
33443337 AAAGCCTTCGGGACTTAGCCCGGACATTA
1 AATGCCTTCGGGACTTAGCCCGGA-ATTA
33443366 TTCGAATAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 46 0.49
79 29 0.31
80 11 0.12
81 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAATAACTTAGCAC
Found at i:33465540 original size:20 final size:20
Alignment explanation
Indices: 33465480--33465698 Score: 87
Period size: 20 Copynumber: 10.9 Consensus size: 20
33465470 AAGGAGGAAG
* * *
33465480 TATTGGTAGTTTATCTGCAT
1 TATTGGTAGCTTGTCTACAT
* * * *
33465500 TACTAGTGGCTTGTCCACAT
1 TATTGGTAGCTTGTCTACAT
*
33465520 TATTGGTAGCTTGTCTGCAT
1 TATTGGTAGCTTGTCTACAT
* ** * * * *
33465540 TACTGGCGGTTTATTTGCAT
1 TATTGGTAGCTTGTCTACAT
* * * *
33465560 CACTGGTGGCTTGTCCACAT
1 TATTGGTAGCTTGTCTACAT
* * * *
33465580 TACTGCTAGCTTGTTTACAG
1 TATTGGTAGCTTGTCTACAT
* * * *
33465600 TATTAGTGGTTTATCTACAT
1 TATTGGTAGCTTGTCTACAT
* * *
33465620 CATTGGTGGCTTGTTTACAT
1 TATTGGTAGCTTGTCTACAT
* * *
33465640 TATTGGCAACTTGTCTGCAT
1 TATTGGTAGCTTGTCTACAT
* * * *
33465660 TATTAGTAGTTTATCTGCAT
1 TATTGGTAGCTTGTCTACAT
* *
33465680 TATTGGTACCTGGTCTACA
1 TATTGGTAGCTTGTCTACA
33465699 CTACTTTTTG
Statistics
Matches: 138, Mismatches: 61, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 138 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (20 bp):
TATTGGTAGCTTGTCTACAT
Found at i:33465686 original size:60 final size:60
Alignment explanation
Indices: 33465480--33465679 Score: 213
Period size: 60 Copynumber: 3.3 Consensus size: 60
33465470 AAGGAGGAAG
* * * *
33465480 TATTGGTAGTTTATCTGCATTACTAGTGGCTTGTCCACATTATTGGTAGCTTGTCTGCAT
1 TATTAGTAGTTTATCTGCATCACTGGTGGCTTGTCCACATTATTGGCAGCTTGTCTGCAT
* * ** * * * * *
33465540 TACTGGCGGTTTATTTGCATCACTGGTGGCTTGTCCACATTACT-GCTAGCTTGTTTACAG
1 TATTAGTAGTTTATCTGCATCACTGGTGGCTTGTCCACATTATTGGC-AGCTTGTCTGCAT
* * * ** *
33465600 TATTAGTGGTTTATCTACATCATTGGTGGCTTGTTTACATTATTGGCAACTTGTCTGCAT
1 TATTAGTAGTTTATCTGCATCACTGGTGGCTTGTCCACATTATTGGCAGCTTGTCTGCAT
33465660 TATTAGTAGTTTATCTGCAT
1 TATTAGTAGTTTATCTGCAT
33465680 TATTGGTACC
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
59 1 0.01
60 109 0.97
61 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (60 bp):
TATTAGTAGTTTATCTGCATCACTGGTGGCTTGTCCACATTATTGGCAGCTTGTCTGCAT
Found at i:33466236 original size:13 final size:14
Alignment explanation
Indices: 33466218--33466254 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
33466208 AACCATGGAG
33466218 TTTAGATGTTAAA-
1 TTTAGATGTTAAAT
33466231 TTTAGATGTTAAAT
1 TTTAGATGTTAAAT
33466245 TTTAGATGTT
1 TTTAGATGTT
33466255 TATTCAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (14 bp):
TTTAGATGTTAAAT
Found at i:33470090 original size:55 final size:55
Alignment explanation
Indices: 33470024--33470134 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
33470014 TCACGACACA
33470024 AGTCCTGGTGTGTTGCGACATCAACTCTAGGAAAAATATTAAATACAAAGTAGGG
1 AGTCCTGGTGTGTTGCGACATCAACTCTAGGAAAAATATTAAATACAAAGTAGGG
33470079 AGTCCTGGTGTGTTGCGACATCAACTCTAGGAAAAATATTAAATACAAAGTAGGG
1 AGTCCTGGTGTGTTGCGACATCAACTCTAGGAAAAATATTAAATACAAAGTAGGG
33470134 A
1 A
33470135 CGTTTTGGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (55 bp):
AGTCCTGGTGTGTTGCGACATCAACTCTAGGAAAAATATTAAATACAAAGTAGGG
Found at i:33473221 original size:30 final size:30
Alignment explanation
Indices: 33473176--33473232 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33473166 ATTTAATACG
* *
33473176 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTCTGCCCCTA
* *
33473206 AACTTTTGCATAATTACACTTCTGCCC
1 AACTTTGGCAAAATTACACTTCTGCCC
33473233 TTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTCTGCCCCTA
Found at i:33488208 original size:40 final size:40
Alignment explanation
Indices: 33488153--33488317 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
33488143 TGAATGATAC
* *
33488153 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
33488193 CCGGGCTAAGACCCGAAGGCATTT-TG--AGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
33488230 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
33488270 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
33488310 CC-GGCTAA
1 CCGGGCTAA
33488318 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
37 32 0.30
38 4 0.04
39 8 0.08
40 61 0.58
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:33496380 original size:40 final size:40
Alignment explanation
Indices: 33496325--33496492 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
33496315 TGAATGATAC
* *
33496325 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
33496365 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
33496405 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
33496445 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
33496485 CC-GGCTAA
1 CCGGGCTAA
33496493 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:33503338 original size:94 final size:94
Alignment explanation
Indices: 33503176--33503363 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
33503166 CCATCTCAAG
33503176 ATAGCAAACACAACATTAATATCAAGTCTTTGGACAGTAATATTAATAGTAAGCGGTACTCTTAT
1 ATAGCAAACACAACATTAATATCAAGTCTTTGGACAGTAATATTAATAGTAAGCGGTACTCTTAT
33503241 TGTAGCAATCAAACATTGACAATAAATTA
66 TGTAGCAATCAAACATTGACAATAAATTA
* *
33503270 ATAGCAAACGCAACATTAATATCAAGTCTTTGGACAGTAATATTAATAGTAAGCGGTACTCTTGT
1 ATAGCAAACACAACATTAATATCAAGTCTTTGGACAGTAATATTAATAGTAAGCGGTACTCTTAT
33503335 TGTAGCAATCAAACATTGACAATAAATTA
66 TGTAGCAATCAAACATTGACAATAAATTA
33503364 TGTCAAACAA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (94 bp):
ATAGCAAACACAACATTAATATCAAGTCTTTGGACAGTAATATTAATAGTAAGCGGTACTCTTAT
TGTAGCAATCAAACATTGACAATAAATTA
Found at i:33509233 original size:46 final size:46
Alignment explanation
Indices: 33509166--33509333 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
33509156 GCCCATAAGC
*
33509166 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
* **
33509212 GAACTCGGACTCAACTCAACGAGCTC-GA--TT-GCCTAGT-TACATCTCT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCG-C-A-TCCACA--AGT
* * *
33509258 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
*
33509305 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
33509334 TGCCCAAACA
Statistics
Matches: 102, Mismatches: 9, Indels: 22
0.77 0.07 0.17
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 4 0.04
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCACAAGT
Found at i:33509352 original size:46 final size:46
Alignment explanation
Indices: 33509166--33509352 Score: 127
Period size: 46 Copynumber: 4.0 Consensus size: 46
33509156 GCCCATAAGC
* * * * * *
33509166 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA--CAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGT
* * *
33509212 GAACTCGGACTCAACTCAACGAGCTC-GATTGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGA-TGCCCA--TACATC-CTAGT
* * * *
33509259 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGT
*
33509305 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
33509351 GA
1 GA
33509353 CATGTCACTT
Statistics
Matches: 109, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
44 12 0.11
46 62 0.57
47 29 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
Found at i:33511668 original size:30 final size:30
Alignment explanation
Indices: 33511624--33511692 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
33511614 CAAAGATAAC
*
33511624 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
33511653 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
33511683 AAGAAACCCA
1 AAGAAACCCA
33511693 AGATATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Found at i:33511672 original size:15 final size:15
Alignment explanation
Indices: 33511624--33511692 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
33511614 CAAAGATAAC
*
33511624 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
33511638 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
33511653 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
33511668 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
33511683 AAGAAACCCA
1 AAGAAACCCA
33511693 AGATATGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 9 0.20
15 36 0.78
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:33514753 original size:93 final size:93
Alignment explanation
Indices: 33514638--33514810 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
33514628 CGCCCATAAG
* *
33514638 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
33514703 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
33514731 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
33514796 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
33514811 CAAACATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:33514806 original size:46 final size:46
Alignment explanation
Indices: 33514631--33514806 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
33514621 TGTAACCCGC
* * *
33514631 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
33514677 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
33514723 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
33514770 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
33514807 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.62
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:33514825 original size:46 final size:46
Alignment explanation
Indices: 33514639--33514825 Score: 143
Period size: 46 Copynumber: 4.0 Consensus size: 46
33514629 GCCCATAAGC
* * * * * *
33514639 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA--CAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGT
* * *
33514685 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGT
* * * *
33514732 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGT
*
33514778 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
33514824 GA
1 GA
33514826 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 22
0.73 0.12 0.14
Matches are distributed among these distances:
44 11 0.10
45 2 0.02
46 62 0.56
47 31 0.28
49 5 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGT
Found at i:33519500 original size:40 final size:40
Alignment explanation
Indices: 33519445--33519689 Score: 329
Period size: 40 Copynumber: 6.2 Consensus size: 40
33519435 CGGATGATAA
*
33519445 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
33519485 CGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
33519525 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
33519565 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
33519605 CGAAGGCATTGGTGCGAGCT-ACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
* * * *
33519645 CAAAGGCATTTGAGCGAGT-AGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTGA-CTATATCCGGGCTAAGTCC
33519684 CGAAGG
1 CGAAGG
33519690 TACTTGGTTT
Statistics
Matches: 191, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
39 15 0.08
40 174 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:33521367 original size:21 final size:21
Alignment explanation
Indices: 33521343--33521384 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33521333 CATTTACCAG
*
33521343 AAATTAAACCTGCTCAAAACA
1 AAATTAAACCAGCTCAAAACA
*
33521364 AAATTAAACCAGCTCGAAACA
1 AAATTAAACCAGCTCAAAACA
33521385 TGCCAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (21 bp):
AAATTAAACCAGCTCAAAACA
Found at i:33523174 original size:19 final size:19
Alignment explanation
Indices: 33523150--33523186 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33523140 CTATACCCTA
33523150 TTTTTTGA-AACCACTTTAC
1 TTTTTTGACAACCA-TTTAC
33523169 TTTTTTGACAACCATTTA
1 TTTTTTGACAACCATTTA
33523187 TACTAGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTTTTGACAACCATTTAC
Found at i:33526679 original size:27 final size:27
Alignment explanation
Indices: 33526649--33526721 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
33526639 TTAGAAATCA
*
33526649 CCACAAAGATTATTCTTTCATAA-TCTG
1 CCACAAAGGTTATTCTTTCATAACTC-G
* *
33526676 CCACAATGGTTGTTCTTTCATAACTCG
1 CCACAAAGGTTATTCTTTCATAACTCG
* *
33526703 CCACGAAGGCTATTCTTTC
1 CCACAAAGGTTATTCTTTC
33526722 CTATCATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
CCACAAAGGTTATTCTTTCATAACTCG
Found at i:33530250 original size:50 final size:49
Alignment explanation
Indices: 33530100--33530319 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 49
33530090 TTTGTGTGGC
* *
33530100 CAGTGTAAGA-CATGTCTGGGATAT-GCATCGGCCTCGAGA-TGT-A-AGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-G-GATTGTGAGAGT
* *
33530146 CAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGAGA-TGT----GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-G-GATTGTGAGAGT
*
33530190 CAGTGTAAGACCATGTCTGAGACATGGCATCGGCAC-GGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGGAT-TGTGAGAGT
* * * * *
33530239 CTAGTGTAAGACCATGTCAGGGACATGGCGTCGGCCTTGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTGTGAGAGT
*
33530289 CAGTGTAAGATCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
33530320 AGCATTATAC
Statistics
Matches: 146, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
44 13 0.09
45 13 0.09
46 49 0.34
47 1 0.01
49 35 0.24
50 35 0.24
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTGTGAGAGT
Found at i:33533678 original size:45 final size:47
Alignment explanation
Indices: 33533557--33533865 Score: 280
Period size: 46 Copynumber: 6.6 Consensus size: 47
33533547 TATTTGTGTT
* * *
33533557 GCCAGTATAAGA-CATGTCTGGGACATGCATCGGCCTCAAAATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
* * *
33533603 GCTAGTGTAAGA-CATGTCTGAGACATGCATCGACCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
*
33533649 GCCAGTGTAA-A-CATGTCTGGGACATGCATCGGCTTCGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
* * * *
33533692 GTCAGTGTAAGACCATGTCTCGGACATGGCATCGGCAC-AGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-A-A
* * *
33533742 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TTTTGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT-A-A
* * * *
33533791 GTCAGTGTAAGACCATGTCTGGGACATAACATC-GACTTGATGGATG--A
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA--GATGTAA
*
33533838 GGCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
33533866 GTATCGGCAT
Statistics
Matches: 219, Mismatches: 32, Indels: 24
0.80 0.12 0.09
Matches are distributed among these distances:
43 9 0.04
44 1 0.00
45 43 0.20
46 63 0.29
47 27 0.12
48 5 0.02
49 35 0.16
50 35 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAA
Found at i:33533724 original size:91 final size:92
Alignment explanation
Indices: 33533557--33533865 Score: 296
Period size: 91 Copynumber: 3.3 Consensus size: 92
33533547 TATTTGTGTT
* *
33533557 GCCAGTATAAGA-CATGTCTGGGACATGCATCGGCCTCAAAATGTAAG-CTAGTGTAAGA-CATG
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAAATGT-AGTC-AGTGTAAGACCATG
*
33533619 TCTGAGACATGCATCGACCTCGAGATGTAA
64 TCTG-GACATGCATCGACCTAGAGATGTAA
* *
33533649 GCCAGTGTAA-A-CATGTCTGGGACATGCATCGGCTTCGAGATGT-GTCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAAATGTAGTCAGTGTAAGACCATGTC
* *
33533711 TCGGACATGGCATCGGCAC-AGATATGTGAGA
66 T-GGACAT-GCATCGAC-CTAGAGATGT-A-A
* **
33533742 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA-AATG-TAGTCAGTGTAAGACCAT
* *
33533807 GTCTGGGACATAACATCGA-CTTGATGGATG--A
63 GTCT-GGACAT-GCATCGACCTAGA--GATGTAA
*
33533838 GGCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
33533866 GTATCGGCAT
Statistics
Matches: 182, Mismatches: 19, Indels: 29
0.79 0.08 0.13
Matches are distributed among these distances:
89 10 0.05
90 13 0.07
91 44 0.24
92 11 0.06
93 10 0.05
94 1 0.01
95 15 0.08
96 38 0.21
97 3 0.02
98 3 0.02
99 31 0.17
100 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAAATGTAGTCAGTGTAAGACCATGTC
TGGACATGCATCGACCTAGAGATGTAA
Found at i:33533872 original size:96 final size:95
Alignment explanation
Indices: 33533651--33533873 Score: 262
Period size: 96 Copynumber: 2.4 Consensus size: 95
33533641 AGATGTAAGC
*
33533651 CAGTGTAA-A-CATGTCTGGGACAT-GCATCGGCTTCGAGATGTGTCAGTGTAAGACCATGTCTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTGTCAGTGTAAGACCATGTCTC
** *
33533713 GGACATGGCATCGGCACAGATATGTGAGAG
66 GGACATAACATCGGCACAGATAGGTGAGAG
**
33533743 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTCAGTGTAAGACCATG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATG-T-GTCAGTGTAAGACCATG
* *
33533808 TCTGGGACATAACATC-G-ACTTGAT-GGATGAG-G
62 TCTCGGACATAACATCGGCAC-AGATAGG-TGAGAG
*
33533840 CAGTGTAAGACCATGTCTGGGACATGGTATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
33533874 ATTATACCCT
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
92 1 0.01
93 7 0.06
94 1 0.01
95 14 0.12
96 44 0.39
97 7 0.06
98 9 0.08
99 30 0.27
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTGTCAGTGTAAGACCATGTCTC
GGACATAACATCGGCACAGATAGGTGAGAG
Found at i:33537092 original size:47 final size:47
Alignment explanation
Indices: 33537039--33537165 Score: 209
Period size: 47 Copynumber: 2.7 Consensus size: 47
33537029 GCCCATAAGT
*
33537039 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
* *
33537086 GAACTCGGACTCAACTCAACGAGCGCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
* *
33537133 GAACTCGGACTCAACTCAATAAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACAAGCTCGGATGCC
33537166 CAAATATCCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCAC
Found at i:33539919 original size:40 final size:40
Alignment explanation
Indices: 33539714--33539921 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
33539704 AAATTGAATG
* * * * **
33539714 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* **
33539754 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* **
33539794 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
33539834 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGATT
* *
33539874 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGATT
33539914 ATATCCGG
1 ATATCCGG
33539922 TTATATTCTG
Statistics
Matches: 147, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
39 4 0.03
40 141 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:33542005 original size:28 final size:28
Alignment explanation
Indices: 33541940--33542040 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33541930 ATAGTGAATC
*
33541940 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33541969 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33541997 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33542027 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33542041 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33549958 original size:28 final size:28
Alignment explanation
Indices: 33549893--33549993 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33549883 ATAGTGAATC
*
33549893 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33549922 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33549950 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33549980 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33549994 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33553545 original size:28 final size:28
Alignment explanation
Indices: 33553476--33553576 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33553466 GACAAGATTG
* * * *
33553476 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
33553506 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33553534 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
33553563 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33553577 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33561623 original size:30 final size:30
Alignment explanation
Indices: 33561568--33561698 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
33561558 ATAGTGAATC
*
33561568 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
33561597 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
33561627 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
33561655 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
33561685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33561699 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:33561678 original size:58 final size:58
Alignment explanation
Indices: 33561567--33561698 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
33561557 TATAGTGAAT
* * * * *
33561567 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
33561626 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
33561684 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
33561699 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:33569576 original size:28 final size:28
Alignment explanation
Indices: 33569511--33569611 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33569501 ATAGTGAATC
*
33569511 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
33569540 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33569568 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
33569598 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33569612 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33578536 original size:40 final size:40
Alignment explanation
Indices: 33578470--33578571 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
33578460 AAATTGAATG
* * * *
33578470 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGTTAAGACCCGAAGGCAATTATGCTAGAAACT
* ***
33578509 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGTTAAGACCCGAAGGCAATTATGCTAGAAACT
33578549 ATATCCGGGTTAAGA-CCGAAGGC
1 ATATCCGGGTTAAGACCCGAAGGC
33578572 TAGTGGCTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 21 0.39
40 33 0.61
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:33578577 original size:31 final size:32
Alignment explanation
Indices: 33578539--33578603 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
33578529 AGGCAATTGT
*
33578539 GCTAGTGGCTATATCCGGGTTAAGA-CCGAAG
1 GCTAGTGGCTATATCCGGGCTAAGACCCGAAG
33578570 GCTAGTGGCTATATCCGGGCTAAGACCCGAAG
1 GCTAGTGGCTATATCCGGGCTAAGACCCGAAG
33578602 GC
1 GC
33578604 ATTCGTGCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (32 bp):
GCTAGTGGCTATATCCGGGCTAAGACCCGAAG
Found at i:33578625 original size:71 final size:72
Alignment explanation
Indices: 33578508--33578643 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 72
33578498 TGCTGGAAAT
* * * *
33578508 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGTTAAGA-CCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGC
33578572 TAGTGGC
66 TAGTGGC
* * *
33578579 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTCTATCCGGGCTAAGACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACTATATCCGGGCTAAGACCCGAAGG
33578643 C
65 C
33578644 ATTTGTGCAC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
70 3 0.05
71 45 0.80
72 8 0.14
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (72 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGC
TAGTGGC
Found at i:33578665 original size:40 final size:40
Alignment explanation
Indices: 33578579--33578667 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
33578569 GGCTAGTGGC
*
33578579 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGAT
* *
33578619 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGAT
33578659 TATATCCGG
1 TATATCCGG
33578668 TTATATTCCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGAT
Found at i:33585435 original size:49 final size:50
Alignment explanation
Indices: 33585378--33585475 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
33585368 TTTAATATGT
* *
33585378 TTAGTTTAATTAATTCAGTTGTTTT-AATTTTCCTTAATTGCTTAAATAC
1 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATAC
* *
33585427 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCTTTAGTTGCTTAAATA
1 TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATA
33585476 ATTCCGGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (50 bp):
TTAGTTTAATTAATTAAATTGTTTTGAATTTTCCTTAATTGCTTAAATAC
Found at i:33587928 original size:12 final size:12
Alignment explanation
Indices: 33587911--33587942 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
33587901 CGACTCGCCC
33587911 ATATTAATTTTT
1 ATATTAATTTTT
33587923 ATATT-ATTTTT
1 ATATTAATTTTT
33587934 ATA-TAATTT
1 ATATTAATTT
33587943 AATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33588101 original size:30 final size:30
Alignment explanation
Indices: 33588065--33588127 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
33588055 ACTTAACAAT
33588065 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
33588095 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
33588125 CAA
1 CAA
33588128 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:33589063 original size:20 final size:21
Alignment explanation
Indices: 33589013--33589052 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33589003 GGGTCAACAT
*
33589013 ACCCATGTGAAGAAGGCACAC
1 ACCCGTGTGAAGAAGGCACAC
33589034 ACCCGTGTGAAGAA-GCACA
1 ACCCGTGTGAAGAAGGCACA
33589053 ATCTCCTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.28, G:0.25, T:0.10
Consensus pattern (21 bp):
ACCCGTGTGAAGAAGGCACAC
Found at i:33590557 original size:6 final size:6
Alignment explanation
Indices: 33590546--33590617 Score: 85
Period size: 6 Copynumber: 11.8 Consensus size: 6
33590536 AACCAAAATG
*
33590546 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
33590594 AG-GTGAC AGAATC AGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAAT
33590618 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
5 3 0.05
6 49 0.86
7 4 0.07
8 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:33590772 original size:27 final size:26
Alignment explanation
Indices: 33590735--33590800 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
33590725 AGCATGGCTG
*
33590735 CCAGAACAGATATCG-TGACAGAGTCA
1 CCAGAACAGATATCGTTG-CAGAGCCA
*
33590761 CCAGATACAGATATTGTTGCAGAGCCA
1 CCAGA-ACAGATATCGTTGCAGAGCCA
33590788 CCAGAATCAGATA
1 CCAGAA-CAGATA
33590801 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.17
27 27 0.77
28 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTTGCAGAGCCA
Found at i:33590815 original size:27 final size:27
Alignment explanation
Indices: 33590759--33590816 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
33590749 GTGACAGAGT
* * * *
33590759 CACCAGATACAGATATTGTTGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
33590786 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
33590813 CACC
1 CACC
33590817 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:33591031 original size:22 final size:22
Alignment explanation
Indices: 33590973--33591031 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
33590963 GTAAATACGT
33590973 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * * *
33590995 ATGGCACAAAACCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
33591017 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
33591032 TAATAACGGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:33591163 original size:27 final size:26
Alignment explanation
Indices: 33591122--33591201 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 26
33591112 ATCGGTCAAT
* *
33591122 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
33591149 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
33591175 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
33591202 GCTTTCTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:33591430 original size:27 final size:27
Alignment explanation
Indices: 33591400--33591585 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
33591390 GGGGCAAAAT
* * * *
33591400 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33591427 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
33591454 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
33591481 GATAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
33591507 GATAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
33591534 AGTAATTCTACCCTA-TAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33591560 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
33591586 TAGTAATTTC
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 47 0.35
27 88 0.65
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:33591586 original size:53 final size:53
Alignment explanation
Indices: 33591400--33591593 Score: 237
Period size: 53 Copynumber: 3.6 Consensus size: 53
33591390 GGGGCAAAAT
* * * * **
33591400 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACA-GGGTATTTC
* * * *
33591454 GGTATTTCTATCCTACAAGGGTA-TTTCGATAATTCTACCCTACGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTACAGGGTATTTC
* * *
33591507 GATAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGTATTTC
*
33591560 GGTAATTCTACCCTACAGGGGTATTTTAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATT
33591594 TCACAATTGA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
53 83 0.70
54 36 0.30
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGTATTTC
Found at i:33591618 original size:53 final size:53
Alignment explanation
Indices: 33591509--33591621 Score: 122
Period size: 53 Copynumber: 2.1 Consensus size: 53
33591499 GGTATTTCGA
* ** *** *
33591509 TAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACAATATAGGGTAAAACAG
*
33591562 TAATTCTACCCTACAGGGGTATTTTAGTAATT-TCACAAT-TGAGGGTAAAACAG
1 TAATTCTACCCTACAAGGGTATTTTAGTAATTCT-ACAATAT-AGGGTAAAACAG
33591615 TAATTCT
1 TAATTCT
33591622 GTAAATCGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.04
53 48 0.96
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (53 bp):
TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACAATATAGGGTAAAACAG
Found at i:33591632 original size:27 final size:27
Alignment explanation
Indices: 33591602--33592088 Score: 613
Period size: 27 Copynumber: 18.0 Consensus size: 27
33591592 TTTCACAATT
*
33591602 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * *
33591629 GAGGGTAAAACGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* * * *
33591656 GAGGGTAAACCAGTAATTCTATAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
* **
33591683 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
** *
33591710 GAGGGTAAAATAGTAATTCTGTAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
33591737 GAGGGTAAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
33591763 TGAGGGTAAAACGATAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*
33591791 GAGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
33591817 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * ** *
33591845 GAGGGTAAAACAGTAATTTTACAAATT
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
33591872 GAGGGTAAAACGTTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
**
33591899 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
33591925 TGAGGGTAAAATGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
*
33591953 GAGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
33591979 TGAGGGTAAAACGGTAACTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* **
33592007 GAGGGTAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
33592034 GAGGGTAAAATGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
33592061 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
33592088 G
1 G
33592089 GGAGTACTTT
Statistics
Matches: 395, Mismatches: 57, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 388 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:33598888 original size:29 final size:27
Alignment explanation
Indices: 33598845--33598906 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
33598835 AGTTATATCG
*
33598845 ATTTGGCTTCAGGCCATGCATATCAGCTA
1 ATTTGGCTTCAGGCCACG-ATATCAG-TA
*
33598874 ATTTGGCTTCGGGCCACGATATCAGTA
1 ATTTGGCTTCAGGCCACGATATCAGTA
*
33598901 CTTTGG
1 ATTTGG
33598907 AGATAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 7 0.23
28 7 0.23
29 16 0.53
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (27 bp):
ATTTGGCTTCAGGCCACGATATCAGTA
Found at i:33603882 original size:40 final size:40
Alignment explanation
Indices: 33603837--33604004 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
33603827 CGGAATACAA
33603837 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
33603877 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * **
33603917 CCGGACATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
33603957 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
33603997 CCGGATAT
1 CCGGATAT
33604005 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:33603977 original size:80 final size:80
Alignment explanation
Indices: 33603853--33604001 Score: 230
Period size: 80 Copynumber: 1.9 Consensus size: 80
33603843 ATAACCACAC
* *
33603853 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
33603918 CGGACATAACAACTT
66 CGGACATAACAACTT
* *
33603933 GCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAATGCCTTCGGGTATTAA
33603996 CCCGGA
64 CCCGGA
33604002 TATCATTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
78 1 0.02
79 2 0.03
80 60 0.95
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGACATAACAACTT
Found at i:33611585 original size:40 final size:40
Alignment explanation
Indices: 33611540--33611707 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
33611530 CGGAATACAA
33611540 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
33611580 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
33611620 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
33611660 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
33611700 CCGGATAT
1 CCGGATAT
33611708 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:33611680 original size:80 final size:80
Alignment explanation
Indices: 33611540--33611707 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
33611530 CGGAATACAA
* *
33611540 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
33611605 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
33611620 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
33611683 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
33611700 CCGGATAT
1 CCGGATAT
33611708 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:33619612 original size:43 final size:42
Alignment explanation
Indices: 33619547--33619676 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
33619537 AGCTCGCACA
* *
33619547 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATATCCCAGAAATGGTCTTACATGTAATCACATATCG
* * * *
33619589 ATGCCACTATCCCAGAAAAGGTCTTACACGAAATCATA-ATACG
1 ATGCCA-TATCCCAGAAATGGTCTTACATGTAATCACATAT-CG
* * *
33619632 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCC-ATATCCCAGAAATGGTCTTACATGTAATCACATATCG
33619675 AT
1 AT
33619677 AACCTAATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.11
43 61 0.86
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGAAATGGTCTTACATGTAATCACATATCG
Found at i:33621418 original size:21 final size:20
Alignment explanation
Indices: 33621392--33621434 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
33621382 GGAATTTGAA
33621392 TTGAGT-AGTTGAGAGAGTGGT
1 TTGAGTGAGTTGAG-GAG-GGT
*
33621413 TTGAGTGATTTGAGGAGGGT
1 TTGAGTGAGTTGAGGAGGGT
33621433 TT
1 TT
33621435 TTAGGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (20 bp):
TTGAGTGAGTTGAGGAGGGT
Found at i:33623095 original size:27 final size:27
Alignment explanation
Indices: 33622900--33623092 Score: 278
Period size: 27 Copynumber: 7.1 Consensus size: 27
33622890 CGTACATGAA
*
33622900 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
33622927 CCCTCATGTGATAAAATTACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
33622954 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
33622981 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
33623008 CCCTCATGTGGTAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
33623035 CCATTATGTGGTAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * *
33623062 CCCTTATGTGATAAAATGAGGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
33623089 CCCT
1 CCCT
33623093 TATAGGGTAA
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:33623129 original size:81 final size:81
Alignment explanation
Indices: 33622900--33623135 Score: 228
Period size: 81 Copynumber: 2.9 Consensus size: 81
33622890 CGTACATGAA
* * * * *** * *
33622900 CCCTCATGTGATAAAATGACGATTTTTCCCTCATGTGATAAAATTACGATTTTGCCC-TCATGTG
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGAC-AAAATACCCATTATGTG
* *
33622964 ATAAAATGATGATTTTG
65 GTAAAATGACGATTTTG
* * ** **
33622981 CCCTCATGTGATAAAATGATGATTTTGCCCTCATGTGGTAAAATGACAATTTTGCCATTATGTGG
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGACAAAATACCCATTATGTGG
33623046 TAAAATGACGATTTTG
66 TAAAATGACGATTTTG
* * *
33623062 CCCTTATGTGATAAAATGAGGATTTTACCCTTATAG-GGTAAAATGACCAAAATACCCCTGTA-G
1 CCCTCATGTGATAAAATGAGGATTTTACCCTCAT-GTGGTAAAATGA-CAAAATACCCAT-TATG
33623125 -GGTAAAATGAC
63 TGGTAAAATGAC
33623136 TGTAATAACC
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 6 0.05
81 115 0.87
82 9 0.07
83 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (81 bp):
CCCTCATGTGATAAAATGAGGATTTTACCCTCATGTGGTAAAATGACAAAATACCCATTATGTGG
TAAAATGACGATTTTG
Found at i:33623142 original size:27 final size:27
Alignment explanation
Indices: 33623095--33623162 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
33623085 TTTACCCTTA
* *
33623095 TAGGGTAAAATGACCAAAATACCCCTG
1 TAGGGTAAAATGACCAAAATAACCCGG
***
33623122 TAGGGTAAAATGACTGTAATAACCCGG
1 TAGGGTAAAATGACCAAAATAACCCGG
*
33623149 TAAGGTAAAATGAC
1 TAGGGTAAAATGAC
33623163 AGATTTGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (27 bp):
TAGGGTAAAATGACCAAAATAACCCGG
Done.