Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 128 of 292
Found at i:38097878 original size:72 final size:72
Alignment explanation
Indices: 38097756--38097891 Score: 254
Period size: 72 Copynumber: 1.9 Consensus size: 72
38097746 AGTGCACTCG
* *
38097756 GAAGGTAAATTTATCTTTCTTATCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGCT
1 GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGCT
38097821 AGTAAGA
66 AGTAAGA
38097828 GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGC
1 GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGC
38097892 CAATTATTCT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (72 bp):
GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGCT
AGTAAGA
Found at i:38112963 original size:43 final size:43
Alignment explanation
Indices: 38112914--38113014 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 43
38112904 TATTACATAG
38112914 GGTCTTACACG-AA-ATCAATTA-ATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATATCAA-TACA--ATGCCAATGTCCCAGACAT
*
38112957 GGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATATCAATACAATGCCAATGTCCCAGACAT
*
38113000 GGTCTTACATGTAAT
1 GGTCTTACACGTAAT
38113015 CCGATCTCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
43 44 0.83
44 4 0.08
45 5 0.09
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATATCAATACAATGCCAATGTCCCAGACAT
Found at i:38117208 original size:71 final size:71
Alignment explanation
Indices: 38117120--38117283 Score: 303
Period size: 71 Copynumber: 2.3 Consensus size: 71
38117110 CGATTTGTCT
38117120 CGTAGCTCTCTTGTCTACATGGTGTCCTTCA-TCTGGAATCACGCATGCGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACT-TGGAATCACGCATGCGACCTAGCTACATTTA
38117184 TCTTTCA
65 TCTTTCA
38117191 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38117256 CTTTCA
66 CTTTCA
*
38117262 CGTAACTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38117284 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
71 90 0.99
72 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38117321 original size:71 final size:70
Alignment explanation
Indices: 38117120--38117317 Score: 224
Period size: 71 Copynumber: 2.8 Consensus size: 70
38117110 CGATTTGTCT
* * * * *
38117120 CGTAGCTCTCTTGTCTACATGGTGT-CCTTCATCTGGAATCACGCATGCGACCTAGCTACATTTA
1 CGTAACTCTCTTGTCTACATGGTGTACATAC-T-TCGAATCACACATGCGACCTAGCTACATTTA
38117184 TCTTTCA
64 TCTTTCA
* * * * *
38117191 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAACTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38117256 CTTTCA
65 CTTTCA
* *
38117262 CGTAACTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAACTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38117318 TACAGGGTGT
Statistics
Matches: 115, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 87 0.76
72 3 0.03
73 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAACTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38120878 original size:30 final size:30
Alignment explanation
Indices: 38120842--38120901 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38120832 TTCCCGAGCC
*
38120842 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
38120872 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
38120902 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:38126155 original size:14 final size:14
Alignment explanation
Indices: 38126136--38126162 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38126126 ATATTTAACT
38126136 TGTTCTTAATTATG
1 TGTTCTTAATTATG
38126150 TGTTCTTAATTAT
1 TGTTCTTAATTAT
38126163 TATTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:38130443 original size:198 final size:198
Alignment explanation
Indices: 38130198--38130792 Score: 1100
Period size: 198 Copynumber: 3.0 Consensus size: 198
38130188 TCCTTCACTT
38130198 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
1 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
*
38130263 GTATCACCCATGCGACCTTGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
*
38130328 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCTAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
38130393 CGG
196 CGG
* *
38130396 GGAACCACGTATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCTACATGGTGTACACATA
1 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
* *
38130461 GTATCACCCATGTGTCCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
* *
38130526 TCAGCACTATACATGTGACCTAGCTACATACCATCTATGTCATCCAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
38130591 CGG
196 CGG
38130594 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
1 GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
*
38130659 GTATCACCCATGCGACCTAGCTACATCGTAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
*
38130724 TCAGCACTATACATGTGACCTATCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
38130789 CGG
196 CGG
38130792 G
1 G
38130793 ATTTCTCTCT
Statistics
Matches: 381, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 381 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (198 bp):
GGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATA
GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
CGG
Found at i:38133768 original size:40 final size:40
Alignment explanation
Indices: 38133724--38133884 Score: 164
Period size: 40 Copynumber: 4.0 Consensus size: 40
38133714 CGGGATTCAA
* * * *
38133724 CCGGATATAACCACAAGCACAATTGCCTTCAGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
38133764 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *
38133804 CCGGTTATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
38133844 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
38133884 C
1 C
38133885 TGGGTATCAT
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 94 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:38143312 original size:40 final size:40
Alignment explanation
Indices: 38143267--38143433 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
38143257 CGGAATATAA
38143267 CCGGATATAATCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
38143307 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACGAATGCCTTCGGGTCTTAGC
** *
38143347 CCGGATATAGCCACTAGCAC-AATTGCCTTCGGGT-TTAAC
1 CCGGATATAATCACTAGCACGAA-TGCCTTCGGGTCTTAGC
** * * * *
38143386 CCGGATATAATTTCCAGCA-TAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACGAA-TGCCTTCGGGTCTTAGC
38143426 CCGGATAT
1 CCGGATAT
38143434 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.31
40 74 0.69
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:38145725 original size:198 final size:198
Alignment explanation
Indices: 38145480--38145873 Score: 727
Period size: 198 Copynumber: 2.0 Consensus size: 198
38145470 TCCTTCACTT
38145480 GGAACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATA
1 GGAACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATA
38145545 GTATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
*
38145610 TCAGCACTATACATGTGACCTAGCTACATACCATCAGTATCATCCAATCTTTCTGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCAGTATCATCCAATCTTTCCGAAGGTTCAAC
38145675 CGG
196 CGG
*
38145678 GGAACCACGCATGCGACCTAGCTACGTATATCCCT-TAGCTCTCTTGTCTACATGGTGTACACAT
1 GGAACCACGCATGCGACCTAGCTACATATAT-CCTGTAGCTCTCTTGTCTACATGGTGTACACAT
*
38145742 AGTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCA
65 AGTATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCA
* *
38145807 CTCAGCACTATACATGTGACCTAGCTACATTCCATCTGTATCATCCAATCTTTCCGAAGGTTCAA
130 CTCAGCACTATACATGTGACCTAGCTACATACCATCAGTATCATCCAATCTTTCCGAAGGTTCAA
38145872 CC
195 CC
38145874 AGGATTTCTC
Statistics
Matches: 190, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
198 187 0.98
199 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (198 bp):
GGAACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATA
GTATCACCCATGCAACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
TCAGCACTATACATGTGACCTAGCTACATACCATCAGTATCATCCAATCTTTCCGAAGGTTCAAC
CGG
Found at i:38145799 original size:68 final size:64
Alignment explanation
Indices: 38145387--38145799 Score: 218
Period size: 68 Copynumber: 6.2 Consensus size: 64
38145377 ATATAGTTCG
* * * * *
38145387 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCGT
1 GCTCTCTTGT-CACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTTGT
38145449 A
64 A
* * * * * *
38145450 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATA-TCCT
1 GCTCTCTTGTC-ACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTT
38145514 GTA
62 GTA
* *
38145517 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTT
38145582 GTA
62 GTA
* * * * ** * * *
38145585 GCTCTCTTGTACACATGATGTGCAC-TCAGCACTATACATGTGACCTAGCTACATACCA-TC-AG
1 GCTCTCTTGT-CACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA-TATTCTTG
38145647 TA
63 TA
* ** * *** * * * *
38145649 TCATCCAATCTT-TCTGAAGGT-T-CAACCGGGGAACCACGCATGCGACCTAGCTACGTATATCC
1 GC-T-C--TCTTGTCACATGGTGTAC-A-CATAGTACCACCCATGCGACCTAGCTACATATATTC
*
38145711 CT-TA
60 TTGTA
*
38145715 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTT
38145780 GTA
62 GTA
38145783 GCTCTCTTGTACACATG
1 GCTCTCTTGT-CACATG
38145800 ATGTGCACTC
Statistics
Matches: 262, Mismatches: 57, Indels: 57
0.70 0.15 0.15
Matches are distributed among these distances:
62 5 0.02
63 20 0.08
64 60 0.23
65 13 0.05
66 58 0.22
67 34 0.13
68 70 0.27
69 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTTGTA
Found at i:38146540 original size:30 final size:30
Alignment explanation
Indices: 38146506--38146566 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38146496 TCATTAACTC
38146506 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38146536 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38146566 A
1 A
38146567 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38148246 original size:29 final size:29
Alignment explanation
Indices: 38148178--38148273 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
38148168 AAGTCTACAT
* * *
38148178 ACATGCATATGACCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
38148206 TCAATCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38148235 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38148264 ACATTCATAT
1 ACATTCATAT
38148274 ACATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 19 0.33
29 39 0.67
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38148525 original size:16 final size:16
Alignment explanation
Indices: 38148484--38148536 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
38148474 GTACCCAAAC
38148484 TTTCGGCTTTT-GGCA
1 TTTCGGCTTTTCGGCA
** *
38148499 TTTTAGCTTTTCGGCC
1 TTTCGGCTTTTCGGCA
38148515 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
38148531 TTTCGG
1 TTTCGG
38148537 GATTTGCCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
15 9 0.29
16 22 0.71
ACGTcount: A:0.06, C:0.23, G:0.25, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:38152787 original size:29 final size:30
Alignment explanation
Indices: 38152724--38152843 Score: 169
Period size: 29 Copynumber: 4.2 Consensus size: 30
38152714 TACAAACATG
* *
38152724 CATATGGCCCACTAGGCCC-AATC-TTATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
*
38152752 CATATGGTCCATTAGGCCCAAATCACT-TT
1 CATATGGCCCATTAGGCCCAAATCACTATT
*
38152781 CGTATGGCCCATTAGGCCCAAATCA-TATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
38152810 CATATGGCCCATTAGGCCCAAATCAC-ATT
1 CATATGGCCCATTAGGCCCAAATCACTATT
38152839 CATAT
1 CATAT
38152844 ACATGCTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
28 18 0.22
29 63 0.77
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
CATATGGCCCATTAGGCCCAAATCACTATT
Found at i:38159781 original size:43 final size:41
Alignment explanation
Indices: 38159708--38159855 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 41
38159698 TATCCCAAAT
** * * * *
38159708 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAAAA
1 ATGGTCTTACATGAAATCA-ATA-CAATGCCAATGTCCTAGAC
* *
38159751 AGGGTCTTACATGAAATCAATTAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGAAATCAA-T-ACAATGCCAATGTCCTAGAC
* *
38159794 ATGGTCTTACATGTAATCTCAATACAATGGCAATGTCCTAGAC
1 ATGGTCTTACATG-AA-ATCAATACAATGCCAATGTCCTAGAC
*
38159837 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATGAAATCA
38159856 CATCTCGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 74 0.85
44 4 0.05
45 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGGTCTTACATGAAATCAATACAATGCCAATGTCCTAGAC
Found at i:38159833 original size:86 final size:85
Alignment explanation
Indices: 38159689--38159855 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 85
38159679 ATAAGCTCAT
* * * *
38159689 ACAATGCCATATCCCAAATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAAAAAGG
1 ACAATGCCATATCCCAAACATGGTCTTACATGTAATCACATATCAATGCCAATGTCCTAAAAAGG
38159754 GTCTTACATGAAATCAATTA
66 GTCTTACATGAAATCAATTA
* * * * * *
38159774 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCA-ATACAATGGCAATGTCCTAGACA
1 ACAATGCC-ATATCCCAAACATGGTCTTACATGTAATCACATAT-CAATGCCAATGTCCTAAAAA
* *
38159838 TGGTCTTACATGTAATCA
64 GGGTCTTACATGAAATCA
38159856 CATCTCGATA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 10 0.15
86 58 0.85
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (85 bp):
ACAATGCCATATCCCAAACATGGTCTTACATGTAATCACATATCAATGCCAATGTCCTAAAAAGG
GTCTTACATGAAATCAATTA
Found at i:38163466 original size:27 final size:27
Alignment explanation
Indices: 38163418--38163549 Score: 155
Period size: 27 Copynumber: 4.9 Consensus size: 27
38163408 GCGAGGCTGG
* * *
38163418 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
38163445 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
38163471 CAGATATATGTGGCAGAGCCACCA-AGA
1 CAGATAT-TGTGGCAGAGCCACCAGATA
38163498 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38163525 TAGATAATTGTGGC-GTAGCCACCAG
1 CAGAT-ATTGTGGCAG-AGCCACCAG
38163550 GATGCTTCCT
Statistics
Matches: 95, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
26 10 0.11
27 82 0.86
28 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38165171 original size:26 final size:26
Alignment explanation
Indices: 38165141--38165222 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
38165131 TGAAATGCCC
38165141 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38165167 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38165193 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38165219 ATCA
1 ATCA
38165223 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38171419 original size:27 final size:27
Alignment explanation
Indices: 38171371--38171529 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
38171361 GCGAGGATGC
* * *
38171371 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
38171398 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38171424 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38171451 CAGATAATTGTGGCATAGCCACCA-AGA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
38171478 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
38171505 TAGATAATTGAGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38171530 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.10
27 99 0.86
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38171461 original size:54 final size:55
Alignment explanation
Indices: 38171371--38171529 Score: 227
Period size: 54 Copynumber: 2.9 Consensus size: 55
38171361 GCGAGGATGC
* * * *
38171371 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGA-A
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAGA
38171424 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA-AGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAGA
* *
38171478 CAGATATATGTGGCAGAGCCACCAGATTAGATAATTGAGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
38171530 GATGCTTCCT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
53 13 0.14
54 83 0.86
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (55 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAGA
Found at i:38173155 original size:26 final size:26
Alignment explanation
Indices: 38173125--38173206 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
38173115 TGAAATGCCC
38173125 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38173151 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38173177 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38173203 ATCA
1 ATCA
38173207 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38173623 original size:48 final size:48
Alignment explanation
Indices: 38173479--38173631 Score: 175
Period size: 48 Copynumber: 3.2 Consensus size: 48
38173469 GGGCATTACA
* * * * * *
38173479 TCTGGGACATGTATCGGCCTCGAGATATTTAAGCCAGCGTAAGAAATG
1 TCTGGGACATGCATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
* ** * *
38173527 TCTAGGACATGCATCGGTATTGAGACA-A-GAGCTAGTGTAAGACATG
1 TCTGGGACATGCATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
* *
38173573 TCTGGGACATGCATCGGCCTTGCGATATATAAGCTAGTGTAAGACCTG
1 TCTGGGACATGCATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
38173621 TCTGGGACATG
1 TCTGGGACATG
38173632 GCATTAGCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
46 36 0.42
47 1 0.01
48 48 0.56
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TCTGGGACATGCATCGGCCTTGAGATATATAAGCTAGTGTAAGACATG
Found at i:38175954 original size:46 final size:46
Alignment explanation
Indices: 38175788--38176046 Score: 256
Period size: 46 Copynumber: 5.6 Consensus size: 46
38175778 TGATATGTGT
* * *
38175788 GCTAGTGTAAGACATGTCTGGGACATG-CTTCAGCCA--CAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGAATT--GGCATTGAG-ATGAGA
* * * * * * *
38175834 GCCAGTGTAAAACATGTCTTGGACATGCATCGGCCTTGAGAT-ATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGAATTGGCATTGAGATGA---GA
* * *
38175882 GCCAGTGTAAGACATGTCTGGAACATGAATTGGCATTGAGTTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGAATTGGCATTGAGATGAGA
* * * *
38175928 GCTAGTGTAAGACATGTTTGGGACATGTATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGAATTGGCATTGAGATGAGA
* *
38175974 GCTAGTGTAAGACATGTCAGGGACATGCATTGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGAATTGGCATTGAGATGAGA
*
38176020 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38176047 GCATCGATAT
Statistics
Matches: 175, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
45 3 0.02
46 132 0.75
47 3 0.02
48 36 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGAATTGGCATTGAGATGAGA
Found at i:38176021 original size:92 final size:92
Alignment explanation
Indices: 38175788--38176052 Score: 288
Period size: 92 Copynumber: 2.8 Consensus size: 92
38175778 TGATATGTGT
* * * *
38175788 GCTAGTGTAAGACATGTCTGGGACATGC-TTCAGCCA--CAGCATGAGAGCCAGTGTAAAACATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATT--GGCATTGAG-ATGAGAGCTAGTGTAAGACATG
* *
38175850 TCTT-GGACATGCATCGGCCTTGAGATATTTAA
63 T-TTGGGACATGCATCGGCATTGAGAGA--TAA
* * * *
38175882 GCCAGTGTAAGACATGTCTGGAACATGAATTGGCATTGAGTTGAGAGCTAGTGTAAGACATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGATGAGAGCTAGTGTAAGACATGTTT
* *
38175947 GGGACATGTATCGGCATTGAGACGA-GA
66 GGGACATGCATCGGCATTGAGA-GATAA
* * *
38175974 GCTAGTGTAAGACATGTCAGGGACATGCATTGGCATTGAGATGAGAGCTAGTGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGATGAGAGCTAGTGTAAGACATGTTT
38176039 GGGACATGGCATCG
66 GGGACAT-GCATCG
38176053 ATATCTTAAC
Statistics
Matches: 145, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
92 66 0.46
93 10 0.07
94 64 0.44
95 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGATGAGAGCTAGTGTAAGACATGTTT
GGGACATGCATCGGCATTGAGAGATAA
Found at i:38180490 original size:40 final size:41
Alignment explanation
Indices: 38180445--38180552 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 41
38180435 ATATATATAT
*
38180445 ATATATATGGCACTTAGTGTGTGATTC-AAGAAAG-ATTCGGC
1 ATATATATGGCACTTAGTGTGCGATTCGAA-AAAGCA-TCGGC
*
38180486 TATATATATGTATGGCACTTAGTGTGCGATTCGAAATAGCATCGGC
1 ---ATATA--TATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
38180532 -TATATATGGCACTTAGTGTGC
1 ATATATATGGCACTTAGTGTGC
38180553 AAGACCGGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
40 17 0.29
42 4 0.07
44 5 0.09
46 29 0.50
47 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (41 bp):
ATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
Found at i:38180500 original size:46 final size:46
Alignment explanation
Indices: 38180440--38180538 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
38180430 TTCAGATATA
*
38180440 TATATATATATATGGCACTTAGTGTGTGATTC-AAGAAAG-ATTCGGC
1 TATATATATATATGGCACTTAGTGTGCGATTCGAA-AAAGCA-TCGGC
* *
38180486 TATATATATGTATGGCACTTAGTGTGCGATTCGAAATAGCATCGGC
1 TATATATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
38180532 TATATAT
1 TATATAT
38180539 GGCACTTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
46 45 0.94
47 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (46 bp):
TATATATATATATGGCACTTAGTGTGCGATTCGAAAAAGCATCGGC
Found at i:38194425 original size:42 final size:43
Alignment explanation
Indices: 38194378--38194487 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 43
38194368 GACAATTCAG
* *
38194378 ATATATATATGGCACTTAGT-ATGCGATTCAAGAA-AGCTTCGGC
1 ATATATATATGGCACTTAGTGA-GCAATTC-AGAATAGCATCGGC
38194421 TATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGC
1 -ATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGC
* *
38194465 ---TATATATGGCGCTTAGTGTGCAA
1 ATATATATATGGCACTTAGTGAGCAA
38194488 GACTGGGATA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
40 21 0.35
43 4 0.07
44 34 0.57
45 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (43 bp):
ATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGC
Found at i:38194435 original size:44 final size:44
Alignment explanation
Indices: 38194378--38194471 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 44
38194368 GACAATTCAG
* *
38194378 ATATATATATGGCACTTAGT-ATGCGATTCAAGAA-AGCTTCGGCT
1 ATATATATATGGCACTTAGTGA-GCAATTC-AGAATAGCATCGGCT
38194422 ATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGCT
1 ATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGCT
38194466 ATATAT
1 ATATAT
38194472 GGCGCTTAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 4 0.09
44 41 0.89
45 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (44 bp):
ATATATATATGGCACTTAGTGAGCAATTCAGAATAGCATCGGCT
Found at i:38198736 original size:14 final size:14
Alignment explanation
Indices: 38198719--38198745 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38198709 ATGTATGATA
38198719 ATTTTAGTATAGTC
1 ATTTTAGTATAGTC
38198733 ATTTTAGTATAGT
1 ATTTTAGTATAGT
38198746 TAAATCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.52
Consensus pattern (14 bp):
ATTTTAGTATAGTC
Found at i:38205735 original size:68 final size:70
Alignment explanation
Indices: 38205663--38205860 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
38205653 ACACCCTGTA
* * * *
38205663 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
38205725 ATAAAT
65 ATAAAT
*
38205731 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
38205796 ATAAAT
65 ATAAAT
*
38205802 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
38205861 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:38205774 original size:41 final size:41
Alignment explanation
Indices: 38205729--38205846 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
38205719 TGAAAGATAA
38205729 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
38205770 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38205800 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38205841 ATGTAG
1 ATGTAG
38205847 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:38205786 original size:71 final size:71
Alignment explanation
Indices: 38205697--38205860 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38205687 GAGATGTATC
38205697 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38205762 AGGACA
66 AGGACA
38205768 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38205833 AGGACA
66 AGGACA
38205839 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
38205861 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:38208782 original size:22 final size:20
Alignment explanation
Indices: 38208751--38208794 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
38208741 TCATACGGGT
38208751 TAATAAATAAAAATAAAAATAA
1 TAATAAAT-AAAATAAAAA-AA
* *
38208773 TAATATATAATATAAAAAAA
1 TAATAAATAAAATAAAAAAA
38208793 TA
1 TA
38208795 GGCAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TAATAAATAAAATAAAAAAA
Found at i:38216685 original size:46 final size:46
Alignment explanation
Indices: 38216618--38216706 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
38216608 AGTTTTTTTA
38216618 TCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCATTC
1 TCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCATTC
38216664 TCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
1 TCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCA
38216707 ATTTTTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.47, C:0.08, G:0.25, T:0.20
Consensus pattern (46 bp):
TCATGAAGAGGGAGAGAAAATTTTTCAAAAAGAGAAGATAGCATTC
Found at i:38216709 original size:24 final size:24
Alignment explanation
Indices: 38216636--38216712 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
38216626 AGGGAGAGAA
38216636 AATTTTTCAAAAAGAGAAGATAGC
1 AATTTTTCAAAAAGAGAAGATAGC
* ** * * *
38216660 -A-TTCTCATGAAGAG-GGAGAGAA
1 AATTTTTCAAAAAGAGAAGATAG-C
38216682 AATTTTTCAAAAAGAGAAGATAGC
1 AATTTTTCAAAAAGAGAAGATAGC
38216706 AATTTTT
1 AATTTTT
38216713 GATAACCCCC
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
21 4 0.11
22 10 0.27
23 2 0.05
24 17 0.46
25 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.27
Consensus pattern (24 bp):
AATTTTTCAAAAAGAGAAGATAGC
Found at i:38216990 original size:29 final size:29
Alignment explanation
Indices: 38216948--38217007 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
38216938 TTGCTAAAGG
38216948 TAGAGCTTGAACTTCAGACCTCACACACA
1 TAGAGCTTGAACTTCAGACCTCACACACA
** *
38216977 TAGAGCTTGAACTTGGGAGCTCACACACA
1 TAGAGCTTGAACTTCAGACCTCACACACA
38217006 TA
1 TA
38217008 CCCAGAGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (29 bp):
TAGAGCTTGAACTTCAGACCTCACACACA
Found at i:38221421 original size:16 final size:16
Alignment explanation
Indices: 38221397--38221433 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
38221387 TTTAAAAAGG
*
38221397 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
38221413 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
38221429 AAAAA
1 AAAAA
38221434 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:38221765 original size:13 final size:13
Alignment explanation
Indices: 38221747--38221771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38221737 CAGATTCGAC
38221747 CACGGCCATGTCT
1 CACGGCCATGTCT
38221760 CACGGCCATGTC
1 CACGGCCATGTC
38221772 ATTTTATCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CACGGCCATGTCT
Found at i:38224287 original size:28 final size:28
Alignment explanation
Indices: 38224252--38224306 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
38224242 GGGTATATTG
38224252 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
38224280 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
38224307 GTGATCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:38225955 original size:20 final size:20
Alignment explanation
Indices: 38225932--38225969 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38225922 CACATCCAAA
*
38225932 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
38225952 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
38225970 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:38227100 original size:32 final size:32
Alignment explanation
Indices: 38227059--38227122 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
38227049 TAAGGCAAAG
*
38227059 ATGGAAAGAGTTATCGAATACCAAAAAATCAT
1 ATGGAAAGAGTTACCGAATACCAAAAAATCAT
*
38227091 ATGGAAAGAGTTACCGAATACCGAAAAATCAT
1 ATGGAAAGAGTTACCGAATACCAAAAAATCAT
38227123 CCATGAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (32 bp):
ATGGAAAGAGTTACCGAATACCAAAAAATCAT
Found at i:38229607 original size:16 final size:16
Alignment explanation
Indices: 38229586--38229616 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38229576 TCAAAATGCC
38229586 GGCTTTTCAGCTTTTT
1 GGCTTTTCAGCTTTTT
38229602 GGCTTTTCAGCTTTT
1 GGCTTTTCAGCTTTT
38229617 GCCAATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.19, T:0.55
Consensus pattern (16 bp):
GGCTTTTCAGCTTTTT
Found at i:38243916 original size:15 final size:16
Alignment explanation
Indices: 38243896--38243931 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
38243886 ATAGATAAGA
38243896 TATTTATTTTT-TGTT
1 TATTTATTTTTATGTT
*
38243911 TATTTATTTTTATTTT
1 TATTTATTTTTATGTT
38243927 TATTT
1 TATTT
38243932 TCTTTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TATTTATTTTTATGTT
Found at i:38247992 original size:28 final size:28
Alignment explanation
Indices: 38247960--38248022 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
38247950 CAGTAACAAT
* * *
38247960 ACAGTCCGAGCCTTAGCCCTATACAGTA
1 ACAGTACGAGCCTAAGCCCAATACAGTA
* *
38247988 ACAGTATGGGCCTAAGCCCAATACAGTA
1 ACAGTACGAGCCTAAGCCCAATACAGTA
*
38248016 TCAGTAC
1 ACAGTAC
38248023 AGTGTAATGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (28 bp):
ACAGTACGAGCCTAAGCCCAATACAGTA
Found at i:38248389 original size:27 final size:27
Alignment explanation
Indices: 38248371--38248687 Score: 251
Period size: 27 Copynumber: 11.4 Consensus size: 27
38248361 GGGCATAATC
* *
38248371 ATCATTTTACCATACAAGGGTATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* *
38248398 GTCATTTTACCCTATAAGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
*
38248425 ATCATTTTACCCTACAGGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
38248452 GTCACTTTACCCTACAGGGGCATTATGGTCATTATG
1 ATCATTTTACCCTACAAGGGCATTA----C-----G
* * * *
38248488 GTCATTTTTCCCTACAGGGGTATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* *
38248515 GTCATTTTACCCTACAAGGGCATTATG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
38248542 GTCATTTTACCCTAC-AGTGGTATTATG
1 ATCATTTTACCCTACAAG-GGCATTACG
* *
38248569 GTCATGTTACCCTACAAGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* * * *
38248596 GTCATTTTACCCTACAGGGGTATTATG
1 ATCATTTTACCCTACAAGGGCATTACG
* * *
38248623 GTTATTTTACCCTACAGGGGCATTACG
1 ATCATTTTACCCTACAAGGGCATTACG
* *
38248650 GTCATTTTACCCTACACA-GGCATGACG
1 ATCATTTTACCCTACA-AGGGCATTACG
* *
38248677 GTTATTTTACC
1 ATCATTTTACC
38248688 TATTTGGGGT
Statistics
Matches: 247, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.01
27 218 0.88
28 2 0.01
31 1 0.00
32 1 0.00
36 23 0.09
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
ATCATTTTACCCTACAAGGGCATTACG
Found at i:38248415 original size:54 final size:54
Alignment explanation
Indices: 38248359--38248665 Score: 323
Period size: 54 Copynumber: 5.5 Consensus size: 54
38248349 TACGAAACAT
* * * *
38248359 AAGGGCATAATCATCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTAT
1 AAGGGCATTATCATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
* *
38248413 AAGGGCATTA-CGATCATTTTACCCTACAGGGGCATTACGGTCACTTTACCCTAC
1 AAGGGCATTATC-ATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
* *
38248467 AGGGGCATTATGGTCATTATGGTCATTTTTCCCTACAGGGGTATTACGGTCATTTTACCCTAC
1 AAGGGCATTA---TC---A---TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
** * * *
38248530 AAGGGCATTATGGTCATTTTACCCTACAGTGGTATTATGGTCATGTTACCCTAC
1 AAGGGCATTATCATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
* * *
38248584 AAGGGCATTA-CGGTCATTTTACCCTACAGGGGTATTATGGTTATTTTACCCTAC
1 AAGGGCATTATC-ATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
* *
38248638 AGGGGCATTA-CGGTCATTTTACCCTACA
1 AAGGGCATTATC-ATCATTTTACCCTACA
38248666 CAGGCATGAC
Statistics
Matches: 219, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.00
54 168 0.77
58 1 0.00
60 2 0.01
63 47 0.21
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
AAGGGCATTATCATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTAC
Found at i:38248484 original size:81 final size:81
Alignment explanation
Indices: 38248372--38248687 Score: 364
Period size: 81 Copynumber: 3.8 Consensus size: 81
38248362 GGCATAATCA
* * * * *
38248372 TCATTTTACCATACAAGGGTATTACGGTCATTTTACCCTATAAGGGCATTACGATCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCC
*
38248437 TACAGGGGCATTACGG
66 TACAGGGGCATTATGG
* * * *
38248453 TCACTTTACCCTACAGGGGCATTATGGTCATTATGGTCATTTTTCCCTACAGGGGTATTACGGTC
1 TCATTTTACCCTACAGGGGCATTA----C-----GGTCATTTTACCCTACAAGGGCATTACGGTC
*
38248518 ATTTTACCCTACAAGGGCATTATGG
57 ATTTTACCCTACAGGGGCATTATGG
* * * *
38248543 TCATTTTACCCTACAGTGGTATTATGGTCATGTTACCCTACAAGGGCATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCC
*
38248608 TACAGGGGTATTATGG
66 TACAGGGGCATTATGG
* * *
38248624 TTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACACA-GGCATGACGGTTATTTTACC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACA-AGGGCATTACGGTCATTTTACC
38248688 TATTTGGGGT
Statistics
Matches: 197, Mismatches: 28, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
81 125 0.63
82 1 0.01
85 1 0.01
90 70 0.36
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCC
TACAGGGGCATTATGG
Found at i:38248501 original size:36 final size:36
Alignment explanation
Indices: 38248445--38248520 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
38248435 CCTACAGGGG
*
38248445 CATTACGGTCACTTTACCCTACAGGGGCATTATGGT
1 CATTACGGTCACTTTACCCTACAGGGGCATTACGGT
* * * *
38248481 CATTATGGTCATTTTTCCCTACAGGGGTATTACGGT
1 CATTACGGTCACTTTACCCTACAGGGGCATTACGGT
38248517 CATT
1 CATT
38248521 TTACCCTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (36 bp):
CATTACGGTCACTTTACCCTACAGGGGCATTACGGT
Found at i:38254786 original size:5 final size:5
Alignment explanation
Indices: 38254756--38254789 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
38254746 TTAGTTTATT
*
38254756 TTTTG TTTTTA TTTTG TTTTG TTTTG TTTTG TTT
1 TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTT
38254790 GCATGAGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:38256012 original size:17 final size:17
Alignment explanation
Indices: 38255992--38256038 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
38255982 GGTTTATCGG
*
38255992 TTTTAGTTGTTTGTTTA
1 TTTTAGTTGTTTATTTA
**
38256009 TTTTTCTTGTTTATTTA
1 TTTTAGTTGTTTATTTA
*
38256026 TTTTAGTTATTTA
1 TTTTAGTTGTTTA
38256039 ATTTCTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTAGTTGTTTATTTA
Found at i:38258696 original size:43 final size:43
Alignment explanation
Indices: 38258635--38258800 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
38258625 AAGCTCGTAT
*
38258635 AATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAATAGC
1 AATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATA-C
* **
38258678 AATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATCAAATAC
1 AATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATAC
* * * *
38258720 GATGCCGA-TGTCCTAGACATCGTCTTACACGTAAATCTCAAAT-C
1 AATGCCAACTGTCCCAGACATGGTCTTACACGT-AA--TCAAATAC
* * ** *
38258764 GATGCCAACT-TCCCAAATGTGGTCTTACACGAAATCA
1 AATGCCAACTGTCCCAGACATGGTCTTACACGTAATCA
38258801 CATATTGGAA
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 27 0.27
43 39 0.39
44 24 0.24
45 7 0.07
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
AATGCCAACTGTCCCAGACATGGTCTTACACGTAATCAAATAC
Found at i:38266320 original size:40 final size:40
Alignment explanation
Indices: 38266174--38266391 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 40
38266164 TGAATGGTAT
* * * *
38266174 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
38266215 CCAGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
38266255 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
38266294 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
38266334 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
38266374 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
38266392 ACAATCGAGC
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 39 0.25
40 91 0.59
41 24 0.16
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:38266412 original size:40 final size:40
Alignment explanation
Indices: 38266334--38266417 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
38266324 GTTACTAAAT
* * *
38266334 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
38266374 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
38266414 CCGG
1 CCGG
38266418 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:38266420 original size:119 final size:120
Alignment explanation
Indices: 38266171--38266431 Score: 276
Period size: 119 Copynumber: 2.2 Consensus size: 120
38266161 ATTTGAATGG
* *
38266171 TATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCAGGTCAATTCCCGAAGGCA
1 TATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCAGGTCAATTCCCGAAGGCA
* * * * * * * * *
38266236 TTTGTGCGAGTTACCAAAACCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACCA
66 ATTGTGCGAATCACCAAAACCGGGCTAAGCCCGAAGACAATCGAGCGAGTCACCA
* * * * *
38266291 AAACCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC-GGGCTAATTCCCGAAGGC
1 TATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCAGGTC-AATTCCCGAAGGC
* * * * *
38266354 AATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTA
65 AATTGTGCGAATCACCAAAACCGGGCTAAG-CCCGAAGACAATCGAGCGAGTCACCA
* *
38266411 TATCC-GGTTAAATTCCGAAGG
1 TATCCGGGTTAAGTCCCGAAGG
38266432 TACGTGATTC
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
118 3 0.03
119 62 0.54
120 49 0.43
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (120 bp):
TATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCAGGTCAATTCCCGAAGGCA
ATTGTGCGAATCACCAAAACCGGGCTAAGCCCGAAGACAATCGAGCGAGTCACCA
Found at i:38266426 original size:80 final size:80
Alignment explanation
Indices: 38266265--38266417 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 80
38266255 CCGGGTTAAG
* * * * * * * * *
38266265 CCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
38266330 AAATCCGGGCTAATT
66 AAATCCGGGCTAATT
* * * *
38266345 CCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCT
1 CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
*
38266410 ATATCCGG
66 AAATCCGG
38266418 TTAAATTCCG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (80 bp):
CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
AAATCCGGGCTAATT
Found at i:38274231 original size:39 final size:39
Alignment explanation
Indices: 38274175--38274352 Score: 198
Period size: 39 Copynumber: 4.5 Consensus size: 39
38274165 CCGGGCTAAG
* * * * *
38274175 TCCCGAAGGCTTTTGTGCTAAGTGA-CTAAATCGGGTCAA
1 TCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTCAA
* *
38274214 TTCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
* *
38274253 GCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
* *
38274292 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG-CTAA
1 -TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC-AA
*
38274332 TTCCCGAAGGCAATTGTGCGA
1 -TCCCGAAGGCATTTGTGCGA
38274353 ATCACTATAA
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
38 4 0.03
39 64 0.53
40 53 0.44
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAA
Found at i:38274309 original size:40 final size:40
Alignment explanation
Indices: 38274165--38274380 Score: 233
Period size: 40 Copynumber: 5.5 Consensus size: 40
38274155 CGAATGGTAT
* * * *
38274165 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGA-CTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
38274205 TCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
38274244 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
38274283 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * * *
38274323 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
38274363 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
38274381 ACAATCGAGC
Statistics
Matches: 152, Mismatches: 19, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.03
39 65 0.43
40 83 0.55
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:38274401 original size:40 final size:40
Alignment explanation
Indices: 38274323--38274406 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
38274313 GTTACTAAAT
* * *
38274323 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
38274363 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
38274403 CCGG
1 CCGG
38274407 TTAAATTCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:38274414 original size:80 final size:80
Alignment explanation
Indices: 38274254--38274406 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 80
38274244 CCGGGTTAAG
* * * * * * * * *
38274254 CCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
38274319 AAATCCGGGCTAATT
66 AAATCCGGGCTAATT
* * * *
38274334 CCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCT
1 CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
*
38274399 ATATCCGG
66 AAATCCGG
38274407 TTAAATTCAG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (80 bp):
CCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
AAATCCGGGCTAATT
Found at i:38277344 original size:43 final size:42
Alignment explanation
Indices: 38277297--38277395 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
38277287 TTCCAGATGT
38277297 GGTCTTACATGTAATCAAATATAGATG-CCACTGTCCCAAACAG
1 GGTCTTACATGTAATCAAATA-AGATGTCCA-TGTCCCAAACAG
* * * *
38277340 GGTCTTACATGAAATCAAATAAGATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGTCCATGTCCCAAACAG
*
38277382 GGTCTTACACGTAA
1 GGTCTTACATGTAA
38277396 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGTCCATGTCCCAAACAG
Found at i:38277386 original size:42 final size:43
Alignment explanation
Indices: 38277296--38277442 Score: 133
Period size: 43 Copynumber: 3.4 Consensus size: 43
38277286 ATTCCAGATG
*
38277296 TGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAAACA
1 TGGTCTTACATGAAATCAAATATAGATGCCACTGTCCCAAACA
* * *
38277339 GGGTCTTACATGAAATCAAATA-AGATGTCGA-TGTCCCAGACA
1 TGGTCTTACATGAAATCAAATATAGATG-CCACTGTCCCAAACA
* * **
38277381 TGGTCTTACACGTAAAT-AGCAA-ATCGATGCCAAC-GTCCCAAATG
1 TGGTCTTACATG-AAATCA--AATATAGATGCC-ACTGTCCCAAACA
*
38277425 TGGTCTTACACGAAATCA
1 TGGTCTTACATGAAATCA
38277443 CACATCGGAA
Statistics
Matches: 85, Mismatches: 11, Indels: 15
0.77 0.10 0.14
Matches are distributed among these distances:
42 26 0.31
43 32 0.38
44 27 0.32
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATAGATGCCACTGTCCCAAACA
Found at i:38280354 original size:43 final size:42
Alignment explanation
Indices: 38280306--38280402 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 42
38280296 GTATTTGAAG
*
38280306 TAAGTGTGCGATACAATTATAGCCTCGTA-TAATTAATTGGCAC
1 TAAGTGTGCGATACAATTATAG--TCGTACTAATTAATCGGCAC
* **
38280349 TAAGTGTGTGATACAATTATAGTTTTAGCTAATTAATCGGCAC
1 TAAGTGTGCGATACAATTATAGTCGTA-CTAATTAATCGGCAC
38280392 TAAGTGTGCGA
1 TAAGTGTGCGA
38280403 GTTCATTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.06
43 44 0.94
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAGTGTGCGATACAATTATAGTCGTACTAATTAATCGGCAC
Found at i:38283201 original size:37 final size:37
Alignment explanation
Indices: 38283159--38283231 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
38283149 TTCTCAGAAG
38283159 TATATGTGACTGTTTAGTTCAGAAAGAATTCTTATCA
1 TATATGTGACTGTTTAGTTCAGAAAGAATTCTTATCA
38283196 TATATGTGACTGTTTAGTTCAGAAAGAATTCTTATC
1 TATATGTGACTGTTTAGTTCAGAAAGAATTCTTATC
38283232 GTATGAGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (37 bp):
TATATGTGACTGTTTAGTTCAGAAAGAATTCTTATCA
Found at i:38288010 original size:40 final size:40
Alignment explanation
Indices: 38287965--38288094 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
38287955 CGGAATACAA
38287965 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
38288005 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
38288045 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
38288085 CCGGATATAA
1 CCGGATATAA
38288095 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:38296052 original size:40 final size:40
Alignment explanation
Indices: 38296007--38296136 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
38295997 CGGAATACAA
38296007 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
38296047 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
38296087 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
38296127 CCGGATATAA
1 CCGGATATAA
38296137 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:38304148 original size:40 final size:41
Alignment explanation
Indices: 38304040--38304151 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 41
38304030 ATAACCACGT
*
38304040 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGAACTA
* *
38304081 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG-AACTA
*
38304121 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
38304152 TAATTTCCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
39 3 0.05
40 31 0.48
41 30 0.47
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGAACTA
Found at i:38313449 original size:29 final size:29
Alignment explanation
Indices: 38313416--38313546 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
38313406 GTGACGAGAT
38313416 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38313445 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
38313474 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
38313503 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
38313532 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38313547 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38317224 original size:43 final size:43
Alignment explanation
Indices: 38317130--38317225 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
38317120 ACGTATTTGT
** * *
38317130 ACTAAGTGCCTGATACAATTATAGCCTCGGCTAATTAATTGGC
1 ACTAAGTGTGTGATACAATTATAGCCTCAGCTAATTAATCGGC
**
38317173 ACTAAGTGTGTGATACAATTATAGTTTCAGCTAATTAATCGGC
1 ACTAAGTGTGTGATACAATTATAGCCTCAGCTAATTAATCGGC
38317216 ACTAAGTGTG
1 ACTAAGTGTG
38317226 CGAGTTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
ACTAAGTGTGTGATACAATTATAGCCTCAGCTAATTAATCGGC
Found at i:38326893 original size:33 final size:33
Alignment explanation
Indices: 38326824--38326894 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
38326814 AATAATATTA
* *
38326824 TAAAA-ATATAAAGATTAAATTAAATTAAAAAT
1 TAAAATATATAAAGATTAAATTAAATCAAAAAC
* *
38326856 TAAAATATATAAATATATAAATTAAA-CCAAAAC
1 TAAAATATATAAAGAT-TAAATTAAATCAAAAAC
38326889 TAAAAT
1 TAAAAT
38326895 TTATTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 5 0.15
33 19 0.58
34 9 0.27
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (33 bp):
TAAAATATATAAAGATTAAATTAAATCAAAAAC
Found at i:38328262 original size:31 final size:31
Alignment explanation
Indices: 38328196--38328273 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
38328186 TCAATCTTTA
*
38328196 AATTATGTCTTGCATTATATGTCTGCAAATTT
1 AATTATGTCATGCATTATATGTCT-CAAATTT
* * *
38328228 AATTATGTCGTGCATTATGTGT-TCTATATTT
1 AATTATGTCATGCATTATATGTCTC-AAATTT
*
38328259 AATTAAGTCATGCAT
1 AATTATGTCATGCAT
38328274 AAAAACATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 1 0.03
31 19 0.47
32 20 0.50
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (31 bp):
AATTATGTCATGCATTATATGTCTCAAATTT
Found at i:38328320 original size:50 final size:49
Alignment explanation
Indices: 38328256--38328364 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
38328246 GTGTTCTATA
*
38328256 TTTAATTAAGTCATGCA-TA-AAAACATCTTATATGTTAATTAAGTTTGTAT
1 TTTAATTAAGTCATGCATTATAAAAC-TC--ATATGTTAAATAAGTTTGTAT
** *
38328306 TTTAATTATTTCATGCATTATGAAACTCATATGTTAAATAAGTTTGTAT
1 TTTAATTAAGTCATGCATTATAAAACTCATATGTTAAATAAGTTTGTAT
38328355 TTTAATTAAG
1 TTTAATTAAG
38328365 CGGTGCATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
49 28 0.55
50 15 0.29
51 4 0.08
52 4 0.08
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (49 bp):
TTTAATTAAGTCATGCATTATAAAACTCATATGTTAAATAAGTTTGTAT
Found at i:38328398 original size:50 final size:49
Alignment explanation
Indices: 38328279--38328399 Score: 145
Period size: 49 Copynumber: 2.4 Consensus size: 49
38328269 TGCATAAAAA
**
38328279 CATCTTATATGTTAATTAAGTTTGTATTTTAATTATTTCATGCATTATG
1 CATCTTATATGTTAATTAAGTTTGTATTTTAATTATAGCATGCATTATG
* * * * *
38328328 AAACTCATATGTTAAATAAGTTTGTATTTTAATTA-AGCGGTGCATTTATG
1 CATCTTATATGTTAATTAAGTTTGTATTTTAATTATAGC-ATGCA-TTATG
*
38328378 CATCTTATTTGTTAATTAAGTT
1 CATCTTATATGTTAATTAAGTT
38328400 CAAGAATAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
48 1 0.02
49 35 0.60
50 22 0.38
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (49 bp):
CATCTTATATGTTAATTAAGTTTGTATTTTAATTATAGCATGCATTATG
Found at i:38328760 original size:37 final size:37
Alignment explanation
Indices: 38328710--38328811 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
38328700 TTAAGCCTCC
* *
38328710 ATCAAGTATAGAGACATGACTATTCAAAAACACATGG
1 ATCAAGTAAAGAGACATGACTTTTCAAAAACACATGG
* ** *
38328747 ATCAAGTAAAGAGACATGGCTTTTCAACTAGACATGG
1 ATCAAGTAAAGAGACATGACTTTTCAAAAACACATGG
* * *
38328784 AACAAGTGAAGAAACATGACTTTTCAAA
1 ATCAAGTAAAGAGACATGACTTTTCAAA
38328812 TATTATCTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (37 bp):
ATCAAGTAAAGAGACATGACTTTTCAAAAACACATGG
Found at i:38333029 original size:53 final size:53
Alignment explanation
Indices: 38332852--38333055 Score: 156
Period size: 53 Copynumber: 3.8 Consensus size: 53
38332842 AGGGTTTAAG
* * * * * * * *
38332852 GATACCAAGTAAGACCATGCCAAGGCCTAGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * *
38332906 GAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * * * * *
38332961 TATCCCATGTAAGACCATGCCATGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
*
38333014 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
38333056 TAAAAAGGAA
Statistics
Matches: 113, Mismatches: 35, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
53 44 0.39
54 32 0.28
55 37 0.33
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:38334454 original size:26 final size:26
Alignment explanation
Indices: 38334406--38334473 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
38334396 AGCCCGAATA
38334406 AGCTTCCTGA-T-A-GGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
38334429 AGCTTCCTGATTAATGGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
38334455 AGCTTCCTG-TTATATGGCT
1 AGCTTCCTGATTA-ATGGCT
38334474 TGAGAGAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.24
24 1 0.02
25 4 0.10
26 26 0.63
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.41
Consensus pattern (26 bp):
AGCTTCCTGATTAATGGCTCTTTGTG
Found at i:38338420 original size:28 final size:28
Alignment explanation
Indices: 38338374--38338440 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
38338364 TTTAAAACCC
*
38338374 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
38338401 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
38338429 TAGGGGTAATTT
1 TAGGGGTAATTT
38338441 TGTGATCTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:38350194 original size:46 final size:45
Alignment explanation
Indices: 38350144--38350319 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
38350134 TGTTTGGGCA
*
38350144 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
38350190 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
38350237 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
38350283 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38350320 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38350299 original size:93 final size:93
Alignment explanation
Indices: 38350140--38350312 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
38350130 AGGATGTTTG
* *
38350140 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38350205 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38350233 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38350298 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
38350313 CTTATGGGCG
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:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38353256 original size:15 final size:15
Alignment explanation
Indices: 38353217--38353257 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38353207 GTATCTTGGG
*
38353217 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
38353232 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
38353247 TTTCTTTATTC
1 TTTCTTTATTC
38353258 GTTTTCTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38355661 original size:46 final size:45
Alignment explanation
Indices: 38355611--38355786 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
38355601 TGTTTGGGCA
38355611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
38355657 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
38355704 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38355750 CCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38355787 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38355766 original size:93 final size:93
Alignment explanation
Indices: 38355607--38355779 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
38355597 AGGATGTTTG
* *
38355607 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38355672 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
38355700 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38355765 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
38355780 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38359285 original size:21 final size:21
Alignment explanation
Indices: 38359261--38359311 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
38359251 CTTTTTCATA
*
38359261 GCATCTTCAGGCTTCCACGTT
1 GCATCTTCAGGCTCCCACGTT
38359282 GCATCTTCAGGCTCCCACGTT
1 GCATCTTCAGGCTCCCACGTT
*
38359303 GCTTCTTCA
1 GCATCTTCA
38359312 ATACTGTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.33
Consensus pattern (21 bp):
GCATCTTCAGGCTCCCACGTT
Found at i:38365270 original size:29 final size:30
Alignment explanation
Indices: 38365189--38365270 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
38365179 CTAAGTCAGT
38365189 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
38365219 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCAAAGCTAGTTTAA
*
38365249 ATCGCACA-TTAGTGTCAAAGCT
1 ATCGCACACTTAGTGCCAAAGCT
38365271 TTCGATTCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 13 0.25
30 38 0.75
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (30 bp):
ATCGCACACTTAGTGCCAAAGCTAGTTTAA
Found at i:38367719 original size:53 final size:53
Alignment explanation
Indices: 38367541--38367745 Score: 176
Period size: 53 Copynumber: 3.8 Consensus size: 53
38367531 TAGGGTTTAT
* * * * * *
38367541 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAGGTTTTACAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAA
* * ** * * * * * *
38367595 GGAAATCATGTAAGATAATGTCAAGACATGGCATTGATAAACTACGATAATGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * *
38367650 AGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
* * *
38367703 GGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
38367746 TAAAAAGGAA
Statistics
Matches: 114, Mismatches: 35, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
53 44 0.39
54 34 0.30
55 36 0.32
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:38371148 original size:17 final size:18
Alignment explanation
Indices: 38371106--38371140 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38371096 GAGTTATCTC
38371106 GATATTTAGTGACTAGAA
1 GATATTTAGTGACTAGAA
38371124 GATATTTAGT-ACTAGAA
1 GATATTTAGTGACTAGAA
38371141 ATACTTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (18 bp):
GATATTTAGTGACTAGAA
Found at i:38388313 original size:19 final size:19
Alignment explanation
Indices: 38388289--38388330 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38388279 TATGTGTTAT
*
38388289 CATAAATTCATAGGCATAA
1 CATAAATTCATAGACATAA
**
38388308 CATAAATTTGTAGACATAA
1 CATAAATTCATAGACATAA
38388327 CATA
1 CATA
38388331 CACATTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (19 bp):
CATAAATTCATAGACATAA
Found at i:38397189 original size:12 final size:12
Alignment explanation
Indices: 38397172--38397199 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38397162 ACATGTTTGT
38397172 CACGACCTAGCA
1 CACGACCTAGCA
38397184 CACGACCTAGCA
1 CACGACCTAGCA
38397196 CACG
1 CACG
38397200 GGCGTGTATG
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:0.32, C:0.43, G:0.18, T:0.07
Consensus pattern (12 bp):
CACGACCTAGCA
Found at i:38399116 original size:39 final size:40
Alignment explanation
Indices: 38399050--38399193 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
38399040 AAATTGAATG
* * * *
38399050 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
38399090 ATATCCGGGTTAA-ACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
38399129 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
* *
38399169 CTATCCGTGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
38399194 TTAGTGCACG
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:38399174 original size:40 final size:39
Alignment explanation
Indices: 38399089--38399216 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
38399079 TGCTGGAAAT
* * *
38399089 TATATCCGGGTTAA-ACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
38399128 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* * *
38399168 TCTATCCGTGCTAAGACCCGAAGGCATTAGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGA-GTGAC
38399208 TATATCCGG
1 TATATCCGG
38399217 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
39 17 0.23
40 58 0.77
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:38403752 original size:38 final size:38
Alignment explanation
Indices: 38403688--38403767 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
38403678 GATGTGTATT
* * * *
38403688 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
*
38403726 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
38403764 CGGG
1 CGGG
38403768 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGCCCTAGTGCTGGTATTATATC
Found at i:38403823 original size:43 final size:43
Alignment explanation
Indices: 38403760--38403841 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
38403750 GCTGGTATTA
*
38403760 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
38403803 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGA
1 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGA
38403842 ATTGATATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.11, C:0.27, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:38408922 original size:29 final size:29
Alignment explanation
Indices: 38408852--38408947 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
38408842 AAGTCTACAT
* *
38408852 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38408880 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38408909 ACATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38408938 ACATTCATAT
1 ACATTCATAT
38408948 ACATGCTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 21 0.34
29 40 0.66
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38409179 original size:16 final size:16
Alignment explanation
Indices: 38409158--38409200 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
38409148 ATAGCCAAAC
*
38409158 TTTTGGCTTTTTAGCA
1 TTTTGGCTTTTCAGCA
*
38409174 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCAGCA
*
38409190 TTTCGGCTTTT
1 TTTTGGCTTTT
38409201 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.16, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCAGCA
Found at i:38412521 original size:101 final size:100
Alignment explanation
Indices: 38412405--38412610 Score: 288
Period size: 101 Copynumber: 2.0 Consensus size: 100
38412395 TCACACACAT
*
38412405 ATATCAGAATCACATATCGATGCCAACGTATAAAACGTGGGCTTACT-CGCACATATATATTGAA
1 ATATCAGAATCACATATCGATGCCAACGTATAAAACGTGGGCTTACTCCGCACATATATA-AGAA
* * *
38412469 GTCACATATCGATGCCATGGTCTTAATCGCACATCAC
65 -TCACACATCAATGCCATGGTCTCAATCGCACATCAC
* * *
38412506 ATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCGCACATATATAAGAA
1 ATATCAGAATCACATATCGATGCCAACGTATAAAACGTGGGCTTACTC-CGCACATATATAAGAA
* * *
38412571 TCGCACATCAATGCTATGGTCTCACTCGCACATCAC
65 TCACACATCAATGCCATGGTCTCAATCGCACATCAC
38412607 ATAT
1 ATAT
38412611 TGTAATTCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 78 0.84
102 3 0.03
103 12 0.13
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (100 bp):
ATATCAGAATCACATATCGATGCCAACGTATAAAACGTGGGCTTACTCCGCACATATATAAGAAT
CACACATCAATGCCATGGTCTCAATCGCACATCAC
Found at i:38416809 original size:29 final size:29
Alignment explanation
Indices: 38416747--38416849 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38416737 GTGACGAGAT
* * *
38416747 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38416776 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38416805 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38416834 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38416850 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38424800 original size:29 final size:29
Alignment explanation
Indices: 38424738--38424840 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38424728 GTGACGAGAT
* * *
38424738 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38424767 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38424796 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38424825 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38424841 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38432884 original size:28 final size:28
Alignment explanation
Indices: 38432786--38432886 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 28
38432776 ACATACCTAT
* * *
38432786 ATATGGGCCACTAGGCCCAATCTCTTTC
1 ATATCGGCCACTAGGCCCAATCACATTC
* *
38432814 ATAT-GGCC-CATCAGGCCCATTCACATTT
1 ATATCGGCCAC-T-AGGCCCAATCACATTC
* ** *
38432842 ATGTCACCCATTAGGCCCAAATCACATTC
1 ATATCGGCCACTAGGCCC-AATCACATTC
38432871 ATAT-GGCCACTAGGCC
1 ATATCGGCCACTAGGCC
38432887 AAAATCATAT
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
26 1 0.02
27 5 0.09
28 34 0.63
29 14 0.26
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
ATATCGGCCACTAGGCCCAATCACATTC
Found at i:38432993 original size:18 final size:19
Alignment explanation
Indices: 38432970--38433006 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38432960 TGGGCCCAAC
*
38432970 AGCCCA-TCGGGCCCATTT
1 AGCCCACTCCGGCCCATTT
38432988 AGCCCACTCCGGCCCATTT
1 AGCCCACTCCGGCCCATTT
38433007 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.43, G:0.19, T:0.22
Consensus pattern (19 bp):
AGCCCACTCCGGCCCATTT
Found at i:38433154 original size:16 final size:16
Alignment explanation
Indices: 38433117--38433155 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38433107 CCAAATTTTT
38433117 AGCTTTTTGACATTTC
1 AGCTTTTTGACATTTC
* *
38433133 AACTTTTTGGCATTTC
1 AGCTTTTTGACATTTC
*
38433149 GGCTTTT
1 AGCTTTT
38433156 CGGGATATGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (16 bp):
AGCTTTTTGACATTTC
Found at i:38440561 original size:173 final size:172
Alignment explanation
Indices: 38440272--38440619 Score: 624
Period size: 173 Copynumber: 2.0 Consensus size: 172
38440262 TACCATTTCA
* *
38440272 ATATATTTCATTATGATTAAGTATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
1 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
* *
38440337 TCCACAAGACATGTTAGAGCATCAACTCATAAATCACTTAAAATAACATAAGATAAGTCATATAC
66 TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAGATAAGTCATATAC
*
38440402 ATGAACAACATCAGTTGAAATCATCAATTTCATGAACATAAAC
131 ATAAACAA-ATCAGTTGAAATCATCAATTTCATGAACATAAAC
38440445 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
1 ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
* *
38440510 TCCACAACACATGTTAGAACATCAACTCATAAGTCACTTGAAATAACATAAGATAAGTCATATAC
66 TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAGATAAGTCATATAC
38440575 ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
131 ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
38440617 ATA
1 ATA
38440620 CTTTCATTAA
Statistics
Matches: 168, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
172 37 0.22
173 131 0.78
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (172 bp):
ATATATTTCAATATGATTAAGCATTATATAATCCAAACATAAGTTTGGCACAAGCATAAGCATCA
TCCACAACACATGTTAGAACATCAACTCATAAATCACTTAAAATAACATAAGATAAGTCATATAC
ATAAACAAATCAGTTGAAATCATCAATTTCATGAACATAAAC
Found at i:38446509 original size:26 final size:26
Alignment explanation
Indices: 38446440--38446510 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
38446430 CGTTCCAACC
*
38446440 CACAGCTAGTGTGAGCAGACCCATTT
1 CACAGCTAGTGTGAGCATACCCATTT
* **
38446466 CACAGCTCGTGTGAGCATAGTCATTT
1 CACAGCTAGTGTGAGCATACCCATTT
* *
38446492 CATAGCTTGTGTGAGCATA
1 CACAGCTAGTGTGAGCATA
38446511 ACTATACAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
CACAGCTAGTGTGAGCATACCCATTT
Found at i:38453468 original size:26 final size:26
Alignment explanation
Indices: 38453397--38453519 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
38453387 CCTCTTTAAT
* **
38453397 AACTGGGG-AAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
38453422 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
38453447 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
38453473 AACTGGGGCATAAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
38453499 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
38453520 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
25 30 0.35
26 56 0.65
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:38453513 original size:52 final size:51
Alignment explanation
Indices: 38453397--38453519 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
38453387 CCTCTTTAAT
*
38453397 AACTGGGG-AAAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* *
38453447 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
38453499 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
38453520 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 7 0.10
51 26 0.39
52 34 0.51
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:38453594 original size:20 final size:20
Alignment explanation
Indices: 38453569--38453625 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
38453559 TTATGAATTC
*
38453569 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
38453588 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
38453609 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
38453626 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:38458948 original size:26 final size:26
Alignment explanation
Indices: 38458883--38458999 Score: 166
Period size: 26 Copynumber: 4.6 Consensus size: 26
38458873 TAATAACTCA
**
38458883 GGCA-AAGCCCTTTTCGGTAAACTGG
1 GGCATAAGCCCTTTTCAATAAACTGG
38458908 GGCA-AAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCAATAAACTGG
** **
38458933 GGCATAAGCCCTTTTCGGTAAACTAA
1 GGCATAAGCCCTTTTCAATAAACTGG
38458959 GGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCAATAAACTGG
38458985 GGCATAAGCCCTTTT
1 GGCATAAGCCCTTTT
38459000 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 27 0.33
26 54 0.67
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (26 bp):
GGCATAAGCCCTTTTCAATAAACTGG
Found at i:38458982 original size:52 final size:51
Alignment explanation
Indices: 38458883--38458999 Score: 200
Period size: 52 Copynumber: 2.3 Consensus size: 51
38458873 TAATAACTCA
**
38458883 GGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCGGTAAACTAAGGCAAAGCCCTTTTCAATAAACTGG
38458933 GGCATAAGCCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCGGTAAACTAAGGCA-AAGCCCTTTTCAATAAACTGG
38458985 GGCATAAGCCCTTTT
1 GGCATAAGCCCTTTT
38459000 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 4 0.06
51 23 0.37
52 36 0.57
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (51 bp):
GGCATAAGCCCTTTTCGGTAAACTAAGGCAAAGCCCTTTTCAATAAACTGG
Found at i:38459074 original size:20 final size:20
Alignment explanation
Indices: 38459049--38459123 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
38459039 TTATGAATTC
*
38459049 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
38459069 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
38459089 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
38459109 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
38459124 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:38459080 original size:11 final size:11
Alignment explanation
Indices: 38459049--38459104 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38459039 TTATGAATTC
38459049 ATCATGTGCAT
1 ATCATGTGCAT
* *
38459060 TTCA--TACAT
1 ATCATGTGCAT
38459069 ATCATGTGCAT
1 ATCATGTGCAT
*
38459080 ATCA--TACAT
1 ATCATGTGCAT
38459089 ATCATGTGCAT
1 ATCATGTGCAT
38459100 ATCAT
1 ATCAT
38459105 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:38459121 original size:9 final size:10
Alignment explanation
Indices: 38459066--38459122 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
38459056 GCATTTCATA
38459066 CATATCATGT
1 CATATCATGT
*
38459076 GCATATCAT-A
1 -CATATCATGT
38459086 CATATCATGT
1 CATATCATGT
*
38459096 GCATATCATAT
1 -CATATCATGT
38459107 CA-ATCATGT
1 CATATCATGT
38459116 -ATATCAT
1 CATATCAT
38459123 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:38469903 original size:40 final size:40
Alignment explanation
Indices: 38469796--38469959 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 40
38469786 CGGGATTTAA
* * * * *
38469796 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGACATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** * * *
38469836 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGACATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
38469876 TTGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGACATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
38469916 CCGGACATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGACATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
38469956 CCGG
1 CCGG
38469960 GTATCATTCA
Statistics
Matches: 98, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGACATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38477963 original size:40 final size:40
Alignment explanation
Indices: 38477903--38478066 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
38477893 CGGGATTTAA
* ** *
38477903 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
38477943 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
38477983 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
38478023 CCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
38478063 CCGG
1 CCGG
38478067 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:38478050 original size:80 final size:80
Alignment explanation
Indices: 38477889--38478066 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 80
38477879 GAGTCACGTA
* * * ** **
38477889 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
* *
38477953 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
38477968 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACATA
* *
38478032 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
38478048 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38478067 GTATCATTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 11 0.14
80 68 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
TAACTAGCACAAATG
Found at i:38480522 original size:20 final size:20
Alignment explanation
Indices: 38480499--38480539 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38480489 GGACATTTAT
*
38480499 GTGTGAACAAGGGCACTGAA
1 GTGTGAACAAGGGCACCGAA
**
38480519 GTGTGAGTAAGGGCACCGAA
1 GTGTGAACAAGGGCACCGAA
38480539 G
1 G
38480540 AGCAAACTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.39, T:0.15
Consensus pattern (20 bp):
GTGTGAACAAGGGCACCGAA
Found at i:38482360 original size:24 final size:24
Alignment explanation
Indices: 38482333--38482430 Score: 151
Period size: 24 Copynumber: 4.0 Consensus size: 24
38482323 AAGGCTGTTA
38482333 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
38482357 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
38482381 GGAGAGGCTTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
38482405 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
38482430 G
1 G
38482431 AGCAGGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:38488594 original size:71 final size:71
Alignment explanation
Indices: 38488508--38488671 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38488498 CGATTTGTCT
38488508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38488573 CTTTCA
66 CTTTCA
38488579 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38488644 CTTTCA
66 CTTTCA
38488650 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38488672 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38488709 original size:71 final size:70
Alignment explanation
Indices: 38488508--38488705 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38488498 CGATTTGTCT
* * * *
38488508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38488573 CTTTCA
65 CTTTCA
* * * *
38488579 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38488644 CTTTCA
65 CTTTCA
* *
38488650 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38488706 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38496170 original size:71 final size:71
Alignment explanation
Indices: 38496086--38496249 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38496076 CGATTTGTCT
38496086 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38496151 CTTTCA
66 CTTTCA
38496157 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38496222 CTTTCA
66 CTTTCA
38496228 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38496250 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38496287 original size:71 final size:70
Alignment explanation
Indices: 38496086--38496283 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38496076 CGATTTGTCT
* * * *
38496086 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38496151 CTTTCA
65 CTTTCA
* * * *
38496157 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38496222 CTTTCA
65 CTTTCA
* *
38496228 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38496284 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38500892 original size:24 final size:23
Alignment explanation
Indices: 38500793--38500893 Score: 112
Period size: 24 Copynumber: 4.2 Consensus size: 23
38500783 AAAGGCTATC
38500793 AGGAGAAGATTTAGGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
* * *
38500816 AGGGAGAGGATCTGGGAGCTGATA
1 A-GGAGAAGATTTAGGAGCTGATA
* *
38500840 AGGGAGAGGCTTTAGGAGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGAT-A
*
38500865 AGGAGAAGATTTAGGAGTTGATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
38500889 AGGAG
1 AGGAG
38500894 CAGGAGTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
23 1 0.02
24 63 0.95
25 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.40, T:0.20
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Done.