Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 209 of 221
Found at i:61423162 original size:17 final size:18
Alignment explanation
Indices: 61423140--61423176 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
61423130 CTTTAAAATA
61423140 TAATAT-TTATTTA-ATTT
1 TAATATATT-TTTATATTT
61423157 TAATATATTTTTATATTT
1 TAATATATTTTTATATTT
61423175 TA
1 TA
61423177 TAGTCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATATATTTTTATATTT
Found at i:61423260 original size:32 final size:33
Alignment explanation
Indices: 61423222--61423287 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
61423212 CTATATTGCA
* * *
61423222 TTTTTAT-ATTATTTATTTTAATATCATT-AATT
1 TTTTTATAACTATTT-TTATAAAATCATTGAATT
61423254 TTTTTATAACTATTTTTATAAAATCATTGAATT
1 TTTTTATAACTATTTTTATAAAATCATTGAATT
61423287 T
1 T
61423288 CATTAACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (33 bp):
TTTTTATAACTATTTTTATAAAATCATTGAATT
Found at i:61450000 original size:17 final size:17
Alignment explanation
Indices: 61449968--61450010 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
61449958 ATTCTAAAAG
61449968 AATAA-AAAAAACTAAT
1 AATAATAAAAAACTAAT
61449984 AATAATAAAATAA-TAAT
1 AATAATAAAA-AACTAAT
*
61450001 AACAATAAAA
1 AATAATAAAA
61450011 CGTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 17 0.71
18 2 0.08
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAATAAAAAACTAAT
Found at i:61452134 original size:100 final size:100
Alignment explanation
Indices: 61451961--61452467 Score: 736
Period size: 100 Copynumber: 5.1 Consensus size: 100
61451951 GGGAAATGAG
* * * * *
61451961 ATTGCAATGTC-AGGGAAGGGAGATTCGTCGTTGTAGCTTCAATCTATTCCACTGCA-TCGCCTG
1 ATTGCAATGTCGA-GGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACT-ACCAG
* *
61452024 GGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTA
64 GGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
*
61452061 ATTGCAATGTCGAGGAAGCGAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGG
1 ATTGCAATGTCGAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGG
61452126 AAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
66 AAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
* * *
61452161 ATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATTTGTTCCACTGCACTACCAGGG
1 ATTGCAATGTCGAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGG
*
61452226 AAAGTAAGATTCACCGTTGTGGCCTCAATCTTATA
66 AAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
*
61452261 ATTGCAATGTCG-GCGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGG
1 ATTGCAATGTCGAG-GAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGG
*
61452325 GAAAGTAAGATTCACCGTTGTGGCCTCAATCTTATA
65 GAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
* * * * * *
61452361 ATTGGAATGTCGGGGAAGCGAGATTCACCATTGTAGCTTCAATCTGTTCCATTGCA-TCGCCAGG
1 ATTGCAATGTCGAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACT-ACCAGG
* *
61452425 G-AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTA
65 GAAAGTAAGATTCGCCGTTGTGGCCTCAATC-TTATA
61452461 ATTGCAA
1 ATTGCAA
61452468 ACTATGGTGT
Statistics
Matches: 377, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
99 29 0.08
100 345 0.92
101 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (100 bp):
ATTGCAATGTCGAGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGG
AAAGTAAGATTCGCCGTTGTGGCCTCAATCTTATA
Found at i:61452542 original size:45 final size:45
Alignment explanation
Indices: 61452477--61452614 Score: 197
Period size: 45 Copynumber: 3.1 Consensus size: 45
61452467 AACTATGGTG
* *
61452477 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTA
* * * * * *
61452522 TCTTCAGTCTGCTCCGCCGTCAGTACAGGGAGGCAAGA-CTGGTG
1 TCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTA
61452566 TCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTA
61452611 TCTT
1 TCTT
61452615 TATTGATCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 38 0.49
45 40 0.51
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTA
Found at i:61452586 original size:44 final size:45
Alignment explanation
Indices: 61452472--61452607 Score: 193
Period size: 44 Copynumber: 3.0 Consensus size: 45
61452462 TTGCAAACTA
* *
61452472 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGACAAGATC
1 TGGTGTCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATC
* * * * * *
61452517 TGCTATCTTCAGTCTGCTCCGCCGTCAGTACAGGGAGGCAAGA-C
1 TGGTGTCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATC
61452561 TGGTGTCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATC
1 TGGTGTCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATC
61452606 TG
1 TG
61452608 CTATCTTTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 38 0.50
45 38 0.50
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (45 bp):
TGGTGTCTTCAATCTGCTTCACCGTCAGTACAGGAAGGCAAGATC
Found at i:61458606 original size:21 final size:21
Alignment explanation
Indices: 61458582--61458623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61458572 AATTATGGTG
*
61458582 TTAATATGCATAATG-GAATAA
1 TTAACATG-ATAATGTGAATAA
61458603 TTAACATGATAATGTGAATAA
1 TTAACATGATAATGTGAATAA
61458624 AAATAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TTAACATGATAATGTGAATAA
Found at i:61461031 original size:44 final size:44
Alignment explanation
Indices: 61460853--61461049 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 44
61460843 ATGCGATCTG
* *
61460853 CTCCACTACTGCTTAGGGTGATAAGATCTACAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTA
* **** * ** *
61460897 CTCCACTACTG-TTCAGGGAGATAGGA-CTGGTGGCTTAAATTTG
1 CTCCACTACTGCTT-AGGGAGATAAGATCTGCAATCTTTAACCTA
* * ** ** * *
61460940 CTTC-CTACAT--TTCAGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTAC-TGCTT-AGGGAGATAAGATCT-GCAATCTTTAACCTA
61460983 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTA
*
61461027 CTCCACTATTGCTTAGGGAGATA
1 CTCCACTACTGCTTAGGGAGATA
61461050 GGATTGGTGG
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
42 18 0.16
43 27 0.23
44 68 0.59
45 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTA
Found at i:61461123 original size:122 final size:125
Alignment explanation
Indices: 61460846--61461307 Score: 597
Period size: 122 Copynumber: 3.6 Consensus size: 125
61460836 AGACTGGATG
* * *
61460846 CGATCTGCTCCACTACTGCTTAGGGTGATAAGATCTACAATCTTTAACCTACTCCACTACTGTTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
* * *
61460911 AGGGAGATAGGACTGGTGGCTTAAATTTGCTTCCTACATTTCAGGAAGATAAGATTCGCCGTCTT
66 AGGGAGATAGGACTGGTGGCTTAAA-TT-CCT-CT--ATCTCGGGAAGATAAGATTCGCCGTCTT
* * * *
61460976 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTATTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
* *
61461041 AGGGAGATAGGATTGGTGGCTTAAA-T-CT-TATCTCGGGAAGATAAGATTCGTCGTCTT
66 AGGGAGATAGGACTGGTGGCTTAAATTCCTCTATCTCGGGAAGATAAGATTCGCCGTCTT
* * * * **
61461098 TGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATATTCAACCTACTCCATTGTTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
* *
61461163 AGGGAGATAGAACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGAAAGATAAGATTCGCCGTCT
66 AGGGAGATAGGACTGGTGGCTTAAA-----TTCCT-CTATCTCGGGAAGATAAGATTCGCCGTCT
61461228 T
125 T
* *
61461229 CAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
*
61461294 AGAGAGATAGGACT
66 AGGGAGATAGGACT
61461308 TGTTATGATG
Statistics
Matches: 293, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
122 105 0.36
124 1 0.00
126 1 0.00
128 2 0.01
129 2 0.01
130 84 0.29
131 98 0.33
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (125 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTC
AGGGAGATAGGACTGGTGGCTTAAATTCCTCTATCTCGGGAAGATAAGATTCGCCGTCTT
Found at i:61472308 original size:23 final size:23
Alignment explanation
Indices: 61472282--61472329 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
61472272 TGTTCAAAAA
61472282 GAATATCACATCCAACACATTAG
1 GAATATCACATCCAACACATTAG
*
61472305 GAATATCACATCCAGCACATTAG
1 GAATATCACATCCAACACATTAG
61472328 GA
1 GA
61472330 TACGATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (23 bp):
GAATATCACATCCAACACATTAG
Found at i:61472554 original size:15 final size:15
Alignment explanation
Indices: 61472536--61472566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61472526 AATTAACATG
61472536 ATAATATGAACAAAA
1 ATAATATGAACAAAA
*
61472551 ATAATATGAGCAAAA
1 ATAATATGAACAAAA
61472566 A
1 A
61472567 CGAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:61475938 original size:64 final size:64
Alignment explanation
Indices: 61475834--61475967 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
61475824 TTAATTCTTG
* * * *
61475834 GTTTAATATTTCTAGAGTATTGATCCATGTTTGATTTGCTTAAATCCAAGGTTGAATAGACCTT
1 GTTTAATATTTCTAGAGTATTGATCCATGTATGATGTGCTTAAATCAAAGGTTGAATAGACCCT
* *
61475898 GTTTAATATTTCTAGAGTATTGATCTATGTATGATGTGCTTAAATCAAAGTTTGAATAGACCCT
1 GTTTAATATTTCTAGAGTATTGATCCATGTATGATGTGCTTAAATCAAAGGTTGAATAGACCCT
61475962 GTTTAA
1 GTTTAA
61475968 GAGTAGATCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (64 bp):
GTTTAATATTTCTAGAGTATTGATCCATGTATGATGTGCTTAAATCAAAGGTTGAATAGACCCT
Found at i:61476947 original size:5 final size:5
Alignment explanation
Indices: 61476937--61476965 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61476927 CTAATACTCA
61476937 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
61476966 AGAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:61477781 original size:40 final size:40
Alignment explanation
Indices: 61477726--61477806 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
61477716 TACTACAATT
61477726 ATACAATTATTAACAAGCTAAAACATAGTAATGGATTTCG
1 ATACAATTATTAACAAGCTAAAACATAGTAATGGATTTCG
61477766 ATACAATTATTAACAAGCTAAAACATAGTAATGGATTTCG
1 ATACAATTATTAACAAGCTAAAACATAGTAATGGATTTCG
61477806 A
1 A
61477807 GTATAGGACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (40 bp):
ATACAATTATTAACAAGCTAAAACATAGTAATGGATTTCG
Found at i:61479766 original size:26 final size:26
Alignment explanation
Indices: 61479734--61479786 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
61479724 TGAATATAAT
*
61479734 AACATCAACAATTTGACAAAAAAATA
1 AACATCAACAATGTGACAAAAAAATA
* * *
61479760 AACATCAACCATGTGACTAAATAATA
1 AACATCAACAATGTGACAAAAAAATA
61479786 A
1 A
61479787 TAGTAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.21
Consensus pattern (26 bp):
AACATCAACAATGTGACAAAAAAATA
Found at i:61487006 original size:53 final size:53
Alignment explanation
Indices: 61486925--61487039 Score: 212
Period size: 53 Copynumber: 2.2 Consensus size: 53
61486915 TTTATTTATT
61486925 TAAAGGATAATTATTTCATCTACTACAAATATTAAAAAAACTCTACAAACGAGG
1 TAAA-GATAATTATTTCATCTACTACAAATATTAAAAAAACTCTACAAACGAGG
61486979 TAAAGATAATTATTTCATCTACTACAAATATTAAAAAAACTCTACAAACGAGG
1 TAAAGATAATTATTTCATCTACTACAAATATTAAAAAAACTCTACAAACGAGG
*
61487032 TCAAGATA
1 TAAAGATA
61487040 TCGACGCGCA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 56 0.93
54 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.28
Consensus pattern (53 bp):
TAAAGATAATTATTTCATCTACTACAAATATTAAAAAAACTCTACAAACGAGG
Found at i:61497807 original size:36 final size:36
Alignment explanation
Indices: 61497766--61497956 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
61497756 GGTAGCATTA
61497766 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
61497802 GCTACACTTATCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
61497847 AGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
61497884 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
61497920 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
61497956 G
1 G
61497957 GTAGCCTTAG
Statistics
Matches: 138, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:61497833 original size:82 final size:81
Alignment explanation
Indices: 61497730--61498045 Score: 366
Period size: 82 Copynumber: 3.9 Consensus size: 81
61497720 TTTGAGTACT
61497730 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
61497795 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* *
61497812 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
61497877 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* *
61497894 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
61497950 ATAAGTGGTAGCCTTAGCTACACTTA
66 AT-A-----AG---T-GCTACACTTA
* * * *
61497976 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
61498039 ATAAGTG
66 ATAAGTG
61498046 ATCATATGTA
Statistics
Matches: 203, Mismatches: 12, Indels: 41
0.79 0.05 0.16
Matches are distributed among these distances:
72 26 0.13
73 1 0.00
74 1 0.00
76 2 0.01
78 4 0.02
79 3 0.01
80 1 0.00
81 1 0.00
82 132 0.65
83 2 0.01
85 2 0.01
86 2 0.01
87 2 0.01
88 1 0.00
89 9 0.04
90 2 0.01
91 12 0.06
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:61497904 original size:21 final size:20
Alignment explanation
Indices: 61497876--61497941 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
61497866 AGTGAGAAAG
61497876 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
61497896 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
61497912 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
61497932 TGATCAAGTG
1 TGAT-AAGTG
61497942 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:61497979 original size:118 final size:118
Alignment explanation
Indices: 61497766--61498002 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
61497756 GGTAGCATTA
*
61497766 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGATAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
61497831 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
61497884 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
61497949 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
61498002 G
1 G
61498003 GTAGCCTAGC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:61498028 original size:45 final size:46
Alignment explanation
Indices: 61497920--61498045 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
61497910 AGTGATAAGT
*
61497920 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
61497966 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
61498011 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
61498046 ATCATATGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
43 12 0.15
44 5 0.06
45 19 0.24
46 42 0.54
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
Found at i:61499362 original size:49 final size:49
Alignment explanation
Indices: 61499301--61499493 Score: 314
Period size: 49 Copynumber: 3.9 Consensus size: 49
61499291 ATGTGAACAT
*
61499301 GTGATTATGTGATTCCGTGTAAGACCATAGCTGAGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
61499351 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
61499400 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
61499449 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
61499494 AGAAAACGAA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 132 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:61501678 original size:4 final size:4
Alignment explanation
Indices: 61501669--61501697 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
61501659 TAATGGACAC
61501669 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
61501698 AAGTAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:61502634 original size:44 final size:44
Alignment explanation
Indices: 61502605--61502990 Score: 147
Period size: 44 Copynumber: 8.6 Consensus size: 44
61502595 ATTGTTTTAG
*
61502605 TCCGCTTCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
* * * ** * *
61502649 TCTGCTCCATTGCAACTTCAGGGAGAAAATATTAGTATCTTCAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
* * * * * ** * * * *
61502693 -CTTGTTTCACTACAACTTTAGGGAGATAAGG-TTTGTGGTTTTAG
1 TC-CGCTCCACTGCAACTTCAGGGAGAT-AGGATTAATAGCTTCAA
* * * * * *
61502737 TCTGCTCCACTGCAACGTCAGGGAGATAAGACTTTTTATGGTAGATTTAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAGGA----TTA--ATAGCTTCAA
* * * * * *
61502787 TCCGAC-CTACTGCAACTTCAGAGG-TATAGGATTCATCGTTTTAA
1 TCCG-CTCCACTGCAACTTCAG-GGAGATAGGATTAATAGCTTCAA
* * *
61502831 TCTGCTCCACTGCAACTTTAAGGAGATAGGATTAATAGCTTCAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
* * * * ** **
61502875 TCTGCTTCACTACAACTTCAGGGAGATAAGATTGGTTTCTTCAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
* * ** * *
61502919 -CCTGCTCCACTGCAA-TTTAGAGAGATAAGG-TTGGTTATCTTCAG
1 TCC-GCTCCACTGCAACTTCAGGGAGAT-AGGATT-AATAGCTTCAA
* * *
61502963 TCTGCTCCACTGCAATTTTAGGGAGATA
1 TCCGCTCCACTGCAACTTCAGGGAGATA
61502991 ATACTTGTTA
Statistics
Matches: 253, Mismatches: 70, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
43 18 0.07
44 187 0.74
45 13 0.05
46 2 0.01
48 2 0.01
50 28 0.11
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
TCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAA
Found at i:61502918 original size:226 final size:226
Alignment explanation
Indices: 61502503--61503004 Score: 682
Period size: 226 Copynumber: 2.2 Consensus size: 226
61502493 AAGATCTGCT
* * * *
61502503 ATCTACAGTCTACTCCACTACAACTTTAGGGAGATAAGACTTGTTATGATAGACTTAATCCGACC
1 ATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGACC
** * * * *
61502568 TGGTGCAACTTCAGAGGTATAGGATTCATTGTTTTAGTCCGCTTCACTGCAACTTCAGGGAGATA
66 TACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATA
* * * * *
61502633 GGATTAATAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGAAAATATTAGTATCTTCAACTTGT
131 GGATTAATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAAAAGATTAGTATCTTCAACCTGC
* * *
61502698 TTCACTACAACTTTAGGGAGATAAGGTTTGTG
196 TCCACTACAA-TTTAGAGAGATAAGGTTGGTG
* * * * * *
61502730 GT-TTTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTTTTTATGGTAGATTTAATCCGACC
1 ATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGACC
* *
61502794 TACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCTGCTCCACTGCAACTTTAAGGAGATA
66 TACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATA
* * * *
61502859 GGATTAATAGCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGATTGGTTTCTTCAACCTGC
131 GGATTAATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAAAAGATTAGTATCTTCAACCTGC
* *
61502924 TCCACTGCAATTTAGAGAGATAAGGTTGGTT
196 TCCACTACAATTTAGAGAGATAAGGTTGGTG
* *
61502955 ATCTTCAGTCTGCTCCACTGCAATTTTAGGGAGATAATACTTGTTATGGT
1 ATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGT
61503005 GTGATCTGCT
Statistics
Matches: 235, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
225 19 0.08
226 215 0.91
227 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (226 bp):
ATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGACC
TACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATA
GGATTAATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGAAAAGATTAGTATCTTCAACCTGC
TCCACTACAATTTAGAGAGATAAGGTTGGTG
Found at i:61502953 original size:43 final size:45
Alignment explanation
Indices: 61502829--61503084 Score: 209
Period size: 44 Copynumber: 5.7 Consensus size: 45
61502819 TCATCGTTTT
* * ** *
61502829 AATCTGCTCCACTGCAACTTTAAGGAGATAGGATT-AATAGCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTATCTTC
* * *
61502873 AATCTGCTTCACTACAACTTCAGGGAGATAAGATTGGTT-TCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTATCTTC
* * *
61502917 AACCTGCTCCACTGCAA-TTTAGAGAGATAAGGTTGGTTATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTATCTTC
* * * *
61502961 AGTCTGCTCCACTGCAATTTTAGGGAGATAATACTT-GTTATGGTGT-
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTGGTTAT-CT-TC
* * * *
61503007 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCT-GCTATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TGGTTATCTTC
* * * * * *
61503052 AGTCTACTCTACTGCAACATCAGTGAGATAAGA
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA
61503085 CTTGTAGCTT
Statistics
Matches: 170, Mismatches: 34, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
43 18 0.11
44 69 0.41
45 47 0.28
46 35 0.21
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTATCTTC
Found at i:61503080 original size:91 final size:90
Alignment explanation
Indices: 61502920--61503089 Score: 225
Period size: 91 Copynumber: 1.9 Consensus size: 90
61502910 TTTCTTCAAC
* * * ** *
61502920 CTGCTCCACTGCAATTTAGAGAGATAAGGTTGGTTATCTTCAGTCTGCTCCACTGCAATTTTAGG
1 CTGCTCCACTGCAATTTAGAGAGATAAGATTGGCTATCTTCAGTCTACTCCACTGCAACATCAGG
*
61502985 GAGATAATACTTGTTATGGTGTGAT
66 GAGATAAGACTTGTTATGGTGTGAT
* *
61503010 CTGCTCTACTGCAACTTTAGAGAGATAAGATCT-GCTATCTTCAGTCTACTCTACTGCAACATCA
1 CTGCTCCACTGCAA-TTTAGAGAGATAAGAT-TGGCTATCTTCAGTCTACTCCACTGCAACATCA
*
61503074 GTGAGATAAGACTTGT
64 GGGAGATAAGACTTGT
61503090 AGCTTCAACT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
90 13 0.19
91 54 0.79
92 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (90 bp):
CTGCTCCACTGCAATTTAGAGAGATAAGATTGGCTATCTTCAGTCTACTCCACTGCAACATCAGG
GAGATAAGACTTGTTATGGTGTGAT
Found at i:61503348 original size:45 final size:44
Alignment explanation
Indices: 61503174--61503381 Score: 146
Period size: 45 Copynumber: 4.7 Consensus size: 44
61503164 ATTTTATGCC
* * * * *
61503174 GCTCCACTGCAACTTCAGGGAGATAGGACTAGTAACTTCAATAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTTAATCT
*
61503218 GCTCCACTGCAACTTC-GGAGAGATAAGA-TTGGT-T-TTAGTCAGTCT
1 GCTCCACTGCAACTTCAGG-GAGATAAGACTT-GTATCTT--T-AATCT
* * * *
61503263 GTTCCTCTGTAACTTCAGGAAGATAAGACTTGT-TGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT--CTTTAATCT
* *
61503308 GCTCCACTGCAACTTCAGGGAGATAAGA-TATGCCATCTTTAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT-TG-TATCTTTAATCT
*
61503353 G-TCTCACTGC--CTTCAGGGGGATAAGACTT
1 GCTC-CACTGCAACTTCAGGGAGATAAGACTT
61503382 ACTTTCTTCA
Statistics
Matches: 131, Mismatches: 18, Indels: 31
0.73 0.10 0.17
Matches are distributed among these distances:
42 2 0.02
43 19 0.15
44 30 0.23
45 72 0.55
46 5 0.04
47 1 0.01
48 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTTAATCT
Found at i:61503413 original size:36 final size:36
Alignment explanation
Indices: 61503366--61503434 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
61503356 TCACTGCCTT
* *
61503366 CAGGGGGATAAGACTT-ACTTTCTTCAACTTTAACAC
1 CAGGGAGATAAGA-TTCACTTCCTTCAACTTTAACAC
*
61503402 CAGGGAGATAAGATTCGCTTCCTTCAACTTTAA
1 CAGGGAGATAAGATTCACTTCCTTCAACTTTAA
61503435 TCTGCTCCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (36 bp):
CAGGGAGATAAGATTCACTTCCTTCAACTTTAACAC
Found at i:61503643 original size:123 final size:122
Alignment explanation
Indices: 61503417--61503646 Score: 311
Period size: 123 Copynumber: 1.9 Consensus size: 122
61503407 AGATAAGATT
* * *
61503417 CGCTTCCTTCAACTTTAATCTGCTCCGCTGCAATGCCAGGAAAACAAGATTCGCTACCTTTAGCT
1 CGCTTCCTTCAACTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCT
* * *
61503482 TTAATCTGTTCCACTGTAACGACAAGGAGATAGAATTTGCTGCCTTCAGCATTAATC
66 TTAATCTGTTCCACTGCAACAACAAGGAAATAGAATTTGCTGCCTTCAGCATTAATC
* * *
61503539 CGCTTCACTTCAACTTTAATCTATTCCACTACAATGCCAGGTAAACAAGATTCGCTACCTTTAGT
1 CGCTTC-CTTCAACTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGC
* * *
61503604 TTTAATTTGTTCCCCTGCAA-AACCAGGGAAATA-AGATTTGCTG
65 TTTAATCTGTTCCACTGCAACAA-CAAGGAAATAGA-ATTTGCTG
61503647 TCTTTGATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
122 8 0.09
123 85 0.91
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (122 bp):
CGCTTCCTTCAACTTTAATCTACTCCACTACAATGCCAGGAAAACAAGATTCGCTACCTTTAGCT
TTAATCTGTTCCACTGCAACAACAAGGAAATAGAATTTGCTGCCTTCAGCATTAATC
Found at i:61503793 original size:88 final size:88
Alignment explanation
Indices: 61503676--61503968 Score: 399
Period size: 88 Copynumber: 3.3 Consensus size: 88
61503666 CTGTTTAGGG
* * * * * *
61503676 AGACATGATCTACAATCTTCGACCCACTCCACTGCTGCTCAGGGAGA-CAGGACTAGTATTTTCA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGG-CTAGTGTTTTCA
* * * *
61503740 ATCTGCTTCAGTACTAGTACAAGA
65 ATCTGCTTCACTGCCAGTACAGGA
*
61503764 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGTTTTCGA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGTTTTCAA
*
61503829 TCTGCCTCACTGCCAGTACAGGA
66 TCTGCTTCACTGCCAGTACAGGA
* * * * * *
61503852 AGATAAGATATACAATCTTCAACCTACTCCACTACAGTTCAAGGAGATAAGGCTGGTGTTTTCAA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGTTTTCAA
*
61503917 TCTGCTTTACTGCCAGTACAGGA
66 TCTGCTTCACTGCCAGTACAGGA
61503940 AGACAAGATCTACAATCTTCAACCTACTC
1 AGACAAGATCTACAATCTTCAACCTACTC
61503969 TGTAACAGCC
Statistics
Matches: 181, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 178 0.98
89 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (88 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGTTTTCAA
TCTGCTTCACTGCCAGTACAGGA
Found at i:61506301 original size:47 final size:47
Alignment explanation
Indices: 61506250--61506349 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
61506240 TGGTTGGACC
* *
61506250 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCAACGATGTGATATGTG-CTACCGTATAAGACCATAGCTGGGCT
** * * * *
61506297 ATGGCTTCGGTGTTATATGTGCTACTGTGTAAGACCATAGCTGGGCT
1 ATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGCT
61506344 ATGGCA
1 ATGGCA
61506350 TTAGTATGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
47 33 0.77
48 10 0.23
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGGCAACGATGTGATATGTGCTACCGTATAAGACCATAGCTGGGCT
Found at i:61509657 original size:43 final size:43
Alignment explanation
Indices: 61509523--61509657 Score: 108
Period size: 43 Copynumber: 3.1 Consensus size: 43
61509513 TTACATACTC
* *
61509523 CACTACTGCTCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTT
1 CACTACTGCTCAGGGAGATAAGACTGGTATTTTCGATCTGCTT
* *** * * *** * * * *
61509566 CACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTT
1 CACTACTGCT-CAGGGAGATAAGA-CTGGTATTTTCGATCTGCTT
*
61509611 CACTACTGCTCAGGGAGATAAGACTGGTTTTTTCGATCTGCTT
1 CACTACTGCTCAGGGAGATAAGACTGGTATTTTCGATCTGCTT
61509654 CACT
1 CACT
61509658 GCCAGTACAG
Statistics
Matches: 61, Mismatches: 29, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 22 0.36
44 21 0.34
45 18 0.30
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
CACTACTGCTCAGGGAGATAAGACTGGTATTTTCGATCTGCTT
Found at i:61509672 original size:88 final size:87
Alignment explanation
Indices: 61509518--61509857 Score: 529
Period size: 88 Copynumber: 3.9 Consensus size: 87
61509508 GGGTGTTACA
* * *
61509518 TACTCCACTACTGCTCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAA
1 TACTCCACTACTGCTCAGGGAGATAAGACTGGT-TTTTTGATCTGCTTCACTGCCAGTACAGGAA
61509583 GACAAGATCTACAATCTTCAACC
65 GACAAGATCTACAATCTTCAACC
*
61509606 TACTTCACTACTGCTCAGGGAGATAAGACTGGTTTTTTCGATCTGCTTCACTGCCAGTACAGGAA
1 TACTCCACTACTGCTCAGGGAGATAAGACTGGTTTTTT-GATCTGCTTCACTGCCAGTACAGGAA
61509671 GACAAGATCTACAATCTTCAACC
65 GACAAGATCTACAATCTTCAACC
* * *
61509694 TACTCCACTGCTGCTCAGGGAGATAAGACTGGTGTTTTTTATCTGCTTTACTGCCAGTACAGGAA
1 TACTCCACTACTGCTCAGGGAGATAAGACTGGT-TTTTTGATCTGCTTCACTGCCAGTACAGGAA
61509759 GACAAGATCTACAATCTTCAACC
65 GACAAGATCTACAATCTTCAACC
** * *
61509782 TACTCCACTGTTGCTCAGGGAGATAAGGCTAGTGTTTTTT-ATCTGCTTTACTGCCAGTACAGGA
1 TACTCCACTACTGCTCAGGGAGATAAGACT-G-GTTTTTTGATCTGCTTCACTGCCAGTACAGGA
61509846 AGACAAGATCTA
64 AGACAAGATCTA
61509858 TAATATTCTT
Statistics
Matches: 238, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
87 4 0.02
88 221 0.93
89 11 0.05
90 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (87 bp):
TACTCCACTACTGCTCAGGGAGATAAGACTGGTTTTTTGATCTGCTTCACTGCCAGTACAGGAAG
ACAAGATCTACAATCTTCAACC
Found at i:61510204 original size:24 final size:24
Alignment explanation
Indices: 61510171--61510228 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
61510161 GGATTGCCCC
*
61510171 CCACTCTAATCTTCAAGGCTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
61510195 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
61510219 CCACTGTAAT
1 CCACTGTAAT
61510229 TTTGGGACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGCTCAAT
Found at i:61520346 original size:23 final size:23
Alignment explanation
Indices: 61520304--61520347 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
61520294 AAATGGCTTA
*
61520304 ATTTACTTTTTTTTACATTTTAT
1 ATTTACTTTTTTCTACATTTTAT
61520327 ATTTACTTTTCTTCTA-ATTTT
1 ATTTACTTTT-TTCTACATTTT
61520348 TCATTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTACTTTTTTCTACATTTTAT
Found at i:61521804 original size:4 final size:4
Alignment explanation
Indices: 61521795--61521824 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
61521785 ACAAATTGTT
*
61521795 TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
61521825 ACTCATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:61521930 original size:15 final size:14
Alignment explanation
Indices: 61521892--61521957 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
61521882 ATTATCGTTA
* *
61521892 TTATATTATTTTTA
1 TTATTTTATTTTTG
*
61521906 TTTTTATTATTTCTTG
1 TTATT-TTATTT-TTG
*
61521922 TTATTTTATTATTTC
1 TTATTTTATT-TTTG
*
61521937 TTAATTTATTTTTG
1 TTATTTTATTTTTG
*
61521951 ATATTTT
1 TTATTTT
61521958 CATGTCATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.28
15 22 0.55
16 7 0.17
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTTATTTTTG
Found at i:61524857 original size:44 final size:44
Alignment explanation
Indices: 61524791--61525008 Score: 224
Period size: 44 Copynumber: 5.0 Consensus size: 44
61524781 TCCACTTCCT
* *
61524791 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
61524835 GCCAATATATGAAGATAAGATCTGCTTTCTTCGGTCTATTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
61524880 ACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
61524922 TACCAGTATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
61524967 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC
61525009 TTGCCCCGGG
Statistics
Matches: 139, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
42 1 0.01
43 22 0.16
44 94 0.68
45 22 0.16
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:61525147 original size:46 final size:45
Alignment explanation
Indices: 61525092--61525420 Score: 138
Period size: 46 Copynumber: 7.3 Consensus size: 45
61525082 ACCTGCTTTG
61525092 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGC-ATCTTCAATCTATTCCA
* * ** * * ** * *
61525138 CTGCAAAATACAGGGAGATAGAGTTAT-CGGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCATCTTCAATCTATTCCA
*** * * * ** * *
61525183 CTG--TGGT-CAGGGAGGTAAAATCTGTCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTG-CATCTTCAATCT-ATTCCA
61525226 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGC-ATCTTCAATCTATTCCA
* ** * * ** * * *
61525272 CTGCCAAATACAGGGAGATAGAGTTAT-CGGCTTCAGTGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCATCTTCAATCTATTCCA
*** * * * ** * *
61525317 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTG-CATC-TTCAATCT-ATTCCA
61525361 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGC-ATCTTCAATCTATTCCA
61525407 CTGCCAAATACAGG
1 CTGCCAAATACAGG
61525421 GAGATAGAGT
Statistics
Matches: 193, Mismatches: 71, Indels: 38
0.64 0.24 0.13
Matches are distributed among these distances:
41 6 0.03
42 18 0.09
43 15 0.08
44 9 0.05
45 38 0.20
46 82 0.42
47 25 0.13
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (45 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCATCTTCAATCTATTCCA
Found at i:61525416 original size:135 final size:134
Alignment explanation
Indices: 61525016--61525490 Score: 779
Period size: 134 Copynumber: 3.5 Consensus size: 134
61525006 TTCTTGCCCC
** * * * *
61525016 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
* * * *
61525081 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCAAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
61525146 TACA
131 TACA
* *
61525150 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGTCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
61525215 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
61525280 TACA
131 TACA
* *
61525284 GGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC-TT
61525349 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
65 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
61525414 ATACA
130 ATACA
* *
61525419 GGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCT
61525484 TTGATCT
64 TTGATCT
61525491 TCAATCTATT
Statistics
Matches: 320, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
134 182 0.57
135 109 0.34
136 8 0.03
137 21 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:61525505 original size:97 final size:96
Alignment explanation
Indices: 61525390--61525586 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 96
61525380 AAGATCTGCA
61525390 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
*
61525455 TAGTCACATGGAGGTAAAATCTGCCATC-TTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTTG
* *
61525487 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
*
61525552 TGGTCAGGGAGGTAAAATCTGCCATCTTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
61525583 ATCT
1 ATCT
61525587 GCTTCGCTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
95 21 0.22
96 8 0.08
97 66 0.69
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
Found at i:61525661 original size:232 final size:232
Alignment explanation
Indices: 61525255--61525817 Score: 1083
Period size: 232 Copynumber: 2.4 Consensus size: 232
61525245 AAGATCTGCA
61525255 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
*
61525320 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAAGAAGGCAAGAT
61525385 CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTC
131 CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTC
61525450 CACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
196 CACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
61525487 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
61525552 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAAGAAGGCAAGAT
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAAGAAGGCAAGAT
*
61525617 CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTC
131 CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTC
61525682 CACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
196 CACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
*
61525719 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
*
61525784 TAGTCAGGGAGGTAAAATCTGCCATC-TTTGATCT
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCT
61525818 TCAATCTATT
Statistics
Matches: 327, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
231 8 0.02
232 319 0.98
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (232 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAAGAAGGCAAGAT
CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTC
CACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
Found at i:61525859 original size:95 final size:95
Alignment explanation
Indices: 61525622--61526007 Score: 727
Period size: 95 Copynumber: 4.0 Consensus size: 95
61525612 AAGATCTGCA
61525622 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
61525687 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
61525719 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
61525784 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
61525814 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
61525879 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
61525909 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
61525974 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
61526004 ATCT
1 ATCT
61526008 GCTTTGCTGC
Statistics
Matches: 287, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
95 218 0.76
97 69 0.24
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:61527901 original size:11 final size:10
Alignment explanation
Indices: 61527868--61527922 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 10
61527858 TCCTGGTAGA
61527868 GTTTTTTTTT
1 GTTTTTTTTT
61527878 GTTTTTGCTTTT
1 GTTTTT--TTTT
61527890 GTTTTTTATTT
1 GTTTTTT-TTT
*
61527901 GGTTTTTATTT
1 -GTTTTTTTTT
61527912 GTTCTTTTTTT
1 GTT-TTTTTTT
61527923 TTGCCTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.26
11 12 0.32
12 16 0.42
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.80
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:61527919 original size:12 final size:11
Alignment explanation
Indices: 61527868--61527919 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
61527858 TCCTGGTAGA
61527868 GTTTTTT-TTT
1 GTTTTTTATTT
61527878 GTTTTTGCT-TTT
1 GTTTTT--TATTT
61527890 GTTTTTTATTT
1 GTTTTTTATTT
*
61527901 GGTTTTTATTT
1 GTTTTTTATTT
61527912 GTTCTTTT
1 GTT-TTTT
61527920 TTTTTGCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 7 0.19
11 15 0.42
12 14 0.39
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.79
Consensus pattern (11 bp):
GTTTTTTATTT
Found at i:61529261 original size:62 final size:62
Alignment explanation
Indices: 61529157--61529340 Score: 314
Period size: 62 Copynumber: 3.0 Consensus size: 62
61529147 CTAAACTCGA
* * *
61529157 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
61529219 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
61529281 CGTATTTTTGGATTTTAAGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
61529341 GAGATACGTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:61531435 original size:23 final size:25
Alignment explanation
Indices: 61531386--61531433 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
61531376 TGATATAATA
61531386 AGTATAATAAATAATAGTGTAAAAAT
1 AGTATAATAAATAATAGTG-AAAAAT
61531412 AGTATAATAAATAATAG-GAAAA
1 AGTATAATAAATAATAGTGAAAA
61531434 TAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 1 0.05
26 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (25 bp):
AGTATAATAAATAATAGTGAAAAAT
Found at i:61532305 original size:44 final size:46
Alignment explanation
Indices: 61532221--61532315 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 46
61532211 ATTCCTCTCT
* **
61532221 AAAAATCCCCCCTAAAATACTATCCCTTCTTCCATCGAAATAT-CA
1 AAAAATCCCCCCTAAAATACTATCCCATCCCCCATCGAAATATCCA
* * * *
61532266 AAAAATCCCCCCTAAAATACTAT-CGATCCCCCTTTGAAATCTCCA
1 AAAAATCCCCCCTAAAATACTATCCCATCCCCCATCGAAATATCCA
61532311 AAAAA
1 AAAAA
61532316 AAACATAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 12 0.29
45 30 0.71
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.24
Consensus pattern (46 bp):
AAAAATCCCCCCTAAAATACTATCCCATCCCCCATCGAAATATCCA
Found at i:61535401 original size:26 final size:25
Alignment explanation
Indices: 61535372--61535444 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 25
61535362 AAAAGATTTC
*
61535372 AAATAAACAATATATAAAAAAACTTA
1 AAATAAATAATATAT-AAAAAACTTA
* *
61535398 AAATGAATAATA-AT-AAAAATTTA
1 AAATAAATAATATATAAAAAACTTA
61535421 AAATAAATAATAATATGAAAAAAC
1 AAATAAATAAT-ATAT-AAAAAAC
61535445 ATATAAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 18 0.47
24 1 0.03
25 4 0.11
26 10 0.26
27 5 0.13
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (25 bp):
AAATAAATAATATATAAAAAACTTA
Found at i:61537821 original size:16 final size:17
Alignment explanation
Indices: 61537802--61537839 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
61537792 TTAAAAGGTA
61537802 AATAATGGGA-TACAAT
1 AATAATGGGATTACAAT
* *
61537818 AATAATGTGATTATAAT
1 AATAATGGGATTACAAT
61537835 AATAA
1 AATAA
61537840 CACCAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.32
Consensus pattern (17 bp):
AATAATGGGATTACAAT
Found at i:61537974 original size:13 final size:13
Alignment explanation
Indices: 61537956--61537983 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61537946 TATAACTTGA
61537956 GAGTAATAAAGGT
1 GAGTAATAAAGGT
61537969 GAGTAATAAAGGT
1 GAGTAATAAAGGT
61537982 GA
1 GA
61537984 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.21
Consensus pattern (13 bp):
GAGTAATAAAGGT
Found at i:61537991 original size:14 final size:13
Alignment explanation
Indices: 61537959--61537992 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
61537949 AACTTGAGAG
*
61537959 TAATAAAGGTGAG
1 TAATAAAGGTGAA
61537972 TAATAAAGGTGATA
1 TAATAAAGGTGA-A
61537986 TAATAAA
1 TAATAAA
61537993 AATAAGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (13 bp):
TAATAAAGGTGAA
Found at i:61538195 original size:7 final size:7
Alignment explanation
Indices: 61538173--61538206 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
61538163 TTGTACAGAA
61538173 AAAAATAT
1 AAAAA-AT
61538181 ATAAAAAT
1 A-AAAAAT
61538189 AAAAAAT
1 AAAAAAT
61538196 AAAAAAT
1 AAAAAAT
61538203 AAAA
1 AAAA
61538207 TTAAACGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.68
8 4 0.16
9 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:61540106 original size:44 final size:44
Alignment explanation
Indices: 61539937--61540106 Score: 223
Period size: 44 Copynumber: 3.9 Consensus size: 44
61539927 TCATTGTTTT
* *
61539937 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * * * *
61539981 AATCTGCTCCACTGCAACTTCAAGGAGACAAGGTTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * * * * *
61540025 AACCTGCTCCATTGCAACTTTAGGGAGATAAGGTTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
61540069 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
61540107 TGTAACAGCC
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 107 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
Found at i:61541043 original size:478 final size:474
Alignment explanation
Indices: 61540139--61541047 Score: 1283
Period size: 478 Copynumber: 1.9 Consensus size: 474
61540129 TAGTCAGAAT
* *
61540139 AGTGGTTTCGGGACCACAAATCCGACGAGGGAAAATATGGTTATTATTATATTTTTATGGTCTAC
1 AGTGGTTTCGGGACCACAAATCCGACGAGGAAAAATATGATTATTATTATATTTTTATGGTCTAC
*
61540204 AATTTCACGGAAATTTTCGTAAAAATTTCGTTCGAAAATTTCGACGTTTGGGCACTCAATTTAGT
66 AATTTCACGAAAATTTTCGTAAAAATTTCGTTCGAAAATTTCGACGTTTGGGCACTCAATTTAGT
* * *
61540269 CAAAAGGACTAAATTGTAAATAGTGCAAAAGTTGAGTTTTACATCTTAGAGGTGTCTAATTGTTA
131 CAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATCTTAGAGGTGTCCAATTGTTA
* * * * * *
61540334 TGAAATTTTAAATTGGAGGTCTTTATGTGGTAATTAGACCATTAGTTAGTTGATGGACAAAAATA
196 TGAAACTTTAAATTGGAGGTCCTTATATGGTAATTAGACCATTAGTAACTTGATAGACAAAAATA
** * * * * * *
61540399 GACATAAGAAATGGGTGAAATAGATTTTTTTAATGGGGGCATTTTAGTCATTTGGTTATTAAATA
261 GACATAAGAAA--GGTGAAATAGAAATTTTTAATAGGGGCAATTTAGTAATCTAGTAATTAAATA
* * *
61540464 GAATTAAATGGGAAAAAGATGGTAAAATATGCTCTTCTTCTTCATGGTGAACGAAATCAGCAAGG
324 GAATTAAAAGGGAAAAAGATGGCAAAATATGCTCATCTTCTTCAT-GTGAACGAAATCAGCAAGG
* * *
61540529 GGGAAGCCATATTTAGGGTTTTTAAGCTTTCAAGCTCCATAGTAAGTGATTCCAAGTGTAATGGC
388 GGGAAGCCATAGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGTGTAATGGC
61540594 CCAAATTTGAGGTTATCGGAAC
453 CCAAATTTGAGGTTATCGGAAC
* * * * *
61540616 AGTGGTTTCGGGACCACAAATCCGATGA-GAAAAATTTTATTTTTCTTATATTTTTTATGGTCTA
1 AGTGGTTTCGGGACCACAAATCCGACGAGGAAAAATATGATTATTATTATA-TTTTTATGGTCTA
*
61540680 CAATTTCAC-AAAATGATTTCGTGAAAATTTCGTTCGAAAATTTCGACGTTTGGGCACTCAATTT
65 CAATTTCACGAAAAT--TTTCGTAAAAATTTCGTTCGAAAATTTCGACGTTTGGGCACTCAATTT
*
61540744 AGTCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATGTTAGAGGTGTCCAATTG
128 AGTCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATCTTAGAGGTGTCCAATTG
* * *
61540809 TTATGAAACTTTAAATTGGAGGTCCTTATATGGTAATTATACCATTGGTAACTTGGTAGACAAAA
193 TTATGAAACTTTAAATTGGAGGTCCTTATATGGTAATTAGACCATTAGTAACTTGATAGACAAAA
* * *
61540874 ATGGACATGAGATAA-GTGAAATAGAAAATTTTTAAGTTAGGGGCAATTTGGTAATCTAGTAATT
258 ATAGACATAAGA-AAGGTGAAATAG-AAATTTTTAA--TAGGGGCAATTTAGTAATCTAGTAATT
*
61540938 AAA-ATGAATTAAAAGGGAAAAAGATGGCAAAA-AT-CATCATCTTCTTCAT-TAGGACGAAATC
319 AAATA-GAATTAAAAGGGAAAAAGATGGCAAAATATGC-TCATCTTCTTCATGT-GAACGAAATC
61540999 AGCAAGGGGGGAAGCCATAGTTAGGGTTTTCAAGCTTCCAAGCTCCATA
381 AGCAA-GGGGGAAGCCATAGTTAGGGTTTTCAAGCTTCCAAGCTCCATA
61541048 ATCAAGAAGT
Statistics
Matches: 381, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
476 30 0.08
477 72 0.19
478 229 0.60
479 50 0.13
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (474 bp):
AGTGGTTTCGGGACCACAAATCCGACGAGGAAAAATATGATTATTATTATATTTTTATGGTCTAC
AATTTCACGAAAATTTTCGTAAAAATTTCGTTCGAAAATTTCGACGTTTGGGCACTCAATTTAGT
CAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTACATCTTAGAGGTGTCCAATTGTTA
TGAAACTTTAAATTGGAGGTCCTTATATGGTAATTAGACCATTAGTAACTTGATAGACAAAAATA
GACATAAGAAAGGTGAAATAGAAATTTTTAATAGGGGCAATTTAGTAATCTAGTAATTAAATAGA
ATTAAAAGGGAAAAAGATGGCAAAATATGCTCATCTTCTTCATGTGAACGAAATCAGCAAGGGGG
AAGCCATAGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGTGTAATGGCCCA
AATTTGAGGTTATCGGAAC
Found at i:61541219 original size:13 final size:13
Alignment explanation
Indices: 61541201--61541231 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61541191 TTCCAGCAAC
61541201 TATGAATTTATTT
1 TATGAATTTATTT
61541214 TATGAATTTATTT
1 TATGAATTTATTT
*
61541227 GATGA
1 TATGA
61541232 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:61541401 original size:50 final size:50
Alignment explanation
Indices: 61541326--61541619 Score: 417
Period size: 50 Copynumber: 5.8 Consensus size: 50
61541316 ATTTGGGTAA
61541326 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
61541376 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
61541426 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
61541476 AGAACATCCCATGTAAGACCATGTCTGGGACATTGCGTTGGCACTGAGATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
61541527 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
61541577 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61541620 TGTTATTATC
Statistics
Matches: 212, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
50 137 0.65
51 75 0.35
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:61541532 original size:101 final size:101
Alignment explanation
Indices: 61541326--61541619 Score: 500
Period size: 101 Copynumber: 2.9 Consensus size: 101
61541316 ATTTGGGTAA
** * * **
61541326 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCCCATGTA
1 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
61541390 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
61541426 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
1 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
* *
61541491 AGACCATGTCTGGGACATTGCGTTGGCACTGAGATG
66 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
61541527 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
1 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
*
61541592 AGACCATGTCTGGGACATGGCTTTGGCA
66 AGACCATGTCTGGGACATGGCGTTGGCA
61541620 TGTTATTATC
Statistics
Matches: 183, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 48 0.26
101 135 0.74
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (101 bp):
AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTA
AGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:61543845 original size:105 final size:104
Alignment explanation
Indices: 61543664--61544035 Score: 559
Period size: 105 Copynumber: 3.6 Consensus size: 104
61543654 TGTATATAAA
** * * *
61543664 AGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTGCTAGGTGCG-TGATCCACCATACCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTACCT
61543728 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
61543768 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
*
61543833 TTGAAATGTGAAAGGGGGTTGCTACGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * **
61543873 AGGGGTTGCTAAGTGCTGAATCCCCGATTTCATTGGTGGTTCTAAGTGCGATATCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCT
*
61543938 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * * **
61543977 AGTGGTTGCTAAGTGCTAATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCG
61544036 ATAACGGTTA
Statistics
Matches: 247, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
103 28 0.11
104 77 0.31
105 141 0.57
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTACCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:61551303 original size:26 final size:25
Alignment explanation
Indices: 61551264--61551314 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
61551254 ATATGAAAGG
*
61551264 GGGTTGCTATGTGCTGATTCTCCCGA
1 GGGTTGCTAAGTGCTGATTC-CCCGA
61551290 GGGTTGCTAAGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
61551315 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:61551335 original size:102 final size:102
Alignment explanation
Indices: 61551229--61551540 Score: 479
Period size: 102 Copynumber: 3.1 Consensus size: 102
61551219 TCATTGGTGC
*
61551229 AGTGCG-TGATCCACCATACCTTTGAATATGAAAGGGGGTTGCTATGTGCTGATTCTCCCGA-GG
1 AGTGCGAT-ATCCACCGTACCTTTGAATATGAAAGGGGGTTGCTATGTGCTGATTC-CCCGAGGG
61551292 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTA
64 GTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTA
* *
61551331 AGTGCGATATCCACCGTACCTTTGAAATGTGAAAGGGGGTT-CTACGTGCTGATTCCCCGAGGGG
1 AGTGCGATATCCACCGTACCTTTG-AATATGAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGG
*
61551395 TTGCTAAGTGCTGAATCCCCGATTTCATTGGTGGTGCTA
65 TTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTA
** *
61551434 AGTGCGATATCCACCGTATTTTTGAA-ATGAAAAGGGGTTGCTATGTGCTGATTCCCCGAGGGGT
1 AGTGCGATATCCACCGTACCTTTGAATATGAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGGT
* *
61551498 TGCTAAGTGCTGATTCCCCGATTTAGTGGTGGTGCTA
66 TGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTA
61551535 AGTGCG
1 AGTGCG
61551541 GGATCCACGA
Statistics
Matches: 193, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
101 36 0.19
102 103 0.53
103 54 0.28
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (102 bp):
AGTGCGATATCCACCGTACCTTTGAATATGAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGGT
TGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTA
Found at i:61551405 original size:26 final size:25
Alignment explanation
Indices: 61551366--61551416 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
61551356 AATGTGAAAG
* *
61551366 GGGGTTCTACGTGCTGATTCCCCGA
1 GGGGTTCTAAGTGCTGAATCCCCGA
61551391 GGGGTTGCTAAGTGCTGAATCCCCGA
1 GGGGTT-CTAAGTGCTGAATCCCCGA
61551417 TTTCATTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.16, C:0.25, G:0.33, T:0.25
Consensus pattern (25 bp):
GGGGTTCTAAGTGCTGAATCCCCGA
Found at i:61551502 original size:26 final size:26
Alignment explanation
Indices: 61551466--61551518 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
61551456 TGAAATGAAA
*
61551466 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
61551492 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
61551518 A
1 A
61551519 TTTAGTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:61563077 original size:31 final size:30
Alignment explanation
Indices: 61563018--61563077 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
61563008 ATACAAAAAA
*
61563018 AATTAAATATTAAAAAAGTAAAGGAATAAT
1 AATTAAATATTAAAAAAGTAAAGAAATAAT
*
61563048 AATTAAATAATTAAATAAAG-AAATAAATAA
1 AATTAAAT-ATTAAA-AAAGTAAAGAAATAA
61563078 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (30 bp):
AATTAAATATTAAAAAAGTAAAGAAATAAT
Found at i:61564113 original size:9 final size:9
Alignment explanation
Indices: 61564099--61564132 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
61564089 AACCTTTCTT
61564099 TTTTTATTA
1 TTTTTATTA
61564108 TTTTTATTA
1 TTTTTATTA
61564117 TATTTT-TTA
1 T-TTTTATTA
61564126 TTTTTAT
1 TTTTTAT
61564133 CAACCATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.17
9 15 0.65
10 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTATTA
Found at i:61566909 original size:105 final size:105
Alignment explanation
Indices: 61566663--61567034 Score: 563
Period size: 105 Copynumber: 3.6 Consensus size: 105
61566653 TAACCGTTAT
** *
61566663 CGGTGGATCCCGCACTTAGCACCACCACT-AAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* **
61566727 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAAATA
66 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
*
61566766 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGATTCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
* *
61566831 GAATCAGCACGTAGAAACCCCCTTTCACATTTCAAAGGTA
66 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
*
61566871 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGA
1 CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
61566936 GAATCAGCACATAGCAACCCCCTTTCATATTTCAAAGGTA
66 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
* * * **
61566976 TGGTGGATCA-CGCACCTAGCACCACCAATG-AATCGAGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCT
61567035 TTTATATACA
Statistics
Matches: 247, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
103 26 0.11
104 83 0.34
105 137 0.55
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGGTA
Found at i:61566933 original size:26 final size:27
Alignment explanation
Indices: 61566904--61566956 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
61566894 ACCAATGAAA
*
61566904 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
61566930 TCGGGAGAATCAGCACATAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
61566957 CTTTCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (27 bp):
TCGGGAGAATCAGCACATAGCAACCCC
Found at i:61569229 original size:30 final size:30
Alignment explanation
Indices: 61569195--61569257 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
61569185 GCTTATTTTA
61569195 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
61569225 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
61569255 TTG
1 TTG
61569258 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:61580995 original size:24 final size:23
Alignment explanation
Indices: 61580962--61581006 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
61580952 TCTTTGGTTC
61580962 TTTTAGACATAAGAGAGAAATAAAT
1 TTTTAGACATAA-AGA-AAATAAAT
61580987 TTTTA-ACATAAAGAAAATAA
1 TTTTAGACATAAAGAAAATAA
61581007 TAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 6 0.30
25 5 0.25
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (23 bp):
TTTTAGACATAAAGAAAATAAAT
Found at i:61583061 original size:31 final size:31
Alignment explanation
Indices: 61583026--61583086 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
61583016 ATGGTCACTG
* *
61583026 AATTATTTAAAAATTTTCCTTTAAGTCATTC
1 AATTATTCAAAAATTTTCATTTAAGTCATTC
* *
61583057 AATTATTCAAAAGTTTTTATTTAAGTCATT
1 AATTATTCAAAAATTTTCATTTAAGTCATT
61583087 AGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (31 bp):
AATTATTCAAAAATTTTCATTTAAGTCATTC
Found at i:61584421 original size:13 final size:13
Alignment explanation
Indices: 61584405--61584431 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61584395 TAAACTAAAC
61584405 CAATAAAAGAAAT
1 CAATAAAAGAAAT
61584418 CAATAAAAGAAAT
1 CAATAAAAGAAAT
61584431 C
1 C
61584432 TATCCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.15
Consensus pattern (13 bp):
CAATAAAAGAAAT
Found at i:61585143 original size:18 final size:19
Alignment explanation
Indices: 61585112--61585150 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
61585102 GGATAGGTAA
61585112 AATTATCGAATTAGGGACT
1 AATTATCGAATTAGGGACT
*
61585131 AATTA-CGATTTAGGGACT
1 AATTATCGAATTAGGGACT
61585149 AA
1 AA
61585151 ATCATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
AATTATCGAATTAGGGACT
Found at i:61600083 original size:3 final size:3
Alignment explanation
Indices: 61600005--61600074 Score: 106
Period size: 3 Copynumber: 23.3 Consensus size: 3
61599995 GTACTTTTGC
61600005 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
61600053 TAT CT-T TAC TAT TAT TAG TAT T
1 TAT -TAT TAT TAT TAT TAT TAT T
61600075 GGTATTATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 59 0.97
4 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:61600537 original size:15 final size:16
Alignment explanation
Indices: 61600517--61600549 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
61600507 TATATATATA
61600517 TATATATA-CATATTT
1 TATATATAGCATATTT
61600532 TATATATATGCATATTT
1 TATATATA-GCATATTT
61600549 T
1 T
61600550 TCTTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATAGCATATTT
Found at i:61600537 original size:17 final size:17
Alignment explanation
Indices: 61600515--61600549 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61600505 CCTATATATA
61600515 TATATATATACATATTT
1 TATATATATACATATTT
*
61600532 TATATATATGCATATTT
1 TATATATATACATATTT
61600549 T
1 T
61600550 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:61602279 original size:20 final size:21
Alignment explanation
Indices: 61602236--61602280 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
61602226 GTATGGTGTT
*
61602236 AATATGCATAATGGAATAATA
1 AATATGCATAATGGAACAATA
61602257 AATATG-ATAATGTGAACAA-A
1 AATATGCATAATG-GAACAATA
61602277 AATA
1 AATA
61602281 ATATGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (21 bp):
AATATGCATAATGGAACAATA
Found at i:61602528 original size:28 final size:28
Alignment explanation
Indices: 61602476--61602537 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
61602466 ACTATATATG
*
61602476 TATATACATAAAATTATGAAAATATGAA
1 TATATACATAAAATTATGAAAATATAAA
* *
61602504 TATATATATATAAATTAT-AAGATATAAA
1 TATATACATA-AAATTATGAAAATATAAA
*
61602532 AATATA
1 TATATA
61602538 AGTATTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (28 bp):
TATATACATAAAATTATGAAAATATAAA
Found at i:61602894 original size:3 final size:3
Alignment explanation
Indices: 61602886--61602930 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
61602876 AAATGAACAT
* * *
61602886 ATA ATA ATA ACA ATA ACA TTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61602931 TTATTATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:61604777 original size:63 final size:61
Alignment explanation
Indices: 61604645--61604770 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 61
61604635 GCCATTTAAG
*
61604645 ATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGGAGCGATTCAAG
1 ATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGGAGC-A-TCAAA
* * *
61604708 ATTTCTCACAATTTGATATTAAAAATGGAACAATTCCCGAAAAATTTACT-GGAGC-TCAAA
1 ATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTA-TAGGAGCATCAAA
61604768 ATT
1 ATT
61604771 CATTCTCCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
60 7 0.12
63 50 0.86
64 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (61 bp):
ATTTCTCACAATTCGATATTAAAAATAGAACAATTCCCGAAAAATCTATAGGAGCATCAAA
Found at i:61605076 original size:3 final size:3
Alignment explanation
Indices: 61605068--61605120 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
61605058 ACTAGTGGTC
61605068 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61605116 TAA TA
1 TAA TA
61605121 TTATTATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61605125 original size:3 final size:3
Alignment explanation
Indices: 61605119--61605149 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
61605109 ATAATAATAA
61605119 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
61605150 GTCGCCTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:61606432 original size:7 final size:7
Alignment explanation
Indices: 61606420--61606468 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
61606410 CTTGGATATA
61606420 AGGGTTT
1 AGGGTTT
61606427 AGGGTTT
1 AGGGTTT
61606434 AGGGTTT
1 AGGGTTT
*
61606441 AAGGTATT
1 AGGGT-TT
*
61606449 A-GATTT
1 AGGGTTT
61606455 AGGGTTT
1 AGGGTTT
*
61606462 AGAGTTT
1 AGGGTTT
61606469 TAGCATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 3 0.08
7 30 0.83
8 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:61606471 original size:21 final size:22
Alignment explanation
Indices: 61606431--61606477 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
61606421 GGGTTTAGGG
61606431 TTTAGGGTTTAAGGTATTAG-A
1 TTTAGGGTTTAAGGTATTAGCA
*
61606452 TTTAGGGTTT-AGAGTTTTAGCA
1 TTTAGGGTTTAAG-GTATTAGCA
61606474 TTTA
1 TTTA
61606478 TTTATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (22 bp):
TTTAGGGTTTAAGGTATTAGCA
Found at i:61607174 original size:63 final size:60
Alignment explanation
Indices: 61607059--61607174 Score: 133
Period size: 63 Copynumber: 1.9 Consensus size: 60
61607049 GACTTAACAC
* * * *
61607059 TTTTCTTAATTTGGTACTAAATCTTTCTTGGGTCCAATTTGGTACTTGAACTTAATTCTT
1 TTTTCCTAATTTGGTACTAAATCTTTCTTGGGTCCAATTTGATACCTAAACTTAATTCTT
* ** *
61607119 TTTTCCTAATTTGGTACCTAATTATCTTTTTTTTGTCCGATTTGATACCTAAACTT
1 TTTTCCTAATTTGGTA-CTAA--ATCTTTCTTGGGTCCAATTTGATACCTAAACTT
61607175 GTCAAATGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
60 15 0.33
61 4 0.09
63 26 0.58
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (60 bp):
TTTTCCTAATTTGGTACTAAATCTTTCTTGGGTCCAATTTGATACCTAAACTTAATTCTT
Found at i:61608259 original size:14 final size:14
Alignment explanation
Indices: 61608240--61608269 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61608230 ACATGTACAA
61608240 ACATGGGCTGGGAC
1 ACATGGGCTGGGAC
61608254 ACATGGGCTGGGAC
1 ACATGGGCTGGGAC
61608268 AC
1 AC
61608270 CGCCGTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.13
Consensus pattern (14 bp):
ACATGGGCTGGGAC
Found at i:61613299 original size:13 final size:14
Alignment explanation
Indices: 61613279--61613318 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
61613269 TATGCAATTT
61613279 ATATATAAAAAATA
1 ATATATAAAAAATA
*
61613293 A-ATATAAAAATTA
1 ATATATAAAAAATA
61613306 ATATATTAAAAAA
1 ATATA-TAAAAAA
61613319 GTTAATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATATAAAAAATA
Found at i:61615424 original size:9 final size:9
Alignment explanation
Indices: 61615412--61615437 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61615402 AAAATATATT
61615412 AAATGTAAA
1 AAATGTAAA
61615421 AAATGTAAA
1 AAATGTAAA
61615430 AAATGTAA
1 AAATGTAA
61615438 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (9 bp):
AAATGTAAA
Found at i:61618295 original size:13 final size:13
Alignment explanation
Indices: 61618273--61618310 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
61618263 GTGATATTTA
61618273 TTTT-TTTTCTTT
1 TTTTCTTTTCTTT
61618285 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
*
61618298 TATTCTTCTTCTT
1 TTTTCTT-TTCTT
61618311 CCCCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:61618744 original size:30 final size:30
Alignment explanation
Indices: 61618709--61618814 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
61618699 GGCCAAAGTG
61618709 TAATTTTAGGAAAATTTAAGGGTTAAAATA
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
* * * * *
61618739 TAATTTCATGAAAGTTTATGGGTTAAAATG
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
* *
61618769 TAATTTTAGGAAAGTTTAAGGGTCAAAATA
1 TAATTTTAGGAAAATTTAAGGGTTAAAATA
*
61618799 TAATTTTAAGAAAATT
1 TAATTTTAGGAAAATT
61618815 CAGATGTCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (30 bp):
TAATTTTAGGAAAATTTAAGGGTTAAAATA
Found at i:61618827 original size:60 final size:60
Alignment explanation
Indices: 61618688--61618834 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 60
61618678 CAAACATAGC
* * * * *
61618688 AAAATTCTTGGGGCCAAAGTGTAATTTTAGGAAAATTTAAGGGTTAAAATATAATTTCATG
1 AAAATTCAT-GGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
* * * * *
61618749 AAAGTTTATGGGTTAAAATGTAATTTTAGGAAAGTTTAAGGGTCAAAATATAATTTTAAG
1 AAAATTCATGGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
*
61618809 AAAATTCA-GATGTCAAAATGTAATTT
1 AAAATTCATG-GGTCAAAATGTAATTT
61618835 AAAAAATGCA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.01
60 64 0.90
61 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.35
Consensus pattern (60 bp):
AAAATTCATGGGTCAAAATGTAATTTTAGGAAAATTTAAGGGTCAAAATATAATTTCAAG
Found at i:61621772 original size:50 final size:50
Alignment explanation
Indices: 61621700--61621886 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 50
61621690 AGTGAAAGTG
*
61621700 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GA
* * * * *
61621749 ATGGGTCGCATATGTAGTACTATGTGCAGGCTACTATGTGAACCGGATAGC
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGA
* * * * *
61621800 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-A
*
61621852 ATGGTCACATGTGTAGTGCTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
61621887 TGTGAGCCGG
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.35
51 71 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGA
Found at i:61621825 original size:101 final size:101
Alignment explanation
Indices: 61621704--61621896 Score: 300
Period size: 101 Copynumber: 1.9 Consensus size: 101
61621694 AAAGTGATGG
*
61621704 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-ATGGGTCGCATATGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGAAT-GGTCACATATGTAGT
61621767 ACTATGTGCAGGCTACTATGTGAACCGGATAGCTTCGA
64 ACTATGTGCAGGCTACTATGTGAACCGGATAGCTTCGA
* * *
61621805 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCACATGTGTAGTG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGG-AATGGTCACATATGTAGTA
*
61621870 CTATGTGCAGGCTACTATGTGAGCCGG
65 CTATGTGCAGGCTACTATGTGAACCGG
61621897 GTACCATTGA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
100 2 0.02
101 41 0.49
102 39 0.46
103 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGAATGGTCACATATGTAGTAC
TATGTGCAGGCTACTATGTGAACCGGATAGCTTCGA
Found at i:61622066 original size:69 final size:69
Alignment explanation
Indices: 61621912--61622103 Score: 240
Period size: 69 Copynumber: 2.7 Consensus size: 69
61621902 ATTGACTATT
* * * *
61621912 AGGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATC
1 AGGGGGTTGCTAAGTGCTGATTCCCC-A---A-AGG-GGTTGCTAAGTGCTGATCCCACCGTATC
*
61621977 TTGAATATAA
60 TTAAATATAA
* *
61621987 AGGGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGTTGATCCCACCGTATTTTAAAT
1 AGGGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATCCCACCGTATCTTAAAT
* *
61622052 GTGA
66 ATAA
*
61622056 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGAT
1 AGGGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGAT
61622104 TCCCCGAATC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
69 77 0.73
70 2 0.02
71 1 0.01
74 1 0.01
75 25 0.24
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (69 bp):
AGGGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATCCCACCGTATCTTAAAT
ATAA
Found at i:61622129 original size:33 final size:33
Alignment explanation
Indices: 61622060--61622220 Score: 129
Period size: 33 Copynumber: 4.7 Consensus size: 33
61622050 ATGTGAAGGG
*
61622060 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
61622087 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
61622120 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
*
61622163 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
61622196 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
61622221 TAACGGTTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 31
0.75 0.03 0.21
Matches are distributed among these distances:
27 22 0.20
31 2 0.02
32 2 0.02
33 41 0.37
34 9 0.08
36 2 0.02
37 1 0.01
39 2 0.02
40 2 0.02
42 5 0.05
43 22 0.20
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:61622176 original size:103 final size:96
Alignment explanation
Indices: 61621989--61622184 Score: 284
Period size: 103 Copynumber: 2.0 Consensus size: 96
61621979 GAATATAAAG
* *
61621989 GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGTTGATCCCACCGTATTTTAAATGT
1 GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATCCCACCATATTTTAAATGT
*
61622054 GAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 GAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
*
61622085 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCC-AA--A--GG-GGTTGCTAAGTGCTGATCCCACCATAT-TT
*
61622150 TGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
59 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
61622185 GAATCACTGG
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
96 24 0.27
97 2 0.02
99 1 0.01
101 2 0.02
102 24 0.27
103 35 0.40
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (96 bp):
GGGGTTGCTAAGTGCTGATTCCCCAAAGGGGTTGCTAAGTGCTGATCCCACCATATTTTAAATGT
GAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:61623068 original size:49 final size:49
Alignment explanation
Indices: 61622996--61623089 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
61622986 CTTTCGATAA
* * * *
61622996 GTGATATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAT
1 GTGATAAGTGATTACATATAAGACCATAGT-TGGACTATGGCATCGGTAT
* *
61623045 GTGATAAGTGATTACATGTAAGACCATAGTTGGACTATGGTATCG
1 GTGATAAGTGATTACATATAAGACCATAGTTGGACTATGGCATCG
61623090 AGAAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 37 0.97
50 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (49 bp):
GTGATAAGTGATTACATATAAGACCATAGTTGGACTATGGCATCGGTAT
Found at i:61629138 original size:46 final size:46
Alignment explanation
Indices: 61629035--61629347 Score: 302
Period size: 46 Copynumber: 6.6 Consensus size: 46
61629025 TACGTATGAT
* *
61629035 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
61629078 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*** *
61629124 CACTTATCACTTTGTCACCACTT-ATCACTTG-TCCCTGATCAGATAAGTGTAGCTA-
1 CACTTATCACTTTGT---CACTTGATCA---GATAAGTG-T-AGCTAA----AGCTAC
* * *
61629179 AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CA-CT--TA----TCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
61629232 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
61629276 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
61629322 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
61629348 AGTACTCAAA
Statistics
Matches: 225, Mismatches: 18, Indels: 52
0.76 0.06 0.18
Matches are distributed among these distances:
43 10 0.04
44 42 0.19
45 38 0.17
46 71 0.32
48 4 0.02
49 5 0.02
50 4 0.02
51 2 0.01
52 11 0.05
53 1 0.00
55 1 0.00
56 12 0.05
57 2 0.01
58 4 0.02
59 5 0.02
60 4 0.02
62 9 0.04
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:61629175 original size:62 final size:64
Alignment explanation
Indices: 61629076--61629203 Score: 233
Period size: 62 Copynumber: 2.0 Consensus size: 64
61629066 TAGCTAGGCT
*
61629076 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
61629140 ACCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
61629202 AC
1 AC
61629204 TTGATCAGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 46 0.73
63 5 0.08
64 12 0.19
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
Found at i:61629223 original size:108 final size:107
Alignment explanation
Indices: 61629035--61629243 Score: 391
Period size: 108 Copynumber: 1.9 Consensus size: 107
61629025 TACGTATGAT
*
61629035 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
*
61629100 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
66 TCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
61629142 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTG
61629207 ATCAGATAAGTGTAGCTAAAACTACCACTTATCACTT
65 ATCAGATAAGTGTAGCTAAAACTACCACTTATCACTT
61629244 GTCCCTGATC
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 36 0.36
108 63 0.64
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (107 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
Found at i:61629293 original size:90 final size:90
Alignment explanation
Indices: 61629140--61629347 Score: 389
Period size: 90 Copynumber: 2.3 Consensus size: 90
61629130 TCACTTTGTC
61629140 ACCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 ACCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
61629205 TGATCAGATAAGTGTAGCTAAAACT
66 TGATCAGATAAGTGTAGCTAAAACT
61629230 ACCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 ACCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
61629295 TGATCAGATAAGTGTAGCTAAAGCT
66 TGATCAGATAAGTGTAGCTAAAACT
*
61629320 ACCACTTATCACTTTGTCACTGATCAGA
1 ACCACTTATCAC-TTGTCCCTGATCAGA
61629348 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 101 0.88
91 14 0.12
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (90 bp):
ACCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAAAACT
Found at i:61629295 original size:52 final size:47
Alignment explanation
Indices: 61629140--61629347 Score: 319
Period size: 46 Copynumber: 4.6 Consensus size: 47
61629130 TCACTTTGTC
*
61629140 ACCACTTATCAC-TTGTC-C-CTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTTGATCAGATAAGTGTAGCTAAAGCT
*
61629184 ACCACTTATCACTTTGTCAC-TTGATCAGATAAGTGTAGCTAAAACT
1 ACCACTTATCACTTTGTCACTTTGATCAGATAAGTGTAGCTAAAGCT
*
61629230 ACCACTTATCAC-TTGTC-C-CTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTTGATCAGATAAGTGTAGCTAAAGCT
61629274 ACCACTTATCACTTTGTCAC-TTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTTGATCAGATAAGTGTAGCTAAAGCT
61629320 ACCACTTATCACTTTGTCAC--TGATCAGA
1 ACCACTTATCACTTTGTCACTTTGATCAGA
61629348 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
44 49 0.32
45 23 0.15
46 83 0.54
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (47 bp):
ACCACTTATCACTTTGTCACTTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:61632060 original size:51 final size:51
Alignment explanation
Indices: 61631981--61632204 Score: 277
Period size: 51 Copynumber: 4.3 Consensus size: 51
61631971 CTTGCGTATG
* * *
61631981 ATCACTTATCACTTGTCCCTGATCAGATAAGTGCAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * * * *
61632032 ATCACTTGTCACTTGTCACTGATTAGATAAGTGTACCTGAAGTTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
61632083 ATCACTTGCCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
1 ATCACTTG-----T--CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
61632141 ATCACTTGCCATTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
61632192 ATCACTTGTCACT
1 ATCACTTGTCACT
61632205 GATCAGAAGA
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
51 101 0.68
56 1 0.01
58 46 0.31
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:61632096 original size:58 final size:58
Alignment explanation
Indices: 61632034--61632204 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 58
61632024 TACCACTTAT
* * *
61632034 CACTTGTCACTTGTCACTGATTAGATAAGTGTACCTGAAGTTATCACTTATCACTTGC
1 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTATCACTTATCACTTGC
* *
61632092 CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGC
1 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTATCACTTATCACTTGC
* *
61632150 CA----T---TTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTGT
1 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTATCACTTATCACTTGC
61632201 CACT
1 CACT
61632205 GATCAGAAGA
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
51 47 0.46
58 55 0.54
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (58 bp):
CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGTTATCACTTATCACTTGC
Found at i:61632169 original size:109 final size:109
Alignment explanation
Indices: 61631990--61632204 Score: 340
Period size: 109 Copynumber: 2.0 Consensus size: 109
61631980 GATCACTTAT
* *
61631990 CACTTGTCCCTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGAT
1 CACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACTGAT
* * *
61632055 TAGATAAGTGTACCTGAAGTTATCACTTATCACTTGCCACTTGC
66 CAGATAAGTGTACCTAAAGTTACCACTTATCACTTGCCACTTGC
* * *
61632099 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTGCCATTTGTCACTGAT
1 CACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACTGAT
* *
61632164 CAGATAAGTGTAGCTAAAGTTACCACTTATCACTTGTCACT
66 CAGATAAGTGTACCTAAAGTTACCACTTATCACTTGCCACT
61632205 GATCAGAAGA
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 96 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (109 bp):
CACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACTGAT
CAGATAAGTGTACCTAAAGTTACCACTTATCACTTGCCACTTGC
Found at i:61638608 original size:30 final size:30
Alignment explanation
Indices: 61638573--61638700 Score: 145
Period size: 30 Copynumber: 4.3 Consensus size: 30
61638563 TTAAAAAATT
61638573 TTACATTTTAACCCCTAAAATTTTTCAAAA
1 TTACATTTTAACCCCTAAAATTTTTCAAAA
* * *
61638603 TTACATGTCAACGCCTAAACA-TTTT-AAAA
1 TTACATTTTAACCCCTAAA-ATTTTTCAAAA
* * * *
61638632 TTACATTTTGACCCCTGAACTTTCTCAAAA
1 TTACATTTTAACCCCTAAAATTTTTCAAAA
61638662 TTACATTTTAACCCCT-AAATTTTCTCAAAA
1 TTACATTTTAACCCCTAAAATTTT-TCAAAA
*
61638692 TTATATTTT
1 TTACATTTT
61638701 GGCCCCAGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
29 26 0.32
30 53 0.66
31 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (30 bp):
TTACATTTTAACCCCTAAAATTTTTCAAAA
Found at i:61638679 original size:59 final size:60
Alignment explanation
Indices: 61638573--61638706 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
61638563 TTAAAAAATT
* * *
61638573 TTACATTTTAACCCCTAAAATTTTTCAAAATTACATGTCAACGCCTAAACATTT-T-AAAA
1 TTACATTTTGACCCCTAAAATTTCTCAAAATTACATGTCAACCCCTAAA-ATTTCTCAAAA
* * * * *
61638632 TTACATTTTGACCCCTGAACTTTCTCAAAATTACATTTTAACCCCTAAATTTTCTCAAAA
1 TTACATTTTGACCCCTAAAATTTCTCAAAATTACATGTCAACCCCTAAAATTTCTCAAAA
* *
61638692 TTATATTTTGGCCCC
1 TTACATTTTGACCCC
61638707 AGAAGTTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 3 0.05
59 43 0.68
60 17 0.27
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (60 bp):
TTACATTTTGACCCCTAAAATTTCTCAAAATTACATGTCAACCCCTAAAATTTCTCAAAA
Found at i:61639244 original size:17 final size:16
Alignment explanation
Indices: 61639204--61639258 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
61639194 GTCTGAACGA
61639204 AGAAGAAG-AAAAAAG
1 AGAAGAAGAAAAAAAG
*
61639219 A-AAGGAGAAAAAAAG
1 AGAAGAAGAAAAAAAG
* *
61639234 AGAAGAA-AGAAGAAG
1 AGAAGAAGAAAAAAAG
61639249 -GAAGAAGAAA
1 AGAAGAAGAAA
61639259 GGGGGAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.34
15 17 0.53
16 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAGAAGAAAAAAAG
Found at i:61639405 original size:15 final size:16
Alignment explanation
Indices: 61639385--61639414 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61639375 CAGCCCCCCC
61639385 AAAAAAGAA-AAGCAA
1 AAAAAAGAAGAAGCAA
61639400 AAAAAAGAAGAAGCA
1 AAAAAAGAAGAAGCA
61639415 GGCCACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.07, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAGCAA
Found at i:61639585 original size:10 final size:10
Alignment explanation
Indices: 61639570--61639656 Score: 83
Period size: 10 Copynumber: 8.8 Consensus size: 10
61639560 AGCCCAGTCC
61639570 AAAAAAAGAG
1 AAAAAAAGAG
61639580 AAAAAAA-AG
1 AAAAAAAGAG
*
61639589 AAAAAGAGAG
1 AAAAAAAGAG
*
61639599 GAAAAAAGA-
1 AAAAAAAGAG
*
61639608 AGAAAAAGAG
1 AAAAAAAGAG
61639618 AAGAAAAA-AG
1 AA-AAAAAGAG
*
61639628 -AAAAAAGAA
1 AAAAAAAGAG
61639637 AAAAAAAGAAG
1 AAAAAAAG-AG
61639648 AAGAAAAAG
1 AA-AAAAAG
61639657 GGGGTTCAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
8 5 0.08
9 17 0.27
10 26 0.42
11 8 0.13
12 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:61639586 original size:11 final size:11
Alignment explanation
Indices: 61639570--61639646 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
61639560 AGCCCAGTCC
61639570 AAAAAAAGAGA
1 AAAAAAAGAGA
61639581 AAAAAAAGA-A
1 AAAAAAAGAGA
* *
61639591 AAAGAGAG-GA
1 AAAAAAAGAGA
61639601 AAAAAGAAGA-A
1 AAAAA-AAGAGA
* *
61639612 AAAGAGAAGAAA
1 AAA-AAAAGAGA
*
61639624 AAAGAAAAAAGA
1 AAA-AAAAGAGA
61639636 AAAAAAA-AGA
1 AAAAAAAGAGA
61639646 A
1 A
61639647 GAAGAAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
10 16 0.30
11 23 0.43
12 14 0.26
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:61639625 original size:38 final size:38
Alignment explanation
Indices: 61639572--61639649 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
61639562 CCCAGTCCAA
**
61639572 AAAAAGAG-AAAAAAAAGAAAAAGAGAGGAAAAAAGAAG
1 AAAAAGAGAAAAAAAAAGAAAAA-AGAAAAAAAAAGAAG
*
61639610 AAAAAGAGAAGAAAAAAGAAAAAAGAAAAAAAAAGAAG
1 AAAAAGAGAAAAAAAAAGAAAAAAGAAAAAAAAAGAAG
61639648 AA
1 AA
61639650 GAAAAAGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 23 0.64
39 13 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (38 bp):
AAAAAGAGAAAAAAAAAGAAAAAAGAAAAAAAAAGAAG
Found at i:61639654 original size:29 final size:29
Alignment explanation
Indices: 61639571--61639656 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
61639561 GCCCAGTCCA
* * *
61639571 AAAAAAGAGAAAAAAAAGAAAAAG-AGAGG
1 AAAAAAGA-AAAAAAAAGAAGAAGAAAAAG
*
61639600 AAAAAAG-AAGAAAAAG-AGAAGAAAAAAG
1 AAAAAAGAAAAAAAAAGAAGAAG-AAAAAG
61639628 AAAAAAGAAAAAAAAAGAAGAAGAAAAAG
1 AAAAAAGAAAAAAAAAGAAGAAGAAAAAG
61639657 GGGGTTCAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.08
27 8 0.17
28 10 0.21
29 21 0.44
30 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (29 bp):
AAAAAAGAAAAAAAAAGAAGAAGAAAAAG
Found at i:61640001 original size:16 final size:16
Alignment explanation
Indices: 61639982--61640048 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 16
61639972 AAAAAAATCC
*
61639982 TCGTGTTTCGAAATTT
1 TCGTGTTTCAAAATTT
61639998 TCGTGTCTTCAAAAAATTTT
1 TCGTGT-TTC--AAAA-TTT
*
61640018 CTCGTGTTTCAAAATTC
1 -TCGTGTTTCAAAATTT
61640035 TCGTGTTTTCAAAA
1 TCGTG-TTTCAAAA
61640049 ATAAGGAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 11 0.26
17 13 0.30
18 4 0.09
19 3 0.07
20 6 0.14
21 6 0.14
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:61640049 original size:18 final size:17
Alignment explanation
Indices: 61639974--61640050 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 17
61639964 AAATTTTCAA
*
61639974 AAAAATCCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
61639991 -GAAATTTTCGTGTCTTC
1 AAAAATTCTCGTGT-TTC
61640008 AAAAAATTTTCTCGTGTTTC
1 -AAAAA--TTCTCGTGTTTC
61640028 -AAAATTCTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
61640045 AAAAAT
1 AAAAAT
61640051 AAGGAAACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
16 18 0.38
17 7 0.15
18 9 0.19
19 3 0.06
20 3 0.06
21 8 0.17
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:61640260 original size:18 final size:18
Alignment explanation
Indices: 61640208--61640360 Score: 150
Period size: 18 Copynumber: 8.6 Consensus size: 18
61640198 TTTCCAAATT
61640208 TTTTCGTGTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
** *
61640227 TTTTTATG-TTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
*
61640244 TTTTTGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
61640262 TTTTCGTGTTTTCAACAA
1 TTTTCGTGTTTTCAAAAA
*
61640280 TTTTCGTATTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
61640298 ATTTCATGTTTTCAACAA
1 TTTTCGTGTTTTCAAAAA
* * * *
61640316 TTCTCATG-TTTCTAGAA
1 TTTTCGTGTTTTCAAAAA
*
61640333 TTCTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
61640350 TTTTCGTGTTT
1 TTTTCGTGTTT
61640361 AAAAAAAAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
17 40 0.36
18 65 0.59
19 6 0.05
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:61640310 original size:36 final size:36
Alignment explanation
Indices: 61640178--61640360 Score: 144
Period size: 36 Copynumber: 5.2 Consensus size: 36
61640168 AAAAAATCCA
* * *
61640178 GTGTTTTCAAAAAATTCCAT-TTTCCAA-ATTTTTTC
1 GTGTTTTCAAAAAATTTCATGTTTTCAACA-ATTTTC
* * * * *
61640213 GTGTTTTCTAAAAATTTTTATG-TTTAAAAAATTTTT
1 GTGTTTTC-AAAAAATTTCATGTTTTCAACAATTTTC
* *
61640249 GTGTTTTCAAAAATTTTCGTGTTTTCAACAATTTTC
1 GTGTTTTCAAAAAATTTCATGTTTTCAACAATTTTC
* *
61640285 GTATTTTCAAAAAATTTCATGTTTTCAACAATTCTC
1 GTGTTTTCAAAAAATTTCATGTTTTCAACAATTTTC
* * * * *
61640321 ATG-TTTC-TAGAATTCTCGTG-TTTCAAAAATTTTC
1 GTGTTTTCAAAAAATT-TCATGTTTTCAACAATTTTC
61640355 GTGTTT
1 GTGTTT
61640361 AAAAAAAAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
34 19 0.16
35 29 0.25
36 69 0.58
37 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (36 bp):
GTGTTTTCAAAAAATTTCATGTTTTCAACAATTTTC
Found at i:61640327 original size:17 final size:17
Alignment explanation
Indices: 61640253--61640365 Score: 70
Period size: 17 Copynumber: 6.5 Consensus size: 17
61640243 ATTTTTGTGT
* *
61640253 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTCTCATG
* *
61640270 TTTTCAACAATTTTCGTAT-
1 -TTTCAAAAATTCTC--ATG
61640289 TTTCAAAAAATT-TCATG
1 TTTC-AAAAATTCTCATG
*
61640306 TTTTCAACAATTCTCATG
1 -TTTCAAAAATTCTCATG
* * *
61640324 TTTCTAGAATTCTCGTG
1 TTTCAAAAATTCTCATG
* *
61640341 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTCTCATG
61640358 TTT-AAAAA
1 TTTCAAAAA
61640366 AAAATTTTCT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
16 7 0.09
17 37 0.47
18 28 0.35
19 6 0.08
20 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (17 bp):
TTTCAAAAATTCTCATG
Found at i:61646030 original size:14 final size:14
Alignment explanation
Indices: 61646005--61646048 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
61645995 CAATAATAAT
61646005 AACAAGAAAAACAAA
1 AACAA-AAAAACAAA
61646020 AACAAAAAAAC-AA
1 AACAAAAAAACAAA
*
61646033 AACAAAAAAATAAA
1 AACAAAAAAACAAA
61646047 AA
1 AA
61646049 AATAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 10 0.37
15 5 0.19
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (14 bp):
AACAAAAAAACAAA
Found at i:61646034 original size:13 final size:13
Alignment explanation
Indices: 61646005--61646065 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
61645995 CAATAATAAT
61646005 AACAAGAAAAACAAA
1 AACAA-AAAAAC-AA
61646020 AACAAAAAAACAA
1 AACAAAAAAACAA
*
61646033 AACAAAAAAATAA
1 AACAAAAAAACAA
* *
61646046 AA-AAATAAAGAA
1 AACAAAAAAACAA
*
61646058 AAGAAAAA
1 AACAAAAA
61646066 GAAAAATCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.24
13 20 0.49
14 6 0.15
15 5 0.12
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (13 bp):
AACAAAAAAACAA
Done.