Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 327 of 335
Found at i:96047711 original size:15 final size:15
Alignment explanation
Indices: 96047691--96047728 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
96047681 CACATCACCA
96047691 TCATTATTGGGCTCC
1 TCATTATTGGGCTCC
*
96047706 TCATTATTGGGCTTC
1 TCATTATTGGGCTCC
*
96047721 ACATTATT
1 TCATTATT
96047729 AAGGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (15 bp):
TCATTATTGGGCTCC
Found at i:96056155 original size:72 final size:72
Alignment explanation
Indices: 96056038--96056395 Score: 445
Period size: 72 Copynumber: 4.9 Consensus size: 72
96056028 TAGAATCTGC
* ** * *
96056038 CCACTCAATTGGTTCAT-CGACAAGTATAAACCAATGAGCTGCAAGAGG-TTCCTCAATGATCTT
1 CCACTCAATTGGTTC-TGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCC-CAATGATCTT
96056101 GGAATTTGT
64 GGAATTTGT
* * * * * *
96056110 CCACTTAATTGGTTCTGCGACAAGTTTAAATCAGGGAGTTGCAAGAGGTTCCCCAATGATCTTAG
1 CCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCTTGG
96056175 AATTTGT
66 AATTTGT
** * *
96056182 CTGCTCAGTTGGTTC-GCCAACAAG-CGTAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCTT
1 CCACTCAATTGGTTCTG-CGACAAGTC-TAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCTT
96056245 GGAATTTGT
64 GGAATTTGT
* *
96056254 CCACTCAATTGGTTCTACGACAAGTCTAAATGAGTGAGTTACAAGAGGTTTCCCAATGATCTTGG
1 CCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCTTGG
96056319 AATTTGT
66 AATTTGT
* * *
96056326 CCACTTAATTGGTTCTGTGTCGACAAGTCTAAATGAGTGAGTTGCAAAAGGTTTCCCAGTGATCT
1 CCACTCAATTGGTTC--TG-CGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCT
96056391 TGGAA
63 TGGAA
96056396 CCGGTCCTGA
Statistics
Matches: 248, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
71 2 0.01
72 194 0.78
73 4 0.02
74 1 0.00
75 47 0.19
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (72 bp):
CCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAATGATCTTGG
AATTTGT
Found at i:96058969 original size:68 final size:69
Alignment explanation
Indices: 96058860--96058997 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 69
96058850 ATAGTCAAAA
96058860 GGTCTTTTCGGCCAATTTTATTAGCTAAAGAGCGTAACTAGGCGCAAAAAA-TTAGGAGATGCTT
1 GGTCTTTTCGGCCAATTTTATTAGCTAAAGAGCGTAACTAGGCGCAAAAAATTTAGGAGATGCTT
96058924 AATT
66 AATT
96058928 GGTCTTTTCGGCCAATTTTATTAGCTAAAGAGCGTAACTAGGCGCAAAAAATTTAGGAGATGCTT
1 GGTCTTTTCGGCCAATTTTATTAGCTAAAGAGCGTAACTAGGCGCAAAAAATTTAGGAGATGCTT
96058993 AATT
66 AATT
96058997 G
1 G
96058998 ATTATTCTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 51 0.74
69 18 0.26
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (69 bp):
GGTCTTTTCGGCCAATTTTATTAGCTAAAGAGCGTAACTAGGCGCAAAAAATTTAGGAGATGCTT
AATT
Found at i:96061038 original size:54 final size:54
Alignment explanation
Indices: 96060974--96061082 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
96060964 TTTACTAAAA
96060974 ATTGAAATTCAAGAAAGAAGACATACATAGTTGCATGCACCATGCAAAGATGTT
1 ATTGAAATTCAAGAAAGAAGACATACATAGTTGCATGCACCATGCAAAGATGTT
96061028 ATTGAAATTCAAGAAAGAAGACATACATAGTTGCATGCACCATGCAAAGATGTT
1 ATTGAAATTCAAGAAAGAAGACATACATAGTTGCATGCACCATGCAAAGATGTT
96061082 A
1 A
96061083 CACTCAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (54 bp):
ATTGAAATTCAAGAAAGAAGACATACATAGTTGCATGCACCATGCAAAGATGTT
Found at i:96066437 original size:28 final size:28
Alignment explanation
Indices: 96066402--96066463 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
96066392 CCCATATTAT
96066402 TGGGGTATAGGAAAAGTCTCATAACTTA
1 TGGGGTATAGGAAAAGTCTCATAACTTA
* * *
96066430 TGGGGTATAGGAAGAGTTTTATAACTTA
1 TGGGGTATAGGAAAAGTCTCATAACTTA
96066458 TGGGGT
1 TGGGGT
96066464 TGATAATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.32
Consensus pattern (28 bp):
TGGGGTATAGGAAAAGTCTCATAACTTA
Found at i:96067859 original size:35 final size:34
Alignment explanation
Indices: 96067793--96067868 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
96067783 AATAAAATTT
*
96067793 AAATATTTTAAAATTATATTCATAATAAAAT-ATCA
1 AAATATTTTAAAATTATATT-ATAAAAAAATAAT-A
96067828 AAATATTTTACAAATTATATT-TAAAACAAATAATA
1 AAATATTTTA-AAATTATATTATAAAA-AAATAATA
96067863 AAATAT
1 AAATAT
96067869 AATTTAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 4 0.11
35 21 0.57
36 12 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATATTTTAAAATTATATTATAAAAAAATAATA
Found at i:96070051 original size:8 final size:8
Alignment explanation
Indices: 96070038--96070062 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
96070028 GTTCACATGC
96070038 TCTTTCAT
1 TCTTTCAT
96070046 TCTTTCAT
1 TCTTTCAT
96070054 TCTTTCAT
1 TCTTTCAT
96070062 T
1 T
96070063 ATCGGCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (8 bp):
TCTTTCAT
Found at i:96078214 original size:72 final size:72
Alignment explanation
Indices: 96078022--96078239 Score: 280
Period size: 72 Copynumber: 3.0 Consensus size: 72
96078012 GAATTGATAA
* * * *
96078022 TGGAATTTGTCCGCTCAATTGGTTCCGCGACAAGTCTAAATTAGTGAGGTGTAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTTCGCGACAAGTCTAAATAAGTGAGTTGTAAGAGGTTCCCCA
96078087 ATGATCT
66 ATGATCT
**
96078094 TGGAATTTGTCCACTCAATTGGTTCTCATG-CAAG-CTTAAATAAGTGAGTTGTAAGAGGTTCCC
1 TGGAATTTGTCCACTCAATTGGTT-TCGCGACAAGTC-TAAATAAGTGAGTTGTAAGAGGTTCCC
96078157 CAAT-ATTCT
64 CAATGA-TCT
* * * * *
96078166 TGGAATTTGTCCACTCAATTGGTTTCGCGACAAGTCTAAATCACTGAGTTGCAAGAGTTTTCCCA
1 TGGAATTTGTCCACTCAATTGGTTTCGCGACAAGTCTAAATAAGTGAGTTGTAAGAGGTTCCCCA
*
96078231 GTGATCT
66 ATGATCT
96078238 TG
1 TG
96078240 AAACCGGTCC
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
71 5 0.04
72 117 0.93
73 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTTCGCGACAAGTCTAAATAAGTGAGTTGTAAGAGGTTCCCCA
ATGATCT
Found at i:96078815 original size:18 final size:17
Alignment explanation
Indices: 96078788--96078822 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96078778 GCTATGGATA
96078788 TTAGATTTTTCAAAATT
1 TTAGATTTTTCAAAATT
*
96078805 TTAGAATTTTTCACAATT
1 TTAG-ATTTTTCAAAATT
96078823 GTCAACAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAGATTTTTCAAAATT
Found at i:96080986 original size:22 final size:20
Alignment explanation
Indices: 96080961--96081000 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
96080951 ATTAATTAAT
96080961 TTTTAAAAACATATAAAAATTG
1 TTTTAAAAA-A-ATAAAAATTG
*
96080983 TTTTTAAAAAATAAAAAT
1 TTTTAAAAAAATAAAAAT
96081001 ATATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTTAAAAAAATAAAAATTG
Found at i:96088541 original size:56 final size:55
Alignment explanation
Indices: 96088423--96088645 Score: 267
Period size: 56 Copynumber: 4.1 Consensus size: 55
96088413 TACAAATTTA
* * *
96088423 ACTATCAATTGTCTATTCACTATACTTTAACTC--CACAAAA--A-AAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAGGACAAGACTAAG
* *
96088473 ACTATCAATTGTCTGTTGACTACACTTTGACTCGACAAAAAAGGACAACGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAGGACAA-GACTAAG
* * * **
96088529 ACTATCACTTGTCCATTGACTATACTTTAACTCGACAAAAAAAGGTTAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGAC-AAAAAAGGACAAGACTAAG
* *
96088585 ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACTAAAACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGAC-AAAAAAGGAC-AAGACTAAG
96088642 ACTA
1 ACTA
96088646 AGACTATCAG
Statistics
Matches: 146, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
50 29 0.20
52 6 0.04
54 1 0.01
55 2 0.01
56 86 0.59
57 22 0.15
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (55 bp):
ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAGGACAAGACTAAG
Found at i:96088622 original size:112 final size:106
Alignment explanation
Indices: 96088423--96088626 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 106
96088413 TACAAATTTA
* * *
96088423 ACTATCAATTGTCTATTCACTATACTTTAACTCCACAAAAAAAGACTAAGACTATCAATTGTCTG
1 ACTATCAATTGTCCATTCACTATACTTTAACTCCAAAAAAAAAGACTAAGACTATCAATTGTCTA
*
96088488 TTGACTACACTTTGACTCGACAAAAAAGGACAACGACTAAG
66 TTGACTACACTTTAACTCGACAAAAAAGGACAACGACTAAG
* *
96088529 ACTATCACTTGTCCATTGACTATACTTTAACTCGACAAAAAAAGGTTAAGACTAAGACTATCAAT
1 ACTATCAATTGTCCATTCACTATACTTTAACTC--CAAAAAAA----AAGACTAAGACTATCAAT
96088594 TGTCTATTGACTACACTTTAACTCGACAAAAAA
60 TGTCTATTGACTACACTTTAACTCGACAAAAAA
96088627 AAGACTAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
106 30 0.35
108 7 0.08
112 49 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (106 bp):
ACTATCAATTGTCCATTCACTATACTTTAACTCCAAAAAAAAAGACTAAGACTATCAATTGTCTA
TTGACTACACTTTAACTCGACAAAAAAGGACAACGACTAAG
Found at i:96093978 original size:17 final size:17
Alignment explanation
Indices: 96093948--96093980 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96093938 ACAAATGCTT
96093948 TTAAAATAATAACAAAA
1 TTAAAATAATAACAAAA
96093965 TTAACAATAA-AACAAA
1 TTAA-AATAATAACAAA
96093981 TGTTATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
TTAAAATAATAACAAAA
Found at i:96101880 original size:15 final size:16
Alignment explanation
Indices: 96101846--96101884 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
96101836 CATAAAATTG
96101846 AGATTAATTTATAGGA
1 AGATTAATTTATAGGA
96101862 AGATTAATTTATA-GA
1 AGATTAATTTATAGGA
96101877 AGA-TAATT
1 AGATTAATT
96101885 AAATTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (16 bp):
AGATTAATTTATAGGA
Found at i:96102056 original size:63 final size:61
Alignment explanation
Indices: 96101968--96102136 Score: 209
Period size: 59 Copynumber: 2.8 Consensus size: 61
96101958 TATATTATTT
* * * * *
96101968 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATTAAGAATGTTA
1 TTAA-ATTATATATTATTATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATAA
*
96102032 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATAA
1 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAATATAA
* *
96102093 TTAAATTATTTATTATT-T-ATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAAT
96102137 CCTATTATAA
Statistics
Matches: 96, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
59 25 0.26
60 1 0.01
61 20 0.21
62 20 0.21
63 23 0.24
64 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (61 bp):
TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAATATAA
Found at i:96102080 original size:16 final size:16
Alignment explanation
Indices: 96102059--96102136 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
96102049 ATCTTTATTA
96102059 AATTATATTTAATAAT
1 AATTATATTTAATAAT
*
96102075 AATTATATTAAAGT-AT
1 AATTATATTTAA-TAAT
* * *
96102091 AATTA-AATTATTTAT
1 AATTATATTTAATAAT
* *
96102106 TATT-TA-TT-ATTA-
1 AATTATATTTAATAAT
96102118 AATTATATTTAATAAT
1 AATTATATTTAATAAT
96102134 AAT
1 AAT
96102137 CCTATTATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
12 3 0.06
13 5 0.11
14 5 0.11
15 12 0.26
16 21 0.45
17 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:96102080 original size:24 final size:23
Alignment explanation
Indices: 96102013--96102080 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
96102003 TTTTAATAAT
* *
96102013 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
96102035 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
96102059 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
96102081 ATTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:96103665 original size:24 final size:24
Alignment explanation
Indices: 96103633--96103679 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
96103623 AAAGACTAAG
96103633 ACTAAGACTATCAATTGTCTATTT
1 ACTAAGACTATCAATTGTCTATTT
96103657 ACTAAGACTATCAATTGTCTATT
1 ACTAAGACTATCAATTGTCTATT
96103680 GACTGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (24 bp):
ACTAAGACTATCAATTGTCTATTT
Found at i:96103730 original size:49 final size:50
Alignment explanation
Indices: 96103657--96103765 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 50
96103647 TTGTCTATTT
* **
96103657 ACTAAGACTATCAATTGTCTATTGACTGTACTTT-ACTCGACAAAAAAAG
1 ACTAAGACTATCAATTGTCCATTGACTACACTTTAACTCGACAAAAAAAG
* *
96103706 ACTAAGACTATCAATTGTCCATTGACTACACTTTAACTCGATAAAAACAG
1 ACTAAGACTATCAATTGTCCATTGACTACACTTTAACTCGACAAAAAAAG
96103756 ACTAAGACTA
1 ACTAAGACTA
96103766 AGACTATCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 31 0.57
50 23 0.43
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (50 bp):
ACTAAGACTATCAATTGTCCATTGACTACACTTTAACTCGACAAAAAAAG
Found at i:96103793 original size:24 final size:24
Alignment explanation
Indices: 96103761--96103813 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
96103751 AACAGACTAA
*
96103761 GACTAAGACTATCAATTGTCTTTT
1 GACTAAGACTATCAATTGTCTATT
96103785 GACTAAGACTATCAATTGTCTATT
1 GACTAAGACTATCAATTGTCTATT
96103809 GACTA
1 GACTA
96103814 TACTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (24 bp):
GACTAAGACTATCAATTGTCTATT
Found at i:96109167 original size:2 final size:2
Alignment explanation
Indices: 96109160--96109193 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
96109150 AGTGTATACT
96109160 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96109194 ACCTCATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96109379 original size:4 final size:4
Alignment explanation
Indices: 96109370--96109401 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
96109360 TTAGCTTTTC
96109370 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
96109402 GTTTGTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:96113300 original size:20 final size:20
Alignment explanation
Indices: 96113275--96113315 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
96113265 CACAAATATC
*
96113275 TCAATTTGATTTGATTATAA
1 TCAATTTGATTAGATTATAA
*
96113295 TCAATTTGATTAGATTCTAA
1 TCAATTTGATTAGATTATAA
96113315 T
1 T
96113316 TAAACTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (20 bp):
TCAATTTGATTAGATTATAA
Found at i:96119928 original size:19 final size:20
Alignment explanation
Indices: 96119904--96119955 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
96119894 ATCAATTAAT
96119904 TTTTTAAAAATTAAAAAT-A
1 TTTTTAAAAATTAAAAATAA
* **
96119923 TTTTTAATAATT-TTAATAA
1 TTTTTAAAAATTAAAAATAA
96119942 TTTTTAAAAATTAA
1 TTTTTAAAAATTAA
96119956 TTAATTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTTAAAAATTAAAAATAA
Found at i:96121842 original size:2 final size:2
Alignment explanation
Indices: 96121835--96121870 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
96121825 TAACCCATAA
96121835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96121871 CTGCAATGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96123862 original size:126 final size:126
Alignment explanation
Indices: 96123637--96124134 Score: 890
Period size: 126 Copynumber: 4.0 Consensus size: 126
96123627 ATAGCCTCAG
*
96123637 TTTTTCTACGAACTACTGTAGCAAAAGC-CCGTCCACGTGGGAGTTTTTTTCCGAAATTTTGCTG
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCC-TCCACGTGGGAGCTTTTTTCCGAAATTTTGCTG
*
96123701 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTACTCAGAATTA
65 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
*
96123763 TTTTTCTACGAACTACTGTAGCAAAAGCGCCTCCCCGTGGGAGCTTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCCTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
96123828 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* *
96123889 TTTTTCTACGAACTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCCTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
96123954 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * *
96124015 TTTTTCTACGAACTATTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCAAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCCTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
96124080 CAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTCA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
96124135 ATTAACCTAA
Statistics
Matches: 359, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
126 357 0.99
127 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (126 bp):
TTTTTCTACGAACTACTGTAGCAAAAGCGCCTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
Found at i:96124280 original size:19 final size:19
Alignment explanation
Indices: 96124256--96124328 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
96124246 ATCATTATGT
96124256 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
* * *
96124275 ATCAATTAACGCTCATTTA
1 ATCAATTAACCCTAAATTA
*
96124294 ATCGAA-TAACCCTAATTTA
1 ATC-AATTAACCCTAAATTA
* * *
96124313 ATTAACTAACCATAAA
1 ATCAATTAACCCTAAA
96124329 CCCAAAACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.05
19 40 0.91
20 2 0.05
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:96124422 original size:21 final size:21
Alignment explanation
Indices: 96124396--96124464 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
96124386 ACCTTAAAAT
96124396 CCTAAACCACTAACCATAAAC
1 CCTAAACCACTAACCATAAAC
** *
96124417 CCTAAAATACTAACCCTAAAC
1 CCTAAACCACTAACCATAAAC
96124438 CCTAAACCACTAACCATAAAC
1 CCTAAACCACTAACCATAAAC
96124459 CCTAAA
1 CCTAAA
96124465 ACAACTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAAACCACTAACCATAAAC
Found at i:96127448 original size:27 final size:27
Alignment explanation
Indices: 96127413--96127485 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 27
96127403 CCAGACAACC
96127413 TGACTAATTTGCCAATCTAATGTACAA
1 TGACTAATTTGCCAATCTAATGTACAA
96127440 TGACTAATTTGGAATCTGCCAATCTAATGTACAA
1 TGACTAA--T----T-TGCCAATCTAATGTACAA
96127474 TGACTAATTTGC
1 TGACTAATTTGC
96127486 TCATTTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
27 10 0.26
28 1 0.03
29 1 0.03
32 1 0.03
33 1 0.03
34 25 0.64
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (27 bp):
TGACTAATTTGCCAATCTAATGTACAA
Found at i:96130221 original size:20 final size:20
Alignment explanation
Indices: 96130173--96130238 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 20
96130163 CAACCTAATC
96130173 ATAAAAATTACAAAATATGTAACAA
1 ATAAAAA-TA-AAAATA--TAA-AA
* *
96130198 ATAAAGATAAAAATCTAAAA
1 ATAAAAATAAAAATATAAAA
96130218 ATAAAAATAAAAATATAAAA
1 ATAAAAATAAAAATATAAAA
96130238 A
1 A
96130239 ATATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 21 0.57
21 3 0.08
23 5 0.14
24 2 0.05
25 6 0.16
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
ATAAAAATAAAAATATAAAA
Found at i:96130238 original size:14 final size:14
Alignment explanation
Indices: 96130198--96130244 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
96130188 TATGTAACAA
*
96130198 ATAAAGATAAAAAT
1 ATAAAAATAAAAAT
*
96130212 CTAAAAATAAAAAT
1 ATAAAAATAAAAAT
96130226 A-AAAATATAAAAAAT
1 ATAAAA-AT-AAAAAT
96130241 ATAA
1 ATAA
96130245 TTTTATACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 4 0.15
14 14 0.52
15 7 0.26
16 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:96130270 original size:9 final size:9
Alignment explanation
Indices: 96130256--96130323 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
96130246 TTTATACAAA
*
96130256 TAATTCGAT
1 TAATTCGGT
*
96130265 TAATTCGGG
1 TAATTCGGT
*
96130274 TAATTCGGG
1 TAATTCGGT
*
96130283 TAATTCGAT
1 TAATTCGGT
*
96130292 TAATTCGAT
1 TAATTCGGT
*
96130301 TAATTTGGT
1 TAATTCGGT
96130310 TAATTCGGT
1 TAATTCGGT
96130319 TAATT
1 TAATT
96130324 TTATACTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:96130294 original size:27 final size:27
Alignment explanation
Indices: 96130256--96130323 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
96130246 TTTATACAAA
*
96130256 TAATTCGATTAATTCGGGTAATTCGGG
1 TAATTCGATTAATTCGAGTAATTCGGG
* * *
96130283 TAATTCGATTAATTCGATTAATTTGGT
1 TAATTCGATTAATTCGAGTAATTCGGG
*
96130310 TAATTCGGTTAATT
1 TAATTCGATTAATT
96130324 TTATACTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (27 bp):
TAATTCGATTAATTCGAGTAATTCGGG
Found at i:96140173 original size:53 final size:53
Alignment explanation
Indices: 96140093--96140198 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
96140083 ATTGAAATAC
*
96140093 CATACTAAAGATAAAGACATATAGCTGAACATTAGACACACCATATATCTATA
1 CATACTAAAGATAAAGACATATAGCTGAACATTAGACACACCATATATATATA
*
96140146 CATACTAAAGGTAAAGACATATAGCTGAACATTAGACACACCATATATATATA
1 CATACTAAAGATAAAGACATATAGCTGAACATTAGACACACCATATATATATA
96140199 TATATATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (53 bp):
CATACTAAAGATAAAGACATATAGCTGAACATTAGACACACCATATATATATA
Found at i:96140177 original size:29 final size:29
Alignment explanation
Indices: 96140093--96140177 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
96140083 ATTGAAATAC
*
96140093 CATACTAAAGATAAAGACATATAGCTGAA
1 CATACTAAAGGTAAAGACATATAGCTGAA
* * *
96140122 CAT--T--A-G-ACACACCATATATCT-ATA
1 CATACTAAAGGTAAAGA-CATATAGCTGA-A
96140146 CATACTAAAGGTAAAGACATATAGCTGAA
1 CATACTAAAGGTAAAGACATATAGCTGAA
96140175 CAT
1 CAT
96140178 TAGACACACC
Statistics
Matches: 40, Mismatches: 7, Indels: 18
0.62 0.11 0.28
Matches are distributed among these distances:
23 4 0.10
24 12 0.30
25 1 0.03
26 1 0.03
27 1 0.03
28 1 0.03
29 16 0.40
30 4 0.10
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (29 bp):
CATACTAAAGGTAAAGACATATAGCTGAA
Found at i:96140193 original size:2 final size:2
Alignment explanation
Indices: 96140188--96140223 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
96140178 TAGACACACC
96140188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96140224 TATGAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96146032 original size:31 final size:31
Alignment explanation
Indices: 96145994--96146056 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
96145984 ATGCCAAATT
*
96145994 CCAAATCAACTTTTGGTGCCCATATCTTTGA
1 CCAAATCAACTTTTGGTGCCCATATATTTGA
96146025 CCAAATCAACTTTTGGTGCCCATATATTTGA
1 CCAAATCAACTTTTGGTGCCCATATATTTGA
96146056 C
1 C
96146057 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (31 bp):
CCAAATCAACTTTTGGTGCCCATATATTTGA
Found at i:96150701 original size:21 final size:20
Alignment explanation
Indices: 96150675--96150725 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
96150665 TAGAAGCTAT
96150675 CCATACCTTGCCCATATCTAC
1 CCATACCTT-CCCATATCTAC
* *
96150696 CCATACAATTCCTATATCTAC
1 CCATAC-CTTCCCATATCTAC
96150717 CCATACCTT
1 CCATACCTT
96150726 TAAAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.27, C:0.39, G:0.02, T:0.31
Consensus pattern (20 bp):
CCATACCTTCCCATATCTAC
Found at i:96160579 original size:23 final size:21
Alignment explanation
Indices: 96160553--96160614 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 21
96160543 TTTTTGAACA
96160553 CTTTAATTTTTTTCTTTTATTTT
1 CTTT-ATTTTTTTCTTTTA-TTT
*
96160576 CTTTGTTCCTTTTTCTTTTATTT
1 CTTTATT--TTTTTCTTTTATTT
96160599 CTTTATTTCTTTTCTT
1 CTTTATTT-TTTTCTT
96160615 ACCTTGTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.26
23 13 0.38
24 11 0.32
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.76
Consensus pattern (21 bp):
CTTTATTTTTTTCTTTTATTT
Found at i:96160588 original size:24 final size:23
Alignment explanation
Indices: 96160561--96160611 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
96160551 CACTTTAATT
*
96160561 TTTTTCTTTTATTTTCTTTGTTCC
1 TTTTTCTTTTA-TTTCTTTATTCC
*
96160585 TTTTTCTTTTATTTCTTTATTTC
1 TTTTTCTTTTATTTCTTTATTCC
96160608 TTTT
1 TTTT
96160612 CTTACCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTTATTTCTTTATTCC
Found at i:96160625 original size:33 final size:32
Alignment explanation
Indices: 96160559--96160625 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
96160549 AACACTTTAA
* *
96160559 TTTTTTTCTTTTATTTTCTTTGTTCCTTTTTC
1 TTTTTTTCTTTTATTTTCTTTCTTCCTTGTTC
96160591 TTTTATTTC-TTTA-TTTCTTTTCTTACCTTGTTC
1 TTTT-TTTCTTTTATTTTC-TTTCTT-CCTTGTTC
96160624 TT
1 TT
96160626 CACTTGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
31 4 0.13
32 13 0.43
33 13 0.43
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTTTTTCTTTTATTTTCTTTCTTCCTTGTTC
Found at i:96162660 original size:53 final size:53
Alignment explanation
Indices: 96162504--96162669 Score: 205
Period size: 53 Copynumber: 3.1 Consensus size: 53
96162494 GACGAAAAAT
* **
96162504 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
96162556 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCAAT-GGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGC-ATCGGTATA
* * *
96162609 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
96162663 TATGTGA
1 -ATGTGA
96162670 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
51 4 0.04
52 12 0.12
53 76 0.75
54 3 0.03
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:96164754 original size:19 final size:19
Alignment explanation
Indices: 96164730--96164769 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
96164720 GCAAGCAACA
96164730 TTTGGAGGGATCTACTAAT
1 TTTGGAGGGATCTACTAAT
96164749 TTTGGAGGGATCTACTAAT
1 TTTGGAGGGATCTACTAAT
96164768 TT
1 TT
96164770 CACTCAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (19 bp):
TTTGGAGGGATCTACTAAT
Found at i:96165618 original size:10 final size:11
Alignment explanation
Indices: 96165593--96165627 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
96165583 AATATAAAAT
*
96165593 TTTTTAATGTA
1 TTTTTAATTTA
96165604 TTTTTAATTTA
1 TTTTTAATTTA
96165615 TTTTTAATTTA
1 TTTTTAATTTA
96165626 TT
1 TT
96165628 GAGAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTTTAATTTA
Found at i:96169208 original size:23 final size:24
Alignment explanation
Indices: 96169182--96169228 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
96169172 ATTTTCTATA
96169182 AAATTTTAAAATTTTT-TAAATAT
1 AAATTTTAAAATTTTTATAAATAT
*
96169205 AAATTTTGAAATTTTTATAAATAT
1 AAATTTTAAAATTTTTATAAATAT
96169229 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTAAAATTTTTATAAATAT
Found at i:96169220 original size:24 final size:23
Alignment explanation
Indices: 96169182--96169228 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
96169172 ATTTTCTATA
*
96169182 AAATTTTAAAATTTTTTAAATAT
1 AAATTTTAAAATTTTATAAATAT
*
96169205 AAATTTTGAAATTTTTATAAATAT
1 AAATTTT-AAAATTTTATAAATAT
96169229 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATTTTAAAATTTTATAAATAT
Found at i:96169238 original size:18 final size:19
Alignment explanation
Indices: 96169207--96169262 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
96169197 TTAAATATAA
*
96169207 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
96169227 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
*
96169246 ATTGTGAATTTTAAAAA
1 ATTTTGAATTTTAAAAA
96169263 AAATTGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 8 0.24
19 19 0.58
20 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:96169268 original size:19 final size:19
Alignment explanation
Indices: 96169231--96169268 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
96169221 ATAAATATTT
**
96169231 TGAATTTTAAAAATTATTG
1 TGAATTTTAAAAAAAATTG
96169250 TGAATTTTAAAAAAAATTG
1 TGAATTTTAAAAAAAATTG
96169269 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
TGAATTTTAAAAAAAATTG
Found at i:96169273 original size:18 final size:19
Alignment explanation
Indices: 96169233--96169275 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
96169223 AAATATTTTG
** *
96169233 AATTTTAAAAATTATTGTG
1 AATTTTAAAAAAAATTGTA
96169252 AATTTTAAAAAAAATTG-A
1 AATTTTAAAAAAAATTGTA
96169270 AATTTT
1 AATTTT
96169276 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
AATTTTAAAAAAAATTGTA
Found at i:96176437 original size:15 final size:16
Alignment explanation
Indices: 96176417--96176446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96176407 AATCACTGAG
96176417 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
96176432 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
96176447 GCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:96176899 original size:51 final size:51
Alignment explanation
Indices: 96176844--96176950 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
96176834 ACCTTTTGTT
*
96176844 GAAGACAATGAAGAAAGTG-AAACTTATGAACCAGAAGAAGAAGAAGAAGAA
1 GAAGACAATGAAGAAAGTGAAAAC-TATCAACCAGAAGAAGAAGAAGAAGAA
* *
96176895 GAAGATATTGAAGAAAGTGAAAACTATCAACCAGAAGAAGAAGAAGAAGAA
1 GAAGACAATGAAGAAAGTGAAAACTATCAACCAGAAGAAGAAGAAGAAGAA
96176946 GAAGA
1 GAAGA
96176951 AGAATTAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.57, C:0.07, G:0.25, T:0.10
Consensus pattern (51 bp):
GAAGACAATGAAGAAAGTGAAAACTATCAACCAGAAGAAGAAGAAGAAGAA
Found at i:96176935 original size:3 final size:3
Alignment explanation
Indices: 96176927--96176954 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
96176917 ACTATCAACC
96176927 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
96176955 TTAATGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:96192825 original size:24 final size:24
Alignment explanation
Indices: 96192798--96192846 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
96192788 CATTAATTCT
*
96192798 AGAAAACATTTATTATTTATCAAA
1 AGAAAACATTTAGTATTTATCAAA
**
96192822 AGAAAATTTTTAGTATTTATCAAA
1 AGAAAACATTTAGTATTTATCAAA
96192846 A
1 A
96192847 TTTTTGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (24 bp):
AGAAAACATTTAGTATTTATCAAA
Found at i:96193565 original size:15 final size:14
Alignment explanation
Indices: 96193545--96193604 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
96193535 TGTTAATTGC
96193545 AATTAACTTTTAATT
1 AATTAA-TTTTAATT
*
96193560 AATTAAAATTTAATT
1 AATT-AATTTTAATT
* * *
96193575 AAATAATTATGATT
1 AATTAATTTTAATT
96193589 AATTATATTTTAATT
1 AATTA-ATTTTAATT
96193604 A
1 A
96193605 CAAGTACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 11 0.31
15 22 0.63
16 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:96201324 original size:24 final size:25
Alignment explanation
Indices: 96201271--96201329 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
96201261 TGGATGAGAT
*
96201271 GAAAGAAGAA-GATGAAGAAGAGCA
1 GAAAGAAGAAGGCTGAAGAAGAGCA
*
96201295 GGAAG-AGAAGGCTGAAGAAGAGTC-
1 GAAAGAAGAAGGCTGAAGAAGAG-CA
96201319 GAAAGAAGAAG
1 GAAAGAAGAAG
96201330 AAGATGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 19 0.66
25 6 0.21
ACGTcount: A:0.53, C:0.05, G:0.37, T:0.05
Consensus pattern (25 bp):
GAAAGAAGAAGGCTGAAGAAGAGCA
Found at i:96201394 original size:21 final size:21
Alignment explanation
Indices: 96201345--96201394 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
96201335 GAGGAGGAGC
*
96201345 ATGAAGAAAAGGATGGAGATG
1 ATGAAGAGAAGGATGGAGATG
*
96201366 ATGAAGAGAAGGATGGGGATG
1 ATGAAGAGAAGGATGGAGATG
96201387 ATGAAGAG
1 ATGAAGAG
96201395 GAGCAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (21 bp):
ATGAAGAGAAGGATGGAGATG
Found at i:96202100 original size:22 final size:22
Alignment explanation
Indices: 96202075--96202118 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
96202065 CAGAACCATG
96202075 AATTGAGTGAAATGGCCTCTCA
1 AATTGAGTGAAATGGCCTCTCA
*
96202097 AATTGAGTGAAATGGCTTCTCA
1 AATTGAGTGAAATGGCCTCTCA
96202119 TATGTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (22 bp):
AATTGAGTGAAATGGCCTCTCA
Found at i:96203987 original size:3 final size:3
Alignment explanation
Indices: 96203979--96204049 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
96203969 GGATGAGTCT
* *
96203979 GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA -AA GGAA GAA GAA G-A
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA
* *
96204023 GAA GGAA GAG GAA -CA GAA TGAA GAA GA
1 GAA -GAA GAA GAA GAA GAA -GAA GAA GA
96204050 GAAAAATGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.09
3 43 0.77
4 8 0.14
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:96204002 original size:15 final size:15
Alignment explanation
Indices: 96203982--96204049 Score: 91
Period size: 15 Copynumber: 4.5 Consensus size: 15
96203972 TGAGTCTGAA
*
96203982 GAAGAAGAAGAGGAG
1 GAAGAAGAAGAGAAG
*
96203997 GAAGAAGAAGAAAAG
1 GAAGAAGAAGAGAAG
96204012 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
* * *
96204027 GAAGAGGAACAGAAT
1 GAAGAAGAAGAGAAG
96204042 GAAGAAGA
1 GAAGAAGA
96204050 GAAAAATGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.01
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:96204030 original size:27 final size:25
Alignment explanation
Indices: 96203983--96204052 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 25
96203973 GAGTCTGAAG
*
96203983 AAGAAGAAGAGGAGGAAGAAGAAGAA
1 AAGAAGAAGAAGA-GAAGAAGAAGAA
*
96204009 AAGGAAGAAGAAGAGAAGGAAGAGGAA
1 AA-GAAGAAGAAGAGAA-GAAGAAGAA
*
96204036 CAGAATGAAGAAGAGAA
1 AAGAA-GAAGAAGAGAA
96204053 AAATGAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
27 30 0.79
ACGTcount: A:0.60, C:0.01, G:0.37, T:0.01
Consensus pattern (25 bp):
AAGAAGAAGAAGAGAAGAAGAAGAA
Found at i:96207608 original size:30 final size:30
Alignment explanation
Indices: 96207494--96207599 Score: 176
Period size: 30 Copynumber: 3.5 Consensus size: 30
96207484 AAATCTCCTT
96207494 CATCATCGCCTCCTGCGAGTTCTCCAACAA
1 CATCATCGCCTCCTGCGAGTTCTCCAACAA
*
96207524 CAGCATCGCCTCCTGCGAGTTCTCCAACAA
1 CATCATCGCCTCCTGCGAGTTCTCCAACAA
* *
96207554 CATCATCGCCTCCCGCGAGTTCTCCAAAAA
1 CATCATCGCCTCCTGCGAGTTCTCCAACAA
*
96207584 CATCATCGCCGCCTGC
1 CATCATCGCCTCCTGC
96207600 AAAATCTCCG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.21
Consensus pattern (30 bp):
CATCATCGCCTCCTGCGAGTTCTCCAACAA
Found at i:96211176 original size:31 final size:32
Alignment explanation
Indices: 96211141--96211223 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
96211131 CTTCCTGCAT
* *
96211141 TAAAATCCAACCAAATACAACAAATATA-ATA
1 TAAAATACAACCAAAAACAACAAATATACATA
* * *
96211172 TAAAATGCAGCCAAAAACAACAAATTTAGCATA
1 TAAAATACAACCAAAAACAACAAATATA-CATA
*
96211205 AAAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
96211224 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 24 0.56
33 19 0.44
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAACAAATATACATA
Found at i:96219838 original size:17 final size:17
Alignment explanation
Indices: 96219816--96219849 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
96219806 AGTGACAGTT
96219816 GATGTTGCCGGTTGGTC
1 GATGTTGCCGGTTGGTC
96219833 GATGTTGCCGGTTGGTC
1 GATGTTGCCGGTTGGTC
96219850 AAGTGGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.18, G:0.41, T:0.35
Consensus pattern (17 bp):
GATGTTGCCGGTTGGTC
Found at i:96231052 original size:18 final size:18
Alignment explanation
Indices: 96231029--96231085 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
96231019 ACCATTTACG
*
96231029 GTACTATTCATGTATACA
1 GTACTATTCACGTATACA
96231047 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
*
96231065 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
96231083 GTA
1 GTA
96231086 GTTGGGATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:96234032 original size:46 final size:46
Alignment explanation
Indices: 96233961--96234053 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
96233951 ACAAAACCTG
*
96233961 TAAGTACCCCGTTGGCTCCTCATTTCAAGCTTTCTGCACAACTATC
1 TAAGTACCCCGTTGGCTCCTCATTTCAAACTTTCTGCACAACTATC
* * *
96234007 TAAGTACCCTGTTGGCTTCTTATTTCAAACTTTCTGCACAACTATC
1 TAAGTACCCCGTTGGCTCCTCATTTCAAACTTTCTGCACAACTATC
96234053 T
1 T
96234054 CCTTCGACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.37
Consensus pattern (46 bp):
TAAGTACCCCGTTGGCTCCTCATTTCAAACTTTCTGCACAACTATC
Found at i:96234881 original size:11 final size:11
Alignment explanation
Indices: 96234867--96234920 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
96234857 TTAGAATATA
*
96234867 CCCATTCCTTG
1 CCCATACCTTG
96234878 CCCATACCTTG
1 CCCATACCTTG
*
96234889 CCCATACCTTT
1 CCCATACCTTG
*
96234900 CCCATACC-TA
1 CCCATACCTTG
96234910 CCCATACCTTG
1 CCCATACCTTG
96234921 GAAAGGTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
10 9 0.24
11 29 0.76
ACGTcount: A:0.19, C:0.46, G:0.06, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:96236041 original size:14 final size:13
Alignment explanation
Indices: 96236018--96236047 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
96236008 AACATGAAGT
96236018 AAAAATAATAAAA
1 AAAAATAATAAAA
96236031 AAAAGATAATAAAA
1 AAAA-ATAATAAAA
96236045 AAA
1 AAA
96236048 GGTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATAATAAAA
Found at i:96239180 original size:41 final size:41
Alignment explanation
Indices: 96239124--96239315 Score: 287
Period size: 41 Copynumber: 4.7 Consensus size: 41
96239114 AGCAATAGCG
* *
96239124 GCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGATCATTA
1 GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTA
*
96239165 GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAAAGCATTA
1 GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTA
* *
96239206 GCGGCACTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTA
1 GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTA
* * *
96239247 GCGACGCTTTCGGTAAAATGCCGCT-AAAACTAGAGCATTA
1 GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTA
* *
96239287 GCGACGCTTTCAGTAAAACGCCGCTAAAA
1 GCGGCGCTTTCGGTAAAACGCCGCTAAAA
96239316 GTCATATAAC
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.27
41 100 0.73
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCATTA
Found at i:96240080 original size:22 final size:22
Alignment explanation
Indices: 96240055--96240096 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96240045 TGTGTTTGTG
96240055 GTCTAAGGTTTAGGGGTTTAGA
1 GTCTAAGGTTTAGGGGTTTAGA
* *
96240077 GTCTCAGGTTTAGGGTTTTA
1 GTCTAAGGTTTAGGGGTTTA
96240097 AATTTAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.33, T:0.40
Consensus pattern (22 bp):
GTCTAAGGTTTAGGGGTTTAGA
Found at i:96240195 original size:24 final size:24
Alignment explanation
Indices: 96240149--96240197 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
96240139 TATATTAGAT
* *
96240149 AAATATATATATTATTATTTGAAA
1 AAATATATAAATTATTATATGAAA
96240173 AAATATATAAA-TATATATATGAAA
1 AAATATATAAATTAT-TATATGAAA
96240197 A
1 A
96240198 GTGGTTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATATATAAATTATTATATGAAA
Found at i:96242507 original size:23 final size:23
Alignment explanation
Indices: 96242481--96242527 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
96242471 GAGCTTGGTC
96242481 CTATTTCTCCTGTTAATGGTATA
1 CTATTTCTCCTGTTAATGGTATA
*
96242504 CTATTTCTCCTGTTAATGTTATA
1 CTATTTCTCCTGTTAATGGTATA
96242527 C
1 C
96242528 CAAATTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (23 bp):
CTATTTCTCCTGTTAATGGTATA
Found at i:96246409 original size:50 final size:50
Alignment explanation
Indices: 96246333--96246509 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
96246323 CCATGGAAAC
*
96246333 AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
96246383 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
96246433 AACTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
96246483 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
96246510 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 87 0.78
51 25 0.22
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:96246652 original size:92 final size:92
Alignment explanation
Indices: 96246487--96246725 Score: 397
Period size: 92 Copynumber: 2.6 Consensus size: 92
96246477 AAATGACAAC
* ** * *
96246487 TGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGA
1 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAAAA-TGGTAGCTTCGGCTACCTAATCAGTGA
96246552 AAAGTGGTAGCTCCGGCTACCTGATCAG
65 AAAGTGGTAGCTCCGGCTACCTGATCAG
96246580 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAAAATGGTAGCTTCGGCTACCTAATCAGTGAA
1 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAAAATGGTAGCTTCGGCTACCTAATCAGTGAA
96246645 AAGTGGTAGCTCCGGCTACCTGATCAG
66 AAGTGGTAGCTCCGGCTACCTGATCAG
* *
96246672 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAA-AATGGTAGCTTCGGCTAC
96246726 AAGTGACAAG
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 88 0.64
93 50 0.36
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (92 bp):
TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAAAATGGTAGCTTCGGCTACCTAATCAGTGAA
AAGTGGTAGCTCCGGCTACCTGATCAG
Found at i:96246725 original size:31 final size:31
Alignment explanation
Indices: 96246487--96246717 Score: 347
Period size: 31 Copynumber: 7.5 Consensus size: 31
96246477 AAATGACAAC
*
96246487 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
96246518 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
96246549 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
* *
96246580 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
* * *
96246611 TGAAAA-TGGTAGCTTCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
96246641 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
* *
96246672 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
96246703 TGAATAGTGGTAGCT
1 TGAAAAGTGGTAGCT
96246718 TTGGCTACAA
Statistics
Matches: 182, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 26 0.14
31 156 0.86
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
Found at i:96246736 original size:7 final size:7
Alignment explanation
Indices: 96246724--96246752 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
96246714 AGCTTTGGCT
96246724 ACAAGTG
1 ACAAGTG
96246731 ACAAGTG
1 ACAAGTG
96246738 ACAAGTG
1 ACAAGTG
96246745 ACAAGTG
1 ACAAGTG
96246752 A
1 A
96246753 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:96246881 original size:47 final size:47
Alignment explanation
Indices: 96246756--96246881 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 47
96246746 CAAGTGATTT
* * *
96246756 CTGTATAAGACCATATCTGGGATAAGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
* * * *
96246803 CTGTATAAGACCATATATGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-CTA
* * *
96246851 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
96246882 TTATGTAAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 63 0.95
48 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
Found at i:96252061 original size:42 final size:42
Alignment explanation
Indices: 96252002--96252429 Score: 421
Period size: 43 Copynumber: 10.0 Consensus size: 42
96251992 GGCAAATTAA
* * *
96252002 CGGCGCTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAG
1 CGGCG-TTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
** *
96252045 CGGCGTTTTTATAAAAGCGCCGCTAATGGTCCTA-GTCTTTAA
1 CGGCGTTTTTATAAAAGCGCCGCTAAAAGTCC-AGGTCTTTAG
* * *
96252087 CAGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAG
1 CGGCG-TTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * *
96252130 CGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAG
1 CGGC-GTTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * * *
96252173 CGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCTGGTCTCTAG
1 CGGCG-TTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
** * *
96252216 CGGCGTTTTCTA-AAAAAAGCCGCTAAAAGTACAGGTCTATAG
1 CGGCGTTTT-TATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * *
96252258 CGGCGTTTTTTATAAAAGCGCCACTAAAAGTACAGGTCTCTAG
1 CGGCG-TTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * * *
96252301 CGGCGTTTTTACAAGAA-CGCCGCTAAAGGTCCTGGTCTTTGG
1 CGGCGTTTTTATAA-AAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * * *
96252343 CGGCGTTTTTATAAGAGCGCCGCTAAATGTCCTGGTCTTTAA
1 CGGCGTTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
* * * * **
96252385 CGGTGCTTTTATAAAAAACGCCGCTAAAGGTCCTTGTCTTTAG
1 CGGCGTTTTTAT-AAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
96252428 CG
1 CG
96252430 ACATTTTTTG
Statistics
Matches: 322, Mismatches: 52, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.00
42 139 0.43
43 182 0.57
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (42 bp):
CGGCGTTTTTATAAAAGCGCCGCTAAAAGTCCAGGTCTTTAG
Found at i:96252114 original size:85 final size:85
Alignment explanation
Indices: 96252002--96252438 Score: 459
Period size: 85 Copynumber: 5.1 Consensus size: 85
96251992 GGCAAATTAA
* * * * * *
96252002 CGGCGCTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTATAAAAGCGCCG
1 CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGCGTTTTTATAAAAACGCCG
* *
96252067 CTAATGGTCCTAGTCTTTAA
66 CTAAAGGTCCTAGTCTTTAG
* * * * *
96252087 CAGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCATTTTTTATAAAAGCGCC
1 CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGC-GTTTTTATAAAAACGCC
* * *
96252152 GCTAAAAGTAC-AGGTCTATAG
65 GCTAAAGGTCCTA-GTCTTTAG
* * *
96252173 CGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCTGGTCTCTAGCGGCGTTTTCTA-AAAAAAGCC
1 CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGCGTTTT-TATAAAAACGCC
* * *
96252237 GCTAAAAGTAC-AGGTCTATAG
65 GCTAAAGGTCCTA-GTCTTTAG
* * * * *
96252258 CGGCGTTTTTTATAAAAGCGCCACTAAAAGTACAGGTCTCTAGCGGCGTTTTTACAAGAACGCCG
1 CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGCGTTTTTATAAAAACGCCG
* *
96252323 CTAAAGGTCCTGGTCTTTGG
66 CTAAAGGTCCTAGTCTTTAG
* * * * * *
96252343 CGGCG-TTTTTATAAGAGCGCCGCTAAATGTCCTGGTCTTTAACGGTGCTTTTATAAAAAACGCC
1 CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGCGTTTTTAT-AAAAACGCC
*
96252407 GCTAAAGGTCCTTGTCTTTAG
65 GCTAAAGGTCCTAGTCTTTAG
* *
96252428 CGACATTTTTT
1 CGGCGTTTTTT
96252439 GCGGCGCTTG
Statistics
Matches: 299, Mismatches: 46, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
84 41 0.14
85 177 0.59
86 81 0.27
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (85 bp):
CGGCGTTTTTTATAAAAGCGCCGCTAAAAGTCCTGGTCTCTAGCGGCGTTTTTATAAAAACGCCG
CTAAAGGTCCTAGTCTTTAG
Found at i:96253454 original size:20 final size:20
Alignment explanation
Indices: 96253431--96253469 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
96253421 GCACCAATTG
96253431 ATTT-TTTATATAAATTTTTT
1 ATTTATTTATA-AAATTTTTT
*
96253451 ATTTATTTTTAAAATTTTT
1 ATTTATTTATAAAATTTTT
96253470 AAATTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTATTTATAAAATTTTTT
Found at i:96256545 original size:216 final size:216
Alignment explanation
Indices: 96256171--96256644 Score: 720
Period size: 216 Copynumber: 2.2 Consensus size: 216
96256161 GAATTGACGA
** *
96256171 TGGAATTTGTCCACTCAATTGG-TCATAGGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCTC
1 TGGAATTTGTCCACTCAATTGGTTC-CCGCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCTC
* * *
96256235 AATGATCTTGGAATTTGCCCACTCAATTGGTTGTCTGACAAGTCTAAATGAGCGAGTTGCAAGAA
65 AATAATCTTGGAATTTGCCCACTCAATTAGTTATCTGACAAGTCTAAATGAGCGAGTTGCAAGAA
*
96256300 GTTCCCCAATGATCTTGGAATTTGTCCACTCAGTTGGTTCTGCGTCAAGTCTAAATGAGTGAGTT
130 GTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTCTGCGTCAAGTCTAAATGAGTGAGTT
* *
96256365 GCAAGAGGTTTCCCAATGATCT
195 GCAAGAGGTTCCCCAATGATAT
96256387 TGGAATTTGTCCACTCAATTGGTTCCCGCACAAGTCTAAATGAGTGAGTTGCAAGAGG-TTCTCC
1 TGGAATTTGTCCACTCAATTGGTTCCCGCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCT-C
* **
96256451 AATAATCTTGGAATTTGTCCACTCAATTAGTTCATC-GACAAGTCTAAATGAGTTAGTTGCAAGA
65 AATAATCTTGGAATTTGCCCACTCAATTAGTT-ATCTGACAAGTCTAAATGAGCGAGTTGCAAGA
* * * * *
96256515 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTCTGCTTTAAGTCTAACTGGGTGAGT
129 AGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTCTGCGTCAAGTCTAAATGAGTGAGT
96256580 TGCAAGAGGTTCCCCAATGATAT
194 TGCAAGAGGTTCCCCAATGATAT
* * *
96256603 TTGAATTTGTCCACTCAATTGGTTCCCCCACAAGTCCAAATG
1 TGGAATTTGTCCACTCAATTGGTTCCCGCACAAGTCTAAATG
96256645 GTTTGGCAAA
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
215 4 0.02
216 227 0.97
217 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (216 bp):
TGGAATTTGTCCACTCAATTGGTTCCCGCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCTCA
ATAATCTTGGAATTTGCCCACTCAATTAGTTATCTGACAAGTCTAAATGAGCGAGTTGCAAGAAG
TTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTCTGCGTCAAGTCTAAATGAGTGAGTTG
CAAGAGGTTCCCCAATGATAT
Found at i:96256638 original size:72 final size:72
Alignment explanation
Indices: 96256171--96256644 Score: 648
Period size: 72 Copynumber: 6.6 Consensus size: 72
96256161 GAATTGACGA
** * *
96256171 TGGAATTTGTCCACTCAATTGG-TCATAGGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCTC
1 TGGAATTTGTCCACTCAATTGGTTC-TCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
96256235 AATGATCT
65 AATGATCT
* * * * *
96256243 TGGAATTTGCCCACTCAATTGGTTGTCTGACAAGTCTAAATGAGCGAGTTGCAAGAAGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
96256308 ATGATCT
66 ATGATCT
* * * *
96256315 TGGAATTTGTCCACTCAGTTGGTTCTGCGTCAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
96256380 ATGATCT
66 ATGATCT
*
96256387 TGGAATTTGTCCACTCAATTGGTTC-CCGCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCTCC
1 TGGAATTTGTCCACTCAATTGGTTCTCCG-ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
*
96256451 AATAATCT
65 AATGATCT
* *
96256459 TGGAATTTGTCCACTCAATTAGTTCAT-CGACAAGTCTAAATGAGTTAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTC-TCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
96256523 AATGATCT
65 AATGATCT
* *** * *
96256531 TGGAATTTGTCCACTCAATTGGTTCTGCTTTAAGTCTAACTGGGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
96256596 ATGATAT
66 ATGATCT
* * * *
96256603 TTGAATTTGTCCACTCAATTGGTTCCCCCACAAGTCCAAATG
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATG
96256645 GTTTGGCAAA
Statistics
Matches: 354, Mismatches: 43, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
71 3 0.01
72 348 0.98
73 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:96259183 original size:19 final size:20
Alignment explanation
Indices: 96259161--96259204 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
96259151 AAAATAAAAA
96259161 TATTTGTTAAAAAAAG-ATT
1 TATTTGTTAAAAAAAGAATT
*
96259180 TATTTGTTAAAAAATGAATT
1 TATTTGTTAAAAAAAGAATT
96259200 TATTT
1 TATTT
96259205 AAAAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (20 bp):
TATTTGTTAAAAAAAGAATT
Found at i:96259200 original size:16 final size:17
Alignment explanation
Indices: 96259156--96259193 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
96259146 ATTAGAAAAT
96259156 AAAA-ATATTTGTTAAA
1 AAAAGATATTTGTTAAA
96259172 AAAAGATTTATTTGTTAAA
1 AAAAGA--TATTTGTTAAA
96259191 AAA
1 AAA
96259194 TGAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 1 0.05
19 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (17 bp):
AAAAGATATTTGTTAAA
Found at i:96259236 original size:15 final size:15
Alignment explanation
Indices: 96259226--96259261 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
96259216 TATTAAAAAG
96259226 TAATAATTTAAAATA
1 TAATAATTTAAAATA
*
96259241 TTATAATTTAAAATA
1 TAATAATTTAAAATA
*
96259256 TTATAA
1 TAATAA
96259262 AACAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTTAAAATA
Found at i:96259238 original size:14 final size:14
Alignment explanation
Indices: 96259201--96259261 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
96259191 AAATGAATTT
*
96259201 ATTTAAAAACATATA
1 ATTT-AAAATATATA
*
96259216 TATTAAAAAGTA-ATA
1 -ATTTAAAA-TATATA
96259231 ATTTAAAATATTATA
1 ATTTAAAATA-TATA
96259246 ATTTAAAATATTATA
1 ATTTAAAATA-TATA
96259261 A
1 A
96259262 AACAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 2 0.05
14 7 0.18
15 26 0.67
16 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
ATTTAAAATATATA
Found at i:96259344 original size:21 final size:22
Alignment explanation
Indices: 96259318--96259371 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
96259308 GAAAGTTTAA
96259318 AATATTT-AAATATTAAAAAA-T
1 AATATTTAAAAT-TTAAAAAAGT
96259339 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
96259361 AAT-TTCAAAAT
1 AATATTTAAAAT
96259372 ATATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:96259412 original size:34 final size:33
Alignment explanation
Indices: 96259326--96259417 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 33
96259316 AAAATATTTA
96259326 AATATTAAAAAATAATATTTAAAATTTAAAAAAGT
1 AATATTAAAAAAT-AT-TTTAAAATTTAAAAAAGT
96259361 AAT-TTCAAAATATATATTTTAAAATTTAAAAAA-T
1 AATATT-AAAA-A-ATATTTTAAAATTTAAAAAAGT
96259395 ATATATTAATAAAATATTTTAAA
1 A-ATATTAA-AAAATATTTTAAA
96259418 TATATATTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
34 14 0.27
35 28 0.55
36 7 0.14
37 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (33 bp):
AATATTAAAAAATATTTTAAAATTTAAAAAAGT
Found at i:96259416 original size:13 final size:13
Alignment explanation
Indices: 96259384--96259433 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
96259374 ATATTTTAAA
96259384 ATTTAAAAAATAT
1 ATTTAAAAAATAT
96259397 ATATTAATAAAATAT
1 AT-TTAA-AAAATAT
*
96259412 -TTT-AAATATAT
1 ATTTAAAAAATAT
*
96259423 ATTTCAAAAAT
1 ATTTAAAAAAT
96259434 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.19
12 4 0.13
13 9 0.29
14 5 0.16
15 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTAAAAAATAT
Found at i:96259418 original size:24 final size:23
Alignment explanation
Indices: 96259391--96259454 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
96259381 AAAATTTAAA
96259391 AAATATATATTAATAAAATATTTT
1 AAATATATATTAATAAAA-ATTTT
96259415 AAATATATATT--TCAAAAATTTT
1 AAATATATATTAAT-AAAAATTTT
* *
96259437 AAATTTAATAATAATAAA
1 AAATAT-ATATTAATAAA
96259455 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 11 0.32
23 8 0.24
24 14 0.41
25 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATATATTAATAAAAATTTT
Found at i:96262730 original size:72 final size:72
Alignment explanation
Indices: 96262612--96263248 Score: 913
Period size: 72 Copynumber: 8.8 Consensus size: 72
96262602 GAATTGACGA
* * *
96262612 TGGAATTTGTCCACTCAATTGGTTCTCCCACAAGTATAAATAAGTGAGTTGCAAGAGTTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
96262677 ATGATCT
66 ATGATCT
* * * * *
96262684 TGGAATTTGTCCACTTAATTGGTTCTGCGACAAGTGTAAATGAGTGAGTTGTAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
96262749 ATGATCT
66 ATGATCT
* * * * *
96262756 TGGAATTTGTCCACTCAATTGGTTGTCTGACAAGTCTAAAAGAGTGAGTTGCAAAAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
96262821 ATGATCT
66 ATGATCT
* * *
96262828 TGGAATTTGTCCACTAAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
*
96262893 ATGACCT
66 ATGATCT
* *
96262900 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
*
96262965 ATGACCT
66 ATGATCT
* *
96262972 TGGAATTTGTCCACTCAATTGGTTC-CCACACAAGTCTAAATGAGCGAGTTGCAAGAGGTTT-CC
1 TGGAATTTGTCCACTCAATTGGTTCTCC-GACAAGTCTAAATGAGTGAGTTGCAAGA-GTTTCCC
96263035 CAATGATCT
64 CAATGATCT
* * * *
96263044 TGGAATTTGTCCACTCAATTGGTTCCCCCACAAGTCTAAAAGAGTGAGTTGCAAGAGGTTT-CCT
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGA-GTTTCCCC
96263108 AATGATCT
65 AATGATCT
* * *
96263116 TGGAATTTGTCCACTCAATTGGTTATACGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTT-CCC
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGA-GTTTCCCC
96263180 AATGATCT
65 AATGATCT
* * *
96263188 TGGAATTTGTCCACTCAATTGGTTCCCCCACAAGTCTAAATGAGTGAGTTGTAAGAAGTTT
1 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAG-AGTTT
96263249 GGCAAATCAA
Statistics
Matches: 517, Mismatches: 44, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
71 1 0.00
72 510 0.99
73 6 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCA
ATGATCT
Found at i:96265647 original size:38 final size:39
Alignment explanation
Indices: 96265578--96265651 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
96265568 CTTTTTGTTA
96265578 ACTATACTTTTAACTCCAAAAAAAAGACTAAGACTAATG
1 ACTATACTTTTAACTCCAAAAAAAAGACTAAGACTAATG
*
96265617 ACTATAC-TTT-ACTCGACAAAAAAAGACTAAGACTA
1 ACTATACTTTTAACTCCA-AAAAAAAGACTAAGACTA
96265652 TCAATTGTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 5 0.15
38 21 0.64
39 7 0.21
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (39 bp):
ACTATACTTTTAACTCCAAAAAAAAGACTAAGACTAATG
Found at i:96265669 original size:24 final size:24
Alignment explanation
Indices: 96265641--96265693 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
96265631 GACAAAAAAA
96265641 GACTAAGACTATCAATTGTCTTTT
1 GACTAAGACTATCAATTGTCTTTT
96265665 GACTAAGACTATCAATTGTCTTTT
1 GACTAAGACTATCAATTGTCTTTT
96265689 GACTA
1 GACTA
96265694 TACTTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (24 bp):
GACTAAGACTATCAATTGTCTTTT
Found at i:96268376 original size:14 final size:14
Alignment explanation
Indices: 96268357--96268384 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96268347 ATTCCTTTGT
96268357 GTTCATTTTTCATG
1 GTTCATTTTTCATG
96268371 GTTCATTTTTCATG
1 GTTCATTTTTCATG
96268385 CATTGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
GTTCATTTTTCATG
Found at i:96270526 original size:17 final size:17
Alignment explanation
Indices: 96270502--96270541 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
96270492 AATAAGTAAT
96270502 AAATATTATTTTAATTA
1 AAATATTATTTTAATTA
* *
96270519 AGATATTATTTTATTTA
1 AAATATTATTTTAATTA
96270536 AAATAT
1 AAATAT
96270542 CACATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AAATATTATTTTAATTA
Found at i:96273817 original size:30 final size:30
Alignment explanation
Indices: 96273783--96273863 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
96273773 TGAGGAGTGG
* *
96273783 ATTCCTCCTCCACCTCCTGATACTGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* * *
96273813 ATTCCACCACCTCCTCCTGATAATGAGCAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* * *
96273843 GTTCCTCCCCCACCACCTGAT
1 ATTCCTCCACCACCTCCTGAT
96273864 GAGCCTCCTG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.42, G:0.09, T:0.25
Consensus pattern (30 bp):
ATTCCTCCACCACCTCCTGATAATGAACAA
Found at i:96278431 original size:20 final size:19
Alignment explanation
Indices: 96278398--96278443 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
96278388 ATTAATCTTC
**
96278398 AAAAAATTGAAAATTTTGT
1 AAAAAATTGAAAATTTAAT
*
96278417 AAAAAATTGTTAAATTTAAT
1 AAAAAATTG-AAAATTTAAT
96278437 AAAAAAT
1 AAAAAAT
96278444 ATAATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
AAAAAATTGAAAATTTAAT
Found at i:96280190 original size:29 final size:29
Alignment explanation
Indices: 96280155--96280257 Score: 172
Period size: 29 Copynumber: 3.6 Consensus size: 29
96280145 GTTGTGAGAT
96280155 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
96280184 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* *
96280213 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
96280242 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
96280258 CGGTTGATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
28 5 0.07
29 66 0.93
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:96290241 original size:20 final size:21
Alignment explanation
Indices: 96290216--96290259 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
96290206 ATAAATTTAG
*
96290216 ATTATTGAATTTTATAATC-A
1 ATTATTGAATTTCATAATCGA
*
96290236 ATTATTGACTTTCATAATCGA
1 ATTATTGAATTTCATAATCGA
96290257 ATT
1 ATT
96290260 GAGTTCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTATTGAATTTCATAATCGA
Found at i:96297962 original size:2 final size:2
Alignment explanation
Indices: 96297955--96297997 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
96297945 TATGAAATTG
96297955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96297996 AT
1 AT
96297998 GTAAGTTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:96306113 original size:33 final size:33
Alignment explanation
Indices: 96306071--96306133 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
96306061 ATGAAGCCGT
96306071 AAGGATAATCTTCTTAGCACCAATTTAATCCGA
1 AAGGATAATCTTCTTAGCACCAATTTAATCCGA
96306104 AAGGATAATCTTCTTAGCACCAATTTAATC
1 AAGGATAATCTTCTTAGCACCAATTTAATC
96306134 TAACCCGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (33 bp):
AAGGATAATCTTCTTAGCACCAATTTAATCCGA
Found at i:96319419 original size:14 final size:14
Alignment explanation
Indices: 96319396--96319465 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 14
96319386 CTTCATTTAA
96319396 TTTT-TAAATATTT
1 TTTTATAAATATTT
96319409 TTTTATAAATA-TT
1 TTTTATAAATATTT
* **
96319422 TATTATTTA-ATTT
1 TTTTATAAATATTT
96319435 TTTTATAAATATATT
1 TTTTATAAATAT-TT
* *
96319450 TGTTACAAA-ATTT
1 TTTTATAAATATTT
96319463 TTT
1 TTT
96319466 GAACCCATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
12 1 0.02
13 24 0.55
14 10 0.23
15 9 0.20
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (14 bp):
TTTTATAAATATTT
Found at i:96319461 original size:28 final size:26
Alignment explanation
Indices: 96319405--96319465 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
96319395 ATTTTTAAAT
***
96319405 ATTTTTTTATAAATATTTATTATTTA
1 ATTTTTTTATAAATATTTATTACAAA
*
96319431 ATTTTTTTATAAATATATTTGTTACAAA
1 ATTTTTTTAT-AA-ATATTTATTACAAA
96319459 ATTTTTT
1 ATTTTTT
96319466 GAACCCATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.34
27 2 0.07
28 17 0.59
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTTTATAAATATTTATTACAAA
Found at i:96326379 original size:38 final size:38
Alignment explanation
Indices: 96326297--96326372 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
96326287 CCGAATATAG
*
96326297 ATTTATTCTCTATTAATTTATGATTTTACAAGATTCTT
1 ATTTATTCTCTATTAATTTATGATTTTACAAAATTCTT
96326335 ATTTATTCTCTATTAATTTATGATTTTACAAAATTCTT
1 ATTTATTCTCTATTAATTTATGATTTTACAAAATTCTT
96326373 TCTTATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (38 bp):
ATTTATTCTCTATTAATTTATGATTTTACAAAATTCTT
Found at i:96337500 original size:64 final size:64
Alignment explanation
Indices: 96337395--96337602 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
96337385 CATCATGTGT
* *
96337395 ACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
96337460 TAG
62 TAG
* * * * * * *
96337463 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
96337528 AG
63 AG
* * *
96337530 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
96337592 TACAAGAGAGC
1 -ACAAGAGAGC
96337603 CGAACTATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 25 0.22
65 2 0.02
66 22 0.19
67 31 0.27
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:96337937 original size:28 final size:28
Alignment explanation
Indices: 96337897--96338051 Score: 129
Period size: 28 Copynumber: 5.6 Consensus size: 28
96337887 CCAAACGAAC
*
96337897 GGCACTTAGTGTGCGAAGTATTGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGAGGAT
* *
96337925 GGCACTTAGTGTGC-AAGACATCCGA-AAT
1 GGCACTTAGTGTGCGAAG-TAT-CGAGGAT
* ** * *
96337953 GACAC--AGTGTATGAAGTATTGATGAT
1 GGCACTTAGTGTGCGAAGTATCGAGGAT
* * ** * **
96337979 GACACTTAGTATGCGAAACATCCAAAAT
1 GGCACTTAGTGTGCGAAGTATCGAGGAT
96338007 GGCACTTAGTGTGCGAAGTATCGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGAGGAT
96338035 GGCACTTAGTGTGCGAA
1 GGCACTTAGTGTGCGAA
96338052 ACATCAGGTA
Statistics
Matches: 96, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 6 0.06
28 72 0.75
29 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAGTATCGAGGAT
Found at i:96337969 original size:54 final size:55
Alignment explanation
Indices: 96337903--96338056 Score: 195
Period size: 54 Copynumber: 2.8 Consensus size: 55
96337893 GAACGGCACT
* *
96337903 TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAATGACAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCAAAATGACAC
* * * * *
96337958 -AGTGTATGAAGTATTGATGATGACACTTAGTATGCGAAACATCCAAAATGGCAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCAAAATGACAC
* *
96338012 TTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATC
1 -TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATC
96338057 AGGTATAGCA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
54 44 0.53
55 2 0.02
56 37 0.45
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (55 bp):
TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCAAAATGACAC
Found at i:96338067 original size:28 final size:27
Alignment explanation
Indices: 96337976--96338084 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 27
96337966 AAGTATTGAT
* * *
96337976 GATGACACTTAGTATGCGAAACATCCAA
1 GATGGCACTTAGTGTGCGAAACAT-CAG
* **
96338004 AATGGCACTTAGTGTGCGAAGTATCGAG
1 GATGGCACTTAGTGTGCGAAACATC-AG
96338032 GATGGCACTTAGTGTGCGAAACATCAG
1 GATGGCACTTAGTGTGCGAAACATCAG
* *
96338059 GTATAGCACTTAGCGTGC-AAGACATC
1 G-ATGGCACTTAGTGTGCGAA-ACATC
96338085 GATTGTGCAG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 6 0.09
28 61 0.91
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (27 bp):
GATGGCACTTAGTGTGCGAAACATCAG
Found at i:96338068 original size:56 final size:55
Alignment explanation
Indices: 96337898--96338076 Score: 195
Period size: 56 Copynumber: 3.2 Consensus size: 55
96337888 CAAACGAACG
*
96337898 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCAGAAAT
** * * *
96337953 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTATGCGAAACATCCA-AAAT
1 G-CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACAT-CAGAAAT
* **
96338007 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCAGGTAT
1 -GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCAGAAAT
*
96338063 AGCACTTAGCGTGC
1 -GCACTTAGTGTGC
96338077 AAGACATCGA
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
54 41 0.41
55 7 0.07
56 53 0.52
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (55 bp):
GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCAGAAAT
Found at i:96342323 original size:55 final size:52
Alignment explanation
Indices: 96342244--96342445 Score: 194
Period size: 55 Copynumber: 3.8 Consensus size: 52
96342234 TTAAGGATAC
* *
96342244 CATGTAAGACCATG-CTAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAAT
1 CATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTTCTAAGGCAAGG-AAT
* * *
96342299 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC-AAGGAAT
* * * *
96342353 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGATAC
1 -CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAGGA-AT
* *
96342407 CATGTAAAACCATGTCAAGACATGGCAATGGTAAGTTTC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC
96342446 AAAAGGATAC
Statistics
Matches: 121, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
52 5 0.04
53 39 0.32
54 11 0.09
55 61 0.50
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGCAAGGAAT
Found at i:96342442 original size:108 final size:110
Alignment explanation
Indices: 96342243--96342443 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
96342233 TTTAAGGATA
* * *
96342243 CCATGTAAGACCATGCTAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAAA
*
96342308 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTT
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
** *
96342353 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTC-TAAGGCAAGGAAACCATGTAAA
*
96342415 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
96342444 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
Found at i:96344328 original size:47 final size:47
Alignment explanation
Indices: 96344274--96344450 Score: 184
Period size: 47 Copynumber: 3.8 Consensus size: 47
96344264 TGGTTGAACA
*
96344274 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * * *
96344321 TCTGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* * *
96344368 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATAGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
96344414 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96344451 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 36 0.34
47 53 0.50
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:96352940 original size:55 final size:53
Alignment explanation
Indices: 96352750--96353004 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
96352740 ACACGGGTAC
* * * * *
96352750 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGT-A---T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATG-AA
* *
96352799 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAA
* * *
96352852 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-AACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACC-TTGCCTTAT-G-AA
* * * * ** *
96352907 CTTATCAATGCCGTGTCTTGACATAGTCTTACATGATTTCCTTGCCTTATAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAA
* *
96352960 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGTAACCTT
96353005 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 34 0.20
52 3 0.02
53 46 0.27
54 15 0.09
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTAACCTTGCCTTATGAA
Found at i:96352941 original size:108 final size:110
Alignment explanation
Indices: 96352797--96352997 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
96352787 ATCCTTTTGA
* * * *
96352797 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
*
96352860 TGCCATGCCTTGGCATGGTCTTACATGGAACCTTTGCCTTATAGT
66 TGCCATGCCTTAGCATGGTCTTACATGGAACCTTTGCCTTATAGT
* * * *
96352905 AACTTATCAATGCCGTGTCTTGACATAGTCTTACATGATTTCCTTGCCTTATAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
96352970 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
96352998 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 48 0.59
109 7 0.09
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATAGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGAACCTTTGCCTTATAGT
Found at i:96359634 original size:18 final size:17
Alignment explanation
Indices: 96359612--96359645 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96359602 ATAAGTTTTT
*
96359612 TTTTTTTTACATTTTAA
1 TTTTTTTTAAATTTTAA
96359629 TTTTTTTTAAATTTTAA
1 TTTTTTTTAAATTTTAA
96359646 AGATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTTAAATTTTAA
Found at i:96359652 original size:18 final size:20
Alignment explanation
Indices: 96359631--96359674 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
96359621 CATTTTAATT
*
96359631 TTTTTTAAATTTTA-AAG-A
1 TTTTTTAAATGTTAGAAGAA
96359649 TTTTTTAAATGTTAGAAGAA
1 TTTTTTAAATGTTAGAAGAA
96359669 TTTTTT
1 TTTTTT
96359675 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTTTAAATGTTAGAAGAA
Found at i:96359694 original size:15 final size:15
Alignment explanation
Indices: 96359674--96359719 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
96359664 AAGAATTTTT
*
96359674 TTATAATTTTTTAAA
1 TTATAATTTTTAAAA
96359689 TTATAATTTTTAAAA
1 TTATAATTTTTAAAA
* *
96359704 -TAAAATTTTAAAAA
1 TTATAATTTTTAAAA
96359718 TT
1 TT
96359720 TAAATTAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATAATTTTTAAAA
Found at i:96359700 original size:14 final size:14
Alignment explanation
Indices: 96359674--96359712 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
96359664 AAGAATTTTT
96359674 TTATAATTTTTTAAA
1 TTATAA-TTTTTAAA
96359689 TTATAATTTTTAAA
1 TTATAATTTTTAAA
* *
96359703 ATAAAATTTT
1 TTATAATTTT
96359713 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATTTTTAAA
Found at i:96361033 original size:2 final size:2
Alignment explanation
Indices: 96361026--96361058 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96361016 CATAACATAG
96361026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96361059 ATTTTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96366558 original size:7 final size:7
Alignment explanation
Indices: 96366548--96366589 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
96366538 CAAAAGGGTC
96366548 AAATCAA
1 AAATCAA
96366555 AAATCAA
1 AAATCAA
96366562 AAATCAA
1 AAATCAA
96366569 AAATCAA
1 AAATCAA
96366576 AAATCAA
1 AAATCAA
96366583 ACAATCA
1 A-AATCA
96366590 CCTTTCTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATCAA
Found at i:96369755 original size:34 final size:34
Alignment explanation
Indices: 96369717--96369786 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
96369707 AAAAGAACAT
*
96369717 AAACATATCAACGTCGGACACTTACATATCTAAC
1 AAACATATCAACGTCGGACACATACATATCTAAC
*
96369751 AAACATATCAATGTCGGACACATACATATCTAAC
1 AAACATATCAACGTCGGACACATACATATCTAAC
96369785 AA
1 AA
96369787 GTCAAACCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.23
Consensus pattern (34 bp):
AAACATATCAACGTCGGACACATACATATCTAAC
Done.