Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008694.1 Hibiscus syriacus cultivar Beakdansim tig00111723_pilon, whole genome shotgun sequence
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: 1352611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:859141 original size:28 final size:28
Alignment explanation
Indices: 859083--859139 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
859073 TGTACTTGTG
*
859083 TTTATTTTATTTTGTTTTTACTGTTTAT
1 TTTATTTTATTTTATTTTTACTGTTTAT
859111 TTTATTTT-TTATTATTTTTAC--TTTAT
1 TTTATTTTATT-TTATTTTTACTGTTTAT
859137 TTT
1 TTT
859140 TTTAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 8 0.30
27 2 0.07
28 17 0.63
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (28 bp):
TTTATTTTATTTTATTTTTACTGTTTAT
Found at i:866127 original size:17 final size:17
Alignment explanation
Indices: 866054--866150 Score: 65
Period size: 17 Copynumber: 5.6 Consensus size: 17
866044 ATTCTAAATG
*
866054 TTTACATTTATAAGATGA
1 TTTACAATTATAAGAT-A
* * **
866072 TTTTCAGTTACCAGATA
1 TTTACAATTATAAGATA
866089 TTTAC-ATATATCAA-ATGA
1 TTTACAAT-TAT-AAGAT-A
866107 -TTACAATTATAAGATA
1 TTTACAATTATAAGATA
* *
866123 TTTACAAATATCAGATA
1 TTTACAATTATAAGATA
866140 TTGTACAATTA
1 TT-TACAATTA
866151 ACAGACACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.07
17 34 0.56
18 23 0.38
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (17 bp):
TTTACAATTATAAGATA
Found at i:866155 original size:18 final size:17
Alignment explanation
Indices: 866107--866155 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
866097 TATCAAATGA
866107 TTACAATTATA-AGATAT
1 TTACAATTA-ACAGATAT
* *
866124 TTACAAATATCAGATAT
1 TTACAATTAACAGATAT
866141 TGTACAATTAACAGA
1 T-TACAATTAACAGA
866156 CACAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (17 bp):
TTACAATTAACAGATAT
Found at i:884927 original size:13 final size:13
Alignment explanation
Indices: 884894--884918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884884 AAAATTGATA
884894 AATAACTAGGAGG
1 AATAACTAGGAGG
884907 AATAACTAGGAG
1 AATAACTAGGAG
884919 TGGAAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (13 bp):
AATAACTAGGAGG
Found at i:889210 original size:48 final size:48
Alignment explanation
Indices: 889137--889277 Score: 201
Period size: 48 Copynumber: 2.9 Consensus size: 48
889127 TCGGTACTTC
* * **
889137 AGCACCACCGTCACACATACATCAAACTTGTGCTCAATATCATATAAT
1 AGCACCACTGTCACACAAATGTCAAACTTGTGCTCAATATCATATAAT
* *
889185 AGCACCATTGTCACACAAATGTCAAACTCGTGCTCAATATCATATAAT
1 AGCACCACTGTCACACAAATGTCAAACTTGTGCTCAATATCATATAAT
* * *
889233 AGCACCACTGTCACACAGATGTCAAACTTGTACTCAATATAATAT
1 AGCACCACTGTCACACAAATGTCAAACTTGTGCTCAATATCATAT
889278 GCATCCCAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (48 bp):
AGCACCACTGTCACACAAATGTCAAACTTGTGCTCAATATCATATAAT
Found at i:903385 original size:16 final size:16
Alignment explanation
Indices: 903360--903397 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
903350 CATTAAGTAC
903360 TATT-AATAAAAACAA
1 TATTAAATAAAAACAA
*
903375 TATTAAATAAAATCAA
1 TATTAAATAAAAACAA
*
903391 TAATAAA
1 TATTAAA
903398 GCATACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAATAAAAACAA
Found at i:903859 original size:48 final size:48
Alignment explanation
Indices: 903804--903971 Score: 264
Period size: 48 Copynumber: 3.5 Consensus size: 48
903794 ACTGTCATGT
*
903804 AGACGTCAAACTCGTGCTCTATATCATATAATAGCACCATCGTCACAC
1 AGACGTCAAACTCGTGCTCAATATCATATAATAGCACCATCGTCACAC
* * * *
903852 ATACGTCAAAGTCATGCTCAATGTCATATAATAGCACCATCGTCACAC
1 AGACGTCAAACTCGTGCTCAATATCATATAATAGCACCATCGTCACAC
*
903900 AGACGTCAAACTCGTGCTCAATATCATATAATAGCACCACCGTCACAC
1 AGACGTCAAACTCGTGCTCAATATCATATAATAGCACCATCGTCACAC
* *
903948 AGATGTCAAACTTGTGCTCAATAT
1 AGACGTCAAACTCGTGCTCAATAT
903972 AATGCAGCTG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (48 bp):
AGACGTCAAACTCGTGCTCAATATCATATAATAGCACCATCGTCACAC
Found at i:908172 original size:21 final size:20
Alignment explanation
Indices: 908158--908194 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
908148 ATACTGATTC
*
908158 AAAA-GGTATCGATACCGAA
1 AAAAGGGTATCGATACTGAA
908177 AAAAGGGTATCGATACTG
1 AAAAGGGTATCGATACTG
908195 TGAAGAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (20 bp):
AAAAGGGTATCGATACTGAA
Found at i:908695 original size:54 final size:54
Alignment explanation
Indices: 908631--909062 Score: 535
Period size: 54 Copynumber: 8.0 Consensus size: 54
908621 TTACCAAATA
908631 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *** *
908685 GGCACTAAGTGTGTAAAGTACGGAATTCATCATATGTTAATGAATAATTATTTT
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
908739 GGCACTAAGTGTGCAAAGTACGAAATTCATCATAAGTTAATGAATAACTGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * ** * * * *
908793 GACATTAAGTGTGCAAAGTACGAAATTTGTTATATGTTGATGAAAAATCGCTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
**
908847 GGCACT-AGTGTGCAAAGTAAAGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
908900 AGCACTAAGTGTGTAAAGTACGGAATTCATCATAATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCAT-ATGTTGATGAATAACCGTTTC
* * ** *
908955 GGAACTAAGTGTGCAAAGCACATAATTCATCATATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
909009 GGCACTAAATTTGC-AATTCACGGAATTCATCGTATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCGTTTC
909063 AGCGCTATGT
Statistics
Matches: 322, Mismatches: 53, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
53 45 0.14
54 229 0.71
55 48 0.15
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:909113 original size:108 final size:109
Alignment explanation
Indices: 908634--909123 Score: 264
Period size: 108 Copynumber: 4.5 Consensus size: 109
908624 CCAAATAGGC
** * * * * * * *
908634 ACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGT
1 ACTAAGTGTGCAAACCACAGAATTCATAATATGTTGATGAATAATCGTATAGGCACTAAATTTG-
* * * *** ** *
908699 AAAGT-ACGGAATTCATCAT-ATGTTAATGAATAATTATTTTGGC
65 CAATTCACGGAATTCATCATAATGTTGATGAATAACCGTTTCAGA
** * * * * * * * * *
908742 ACTAAGTGTGCAAAGTAC-GAAATTCATCATAAGTTAATGAATAA-CTGTTTCGACATTAAGTGT
1 ACTAAGTGTGCAAACCACAG-AATTCATAATATGTTGATGAATAATC-GTATAGGCACTAAATTT
* * ** * * * * * *
908805 GCAAAGT-ACGAAATTTGTTAT-ATGTTGATGAAAAATCGCTTCGGC
64 GC-AATTCACGGAATTCATCATAATGTTGATGAATAACCGTTTCAGA
** * * * * * *
908850 ACT-AGTGTGCAAAGTAAAGAATTCATCATATGTTGATGAATAACCGTTTCA-GCACTAAGTGTG
1 ACTAAGTGTGCAAACCACAGAATTCATAATATGTTGATGAATAATCGTAT-AGGCACTAAATTTG
* * *
908913 TAAAGT-ACGGAATTCATCATAATGTTGATGAATAACCGTTTCGGA
65 -CAATTCACGGAATTCATCATAATGTTGATGAATAACCGTTTCAGA
* * * * *
908958 ACTAAGTGTGCAAAGCACATAATTCATCATATGTTGATGAATAATCGTTTCGGCACTAAATTTGC
1 ACTAAGTGTGCAAACCACAGAATTCATAATATGTTGATGAATAATCGTATAGGCACTAAATTTGC
* * *
909023 AATTCACGGAATTCATCGT-ATGTTGATGAATAATCGTTTCAGC
66 AATTCACGGAATTCATCATAATGTTGATGAATAACCGTTTCAGA
* * * * * *
909066 GCTATGTGTGTAACCCACAGAATTCATAATGA-GTTTATGAATGATCGTATAGGCACTA
1 ACTAAGTGTGCAAACCACAGAATTCATAAT-ATGTTGATGAATAATCGTATAGGCACTA
909124 CGTGTGCATC
Statistics
Matches: 316, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
107 65 0.21
108 185 0.59
109 66 0.21
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (109 bp):
ACTAAGTGTGCAAACCACAGAATTCATAATATGTTGATGAATAATCGTATAGGCACTAAATTTGC
AATTCACGGAATTCATCATAATGTTGATGAATAACCGTTTCAGA
Found at i:909123 original size:270 final size:270
Alignment explanation
Indices: 908632--909131 Score: 609
Period size: 270 Copynumber: 1.9 Consensus size: 270
908622 TACCAAATAG
*
908632 GCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGT
1 GCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGAACTAAGTGT
* * * * * *
908697 GTAAAGTACGGAATTCATCATATGTTAATGAATAATTATTTTGGCACTAAGTGTGCAAAGTACGA
66 GCAAAGCACAGAATTCATCATATGTTAATGAATAATCATTTCGGCACTAAATGTGCAAAGTACGA
* ** ** *
908762 AATTCATCATAAGTTAATGAATAACTGTTTCGACATTAAGTGTGCAAAGTACGAAATTTGTTATA
131 AATTCATCATAAGTTAATGAATAACTGTTTCGACACTAAGTGTGCAAACCACGAAATTCATAATA
*
908827 TGTTGATGAAAAATCGCTTCGGCACTA-GTGTGCAAAGTAAAGAATTCATCATATGTTGATGAAT
196 TGTTGATGAAAAATCGCTTAGGCACTACGTGTGCAAAGTAAAGAATTCATCATATGTTGATGAAT
908891 AACCGTTTCA
261 AACCGTTTCA
*
908901 GCACTAAGTGTGTAAAGTACGGAATTCATCATAATGTTGATGAATAACCGTTTCGGAACTAAGTG
1 GCACTAAGTGTGCAAAGTACGGAATTCATCAT-ATGTTGATGAATAACCGTTTCGGAACTAAGTG
* * * * *
908966 TGCAAAGCACATAATTCATCATATGTTGATGAATAATCGTTTCGGCACTAAATTTGC-AATTCAC
65 TGCAAAGCACAGAATTCATCATATGTTAATGAATAATCATTTCGGCACTAAATGTGCAAAGT-AC
* * * * * * * *
909030 GGAATTCATCGTATGTTGATGAATAA-TCGTTTC-AGCGCTATGTGTGTAACCCAC-AGAATTCA
129 GAAATTCATCATAAGTTAATGAATAACT-GTTTCGA-CACTAAGTGTGCAAACCACGA-AATTCA
* **
909092 TAATGA-GTTTATGAATGATCG-TATAGGCACTACGTGTGCA
191 TAAT-ATGTTGATGAAAAATCGCT-TAGGCACTACGTGTGCA
909132 TCGTAATGAA
Statistics
Matches: 192, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
269 38 0.20
270 146 0.76
271 8 0.04
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (270 bp):
GCACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCGTTTCGGAACTAAGTGT
GCAAAGCACAGAATTCATCATATGTTAATGAATAATCATTTCGGCACTAAATGTGCAAAGTACGA
AATTCATCATAAGTTAATGAATAACTGTTTCGACACTAAGTGTGCAAACCACGAAATTCATAATA
TGTTGATGAAAAATCGCTTAGGCACTACGTGTGCAAAGTAAAGAATTCATCATATGTTGATGAAT
AACCGTTTCA
Found at i:927349 original size:2 final size:2
Alignment explanation
Indices: 927342--927380 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
927332 GTAACTGAAT
927342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
927381 GAATTCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:933196 original size:3 final size:3
Alignment explanation
Indices: 933184--933238 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
933174 ATTTATTATT
*
933184 TAA TAA -AA TAA TAA TAA TAA TAA TAA T-A TAA TAA -AA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
933229 TAAA TAA TAA
1 T-AA TAA TAA
933239 ATAAAACACA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 6 0.13
3 37 0.80
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:933218 original size:28 final size:28
Alignment explanation
Indices: 933184--933242 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
933174 ATTTATTATT
933184 TAATAAAATAATAATAAT-AATAATAATA
1 TAATAAAATAATAATAATAAATAATAA-A
*
933212 TAATAAAATAATTATAATAAATAATAAA
1 TAATAAAATAATAATAATAAATAATAAA
933240 TAA
1 TAA
933243 AACACAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAAAATAATAATAATAAATAATAAA
Found at i:933242 original size:14 final size:14
Alignment explanation
Indices: 933184--933238 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
933174 ATTTATTATT
933184 TAATAAAATAATAA
1 TAATAAAATAATAA
933198 TAATAATAATAAT-A
1 TAATAA-AATAATAA
*
933212 TAATAAAATAATTA
1 TAATAAAATAATAA
933226 TAAT-AAATAATAA
1 TAATAAAATAATAA
933239 ATAAAACACA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
13 14 0.37
14 18 0.47
15 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:936425 original size:21 final size:21
Alignment explanation
Indices: 936392--936450 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
936382 ATTATCCAAT
* *
936392 AAACATGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
936413 AAACTTGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* * *
936434 CAATTTGAAATCTATAA
1 AAACTTGAAATCCATAA
936451 TAATAAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:946271 original size:129 final size:129
Alignment explanation
Indices: 946041--946283 Score: 334
Period size: 129 Copynumber: 1.9 Consensus size: 129
946031 AAAGGAATTG
* *
946041 CTCTGCTGCTCTTCAGGGTAGATCAGATCTGGAAATGTTGATTCAATTTACTATTCTTTAGGTAA
1 CTCTGCTGCTCTTCAGGGTAGATCAAATCTGGAAATGTTGATTCAATTTACTATTCTTAAGGTAA
*
946106 GATTGAATCGGTGAAGATTTGCTCCACTGTTATTCAGGGAAGATCAAATCTAAAAAGGGATCAT
66 GATTGAATCGGTGAAGATTTGCTCCACTGCTATTCAGGGAAGATCAAATCTAAAAAGGGATCAT
* *
946170 CTCTGCTGC-GTTCTAGGGTAGATCAAATCTGGAAA-GTTTGATTCACTTTACTACTT-TTCAAG
1 CTCTGCTGCTCTTC-AGGGTAGATCAAATCTGGAAATG-TTGATTCAATTTACTA-TTCTT-AAG
* * *
946232 G-AAGATTGAATTGAG-GAAGATTTGTTCCACTGCTCTTCAGGGAAGATCAAAT
62 GTAAGATTGAATCG-GTGAAGATTTGCTCCACTGCTATTCAGGGAAGATCAAAT
946284 ATGGAGGAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
128 4 0.04
129 91 0.90
130 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (129 bp):
CTCTGCTGCTCTTCAGGGTAGATCAAATCTGGAAATGTTGATTCAATTTACTATTCTTAAGGTAA
GATTGAATCGGTGAAGATTTGCTCCACTGCTATTCAGGGAAGATCAAATCTAAAAAGGGATCAT
Found at i:947426 original size:45 final size:45
Alignment explanation
Indices: 947372--947873 Score: 437
Period size: 45 Copynumber: 11.2 Consensus size: 45
947362 CGAGAAAGTC
* *
947372 AAGTTAAGAATGAAATCACTAAAAGATTGACTCCTCTTTGCGAGA
1 AAGTCAAGAATGAAATCACTAAAAGATTGACTCCTCTTTACGAGA
* * * ***
947417 AAGTCAAGAATGACATCACTAAAAGGTTGAATCCTCTTCGTGAGA
1 AAGTCAAGAATGAAATCACTAAAAGATTGACTCCTCTTTACGAGA
* * * * *
947462 AAGTCAAGAATGACATCACTAAAAGGTTAACTCCAT-TTCACAAGA
1 AAGTCAAGAATGAAATCACTAAAAGATTGACTCC-TCTTTACGAGA
* * * * * **
947507 AACTCAAAAATCACATCACTAAAAGGTTGACTAATCTTTGA-GAGA
1 AAGTCAAGAATGAAATCACTAAAAGATTGACTCCTCTTT-ACGAGA
* * * *
947552 AAGT-AAGAATGACAA-CACTAGAAGATCGGCTCCTCTTTGCGAGA
1 AAGTCAAGAATGA-AATCACTAAAAGATTGACTCCTCTTTACGAGA
* * * *
947596 AAGTCAATAAT-AACATCACTAAAAGGTTGACTCATCTTTATGAGA
1 AAGTCAAGAATGAA-ATCACTAAAAGATTGACTCCTCTTTACGAGA
* * * * *
947641 AAGTCAAGAAGGAAAACACTAAACGATTGACTCCTCTTTATGAGG
1 AAGTCAAGAATGAAATCACTAAAAGATTGACTCCTCTTTACGAGA
* * *
947686 AAGTCAAGAATGACAAT-ACTGAAAGATTGACTCCTCTTCATGAGA
1 AAGTCAAGAATGA-AATCACTAAAAGATTGACTCCTCTTTACGAGA
* * * * * *
947731 AAGTCAAGAATGACAA-AATTGAAAGATTGATTCCCCTTCACGAGA
1 AAGTCAAGAATGA-AATCACTAAAAGATTGACTCCTCTTTACGAGA
* * *
947776 AAGTCAAGGATGACAA-CATTAAAAGATTGACTCCTCTTTATGAGA
1 AAGTCAAGAATGA-AATCACTAAAAGATTGACTCCTCTTTACGAGA
* **
947821 AAGTCAAGAAT-AACATCACTAAAATATTGACTTTTCTTTACGAGA
1 AAGTCAAGAATGAA-ATCACTAAAAGATTGACTCCTCTTTACGAGA
947866 AAGTCAAG
1 AAGTCAAG
947874 TTGAGGTTTC
Statistics
Matches: 376, Mismatches: 68, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.01
44 36 0.10
45 332 0.88
46 6 0.02
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (45 bp):
AAGTCAAGAATGAAATCACTAAAAGATTGACTCCTCTTTACGAGA
Found at i:947485 original size:90 final size:90
Alignment explanation
Indices: 947372--947873 Score: 528
Period size: 90 Copynumber: 5.6 Consensus size: 90
947362 CGAGAAAGTC
* *
947372 AAGTTAAGAATGA-AATCACTAAAAGATTGACTCCTCTTTGCGAGAAAGTCAAGAATGACATCAC
1 AAGTCAAGAATGACAA-CACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAATGACATCAC
* **
947436 TAAAAGGTTGAATCCTCTTCGTGAGA
65 TAAAAGGTTGACTCCTCTTTATGAGA
* * * * * * * *
947462 AAGTCAAGAATGACATCACTAAAAGGTTAACTCCAT-TTCACAAGAAACTCAAAAATCACATCAC
1 AAGTCAAGAATGACAACACTAAAAGATTGACTCC-TCTTTACGAGAAAGTCAAGAATGACATCAC
**
947526 TAAAAGGTTGACTAATCTTTGA-GAGA
65 TAAAAGGTTGACTCCTCTTT-ATGAGA
* * * * * *
947552 AAGT-AAGAATGACAACACTAGAAGATCGGCTCCTCTTTGCGAGAAAGTCAATAATAACATCACT
1 AAGTCAAGAATGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAATGACATCACT
*
947616 AAAAGGTTGACTCATCTTTATGAGA
66 AAAAGGTTGACTCCTCTTTATGAGA
* * * * *
947641 AAGTCAAGAAGGAAAACACTAAACGATTGACTCCTCTTTATGAGGAAGTCAAGAATGACAAT-AC
1 AAGTCAAGAATGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAATGAC-ATCAC
* * *
947705 TGAAAGATTGACTCCTCTTCATGAGA
65 TAAAAGGTTGACTCCTCTTTATGAGA
* * * * * * * * *
947731 AAGTCAAGAATGACAAAATTGAAAGATTGATTCCCCTTCACGAGAAAGTCAAGGATGACAACATT
1 AAGTCAAGAATGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAATGACATCACT
*
947796 AAAAGATTGACTCCTCTTTATGAGA
66 AAAAGGTTGACTCCTCTTTATGAGA
* * * **
947821 AAGTCAAGAATAACATCACTAAAATATTGACTTTTCTTTACGAGAAAGTCAAG
1 AAGTCAAGAATGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAG
947874 TTGAGGTTTC
Statistics
Matches: 334, Mismatches: 70, Indels: 16
0.80 0.17 0.04
Matches are distributed among these distances:
88 2 0.01
89 73 0.22
90 255 0.76
91 4 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (90 bp):
AAGTCAAGAATGACAACACTAAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAATGACATCACT
AAAAGGTTGACTCCTCTTTATGAGA
Found at i:947776 original size:135 final size:135
Alignment explanation
Indices: 947372--947873 Score: 508
Period size: 135 Copynumber: 3.7 Consensus size: 135
947362 CGAGAAAGTC
* * **
947372 AAGTTAAGAATGAAATCACTAAAAGATTGACTCCTCTTTGCGAGAAAGTCAAGAATGACATCACT
1 AAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTTATGAGAAAGTCAAGAATGACATCACT
* * ** * *
947437 AAAAGGTTGAATCCTCTTCGTGAGAAAGTCAAGAATGACATCACTAAAAGGTTAACTCCATTTCA
66 AAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACATCACTAAAAGGTTGACTCCACTTCA
*
947502 CAAGA
131 CGAGA
* * * * * * ** *
947507 AACTCAAAAATCACATCACTAAAAGGTTGACTAATCTTTGA-GAGAAAGT-AAGAATGACAACAC
1 AAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTT-ATGAGAAAGTCAAGAATGACATCAC
* * * ** * *
947570 TAGAAGATCGGCTCCTCTTTGCGAGAAAGTCAATAATAACATCACTAAAAGGTTGACT-CATCTT
65 TAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACATCACTAAAAGGTTGACTCCA-CTT
* *
947634 TATGAGA
129 CACGAGA
* * *
947641 AAGTCAAGAAGGAAAACACTAAACGATTGACTCCTCTTTATGAGGAAGTCAAGAATGACAAT-AC
1 AAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTTATGAGAAAGTCAAGAATGAC-ATCAC
* * ** * * * * *
947705 TGAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAAAATTGAAAGATTGATTCCCCTTC
65 TAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACATCACTAAAAGGTTGACTCCACTTC
947770 ACGAGA
130 ACGAGA
* * * *
947776 AAGTCAAGGATGACAACATTAAAAGATTGACTCCTCTTTATGAGAAAGTCAAGAATAACATCACT
1 AAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTTATGAGAAAGTCAAGAATGACATCACT
* ** *
947841 AAAATATTGACTTTTCTTTACGAGAAAGTCAAG
66 AAAAGATTGACTCCTCTTCACGAGAAAGTCAAG
947874 TTGAGGTTTC
Statistics
Matches: 293, Mismatches: 67, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
133 3 0.01
134 105 0.36
135 183 0.62
136 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (135 bp):
AAGTCAAGAATGAAAACACTAAAAGATTGACTCCTCTTTATGAGAAAGTCAAGAATGACATCACT
AAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATGACATCACTAAAAGGTTGACTCCACTTCA
CGAGA
Found at i:957819 original size:10 final size:8
Alignment explanation
Indices: 957802--957856 Score: 58
Period size: 8 Copynumber: 6.6 Consensus size: 8
957792 ACTTGATATG
957802 TTTTCTTT
1 TTTTCTTT
957810 CTTCTTCTTT
1 -TT-TTCTTT
957820 TTTTCTTTT
1 TTTTC-TTT
957829 TTTTCTTT
1 TTTTCTTT
* *
957837 TTTT-GTC
1 TTTTCTTT
957844 TTTTCTTT
1 TTTTCTTT
957852 TTTTC
1 TTTTC
957857 CTCTTTTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 5 0.13
8 16 0.41
9 12 0.31
10 6 0.15
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTCTTT
Found at i:957834 original size:17 final size:18
Alignment explanation
Indices: 957802--957856 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 18
957792 ACTTGATATG
957802 TTTTCTTTCTTCTTCTTT
1 TTTTCTTTCTTCTTCTTT
*
957820 TTTTCTTT-TTTTTC-TT
1 TTTTCTTTCTTCTTCTTT
*
957836 TTTT-TGTCTT-TTCTTT
1 TTTTCTTTCTTCTTCTTT
957852 TTTTC
1 TTTTC
957857 CTCTTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 5 0.16
18 8 0.25
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTCTTTCTTCTTCTTT
Found at i:957845 original size:27 final size:26
Alignment explanation
Indices: 957802--957855 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
957792 ACTTGATATG
*
957802 TTTTCTTTCTTCTTCTTTTTTTCTTTT
1 TTTTCTTTCTTCTTCTTTTCTT-TTTT
*
957829 TTTTCTTT-TTTTGTCTTTTCTTTTTT
1 TTTTCTTTCTTCT-TCTTTTCTTTTTT
957855 T
1 T
957856 CCTCTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (26 bp):
TTTTCTTTCTTCTTCTTTTCTTTTTT
Found at i:957852 original size:20 final size:18
Alignment explanation
Indices: 957802--957852 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
957792 ACTTGATATG
957802 TTTTC-TTTCTTCTTCTTT
1 TTTTCTTTTCTT-TTCTTT
957820 TTTTCTTTT-TTTTCTTTT
1 TTTTCTTTTCTTTTC-TTT
957838 TTTGTCTTTTCTTTT
1 TTT-TCTTTTCTTTT
957853 TTTCCTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.10
18 13 0.45
19 9 0.31
20 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTCTTTTCTTT
Found at i:957855 original size:16 final size:16
Alignment explanation
Indices: 957817--957865 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
957807 TTTCTTCTTC
* *
957817 TTTTTTTCTTTTTTTT
1 TTTTTTTCTCTTTTCT
*
957833 CTTTTTTTGTCTTTTCT
1 -TTTTTTTCTCTTTTCT
*
957850 TTTTTTCCTCTTTTCT
1 TTTTTTTCTCTTTTCT
957866 CTCTCTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTCTTTTCT
Found at i:957877 original size:35 final size:33
Alignment explanation
Indices: 957809--957877 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 33
957799 ATGTTTTCTT
* * *
957809 TCTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTG
1 TCTTCTTCTTTTTTTCTTTTTTCTCTCTCTTTG
957842 TCTT-TTCTTTTTTTCCTCTTTTCTCTCTCTCTTTG
1 TCTTCTTCTTTTTTT-CT-TTTT-TCTCTCTCTTTG
957877 T
1 T
957878 TGTCGACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 10 0.33
33 6 0.20
34 4 0.13
35 10 0.33
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (33 bp):
TCTTCTTCTTTTTTTCTTTTTTCTCTCTCTTTG
Found at i:974512 original size:20 final size:20
Alignment explanation
Indices: 974487--974530 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
974477 GTGTTGCTAC
974487 ACAAAGATTTCATGAAAAGT
1 ACAAAGATTTCATGAAAAGT
974507 ACAAAGATTTCATGAAAAGT
1 ACAAAGATTTCATGAAAAGT
974527 ACAA
1 ACAA
974531 GTGTTTGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (20 bp):
ACAAAGATTTCATGAAAAGT
Found at i:980066 original size:23 final size:24
Alignment explanation
Indices: 980028--980077 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
980018 GATTAAATGC
*
980028 AAATTAATATATTTTAATTTATGT
1 AAATTAATATAGTTTAATTTATGT
980052 AAATT-ATATAGTTTAATTTATGT
1 AAATTAATATAGTTTAATTTATGT
980075 AAA
1 AAA
980078 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATGT
Found at i:983648 original size:12 final size:12
Alignment explanation
Indices: 983631--983749 Score: 80
Period size: 12 Copynumber: 9.6 Consensus size: 12
983621 TTTTAGGTTC
983631 GGGTTCGAGTTT
1 GGGTTCGAGTTT
*
983643 GGGTTCGGGTTT
1 GGGTTCGAGTTT
983655 -GGTTCGGATTGGATTT
1 GGGTTC-GA---G-TTT
*
983671 GGGTTCGGGTTT
1 GGGTTCGAGTTT
*
983683 GGGTTTGAGTTT
1 GGGTTCGAGTTT
* *
983695 AGGTTCGGGTTT
1 GGGTTCGAGTTT
* * *
983707 -AGATCTGGGTTT
1 GGGTTC-GAGTTT
983719 GGGTTCGAGTTT
1 GGGTTCGAGTTT
* *
983731 AGCTTCGAGTTT
1 GGGTTCGAGTTT
983743 GGGTTCG
1 GGGTTCG
983750 GGTTCGAGGG
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
11 8 0.10
12 60 0.73
13 4 0.05
15 1 0.01
16 4 0.05
17 5 0.06
ACGTcount: A:0.08, C:0.08, G:0.41, T:0.42
Consensus pattern (12 bp):
GGGTTCGAGTTT
Found at i:983671 original size:28 final size:29
Alignment explanation
Indices: 983626--983684 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
983616 GGTTTTTTTA
*
983626 GGTTCGGGTTCGAGTTTGGGTTCGGGTTT
1 GGTTCGGATTCGAGTTTGGGTTCGGGTTT
*
983655 GGTTCGGATTGGA-TTTGGGTTCGGGTTT
1 GGTTCGGATTCGAGTTTGGGTTCGGGTTT
983683 GG
1 GG
983685 GTTTGAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.05, C:0.08, G:0.46, T:0.41
Consensus pattern (29 bp):
GGTTCGGATTCGAGTTTGGGTTCGGGTTT
Found at i:983688 original size:6 final size:6
Alignment explanation
Indices: 983639--983723 Score: 57
Period size: 6 Copynumber: 14.5 Consensus size: 6
983629 TCGGGTTCGA
* * * * *
983639 GTTTGG GTTCGG GTTT-G G-TTCG GATTGG ATTTGG GTTCGG GTTTGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * * *
983685 GTTTGA GTTTAG GTTCGG GTTTAG ATCTGG GTTTGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTT
983724 CGAGTTTAGC
Statistics
Matches: 57, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
4 2 0.04
5 4 0.07
6 51 0.89
ACGTcount: A:0.07, C:0.06, G:0.42, T:0.45
Consensus pattern (6 bp):
GTTTGG
Found at i:984508 original size:24 final size:24
Alignment explanation
Indices: 984481--984544 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
984471 TTCATCCCTA
*
984481 TATAATTTATATTAATAAACTAT-T
1 TATAATTAATATTAATAAA-TATAT
* *
984505 TATAATTAATATAAAT-TATATAT
1 TATAATTAATATTAATAAATATAT
984528 TATAATTAATATTAATA
1 TATAATTAATATTAATA
984545 TAATTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 3 0.09
23 17 0.50
24 14 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAATTAATATTAATAAATATAT
Found at i:984559 original size:44 final size:43
Alignment explanation
Indices: 984481--984713 Score: 154
Period size: 44 Copynumber: 5.1 Consensus size: 43
984471 TTCATCCCTA
* *
984481 TATAATTTATATTAATAAACTATTTATAATTAATATAAATTATATAT
1 TATAA-TTATATTAATATA--ATTAAT-ATTAATATAAATTATATAT
*
984528 TATAATTAATATTAATATAATTAATATTAATATAAATTATATAG
1 TATAATT-ATATTAATATAATTAATATTAATATAAATTATATAT
* * * *
984572 TATAGTT-TATAAACTATAATTAATATAAAT-TAATATTAATATAG
1 TATAATTATATTAA-TATAATTAATATTAATATAA-ATT-ATATAT
* *
984616 TAT-ATGGTTTA-TAGACTATAATTAATATTAATATGATATATTATATTAA
1 TATAAT--TATATTA-A-TATAATTAATATTAATAT-A-A-ATTATA-TAT
* *
984665 TATAAATTATAGTTAATAT-GTTAATATTAATGTAAATTATAGT-T
1 TAT-AATTATA-TTAATATAATTAATATTAATATAAATTATA-TAT
984709 TATAA
1 TATAA
984714 ACTATATACT
Statistics
Matches: 155, Mismatches: 15, Indels: 36
0.75 0.07 0.17
Matches are distributed among these distances:
42 8 0.05
43 21 0.14
44 36 0.23
45 14 0.09
46 22 0.14
47 17 0.11
48 16 0.10
49 16 0.10
50 1 0.01
51 4 0.03
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (43 bp):
TATAATTATATTAATATAATTAATATTAATATAAATTATATAT
Found at i:984634 original size:46 final size:43
Alignment explanation
Indices: 984512--984741 Score: 156
Period size: 44 Copynumber: 5.3 Consensus size: 43
984502 ATTTATAATT
* * * *
984512 AATATAAATTATATATTATAATTAATATTAA-TATAATTAATATT
1 AATATAAATTATATAGTATAGTT--TATAAACTATAATTAATATA
984556 AATATAAATTATATAGTATAGTTTATAAACTATAATTAATATA
1 AATATAAATTATATAGTATAGTTTATAAACTATAATTAATATA
* *
984599 AAT-TAATATTAATATAGTATATGGTTTATAGACTATAATTAATATT
1 AATATAA-ATT-ATATAGTATA--GTTTATAAACTATAATTAATATA
* * * *
984645 AATAT-GA-TATAT--TATA-TTAATATAAATTATAGTTAATATGTT
1 AATATAAATTATATAGTATAGTT--TATAAACTATAATTAATA--TA
* * * *
984687 AATATTAATGTA-A-ATTATAGTTTATAAACTATATACT-ATATT
1 AATATAAAT-TATATAGTATAGTTTATAAACTATA-ATTAATATA
984729 AATATAAATTATA
1 AATATAAATTATA
984742 GTTAAGATAA
Statistics
Matches: 153, Mismatches: 15, Indels: 38
0.74 0.07 0.18
Matches are distributed among these distances:
38 2 0.01
40 15 0.10
41 6 0.04
42 26 0.17
43 23 0.15
44 46 0.30
45 8 0.05
46 26 0.17
47 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (43 bp):
AATATAAATTATATAGTATAGTTTATAAACTATAATTAATATA
Found at i:984663 original size:18 final size:16
Alignment explanation
Indices: 984635--984684 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
984625 TATAGACTAT
984635 AATTAATATTAATATGA
1 AATT-ATATTAATATGA
984652 TATATTATATTAATAT-A
1 -A-ATTATATTAATATGA
984669 AATTATAGTTAATATG
1 AATTATA-TTAATATG
984685 TTAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.21
16 8 0.28
17 1 0.03
18 11 0.38
19 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
AATTATATTAATATGA
Found at i:984712 original size:84 final size:85
Alignment explanation
Indices: 984553--984766 Score: 207
Period size: 84 Copynumber: 2.6 Consensus size: 85
984543 TATAATTAAT
* * * *
984553 ATTAATATAAAT-TATATAGTATAGTT--TATAAACTATAATTAATATAAATTAATATTAATATA
1 ATTAATATTAATATATATATTATAGTTAATATAAATTATAGTTAATAT-AATTAATATTAATATA
* * *
984615 GTATATGGTTTATAGACTATA
65 ATATATAGTTTATAAACTATA
* *
984636 ATTAATATTAATATGATATATTATA-TTAATATAAATTATAGTTAATAT-GTTAATATTAATGTA
1 ATTAATATTAATAT-ATATATTATAGTTAATATAAATTATAGTTAATATAATTAATATTAATATA
984699 A-ATTATAGTTTATAAACTATA
65 ATA-TATAGTTTATAAACTATA
* *
984720 TACT-ATATTAATATA-A-ATTATAGTTAAGAT-AATTA-AGATTAATATAA
1 -ATTAATATTAATATATATATTATAGTTAATATAAATTATAG-TTAATATAA
984767 ACTATATAGT
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
80 2 0.02
81 18 0.16
82 7 0.06
83 13 0.12
84 42 0.38
85 11 0.10
86 17 0.15
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (85 bp):
ATTAATATTAATATATATATTATAGTTAATATAAATTATAGTTAATATAATTAATATTAATATAA
TATATAGTTTATAAACTATA
Found at i:984755 original size:151 final size:150
Alignment explanation
Indices: 984481--984765 Score: 341
Period size: 151 Copynumber: 1.9 Consensus size: 150
984471 TTCATCCCTA
* *
984481 TATAATTTATATTAATAAACTATTTATAATTAATATAAATTATATATTATAATTAATATTAATAT
1 TATAATTAATATTAATAAACTATTTATAATTAATATAAATTATATAATATAATTAATATTAATAT
* * * *
984546 AATTAATATTAATATAAATTATATAGTATAGTTTATAAACTATAATTAATATAAATTAATATTAA
66 AATTAATATT-ATATAAACTATATACTATAGTTTATAAACTATAATTAAGATAAATTAAGATTAA
984611 TATAGTATATGGTTTATAGAC
130 TATAGTATATGGTTTATAGAC
* *
984632 TATAATTAATATTAATATGA-TATATTAT-ATTAATATAAATTATAGTTAATAT-GTTAATATTA
1 TATAATTAATATTAATA-AACTAT-TTATAATTAATATAAATTATA--TAATATAATTAATATTA
* * *
984694 ATGTAAATT-ATAGTT-TATAAACTATATACTATA-TTAATATAAATTATAGTTAAGAT-AATTA
62 ATAT-AATTAATA-TTATATAAACTATATACTATAGTT--TATAAACTATAATTAAGATAAATTA
984755 AGATTAATATA
123 AGATTAATATA
984766 AACTATATAG
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
150 2 0.02
151 66 0.57
152 36 0.31
153 11 0.10
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (150 bp):
TATAATTAATATTAATAAACTATTTATAATTAATATAAATTATATAATATAATTAATATTAATAT
AATTAATATTATATAAACTATATACTATAGTTTATAAACTATAATTAAGATAAATTAAGATTAAT
ATAGTATATGGTTTATAGAC
Found at i:984764 original size:31 final size:30
Alignment explanation
Indices: 984653--984772 Score: 116
Period size: 31 Copynumber: 3.8 Consensus size: 30
984643 TTAATATGAT
*
984653 ATATT-ATATTAATATAAATTATAGTTAAT
1 ATATTAATATTAATATAAATTATAGTTAAA
* *
984682 ATGTTAATATTAATGTAAATTATAGTTTATAA
1 ATATTAATATTAATATAAATTATAG-TTA-AA
*
984714 ACTATATACTATATTAATATAAATTATAGTTAAG
1 A-TAT-TA--ATATTAATATAAATTATAGTTAAA
* *
984748 ATAATTAAGATTAATATAAACTATA
1 AT-ATTAATATTAATATAAATTATA
984773 TAGTACATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
29 4 0.05
30 18 0.24
31 19 0.25
32 2 0.03
33 5 0.07
34 6 0.08
35 3 0.04
36 18 0.24
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (30 bp):
ATATTAATATTAATATAAATTATAGTTAAA
Found at i:984771 original size:137 final size:136
Alignment explanation
Indices: 984519--984772 Score: 286
Period size: 137 Copynumber: 1.9 Consensus size: 136
984509 ATTAATATAA
* ***
984519 ATTATATATTATAATTAATATTAATATAATTAATATTAATATAAATTATATAGTATAGTTTATAA
1 ATTATATAATATAATTAATATTAATATAATTAATATTAATATAAATTATATAGTATAAACTATAA
* * * * *
984584 ACTATAATTAATATAAATTAATATTAATATAGTATATGGTTTATAGACTATAATTAATATTAATA
66 ACTATAATTAATATAAATTAATATTAAGATAATATAAGATTTATAAACTATAATTAATATTAATA
984649 TGATAT
131 TGATAT
* * *
984655 ATTATATTAATATAAATT-ATAGTTAATAT-GTTAATATTAATGTAAATTATAGT-TTATAAACT
1 ATTATA-TAATAT-AATTAATA-TTAATATAATTAATATTAATATAAATTATA-TAGTATAAACT
*
984717 ATATACTAT-ATTAATATAAATT-ATAGTTAAGATAAT-TAAGATTAATATAAACTATA
62 ATAAACTATAATTAATATAAATTAATA-TTAAGATAATATAAGATT--TATAAACTATA
984773 TAGTACATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
135 8 0.08
136 27 0.28
137 51 0.52
138 12 0.12
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (136 bp):
ATTATATAATATAATTAATATTAATATAATTAATATTAATATAAATTATATAGTATAAACTATAA
ACTATAATTAATATAAATTAATATTAAGATAATATAAGATTTATAAACTATAATTAATATTAATA
TGATAT
Found at i:984787 original size:66 final size:65
Alignment explanation
Indices: 984651--984807 Score: 165
Period size: 66 Copynumber: 2.4 Consensus size: 65
984641 TATTAATATG
* * * * * **
984651 ATATATTATATTAATATAAATTATAGTTAATATGTTAATATTAATGTAAATTATAGTTTATAAAC
1 ATATACTATATTAATATAAATTATAGTTAAGATATTAAGATTAATATAAATTATAGTACATAAAC
984716 TATATACTATATTAATATAAATTATAGTTAAGATAATTAAGATTAATATAAACTATATAGTACAT
1 -ATATACTATATTAATATAAATTATAGTTAAGAT-ATTAAGATTAATATAAA-T-TATAGTACAT
* *
984781 TAAT
62 AAAC
*
984785 ATAAACTATAGTT--TATAAATTAT
1 ATATACTATA-TTAATATAAATTAT
984808 TTACTATAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
66 31 0.40
67 24 0.31
68 10 0.13
69 12 0.16
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (65 bp):
ATATACTATATTAATATAAATTATAGTTAAGATATTAAGATTAATATAAATTATAGTACATAAAC
Found at i:984796 original size:20 final size:21
Alignment explanation
Indices: 984757--984796 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
984747 GATAATTAAG
984757 ATTAATATAAACTATATAGTAC
1 ATTAATATAAAC-ATATAGTAC
984779 ATTAATATAAAC-TATAGT
1 ATTAATATAAACATATAGT
984797 TTATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (21 bp):
ATTAATATAAACATATAGTAC
Found at i:984982 original size:24 final size:23
Alignment explanation
Indices: 984937--984993 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
984927 ATTTGTTACA
*
984937 TATATAGTTTACATATAAATAGAT
1 TATATA-TATACATATAAATAGAT
* * *
984961 TGTATATATACATATACTATAGGT
1 TATATATATACATATA-AATAGAT
984985 TATATATAT
1 TATATATAT
984994 TAACTATTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (23 bp):
TATATATATACATATAAATAGAT
Found at i:985237 original size:20 final size:20
Alignment explanation
Indices: 985190--985242 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
985180 ATAGGTTACA
985190 TATATATAGTTTATAATAAC
1 TATATATAGTTTATAATAAC
* *
985210 --TCTATAGTTTATATTAAC
1 TATATATAGTTTATAATAAC
985228 TATATATAGTTTATA
1 TATATATAGTTTATA
985243 CATACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TATATATAGTTTATAATAAC
Found at i:985312 original size:18 final size:17
Alignment explanation
Indices: 985292--985453 Score: 80
Period size: 18 Copynumber: 8.9 Consensus size: 17
985282 CTATATGCTC
985292 TATATAGTTTATATAAA
1 TATATAGTTTATATAAA
985309 CTATATAGATTACATATATATATA
1 -TATATAG-TT---TATATA-A-A
* *
985333 TATATA-TATATATATA
1 TATATAGTTTATATAAA
* *
985349 TATATA-TATATATATA
1 TATATAGTTTATATAAA
**
985365 TATATAGTTTATATCTA
1 TATATAGTTTATATAAA
*
985382 TATATTTGATTTATATAATTTA
1 TATA-TAG-TTTATATAA---A
*
985404 TATGCATAG-TT-TATACA
1 TAT--ATAGTTTATATAAA
*
985421 TATGTAGTTTATATAAA
1 TATATAGTTTATATAAA
985438 CTATATAGTTTATATA
1 -TATATAGTTTATATA
985454 TATAGTTCAT
Statistics
Matches: 115, Mismatches: 12, Indels: 34
0.71 0.07 0.21
Matches are distributed among these distances:
15 3 0.03
16 25 0.22
17 21 0.18
18 29 0.25
19 9 0.08
20 4 0.03
21 3 0.03
22 10 0.09
23 9 0.08
24 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (17 bp):
TATATAGTTTATATAAA
Found at i:985398 original size:2 final size:2
Alignment explanation
Indices: 985322--985386 Score: 103
Period size: 2 Copynumber: 32.0 Consensus size: 2
985312 TATAGATTAC
985322 AT AT AT 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 AT AT AT
* *
985364 AT AT AT AGT TT AT AT CT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT
985387 TTGATTTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 57 0.98
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:985452 original size:46 final size:47
Alignment explanation
Indices: 985292--985386 Score: 67
Period size: 42 Copynumber: 2.1 Consensus size: 47
985282 CTATATGCTC
* * *
985292 TATATAGTTTATATAAAC-TATATAGATTACATATATA---TATATA
1 TATATAGTTTATATAAACATATATAGTTTATATATATAGTTTATACA
* * * *
985335 TATATA-TATATATATATATATATA-TATATATATATAGTTTATATCTA
1 TATATAGTTTATATAAACATATATAGTTTATATATATAGTTTATA-C-A
985382 TATAT
1 TATAT
985387 TTGATTTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
42 17 0.44
43 12 0.31
45 4 0.10
47 6 0.15
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (47 bp):
TATATAGTTTATATAAACATATATAGTTTATATATATAGTTTATACA
Found at i:985501 original size:21 final size:19
Alignment explanation
Indices: 985463--985499 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
985453 ATATAGTTCA
985463 TACATATATAGTTTATATT
1 TACATATATAGTTTATATT
*
985482 TACATGTATAGTTTATAT
1 TACATATATAGTTTATAT
985500 ATATAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (19 bp):
TACATATATAGTTTATATT
Found at i:987940 original size:21 final size:21
Alignment explanation
Indices: 987915--987954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
987905 AAGACTCTAT
987915 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
987936 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
987955 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:991808 original size:24 final size:23
Alignment explanation
Indices: 991764--991843 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
991754 TTGTGCTTCA
991764 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CCTTTGAATG
* *
991788 TGCATCGATTCAT-C-TTG-TTG
1 TGCATCGATGCATCCTTTGAATG
* *
991808 ATGCACCGATGCA-CGTCTTGAATG
1 -TGCATCGATGCATCCT-TTGAATG
991832 TGCATCGATGCA
1 TGCATCGATGCA
991844 CAGGGTCATA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.05
21 13 0.30
22 1 0.02
23 14 0.32
24 14 0.32
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
TGCATCGATGCATCCTTTGAATG
Found at i:995560 original size:15 final size:16
Alignment explanation
Indices: 995540--995573 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
995530 TTATATGCTT
995540 TATATAGTT-TATACA
1 TATATAGTTATATACA
995555 TATATAGTTAATATACA
1 TATATAGTT-ATATACA
995572 TA
1 TA
995574 CATATACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TATATAGTTATATACA
Found at i:995672 original size:87 final size:87
Alignment explanation
Indices: 995484--995658 Score: 246
Period size: 87 Copynumber: 2.0 Consensus size: 87
995474 TATATTAGTT
* * * *
995484 ATACATACATATATATACTATATTAATATAAATTATTAATTATTAATTATATGCTTTATATAGTT
1 ATACATATATATATATACTATATTAATATAAATTATTAATTATAAACTATATACTTTATATAGTT
995549 TATACATATATAGTTAATATAC
66 TATACATATATAGTTAATATAC
* * * *
995571 ATACATATACATATATACTATATTAATATAAATTA-TAGTTTATAAACTATATACTTTTTATGGT
1 ATACATATATATATATACTATATTAATATAAATTATTA-ATTATAAACTATATACTTTATATAGT
*
995635 TTATACA-ATATAGTTTATATAC
65 TTATACATATATAGTTAATATAC
995657 AT
1 AT
995659 TGTTTATATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 18 0.23
87 60 0.77
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (87 bp):
ATACATATATATATATACTATATTAATATAAATTATTAATTATAAACTATATACTTTATATAGTT
TATACATATATAGTTAATATAC
Found at i:995680 original size:13 final size:13
Alignment explanation
Indices: 995642--995730 Score: 63
Period size: 13 Copynumber: 6.4 Consensus size: 13
995632 GGTTTATACA
995642 ATATAGTTTATAT
1 ATATAGTTTATAT
* *
995655 ACATTGTTTATAT
1 ATATAGTTTATAT
*
995668 ATATAGTTCATATAA
1 ATATAGTT--TATAT
* *
995683 ACATAGTTTATAC
1 ATATAGTTTATAT
995696 ATATAGCTTATAATAATT
1 ATATAG-TT-T-AT-A-T
995714 ATATAGTTTATA-
1 ATATAGTTTATAT
995726 ATATA
1 ATATA
995731 AATATAGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
12 5 0.08
13 26 0.43
14 3 0.05
15 14 0.23
16 3 0.05
17 3 0.05
18 6 0.10
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:995691 original size:28 final size:26
Alignment explanation
Indices: 995633--995708 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 26
995623 ACTTTTTATG
* *
995633 GTTTATACAATATAGTTTATATACATT
1 GTTTATA-AATATAGTTTATAAACATA
*
995660 GTTTATATATATAGTTCATATAAACATA
1 GTTTATAAATATAGTT--TATAAACATA
* *
995688 GTTTATACATATAGCTTATAA
1 GTTTATAAATATAGTTTATAA
995709 TAATTATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
26 13 0.31
27 7 0.17
28 22 0.52
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (26 bp):
GTTTATAAATATAGTTTATAAACATA
Found at i:995735 original size:18 final size:18
Alignment explanation
Indices: 995691--995749 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
995681 AAACATAGTT
* *
995691 TATACATATAGCTTATAA
1 TATAAATATAGTTTATAA
*
995709 TA-ATTATATAGTTTATAA
1 TATA-AATATAGTTTATAA
995727 TATAAATATAGTTTAT-A
1 TATAAATATAGTTTATAA
995744 TATAAA
1 TATAAA
995750 ACTAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.22
18 27 0.75
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (18 bp):
TATAAATATAGTTTATAA
Found at i:998356 original size:278 final size:278
Alignment explanation
Indices: 997965--998470 Score: 741
Period size: 278 Copynumber: 1.8 Consensus size: 278
997955 GAGAGATAGG
* * ** * * *
997965 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTATCATATGAGTTCTTCTTATTATGAA
1 TTGAACAAGCTCTTCTCACTATGAAATTCTTCTCCCTCCATCAAATGAGTTATTCTCATTATGAA
* *
998030 CTCTCCACTGGAAATATTGACCCCTCAAGTGAGTATGGTTGATTCAACTCCATATGTGATGAATC
66 CTCTCCACTGGAAATATTGACCCCTCAAGCGAGTATGGTTGATTCAACTCCATATGCGATGAATC
* * *
998095 GAGCTAAGGTTTAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCT-TC-GAATGAGTTCTTC
131 GAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATCAG-ATGAGTTCTTC
* *
998158 TCATTATGAACTCTCCACTAGAAATGTTAATCTCTTGAGTGAGGTATTGTTGATTCAACTCCATA
194 TCATTAGGAACTCTCCACTAGAAATGTCAATCTCTTGAGTGAGGTATTGTTGATTCAACTCCATA
998223 TGTGATGAATTGGGTTAAGT
259 TGTGATGAATTGGGTTAAGT
* * *
998243 TTGAACAAGTTCTTCTCACTATGAAATTTTTCTCCC-CCATCAAATGCGTTATTCTCATTATGAA
1 TTGAACAAGCTCTTCTCACTATGAAATTCTTCTCCCTCCATCAAATGAGTTATTCTCATTATGAA
* * *
998307 CTCTCCATTGGAAATATTGATCCCC-CAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAA
66 CTCTCCACTGGAAATATTGA-CCCCTCAAGCGA-GTATGGTTGATTCAACTCCATATGCGATGAA
*
998371 TCGAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTT
129 TCGAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTC
* *
998436 TCATTAGGAACTCTCCATTTGAAATGTCAATCTCT
194 TCATTAGGAACTCTCCACTAGAAATGTCAATCTCT
998471 CAAGCGATGT
Statistics
Matches: 201, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
277 48 0.24
278 152 0.76
279 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (278 bp):
TTGAACAAGCTCTTCTCACTATGAAATTCTTCTCCCTCCATCAAATGAGTTATTCTCATTATGAA
CTCTCCACTGGAAATATTGACCCCTCAAGCGAGTATGGTTGATTCAACTCCATATGCGATGAATC
GAGCTAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTC
ATTAGGAACTCTCCACTAGAAATGTCAATCTCTTGAGTGAGGTATTGTTGATTCAACTCCATATG
TGATGAATTGGGTTAAGT
Found at i:998475 original size:139 final size:139
Alignment explanation
Indices: 997836--998599 Score: 659
Period size: 139 Copynumber: 5.6 Consensus size: 139
997826 TGATAAGTCA
* ** *
997836 AACAAGATCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAG---TTCTCATTATGAACTCT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTCATTATGAACTCT
* * * * ** * *
997898 CCATTTGAAGTGTTAATCCCTCAAGCAAGGCGTCTCAT-ATTTGAA----AT-TCCG-TGAATCG
66 CCATTGGAAATGTTAATCCCTCAAGCGAGGTGT-TGTTGA-TTCAACTCCATATGCGATGAATCG
**
997956 AGAGATAGGTTG
129 AGCTA-AGGTTG
* * *
997968 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTATCATATGAGTTCTTCTTATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCCC-TTATCAGATGAGTTCTTCTCATTATGAACTC
* * * * * * * *
998033 TCCACTGGAAATATTGACCCCTCAAGTGA-GTATGGTTGATTCAACTCCATATGTGATGAATCGA
65 TCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAATCGA
*
998097 GCTAAGGTTT
130 GCTAAGGTTG
*
998107 AACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCT-TC-GAATGAGTTCTTCTCATTATGAACT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATCAG-ATGAGTTCTTCTCATTATGAACT
* * * ** * * * *
998170 CTCCACTAGAAATGTTAATCTCTTGAGTGAGGTATTGTTGATTCAACTCCATATGTGATGAATTG
64 CTCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAATCG
* * *
998235 GGTTAAGTTTG
129 AGCTAAGGTTG
* * * ** * * *
998246 AACAAGTTCTTCTCACTATGAAATTTTTCTCCCCCATCAAATGCGTTATTCTCATTATGAACTCT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTCATTATGAACTCT
* * *
998311 CCATTGGAAATATTGATCCCCCAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAATCGAG
66 CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAATCGAG
*
998376 CTAAGATTG
131 CTAAGGTTG
* *
998385 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTTTCATTAGGAACTCT
1 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTCATTATGAACTCT
* * * * *** *
998450 CCATTTGAAATGTCAATCTCTCAAGCGATGTGTCACTGATTCGA----A-ATGTC-ATGAATCGA
66 CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGTTGATTCAACTCCATATG-CGATGAATCGA
998509 G-TGACAGGTTG
130 GCT-A-AGGTTG
* * * * * * * *
998520 AACAAGCTCTTCTCATTATGAACTTCTTCTCACTTTGTCGGATAATTTCTTCTCATTATAAACGC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTC-CCTTATCAGATGAGTTCTTCTCATTATGAACTC
**
998585 TCCATTAAAAATGTT
65 TCCATTGGAAATGTT
998600 GATTCGTTTA
Statistics
Matches: 513, Mismatches: 99, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
132 32 0.06
133 9 0.02
134 19 0.04
135 40 0.08
136 72 0.14
138 50 0.10
139 281 0.55
140 10 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (139 bp):
AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTCATTATGAACTCT
CCATTGGAAATGTTAATCCCTCAAGCGAGGTGTTGTTGATTCAACTCCATATGCGATGAATCGAG
CTAAGGTTG
Found at i:999527 original size:55 final size:55
Alignment explanation
Indices: 999468--999655 Score: 192
Period size: 54 Copynumber: 3.5 Consensus size: 55
999458 TTAGGATTAA
* *
999468 TTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTCCTAAAATCATACTTAG
1 TTTCTTTTAAAGCTCATTTAAAAATCATCAAGAAACTTCCTAAAATCAGACTTAG
* *
999523 TTTCTTTTTAAA--TCATTTAAAAATCGTCAAGAATCTT-CTGAAAATCAGACTTAG
1 TTTC-TTTTAAAGCTCATTTAAAAATCATCAAGAAACTTCCT-AAAATCAGACTTAG
* * * * *
999577 -TT-TTTAAAAGCTCATTT-TAAATAATCAAGAAAC-TCCTGAAATCAGAATTAG
1 TTTCTTTTAAAGCTCATTTAAAAATCATCAAGAAACTTCCTAAAATCAGACTTAG
* * *
999628 TTATTTTTTAAAACTCATTTGAAAATCA
1 TT-TCTTTTAAAGCTCATTTAAAAATCA
999656 GACTTAGTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
51 19 0.17
52 15 0.14
53 11 0.10
54 49 0.45
55 9 0.08
56 6 0.06
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (55 bp):
TTTCTTTTAAAGCTCATTTAAAAATCATCAAGAAACTTCCTAAAATCAGACTTAG
Found at i:999874 original size:2 final size:2
Alignment explanation
Indices: 999867--1000038 Score: 326
Period size: 2 Copynumber: 86.0 Consensus size: 2
999857 ACGTATGTTC
**
999867 GT GT GT GT GT AC GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
999909 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
999951 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
999993 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1000035 GT GT
1 GT GT
1000039 AGAGACTGGT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 166 1.00
ACGTcount: A:0.01, C:0.01, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:1000113 original size:12 final size:12
Alignment explanation
Indices: 1000096--1000125 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1000086 GTAAAAAAAA
1000096 GGTGAATTGGTT
1 GGTGAATTGGTT
1000108 GGTGAATTGGTT
1 GGTGAATTGGTT
1000120 GGTGAA
1 GGTGAA
1000126 ACACAGAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (12 bp):
GGTGAATTGGTT
Found at i:1000245 original size:2 final size:2
Alignment explanation
Indices: 1000238--1000324 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
1000228 TAAACTGGAA
1000238 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1000280 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1000322 TG T
1 TG T
1000325 ATGTTAGGAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1003171 original size:20 final size:20
Alignment explanation
Indices: 1003111--1003179 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
1003101 TTTTAATACT
***
1003111 TTATATAGTTTATATATTGT
1 TTATATAGTTTATATATAAA
*
1003131 TTACATATAGTTCAT-TAATAAA
1 TT--ATATAGTTTATAT-ATAAA
1003153 TTATATAGTTTATATATAAA
1 TTATATAGTTTATATATAAA
*
1003173 CTATATA
1 TTATATA
1003180 ATTTTTAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 23 0.59
21 2 0.05
22 14 0.36
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (20 bp):
TTATATAGTTTATATATAAA
Found at i:1007403 original size:121 final size:120
Alignment explanation
Indices: 1007178--1007950 Score: 947
Period size: 121 Copynumber: 6.4 Consensus size: 120
1007168 TATAGAGAAT
* * * *
1007178 TCAAGAACTTGTTGTGTAAGTGTTTGCCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTAAAC
1 TCAAGAACTCGTCGTGTAAGTG-TTACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAAC
* * *
1007243 AACACACCACTACCAAGCTAGTGAGCCAAATAT-ATCCACTTCCAAGTAAGTGTGCC
65 GACACACCACTACCAAGTTAGTGTGCCAAATATCA-CCACTTCCAAGTAAGTGTGCC
* * * * * * *
1007299 TCAAAAACTTGTTGTGTACGTGTTAGCCACTGCCAAGTTAGTGTGGC-TGACCATGTCCACTTAA
1 TCAAGAACTCGTCGTGTAAGTGTTA-CCACTACCAAGTTAGTGT-GCTTGACCACGTCCGCTTAA
* *
1007363 CGACACACCAATACTAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
64 CGACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
* * * * *
1007420 TCAAGAACTCGTCGTGTACGTGTTCATCACTACCAAGTTAGTGCGTTTGACCACGTCTGCTTAAC
1 TCAAGAACTCGTCGTGTAAGTGTT-ACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAAC
** * * * *
1007485 GACATGCTACTACCAAGTTAGTGTGCCAAACATCGCCACTTCCAAGTAAGTGTTCC
65 GACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
* * * * *
1007541 TCAAGAACTCATCATGTAAGTGTTCGCCACTACTAAGTTAATGTGCTTGACCACGTCCGCTTAAC
1 TCAAGAACTCGTCGTGTAAGTGTT-ACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAAC
* ** * * *
1007606 GACACACCATTACCAAGTTAGTGTGCCAAATAAGACCACTTGCAAGTATGTGTGAC
65 GACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
* * *
1007662 TCAAGAACTCATCGTGTAAGTGTCCACCACTACCAAGTTAGTGTGCTTGACCACATCCGCTTAAC
1 TCAAGAACTCGTCGTGTAAGTGT-TACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAAC
* * * * *
1007727 GACACGCCACTACCAAGTTAGTGTGCCAAATATCGCTACTTTCAAGTAATTGTGCC
65 GACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
* * * *
1007783 TCAAAAACTCGTCATGTAAGTGTTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCACTTAAT
1 TCAAGAACTCGTCGTGTAAGTGTT-ACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAAC
*
1007848 GACACACCACTACCAAGTTAGTATGCCAAATATCACCACTTCCAAGTAAGTGTGCC
65 GACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
* * * * *
1007904 TCAAGAACTCATCGTGTAAATGTTCGCCGCTACCAAGTCAGTGTGCT
1 TCAAGAACTCGTCGTGTAAGTGTT-ACCACTACCAAGTTAGTGTGCT
1007951 CAGATTAGTT
Statistics
Matches: 557, Mismatches: 88, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
120 3 0.01
121 550 0.99
122 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (120 bp):
TCAAGAACTCGTCGTGTAAGTGTTACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAACG
ACACACCACTACCAAGTTAGTGTGCCAAATATCACCACTTCCAAGTAAGTGTGCC
Found at i:1007610 original size:242 final size:242
Alignment explanation
Indices: 1007191--1007950 Score: 1045
Period size: 242 Copynumber: 3.1 Consensus size: 242
1007181 AGAACTTGTT
** * * *
1007191 GTGTAAGTGTTTGCCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTAAACAACACACCACTAC
1 GTGTAAGTGTTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAACGACACGCCACTAC
* * ** * ** *
1007256 CAAGCTAGTGAGCCAAATATATCCACTTCCAAGTAAGTGTGCCTCAAAAACTTGTTGTGTACGTG
66 CAAGTTAGTGTGCCAAATATCGCCACTTCCAAGTAAGTGTGCCTCAAAAACTCGTCATGTAAGTG
* * * *
1007321 TTAGCCACTGCCAAGTTAGTGTGGC-TGACCATGTCCACTTAACGACACACCAATACTAAGTTAG
131 TTCGCCACTACCAAGTTAGTGT-GCTTGACCACGTCCACTTAACGACACACCAATACCAAGTTAG
*
1007385 TGTGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCGTC
195 TGTGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCATC
* * * * * * *
1007433 GTGTACGTGTTCATCACTACCAAGTTAGTGCGTTTGACCACGTCTGCTTAACGACATGCTACTAC
1 GTGTAAGTGTTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAACGACACGCCACTAC
* * * *
1007498 CAAGTTAGTGTGCCAAACATCGCCACTTCCAAGTAAGTGTTCCTCAAGAACTCATCATGTAAGTG
66 CAAGTTAGTGTGCCAAATATCGCCACTTCCAAGTAAGTGTGCCTCAAAAACTCGTCATGTAAGTG
* * * *
1007563 TTCGCCACTACTAAGTTAATGTGCTTGACCACGTCCGCTTAACGACACACCATTACCAAGTTAGT
131 TTCGCCACTACCAAGTTAGTGTGCTTGACCACGTCCACTTAACGACACACCAATACCAAGTTAGT
** * * *
1007628 GTGCCAAATAAGACCACTTGCAAGTATGTGTGACTCAAGAACTCATC
196 GTGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCATC
* *
1007675 GTGTAAGTGTCCACCACTACCAAGTTAGTGTGCTTGACCACATCCGCTTAACGACACGCCACTAC
1 GTGTAAGTGTTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAACGACACGCCACTAC
* * *
1007740 CAAGTTAGTGTGCCAAATATCGCTACTTTCAAGTAATTGTGCCTCAAAAACTCGTCATGTAAGTG
66 CAAGTTAGTGTGCCAAATATCGCCACTTCCAAGTAAGTGTGCCTCAAAAACTCGTCATGTAAGTG
* * *
1007805 TTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCACTTAATGACACACCACTACCAAGTTAGT
131 TTCGCCACTACCAAGTTAGTGTGCTTGACCACGTCCACTTAACGACACACCAATACCAAGTTAGT
*
1007870 ATGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCATC
196 GTGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCATC
* * * *
1007917 GTGTAAATGTTCGCCGCTACCAAGTCAGTGTGCT
1 GTGTAAGTGTTCACCACTACCAAGTTAGTGTGCT
1007951 CAGATTAGTT
Statistics
Matches: 446, Mismatches: 71, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
241 2 0.00
242 444 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (242 bp):
GTGTAAGTGTTCACCACTACCAAGTTAGTGTGCTTGACCACGTCCGCTTAACGACACGCCACTAC
CAAGTTAGTGTGCCAAATATCGCCACTTCCAAGTAAGTGTGCCTCAAAAACTCGTCATGTAAGTG
TTCGCCACTACCAAGTTAGTGTGCTTGACCACGTCCACTTAACGACACACCAATACCAAGTTAGT
GTGCCAAATATCACCACTTCCAAGTAAGTGTGCCTCAAGAACTCATC
Found at i:1009763 original size:18 final size:18
Alignment explanation
Indices: 1009740--1009775 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1009730 CTCCTCGTGG
1009740 CGGACACAGGATGAAACC
1 CGGACACAGGATGAAACC
1009758 CGGACACAGGATGAAACC
1 CGGACACAGGATGAAACC
1009776 ACTTGAACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.28, T:0.06
Consensus pattern (18 bp):
CGGACACAGGATGAAACC
Found at i:1017854 original size:22 final size:23
Alignment explanation
Indices: 1017824--1017869 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1017814 ATTGATTTTT
* *
1017824 ATTATAATTATG-TTATATATTA
1 ATTAAAATTATGTTTATAAATTA
*
1017846 ATTAAAATTGTGTTTATAAATTA
1 ATTAAAATTATGTTTATAAATTA
1017869 A
1 A
1017870 CATAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTAAAATTATGTTTATAAATTA
Found at i:1018811 original size:5 final size:5
Alignment explanation
Indices: 1018801--1018834 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
1018791 TTGTAAAGAA
* *
1018801 AAAAT AAAAT AAGAT AAAAT AAAAC AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1018835 GTGAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:1018819 original size:15 final size:15
Alignment explanation
Indices: 1018796--1018834 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1018786 AATTTTTGTA
* *
1018796 AAGAAAAAATAAAAT
1 AAGATAAAATAAAAC
1018811 AAGATAAAATAAAAC
1 AAGATAAAATAAAAC
*
1018826 AAAATAAAA
1 AAGATAAAA
1018835 GTGAAAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (15 bp):
AAGATAAAATAAAAC
Found at i:1025458 original size:19 final size:19
Alignment explanation
Indices: 1025434--1025470 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1025424 ACCCCCTTGA
*
1025434 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
1025453 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
1025471 CTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:1030080 original size:3 final size:3
Alignment explanation
Indices: 1030072--1030139 Score: 104
Period size: 3 Copynumber: 22.7 Consensus size: 3
1030062 ATATTTGTAT
1030072 TAA TAA TAA TAA TTAA TAA -ACA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
1030118 TAA TAA TAA TAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
1030140 TATTTTTGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 3 0.05
3 54 0.89
4 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1030545 original size:134 final size:134
Alignment explanation
Indices: 1030328--1030928 Score: 638
Period size: 134 Copynumber: 4.5 Consensus size: 134
1030318 GGTCTTGTTG
* * * * * *
1030328 TCTAAGGGTGACACGGCTCCTACGTGATG-AGAAGAT-TAGGTTGGTGGATGACATGGCTCATAA
1 TCTAGGGGTGACACGGCTCCTACGTGATGAAG-AGGTCT-GGTCGGTGGATGACATGGTTCCTAC
* * *
1030391 GTGATGAAGA-GTTCTGGCCATCTTTAGGAACGGTGATAACTCAGTTTCTACGCAATGAGGATGG
64 GTGATGAAGACGTTCTGGCCATCTTTAGGAACGATGATAACAC-GTTCCTACGCAATGAGGATGG
1030455 CTGGTTA
128 CTGGTTA
* *
1030462 TCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTAAGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
* *
1030527 GATGAAGA-GTTCTGGCCATCTTTAGGAACGATGATAACTCTGTTTCTACGCAATGAGGATGGCT
66 GATGAAGACGTTCTGGCCATCTTTAGGAACGATGATAACAC-GTTCCTACGCAATGAGGATGGCT
1030591 GGTTA
130 GGTTA
*
1030596 TCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
* * * ** * **
1030661 GATGAGGATGGT-AAGCCATCTTTAGG---GATGATAACACGATTCCTATTTG-AA-GAGGATAA
66 GATGAAGACGTTCTGGCCATCTTTAGGAACGATGATAACACG-TTCCTA--CGCAATGAGGATGG
1030720 CTGGTTA
128 CTGGTTA
* * * * *
1030727 TC-AGGGGTGACACGGCTCCTACATGATCAGGAGGTCTGGCCGGGGGATGACATGGTTCCTACG-
1 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
* ** * * * ** *
1030790 CAACAAGGACG-ACAT-GCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGACGG
66 GATGAA-GACGTTC-TGGCCATCTTTAGGAACGATGATAACAC-GTTCCTACGCAATGAGGATGG
*
1030853 CTAGTTA
128 CTGGTTA
* * * *
1030860 T-TAGGGGTGTCACGGCTCCTACGTGATGAGGAGGTCTGATCGGGGGATGACATGGTTCCTACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
1030924 GATGA
66 GATGA
1030929 GGATGGCAGG
Statistics
Matches: 404, Mismatches: 46, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
129 2 0.00
130 71 0.18
131 31 0.08
132 3 0.01
133 85 0.21
134 207 0.51
135 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (134 bp):
TCTAGGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTTCCTACGT
GATGAAGACGTTCTGGCCATCTTTAGGAACGATGATAACACGTTCCTACGCAATGAGGATGGCTG
GTTA
Found at i:1030809 original size:130 final size:132
Alignment explanation
Indices: 1030455--1030922 Score: 435
Period size: 133 Copynumber: 3.5 Consensus size: 132
1030445 ATGAGGATGG
* * *
1030455 CTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTT
1 CTGGTTATC-AGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTT
* * ** * ** * * * *
1030520 CCTAAGTGATGAA-GA-GTTCTGGCCATCTTTAGGAACGATGATAACTCTG-TTTCTACG-CAAT
65 CCTACG-CAACAAGGACG-ACAAGCCATCTTTAGG-AGGATGATAACAC-GATTCCTACGTGAA-
***
1030581 GAGGATGG
125 GAGGACAA
* * *
1030589 CTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTT
1 CTGGTTATC-AGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTT
** ** * ** **
1030654 CCTACGTGATGAGGATGGTAAGCCATCTTTA-G-GGATGATAACACGATTCCTATTTGAAGAGGA
65 CCTACGCAACAAGGACGACAAGCCATCTTTAGGAGGATGATAACACGATTCCTACGTGAAGAGGA
*
1030717 TAA
130 CAA
* * *
1030720 CTGGTTATCAGGGGTGACACGGCTCCTACATGATCAGGAGGTCTGGCCGGGGGATGACATGGTTC
1 CTGGTTATCAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTC
* * * *
1030785 CTACGCAACAAGGACGACATGCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATGAGGA
66 CTACGCAACAAGGACGACAAGCCATCTTTAGG-AGGATGATAACACGATTCCTACGTGAAGAGGA
**
1030850 CGG
130 CAA
* * * *
1030853 CTAGTTATTAGGGGTGTCACGGCTCCTACGTGATGAGGAGGTCTGATCGGGGGATGACATGGTTC
1 CTGGTTATCAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTC
1030918 CTACG
66 CTACG
1030923 TGATGAGGAT
Statistics
Matches: 280, Mismatches: 47, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
130 73 0.26
131 31 0.11
132 2 0.01
133 91 0.32
134 82 0.29
135 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (132 bp):
CTGGTTATCAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTC
CTACGCAACAAGGACGACAAGCCATCTTTAGGAGGATGATAACACGATTCCTACGTGAAGAGGAC
AA
Found at i:1030816 original size:264 final size:264
Alignment explanation
Indices: 1030455--1030952 Score: 680
Period size: 264 Copynumber: 1.9 Consensus size: 264
1030445 ATGAGGATGG
* * * *
1030455 CTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACATGGTT
1 CTGGTTATCTAGGGGTGACACGACTCCTACATGATCAAGAGGTCTGGCCGGGGGATGACATGGTT
* ** * * * *
1030520 CCTAAGTGATGAAGAGTTCTGGCCATCTTTAGGAACGATGATAACTCTGTTTCTACGCAATGAGG
66 CCTAAGTCAACAAGAGTACTGGCCATCTTTAGGAACGATGATAACACGGTTCCTACGCAATGAGG
* * * *
1030585 ATGGCTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGGTCGGTGGATGACAT
131 ACGGCTAGTTAT-TAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGATCGGGGGATGACAT
*
1030650 GGTTCCTACGTGATGAGGATGGTAAGCCATCTTTAGGGATGATAACACGATTCCTATTTGAAGAG
195 GGTTCCTACGTGATGAGGATGGCAAGCCATCTTTAGGGATGATAACACGATTCCTATTTGAAGAG
1030715 GATAA
260 GATAA
* *
1030720 CTGGTTATC-AGGGGTGACACGGCTCCTACATGATCAGGAGGTCTGGCCGGGGGATGACATGGTT
1 CTGGTTATCTAGGGGTGACACGACTCCTACATGATCAAGAGGTCTGGCCGGGGGATGACATGGTT
* * * **
1030784 CCTACG-CAACAAGGACG-ACAT-GCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGTGATG
66 CCTAAGTCAACAA-GA-GTAC-TGGCCATCTTTAGGAACGATGATAACACGGTTCCTACGCAATG
* * *
1030846 AGGACGGCTAGTTATTAGGGGTGTCACGGCTCCTACGTGATGAGGAGGTCTGATCGGGGGATGAC
128 AGGACGGCTAGTTATTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGATCGGGGGATGAC
* *
1030911 ATGGTTCCTACGTGATGAGGATGGCAGGTCATCTTTAGGGAT
193 ATGGTTCCTACGTGATGAGGATGGCAAGCCATCTTTAGGGAT
1030953 TATGTTTTCA
Statistics
Matches: 202, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
263 87 0.43
264 104 0.51
265 11 0.05
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (264 bp):
CTGGTTATCTAGGGGTGACACGACTCCTACATGATCAAGAGGTCTGGCCGGGGGATGACATGGTT
CCTAAGTCAACAAGAGTACTGGCCATCTTTAGGAACGATGATAACACGGTTCCTACGCAATGAGG
ACGGCTAGTTATTAGGGGTGACACGACTCCTACGTGATGAAGAGGTCTGATCGGGGGATGACATG
GTTCCTACGTGATGAGGATGGCAAGCCATCTTTAGGGATGATAACACGATTCCTATTTGAAGAGG
ATAA
Found at i:1031167 original size:66 final size:62
Alignment explanation
Indices: 1031091--1031311 Score: 232
Period size: 67 Copynumber: 3.5 Consensus size: 62
1031081 ATGATTTTTG
*
1031091 TTTTGTTTCAAGTGAAACAGACTCAAAGATAAGTGTTTTCAAAAGAAACTGTCTCGAGAGACAAA
1 TTTTGTTTCAAGAGAAACAGACTCAAAGAT---T-TTTTCAAAAGAAACTGTCTCGAGAGACAAA
1031156 A
62 A
* * * *
1031157 TTTTGTTTCAA-AGGAAACAAACTGAAAGATTTTTTTCTCAAAAGAAATTGTCTCAAGAAAGACA
1 TTTTGTTTCAAGA-GAAACAGACTCAAAGA--TTTTT-TCAAAAGAAACTGTCTC--GAGAGACA
*
1031221 AAT
60 AAA
* * * * *
1031224 TTTTATTTCAAGAGAAACAGACTCACAGATTTTTTTAAAAGAAACTATCTTGAGAGACAAAA
1 TTTTGTTTCAAGAGAAACAGACTCAAAGATTTTTTCAAAAGAAACTGTCTCGAGAGACAAAA
1031286 -TTTGTTTCAAGAGAAACA-ACTCAAAG
1 TTTTGTTTCAAGAGAAACAGACTCAAAG
1031312 GATACTAATA
Statistics
Matches: 130, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
60 7 0.05
61 17 0.13
62 9 0.07
64 16 0.12
65 22 0.17
66 25 0.19
67 32 0.25
68 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (62 bp):
TTTTGTTTCAAGAGAAACAGACTCAAAGATTTTTTCAAAAGAAACTGTCTCGAGAGACAAAA
Found at i:1032566 original size:24 final size:24
Alignment explanation
Indices: 1032534--1032588 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
1032524 TCCTTGTTTC
1032534 TTTCTTTCTTTGCTTTT-TCTTTTG
1 TTTCTTTCTTTGCTTTTCTC-TTTG
1032558 TTTCTTTCTTTGCTTTTCTCTTTG
1 TTTCTTTCTTTGCTTTTCTCTTTG
1032582 TTTCTTT
1 TTTCTTT
1032589 GATTTGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTCTTTCTTTGCTTTTCTCTTTG
Found at i:1032599 original size:20 final size:20
Alignment explanation
Indices: 1032562--1032601 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1032552 CTTTTGTTTC
* **
1032562 TTTCTTTGCTTTTCTCTTTG
1 TTTCTTTGATTTGATCTTTG
1032582 TTTCTTTGATTTGATCTTTG
1 TTTCTTTGATTTGATCTTTG
1032602 CACTATGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.15, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTCTTTGATTTGATCTTTG
Found at i:1037372 original size:61 final size:60
Alignment explanation
Indices: 1037302--1037417 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
1037292 TCTTGAAAAA
* *
1037302 AATCTTATCTTTATCAAGACTAT-TTTCCCCTTTCTCGATGATATCTTCAAAATTTTTAAAG
1 AATCTTATCTTTATCAAGACTATGTTT--CCTCTCTCGAGGATATCTTCAAAATTTTTAAAG
* * * * *
1037363 AATCTTATCTTTCTTAAGATTATGTTTCCTCTCTTGAGGATATCTTTAAAATTTT
1 AATCTTATCTTTATCAAGACTATGTTTCCTCTCTCGAGGATATCTTCAAAATTTT
1037418 CAAAAACAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 24 0.51
61 20 0.43
62 3 0.06
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (60 bp):
AATCTTATCTTTATCAAGACTATGTTTCCTCTCTCGAGGATATCTTCAAAATTTTTAAAG
Found at i:1037786 original size:74 final size:74
Alignment explanation
Indices: 1037560--1037980 Score: 217
Period size: 74 Copynumber: 5.8 Consensus size: 74
1037550 TAGAAAATTC
* * * ** * * * *
1037560 AATTTTGTCTCACTTGAGACATTTTTTCCTTGAAATAAAATTTTATCTCACTTAAGATAGTTGCT
1 AATTTCGTCTCACTCGAGACA-ATTTTCCTCAAAACAAAATTTTATCTCACTTGAGATAATTTCT
* *
1037625 TTTGAAAC-T
65 CTTGAAACAA
** * * * * * *
1037634 AATTTTTTCTCACTAGAGA-GATCGTTTACCTC--AA-AAAATATTATCTCATTTGAGATAGTTC
1 AATTTCGTCTCACTCGAGACAAT--TTT-CCTCAAAACAAAATTTTATCTCACTTGAGATAATTT
* ** *
1037695 CTATCAAAACCA
63 CTCTTGAAACAA
* * * * *
1037707 TATTTCGTCTCACTCGAGAGAGTTTTCCTCAAAACAAATTTTTAT-TCCACTTGAGATAGTTT-T
1 AATTTCGTCTCACTCGAGACAATTTTCCTCAAAACAAAATTTTATCT-CACTTGAGATAATTTCT
*
1037770 GCTTGAAATAA
65 -CTTGAAACAA
* * *
1037781 AATTTCTTCTCAATC-AGGACAATTTTCCTTAAAACAAAATTTTATCTCACTTGAGATAATTTCT
1 AATTTCGTCTCACTCGA-GACAATTTTCCTCAAAACAAAATTTTATCTCACTTGAGATAATTTCT
*
1037845 CTTTAAACAA
65 CTTGAAACAA
* * * * * **
1037855 AACTTT-GTCTCACTCGAGACAATTATCCACAAAA-ATAA--TT-TCTCACTTAAAATTGTTT-T
1 AA-TTTCGTCTCACTCGAGACAATTTTCCTCAAAACAAAATTTTATCTCACTTGAGATAATTTCT
* *
1037914 ATTGAAATAA
65 CTTGAAACAA
* * * * *
1037924 AATTT-GTCTCACTTGAGA-AAGTTTCCTTTAAAACACCAATTTTATCTCCCTTGAGAT
1 AATTTCGTCTCACTCGAGACAATTTTCC-TCAAAACA-AAATTTTATCTCACTTGAGAT
1037981 TTATTTCCCT
Statistics
Matches: 266, Mismatches: 60, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
67 6 0.02
68 19 0.07
69 11 0.04
70 16 0.06
71 6 0.02
72 36 0.14
73 35 0.13
74 128 0.48
75 9 0.03
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (74 bp):
AATTTCGTCTCACTCGAGACAATTTTCCTCAAAACAAAATTTTATCTCACTTGAGATAATTTCTC
TTGAAACAA
Found at i:1037842 original size:37 final size:37
Alignment explanation
Indices: 1037714--1037997 Score: 122
Period size: 37 Copynumber: 7.8 Consensus size: 37
1037704 CCATATTTCG
* * * * *
1037714 TCTCACTCGAGAGAGTTTTCCTCAAAACAAATTTTTA
1 TCTCACTTGAGATAATTTTCCTTAAAACAAAATTTTA
* * * *
1037751 T-TCCACTTGAGATAGTTTTGCTTGAAATAAAATTTCT-
1 TCT-CACTTGAGATAATTTTCCTTAAAACAAAATTT-TA
* * *
1037788 TCTCA-ATCAGGACAATTTTCCTTAAAACAAAATTTTA
1 TCTCACTTGA-GATAATTTTCCTTAAAACAAAATTTTA
* * *
1037825 TCTCACTTGAGATAA-TTTCTCTTTAAACAAAACTTTG
1 TCTCACTTGAGATAATTTTC-CTTAAAACAAAATTTTA
* * * ** *
1037862 TCTCACTCGAGACAATTATCCACAAAA-ATAA--TT-
1 TCTCACTTGAGATAATTTTCCTTAAAACAAAATTTTA
* * ** * * * *
1037895 TCTCACTTAAAATTGTTTT-ATTGAAATAAAA-TTTG
1 TCTCACTTGAGATAATTTTCCTTAAAACAAAATTTTA
* *
1037930 TCTCACTTGAGA-AAGTTTCCTTTAAAACACCAATTTTA
1 TCTCACTTGAGATAATTTTCC-TTAAAACA-AAATTTTA
* * *
1037968 TCTCCCTTGAGATTTATTTCCCTTAAAACA
1 TCTCACTTGAGA-TAATTTTCCTTAAAACA
1037998 TCAATTTTGT
Statistics
Matches: 177, Mismatches: 53, Indels: 32
0.68 0.20 0.12
Matches are distributed among these distances:
32 3 0.02
33 15 0.08
34 7 0.04
35 10 0.06
36 17 0.10
37 91 0.51
38 21 0.12
39 8 0.05
40 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (37 bp):
TCTCACTTGAGATAATTTTCCTTAAAACAAAATTTTA
Found at i:1038604 original size:103 final size:101
Alignment explanation
Indices: 1038431--1038717 Score: 269
Period size: 103 Copynumber: 2.8 Consensus size: 101
1038421 AGTTATCCAC
* * *
1038431 AATTTAGCTCAACTTGCAGAGA-GAAACTAATCTTCACTTAACTTAACGTGCATAG-GGGAGTCA
1 AATTTAGCTCAACTTGCA-AGATG-AGCTAATCTTCACTTGACTTAAC-T-CGTAGAGGGAGTCA
* * * *
1038494 TTCGAGATTCAATTTATCTC-ATAATGGAGGAGTCAT-TCAT
62 TTCGAGATTCAACTTAACTCGA-AATAGAGGAGTCGTCT-AT
* *
1038534 AATTTAGCTCAATTTGCAATGATGAGCTAATCTTCACTTGACTTAACTCGTAGAGGGAAGTCGTT
1 AATTTAGCTCAACTTGCAA-GATGAGCTAATCTTCACTTGACTTAACTCGTAGAGGG-AGTCATT
* **
1038599 TGAGATTTGACTTAACTCGAAATAGAGGAGTCGTCTAT
64 CGAGATTCAACTTAACTCGAAATAGAGGAGTCGTCTAT
* ** * *
1038637 AATTTAGCTTAACTAACAACGATGAGCTAATTTTCACTTGACTTAACCCGTAGAGGGGAGTCA-T
1 AATTTAGCTCAACTTGCAA-GATGAGCTAATCTTCACTTGACTTAACTCGTAGA-GGGAGTCATT
* * *
1038701 CCAAATTCGACTTAACT
64 CGAGATTCAACTTAACT
1038718 TGCAAGGAAG
Statistics
Matches: 153, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
101 4 0.03
102 19 0.12
103 124 0.81
104 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (101 bp):
AATTTAGCTCAACTTGCAAGATGAGCTAATCTTCACTTGACTTAACTCGTAGAGGGAGTCATTCG
AGATTCAACTTAACTCGAAATAGAGGAGTCGTCTAT
Found at i:1041934 original size:50 final size:50
Alignment explanation
Indices: 1041829--1041934 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
1041819 GGATTATACA
** * ***
1041829 AGATATAAAGGACATAAGGATGTAATACATAAAAGACTTGTTCCTATTCT
1 AGATATAAAGGACATAAGGATGTAATACATAAAAGACTTAATCCCAAGAT
*
1041879 AGATATAAAGGACATAAGGATGTAATACATAAAAGAGTTAATCACCAAGAT
1 AGATATAAAGGACATAAGGATGTAATACATAAAAGACTTAATC-CCAAGAT
1041930 -GATAT
1 AGATAT
1041935 GTCGAACCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 45 0.94
51 3 0.06
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.26
Consensus pattern (50 bp):
AGATATAAAGGACATAAGGATGTAATACATAAAAGACTTAATCCCAAGAT
Found at i:1042314 original size:90 final size:89
Alignment explanation
Indices: 1042154--1042328 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
1042144 TCCCGAATAT
* * *
1042154 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAAAATGATTAG
1042219 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
*
1042243 TTAAATTCTAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAAACCCTAAAATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAAAATGATTA
*
1042308 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
1042329 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAAAATGATTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:1049002 original size:89 final size:90
Alignment explanation
Indices: 1048893--1049069 Score: 302
Period size: 89 Copynumber: 2.0 Consensus size: 90
1048883 TAATCCCGAA
* *
1048893 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1048958 TAGGGTAACTTGGAT-TAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
* *
1048982 TATTAAATTTTAATTAATTAAATATAGATTTAATTTATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
1049047 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
1049070 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 75 0.91
90 7 0.09
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:1049168 original size:33 final size:33
Alignment explanation
Indices: 1049126--1049201 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
1049116 CTTCAACCAT
*
1049126 TTTCTCTCAAAACTGTTTTGGGGGAAAACGAAA
1 TTTCTCTCAAAACTGTTTTGGGGGAAAACAAAA
1049159 TTTCTCTCAAAACTGTTTTGGGGGAAAACAAAA
1 TTTCTCTCAAAACTGTTTTGGGGGAAAACAAAA
*
1049192 TTGCTCTCAA
1 TTTCTCTCAA
1049202 TTGGGTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (33 bp):
TTTCTCTCAAAACTGTTTTGGGGGAAAACAAAA
Found at i:1053154 original size:21 final size:21
Alignment explanation
Indices: 1053130--1053171 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1053120 AGTTTATTTT
1053130 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
1053151 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
1053172 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:1053208 original size:33 final size:32
Alignment explanation
Indices: 1053160--1053236 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
1053150 GTAAACTTTG
*
1053160 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
*
1053192 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
1053225 TTTCAATTATCG
1 TTTCAATTATCG
1053237 TAAACTTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:1057228 original size:21 final size:23
Alignment explanation
Indices: 1057183--1057232 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1057173 ATCAAATTTA
1057183 TTATTTCAGAATATATACGTATT
1 TTATTTCAGAATATATACGTATT
* *
1057206 TTATTTCAGATTAT-TA-TTATT
1 TTATTTCAGAATATATACGTATT
1057227 TTATTT
1 TTATTT
1057233 ATGTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 2 0.08
23 13 0.52
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATTTCAGAATATATACGTATT
Found at i:1059827 original size:37 final size:37
Alignment explanation
Indices: 1059754--1059828 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1059744 GTTGAAAAAT
* *
1059754 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
1059791 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
1059828 A
1 A
1059829 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:1065142 original size:21 final size:21
Alignment explanation
Indices: 1065118--1065187 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
1065108 CATATTATAT
*
1065118 TTTATACAT-ATTTTATTTTTA
1 TTTAT-CATCATTTAATTTTTA
1065139 TTTATC-TCCATTTAATTTTTA
1 TTTATCAT-CATTTAATTTTTA
*
1065160 TTTATCATCATTTATTATTTTA
1 TTTATCATCATTTAAT-TTTTA
1065182 TATTAT
1 T-TTAT
1065188 TTTACATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 29 0.69
22 7 0.17
23 4 0.10
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATCATCATTTAATTTTTA
Found at i:1065283 original size:24 final size:22
Alignment explanation
Indices: 1065227--1065283 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
1065217 TATTTGAATA
*
1065227 TTTACTATTTTATTTTATTATTT
1 TTTAC-ATTTTATATTATTATTT
1065250 TTGGTA-ATTTTGATATTATTATATT
1 TT--TACATTTT-ATATTATTAT-TT
1065275 TTTACATTT
1 TTTACATTT
1065284 AATTTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
23 9 0.32
24 13 0.46
25 6 0.21
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTACATTTTATATTATTATTT
Found at i:1067746 original size:139 final size:136
Alignment explanation
Indices: 1067436--1067781 Score: 417
Period size: 139 Copynumber: 2.5 Consensus size: 136
1067426 ATTATTTAGT
* * * * * * *
1067436 TTTCCAACTTATTCATTAAATTAGGGGAACTTTTAATTTGGTCATCGCTTTTGCTCGATGTTTTA
1 TTTCAAACTTAGTCCTTAAATTA-GGGAATTTTTAATTTGGTCCTCG-TTTTGCTCGAGGTTTCA
* * * *
1067501 TTTTAATTGTTCGAATCAAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTTT
64 TTTTAATTATTCAAATCAAATAATTGATAAAAATTGACTAGGTTAATAATTAGAGACTCCATTTT
*
1067566 AGGCTTAT
129 AGGCTTAA
1067574 TTTCAAACTTAGTCCTTAAATTAGGGAATTTTTTAATTTGGTCCTCGTTTTGGCTCGAGGTTTCA
1 TTTCAAACTTAGTCCTTAAATTAGGGAA-TTTTTAATTTGGTCCTCGTTTT-GCTCGAGGTTTCA
* * *
1067639 TTTTAATTATTCAAATCAAGTAATTGAGTAAAAATTGTCTAGGTTAATAATTAGAGATTCCATTT
64 TTTTAATTATTCAAATCAAATAATTGA-TAAAAATTGACTAGGTTAATAATTAGAGACTCCATTT
1067704 TAGGCTTAA
128 TAGGCTTAA
* * * * *
1067713 TTTCATAAC-TAGTCCTT-TATCTAGGAGAATTTTTGATTTGGTCCTCACTTATGCTCAAGGTTT
1 TTTCA-AACTTAGTCCTTAAAT-TAGG-GAATTTTTAATTTGGTCCTC-GTTTTGCTCGAGGTTT
1067776 CATTTT
62 CATTTT
1067782 GACTATTTGA
Statistics
Matches: 181, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
137 9 0.05
138 73 0.40
139 90 0.50
140 9 0.05
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (136 bp):
TTTCAAACTTAGTCCTTAAATTAGGGAATTTTTAATTTGGTCCTCGTTTTGCTCGAGGTTTCATT
TTAATTATTCAAATCAAATAATTGATAAAAATTGACTAGGTTAATAATTAGAGACTCCATTTTAG
GCTTAA
Found at i:1073004 original size:114 final size:115
Alignment explanation
Indices: 1072847--1073066 Score: 286
Period size: 114 Copynumber: 1.9 Consensus size: 115
1072837 AAAGGTGAAC
* **
1072847 AAATTCTTCTCATTATGAACCTTTTTCCCCTCTTTGGACGAGTTATTCTCATTATG-ACCC-TTC
1 AAATTCTTCTCATTATGAACCTTCTTCCCCTCTTCAGACGAGTTATTCTCATTATGAACCCTTTC
* * *
1072910 TATTGGAAATGTT-GATACACTTCCTTCTGTGATGGTTTTGAGAAAAGGTTG
66 -ATTGGAAAT-TTCGATACACATCATTCTGTGATGGATTTGAGAAAAGGTTG
* * * *
1072961 AAATTCTTCTCATTATGAA-CTTCTTCTCCCTCTTCAGATGAGTTCTTCTTATTATGAATCCTTT
1 AAATTCTTCTCATTATGAACCTTCTTC-CCCTCTTCAGACGAGTTATTCTCATTATGAACCCTTT
*
1073025 CATTGGAAATTTCGATCCACATCATTCTGTGATGGATTTGAG
65 CATTGGAAATTTCGATACACATCATTCTGTGATGGATTTGAG
1073067 TCTATAAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
113 6 0.07
114 45 0.49
115 37 0.41
116 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (115 bp):
AAATTCTTCTCATTATGAACCTTCTTCCCCTCTTCAGACGAGTTATTCTCATTATGAACCCTTTC
ATTGGAAATTTCGATACACATCATTCTGTGATGGATTTGAGAAAAGGTTG
Found at i:1074737 original size:45 final size:46
Alignment explanation
Indices: 1074682--1074798 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 46
1074672 TCATTTGGGG
* * * *
1074682 CATCCTTTCATGCCCATTAAGTATTGCT-TACGTTTT-TCTTTATGA
1 CATCCTTTCATACCAATTAAGCATTGCTGTAC-TTTTATCTATATGA
* * *
1074727 CATCCATTCATACCAATTATGCATTGTTGTACTTTTATCTATATGA
1 CATCCTTTCATACCAATTAAGCATTGCTGTACTTTTATCTATATGA
* * *
1074773 CATCCTTTCATATCATTTATGCATTG
1 CATCCTTTCATACCAATTAAGCATTG
1074799 TTTATATCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 26 0.43
46 34 0.57
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (46 bp):
CATCCTTTCATACCAATTAAGCATTGCTGTACTTTTATCTATATGA
Found at i:1074776 original size:46 final size:45
Alignment explanation
Indices: 1074714--1074800 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
1074704 ATTGCTTACG
*
1074714 TTTTTCTTTATGACATCCATTCATACCAATTATGCATTGTTGTAC
1 TTTTTCTATATGACATCCATTCATACCAATTATGCATTGTTGTAC
* * *
1074759 TTTTATCTATATGACATCCTTTCATATCATTTATGCATTGTT
1 TTTT-TCTATATGACATCCATTCATACCAATTATGCATTGTT
1074801 TATATCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 4 0.11
46 33 0.89
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.49
Consensus pattern (45 bp):
TTTTTCTATATGACATCCATTCATACCAATTATGCATTGTTGTAC
Found at i:1075370 original size:20 final size:20
Alignment explanation
Indices: 1075345--1075517 Score: 78
Period size: 20 Copynumber: 7.7 Consensus size: 20
1075335 TTTATTTATG
1075345 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* * *
1075365 GCATCCTTTCATTTATTTCATTTAT
1 GCATCCTTTC----A-TGCCTTAAT
1075390 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1075411 GCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
* *
1075437 GGCCTCTTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1075458 ACATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
1075483 GACATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
1075504 GCAT-CTGTTCATGC
1 GCATCCT-TTCATGC
1075518 ATTTTTAGTT
Statistics
Matches: 115, Mismatches: 18, Indels: 40
0.66 0.10 0.23
Matches are distributed among these distances:
19 2 0.02
20 44 0.38
21 13 0.11
22 2 0.02
23 3 0.03
24 5 0.04
25 10 0.09
26 25 0.22
27 11 0.10
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1075390 original size:46 final size:46
Alignment explanation
Indices: 1075333--1075826 Score: 438
Period size: 46 Copynumber: 10.8 Consensus size: 46
1075323 TTATTCGTTA
**
1075333 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTT
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
1075379 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
1075425 ATTTTTAGTTATGGCCTCTTTTCATGCCTTAATACATCCTTTCATGC
1 A-TTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
1075472 ATTTCATTTATGACATCCTTTCATGCCTTAATGCAT-CTGTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATGC
* * * * *
1075518 ATTTTTAGTTAAGGCATCCTATCATTCCTTAATGCATTCTTTCATGC
1 A-TTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * * *
1075565 ATTTCACTTATGACATCCTTTCATGCCTTAATACATCCTTTAATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * * * *
1075611 ATTTCAGTTATGGCATCCTTTCATACCAATAATGCA-CCTAT-ATGT
1 ATTTTATTTATGGCATCCTTTCATGCC-TTAATGCATCCTTTCATGC
* ** **
1075656 ATTATTATTT-TGGCATCCTTGCATGTCGATAATGCA-CCCAT-ATGC
1 ATT-TTATTTATGGCATCCTTTCATG-CCTTAATGCATCCTTTCATGC
* ** ** *
1075701 ATCATTATTT-TGGCATATTTTCATGCCTATAATGCA-CCCAT-ATGT
1 AT-TTTATTTATGGCATCCTTTCATGCCT-TAATGCATCCTTTCATGC
**
1075746 ATTATTATTT-TGGCATCCTTTCATGCCTATAATGCA-CCAAT-ATGC
1 ATT-TTATTTATGGCATCCTTTCATGCCT-TAATGCATCCTTTCATGC
1075791 ATTATTATTT-TGGCATCCTTTCATGCCTATAATGCA
1 ATT-TTATTTATGGCATCCTTTCATGCCT-TAATGCA
1075827 CCCATATGCA
Statistics
Matches: 381, Mismatches: 57, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.00
45 146 0.38
46 149 0.39
47 83 0.22
48 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (46 bp):
ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:1075437 original size:93 final size:92
Alignment explanation
Indices: 1075334--1075826 Score: 468
Period size: 93 Copynumber: 5.4 Consensus size: 92
1075324 TATTCGTTAA
* *
1075334 TTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTTATTTCATTTATGGCATCCTT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGCATCCTT
1075399 TCATGCCTTAATGCATCCGTTCATGCAT
66 TCATGCCTTAATGCATCCGTT-ATGCAT
* * * * *
1075427 TTTTAGTTATGGCCTCTTTTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGACATCCTT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGCATCCTT
*
1075492 TCATGCCTTAATGCATCTGTTCATGCAT
66 TCATGCCTTAATGCATCCGTT-ATGCAT
* * * * * * *
1075520 TTTTAGTTAAGGCATCCTATCATTCCTTAATGCATTCTTTCATGCATTTCACTTATGACATCCTT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGCATCCTT
* *
1075585 TCATGCCTTAATACATCCTTTAATGCA-
66 TCATGCCTTAATGCATCCGTT-ATGCAT
* * * * *
1075612 TTTCAGTTATGGCATCCTTTCATACCAATAATGCA-CCTAT-ATGTATTATTATTT-TGGCATCC
1 TTTTAGTTATGGCATCCTTTCATGCC-TTAATGCATCCTTTCATGTATT-TCATTTATGGCATCC
* ** **
1075674 TTGCATGTCGATAATGCA-CCCATATGCAT
64 TTTCATG-CCTTAATGCATCCGTTATGCAT
** * ** ** *
1075703 CATTA-TTTTGGCATATTTTCATGCCTATAATGCA-CCCAT-ATGTATTATTATTT-TGGCATCC
1 TTTTAGTTATGGCATCCTTTCATGCCT-TAATGCATCCTTTCATGTATT-TCATTTATGGCATCC
**
1075764 TTTCATGCCTATAATGCA-CCAATATGCAT
64 TTTCATGCCT-TAATGCATCCGTTATGCAT
* *
1075793 TATTA-TTTTGGCATCCTTTCATGCCTATAATGCA
1 TTTTAGTTATGGCATCCTTTCATGCCT-TAATGCA
1075827 CCCATATGCA
Statistics
Matches: 341, Mismatches: 53, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
89 1 0.00
90 108 0.32
91 24 0.07
92 36 0.11
93 172 0.50
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (92 bp):
TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGCATCCTT
TCATGCCTTAATGCATCCGTTATGCAT
Found at i:1075576 original size:139 final size:139
Alignment explanation
Indices: 1075333--1075634 Score: 410
Period size: 139 Copynumber: 2.2 Consensus size: 139
1075323 TTATTCGTTA
* ** * *
1075333 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTTATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTAAGGCATCCT
* * * * * *
1075398 TTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCCTCTTTTCATGCCTTAATACATC
66 ATCATGCCTTAATGCATCCGTTCATGCATTTTCACTTATGACATCCTTTCATGCCTTAATACATC
*
1075463 CTTTCATGC
131 CTTTAATGC
* *
1075472 ATTTCATTTATGACATCCTTTCATGCCTTAATGCAT-CTGTTCATGCATTTTTAGTTAAGGCATC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATGCA-TTTCAGTTAAGGCATC
* * *
1075536 CTATCATTCCTTAATGCATTCTTTCATGCA-TTTCACTTATGACATCCTTTCATGCCTTAATACA
64 CTATCATGCCTTAATGCATCCGTTCATGCATTTTCACTTATGACATCCTTTCATGCCTTAATACA
1075600 TCCTTTAATGC
129 TCCTTTAATGC
*
1075611 ATTTCAGTTATGGCATCCTTTCAT
1 ATTTCATTTATGGCATCCTTTCAT
1075635 ACCAATAATG
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
138 2 0.01
139 101 0.71
140 39 0.27
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.45
Consensus pattern (139 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTAAGGCATCCT
ATCATGCCTTAATGCATCCGTTCATGCATTTTCACTTATGACATCCTTTCATGCCTTAATACATC
CTTTAATGC
Found at i:1075688 original size:45 final size:45
Alignment explanation
Indices: 1075336--1075847 Score: 371
Period size: 45 Copynumber: 11.2 Consensus size: 45
1075326 TTCGTTAATT
* *
1075336 TTATTTATGGCATCCTTTCATGCCT-TAATGCATCC-T-TTCATTTA
1 TTATTT-TGGCATCCTTTCATGCCTATAATGCACCCATATGCA-TTA
** *
1075380 TTTCATTTATGGCATCCTTTCATGCCT-TAATGCATCCGTTCATGCATTT
1 -TT-ATTT-TGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCATTA
* * * * **
1075429 TTAGTTATGGCCTCTTTTCATGCCT-TAATACATCCTTTCATGCATT-
1 TTA-TTTTGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCATTA
* * *** *
1075475 TCATTTATGACATCCTTTCATGCCT-TAATGCATCTGTTCATGCATTT
1 TTATTT-TGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCATTA
** * * * **
1075522 TTAGTTAAGGCATCCTATCATTCCT-TAATGCATTCTTTCATGCATT-
1 TTA-TTTTGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCATTA
* * * * **
1075568 TCACTTATGACATCCTTTCATGCCT-TAATACATCCTTTAATGCATT-
1 TTA-TTTTGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCATTA
* * * * * *
1075614 TCAGTTATGGCATCCTTTCATACCAATAATGCACCTATATGTATTA
1 TTA-TTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
* * * *
1075660 TTATTTTGGCATCCTTGCATGTCGATAATGCACCCATATGCATCA
1 TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
** *
1075705 TTATTTTGGCATATTTTCATGCCTATAATGCACCCATATGTATTA
1 TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
*
1075750 TTATTTTGGCATCCTTTCATGCCTATAATGCACCAATATGCATTA
1 TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
1075795 TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
1 TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
1075840 TTATTTTG
1 TTATTTTG
1075848 TTCATTCATT
Statistics
Matches: 393, Mismatches: 63, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
45 175 0.45
46 129 0.33
47 77 0.20
48 7 0.02
49 2 0.01
50 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (45 bp):
TTATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTA
Found at i:1076742 original size:79 final size:79
Alignment explanation
Indices: 1076581--1076763 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 79
1076571 ACCCCTTTAG
* * *
1076581 TATGGGTACATTGTCGGCATAAAAGAATAATGCATCTGGGTGCATTAATGGCATGAAAAGATGCC
1 TATGGGTACATTATCGGCATAAAAGAATAATGCATATGGGTGCATTAATGACATGAAAAGATGCC
** * *
1076646 TTAGCTTATATGTA
66 AAAGCTTAAATGCA
* *
1076660 TATGGGTACATTATCGGCATAACAA-AATAATGCATATGGGTGCATTATTGACATGAAAGGATGC
1 TATGGGTACATTATCGGCATAA-AAGAATAATGCATATGGGTGCATTAATGACATGAAAAGATGC
1076724 CAAAG-TTGAAATGCA
65 CAAAGCTT-AAATGCA
**
1076739 TATGGGT-CATTATCAACATAAAAGA
1 TATGGGTACATTATCGGCATAAAAGA
1076764 GGAAATCATA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
77 2 0.02
78 15 0.17
79 71 0.79
80 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
TATGGGTACATTATCGGCATAAAAGAATAATGCATATGGGTGCATTAATGACATGAAAAGATGCC
AAAGCTTAAATGCA
Found at i:1076948 original size:59 final size:60
Alignment explanation
Indices: 1076763--1076968 Score: 306
Period size: 60 Copynumber: 3.5 Consensus size: 60
1076753 AACATAAAAG
1076763 AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAAATGATA
1 AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAAATGATA
* * *
1076823 AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGGACTTTGTGTGATAAAAGGATA
1 AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAAATGATA
* * * * * *
1076883 AGGAAATCACACTAAGTGTAT-AATTTCTAGATAAGGGTACTTCGTGTTCTAAAATGACA
1 AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAAATGATA
* *
1076942 AAGAAATCATACTAAGTATATGAATTT
1 AGGAAATCATACTAAGTGTATGAATTT
1076969 TCGTATAGGA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
59 49 0.37
60 82 0.63
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (60 bp):
AGGAAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAAATGATA
Found at i:1081505 original size:81 final size:81
Alignment explanation
Indices: 1081386--1081540 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 81
1081376 CCCAAAGGCC
* * *
1081386 TTTAGCCTTTCACCTAACTTGCATAATTGACACTTTTCTGCCGC-TTGCACAGCTAGGCCATTAA
1 TTTAACCTTTCACCTAACTGGCATAATTGACACCTTTCTGCC-CATTGCACAGCTAGGCCATTAA
1081450 TCTTTTACTCAAATGTA
65 TCTTTTACTCAAATGTA
* *
1081467 TTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCCAATTGCACATCTAGGCCATTAA
1 TTTAACCTTTCACCTAACTGGCATAATTGACACCTTTCTGCCC-ATTGCACAGCTAGGCCATTAA
1081532 TCTTTTACT
65 TCTTTTACT
1081541 TTAGAACTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 38 0.57
82 28 0.42
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.37
Consensus pattern (81 bp):
TTTAACCTTTCACCTAACTGGCATAATTGACACCTTTCTGCCCATTGCACAGCTAGGCCATTAAT
CTTTTACTCAAATGTA
Found at i:1081916 original size:20 final size:20
Alignment explanation
Indices: 1081891--1082037 Score: 123
Period size: 20 Copynumber: 6.7 Consensus size: 20
1081881 TTCATTTATG
1081891 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
1081911 GCATCCTTTTATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1081931 GCATCATTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
1081956 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* * *
1081977 GCATTCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
1082003 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
1082024 GCATCCTTTCATGC
1 GCATCCTTTCATGC
1082038 ATTTCATTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
20 57 0.56
21 6 0.06
22 1 0.01
23 3 0.03
24 4 0.04
25 4 0.04
26 15 0.15
27 12 0.12
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1082021 original size:47 final size:46
Alignment explanation
Indices: 1081911--1082063 Score: 236
Period size: 46 Copynumber: 3.3 Consensus size: 46
1081901 ATGCCTTAAT
*
1081911 GCATCCTTTTATGCCTTAATGCA-TCATTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATTC-TTTCATGCATTTCATTTATG
* * *
1081957 GCATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATTCTTTCATGCA-TTTCATTTATG
*
1082004 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATTCTTTCATGCATTTCATTTATG
1082050 GCATCCTTTCATGC
1 GCATCCTTTCATGC
1082064 ATTTTAGTTA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 53 0.55
47 44 0.45
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATTCTTTCATGCATTTCATTTATG
Found at i:1082055 original size:26 final size:26
Alignment explanation
Indices: 1082024--1082087 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
1082014 ATGCCTTAAT
*
1082024 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCAGTTATG
*
1082050 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTCAGTTATG
*
1082076 GTATCCTTTCAT
1 GCATCCTTTCAT
1082088 ACTAATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTCAGTTATG
Found at i:1082133 original size:71 final size:73
Alignment explanation
Indices: 1081984--1082134 Score: 188
Period size: 72 Copynumber: 2.1 Consensus size: 73
1081974 AATGCATTCG
* *
1081984 TTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTAT
1 TTCATGCATTTTTAGTTATGGCATCCTTTCATGACTTAATGCATCCTATCATGCATTTCATTTAT
1082049 GGCATCCT
66 GGCATCCT
* *
1082057 TTCATGCA-TTTTAGTTATGGTATCCTTTCAT-ACTAATAATGCAAT-C-AT-ATGCATTATTAT
1 TTCATGCATTTTTAGTTATGGCATCCTTTCATGACT--TAATGC-ATCCTATCATGCATT-TCAT
1082117 TT-TGGCATCCT
62 TTATGGCATCCT
1082128 TTCATGC
1 TTCATGC
1082135 CAATAATGGA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
71 25 0.36
72 28 0.40
73 15 0.21
74 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (73 bp):
TTCATGCATTTTTAGTTATGGCATCCTTTCATGACTTAATGCATCCTATCATGCATTTCATTTAT
GGCATCCT
Found at i:1082209 original size:44 final size:45
Alignment explanation
Indices: 1082060--1082254 Score: 261
Period size: 45 Copynumber: 4.4 Consensus size: 45
1082050 GCATCCTTTC
* * * **
1082060 ATGCATT-TTAGTTATGGTATCCTTTCAT-ACTAATAATGCAATCAT
1 ATGCATTATTA-TTTTGGCATCCTTTCATGCCT-ATAATGCACCCAT
* *
1082105 ATGCATTATTATTTTGGCATCCTTTCATGCCAATAATGGACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* *
1082150 ATGCATTATTATTTTGACATCCTTTCATGTCTATAATGCA-CCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1082194 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
*
1082239 ATACATTATTATTTTG
1 ATGCATTATTATTTTG
1082255 TTCATTCATT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
44 42 0.32
45 87 0.65
46 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (45 bp):
ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
Found at i:1082215 original size:89 final size:90
Alignment explanation
Indices: 1082078--1082254 Score: 286
Period size: 89 Copynumber: 2.0 Consensus size: 90
1082068 TAGTTATGGT
*
1082078 ATCCTTTCATACTAATAATGCAATCATATGCATTATTATTTTGGCATCCTTTCATGCCAATAATG
1 ATCCTTTCATACTAATAATGCAACCATATGCATTATTATTTTGGCATCCTTTCATGCCAATAATG
* *
1082143 GACCCATATGCATTATTATTTTGAC
66 CACCCATATACATTATTATTTTGAC
* *
1082168 ATCCTTTCATGTCT-ATAATGC-ACCATATGCATTATTATTTTGGCATCCTTTCATGCCTATAAT
1 ATCCTTTCAT-ACTAATAATGCAACCATATGCATTATTATTTTGGCATCCTTTCATGCCAATAAT
1082231 GCACCCATATACATTATTATTTTG
65 GCACCCATATACATTATTATTTTG
1082255 TTCATTCATT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 62 0.77
90 17 0.21
91 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (90 bp):
ATCCTTTCATACTAATAATGCAACCATATGCATTATTATTTTGGCATCCTTTCATGCCAATAATG
CACCCATATACATTATTATTTTGAC
Found at i:1082824 original size:95 final size:94
Alignment explanation
Indices: 1082680--1082856 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 94
1082670 CTACTCTGGA
* * * *
1082680 ATCGATACTTCTATACTATGGTAGTGATACCCCCTTTCGATATCGATACCATTTCT-ATATTCTG
1 ATCGATACTACTATACTATGGTAATGATACCCCCTTTCGATATCAATACCATTT-TGACATTCTG
*
1082744 CATTGCATGGTATCGATACCCTTCTTTCAGT
65 CA-TCCATGGTATCGATACCCTTCTTTCAGT
*
1082775 ATCGATACTACTATACTATGG-AATCGATACTCCCTTTC-AGTATCAATACCATTTTGACATTCT
1 ATCGATACTACTATACTATGGTAAT-GATACCCCCTTTCGA-TATCAATACCATTTTGACATTCT
*
1082838 GGATCCATGGTATCGATAC
64 GCATCCATGGTATCGATAC
1082857 TTCCCTTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
94 19 0.26
95 53 0.74
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (94 bp):
ATCGATACTACTATACTATGGTAATGATACCCCCTTTCGATATCAATACCATTTTGACATTCTGC
ATCCATGGTATCGATACCCTTCTTTCAGT
Found at i:1085459 original size:137 final size:135
Alignment explanation
Indices: 1085283--1085653 Score: 446
Period size: 137 Copynumber: 2.7 Consensus size: 135
1085273 GATTATTCAT
*
1085283 TTTTAAAACTTATTCCTTAAATTAGGGGAATTTTTATTTGGTCCTCGTTTTTATTCGAGGTTCCA
1 TTTTCAAACTTA-TCCTTAAATTA-GGGAATTTTTATTTGGTCCTCGTTTTTATTCGAGGTTCCA
* * *
1085348 TTTTAATTTTTTGAATCAAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCTATTTT
64 TTTTAATTATTCGAATCAAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTTT
*
1085413 AGATTTA
129 AGACTTA
* * * *
1085420 TTTTCAAACTTAGTCCTTAAATTAGGGATTTTTTAATTTGGTCATCGTTTTT-TCTCGAAGTTCT
1 TTTTCAAACTTA-TCCTTAAATTAGGGAATTTTT-ATTTGGTCCTCGTTTTTAT-TCGAGGTTCC
*
1085484 ATTTTAATTATTCGAATCAAGTAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTT
63 ATTTTAATTATTCGAATCAAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTT
*
1085549 TAGGCTTA
128 TAGACTTA
* * * *
1085557 ATTTCATAAC-TATACCTT-TATCTAGGAGAATTTTTGATTTGGTCCTCGTTATGATT-GAGGTT
1 TTTTCA-AACTTAT-CCTTAAAT-TAGG-GAATTTTT-ATTTGGTCCTCGTTTTTATTCGAGGTT
* * * *
1085619 CCATTTTGACTATTCGATTC-AATAATTTATTAAAA
61 CCATTTTAATTATTCGAATCAAATAATTGATTAAAA
1085654 ATGATTTTGA
Statistics
Matches: 201, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
136 26 0.13
137 149 0.74
138 25 0.12
139 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (135 bp):
TTTTCAAACTTATCCTTAAATTAGGGAATTTTTATTTGGTCCTCGTTTTTATTCGAGGTTCCATT
TTAATTATTCGAATCAAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCATTTTAG
ACTTA
Found at i:1088081 original size:16 final size:16
Alignment explanation
Indices: 1088060--1088090 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1088050 ATAAAATAAT
1088060 GATTCATGGTATTTAA
1 GATTCATGGTATTTAA
1088076 GATTCATGGTATTTA
1 GATTCATGGTATTTA
1088091 TTTCCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (16 bp):
GATTCATGGTATTTAA
Found at i:1091566 original size:27 final size:26
Alignment explanation
Indices: 1091511--1091568 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
1091501 TAAAGGTATT
*
1091511 TTTTTGTAATTTTACCCCATACGAATA
1 TTTTTGTAATTTTA-CCCAAACGAATA
1091538 TTTTTGTAATTTTA-CCAAACAGAAGTA
1 TTTTTGTAATTTTACCCAAAC-GAA-TA
1091565 TTTT
1 TTTT
1091569 CATAACTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 5 0.18
26 3 0.11
27 20 0.71
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTTTGTAATTTTACCCAAACGAATA
Found at i:1095345 original size:22 final size:22
Alignment explanation
Indices: 1095319--1095364 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1095309 CTGAGTAAAC
*
1095319 TTATATAAAAT-TTATAAAAATT
1 TTATAGAAAATATT-TAAAAATT
*
1095341 TTATAGAAAGTATTTAAAAATT
1 TTATAGAAAATATTTAAAAATT
1095363 TT
1 TT
1095365 GTTAGATCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TTATAGAAAATATTTAAAAATT
Found at i:1096140 original size:14 final size:14
Alignment explanation
Indices: 1096115--1096151 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1096105 ATTTCTAATC
1096115 TTTATGTTATACATA
1 TTTAT-TTATACATA
1096130 TTTATTTATACATA
1 TTTATTTATACATA
*
1096144 TTTTTTTA
1 TTTATTTA
1096152 ATAATTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTATTTATACATA
Found at i:1099875 original size:4 final size:5
Alignment explanation
Indices: 1099846--1099878 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
1099836 CAAATGCATG
1099846 AATAA TAATAA AATAA AATAA AAT-A AATAA AAT
1 AATAA -AATAA AATAA AATAA AATAA AATAA AAT
1099879 TTAAGGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:1099875 original size:9 final size:10
Alignment explanation
Indices: 1099846--1099878 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
1099836 CAAATGCATG
1099846 AATAATAATAA
1 AATAA-AATAA
1099857 AATAAAATAA
1 AATAAAATAA
1099867 AAT-AAATAA
1 AATAAAATAA
1099876 AAT
1 AAT
1099879 TTAAGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAAATAA
Found at i:1102519 original size:131 final size:131
Alignment explanation
Indices: 1102161--1102533 Score: 436
Period size: 130 Copynumber: 2.9 Consensus size: 131
1102151 AGAGATTTTT
* *
1102161 GAAGATCAAATCT--AAAAAGAGATATGCTCCGCTGCTCTTCAGGGTAGATC-AGATCTGGAAAT
1 GAAGATCAAATCTGAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGATCAAG-TATGGAAAT
* * * * * * *
1102223 GTTGATTTACTTCACTGCTCTTCAGGGAAGATTGAATTGAGGTAGATTTGTTTCACTGCTCCCCA
65 GTTGATTCACTCCACTACTCTTCAGGGAAGATTGAATCGAGTTTGATTTGTTTCAATGCTCCCCA
1102288 GG
130 GG
* * ** * *
1102290 GAAGATCAAATATGAAAAAA-GGATTTGCTCAACTGCTCTTTAGGGTAGATCAAATATGGAAATG
1 GAAGATCAAATCTGAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGATCAAGTATGGAAATG
* * *
1102354 TTGATTC-CATCAACTACTCTTTAGGGAAGATTGAATCGAGTTTGATTTG-TTCTAATGCTCCTC
66 TTGATTCAC-TCCACTACTCTTCAGGGAAGATTGAATCGAGTTTGATTTGTTTC-AATGCTCCCC
1102417 AGG
129 AGG
** * * **
1102420 GAAGATCAAATCTGAAAAAAGGGATATGCTCCGCTTTTCTTCAAGGTAGATCAAGTATGAAAACA
1 GAAGATCAAATCTGAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGATCAAGTATGGAAATG
*
1102485 TTGATTCACTCCACTACTCTTCAAGGAAGATTGAATC-AGATTTGATTTG
66 TTGATTCACTCCACTACTCTTCAGGGAAGATTGAATCGAG-TTTGATTTG
1102534 ATTATATATC
Statistics
Matches: 203, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
129 16 0.08
130 106 0.52
131 80 0.39
132 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (131 bp):
GAAGATCAAATCTGAAAAAAGGGATATGCTCCGCTGCTCTTCAGGGTAGATCAAGTATGGAAATG
TTGATTCACTCCACTACTCTTCAGGGAAGATTGAATCGAGTTTGATTTGTTTCAATGCTCCCCAG
G
Found at i:1103876 original size:23 final size:25
Alignment explanation
Indices: 1103840--1103896 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
1103830 ACCCATATTT
1103840 TATTTATTTTCTCTCTTTT-TTCTTA
1 TATTT-TTTTCTCTCTTTTATTCTTA
* *
1103865 -ATTTTTTTCTCTTTTTTATTTTTA
1 TATTTTTTTCTCTCTTTTATTCTTA
1103889 TATTTTTT
1 TATTTTTT
1103897 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (25 bp):
TATTTTTTTCTCTCTTTTATTCTTA
Found at i:1113271 original size:26 final size:26
Alignment explanation
Indices: 1113236--1113285 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1113226 TGAAAATAAA
1113236 ATAAAC-AAAAATAAGGACCTAAATGC
1 ATAAACAAAAAATAAGGA-CTAAATGC
* *
1113262 ATAAATAAAAAATAATGACTAAAT
1 ATAAACAAAAAATAAGGACTAAAT
1113286 TGCAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.20
Consensus pattern (26 bp):
ATAAACAAAAAATAAGGACTAAATGC
Found at i:1114370 original size:19 final size:20
Alignment explanation
Indices: 1114346--1114390 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
1114336 CGGGGTAGCA
1114346 GCATGGTGGAT-AGGAG-AGG
1 GCATGGT-GATAAGGAGCAGG
1114365 GCATGGTGATAAGGAGCAGG
1 GCATGGTGATAAGGAGCAGG
1114385 GCATGG
1 GCATGG
1114391 CAGCAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 12 0.50
20 9 0.38
ACGTcount: A:0.27, C:0.09, G:0.49, T:0.16
Consensus pattern (20 bp):
GCATGGTGATAAGGAGCAGG
Found at i:1116568 original size:19 final size:20
Alignment explanation
Indices: 1116544--1116586 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1116534 AGCATTTATC
*
1116544 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
1116563 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
1116583 TTCA
1 TTCA
1116587 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Done.