Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 3 of 135
Found at i:691447 original size:7 final size:8
Alignment explanation
Indices: 691432--691484 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
691422 TAAAACATTA
691432 TATTTTTT
1 TATTTTTT
691440 TATTTTTT
1 TATTTTTT
691448 TATTTTTT
1 TATTTTTT
*
691456 TGAATTTTTA
1 T--ATTTTTT
* *
691466 AAGTTTTTA
1 TA-TTTTTT
691475 TATTTTTT
1 TATTTTTT
691483 TA
1 TA
691485 AAGGGATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 25 0.66
9 7 0.18
10 6 0.16
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (8 bp):
TATTTTTT
Found at i:702664 original size:3 final size:3
Alignment explanation
Indices: 702658--702700 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
702648 AAAGTGACAT
702658 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
702701 AATAGATGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:705872 original size:18 final size:16
Alignment explanation
Indices: 705838--705891 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 16
705828 ATTGTGCATA
705838 TTATATATTTTTTATTT
1 TTATA-ATTTTTTATTT
705855 TTATAATTTTTTGAATTT
1 TTATAATTTTTT--ATTT
705873 TTA-AAGTTTTTTTATTT
1 TTATAA--TTTTTTATTT
705890 TT
1 TT
705892 TTAAAGGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.21
17 13 0.39
18 7 0.21
19 6 0.18
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (16 bp):
TTATAATTTTTTATTT
Found at i:705892 original size:18 final size:17
Alignment explanation
Indices: 705845--705891 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
705835 ATATTATATA
705845 TTTTTTATTTTTATAA-T
1 TTTTTTATTTTTA-AAGT
*
705862 TTTTTGAATTTTTAAAGT
1 TTTTT-TATTTTTAAAGT
705880 TTTTTTATTTTT
1 TTTTTTATTTTT
705892 TTAAAGGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTAAAGT
Found at i:711803 original size:513 final size:513
Alignment explanation
Indices: 710826--712902 Score: 3823
Period size: 513 Copynumber: 4.0 Consensus size: 513
710816 TTCTGATGGG
* * * *
710826 ATTTGA-CACGATAAACCTTGGTGATGCAAATGGCTTATTCGCAAGCAACTCCCAGTCGATGACT
1 ATTTGAGCACCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
* *
710890 GTGAAGAGGTCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAATGT
66 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
*
710955 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATGATTCGGATCTTAT
131 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
*
711020 TTGTTGTAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
196 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
* * *
711085 GGCGTCTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAATATTTTT
261 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
711150 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
326 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
* * * *
711215 ATTTGGCCCTTTCCACCTCAAATTTTGTGTATGGACTGAAAGCCAAAGTTTCCAAAAATTTGAGA
391 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
711280 TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
456 TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
* *
711338 ATTTGAGCACCATAAACCTTGGTGACGCAAATGGCTTAATCGCAAGCAATTCCCAGTCGATGACT
1 ATTTGAGCACCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
*
711403 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAATGT
66 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
711468 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
131 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
*
711533 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATTGGCCTTCCTCC
196 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
*
711598 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTTTGAGTTTCCAGTGATGGAAACATTTTT
261 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
*
711663 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGT
326 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
711728 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
391 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
* *
711793 TACCCATGACAATTGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCGC
456 TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
*
711851 ATTTGAGCACCATAAGCCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
1 ATTTGAGCACCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
711916 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
66 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
711981 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
131 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
*
712046 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACATCGTGCACGACTCCTCGGATCGGCCTTCCTCC
196 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
712111 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
261 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
712176 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
326 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
* *
712241 ATTTGGCCCTCTCCACCTCAAATTTTGTGTGTGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGG
391 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
*
712306 TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCGC
456 TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
* *
712364 ATTCGAGCGCCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
1 ATTTGAGCACCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
712429 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
66 GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
*
712494 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATGATTCGGATCTTAT
131 TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
*
712559 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGAATCGGCCTTCCTCC
196 TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
712624 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
261 GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
712689 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
326 GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
712754 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
391 ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
*
712819 TACCCATGACAATCGTAACTCTCATCATGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
456 TACCCATGACAATCGTAA--CTC-TCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
712880 ATTTGAGCACCATAAACCTTGGC
1 ATTTGAGCACCATAAACCTTGGC
712903 CATGCAATTG
Statistics
Matches: 1519, Mismatches: 42, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
512 6 0.00
513 1454 0.96
515 3 0.00
516 56 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (513 bp):
ATTTGAGCACCATAAACCTTGGCGACGCAAATGGCTTATTCGCAAGCAATTCCCAGTCGATGACT
GTGAAGAGATCACAGGAATTACCATCGAAAACATTGTAGTTTGCCAGCACACAGTTATTAAACGT
TGGAGAATCTACCCACCATAAGCATAAATAGCAACCTGATTGCACATGCATAATTCGGATCTTAT
TTGTTGCAGTGTCCACTGGGATAAGCTTGAACAACGTGCACGACTCCTCGGATCGGCCTTCCTCC
GGCTTGTCGGCTGCTGCAGAAATCCAATACTGCTCTTCTGAGTTTCCAGTGATGGAAACATTTTT
GACTCGTTTGCAGTATTTGTTGTTGTGGCAGCTCTTTATGTGCACCAACCCATCTTCCCCACTGC
ATTTGGCCCTCTCCACCTCAAATTTTGTGTATGGACTGCAAGCCAAAGTTTCCGAAAATCTGAGA
TACCCATGACAATCGTAACTCTCGTGCATATAGCTCAAATATTTGTTCCTCGCCTCAC
Found at i:713233 original size:14 final size:14
Alignment explanation
Indices: 713214--713240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
713204 TTTATTTTAA
713214 ATTTAAATTTACTC
1 ATTTAAATTTACTC
713228 ATTTAAATTTACT
1 ATTTAAATTTACT
713241 TAAGTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:713303 original size:13 final size:13
Alignment explanation
Indices: 713285--713313 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
713275 AAATTAAAAT
713285 CAAAGTCCATTTA
1 CAAAGTCCATTTA
713298 CAAAGTCCATTTA
1 CAAAGTCCATTTA
713311 CAA
1 CAA
713314 GGGCCCGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (13 bp):
CAAAGTCCATTTA
Found at i:715265 original size:59 final size:59
Alignment explanation
Indices: 715106--715536 Score: 670
Period size: 59 Copynumber: 7.3 Consensus size: 59
715096 GGACTGTCCG
*
715106 AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * ** *
715165 AAAATTA-CATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACTA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
715223 AAAATTACTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCA
715282 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
715341 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
715400 AAAATTACCATTTTATCCCTAAACTTTCCAAAATT-CAATTTTAAACCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
715458 AAAATTACCATTTTATCCCTAAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
715517 AAAATTACTATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
715537 GAGTACCCAA
Statistics
Matches: 341, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
58 106 0.31
59 234 0.69
60 1 0.00
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:715456 original size:176 final size:177
Alignment explanation
Indices: 715106--715536 Score: 679
Period size: 176 Copynumber: 2.4 Consensus size: 177
715096 GGACTGTCCG
*
715106 AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* * * *
715171 A-CATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACTAAAAATTACTATT
66 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATT
* *
715235 TTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCA
131 TTACCCCCAAACTTTCCAAAATTCAATTTTAAACCCCAGTTTCACCA
715282 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
715347 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGA-CCTCGATTTCACCAAAAATTACCAT
66 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCACCAAAAATTACCAT
* * *
715411 TTTATCCCTAAACTTTCCAAAATTCAATTTTAAACCCGA-TTTCACCA
130 TTTACCCCCAAACTTTCCAAAATTCAATTTTAAACCCCAGTTTCACCA
* * *
715458 AAAATTACCATTTTATCCCTAAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
715523 ACTATTTTGCCCCC
66 ACCATTTTACCCCC
715537 GAGTACCCAA
Statistics
Matches: 236, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
176 150 0.64
177 86 0.36
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (177 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATT
TTACCCCCAAACTTTCCAAAATTCAATTTTAAACCCCAGTTTCACCA
Found at i:715510 original size:117 final size:117
Alignment explanation
Indices: 715106--715536 Score: 650
Period size: 117 Copynumber: 3.7 Consensus size: 117
715096 GGACTGTCCG
*
715106 AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* * * * * *
715171 A-CATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACTA
66 ACCATTTTACCCCCAAACTTTCCAAAATTCAATTTTAAACCC-GATTTCACCA
*
715223 AAAATTACTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCACCAAAAAT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAAT
* *
715287 TACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
65 TACCATTTTACCCCCAAACTTTCCAAAATT-CAATTTTAAACCCGATTTCACCA
* *
715341 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
715406 ACCATTTTATCCCTAAACTTTCCAAAATTCAATTTTAAACCCGATTTCACCA
66 ACCATTTTACCCCCAAACTTTCCAAAATTCAATTTTAAACCCGATTTCACCA
* * *
715458 AAAATTACCATTTTATCCCTAAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
715523 ACTATTTTGCCCCC
66 ACCATTTTACCCCC
715537 GAGTACCCAA
Statistics
Matches: 284, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
116 1 0.00
117 153 0.54
118 120 0.42
119 10 0.04
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCCCAAACTTTCCAAAATTCAATTTTAAACCCGATTTCACCA
Found at i:716956 original size:21 final size:20
Alignment explanation
Indices: 716921--716964 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
716911 TTGATAAAAT
* *
716921 AAATAGTATATTATTTTTTA
1 AAATAGTAAATTATTTTTAA
716941 AAATACGTAAATTATTTTTAA
1 AAATA-GTAAATTATTTTTAA
716962 AAA
1 AAA
716965 AATCGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATAGTAAATTATTTTTAA
Found at i:716958 original size:20 final size:20
Alignment explanation
Indices: 716921--716963 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
716911 TTGATAAAAT
*
716921 AAATAGTATATTATTTTTTA
1 AAATAGTAAATTATTTTTTA
716941 AAATACGTAAATTA-TTTTTA
1 AAATA-GTAAATTATTTTTTA
716961 AAA
1 AAA
716964 AAATCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
AAATAGTAAATTATTTTTTA
Found at i:734610 original size:31 final size:31
Alignment explanation
Indices: 734575--734633 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
734565 AACCAGTTAC
*
734575 TTAAATAAAAACTTTCAAATAGTTCAATGAT
1 TTAAATAAAAACTTTCAAATAATTCAATGAT
* * *
734606 TTAAATGAAAATTTTCTAATAATTCAAT
1 TTAAATAAAAACTTTCAAATAATTCAAT
734634 CACCATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTCAATGAT
Found at i:737754 original size:18 final size:18
Alignment explanation
Indices: 737731--737775 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
737721 AACATTTTCC
737731 TTTAATTAATTTAAAATT-
1 TTTAATTAA-TTAAAATTA
*
737749 TTTAATTAATTAAATTTA
1 TTTAATTAATTAAAATTA
737767 TTTAATTAA
1 TTTAATTAA
737776 AAAAATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTAATTAAAATTA
Found at i:739243 original size:17 final size:18
Alignment explanation
Indices: 739200--739245 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
739190 ATATTATATA
*
739200 TTTT-TATTTTTATAATT
1 TTTTATATTTTTATAAGT
739217 TTTTGA-ATTTTTA-AAGT
1 TTTT-ATATTTTTATAAGT
739234 TTTTATATTTTT
1 TTTTATATTTTT
739246 TTAAAGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTATATTTTTATAAGT
Found at i:746110 original size:39 final size:39
Alignment explanation
Indices: 746067--746145 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
746057 AGTGTTTTTT
*
746067 TTATCATTTGGATCACATAATAATGAAATATTATTGCAA
1 TTATCATTTGGATCACACAATAATGAAATATTATTGCAA
*
746106 TTATCATTTGGATCACACAATGATGAAATATTATTGCAA
1 TTATCATTTGGATCACACAATAATGAAATATTATTGCAA
746145 T
1 T
746146 ATTAAACGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (39 bp):
TTATCATTTGGATCACACAATAATGAAATATTATTGCAA
Found at i:753007 original size:29 final size:29
Alignment explanation
Indices: 752956--753013 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
752946 TTGTGGAAGA
* *
752956 GGTGAACAACTTGTTCATTGAGAGTTCGT
1 GGTGAACAACTTGTTCATAGAGAATTCGT
* *
752985 GGTGAAGAACTTGTTCGTAGAGAATTCGT
1 GGTGAACAACTTGTTCATAGAGAATTCGT
753014 ATCAAGGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (29 bp):
GGTGAACAACTTGTTCATAGAGAATTCGT
Found at i:760976 original size:24 final size:24
Alignment explanation
Indices: 760949--760999 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
760939 CTGAGTTTAT
*
760949 AGCCTTAGTGGCTACGGGTAAGGA
1 AGCCTTAGCGGCTACGGGTAAGGA
760973 AGCCTTAGCGGCTACGGGTAAGGA
1 AGCCTTAGCGGCTACGGGTAAGGA
760997 AGC
1 AGC
761000 GAGATGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.37, T:0.18
Consensus pattern (24 bp):
AGCCTTAGCGGCTACGGGTAAGGA
Found at i:781620 original size:59 final size:59
Alignment explanation
Indices: 781556--781811 Score: 352
Period size: 59 Copynumber: 4.3 Consensus size: 59
781546 GAAAATTCGG
* *
781556 GGTTAAAAAT-GAGATTTTGGAAGGTTCGAGGGTAAAACGGTAATTTTCGGTGAAACCGA
1 GGTTAAAAATGGA-ATTTTGGAAAGTTCGAGGATAAAACGGTAATTTTCGGTGAAACCGA
* *
781615 AGTTAAAAATGGAATTTTGGAAAGTTCTAGGATAAAACGGTAATTTTCGGTGAAACCGA
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGATAAAACGGTAATTTTCGGTGAAACCGA
* * * *
781674 GGTTAAAAATGGAATTTTGGAAAGTTCTAGGATAAGACGGTAATTTTCGGTGAAATCGG
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGATAAAACGGTAATTTTCGGTGAAACCGA
* * * * * * *
781733 GGTTAAAAAGGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGG
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGATAAAACGGTAATTTTCGGTGAAACCGA
*
781792 GGTTAAAAATAGAATTTTGG
1 GGTTAAAAATGGAATTTTGG
781812 TGAAATTGGG
Statistics
Matches: 179, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
59 177 0.99
60 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTGGAAAGTTCGAGGATAAAACGGTAATTTTCGGTGAAACCGA
Found at i:781659 original size:29 final size:29
Alignment explanation
Indices: 781627--781720 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
781617 TTAAAAATGG
781627 AATTTTGGAAAGTTCTAGGATAAAACGGT
1 AATTTTGGAAAGTTCTAGGATAAAACGGT
* * * *
781656 AATTTTCGGTGAAA--CCGAGGTTAAAAATGG-
1 AATTTT--G-GAAAGTTCTAGGAT-AAAACGGT
*
781686 AATTTTGGAAAGTTCTAGGATAAGACGGT
1 AATTTTGGAAAGTTCTAGGATAAAACGGT
781715 AATTTT
1 AATTTT
781721 CGGTGAAATC
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
27 4 0.08
28 6 0.12
29 17 0.35
30 11 0.22
31 7 0.14
32 4 0.08
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.32
Consensus pattern (29 bp):
AATTTTGGAAAGTTCTAGGATAAAACGGT
Found at i:781812 original size:29 final size:29
Alignment explanation
Indices: 781715--781822 Score: 114
Period size: 29 Copynumber: 3.7 Consensus size: 29
781705 ATAAGACGGT
*
781715 AATTTTCGGTGAAATCGGGGTTAAAAAGGG
1 AATTTT-GGTGAAATCGGGGTTAAAAATGG
*
781745 AATTTT-G-GAAAGTTCGGGGGT-AAAATGG
1 AATTTTGGTGAAA--TCGGGGTTAAAAATGG
*
781773 TAATTTTTGGTGAAATCGGGGTTAAAAATAG
1 -AA-TTTTGGTGAAATCGGGGTTAAAAATGG
*
781804 AATTTTGGTGAAATTGGGG
1 AATTTTGGTGAAATCGGGG
781823 ACCTATAGAC
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.06
28 7 0.11
29 25 0.38
30 19 0.29
31 7 0.11
32 4 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.31
Consensus pattern (29 bp):
AATTTTGGTGAAATCGGGGTTAAAAATGG
Found at i:783662 original size:13 final size:14
Alignment explanation
Indices: 783644--783673 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
783634 GACTTTTTTT
783644 TAAATTT-AATTTA
1 TAAATTTAAATTTA
783657 TAAATTTAAATTTA
1 TAAATTTAAATTTA
783671 TAA
1 TAA
783674 TAAACTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTTAAATTTA
Found at i:783666 original size:6 final size:6
Alignment explanation
Indices: 783642--783731 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
783632 TGGACTTTTT
* * *
783642 TTTAAA TTTAAT TTATAAA TTTAAA TTTATAA --TAAA CTTAAA TTT-TA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA
* * * * *
783689 TGTAAA TTTAAA TTTAAA -ATAAA TCTAAT TTTAAA ATTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
783732 ATATCCCATT
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.03
5 9 0.14
6 46 0.72
7 7 0.11
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:783682 original size:17 final size:17
Alignment explanation
Indices: 783642--783731 Score: 74
Period size: 17 Copynumber: 5.1 Consensus size: 17
783632 TGGACTTTTT
*
783642 TTTAAATTTAATTTATAAA
1 TTTAAATTT-A-TAATAAA
783661 TTTAAATTTATAATAAA
1 TTTAAATTTATAATAAA
* *
783678 CTTAAATTT-TATGTAAA
1 TTTAAATTTATA-ATAAA
*
783695 TTTAAATTTAAAATAAA
1 TTTAAATTTATAATAAA
* * *
783712 TCTAATTTTAAAATTAAA
1 TTTAAATTTATAA-TAAA
783730 TT
1 TT
783732 ATATCCCATT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.03
17 41 0.69
18 7 0.12
19 9 0.15
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (17 bp):
TTTAAATTTATAATAAA
Found at i:798429 original size:12 final size:12
Alignment explanation
Indices: 798414--798440 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
798404 AAAACGACAC
798414 AGAAAAAGAAGA
1 AGAAAAAGAAGA
798426 AGAAAAAGAAGA
1 AGAAAAAGAAGA
798438 AGA
1 AGA
798441 GACATAGACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAGA
Found at i:798567 original size:23 final size:24
Alignment explanation
Indices: 798535--798601 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
798525 ATCTTTAAGT
*
798535 TAAACTCTGTTTAATTGTTTCAAA
1 TAAACTCTGTTTATTTGTTTCAAA
* *
798559 TAAAC-CTGTTTATTTATTTCAAT
1 TAAACTCTGTTTATTTGTTTCAAA
798582 TAAACTCTGTTTATTTGTTT
1 TAAACTCTGTTTATTTGTTT
798602 GAGTCAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.52
Consensus pattern (24 bp):
TAAACTCTGTTTATTTGTTTCAAA
Found at i:800560 original size:24 final size:24
Alignment explanation
Indices: 800533--800598 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
800523 CTTTCATTCT
* *
800533 AACTTTGTTTAATTGTTTCAAATA
1 AACTCTGTTTATTTGTTTCAAATA
* *
800557 AACTCTATTTATTTGTTTCAATTA
1 AACTCTGTTTATTTGTTTCAAATA
800581 AACTCTGTTTATTTGTTT
1 AACTCTGTTTATTTGTTT
800599 GAGTCAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.55
Consensus pattern (24 bp):
AACTCTGTTTATTTGTTTCAAATA
Found at i:800607 original size:24 final size:24
Alignment explanation
Indices: 800540--800610 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
800530 TCTAACTTTG
*
800540 TTTAATTGTTTCAAAT-AAACTCTA
1 TTTATTTGTTTC-AATCAAACTCTA
* *
800564 TTTATTTGTTTCAATTAAACTCTG
1 TTTATTTGTTTCAATCAAACTCTA
* *
800588 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTGTTTCAATCAAACTCT
800611 TATTAGTCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 38 0.93
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTATTTGTTTCAATCAAACTCTA
Found at i:803376 original size:13 final size:13
Alignment explanation
Indices: 803358--803386 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
803348 CGAACAATTA
803358 TTAAATTTTTATT
1 TTAAATTTTTATT
803371 TTAAATTTTTATT
1 TTAAATTTTTATT
803384 TTA
1 TTA
803387 TATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAAATTTTTATT
Found at i:803966 original size:31 final size:31
Alignment explanation
Indices: 803931--803996 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
803921 AAAAATCCTT
803931 AATAGACCAATTACTTAAATAAAAACTTTCA
1 AATAGACCAATTACTTAAATAAAAACTTTCA
** * * *
803962 AATAGTTCAATTATTTAAATAAAAATTTTCT
1 AATAGACCAATTACTTAAATAAAAACTTTCA
803993 AATA
1 AATA
803997 ATTCAATCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (31 bp):
AATAGACCAATTACTTAAATAAAAACTTTCA
Found at i:804002 original size:31 final size:31
Alignment explanation
Indices: 803938--804003 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
803928 CTTAATAGAC
*
803938 CAATTACTTAAATAAAAACTTTCAAATAGTT
1 CAATTACTTAAATAAAAACTTTCAAATAATT
* * *
803969 CAATTATTTAAATAAAAATTTTCTAATAATT
1 CAATTACTTAAATAAAAACTTTCAAATAATT
804000 CAAT
1 CAAT
804004 CACCATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (31 bp):
CAATTACTTAAATAAAAACTTTCAAATAATT
Found at i:804146 original size:42 final size:40
Alignment explanation
Indices: 804076--804160 Score: 125
Period size: 42 Copynumber: 2.1 Consensus size: 40
804066 TATTTAAAAA
*
804076 GCAAAAAGATTTTTTTTTCTCAATTGGCTCCAATTTTCTG
1 GCAAAAAGATTTTTTTTTCTCAAGTGGCTCCAATTTTCTG
* *
804116 GCAAAAAGATATCTTTTTTTTTCTAGTGGCTCCAATTTTCTG
1 GCAAAAAGAT-T-TTTTTTTCTCAAGTGGCTCCAATTTTCTG
804158 GCA
1 GCA
804161 CAACTTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 10 0.25
41 1 0.03
42 29 0.73
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (40 bp):
GCAAAAAGATTTTTTTTTCTCAAGTGGCTCCAATTTTCTG
Found at i:811291 original size:24 final size:25
Alignment explanation
Indices: 811258--811306 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
811248 ACTCTTTCCC
* * *
811258 TTTTCTTTATTATTATTATTGTGGA
1 TTTTCTTTATGATAATTATTATGGA
811283 TTTT-TTTATGATAATTATTATGGA
1 TTTTCTTTATGATAATTATTATGGA
811307 ATATTGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.61
Consensus pattern (25 bp):
TTTTCTTTATGATAATTATTATGGA
Found at i:815694 original size:3 final size:3
Alignment explanation
Indices: 815686--815767 Score: 148
Period size: 3 Copynumber: 27.7 Consensus size: 3
815676 GAAGTGTTTG
*
815686 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
815733 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
815768 GGAACATGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 1 0.01
3 75 0.99
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:819043 original size:2 final size:2
Alignment explanation
Indices: 819036--819069 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
819026 AACCTAAAAT
819036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
819070 TTTTTGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:820582 original size:43 final size:43
Alignment explanation
Indices: 820507--820589 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
820497 AAATTCATTG
**
820507 ACTAAATTAAAAAAATTACCAAATTTTGAGATT-AATATAAAA
1 ACTAAATTAAAAAAATTACCAAATTTAAAGATTGAATATAAAA
*
820549 ACTAAATTAAAAAAATTTATCAAATTTAAAGATTGAATATA
1 ACTAAATTAAAAAAA-TTACCAAATTTAAAGATTGAATATA
820590 TAGAATTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 15 0.42
43 15 0.42
44 6 0.17
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.33
Consensus pattern (43 bp):
ACTAAATTAAAAAAATTACCAAATTTAAAGATTGAATATAAAA
Found at i:835273 original size:14 final size:13
Alignment explanation
Indices: 835254--835283 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
835244 ATATAATTTA
835254 AAAATAAAATAGTT
1 AAAATAAAATA-TT
835268 AAAATAAAATATT
1 AAAATAAAATATT
835281 AAA
1 AAA
835284 TTTTGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAATAAAATATT
Found at i:838190 original size:9 final size:9
Alignment explanation
Indices: 838178--838202 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
838168 TTTTATAATC
838178 TTGATTTTT
1 TTGATTTTT
838187 TTGATTTTT
1 TTGATTTTT
838196 TTGATTT
1 TTGATTT
838203 ACTCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (9 bp):
TTGATTTTT
Found at i:845387 original size:60 final size:58
Alignment explanation
Indices: 845278--845438 Score: 179
Period size: 60 Copynumber: 2.7 Consensus size: 58
845268 AAATCCAAGT
* *
845278 TAGTTGGGTGACCAAAAAAGAAAAAAATTGAATAGTTAGGTGACTATTTTATAACTTTTCA
1 TAGTTGGGTGACCAAAAAAG--AAAAACT-AATAGTTGGGTGACTATTTTATAACTTTTCA
* * *
845339 T-GATTGGGTGACCAAAAAAGAAATTTACTAATAGTTGGGTGA-TCATTTTGTAACTTTTTA
1 TAG-TTGGGTGACCAAAAAAGAAA--AACTAATAGTTGGGTGACT-ATTTTATAACTTTTCA
845399 TAGTTGGGTGA--AAAAAA-AAAAACTAATAGTTGGGTGACTA
1 TAGTTGGGTGACCAAAAAAGAAAAACTAATAGTTGGGTGACTA
845439 CTAGTGTAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
55 17 0.19
56 1 0.01
57 3 0.03
58 6 0.07
59 4 0.05
60 36 0.41
61 21 0.24
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (58 bp):
TAGTTGGGTGACCAAAAAAGAAAAACTAATAGTTGGGTGACTATTTTATAACTTTTCA
Found at i:862060 original size:19 final size:19
Alignment explanation
Indices: 862036--862074 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
862026 GAACGTCACA
862036 AATATGCAAATTAATATAT
1 AATATGCAAATTAATATAT
862055 AATATGCAAATTAATATAT
1 AATATGCAAATTAATATAT
862074 A
1 A
862075 CGATTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
AATATGCAAATTAATATAT
Found at i:869361 original size:236 final size:236
Alignment explanation
Indices: 868941--870814 Score: 3061
Period size: 236 Copynumber: 7.9 Consensus size: 236
868931 TGGTGACTAA
* * * * **
868941 TTAAAATACTACACATCGAGTTTACGTTTTATGTATATTTCAGGTTCGAGTAGAATTTAGTCCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
* * * *
869006 AGTCATTAGTTGAAACCGAAGCAACTAATGAGTACGAGCGAAGTCAAAGTGAACAAACTAATGAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * * * *
869071 TTTATAACTTGTTGTCCGGTTTTCAACAATCAGAACTTTATTGTTGATGGGAATGAAGTGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
*
869136 CAATCACCAGTCACGAGTAAGAACACTTCTCTCGGAAATTT
196 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* *
869177 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAATTTGGTCCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
*
869242 AGTCATTAGTTGAGACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * *
869307 TTTATAACTTCTTGCCCGGTTTTCAACAATGAGAACTTTATTGTTGACGGGAATGAAGTGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
*
869372 CAATCACCAGTCACAAGTAAGAA-ACTTCTCTTGGAAATTT
196 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* * *
869412 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTTAGGTTCGAGTGGAACTCGATCTGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
869477 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * * *
869542 TTTATAACTTCTTGTCTGGTTTTTGACAATGAGAACTTTATTCCTGACGGGAATGAAATGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
* *
869607 TAATCACCAGTCACATGTAAGAACACTTCTCTCGGAAATTT
196 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* * * *
869648 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTTAGGTTCGAATGGAACTCGATCTGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
869713 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTAC-ATGTGGACTCAAAGTGAACAAACTAATGA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGA-GTGGACTCAAAGTGAACAAACTAATGA
** *
869777 ATTTATAACTTCTTGTCCAATTTTCGACAATCAGAACTTTATTGCTGACGGGAATGAAGTGATCT
130 ATTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCT
* * *
869842 CCAATCATCAATCACAAGTAAGAACACTTCTCTCAGAAATTT
195 CCAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* *
869884 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAATTCAGTCCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
*
869949 AATCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
** * * *
870014 TTTATAACTTCTTGTTTGGTTTTTGACAATGAGAACTTTATTGCTAACAGGAATGAAGTGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
870079 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
196 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* * *
870120 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTCCAGGTTCGAGTGGAACTCGATCTGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
870185 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTAC-ATGTGGACTCAAAGTGAACAAACTAATGA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGA-GTGGACTCAAAGTGAACAAACTAATGA
870249 ATTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCT
130 ATTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCT
*
870314 CCAATCACCAGTCACAAGTAAGAACACTTCTCTTGGAAATTT
195 CCAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
* * *
870356 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTAGAATTCGGTCTGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
*
870421 AGTCATTAGTTGAAACCAAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * ** *
870486 TTTATAACTTCTTGTCTGGTTTTCGACAATGAGAACTTTATCGCTGACGGGAAAAAAATGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
* *
870551 TAATCACCAGTCACAAGTAAGAACACTTCTCTTGGAAATTT
196 CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
870592 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
*
870657 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATAAA
66 AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * * *
870722 TTTATAACTTCCTGTCCGATTTTCGACAATGAGAATTTTATTGATGACGGGAATGAAGTGATCTC
131 TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
* *
870787 CAATCACCTGTCACAAGTAGGAACACTT
196 CAATCACCAGTCACAAGTAAGAACACTT
870815 TTCTTTAAAA
Statistics
Matches: 1531, Mismatches: 102, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
235 221 0.14
236 1308 0.85
237 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (236 bp):
TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAACTCGGTCCGG
AGTCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
TTTATAACTTCTTGTCCGGTTTTCGACAATGAGAACTTTATTGCTGACGGGAATGAAGTGATCTC
CAATCACCAGTCACAAGTAAGAACACTTCTCTCGGAAATTT
Found at i:874943 original size:236 final size:236
Alignment explanation
Indices: 874527--874965 Score: 725
Period size: 236 Copynumber: 1.9 Consensus size: 236
874517 TGGTGACTAA
* *
874527 TTAAAATACTACACATTGAGTTTACGTTTTATGTATATTTCAGGTTCGAGTAGAATATAGTTCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTAGAATATAGTCCGG
* * *
874592 AGTCATTAGTTGAAACTAAAGCAACTAATGAGTACGAGTGGACTCAAAGTGAACAAGCTAATGAA
66 AATCATTAGTTGAAACCAAAGCAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * * *
874657 TTTATAACTTCTTGTCCGGGTTTCGACAATGAGAACTTTATTGCTGACGACAATGAAGTGATCTC
131 TTTATAACTCCCTGTCCGAGTTTCGACAATGAGAACTTTATTGATGACGACAATGAAGTGATCTC
874722 CAATCACCAATCACGAGTAAGAACACATCTCTCGGAAATTT
196 CAATCACCAATCACGAGTAAGAACACATCTCTCGGAAATTT
* *
874763 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTGGAATTTAGTCCGG
1 TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTAGAATATAGTCCGG
* *
874828 AATCATTAGTTGAAACCGAAGTAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
66 AATCATTAGTTGAAACCAAAGCAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
* * * *
874893 TTTATAACTCCCTGTCCTATTTTCGATAATGAGAATTTTATTGATGACGACAATGAAGTGATCTC
131 TTTATAACTCCCTGTCCGAGTTTCGACAATGAGAACTTTATTGATGACGACAATGAAGTGATCTC
874958 CAATCACC
196 CAATCACC
874966 TGACACAAGT
Statistics
Matches: 186, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
236 186 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (236 bp):
TTAAAATACTACACATTGAGTTTACATTTTATGTATATTTCAGGTTCGAGTAGAATATAGTCCGG
AATCATTAGTTGAAACCAAAGCAACTAATGAGTACGAGTGGACTCAAAGTGAACAAACTAATGAA
TTTATAACTCCCTGTCCGAGTTTCGACAATGAGAACTTTATTGATGACGACAATGAAGTGATCTC
CAATCACCAATCACGAGTAAGAACACATCTCTCGGAAATTT
Found at i:899389 original size:28 final size:28
Alignment explanation
Indices: 899353--899416 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
899343 TTGAAGGTGC
*
899353 AAAATCAATTGGTTGTAAATA-GATATTT
1 AAAACCAATTGGTTGTAAA-AGGATATTT
*
899381 AAAACCAATTGGTTGTAAAAGGGTATTT
1 AAAACCAATTGGTTGTAAAAGGATATTT
899409 AAAACCAA
1 AAAACCAA
899417 GAGGGATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (28 bp):
AAAACCAATTGGTTGTAAAAGGATATTT
Found at i:901828 original size:24 final size:24
Alignment explanation
Indices: 901799--901865 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
901789 TTTCTAGAAG
* *
901799 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATTTATTAGAATAATAT
901823 ATTTAACATTTATTAGAATAATAT
1 ATTTAACATTTATTAGAATAATAT
* *
901847 ATTTGACATTGATTAGAAT
1 ATTTAACATTTATTAGAAT
901866 TAGATTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATTAGAATAATAT
Found at i:906279 original size:24 final size:24
Alignment explanation
Indices: 906241--906297 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
906231 AAGATTTAGT
* *
906241 ATTTATTAGTATAATATA-TTGAGC
1 ATTTATTAGCATAATAAATTTGA-C
*
906265 ATTTATTAGCGTAATAAATTTGAC
1 ATTTATTAGCATAATAAATTTGAC
*
906289 ATTGATTAG
1 ATTTATTAG
906298 AATTAAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (24 bp):
ATTTATTAGCATAATAAATTTGAC
Found at i:908744 original size:14 final size:15
Alignment explanation
Indices: 908725--908753 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
908715 AATATTTAAT
908725 ATATTAT-TAAACTA
1 ATATTATGTAAACTA
908739 ATATTATGTAAACTA
1 ATATTATGTAAACTA
908754 TAATTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATTATGTAAACTA
Found at i:915295 original size:26 final size:26
Alignment explanation
Indices: 915260--915312 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
915250 TATTTGCTTG
915260 GGGATGATATATTATCTAACCATAGT
1 GGGATGATATATTATCTAACCATAGT
915286 GGGATGATATATTATCTAACCATAGT
1 GGGATGATATATTATCTAACCATAGT
915312 G
1 G
915313 ATTTATTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (26 bp):
GGGATGATATATTATCTAACCATAGT
Found at i:915319 original size:21 final size:21
Alignment explanation
Indices: 915264--915320 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 21
915254 TGCTTGGGGA
*
915264 TGATATATTATCTAACCATAG
1 TGATTTATTATCTAACCATAG
915285 TGGGATGATATATTATCTAACCATAG
1 T--GAT--T-TATTATCTAACCATAG
915311 TGATTTATTA
1 TGATTTATTA
915321 GTAATATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 3 0.10
24 3 0.10
26 17 0.57
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (21 bp):
TGATTTATTATCTAACCATAG
Found at i:918817 original size:60 final size:58
Alignment explanation
Indices: 918704--918982 Score: 303
Period size: 60 Copynumber: 4.9 Consensus size: 58
918694 ACAATCATAA
* * * *
918704 AAAAAGTTAAAACATATTATATGAAAAAAATA-AAAAAAGAAATGGTTATTTAAAGTT
1 AAAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAAGAAATGTTTATTTAAAGTT
* *
918761 AAAAAGTTAAAATATATGATAAGAAAAAAGAAATAAAAAAGAAAATATTTATTTAAAGTT
1 AAAAAGTTAAAATATATGATATGAAAAAA-AAATAAAAAAG-AAATGTTTATTTAAAGTT
*
918821 AAAAAGTTAAAATATATGATATG----AAAAAT--AAAA-AAATGTTTATTTAAAATT
1 AAAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAAGAAATGTTTATTTAAAGTT
*
918872 AAAAAGTTAAAATATATGATATGGAATAAAGAAATGAAAAAAGAAATGTTTATTT-AAGTT
1 AAAAAGTTAAAATATATGATAT-GAA-AAAAAAAT-AAAAAAGAAATGTTTATTTAAAGTT
* * * * * *
918932 AAGAAGTTAGAATAGATGATAT--TAAAAAAATAAAAAA-AAATATTTTTTTAA
1 AAAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAAGAAATGTTTATTTAA
918983 TGTTGAAAGT
Statistics
Matches: 190, Mismatches: 18, Indels: 30
0.80 0.08 0.13
Matches are distributed among these distances:
51 38 0.20
52 1 0.01
53 4 0.02
54 10 0.05
55 11 0.06
56 9 0.05
57 31 0.16
58 2 0.01
59 7 0.04
60 65 0.34
61 12 0.06
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (58 bp):
AAAAAGTTAAAATATATGATATGAAAAAAAAATAAAAAAGAAATGTTTATTTAAAGTT
Found at i:918892 original size:111 final size:111
Alignment explanation
Indices: 918704--918969 Score: 329
Period size: 111 Copynumber: 2.3 Consensus size: 111
918694 ACAATCATAA
* * *
918704 AAAAAGTTAAAACATATTATATGAAAAAAATAAAAAAAGAAATGGTTATTTAAAGTTAAAAAGTT
1 AAAAAGTTAAAATATATGATATG--AAAAAT---AAAA-AAATGGTTATTTAAAATTAAAAAGTT
918769 AAAATATATGATA-AGAAAAAAGAAAT-AAAAAAGAAAATATTTATTTAAAGTT
60 AAAATATATGATATAGAAAAAAGAAATGAAAAAAG-AAATATTTATTT-AAGTT
*
918821 AAAAAGTTAAAATATATGATATGAAAAATAAAAAAATGTTTATTTAAAATTAAAAAGTTAAAATA
1 AAAAAGTTAAAATATATGATATGAAAAATAAAAAAATGGTTATTTAAAATTAAAAAGTTAAAATA
* * *
918886 TATGATATGGAATAAAGAAATGAAAAAAGAAATGTTTATTTAAGTT
66 TATGATATAGAAAAAAGAAATGAAAAAAGAAATATTTATTTAAGTT
* * * *
918932 AAGAAGTTAGAATAGATGATATTAAAAAAATAAAAAAA
1 AAAAAGTTAAAATATATGATA-T-GAAAAATAAAAAAA
918970 AATATTTTTT
Statistics
Matches: 134, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
111 60 0.45
112 27 0.20
113 20 0.15
115 6 0.04
117 21 0.16
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (111 bp):
AAAAAGTTAAAATATATGATATGAAAAATAAAAAAATGGTTATTTAAAATTAAAAAGTTAAAATA
TATGATATAGAAAAAAGAAATGAAAAAAGAAATATTTATTTAAGTT
Found at i:922265 original size:48 final size:48
Alignment explanation
Indices: 922194--922288 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
922184 TTTAAATTCA
922194 TGTTTCTATACTTAGGAGAACATTTGAGAGCAAAATGAGCGAAAATCG
1 TGTTTCTATACTTAGGAGAACATTTGAGAGCAAAATGAGCGAAAATCG
* *
922242 TGTTTCTATTCTTAGGAGAACATTTGGGAGCAAAATGAGCGAAAATC
1 TGTTTCTATACTTAGGAGAACATTTGAGAGCAAAATGAGCGAAAATC
922289 AAAAAATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (48 bp):
TGTTTCTATACTTAGGAGAACATTTGAGAGCAAAATGAGCGAAAATCG
Found at i:936475 original size:18 final size:18
Alignment explanation
Indices: 936436--936486 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
936426 CTTATATTTT
* *
936436 ATATTATTAATAA-TAAA
1 ATATTATTATTAATTATA
*
936453 ATATTATTATTTATTATA
1 ATATTATTATTAATTATA
936471 ATATTATTATTAATTA
1 ATATTATTATTAATTA
936487 ATATATCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATTATTAATTATA
Found at i:936491 original size:21 final size:19
Alignment explanation
Indices: 936436--936491 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
936426 CTTATATTTT
936436 ATATTATTAA-TAATA-AA
1 ATATTATTAATTAATATAA
* *
936453 ATATTATTATTTATTATAA
1 ATATTATTAATTAATATAA
936472 TATTATTATTAATTAATATA
1 -A-TATTATTAATTAATATA
936492 TCTTTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 2 0.06
20 1 0.03
21 15 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTATTAATTAATATAA
Found at i:936492 original size:18 final size:18
Alignment explanation
Indices: 936435--936492 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
936425 TCTTATATTT
*
936435 TATATTATTAATAA-TAA
1 TATATTATTATTAATTAA
* *
936452 AATATTATTATTTATT-A
1 TATATTATTATTAATTAA
936469 TAATATTATTATTAATTAA
1 T-ATATTATTATTAATTAA
936488 TATAT
1 TATAT
936493 CTTTTGATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 12 0.36
18 19 0.58
19 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATTATTAATTAA
Found at i:937700 original size:17 final size:17
Alignment explanation
Indices: 937665--937700 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
937655 ACTTAAACAC
**
937665 AATAATGATATTTTGGG
1 AATAATGATATTTCAGG
937682 AATAATGATATTTCAGG
1 AATAATGATATTTCAGG
937699 AA
1 AA
937701 CCTCTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (17 bp):
AATAATGATATTTCAGG
Found at i:937980 original size:28 final size:28
Alignment explanation
Indices: 937922--937990 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
937912 TTAATTCATA
* * *
937922 TATTTTAATAAAATTTAAATTTTAGTTTT
1 TATTTTAA-AAAATTTAAAATTTAATGTT
*
937951 TATTTTAAAAATTTTAAAATTTAATGTT
1 TATTTTAAAAAATTTAAAATTTAATGTT
937979 TATGTTTAAAAA
1 TAT-TTTAAAAA
937991 GTTAAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTTTAAAAAATTTAAAATTTAATGTT
Found at i:941516 original size:20 final size:21
Alignment explanation
Indices: 941468--941517 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
941458 CTTGGAGTAC
*
941468 TCTTTTCGATATTACTCTAAT
1 TCTTTTCAATATTACTCTAAT
* *
941489 TTTTTTCAATATTATTCTAA-
1 TCTTTTCAATATTACTCTAAT
941509 TCTTTTCAA
1 TCTTTTCAA
941518 ATCTGAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.26, C:0.16, G:0.02, T:0.56
Consensus pattern (21 bp):
TCTTTTCAATATTACTCTAAT
Found at i:942248 original size:17 final size:18
Alignment explanation
Indices: 942228--942261 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
942218 CTAAAGTAGT
942228 AATAAAATTA-ACAATAA
1 AATAAAATTATACAATAA
*
942245 AATAAAGTTATACAATA
1 AATAAAATTATACAATA
942262 TGCAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAAATTATACAATAA
Found at i:942825 original size:29 final size:29
Alignment explanation
Indices: 942783--942844 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
942773 GACTGGCCCA
*
942783 ATTTAACTTGAATT-TAAATTAAATA-TTTT
1 ATTTAAATTGAATTATAAA--AAATATTTTT
*
942812 ATTTAAATTTAATTATAAAAAATATTTTT
1 ATTTAAATTGAATTATAAAAAATATTTTT
942841 ATTT
1 ATTT
942845 TTAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 20 0.69
30 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTTAAATTGAATTATAAAAAATATTTTT
Found at i:943021 original size:27 final size:27
Alignment explanation
Indices: 942986--943052 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
942976 TTAGTAATTT
* * *
942986 ATTTGTATTTTTTACTT-AGTTATAGAA
1 ATTTATATTTTTTA-TTGAATTAAAGAA
943013 ATTTATATTCTTTT-TTGAATTAAAGAA
1 ATTTATATT-TTTTATTGAATTAAAGAA
943040 ATTTAT-TTTTTTA
1 ATTTATATTTTTTA
943053 ATTCTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.12
26 4 0.12
27 22 0.65
28 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (27 bp):
ATTTATATTTTTTATTGAATTAAAGAA
Found at i:950018 original size:72 final size:72
Alignment explanation
Indices: 949883--950026 Score: 175
Period size: 72 Copynumber: 2.0 Consensus size: 72
949873 ATTGGAGGGA
* * * * *
949883 CCTATTTATATTTTTGGGAGGGTTATAGTATATATACAAAAGGAGAAATTGCAAAAATCTTAAAT
1 CCTACTTATATTTTTGGGAGGGTGATAATATATATACAAAAAGAGAAATTGAAAAAATCTTAAA-
949948 CCTGGAGG
65 CCTGGAGG
* **
949956 CCTACTTATA-TTTTGGGAGGGTGATAATATATTTACAAAAAGTTAAATTGAAAAAAAT-TTAAA
1 CCTACTTATATTTTTGGGAGGGTGATAATATATATACAAAAAGAGAAATTG-AAAAAATCTTAAA
*
950019 CCTTGAGG
65 CCTGGAGG
950027 GATCATGGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
71 7 0.11
72 39 0.64
73 15 0.25
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (72 bp):
CCTACTTATATTTTTGGGAGGGTGATAATATATATACAAAAAGAGAAATTGAAAAAATCTTAAAC
CTGGAGG
Found at i:956264 original size:17 final size:17
Alignment explanation
Indices: 956242--956277 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
956232 ACTTAAACAC
*
956242 AATAATGATATTTTGGG
1 AATAATGATATTTCGGG
956259 AATAATGATATTTCGGG
1 AATAATGATATTTCGGG
956276 AA
1 AA
956278 CCTCTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (17 bp):
AATAATGATATTTCGGG
Found at i:960009 original size:2 final size:2
Alignment explanation
Indices: 959997--960026 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
959987 TAATAAAAAG
*
959997 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
960027 ATTTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:962561 original size:19 final size:22
Alignment explanation
Indices: 962524--962569 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 22
962514 AAATAATTAT
962524 TTTATATTATTAATGTATAAAA
1 TTTATATTATTAATGTATAAAA
*
962546 TTTATATT-TT-AT-TATATAA
1 TTTATATTATTAATGTATAAAA
962565 TTTAT
1 TTTAT
962570 GCATATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 2 0.09
21 2 0.09
22 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTATATTATTAATGTATAAAA
Found at i:962994 original size:15 final size:13
Alignment explanation
Indices: 962961--962990 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
962951 GAACCAAAAT
962961 TTAATATTTTTTA
1 TTAATATTTTTTA
962974 TTAATATTTTTTA
1 TTAATATTTTTTA
962987 TTAA
1 TTAA
962991 AATACACCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAATATTTTTTA
Found at i:966271 original size:23 final size:24
Alignment explanation
Indices: 966245--966289 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
966235 TTCTACCTTA
*
966245 TTTTCT-CTCTCTTTTCCTTTTTT
1 TTTTCTCCTCTATTTTCCTTTTTT
*
966268 TTTTCTCCTGTATTTTCCTTTT
1 TTTTCTCCTCTATTTTCCTTTT
966290 CACTTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCTCCTCTATTTTCCTTTTTT
Found at i:971395 original size:14 final size:14
Alignment explanation
Indices: 971378--971413 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
971368 CTTGGGGTTG
*
971378 GGTTTAATATTTAA
1 GGTTTAAGATTTAA
*
971392 GGTTTAGGATTTAA
1 GGTTTAAGATTTAA
971406 GGTTTAAG
1 GGTTTAAG
971414 GTTCATGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
GGTTTAAGATTTAA
Found at i:972551 original size:18 final size:18
Alignment explanation
Indices: 972528--972563 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
972518 CAACAGATGT
*
972528 ATTGGTATGGTTATTTGA
1 ATTGGTATGATTATTTGA
*
972546 ATTGGTTTGATTATTTGA
1 ATTGGTATGATTATTTGA
972564 TACGATAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (18 bp):
ATTGGTATGATTATTTGA
Found at i:973852 original size:15 final size:16
Alignment explanation
Indices: 973822--973860 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
973812 TAATTCATAT
973822 ATAATCTTATTATTTTA
1 ATAAT-TTATTATTTTA
*
973839 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
973854 ATAATTT
1 ATAATTT
973861 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:974351 original size:63 final size:64
Alignment explanation
Indices: 974244--974366 Score: 194
Period size: 63 Copynumber: 1.9 Consensus size: 64
974234 ATTTATTAGG
* * * *
974244 AGTTTGTAATAGAAATTAGTAAGTACCTAAAACAGAAAAGGTCAAATTATGGTTTTAATCCTTC
1 AGTTTGTAATAGAAAATAGTAAGTACCAAAAACAAAAAAGGTCAAATTATGATTTTAATCCTTC
*
974308 AGTTTGTAATAGAAAATA-TAAGTACCAAAAACAAAAAATGTCAAATTATGATTTTAATC
1 AGTTTGTAATAGAAAATAGTAAGTACCAAAAACAAAAAAGGTCAAATTATGATTTTAATC
974367 TTTCTATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 37 0.69
64 17 0.31
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (64 bp):
AGTTTGTAATAGAAAATAGTAAGTACCAAAAACAAAAAAGGTCAAATTATGATTTTAATCCTTC
Found at i:974718 original size:20 final size:19
Alignment explanation
Indices: 974693--974732 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
974683 ACACATTGTA
974693 TAGTTTGGTCTTTTTTTTTG
1 TAGTTTGG-CTTTTTTTTTG
*
974713 TAGTTTTGCTTTTTTTTTG
1 TAGTTTGGCTTTTTTTTTG
974732 T
1 T
974733 TTTGGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.72
Consensus pattern (19 bp):
TAGTTTGGCTTTTTTTTTG
Found at i:975378 original size:45 final size:45
Alignment explanation
Indices: 975312--975409 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
975302 TTCAATGCAC
* * * *
975312 AAAAAGAAATTTATATCAACACGATGTATTTGAAAATTACGTTTA
1 AAAAAGAAATCTATATAAACACGATGAATTTAAAAATTACGTTTA
*
975357 AAAAAGGAATCTATATAAACACGATGAATTTAAAAATTACGTTT-
1 AAAAAGAAATCTATATAAACACGATGAATTTAAAAATTACGTTTA
975401 AAAAAGAAA
1 AAAAAGAAA
975410 ATATATCAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 8 0.17
45 39 0.83
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (45 bp):
AAAAAGAAATCTATATAAACACGATGAATTTAAAAATTACGTTTA
Found at i:976966 original size:296 final size:300
Alignment explanation
Indices: 976420--976980 Score: 733
Period size: 296 Copynumber: 1.9 Consensus size: 300
976410 TATAGAATAC
** * *
976420 TTTTGGATTAGTTGTTCTTAGCAAATTAGTGAAAGAACTTTCTGTTTTCTTCTTTTAGGATTTTA
1 TTTTGGATTAGTTGTTCTTAGCAAACCAGTGAAAGAAATTTATGTTTTCTTCTTTTAGGATTTTA
* * * * *
976485 ATAATGGAAAATTTGTAACTAAGTTAAACATAGAGTGTTTTTACGGTAGTGATTGGAAAGAAAAA
66 ATAATGGAAAATTTGTAACTAAATTAAACATAGAGGGGTTTAACGGTAGTGATAGGAAAGAAAAA
* * * * * * *
976550 GGTTCTGGAAGTTTTTGGTCGAACAGTTTGACTGCAGCGTATTGTGCTTTTAATTATCGTTTTCA
131 GATTCTGGAAGTTTTTGGTCAAACAGTTTGACTGCAGCG-ATTATACTTGTAATTATCATGTTCA
* * *
976615 ATGATGGATCCTGTGTATTTCAATGATTGGAATTGATTTATTTTGAGTGAAGTGTGATTGCTTAT
195 ATGATGGATCCTGAGTATTTCAATGATTGGAATTGATTTATTTTGAGTAAAGTGTGATTACTTAT
976680 GAAAACGATATTCGATTTTTCATTTTTGGTTTCTAGACTAT
260 GAAAACGATATTCGATTTTTCATTTTTGGTTTCTAGACTAT
* *
976721 TTTTGGATTAATTTGTTCTTAGCAAACCAGTG-AAGAAATTTATATTTTTCTTCTTTTAGGA-TT
1 TTTTGGATT-AGTTGTTCTTAGCAAACCAGTGAAAGAAATTTAT-GTTTTCTTCTTTTAGGATTT
* * * *
976784 TAGTGAA-GGAACATTTGTAGCTAAATTAAACATAGAGGGGTTTAACTGTAGTGATAGG-AA-AA
64 TAAT-AATGGAAAATTTGTAACTAAATTAAACATAGAGGGGTTTAACGGTAGTGATAGGAAAGAA
* * * *
976846 GAAGATTCTGGAAG-TTTTGGTCAAACAGTTTGACTGGATC-ATTATACTTGTAGTTATCATGTT
128 AAAGATTCTGGAAGTTTTTGGTCAAACAGTTTGACTGCAGCGATTATACTTGTAATTATCATGTT
* * *
976909 CAATGATGGATCCTGAGTATTTGAATGATTTGATTTGATTTA-TTTGAGTAAAAGTGTGATTACT
193 CAATGATGGATCCTGAGTATTTCAATGATTGGAATTGATTTATTTTGAGT-AAAGTGTGATTACT
976973 TATGAAAA
257 TATGAAAA
976981 GATTTTTGAT
Statistics
Matches: 224, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
295 7 0.03
296 75 0.33
298 23 0.10
299 14 0.06
300 2 0.01
301 66 0.29
302 37 0.17
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (300 bp):
TTTTGGATTAGTTGTTCTTAGCAAACCAGTGAAAGAAATTTATGTTTTCTTCTTTTAGGATTTTA
ATAATGGAAAATTTGTAACTAAATTAAACATAGAGGGGTTTAACGGTAGTGATAGGAAAGAAAAA
GATTCTGGAAGTTTTTGGTCAAACAGTTTGACTGCAGCGATTATACTTGTAATTATCATGTTCAA
TGATGGATCCTGAGTATTTCAATGATTGGAATTGATTTATTTTGAGTAAAGTGTGATTACTTATG
AAAACGATATTCGATTTTTCATTTTTGGTTTCTAGACTAT
Found at i:978799 original size:37 final size:37
Alignment explanation
Indices: 978749--978823 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
978739 ATATGCTGGT
*
978749 ATGTCCTGGTCTATTTACCTGCTGCCTCAAAAAATTA
1 ATGTCCTGGTCTATTTACCAGCTGCCTCAAAAAATTA
*
978786 ATGTCCTGGTCTATTTCCCAGCTGCCTCAAAAAATTA
1 ATGTCCTGGTCTATTTACCAGCTGCCTCAAAAAATTA
978823 A
1 A
978824 CTCACATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (37 bp):
ATGTCCTGGTCTATTTACCAGCTGCCTCAAAAAATTA
Found at i:981968 original size:3 final size:3
Alignment explanation
Indices: 981960--981984 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
981950 AATTTGAATT
981960 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
981985 GGGTGGAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:999571 original size:61 final size:62
Alignment explanation
Indices: 999469--999594 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 62
999459 GTTTCCCTTG
* **
999469 GTTCACTTATACCATTTCTATCAACATGACCGAATTGGGCTTTCTTCCTGT-CGGTAAACTA
1 GTTCACTTATACCATTTCTATCAACATGACCCAATCAGGCTTTCTTCCTGTACGGTAAACTA
* * *
999530 GTTCACTTCTACCATTTCTATCGACATGACCCAATCAGGCTTTCTTCCTGTATGGTAAACTA
1 GTTCACTTATACCATTTCTATCAACATGACCCAATCAGGCTTTCTTCCTGTACGGTAAACTA
999592 GTT
1 GTT
999595 TATTAGCTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 46 0.79
62 12 0.21
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (62 bp):
GTTCACTTATACCATTTCTATCAACATGACCCAATCAGGCTTTCTTCCTGTACGGTAAACTA
Found at i:1003182 original size:27 final size:28
Alignment explanation
Indices: 1003125--1003186 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 28
1003115 TTTATTATTA
1003125 AAAAATAAGAAGCTAAATTCTTAAAATT
1 AAAAATAAGAAGCTAAATTCTTAAAATT
*
1003153 AAAAATAA-AA-CTAAATT-TTAGATATAT
1 AAAAATAAGAAGCTAAATTCTTA-AAAT-T
1003180 AAAAATA
1 AAAAATA
1003187 CAGCGATCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 3 0.10
26 10 0.32
27 10 0.32
28 8 0.26
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAATAAGAAGCTAAATTCTTAAAATT
Found at i:1015116 original size:28 final size:28
Alignment explanation
Indices: 1015084--1015140 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1015074 ACTTCATTAG
* *
1015084 TAGTCACCTAATTATTAGTAATTTTTTT
1 TAGTCACCCAATTATTAGTAAATTTTTT
1015112 TAGTCACCCAATTATTAGTAAATTTTTT
1 TAGTCACCCAATTATTAGTAAATTTTTT
1015140 T
1 T
1015141 GATCATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (28 bp):
TAGTCACCCAATTATTAGTAAATTTTTT
Found at i:1015150 original size:28 final size:28
Alignment explanation
Indices: 1015085--1015150 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1015075 CTTCATTAGT
* *
1015085 AGTCACCTAATTATTAGTAATTTTTTTT
1 AGTCACCCAATTATTAGTAATTTTTTTG
1015113 AGTCACCCAATTATTAGTAAATTTTTTTG
1 AGTCACCCAATTATTAGT-AATTTTTTTG
*
1015142 A-TCATCCAA
1 AGTCACCCAA
1015151 CTATGAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (28 bp):
AGTCACCCAATTATTAGTAATTTTTTTG
Found at i:1015344 original size:59 final size:56
Alignment explanation
Indices: 1015281--1015404 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 56
1015271 AGATAAAATT
* *
1015281 AAATAGTTGAATAATTATTTTGTAACTTGTCATAGTTGGGTGACCAAAAAGAAACTTAC
1 AAATAGTTGAATAACTATTTTGTAACTTGTCATAGTTGAGTGA-CAAAAA-AAA-TTAC
* * * * *
1015340 AAATAGTTGGATGACTATTTTGTAACTTTTTATAGTTGAGTGACTAAAAAAATTAC
1 AAATAGTTGAATAACTATTTTGTAACTTGTCATAGTTGAGTGACAAAAAAAATTAC
*
1015396 TAATAGTTG
1 AAATAGTTG
1015405 GATGGCTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 12 0.21
57 3 0.05
58 5 0.09
59 37 0.65
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (56 bp):
AAATAGTTGAATAACTATTTTGTAACTTGTCATAGTTGAGTGACAAAAAAAATTAC
Found at i:1020053 original size:22 final size:22
Alignment explanation
Indices: 1020011--1020053 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1020001 GTTAATTTAA
*
1020011 AAATAATAATTTTATTTATATC
1 AAATAATAATTTTATTAATATC
1020033 AAATAATAATTATT-TTAATAT
1 AAATAATAATT-TTATTAATAT
1020054 TTTAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATAATAATTTTATTAATATC
Found at i:1025346 original size:60 final size:60
Alignment explanation
Indices: 1025263--1025999 Score: 594
Period size: 60 Copynumber: 12.5 Consensus size: 60
1025253 TAATTTTTCA
* * * *
1025263 TTAGCTTAAATCCCAGCAATAAGCCTTTCGCATCGAGTTCCATGTGATGTTAATTTGTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
* * * * *
1025323 TTAGCTTAAATCCCAGCATTAAGCCTTTCGCATTTGAGTTCCATGTGATGTTAGTTTGTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTCGCA-TCGTGCTCCACGTGATGTTAATTTGTTG
* ** * * *
1025384 TTAGTTTAAATCCCAGCATTAATACTTTCGC-TACGAGTTCCATGTGATGTTAATTTGTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTCGCAT-CGTGCTCCACGTGATGTTAATTTGTTG
* * * *
1025444 TTAGTTTAAATCCCTGCATCAAG--TGTTCGCAAT-GTACTCCAC---ATG---A-TT-TTG
1 TTAGCTTAAATCCCAGCATTAAGCCT-TTCGC-ATCGTGCTCCACGTGATGTTAATTTGTTG
* * * *
1025495 TTAGCCTAAATCCCAGCATTAAGCCTTTCTG-AT-GTGCTCCACGGGCTGTTAATTTCTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTC-GCATCGTGCTCCACGTGATGTTAATTTGTTG
* * *
1025554 TTAGCTTAAAGT-CCAGCATTACA-CCTTT--CATGACATGCTCCACGTGATATTTATTTGTTG
1 TTAGCTTAAA-TCCCAGCATTA-AGCCTTTCGCAT--CGTGCTCCACGTGATGTTAATTTGTTG
* * * * * ***
1025614 TTAGCTTAAAGT-CCAGCCTTAAGCCTTTTGTAACGTGCTCCACGTGATGATAATTTACCG
1 TTAGCTTAAA-TCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
* * * * * *
1025674 TTAGCGTAAAGT-CCAGCCTTAATCCTTTTGTAACGTGCTCCACGTGATGTTAATTTGTTG
1 TTAGCTTAAA-TCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
* * * *
1025734 TTTGCTTAAATCCCAGCATTAAACCTTTCTG-AT-GTGCTCCACGTG-TCATTAGTTTGTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTC-GCATCGTGCTCCACGTGAT-GTTAATTTGTTG
* ** * *
1025793 TTAGCTTAAAGT-CCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGTTAATTTGTTG
1 TTAGCTTAAA-TCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
* * * *
1025853 TTTGCTTAAATCCCAGCATTAAACCTTTC-CGAT-GTGCTCCACGTG-TCATTAGTTTGTTG
1 TTAGCTTAAATCCCAGCATTAAGCCTTTCGC-ATCGTGCTCCACGTGAT-GTTAATTTGTTG
* ** *
1025912 TTAGCTTAAAGT-CTAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTGTTG
1 TTAGCTTAAA-TCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
* *
1025972 TTAGCTTAAATCCGAGCATTAAGTCTTT
1 TTAGCTTAAATCCCAGCATTAAGCCTTT
1026000 TCCAATTTGC
Statistics
Matches: 560, Mismatches: 77, Indels: 80
0.78 0.11 0.11
Matches are distributed among these distances:
51 32 0.06
52 5 0.01
53 3 0.01
54 2 0.00
56 3 0.01
57 3 0.01
58 5 0.01
59 134 0.24
60 314 0.56
61 58 0.10
62 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (60 bp):
TTAGCTTAAATCCCAGCATTAAGCCTTTCGCATCGTGCTCCACGTGATGTTAATTTGTTG
Found at i:1025829 original size:179 final size:177
Alignment explanation
Indices: 1025494--1025999 Score: 574
Period size: 179 Copynumber: 2.8 Consensus size: 177
1025484 ACATGATTTT
* * * * * *
1025494 GTTAGCCTAAATCCCAGCATTAAGCCTTTCTGATGTGCTCCACGGGCTGTTAATTTCTTGTTAGC
1 GTTAGCGTAAATCCCAGCATTAAACCTTTCCGACGTGCTCCACGTG-TGTTAATTTGTTGTTAGC
* *
1025559 TTAAAGTCCAGCATTACACCTTTCATGACATGCTCCACGTGATATTTATTTGTTGTTAGCTTAAA
65 TTAAAGTCCAGCATTAAACCTTTCATGACGTGCTCCACGTGATA-TTATTTGTTGTTAGCTTAAA
* * ** *
1025624 GTCCAGCCTTAAGCCTTTTGTAACGTGCTCCACGTGATGATAATTTACC
129 GTCCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGATAATTTACC
* * *
1025673 GTTAGCGTAAAGT-CCAGCCTTAATCCTTT-TGTAACGTGCTCCACGTGATGTTAATTTGTTGTT
1 GTTAGCGTAAA-TCCCAGCATTAAACCTTTCCG--ACGTGCTCCACGTG-TGTTAATTTGTTGTT
* *
1025736 TGCTTAAA-TCCCAGCATTAAACCTTTC-TGATGTGCTCCACGTG-TCATTAGTTTGTTGTTAGC
62 AGCTTAAAGT-CCAGCATTAAACCTTTCATGACGTGCTCCACGTGAT-ATTA-TTTGTTGTTAGC
* ***
1025798 TTAAAGTCCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGTTAATTTGTT
124 TTAAAGTCCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGATAATTTACC
* * * * *
1025852 GTTTGCTTAAATCCCAGCATTAAACCTTTCCGATGTGCTCCACGTGTCATTAGTTTGTTGTTAGC
1 GTTAGCGTAAATCCCAGCATTAAACCTTTCCGACGTGCTCCACGTGT-GTTAATTTGTTGTTAGC
* * * *
1025917 TTAAAGTCTAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTGTTGTTAGCTTAAA
65 TTAAAGTCCAGCATTAAACCTTTCATGACGTGCTCCACGTGATATT-ATTTGTTGTTAGCTTAAA
*
1025982 -TCCGAGCATTAAGTCTTT
129 GTCCG-GCATTAAGCCTTT
1026000 TCCAATTTGC
Statistics
Matches: 278, Mismatches: 35, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
177 1 0.00
178 58 0.21
179 166 0.60
180 53 0.19
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (177 bp):
GTTAGCGTAAATCCCAGCATTAAACCTTTCCGACGTGCTCCACGTGTGTTAATTTGTTGTTAGCT
TAAAGTCCAGCATTAAACCTTTCATGACGTGCTCCACGTGATATTATTTGTTGTTAGCTTAAAGT
CCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGATAATTTACC
Found at i:1025836 original size:119 final size:119
Alignment explanation
Indices: 1025492--1025993 Score: 645
Period size: 119 Copynumber: 4.2 Consensus size: 119
1025482 CCACATGATT
* * * * *
1025492 TTGTTAGCCTAAATCCCAGCATTAAGCCTTTCTGATGTGCTCCACG-GGCTGTTAATTTCTTGTT
1 TTGTTAGCTTAAATCCCAGCATTAAACCTTTCTGATGTGCTCCACGTGTC-ATTAATTTGTTGTT
* * * *
1025556 AGCTTAAAGTCCAGCATTACA-CCTTTCATGACATGCTCCACGTGATATTTATTTG
65 AGCTTAAAGTCCAGCATTA-AGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
* * * * ***
1025611 TTGTTAGCTTAAAGT-CCAGCCTTAAGCCTTT-TGTAACGTGCTCCACGTGATGA-TAATTTACC
1 TTGTTAGCTTAAA-TCCCAGCATTAAACCTTTCTG--ATGTGCTCCACGTG-TCATTAATTTGTT
* * * **
1025673 GTTAGCGTAAAGTCCAGCCTTAATCCTTTTGTAACGTGCTCCACGTGATGTTAATTTG
62 GTTAGCTTAAAGTCCAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
* *
1025731 TTGTTTGCTTAAATCCCAGCATTAAACCTTTCTGATGTGCTCCACGTGTCATTAGTTTGTTGTTA
1 TTGTTAGCTTAAATCCCAGCATTAAACCTTTCTGATGTGCTCCACGTGTCATTAATTTGTTGTTA
* *
1025796 GCTTAAAGTCCGGCATTAAGCCTTTCATAACGTGCCCCACGTGATGTTAATTTG
66 GCTTAAAGTCCAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
* * *
1025850 TTGTTTGCTTAAATCCCAGCATTAAACCTTTCCGATGTGCTCCACGTGTCATTAGTTTGTTGTTA
1 TTGTTAGCTTAAATCCCAGCATTAAACCTTTCTGATGTGCTCCACGTGTCATTAATTTGTTGTTA
*
1025915 GCTTAAAGTCTAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
66 GCTTAAAGTCCAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
*
1025969 TTGTTAGCTTAAATCCGAGCATTAA
1 TTGTTAGCTTAAATCCCAGCATTAA
1025994 GTCTTTTCCA
Statistics
Matches: 335, Mismatches: 39, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
118 4 0.01
119 236 0.70
120 92 0.27
121 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (119 bp):
TTGTTAGCTTAAATCCCAGCATTAAACCTTTCTGATGTGCTCCACGTGTCATTAATTTGTTGTTA
GCTTAAAGTCCAGCATTAAGCCTTTCATAACGTGCTCCACGTGATGTTAATTTG
Found at i:1029439 original size:14 final size:15
Alignment explanation
Indices: 1029414--1029454 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1029404 GCCTAATGTC
1029414 AAATTTAG-TTTTTA
1 AAATTTAGTTTTTTA
* *
1029428 ATATTTATTTTTTTA
1 AAATTTAGTTTTTTA
1029443 AAATTTAGTTTT
1 AAATTTAGTTTT
1029455 ATTCTTCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
AAATTTAGTTTTTTA
Found at i:1032542 original size:23 final size:23
Alignment explanation
Indices: 1032515--1032587 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1032505 ATAAAATCCC
1032515 GATACTTTAGCCTCAAGAAATCA
1 GATACTTTAGCCTCAAGAAATCA
**
1032538 GATACTTTAATCTCAAGAAATCA
1 GATACTTTAGCCTCAAGAAATCA
* * *
1032561 GATACCTTAGCTTTAAGAAATCA
1 GATACTTTAGCCTCAAGAAATCA
1032584 GATA
1 GATA
1032588 AGGCTTGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (23 bp):
GATACTTTAGCCTCAAGAAATCA
Found at i:1032715 original size:3 final size:3
Alignment explanation
Indices: 1032707--1032748 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1032697 CTATGTCGTG
1032707 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1032749 TCCTATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1032793 original size:15 final size:16
Alignment explanation
Indices: 1032768--1032805 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1032758 AATTAAAAAA
**
1032768 TAAAAATGTAATTCTT
1 TAAAAATGTAAAACTT
1032784 TAAAAA-GTAAAACTT
1 TAAAAATGTAAAACTT
1032799 TAAAAAT
1 TAAAAAT
1032806 AAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (16 bp):
TAAAAATGTAAAACTT
Found at i:1032810 original size:15 final size:15
Alignment explanation
Indices: 1032781--1032809 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1032771 AAATGTAATT
1032781 CTTTAAAAAGTAAAA
1 CTTTAAAAAGTAAAA
1032796 CTTTAAAAA-TAAAA
1 CTTTAAAAAGTAAAA
1032810 ATAATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
CTTTAAAAAGTAAAA
Found at i:1034381 original size:21 final size:22
Alignment explanation
Indices: 1034345--1034387 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1034335 TCAATAAAGA
*
1034345 TTTTAAAATTATTAAAACTATT
1 TTTTAAAAATATTAAAACTATT
*
1034367 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAACTATT
1034388 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAAAAATATTAAAACTATT
Found at i:1034648 original size:41 final size:41
Alignment explanation
Indices: 1034598--1034678 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
1034588 AGTATTTGTC
1034598 TGGATTAGGATAAAGATTTAGGGTTTTTGATTTCATTTGGT
1 TGGATTAGGATAAAGATTTAGGGTTTTTGATTTCATTTGGT
1034639 TGGATTAGGATAAAGATTTAGGGTTTTTGATTTCATTTGG
1 TGGATTAGGATAAAGATTTAGGGTTTTTGATTTCATTTGG
1034679 GATAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (41 bp):
TGGATTAGGATAAAGATTTAGGGTTTTTGATTTCATTTGGT
Found at i:1034722 original size:56 final size:56
Alignment explanation
Indices: 1034655--1034770 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
1034645 AGGATAAAGA
*
1034655 TTTAGGGTTTTTGATTTCATTTGGGATAAAAAAAACATGTTTCAAAAACCCAGGTT
1 TTTAGGGTTTTTGATTTCATTTGGGATAAAAAAAACATGTTTCAAAAACCCAAGTT
*
1034711 TTTAGGGTTTTTGATTTCATTTGGGGTAAAAAAAACATGTTTCAAAAACCCAAGTT
1 TTTAGGGTTTTTGATTTCATTTGGGATAAAAAAAACATGTTTCAAAAACCCAAGTT
1034767 TTTA
1 TTTA
1034771 AGTTTGATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (56 bp):
TTTAGGGTTTTTGATTTCATTTGGGATAAAAAAAACATGTTTCAAAAACCCAAGTT
Found at i:1038362 original size:19 final size:20
Alignment explanation
Indices: 1038335--1038372 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1038325 ATATGATCAT
* *
1038335 AAATTTAACTCTA-AATTAG
1 AAATATAACACTACAATTAG
1038354 AAATATAACACTACAATTA
1 AAATATAACACTACAATTA
1038373 TATGGGCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATAACACTACAATTAG
Found at i:1042287 original size:29 final size:29
Alignment explanation
Indices: 1042224--1042280 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
1042214 GTTTAATGTG
* **
1042224 TAATTTAATATATGAACTTTAATTTTATA
1 TAATTTAACATATGAACTTTAATTCAATA
*
1042253 TAATTTAACATATGAATTTTAATTCAAT
1 TAATTTAACATATGAACTTTAATTCAAT
1042281 TGAATTTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (29 bp):
TAATTTAACATATGAACTTTAATTCAATA
Found at i:1042418 original size:2 final size:2
Alignment explanation
Indices: 1042411--1042471 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1042401 TCAAAATTTA
1042411 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
1042453 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1042472 ATTGCACAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1045369 original size:3 final size:3
Alignment explanation
Indices: 1045348--1045388 Score: 55
Period size: 3 Copynumber: 12.7 Consensus size: 3
1045338 TTGAATTGCT
1045348 TTA TTA TTTA TTTA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
1045389 TTGTGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 26 0.70
4 11 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1046023 original size:23 final size:23
Alignment explanation
Indices: 1045980--1046066 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
1045970 TAATGTTCAG
*
1045980 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-TGAACATTAATC
*
1046003 GAACATGTTCATGAACATTAAAC
1 GAACATGTTCATGAACATTAATC
* * * *
1046026 CAAAATGTTCATGAACTTATAATT
1 GAACATGTTCATGAACAT-TAATC
1046050 GAACATGTTCATGAACA
1 GAACATGTTCATGAACA
1046067 ATGTTAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.08
23 31 0.60
24 17 0.33
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (23 bp):
GAACATGTTCATGAACATTAATC
Found at i:1049506 original size:40 final size:40
Alignment explanation
Indices: 1049445--1049521 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1049435 ACCTGGGTCG
* *
1049445 TTTAGTTCAATTTAAGTTAAAAACTAGTGTAACTAGGCCC
1 TTTAGTACAATGTAAGTTAAAAACTAGTGTAACTAGGCCC
*
1049485 TTTAGTACAATGTAA-TGTAAAAACTAGTGTGACTAGG
1 TTTAGTACAATGTAAGT-TAAAAACTAGTGTAACTAGG
1049522 GATGGCAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (40 bp):
TTTAGTACAATGTAAGTTAAAAACTAGTGTAACTAGGCCC
Found at i:1049635 original size:14 final size:14
Alignment explanation
Indices: 1049616--1049653 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1049606 CACTTTACTG
*
1049616 TTTAAACATAATTC
1 TTTAAACATAATTA
*
1049630 TTTAAA-AAAATTA
1 TTTAAACATAATTA
1049643 TTTAAACATAA
1 TTTAAACATAA
1049654 AATATATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTAAACATAATTA
Found at i:1051936 original size:25 final size:25
Alignment explanation
Indices: 1051874--1051936 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
1051864 TTTAATTTGA
*
1051874 TACTTGAGTTTTTTTTTTCAATTTGT
1 TACTTGA-TTTTTTTTTTCAATTTAT
* *
1051900 TACCTAATTTTTTTTTTCAATTTAT
1 TACTTGATTTTTTTTTTCAATTTAT
*
1051925 TACTTGACTTTT
1 TACTTGATTTTT
1051937 GCTTCAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.19, C:0.11, G:0.06, T:0.63
Consensus pattern (25 bp):
TACTTGATTTTTTTTTTCAATTTAT
Found at i:1057353 original size:94 final size:90
Alignment explanation
Indices: 1057144--1057485 Score: 350
Period size: 94 Copynumber: 3.7 Consensus size: 90
1057134 CAAAATACTA
* * * * *
1057144 GAACTAAATCAGTTACAAAACTCATCTC-CAAAATTACAGAGCCAACAAAAAAAACTCTAGAATT
1 GAACTGAATCACTTACAAAACTCATC-CGCAAAATTACAAAGCC-A-AATAAAAACTCTATAATT
* *
1057208 CAAACTTTTTTAAAAAATTCAAATATGC
63 CAAACTTTTTAAAAAAAATCAAATATGC
* * * *
1057236 GACCTGAATCACTTACAAAACTCATCCGCAAAATTACAAAGCTAAATTAGAACTCTATAATTCAA
1 GAACTGAATCACTTACAAAACTCATCCGCAAAATTACAAAGCCAAATAAAAACTCTATAATTCAA
*
1057301 ACTTTTTAAAAAAAAAAAATCAAATATGT
66 ACTTTTT----AAAAAAAATCAAATATGC
* * * * *
1057330 GAACGGAACCACTTACAAAACTCA-CCTGCAAAATTGCAAAGCCAAATAAAAACTCTAGAATACA
1 GAACTGAATCACTTACAAAACTCATCC-GCAAAATTACAAAGCCAAATAAAAACTCTATAATTCA
*** *
1057394 AACATTTTT--TTTAATTCAAATATGC
65 AAC-TTTTTAAAAAAAATCAAATATGC
* * * *
1057419 GAACTGAAACACTTACAAAACTTATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAA
1 GAACTGAATCACTTACAAAACTCATCCGCAAAATTACAAAGCCAAATAAAAACTCTATAATTCAA
1057484 AC
66 AC
1057486 ATGAAAGACA
Statistics
Matches: 208, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
89 68 0.33
90 25 0.12
91 2 0.01
92 36 0.17
93 2 0.01
94 70 0.34
95 5 0.02
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (90 bp):
GAACTGAATCACTTACAAAACTCATCCGCAAAATTACAAAGCCAAATAAAAACTCTATAATTCAA
ACTTTTTAAAAAAAATCAAATATGC
Found at i:1057452 original size:183 final size:189
Alignment explanation
Indices: 1057060--1057510 Score: 560
Period size: 183 Copynumber: 2.4 Consensus size: 189
1057050 GAATCAGTTG
* *
1057060 CAAAACTCATCTGCAAAATTACAGAGCCAAATGAAAACTCTAATAATTCAAACATTTAAGAAGAA
1 CAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCT-ATAATTCAAACATTTAAGAAGAA
* * * * *
1057125 AACAAAAATCAAAATACTAGAACTAAATCAGTTACAAAACTCATCTCCAAAATTACAGAGCCAAC
65 AACAAAAATCAAAATACTAGAACGAAACCACTTACAAAACTCACCTCCAAAATTACAAAGCCAAC
* * *
1057190 AAAAAAAACTCTAGAATTCAAACTTTTTTAAAAAATTCAAATATGCGACCTGAATCACTTA
130 AAAAAAAACTCTAGAATACAAACTTTTTT-AAAAATTCAAATATGCGAACTGAAACACTTA
* * * * *
1057251 CAAAACTCATCCGCAAAATTACAAAGCTAAATTAGAACTCTATAATTCAAACTTTTTA-AA-AAA
1 CAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACATTTAAGAAGAAA
* * * *
1057314 A-AAAAATC-AAATA-TGTGAACGGAACCACTTACAAAACTCACCTGCAAAATTGCAAAGCC-A-
66 ACAAAAATCAAAATACT-AGAACGAAACCACTTACAAAACTCACCTCCAAAATTACAAAGCCAAC
* **
1057374 AATAAAAACTCTAGAATACAAACATTTTTT-TTAATTCAAATATGCGAACTGAAACACTTA
130 AAAAAAAACTCTAGAATACAAAC-TTTTTTAAAAATTCAAATATGCGAACTGAAACACTTA
* ** *
1057434 CAAAACTTATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACATGAAAG-ACAAA
1 CAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACATTTAAGAAGAAA
*
1057498 ACAACAATCAAAA
66 ACAAAAATCAAAA
1057511 AATGCAAACT
Statistics
Matches: 223, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
183 77 0.35
184 25 0.11
185 14 0.06
186 43 0.19
187 7 0.03
188 4 0.02
189 2 0.01
190 15 0.07
191 36 0.16
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.23
Consensus pattern (189 bp):
CAAAACTCATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAACATTTAAGAAGAAA
ACAAAAATCAAAATACTAGAACGAAACCACTTACAAAACTCACCTCCAAAATTACAAAGCCAACA
AAAAAAACTCTAGAATACAAACTTTTTTAAAAATTCAAATATGCGAACTGAAACACTTA
Found at i:1057487 original size:89 final size:88
Alignment explanation
Indices: 1057156--1057485 Score: 354
Period size: 89 Copynumber: 3.6 Consensus size: 88
1057146 ACTAAATCAG
* * *
1057156 TTACAAAACTCATCTCCAAAATTACAGAGCCAACAAAAAAAACTCTAGAATTCAAACTTTTTTAA
1 TTACAAAACTCATCTGCAAAATTACAAAGCC-A-AATAAAAACTCTAGAATTCAAACTTTTTT--
* *
1057221 AAAATTCAAATATGCGACCTGAATCAC
62 AAAATTCAAATATGCGAACTGAAACAC
* * * * *
1057248 TTACAAAACTCATCCGCAAAATTACAAAGCTAAATTAGAACTCTATAATTCAAACTTTTTAAAAA
1 TTACAAAACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATTCAAACTTTTT-----
* * * * *
1057313 AAAAAAATCAAATATGTGAACGGAACCAC
61 -TAAAATTCAAATATGCGAACTGAAACAC
* * * **
1057342 TTACAAAACTCACCTGCAAAATTGCAAAGCCAAATAAAAACTCTAGAATACAAACATTTTTTTTA
1 TTACAAAACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATTCAAAC-TTTTTTAAA
1057407 ATTCAAATATGCGAACTGAAACAC
65 ATTCAAATATGCGAACTGAAACAC
* * *
1057431 TTACAAAACTTATCTGCAAAATTACAAAGCCAAATTAAAACTCTATAATTCAAAC
1 TTACAAAACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATTCAAAC
1057486 ATGAAAGACA
Statistics
Matches: 196, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
89 70 0.36
90 24 0.12
91 1 0.01
92 27 0.14
94 69 0.35
95 5 0.03
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (88 bp):
TTACAAAACTCATCTGCAAAATTACAAAGCCAAATAAAAACTCTAGAATTCAAACTTTTTTAAAA
TTCAAATATGCGAACTGAAACAC
Found at i:1059690 original size:22 final size:21
Alignment explanation
Indices: 1059638--1059692 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
1059628 AAATTTTATT
* *
1059638 AATATTTAATATTATTTTAATTA
1 AATATTT-A-ATTATTTAAATGA
1059661 AATAATTTAATTATTTAAATAGA
1 AAT-ATTTAATTATTTAAAT-GA
1059684 AATATTTAA
1 AATATTTAA
1059693 AATATGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTAATTATTTAAATGA
Found at i:1071245 original size:24 final size:23
Alignment explanation
Indices: 1071204--1071263 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
1071194 AATTTAAATA
* * *
1071204 AAATATTAATTATGTTAAACAGT
1 AAATATTAATTTTTTTAAACAAT
* *
1071227 AAATGATTTATTTTTTTAAATAAT
1 AAAT-ATTAATTTTTTTAAACAAT
1071251 AAATATTAATTTT
1 AAATATTAATTTT
1071264 ATTTCAGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
AAATATTAATTTTTTTAAACAAT
Found at i:1075442 original size:50 final size:51
Alignment explanation
Indices: 1075337--1075449 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 51
1075327 CATTGTTGAT
* * * *
1075337 TAAATTTGTTATATCAAGACCAATTTGACATAATGTATAAATATTACAGGT
1 TAAATTTGTTATATCAAGACCAATTTGACAAAATATATAAATACTACAGGC
**
1075388 TAAATTTGTTATATCAAGATTAA-TTGACAAAATATATAAATACTA-AGGAC
1 TAAATTTGTTATATCAAGACCAATTTGACAAAATATATAAATACTACAGG-C
*
1075438 TAAATTTATTAT
1 TAAATTTGTTAT
1075450 TATACTAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 3 0.06
50 30 0.56
51 21 0.39
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (51 bp):
TAAATTTGTTATATCAAGACCAATTTGACAAAATATATAAATACTACAGGC
Found at i:1083425 original size:17 final size:16
Alignment explanation
Indices: 1083405--1083438 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1083395 ACATTTTCCA
1083405 TTTTTGGAAAAAATTCT
1 TTTTTGG-AAAAATTCT
1083422 TTTTTGGAAAAATTCT
1 TTTTTGGAAAAATTCT
1083438 T
1 T
1083439 ACTTTTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TTTTTGGAAAAATTCT
Found at i:1100662 original size:27 final size:26
Alignment explanation
Indices: 1100632--1100700 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
1100622 TTGGAACGTT
*
1100632 TTTTATTATATTTTTTAGTTATTTTTA
1 TTTTATTATATTTTTTAGTGA-TTTTA
* * *
1100659 TTTTATTATAATTGTTAGTGATTTTG
1 TTTTATTATATTTTTTAGTGATTTTA
*
1100685 TTATATTTATATTTTT
1 TTTTA-TTATATTTTT
1100701 ACGATTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 8 0.24
27 26 0.76
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (26 bp):
TTTTATTATATTTTTTAGTGATTTTA
Found at i:1105568 original size:13 final size:13
Alignment explanation
Indices: 1105550--1105592 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
1105540 ACATGTAATA
1105550 TAAATATTTATAT
1 TAAATATTTATAT
*
1105563 TAAATA-TTACA-
1 TAAATATTTATAT
1105574 TAAATATTTATAT
1 TAAATATTTATAT
1105587 TAAATA
1 TAAATA
1105593 CAATATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 6 0.23
12 8 0.31
13 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:1107382 original size:20 final size:21
Alignment explanation
Indices: 1107353--1107407 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
1107343 AAAGAATTGC
1107353 TAGAAAATTTTAACAGATGTT
1 TAGAAAATTTTAACAGATGTT
1107374 TAG-AAATTTTAACAGATGTT
1 TAGAAAATTTTAACAGATGTT
*
1107394 TCGAAAATTTTAAC
1 TAGAAAATTTTAAC
1107408 CTGTCGAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (21 bp):
TAGAAAATTTTAACAGATGTT
Found at i:1109469 original size:10 final size:10
Alignment explanation
Indices: 1109454--1109496 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
1109444 TCAAATGAAC
*
1109454 AAATTATTAA
1 AAATTAATAA
1109464 AAATTAATAA
1 AAATTAATAA
1109474 AAATTAA-AA
1 AAATTAATAA
*
1109483 AAATAAAATAA
1 AAAT-TAATAA
1109494 AAA
1 AAA
1109497 AAATTAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 6 0.21
10 18 0.62
11 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATTAATAA
Found at i:1116710 original size:158 final size:159
Alignment explanation
Indices: 1116422--1116723 Score: 525
Period size: 158 Copynumber: 1.9 Consensus size: 159
1116412 TTTTTCGAGA
1116422 TGCTGCAAATAAATAAATGTTATTTCTGTCAAAATCCATGTGAAACATTTATAAACTAAATACAA
1 TGCTGCAAATAAATAAATGTTATTTCTGTCAAAATCCATGTGAAACATTTATAAACTAAATACAA
* * *
1116487 TTTGCAGAATGAAAACATGGGATATGCAGAAACCTAAGAAGATAATTATTCATGGTTTATTTAGT
66 TTTGCAGAATGAAAACATAGGACATGCAGAAACCGAAGAAGATAATTATTCATGGTTTATTTAGT
1116552 AGTTTA-TTTGTTATTTGAGATTTTATTT
131 AGTTTATTTTGTTATTTGAGATTTTATTT
* *
1116580 TGCTGCATATACATAAATGTTATTTCTGTCAAAATCCATGTGAAACATTTATAAACTAAATACAA
1 TGCTGCAAATAAATAAATGTTATTTCTGTCAAAATCCATGTGAAACATTTATAAACTAAATACAA
* *
1116645 TTTGCAGAATGAAAACATAGGACATGCAGAAACCGAAGACGATAATTGTTCATGGTTTATTTAGT
66 TTTGCAGAATGAAAACATAGGACATGCAGAAACCGAAGAAGATAATTATTCATGGTTTATTTAGT
*
1116710 ATTTTATTTTGTTA
131 AGTTTATTTTGTTA
1116724 CACTTGTTGA
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
158 128 0.95
159 7 0.05
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (159 bp):
TGCTGCAAATAAATAAATGTTATTTCTGTCAAAATCCATGTGAAACATTTATAAACTAAATACAA
TTTGCAGAATGAAAACATAGGACATGCAGAAACCGAAGAAGATAATTATTCATGGTTTATTTAGT
AGTTTATTTTGTTATTTGAGATTTTATTT
Found at i:1129475 original size:16 final size:17
Alignment explanation
Indices: 1129451--1129485 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1129441 GTTATTATTA
*
1129451 TATCAAAATTTATTTAT
1 TATCAAAATATATTTAT
1129468 TATC-AAATATATTTAT
1 TATCAAAATATATTTAT
1129484 TA
1 TA
1129486 AGTTCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATCAAAATATATTTAT
Found at i:1130146 original size:65 final size:64
Alignment explanation
Indices: 1130076--1130257 Score: 172
Period size: 64 Copynumber: 2.8 Consensus size: 64
1130066 ACTCAGTAGG
* *
1130076 AAACTAGTGACGATATTTATAACCGAGTCCGAATATCATATGGGTTGTCCACTCGTCCC-GAAAC
1 AAACTAGTGACGATATTTATAACCGAGTCC-AATATCATATGGGTTATCCACTCGACCCGGAAAC
* * * ** * * * * *
1130140 ATAACTAGTGATGATA-TCACAATAGAGTCCAAGTCA-CATATGAGCTATCAACCCGACCCGGTA
1 A-AACTAGTGACGATATTTATAACCGAGTCCAA-T-ATCATATGGGTTATCCACTCGACCCGGAA
*
1130203 AG
63 AC
*
1130205 AAACTAGTGACGATGTTTATAACCGAGTCCAAATATCATATGGGTTATCCACT
1 AAACTAGTGACGATATTTATAACCGAGTCC-AATATCATATGGGTTATCCACT
1130258 TGATCCGGTA
Statistics
Matches: 88, Mismatches: 23, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
63 2 0.02
64 42 0.48
65 42 0.48
66 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (64 bp):
AAACTAGTGACGATATTTATAACCGAGTCCAATATCATATGGGTTATCCACTCGACCCGGAAAC
Found at i:1130266 original size:65 final size:64
Alignment explanation
Indices: 1130075--1130279 Score: 189
Period size: 65 Copynumber: 3.2 Consensus size: 64
1130065 TACTCAGTAG
* * * *
1130075 GAAACTAGTGACGATATTTATAACCGAGTCCGAATATCATATGGGTTGTCCACTCG-TCCCGAAA
1 GAAACTAGTGACGAT-TTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCGATCCGGTAA
* * * * * ** * * * * * *
1130139 CATAACTAGTGATGATATCACAATAGAGTCCAAGTCA-CATATGAGCTATCAACCCGACCCGGTA
1 GA-AACTAGTGACGATTTTATAACCGAGTCCAAAT-ATCATATGGGTTATCCACTCGATCCGGTA
1130203 A
64 A
* *
1130204 GAAACTAGTGACGATGTTTATAACCGAGTCCAAATATCATATGGGTTATCCACTTGATCCGGTAG
1 GAAACTAGTGACGAT-TTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCGATCCGGTAA
1130269 GAAACTAGTGA
1 GAAACTAGTGA
1130280 AACGATAGCA
Statistics
Matches: 104, Mismatches: 32, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
64 40 0.38
65 64 0.62
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (64 bp):
GAAACTAGTGACGATTTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCGATCCGGTAA
Found at i:1130275 original size:129 final size:128
Alignment explanation
Indices: 1130075--1130325 Score: 326
Period size: 129 Copynumber: 1.9 Consensus size: 128
1130065 TACTCAGTAG
* *
1130075 GAAACTAGTGACGATATTTATAACCGAGTCCGAATATCATATGGGTTGTCCACTCGTCCCGAAAC
1 GAAACTAGTGACGATATTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCGTCCCGAAAC
* *
1130140 ATAACTAGTG-ATGATATCACAATAGAGTCCAAGTCACATATGAGCTATCAACCCGACCCGGTAA
66 ATAACTAGTGAACGATA--ACAATAGAATCCAAGTCACATATGAGCTATCAACCCGACCCGGTAA
* * * * *
1130204 GAAACTAGTGACGATGTTTATAACCGAGTCCAAATATCATATGGGTTATCCACTTGATCCGGTAG
1 GAAACTAGTGACGATATTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCG-TCCCGAAA
* * * * *
1130269 GA-AACTAGTGAAACGATAGCAGTAGAATCCGAGTCACATATGGGCTATCAACCCGAC
65 CATAACTAGTG-AACGATAACAATAGAATCCAAGTCACATATGAGCTATCAACCCGAC
1130326 ACGATAAAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 94 0.90
130 6 0.06
131 5 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (128 bp):
GAAACTAGTGACGATATTTATAACCGAGTCCAAATATCATATGGGTTATCCACTCGTCCCGAAAC
ATAACTAGTGAACGATAACAATAGAATCCAAGTCACATATGAGCTATCAACCCGACCCGGTAA
Found at i:1141562 original size:16 final size:17
Alignment explanation
Indices: 1141529--1141564 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1141519 TATGTATTTT
1141529 ATATGATTAAATGTATA
1 ATATGATTAAATGTATA
*
1141546 ATATGATTGAA-GTATA
1 ATATGATTAAATGTATA
1141562 ATA
1 ATA
1141565 CTAATTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (17 bp):
ATATGATTAAATGTATA
Found at i:1146360 original size:25 final size:25
Alignment explanation
Indices: 1146327--1146382 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1146317 TATTATTAAT
*
1146327 TAATAATATGTT-TCTTTTTCATAAA
1 TAATAATAT-TTATCTTTTACATAAA
*
1146352 TAATTATATTTATCTTTTACATAAA
1 TAATAATATTTATCTTTTACATAAA
*
1146377 TTATAA
1 TAATAA
1146383 AAATAACTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATATTTATCTTTTACATAAA
Found at i:1146749 original size:2 final size:2
Alignment explanation
Indices: 1146742--1146770 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1146732 CTAAAGTCAT
1146742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1146771 TAAAGTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1147555 original size:29 final size:29
Alignment explanation
Indices: 1147463--1147825 Score: 242
Period size: 29 Copynumber: 12.4 Consensus size: 29
1147453 GGAGGTCCCT
** *
1147463 AAACTGTCCAAAAATTGTATTTTGATCCCC-
1 AAACT-TCCAAAAATTACATTTT-AACCCCG
* *
1147493 AAACTTCTTC-AAAATTTCATTTTTAA-CCCT
1 AAACTTC--CAAAAATTACA-TTTTAACCCCG
** * *
1147523 AAACTTTTAAAGATTATATTTTAACCCCG
1 AAACTTCCAAAAATTACATTTTAACCCCG
*
1147552 AAACTTCCAAAAATTACATTTTAACCTC-
1 AAACTTCCAAAAATTACATTTTAACCCCG
* * * *
1147580 AAAATATCCCAAAATTACCATTTTGACCTCG
1 AAACT-TCCAAAAATTA-CATTTTAACCCCG
*
1147611 AAACTTCTAAAAATTACATTTTAACCCCG
1 AAACTTCCAAAAATTACATTTTAACCCCG
* **
1147640 AAACTTCC-AAAATTAAAATTTTAACCTTG
1 AAACTTCCAAAAATT-ACATTTTAACCCCG
* * **
1147669 AAATTTTCC-AAAATTACCATTTTGACCCTA
1 AAA-CTTCCAAAAATTA-CATTTTAACCCCG
* * * **
1147699 AAATTTCTAAAAATTACATTTTTGACCCTA
1 AAACTTCCAAAAATTACA-TTTTAACCCCG
*
1147729 AAACTTCCAAAAATTACATTTT-GCCCC-
1 AAACTTCCAAAAATTACATTTTAACCCCG
* **
1147756 AAACTTCCAAAAATTGCATTTTAACCCTA
1 AAACTTCCAAAAATTACATTTTAACCCCG
* *
1147785 AAACTTTC-AAAATTACCATTTT-ACCCCC
1 AAACTTCCAAAAATTA-CATTTTAACCCCG
*
1147813 AAACATCCAAAAA
1 AAACTTCCAAAAA
1147826 CCCCAATTTT
Statistics
Matches: 270, Mismatches: 45, Indels: 37
0.77 0.13 0.11
Matches are distributed among these distances:
27 21 0.08
28 38 0.14
29 107 0.40
30 95 0.35
31 9 0.03
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTAACCCCG
Done.