Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:604685 original size:109 final size:108
Alignment explanation
Indices: 604333--604856 Score: 548
Period size: 109 Copynumber: 4.8 Consensus size: 108
604323 GATCAATTTT
* ** * * * * * ** *
604333 GGAAGACGGGTCCATTCCACTCTTCTTTTAGGGA-AAGAGGAC-CGAAAAATATTCAGACGACGG
1 GGAAAACGGGTCCGCTCC-CTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGG
* * *
604396 GTTCGCTCCCTCTTCTTTCAGGGAGTATAAGACTTGAACAATCTTC
65 GTCCGCT-CCTCTTCTTTCAGGGAGTATAGGACTT-AAAAATCTTC
* * * **
604442 AGAAAACGAGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGAAAAACAGG
1 GGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGGG
** * *
604507 TTTGCTCCCTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTT
66 TCCGCT-CCTCTTCTTTCAGGGAGTATAGGA-CTTAAAAATCTTC
** * * * *
604552 GGAAAACGGGTATGTTCCCTCTTCTTTCAGGGAGTATAAGACTTGAAAAATCTTTGGAAAATGGG
1 GGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGGG
* *
604617 TCCGCTCCTTTTCTTTCAAGGAGTATAGGACTTAAACAATCTTC
66 TCCGCTCCTCTTCTTTCAGGGAGTATAGGACTTAAA-AATCTTC
* * ** * * * *
604661 GGAAAATGCGTTTGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGGAAAATGGG
1 GGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGGG
*
604726 TCCGCTCTCTCTTCTTTCAGGGAGTATAGGACTTGAAAATCTTC
66 TCCGCTC-CTCTTCTTTCAGGGAGTATAGGACTTAAAAATCTTC
* * **
604770 GAAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAAAATCTTTAGAAAATGGG
1 GGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGGG
* *
604835 TCTGCTCCCTCTTTTTTCAGGG
66 TCCGCT-CCTCTTCTTTCAGGG
604857 GAGATCAGTC
Statistics
Matches: 347, Mismatches: 62, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
108 19 0.05
109 188 0.54
110 138 0.40
111 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (108 bp):
GGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATCTTCGGAAAATGGG
TCCGCTCCTCTTCTTTCAGGGAGTATAGGACTTAAAAATCTTC
Found at i:604689 original size:164 final size:164
Alignment explanation
Indices: 604352--604856 Score: 624
Period size: 164 Copynumber: 3.1 Consensus size: 164
604342 GTCCATTCCA
* * * * * ** *
604352 CTCTTCTTTTAGGGA-AAGAGGACC-GAAAAATATTCAGACGACGGGTTCGCTCCCTCTTCTTTC
1 CTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTCGGAAAACGGGTACGCTCCCTCTTCTTTC
* * * *
604415 AGGGAGTATAAGACTTGAACAATCTTCAGAAAACGAGTCCGCTCCCTCTTCTTTCAGGGAGTATA
66 AGGGAGTATAAGACTTGAAAAATCTTCGGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA
* *
604480 GGACTCGAAAAATCTTCGAAAAACAGGTTTGCTCC
131 GGACTCGAAAAATCTTCGGAAAA-TGGTTTGCTCC
* * *
604515 CTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTTGGAAAACGGGTATGTTCCCTCTTCTTTC
1 CTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTCGGAAAACGGGTACGCTCCCTCTTCTTTC
* * * *
604580 AGGGAGTATAAGACTTGAAAAATCTTTGGAAAATGGGTCCGCT-CCTTTTCTTTCAAGGAGTATA
66 AGGGAGTATAAGACTTGAAAAATCTTCGGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA
*
604644 GGACT-TAAACAATCTTCGGAAAATGCGTTTGCTCC
131 GGACTCGAAA-AATCTTCGGAAAATG-GTTTGCTCC
* * * * * * *
604679 TTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTCGGAAAATGGGTCCGCTCTCTCTTCTTTC
1 CTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTCGGAAAACGGGTACGCTCCCTCTTCTTTC
* *
604744 AGGGAGTATAGGACTTG-AAAATCTTCGAAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA
66 AGGGAGTATAAGACTTGAAAAATCTTCGGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA
** *
604808 GGACTCGAAAAATCTTTAGAAAATGGGTCTGCTCC
131 GGACTCGAAAAATCTTCGGAAAAT-GGTTTGCTCC
*
604843 CTCTTTTTTCAGGG
1 CTCTTCTTTCAGGG
604857 GAGATCAGTC
Statistics
Matches: 291, Mismatches: 44, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
163 40 0.14
164 178 0.61
165 73 0.25
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (164 bp):
CTCTTCTTTCAGGGAGTATAGGACCTGAAAAATCTTCGGAAAACGGGTACGCTCCCTCTTCTTTC
AGGGAGTATAAGACTTGAAAAATCTTCGGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA
GGACTCGAAAAATCTTCGGAAAATGGTTTGCTCC
Found at i:604870 original size:55 final size:55
Alignment explanation
Indices: 604330--604856 Score: 517
Period size: 55 Copynumber: 9.6 Consensus size: 55
604320 TCAGATCAAT
* ** * * * *
604330 TTTGGAAGACGGGTCCATTCCACTCTTCTTTTAGGGA-AAGAGGAC-CGAAAAATA
1 TTTGGAAAACGGGTCCGCTCC-CTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
** ** * * * *
604384 TTCAGACGACGGGTTCGCTCCCTCTTCTTTCAGGGAGTATAAGACTTGAACAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
** *
604439 TTCAGAAAACGAGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
* * * **
604494 TTCGAAAAACAGGTTTGCTCCCTCTTCTTTCAGGGAGTATAGGAC-CTGAAAAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTC-GAAAAATC
** * * *
604549 TTTGGAAAACGGGTATGTTCCCTCTTCTTTCAGGGAGTATAAGACTTGAAAAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
* * * *
604604 TTTGGAAAATGGGTCCGCT-CCTTTTCTTTCAAGGAGTATAGGACT-TAAACAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAA-AATC
* * * ** * * * *
604658 TTCGGAAAATGCGTTTGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGAACAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
* * * *
604713 TTCGGAAAATGGGTCCGCTCTCTCTTCTTTCAGGGAGTATAGGACTTG-AAAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
* * *
604767 TTCGAAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAAAATC
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
* * * *
604822 TTTAGAAAATGGGTCTGCTCCCTCTTTTTTCAGGG
1 TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGG
604857 GAGATCAGTC
Statistics
Matches: 397, Mismatches: 68, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
53 17 0.04
54 111 0.28
55 267 0.67
56 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (55 bp):
TTTGGAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAAAATC
Found at i:606137 original size:14 final size:15
Alignment explanation
Indices: 606113--606144 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
606103 TTGAACCCCT
606113 TTTTATTCTTTTTCC
1 TTTTATTCTTTTTCC
606128 TTTT-TTCTTTTTCC
1 TTTTATTCTTTTTCC
606142 TTT
1 TTT
606145 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTCTTTTTCC
Found at i:609352 original size:8 final size:8
Alignment explanation
Indices: 609339--609366 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
609329 AAGAGAGGAT
609339 ATATATAC
1 ATATATAC
609347 ATATATAC
1 ATATATAC
609355 ATATATAC
1 ATATATAC
609363 ATAT
1 ATAT
609367 GGGAGAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:612736 original size:16 final size:16
Alignment explanation
Indices: 612715--612747 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
612705 CGTGAACCAC
612715 TACATCAGCGTTGTAA
1 TACATCAGCGTTGTAA
612731 TACATCAGCGTTGTAA
1 TACATCAGCGTTGTAA
612747 T
1 T
612748 GATCAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (16 bp):
TACATCAGCGTTGTAA
Found at i:614049 original size:13 final size:14
Alignment explanation
Indices: 614031--614059 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
614021 GAAGATATGA
614031 TAAAAAATT-ATTT
1 TAAAAAATTAATTT
614044 TAAAAAATTAATTT
1 TAAAAAATTAATTT
614058 TA
1 TA
614060 TAGATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAAAATTAATTT
Found at i:617225 original size:16 final size:17
Alignment explanation
Indices: 617204--617239 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
617194 TTAACGTTAT
617204 TTTAAAATTAAATT-AA
1 TTTAAAATTAAATTGAA
*
617220 TTTAAATTTAAATTGAA
1 TTTAAAATTAAATTGAA
617237 TTT
1 TTT
617240 TTCTCATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAAATTAAATTGAA
Found at i:617559 original size:19 final size:20
Alignment explanation
Indices: 617515--617559 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
617505 ATATTTGTTT
*
617515 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
617535 ACTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
617554 AATAAA
1 AATAAA
617560 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:621252 original size:75 final size:75
Alignment explanation
Indices: 621157--621351 Score: 221
Period size: 75 Copynumber: 2.6 Consensus size: 75
621147 CATAAATAAA
* * * * * *
621157 GTCAAATATCAATACTCAAACCACAATATTAAATTTAGAACATTAAAATCTATAAACAAACCACA
1 GTCAAATTTCAAGACTCAAACCATAATATTAAATCTAGAACAATAAAATCCATAAACAAACCACA
*
621222 ATATTAAAAT
66 ATATTAAAAG
* * * * * *
621232 GTCAAATTTCAAGATTCAAACCATAATATTAACTCTAGAATAATAAAATCCATAATCAAATCATA
1 GTCAAATTTCAAGACTCAAACCATAATATTAAATCTAGAACAATAAAATCCATAAACAAACCACA
*
621297 ATATTAAAGG
66 ATATTAAAAG
* * *
621307 GTCAAATCTT-AAGACTCAAACTATAATATTAAGTCTAGAAAAATA
1 GTCAAAT-TTCAAGACTCAAACCATAATATTAAATCTAGAACAATA
621352 TTAAACACAA
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 99 0.98
76 2 0.02
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (75 bp):
GTCAAATTTCAAGACTCAAACCATAATATTAAATCTAGAACAATAAAATCCATAAACAAACCACA
ATATTAAAAG
Found at i:624300 original size:19 final size:19
Alignment explanation
Indices: 624278--624314 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
624268 ATTGAAACAA
624278 CAGCTTTTGATTGGCATGG
1 CAGCTTTTGATTGGCATGG
624297 CAGCTTTTGATTGGCATG
1 CAGCTTTTGATTGGCATG
624315 AACCAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.38
Consensus pattern (19 bp):
CAGCTTTTGATTGGCATGG
Found at i:625230 original size:25 final size:26
Alignment explanation
Indices: 625183--625240 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
625173 GAAATTTTAG
625183 AAATATAATTAAGAAACCTAAAATAA
1 AAATATAATTAAGAAACCTAAAATAA
* *
625209 AAATATAATT-AGAAA-TTAAAAATAT
1 AAATATAATTAAGAAACCT-AAAATAA
625234 AAATATA
1 AAATATA
625241 TAAATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 18 0.62
26 10 0.34
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAATATAATTAAGAAACCTAAAATAA
Found at i:642613 original size:23 final size:22
Alignment explanation
Indices: 642586--642684 Score: 112
Period size: 23 Copynumber: 4.4 Consensus size: 22
642576 CACTAAACAG
642586 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCATCC-TTGAATA
642609 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCATCC-TTGAATA
* *
642632 TGCATTGATACA-CCTTGAA-A
1 TGCATCGATGCATCCTTGAATA
* *
642652 GTGCACCGATGCACTCCTTGAATG
1 -TGCATCGATGCA-TCCTTGAATA
642676 TGCATCGAT
1 TGCATCGAT
642685 ACACTCTGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 14 0.22
22 2 0.03
23 48 0.74
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATA
Found at i:642650 original size:44 final size:44
Alignment explanation
Indices: 642586--642688 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 44
642576 CACTAAACAG
* *
642586 TGCATCGATGCATCCTTTGAATA-TGCATCGATGCA-TCCTTTGAATA
1 TGCATCGATACA-CC-TTGAA-AGTGCACCGATGCACTCC-TTGAATA
* *
642632 TGCATTGATACACCTTGAAAGTGCACCGATGCACTCCTTGAATG
1 TGCATCGATACACCTTGAAAGTGCACCGATGCACTCCTTGAATA
642676 TGCATCGATACAC
1 TGCATCGATACAC
642689 TCTGTTGTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 34 0.68
45 5 0.10
46 10 0.20
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACCTTGAAAGTGCACCGATGCACTCCTTGAATA
Found at i:642689 original size:23 final size:22
Alignment explanation
Indices: 642585--642707 Score: 101
Period size: 23 Copynumber: 5.6 Consensus size: 22
642575 TCACTAAACA
*
642585 GTGCATCGATGCATCCTTTGAAT
1 GTGCATCGATACATCC-TTGAAT
* *
642608 ATGCATCGATGCATCCTTTGAAT
1 GTGCATCGATACATCC-TTGAAT
* * *
642631 ATGCATTGATACA-CCTTGAAA
1 GTGCATCGATACATCCTTGAAT
* *
642652 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATACA-TCCTTGAAT
*
642675 GTGCATCGATACA--CTCTG-TT
1 GTGCATCGATACATCCT-TGAAT
642695 GTGCATCGATACA
1 GTGCATCGATACA
642708 CTCATCGAGT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
20 16 0.19
21 16 0.19
22 2 0.02
23 51 0.60
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (22 bp):
GTGCATCGATACATCCTTGAAT
Found at i:644650 original size:30 final size:30
Alignment explanation
Indices: 644615--644673 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
644605 GGATTGTTTT
644615 ATTTTGGATGATTGAATGTTT-AGATTTATG
1 ATTTTGGATGATTGAATGTTTGA-ATTTATG
*
644645 ATTTTGGATGATTGGATGTTTGAATTTAT
1 ATTTTGGATGATTGAATGTTTGAATTTAT
644674 TATATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (30 bp):
ATTTTGGATGATTGAATGTTTGAATTTATG
Found at i:645417 original size:65 final size:64
Alignment explanation
Indices: 645295--645499 Score: 211
Period size: 65 Copynumber: 3.2 Consensus size: 64
645285 AAAGGGATGT
** ** **
645295 ACCGATGCACTAATTCATGCATCGATGCACTCCT-AATAAAATTG-AATTTCGAATGCATTTAGT
1 ACCGATGCAC-AAGACATGCATCGATGCAC-CCTGAAT-ATTTTGAAACATCGAATGCATTTAGT
645358 GC
63 GC
* * *
645360 ACCGATGCACAAGCCATGCATCGATGCACCCCTGAATTTTTTGAAACATCGAATGCATTCAGTGC
1 ACCGATGCACAAGACATGCATCGATGCA-CCCTGAATATTTTGAAACATCGAATGCATTTAGTGC
** *
645425 ACCGATGCACAAGACATGCATCGATGCACCCTGGCTATTTTGGAACATCGAAGTAG-ATTT-GTG
1 ACCGATGCACAAGACATGCATCGATGCACCCTGAATATTTTGAAACATCGAA-T-GCATTTAGTG
645488 C
64 C
*
645489 ATCGATGCACA
1 ACCGATGCACA
645500 CCCCAGTGTA
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
64 56 0.47
65 63 0.52
66 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (64 bp):
ACCGATGCACAAGACATGCATCGATGCACCCTGAATATTTTGAAACATCGAATGCATTTAGTGC
Found at i:647186 original size:60 final size:59
Alignment explanation
Indices: 647087--647232 Score: 202
Period size: 60 Copynumber: 2.4 Consensus size: 59
647077 GTGACAACCA
* * * *
647087 AATCTCCTCAACATGAAGGAGTAATATCGTCTTCGACAACAAGTTATATAAAGGCAACT
1 AATCTCCTCAACATGAAGGAGCAACATCGTCTTCAACAACAAATTATATAAAGGCAACT
* * * *
647146 AGATCTCCTCAACAAGAAGGAGCAACGTTGTCTTCAACAACAAATTATATAAAGGTAACT
1 A-ATCTCCTCAACATGAAGGAGCAACATCGTCTTCAACAACAAATTATATAAAGGCAACT
647206 AATTCTCCTCAACATGAAGGAGCAACA
1 AA-TCTCCTCAACATGAAGGAGCAACA
647233 ATATCTTCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.03
60 73 0.97
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (59 bp):
AATCTCCTCAACATGAAGGAGCAACATCGTCTTCAACAACAAATTATATAAAGGCAACT
Found at i:647837 original size:15 final size:15
Alignment explanation
Indices: 647817--647846 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
647807 TAAAGATTGT
647817 TTCTCTTTAAAATGA
1 TTCTCTTTAAAATGA
647832 TTCTCTTTAAAATGA
1 TTCTCTTTAAAATGA
647847 CATCTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
TTCTCTTTAAAATGA
Found at i:648542 original size:38 final size:37
Alignment explanation
Indices: 648462--648713 Score: 245
Period size: 38 Copynumber: 6.8 Consensus size: 37
648452 ATATATACAT
* *
648462 ATTTTGAAACTACGTATATA-ATATATAGTTTTTAATATC
1 ATTTTGAAA--ACTTATATATATATATAGTTTTTAA-AAC
648501 ATTTTGAAAACTTATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAACTTATATATATATATAGTTTTT-AAAAC
*
648539 ATTTTTGAAAAC--ATATATAT-TATAGTTTTGAAAAC
1 A-TTTTGAAAACTTATATATATATATAGTTTTTAAAAC
* * *
648574 ATTTTTTGAAAACATATATAT-TATATAGTTTTTGAAGAT
1 A--TTTTGAAAACTTATATATATATATAGTTTTT-AAAAC
* *
648613 ATTTTTGAAACCATATATAT-TATATAGTTTTTAAAACC
1 A-TTTTGAAAACTTATATATATATATAGTTTTTAAAA-C
*
648651 ATTTTGAAAACTTATATA-ATAAATAG-TTTTAAAATC
1 ATTTTGAAAACTTATATATATATATAGTTTTTAAAA-C
*
648687 ATTTTG-AAATTTATATA-ATATATAGTT
1 ATTTTGAAAACTTATATATATATATAGTT
648714 GAATTTTTTT
Statistics
Matches: 187, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
35 23 0.12
36 36 0.19
37 41 0.22
38 62 0.33
39 25 0.13
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (37 bp):
ATTTTGAAAACTTATATATATATATAGTTTTTAAAAC
Found at i:648566 original size:74 final size:76
Alignment explanation
Indices: 648458--648713 Score: 253
Period size: 74 Copynumber: 3.4 Consensus size: 76
648448 TTATATATAT
* * * * *
648458 ACATATTTTGAAACTACGTATATAATATATAGTTTTTAATATCA-TTTTGAAAACTTATATATAT
1 ACAT-TTTTGAAA--ACATATATATTATATAGTTTTGAA-AACATTTTTGAAAACATATATATAT
648522 ATATAGTTTTTGAAA
62 ATATAGTTTTTGAAA
648537 ACATTTTTGAAAACATATATA-T-TATAGTTTTGAAAACATTTTTTGAAAACATATATAT-TATA
1 ACATTTTTGAAAACATATATATTATATAGTTTTGAAAACA-TTTTTGAAAACATATATATATATA
*
648599 TAGTTTTTGAAG
65 TAGTTTTTGAAA
* * * * *
648611 ATATTTTTGAAACCATATATATTATATAGTTTTTAAAACCA-TTTTGAAAACTTATATA-ATAAA
1 ACATTTTTGAAAACATATATATTATATAGTTTTGAAAA-CATTTTTGAAAACATATATATATATA
648674 TAG-TTTT-AAA
65 TAGTTTTTGAAA
** *
648684 ATCA-TTTTG-AAATTTATATAATATATAGTT
1 A-CATTTTTGAAAACATATATATTATATAGTT
648714 GAATTTTTTT
Statistics
Matches: 154, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
72 17 0.11
73 11 0.07
74 50 0.32
75 41 0.27
76 21 0.14
77 2 0.01
78 8 0.05
79 4 0.03
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.45
Consensus pattern (76 bp):
ACATTTTTGAAAACATATATATTATATAGTTTTGAAAACATTTTTGAAAACATATATATATATAT
AGTTTTTGAAA
Found at i:648582 original size:13 final size:13
Alignment explanation
Indices: 648564--648588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
648554 TATATTATAG
648564 TTTTGAAAACATT
1 TTTTGAAAACATT
648577 TTTTGAAAACAT
1 TTTTGAAAACAT
648589 ATATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACATT
Found at i:648819 original size:34 final size:34
Alignment explanation
Indices: 648755--648824 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
648745 AAACGTTAAC
648755 ATATAGTTTTAAAACATTTTTGAAATTATATAGT
1 ATATAGTTTTAAAACATTTTTGAAATTATATAGT
* *
648789 ATATGGTTTTGAAAATATTTTTGAAATATATATAGT
1 ATATAGTTTT-AAAACATTTTTGAAAT-TATATAGT
648825 TTTACAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 9 0.28
35 15 0.47
36 8 0.25
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (34 bp):
ATATAGTTTTAAAACATTTTTGAAATTATATAGT
Found at i:648822 original size:84 final size:84
Alignment explanation
Indices: 648673--648828 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
648663 TATATAATAA
*
648673 ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAATTTTTTTGAAACATATAATAT
1 ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAATATTTTTGAAACATATAATAT
648738 AGTTTTAAAACGTTAACAT
66 AGTTTTAAAACGTTAACAT
* *
648757 ATAGTTTTAAAA-CATTTTTGAAA-TTATATAGTATATGGTTTTGAAAATATTTTTG-AA-ATAT
1 ATAGTTTTAAAATCA-TTTTGAAATTTATATAATATATAG--TTG--AATATTTTTGAAACATAT
648818 -ATATAGTTTTA
61 AATATAGTTTTA
648829 CAACATTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
83 15 0.23
84 31 0.48
85 7 0.11
86 2 0.03
87 9 0.14
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (84 bp):
ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAATATTTTTGAAACATATAATAT
AGTTTTAAAACGTTAACAT
Found at i:648901 original size:18 final size:17
Alignment explanation
Indices: 648871--648904 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
648861 TATTTTTTAT
*
648871 TTATTTCTTGTTTATTA
1 TTATTTCTCGTTTATTA
648888 TTATTTACTCGTTTATT
1 TTATTT-CTCGTTTATT
648905 TATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (17 bp):
TTATTTCTCGTTTATTA
Found at i:649465 original size:25 final size:28
Alignment explanation
Indices: 649437--649487 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
649427 GAAAACCCAT
*
649437 ATCATCA-AACC-CACAC-AAAAACAGA
1 ATCATCATAACCAAACACGAAAAACAGA
649462 ATCATCATAACCAAACACGAAAAACA
1 ATCATCATAACCAAACACGAAAAACA
649488 CAAGCCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 4 0.18
28 7 0.32
ACGTcount: A:0.57, C:0.29, G:0.04, T:0.10
Consensus pattern (28 bp):
ATCATCATAACCAAACACGAAAAACAGA
Found at i:649479 original size:27 final size:27
Alignment explanation
Indices: 649418--649489 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 27
649408 CCACAGTAAG
*
649418 CCAAACACAGAAAACCCATATCATCAAA
1 CCAAACACA-AAAACACATATCATCAAA
* *
649446 CC-CACACAAAAACAGA-ATCATCATAA
1 CCAAACACAAAAACACATATCATCA-AA
649472 CCAAACACGAAAAACACA
1 CCAAACAC-AAAAACACA
649490 AGCCAACAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 7 0.19
26 10 0.28
27 9 0.25
28 10 0.28
ACGTcount: A:0.56, C:0.32, G:0.04, T:0.08
Consensus pattern (27 bp):
CCAAACACAAAAACACATATCATCAAA
Found at i:650246 original size:13 final size:14
Alignment explanation
Indices: 650230--650259 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
650220 TTTTATCTAT
650230 TTTTATTATT-TTA
1 TTTTATTATTGTTA
650243 TTTTATTATTGTTA
1 TTTTATTATTGTTA
650257 TTT
1 TTT
650260 CTTTCCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTATTATTGTTA
Found at i:652230 original size:19 final size:19
Alignment explanation
Indices: 652206--652251 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
652196 ATTTAGACAT
652206 TTTGCATTTCGTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
652225 TTTGCATTTTGTTATTTTC
1 TTTGCATTTCGTTATTTTC
652244 TTTGCATT
1 TTTGCATT
652252 CACATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.65
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:655869 original size:164 final size:164
Alignment explanation
Indices: 655627--656279 Score: 882
Period size: 164 Copynumber: 3.9 Consensus size: 164
655617 ACCTGCCACC
* * *
655627 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTGAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
655692 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACTCTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
655757 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
655791 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
655856 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
655921 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
655955 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* ** * * * * *
656020 AAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * ** *
656084 CACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCA
131 CATAACTCAAGGCTAGAAGGGTTATCTG-TTAGCA
* * * * * * * *
656119 AAGACCTTTGAGTTCGATTACGCTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTA-GGCACATCATTTGCAGAATAGCTTAAGTCGA
* *
656184 GAAGGGTTATCTGTCACCAAAAGACCTTCAAGTTCGATTACACTCAG-TTC-AGAGGCA-AACCA
65 GAAGGGCTATCTG---CC-AAAGACCCTCAAGTTCGATTACACTCAGCTTCAAG-GGCATAA-C-
* * * *
656246 GATTTACAGCATAGCTCAATGCAAAAAGGGTTAT
123 -ATTTACAGCATAACTCAAGGCTAGAAGGGTTAT
656280 TCATCAAAAC
Statistics
Matches: 435, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
163 38 0.09
164 300 0.69
165 38 0.09
167 1 0.00
168 5 0.01
169 29 0.07
171 24 0.06
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:655897 original size:80 final size:81
Alignment explanation
Indices: 655608--656196 Score: 576
Period size: 80 Copynumber: 7.2 Consensus size: 81
655598 GCTCAAGGCC
*
655608 AGAAGGGCTACCTG-CCACCAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGCTATCTGACCA--AAGACCCTT-GAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
655671 TGCAGAATAGCTTGAGTCG
63 TGCAGCATAACTTAAGTCT
** * * * * * *
655690 AGAAGGGCTATCTG-CCAAAGACCCTCAAGTTCGATTACTCTCAGCTTCAAGGGCATAACATTTA
1 AGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTG
* *
655754 CAGCATAACTCAAGGCT
65 CAGCATAACTTAAGTCT
* * * *
655771 AGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTT
1 AGAAGGGCTATCTG--ACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
655836 GCAGAATAGCTTAAGTCG
64 GCAGCATAACTTAAGTCT
* * * * * * *
655854 AGAAGGGCTATCTG-CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTA
1 AGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTG
* *
655918 CAGCATAACTCAAGGCT
65 CAGCATAACTTAAGTCT
* * * *
655935 AGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCTAGGCACATCATTT
1 AGAAGGGCTATCTG--ACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
656000 GCAGAATAGCTTAAGTCG
64 GCAGCATAACTTAAGTCT
* *
656018 AGAAGGGCTATCTG-CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGC
1 AGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
*
656082 AGCACAACTTAAGTCT
66 AGCATAACTTAAGTCT
* * * * * *
656098 AGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTTCGAGGGCACATCAT
1 AGAAGGGCTATCTG---ACCAAAGACCCTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCAT
* *
656163 TTGCAGCATAACTCAAGGCT
62 TTGCAGCATAACTTAAGTCT
*
656183 AGAAGGGTTATCTG
1 AGAAGGGCTATCTG
656197 TCACCAAAAG
Statistics
Matches: 411, Mismatches: 82, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
80 124 0.30
81 72 0.18
82 16 0.04
83 70 0.17
84 87 0.21
85 42 0.10
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (81 bp):
AGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCT
Found at i:656940 original size:38 final size:37
Alignment explanation
Indices: 656860--657111 Score: 245
Period size: 38 Copynumber: 6.8 Consensus size: 37
656850 ATATATACAT
* *
656860 ATTTTGAAACTACGTATATA-ATATATAGTTTTTAATATC
1 ATTTTGAAA--ACTTATATATATATATAGTTTTTAA-AAC
656899 ATTTTGAAAACTTATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAACTTATATATATATATAGTTTTT-AAAAC
*
656937 ATTTTTGAAAAC--ATATATAT-TATAGTTTTGAAAAC
1 A-TTTTGAAAACTTATATATATATATAGTTTTTAAAAC
* * *
656972 ATTTTTTGAAAACATATATAT-TATATAGTTTTTGAAGAT
1 A--TTTTGAAAACTTATATATATATATAGTTTTT-AAAAC
* *
657011 ATTTTTGAAACCATATATAT-TATATAGTTTTTAAAACC
1 A-TTTTGAAAACTTATATATATATATAGTTTTTAAAA-C
*
657049 ATTTTGAAAACTTATATA-ATAAATAG-TTTTAAAATC
1 ATTTTGAAAACTTATATATATATATAGTTTTTAAAA-C
*
657085 ATTTTG-AAATTTATATA-ATATATAGTT
1 ATTTTGAAAACTTATATATATATATAGTT
657112 GAAATTTTTT
Statistics
Matches: 187, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
35 23 0.12
36 36 0.19
37 41 0.22
38 62 0.33
39 25 0.13
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (37 bp):
ATTTTGAAAACTTATATATATATATAGTTTTTAAAAC
Found at i:656964 original size:74 final size:76
Alignment explanation
Indices: 656856--657111 Score: 253
Period size: 74 Copynumber: 3.4 Consensus size: 76
656846 TTATATATAT
* * * * *
656856 ACATATTTTGAAACTACGTATATAATATATAGTTTTTAATATCA-TTTTGAAAACTTATATATAT
1 ACAT-TTTTGAAA--ACATATATATTATATAGTTTTGAA-AACATTTTTGAAAACATATATATAT
656920 ATATAGTTTTTGAAA
62 ATATAGTTTTTGAAA
656935 ACATTTTTGAAAACATATATA-T-TATAGTTTTGAAAACATTTTTTGAAAACATATATAT-TATA
1 ACATTTTTGAAAACATATATATTATATAGTTTTGAAAACA-TTTTTGAAAACATATATATATATA
*
656997 TAGTTTTTGAAG
65 TAGTTTTTGAAA
* * * * *
657009 ATATTTTTGAAACCATATATATTATATAGTTTTTAAAACCA-TTTTGAAAACTTATATA-ATAAA
1 ACATTTTTGAAAACATATATATTATATAGTTTTGAAAA-CATTTTTGAAAACATATATATATATA
657072 TAG-TTTT-AAA
65 TAGTTTTTGAAA
** *
657082 ATCA-TTTTG-AAATTTATATAATATATAGTT
1 A-CATTTTTGAAAACATATATATTATATAGTT
657112 GAAATTTTTT
Statistics
Matches: 154, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
72 17 0.11
73 11 0.07
74 50 0.32
75 41 0.27
76 21 0.14
77 2 0.01
78 8 0.05
79 4 0.03
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.45
Consensus pattern (76 bp):
ACATTTTTGAAAACATATATATTATATAGTTTTGAAAACATTTTTGAAAACATATATATATATAT
AGTTTTTGAAA
Found at i:656980 original size:13 final size:13
Alignment explanation
Indices: 656962--656986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
656952 TATATTATAG
656962 TTTTGAAAACATT
1 TTTTGAAAACATT
656975 TTTTGAAAACAT
1 TTTTGAAAACAT
656987 ATATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACATT
Found at i:657218 original size:34 final size:34
Alignment explanation
Indices: 657154--657223 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
657144 AAACGTTAAC
657154 ATATAGTTTTAAAACATTTTTGAAATTATATAGT
1 ATATAGTTTTAAAACATTTTTGAAATTATATAGT
* *
657188 ATATGGTTTTGAAAATATTTTTGAAATATATATAGT
1 ATATAGTTTT-AAAACATTTTTGAAAT-TATATAGT
657224 TTTAAAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 9 0.28
35 15 0.47
36 8 0.25
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (34 bp):
ATATAGTTTTAAAACATTTTTGAAATTATATAGT
Found at i:657225 original size:84 final size:85
Alignment explanation
Indices: 657071--657231 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 85
657061 TATATAATAA
*
657071 ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAATTTTTTTGAAACATATAATA
1 ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAATATTTTTGAAACATATAATA
657136 TAGTTTTAAAACGTTAACAT
66 TAGTTTTAAAACGTTAACAT
* *
657156 ATAGTTTTAAAA-CATTTTTGAAA-TTATATAGTATATGGTTTTGAAAATATTTTTG-AA-ATAT
1 ATAGTTTTAAAATCA-TTTTGAAATTTATATAATATATAG--TTG-AAATATTTTTGAAACATAT
657217 -ATATAGTTTTAAAAC
62 AATATAGTTTTAAAAC
657232 ATTTTTTTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
84 30 0.43
85 24 0.35
86 5 0.07
87 10 0.14
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (85 bp):
ATAGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAATATTTTTGAAACATATAATA
TAGTTTTAAAACGTTAACAT
Found at i:657303 original size:18 final size:17
Alignment explanation
Indices: 657273--657306 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
657263 TATTTTTTAT
*
657273 TTATTTCTTGTTTATTA
1 TTATTTCTCGTTTATTA
657290 TTATTTACTCGTTTATT
1 TTATTT-CTCGTTTATT
657307 TATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (17 bp):
TTATTTCTCGTTTATTA
Found at i:657867 original size:25 final size:28
Alignment explanation
Indices: 657839--657889 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
657829 GAAAACCCAT
*
657839 ATCATCA-AACC-CACAC-AAAAACAGA
1 ATCATCATAACCAAACACGAAAAACAGA
657864 ATCATCATAACCAAACACGAAAAACA
1 ATCATCATAACCAAACACGAAAAACA
657890 CAAGCCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 4 0.18
28 7 0.32
ACGTcount: A:0.57, C:0.29, G:0.04, T:0.10
Consensus pattern (28 bp):
ATCATCATAACCAAACACGAAAAACAGA
Found at i:657881 original size:27 final size:27
Alignment explanation
Indices: 657820--657891 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 27
657810 CCACAGTAAG
*
657820 CCAAACACAGAAAACCCATATCATCAAA
1 CCAAACACA-AAAACACATATCATCAAA
* *
657848 CC-CACACAAAAACAGA-ATCATCATAA
1 CCAAACACAAAAACACATATCATCA-AA
657874 CCAAACACGAAAAACACA
1 CCAAACAC-AAAAACACA
657892 AGCCAACAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 7 0.19
26 10 0.28
27 9 0.25
28 10 0.28
ACGTcount: A:0.56, C:0.32, G:0.04, T:0.08
Consensus pattern (27 bp):
CCAAACACAAAAACACATATCATCAAA
Found at i:658647 original size:14 final size:15
Alignment explanation
Indices: 658628--658660 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
658618 TTTTTTTATC
658628 TATTTTTATTATT-T
1 TATTTTTATTATTGT
658642 TA-TTTTATTATTGT
1 TATTTTTATTATTGT
658656 TATTT
1 TATTT
658661 CTTTCTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.59
14 5 0.29
15 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TATTTTTATTATTGT
Found at i:660966 original size:28 final size:28
Alignment explanation
Indices: 660922--660975 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
660912 ATACCATTTT
660922 TAATAATATTTTCTTAAATA-ATATTGA
1 TAATAATATTTTCTTAAATACATATTGA
* *
660949 TAATAAATGTTTTGTTAAATACATATT
1 TAAT-AATATTTTCTTAAATACATATT
660976 TTTCAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 14 0.61
29 5 0.22
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (28 bp):
TAATAATATTTTCTTAAATACATATTGA
Found at i:661697 original size:7 final size:6
Alignment explanation
Indices: 661673--661745 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 6
661663 TAGATTACAC
* * *
661673 CCTAAA CCTAAAA CCTAAA CTCTAAA CTATAAA CTCTATA CCCAAA CCTAAA
1 CCTAAA CCT-AAA CCTAAA C-CTAAA C-CTAAA C-CTAAA CCTAAA CCTAAA
661725 CCCTAAA CCATAAA TCCTAAA
1 -CCTAAA CC-TAAA -CCTAAA
661746 TTATAAACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
6 17 0.30
7 37 0.66
8 2 0.04
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:661743 original size:14 final size:13
Alignment explanation
Indices: 661671--661745 Score: 71
Period size: 14 Copynumber: 5.6 Consensus size: 13
661661 GTTAGATTAC
661671 ACCCTAAACCTAA
1 ACCCTAAACCTAA
*
661684 AACCTAAACTCTAA
1 ACCCTAAAC-CTAA
** *
661698 ACTATAAACTCTAT
1 ACCCTAAAC-CTAA
661712 ACCC-AAACCTAA
1 ACCCTAAACCTAA
661724 ACCCTAAACCATAA
1 ACCCTAAACC-TAA
*
661738 ATCCTAAA
1 ACCCTAAA
661746 TTATAAACTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
12 7 0.14
13 17 0.34
14 26 0.52
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
ACCCTAAACCTAA
Found at i:661805 original size:14 final size:14
Alignment explanation
Indices: 661749--661820 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 14
661739 TCCTAAATTA
*
661749 TAAACTTTAAACCC
1 TAAACTATAAACCC
* *
661763 CAAACTCA-AATCCC
1 TAAACT-ATAAACCC
*
661777 -AAACTATAAATCC
1 TAAACTATAAACCC
*
661790 TAAATTATAAACCC
1 TAAACTATAAACCC
* *
661804 TAAGCCATAAACCC
1 TAAACTATAAACCC
661818 TAA
1 TAA
661821 TTCCTTAATC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 1 0.02
13 9 0.20
14 35 0.78
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:663039 original size:19 final size:19
Alignment explanation
Indices: 663015--663055 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
663005 TGAAATGGAA
663015 ATTTAGAGGCAACGAGAAG
1 ATTTAGAGGCAACGAGAAG
663034 ATTTAGAGGCAACGAGAAG
1 ATTTAGAGGCAACGAGAAG
663053 ATT
1 ATT
663056 CAAGTCGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (19 bp):
ATTTAGAGGCAACGAGAAG
Found at i:663355 original size:23 final size:23
Alignment explanation
Indices: 663325--663421 Score: 149
Period size: 23 Copynumber: 4.2 Consensus size: 23
663315 TGGCTAAGAT
*
663325 TTGAGCTTTGATCGAGCTTAAAA
1 TTGAGCTTGGATCGAGCTTAAAA
* *
663348 TTGAGCTTAGATCAAGCTTAAAA
1 TTGAGCTTGGATCGAGCTTAAAA
663371 TTGAGCTTGGATCGAGCTTAAAA
1 TTGAGCTTGGATCGAGCTTAAAA
**
663394 TCAAGCTTGGATCGAGCTTAAAA
1 TTGAGCTTGGATCGAGCTTAAAA
663417 TTGAG
1 TTGAG
663422 TTTGAGTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (23 bp):
TTGAGCTTGGATCGAGCTTAAAA
Found at i:663367 original size:11 final size:11
Alignment explanation
Indices: 663327--663413 Score: 57
Period size: 11 Copynumber: 7.6 Consensus size: 11
663317 GCTAAGATTT
*
663327 GAGCTTTGATC
1 GAGCTTAGATC
* *
663338 GAGCTTAAAATT
1 GAGCTT-AGATC
663350 GAGCTTAGATC
1 GAGCTTAGATC
* * *
663361 AAGCTTAAAATT
1 GAGCTT-AGATC
*
663373 GAGCTTGGATC
1 GAGCTTAGATC
*
663384 GAGCTTAAAATC
1 GAGCTT-AGATC
* *
663396 AAGCTTGGATC
1 GAGCTTAGATC
663407 GAGCTTA
1 GAGCTTA
663414 AAATTGAGTT
Statistics
Matches: 54, Mismatches: 19, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
11 30 0.56
12 24 0.44
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (11 bp):
GAGCTTAGATC
Found at i:672111 original size:46 final size:45
Alignment explanation
Indices: 672061--672171 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 45
672051 ATTCATGTTT
* * *
672061 ATAATGCA-CCATTATGCACTTTCAATTATAGCATACTTTTATGCTA
1 ATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTCATGCCA
* * * *
672107 ATAATGCACCCATGTGCATTTCAACTATGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACTTTCATGCCA
672152 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
672172 ATTATTTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 40 0.71
46 13 0.23
47 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAACTATAGCATACTTTCATGCCA
Found at i:672156 original size:45 final size:45
Alignment explanation
Indices: 672061--672310 Score: 218
Period size: 46 Copynumber: 5.5 Consensus size: 45
672051 ATTCATGTTT
* * * **
672061 ATAATGCA-CCATTATGCACTT-TCAATTATAGCATACTTTTATGCTA
1 ATAATGCACCCA-TATGCA-TTAT-AATTATGGCATCCTTTCATGCCG
* *
672107 ATAATGCACCCATGTGCATT-TCAACTATGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTAT-AATTATGGCATCCTTTCATGCCG
* * * * *
672152 ATAATGCACCCATATGCATTATTATTTTGGGTATCATTTTATGCCG
1 ATAATGCACCCATATGCATTATAATTAT-GGCATCCTTTCATGCCG
* * *
672198 ATAATGCACCCATATGCATTATTATTTTGACATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTATAATTATGGCATCCTTTCATGCCG
* * * * * *
672243 ATAATGCACCCACATGTATTATTATTTTGGGCATCATTTCATGTCG
1 ATAATGCACCCATATGCATTATAATTAT-GGCATCCTTTCATGCCG
* *
672289 ATAATGTACCCATATGTATTAT
1 ATAATGCACCCATATGCATTAT
672311 TATTTTGTTC
Statistics
Matches: 175, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
45 82 0.47
46 90 0.51
47 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTATAATTATGGCATCCTTTCATGCCG
Found at i:672192 original size:91 final size:91
Alignment explanation
Indices: 672097--672310 Score: 277
Period size: 91 Copynumber: 2.4 Consensus size: 91
672087 TATAGCATAC
* * *
672097 TTTTATGCTAATAATGCACCCATGTGCATT-TCAACTATGGCATCCTTTCATGCCGATAATGCAC
1 TTTTATGCCAATAATGCACCCATATGCATTAT-AACTATGACATCCTTTCATGCCGATAATGCAC
* *
672161 CCATATGCATTATTATTTTGGGTATCA
65 CCACATGCATTATTATTTTGGGCATCA
* * * *
672188 TTTTATGCCGATAATGCACCCATATGCATTATTATTTTGACATCCTTTCATGCCGATAATGCACC
1 TTTTATGCCAATAATGCACCCATATGCATTATAACTATGACATCCTTTCATGCCGATAATGCACC
*
672253 CACATGTATTATTATTTTGGGCATCA
66 CACATGCATTATTATTTTGGGCATCA
* * * * *
672279 TTTCATGTCGATAATGTACCCATATGTATTAT
1 TTTTATGCCAATAATGCACCCATATGCATTAT
672311 TATTTTGTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 107 0.99
92 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (91 bp):
TTTTATGCCAATAATGCACCCATATGCATTATAACTATGACATCCTTTCATGCCGATAATGCACC
CACATGCATTATTATTTTGGGCATCA
Found at i:672209 original size:46 final size:46
Alignment explanation
Indices: 672135--672317 Score: 269
Period size: 46 Copynumber: 4.0 Consensus size: 46
672125 TTTCAACTAT
*
672135 GGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
1 GGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* *
672181 GGTATCATTTTATGCCGATAATGCACCCATATGCATTATTATTTT-
1 GGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * * *
672226 GACATCCTTTCATGCCGATAATGCACCCACATGTATTATTATTTTG
1 GGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * *
672272 GGCATCATTTCATGTCGATAATGTACCCATATGTATTATTATTTTG
1 GGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
672318 TTCATTCTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 39 0.32
46 83 0.68
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (46 bp):
GGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
Found at i:672311 original size:91 final size:91
Alignment explanation
Indices: 672137--672317 Score: 299
Period size: 91 Copynumber: 2.0 Consensus size: 91
672127 TCAACTATGG
* * *
672137 CATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTGGGTATCATTTTATGCCGATAA
1 CATCCTTTCATGCCGATAATGCACCCACATGCATTATTATTTTGGGCATCATTTCATGCCGATAA
672202 TGCACCCATATGCATTATTATTTTGA
66 TGCACCCATATGCATTATTATTTTGA
* *
672228 CATCCTTTCATGCCGATAATGCACCCACATGTATTATTATTTTGGGCATCATTTCATGTCGATAA
1 CATCCTTTCATGCCGATAATGCACCCACATGCATTATTATTTTGGGCATCATTTCATGCCGATAA
* *
672293 TGTACCCATATGTATTATTATTTTG
66 TGCACCCATATGCATTATTATTTTG
672318 TTCATTCTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.40
Consensus pattern (91 bp):
CATCCTTTCATGCCGATAATGCACCCACATGCATTATTATTTTGGGCATCATTTCATGCCGATAA
TGCACCCATATGCATTATTATTTTGA
Found at i:672767 original size:22 final size:20
Alignment explanation
Indices: 672718--672768 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
672708 AAGCTTAATA
*
672718 GTATCGATACTACTACCTTG
1 GTATCGATACTACTAACTTG
* *
672738 GTACCGATACTTCTATACTATG
1 GTATCGATACTACTA-ACT-TG
672760 GTATCGATA
1 GTATCGATA
672769 TCCCCTTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 13 0.52
21 2 0.08
22 10 0.40
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (20 bp):
GTATCGATACTACTAACTTG
Found at i:675321 original size:32 final size:30
Alignment explanation
Indices: 675245--675329 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 30
675235 ATGGAATATA
*
675245 TGATATGTGAAAGTGAA-TCCTATGAAAATG
1 TGATATGTGAAAGTGAACT-ATATGAAAATG
* * *
675275 TGCTACGTGCAAGTGAACTATATGATTAAATG
1 TGATATGTGAAAGTGAACTATATGA--AAATG
*
675307 TGATATGTGAAAGTGAACCATAT
1 TGATATGTGAAAGTGAACTATAT
675330 ATATATATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 19 0.43
31 1 0.02
32 24 0.55
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATGTGAAAGTGAACTATATGAAAATG
Found at i:675723 original size:31 final size:30
Alignment explanation
Indices: 675622--675749 Score: 105
Period size: 31 Copynumber: 4.1 Consensus size: 30
675612 AGAGTCGAGG
675622 GTTTACCTATGTTCTGCGGAACATATGGACA
1 GTTTACCTATGTTCT-CGGAACATATGGACA
* * * *
675653 GAATTACCTATGACTT-TCGGGATATATGGATA
1 G-TTTACCTATG--TTCTCGGAACATATGGACA
* * *
675685 ATATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCT-CGGAACATATGGACA
* * *
675716 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTC-TCGGAACATATGGACA
675747 GTT
1 GTT
675750 ACCGAGATTC
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
29 2 0.03
30 1 0.01
31 46 0.62
32 22 0.30
33 1 0.01
34 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (30 bp):
GTTTACCTATGTTCTCGGAACATATGGACA
Found at i:676536 original size:21 final size:21
Alignment explanation
Indices: 676506--676546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
676496 ACGGAAGTAC
* *
676506 TGTAGTAGGGTATCGGTTCCT
1 TGTAGCAGGGTATCAGTTCCT
676527 TGTAGCAGGGTATCAGTTCC
1 TGTAGCAGGGTATCAGTTCC
676547 CCTCTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (21 bp):
TGTAGCAGGGTATCAGTTCCT
Found at i:676594 original size:12 final size:12
Alignment explanation
Indices: 676577--676611 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
676567 TTTAACATTT
676577 GGTACTGTTCAC
1 GGTACTGTTCAC
676589 GGTACTGTTCAC
1 GGTACTGTTCAC
* *
676601 GATACTTTTCA
1 GGTACTGTTCA
676612 TACCGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (12 bp):
GGTACTGTTCAC
Found at i:681898 original size:46 final size:46
Alignment explanation
Indices: 681834--682081 Score: 154
Period size: 46 Copynumber: 5.4 Consensus size: 46
681824 ATTCATGTTT
* * *
681834 ATAATGCA-CCATTATGCATTTTCAATTATAGCAT-ACTTTTATGATG
1 ATAATGCACCCA-TATGCATTTTCAACTATAGCATCA-TTTCATGACG
* * * *
681880 ATAATGCACCCGTGTGCA-TTTCAACTATGGCATCATTTCATGCCG
1 ATAATGCACCCATATGCATTTTCAACTATAGCATCATTTCATGACG
* * * * * *
681925 ATAATGCACCCATATGCATTATT--ATTTTGTGCATCCTTTTATGCCG
1 ATAATGCACCCATATGCATT-TTCAACTAT-AGCATCATTTCATGACG
* * * * * *
681971 ATAATGCACCCATATGCATTATT--ATTTTGGTATCCTTTCATGCCG
1 ATAATGCACCCATATGCATT-TTCAACTATAGCATCATTTCATGACG
* * * * *
682016 ATAATGCACCCATATGCATTATT--ATTTTGGGCATCTTTTCATGTCG
1 ATAATGCACCCATATGCATT-TTCAACTAT-AGCATCATTTCATGACG
682062 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
682082 ATTATTTTGT
Statistics
Matches: 176, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
45 81 0.46
46 91 0.52
47 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (46 bp):
ATAATGCACCCATATGCATTTTCAACTATAGCATCATTTCATGACG
Found at i:681929 original size:45 final size:45
Alignment explanation
Indices: 681907--682090 Score: 305
Period size: 46 Copynumber: 4.0 Consensus size: 45
681897 ATTTCAACTA
*
681907 TGGCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
*
681952 TGTGCATCCTTTTATGCCGATAATGCACCCATATGCATTATTATTT
1 TG-GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
*
681998 TGGTATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
* *
682043 TGGGCATCTTTTCATGTCGATAATGCACCCATATGCATTATTATTT
1 T-GGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
682089 TG
1 TG
682091 TTCATTCATT
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
45 45 0.35
46 85 0.65
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
TGGCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTT
Found at i:681964 original size:91 final size:89
Alignment explanation
Indices: 681864--682083 Score: 289
Period size: 91 Copynumber: 2.4 Consensus size: 89
681854 TTCAATTATA
* *
681864 GCATACTTTTATGATGATAATGCACCCGTGTGCATT-TCAACTATGGCATCATTTCATGCCGATA
1 GCAT-CTTTTATG-TGATAATGCACCCATATGCATTAT-AACTATGGCATCATTTCATGCCGATA
*
681928 ATGCACCCATATGCATTATTATTTTGT
63 ATGCACCCATATGCATTATTATTTTGG
* * * * * *
681955 GCATCCTTTTATGCCGATAATGCACCCATATGCATTATTATTTTGGTATCCTTTCATGCCGATAA
1 GCAT-CTTTTATG-TGATAATGCACCCATATGCATTATAACTATGGCATCATTTCATGCCGATAA
682020 TGCACCCATATGCATTATTATTTTGG
64 TGCACCCATATGCATTATTATTTTGG
682046 GCATCTTTTCATGTCGATAATGCACCCATATGCATTAT
1 GCATCTTTT-ATGT-GATAATGCACCCATATGCATTAT
682084 TATTTTGTTC
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 5 0.04
91 108 0.95
92 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (89 bp):
GCATCTTTTATGTGATAATGCACCCATATGCATTATAACTATGGCATCATTTCATGCCGATAATG
CACCCATATGCATTATTATTTTGG
Found at i:682084 original size:91 final size:91
Alignment explanation
Indices: 681915--682090 Score: 318
Period size: 91 Copynumber: 1.9 Consensus size: 91
681905 TATGGCATCA
*
681915 TTTCATGCCGATAATGCACCCATATGCATTATTATTTTGTGCATCCTTTTATGCCGATAATGCAC
1 TTTCATGCCGATAATGCACCCATATGCATTATTATTTTGGGCATCCTTTTATGCCGATAATGCAC
681980 CCATATGCATTATTATTTTGGTATCC
66 CCATATGCATTATTATTTTGGTATCC
*
682006 TTTCATGCCGATAATGCACCCATATGCATTATTATTTTGGGCAT-CTTTTCATGTCGATAATGCA
1 TTTCATGCCGATAATGCACCCATATGCATTATTATTTTGGGCATCCTTTT-ATGCCGATAATGCA
682070 CCCATATGCATTATTATTTTG
65 CCCATATGCATTATTATTTTG
682091 TTCATTCATT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
90 5 0.06
91 77 0.94
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (91 bp):
TTTCATGCCGATAATGCACCCATATGCATTATTATTTTGGGCATCCTTTTATGCCGATAATGCAC
CCATATGCATTATTATTTTGGTATCC
Found at i:684225 original size:32 final size:31
Alignment explanation
Indices: 684174--684291 Score: 150
Period size: 32 Copynumber: 3.8 Consensus size: 31
684164 GTCCCTTAGA
684174 ACATAGGT-A-TCTGTCCATATGTCTCAAAAG
1 ACATAGGTAATTCTGTCCATATGTC-CAAAAG
* *
684204 ACATAGGTAATTCTGTACATATATCCTAAAAG
1 ACATAGGTAATTCTGTCCATATGTCC-AAAAG
* *
684236 ACATAGGTAATTCTGTCCATATCTCCCGAAAG
1 ACATAGGTAATTCTGTCCATATGT-CCAAAAG
*
684268 ACATAGGTAATTATGTCCATATGT
1 ACATAGGTAATTCTGTCCATATGT
684292 TCCGTAGAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
30 8 0.10
31 2 0.03
32 65 0.84
33 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (31 bp):
ACATAGGTAATTCTGTCCATATGTCCAAAAG
Found at i:684304 original size:64 final size:61
Alignment explanation
Indices: 684170--684309 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 61
684160 ATGTGTCCCT
* * *
684170 TAGAACATAGGT-ATCTGTCCATATGTCTCAAAAGACATAGGTAATTCTGTACATATATCC
1 TAGAACATAGGTAATCTGTCCATATCTCCCAAAAGACATAGGTAATTATGTACATATATCC
* * * *
684230 TAAAAGACATAGGTAATTCTGTCCATATCTCCCGAAAGACATAGGTAATTATGTCCATATGTTCC
1 T-AGA-ACATAGGTAA-TCTGTCCATATCTCCCAAAAGACATAGGTAATTATGTACATAT-ATCC
684295 GTAGAACATAGGTAA
1 -TAGAACATAGGTAA
684310 ACCCTCGACT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
60 1 0.02
61 2 0.03
62 8 0.12
63 1 0.02
64 48 0.73
65 5 0.08
66 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (61 bp):
TAGAACATAGGTAATCTGTCCATATCTCCCAAAAGACATAGGTAATTATGTACATATATCC
Found at i:687838 original size:31 final size:30
Alignment explanation
Indices: 687803--687902 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 30
687793 ATAGGTATAC
687803 TGTCCATATGTCTCAAAGACATAGGTAATTT
1 TGTCCATATGTCTCAAAGACATAGGTAA-TT
* * *
687834 TGTCCATA--TCT-GAAGACATATGTAATC
1 TGTCCATATGTCTCAAAGACATAGGTAATT
*
687861 TGTCCATATGTCCCGAAAGACATAGGTAATT
1 TGTCCATATGTCTC-AAAGACATAGGTAATT
*
687892 TGTTCATATGT
1 TGTCCATATGT
687903 TCCGTAGAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 9 0.16
28 12 0.21
29 5 0.09
31 31 0.54
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (30 bp):
TGTCCATATGTCTCAAAGACATAGGTAATT
Found at i:687915 original size:31 final size:31
Alignment explanation
Indices: 687791--687920 Score: 112
Period size: 31 Copynumber: 4.3 Consensus size: 31
687781 GTTCCTTAGA
*
687791 ACATAGGT-ATACTGTCCATATGTCTC-AAAG
1 ACATAGGTAAT-CTGTCCATATGTCCCGAAAG
* *
687821 ACATAGGTAATTTTGTCCATA--T-CTG-AAG
1 ACATAGGTAA-TCTGTCCATATGTCCCGAAAG
*
687849 ACATATGTAATCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATCTGTCCATATGTCCCGAAAG
* * * *
687880 ACATAGGTAATTTGTTCATATGTTCCG-TAG
1 ACATAGGTAATCTGTCCATATGTCCCGAAAG
687910 AACATAGGTAA
1 -ACATAGGTAA
687921 ACCCTCGACT
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
27 9 0.11
28 12 0.15
29 2 0.02
30 12 0.15
31 45 0.56
32 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (31 bp):
ACATAGGTAATCTGTCCATATGTCCCGAAAG
Found at i:688503 original size:156 final size:156
Alignment explanation
Indices: 688280--688592 Score: 601
Period size: 156 Copynumber: 2.0 Consensus size: 156
688270 CATATTCTCC
688280 TTTCTATCACATATCACATGTGCATATAATCCATAGTTTACTTTAATGTAATTCATATCACTTAT
1 TTTCTATCACATATCACATGTGCATATAATCCATAGTTTACTTTAATGTAATTCATATCACTTAT
688345 GTTCACAAATCTCGTATCACTTTGCATGGTTTCACATAAAC-ATATATACATCACATAGCACCTA
66 GTTCACAAATCTCGTATCACTTTGCATGGTTTCACATAAACAATATATACATCACATAGCACCTA
688409 TAAGCTCATATATTTCATAGTTCTTT
131 TAAGCTCATATATTTCATAGTTCTTT
688435 TTTCTATCACATATCACATGTGCATATAATCACATAGTTTACTTTAATGTAATTCATATCACTTA
1 TTTCTATCACATATCACATGTGCATATAATC-CATAGTTTACTTTAATGTAATTCATATCACTTA
688500 TGTTCACAAATCTCGTATCACTTTGCATGGTTTCACATAAACATATATATACATCACATAGCACC
65 TGTTCACAAATCTCGTATCACTTTGCATGGTTTCACATAAACA-ATATATACATCACATAGCACC
688565 TATAAGCTCATATATTTCATAGTTCTTT
129 TATAAGCTCATATATTTCATAGTTCTTT
688593 CACATAACTC
Statistics
Matches: 155, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
155 31 0.20
156 75 0.48
158 49 0.32
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (156 bp):
TTTCTATCACATATCACATGTGCATATAATCCATAGTTTACTTTAATGTAATTCATATCACTTAT
GTTCACAAATCTCGTATCACTTTGCATGGTTTCACATAAACAATATATACATCACATAGCACCTA
TAAGCTCATATATTTCATAGTTCTTT
Found at i:690947 original size:18 final size:19
Alignment explanation
Indices: 690918--690954 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
690908 CATTAATGGG
690918 CCTATGATAAATATTTATA
1 CCTATGATAAATATTTATA
*
690937 CCTAT-ATAAATTTTTATA
1 CCTATGATAAATATTTATA
690955 TAGAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (19 bp):
CCTATGATAAATATTTATA
Found at i:704522 original size:17 final size:17
Alignment explanation
Indices: 704485--704522 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
704475 TAAATAAACT
*
704485 AATTTAAATTTAAAAAT
1 AATTTAAATTTAAAAAA
704502 AATTTAAA-TTAAAGAAA
1 AATTTAAATTTAAA-AAA
704519 AATT
1 AATT
704523 AAACATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AATTTAAATTTAAAAAA
Found at i:704597 original size:17 final size:17
Alignment explanation
Indices: 704577--704609 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
704567 TATATAGATT
704577 TAAAACTAAA-AAAACAG
1 TAAAA-TAAACAAAACAG
704594 TAAAATAAACAAAACA
1 TAAAATAAACAAAACA
704610 AAACAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.12, G:0.03, T:0.12
Consensus pattern (17 bp):
TAAAATAAACAAAACAG
Found at i:707559 original size:479 final size:480
Alignment explanation
Indices: 706613--707573 Score: 1810
Period size: 479 Copynumber: 2.0 Consensus size: 480
706603 AAGCAGTAAG
706613 CAAGATGTTTGGAAGAAGTACCTCACAGCAGAAATAAAATCACTGCCAACAATGTCCCATGCATC
1 CAAGATGTTTGGAAGAAGTACCTCACAGCAGAAATAAAATCACTGCCAACAATGTCCCATGCATC
706678 TTTGAAGAAACTAGAAGTGACCCATCAGGGCCTGGGTTTTTTTTCCTTCCCTGCCTAAAAAGGGC
66 TTTGAAGAAACTAGAAGTGACCCATCAGGGCCTGGGTTTTTTTTCCTTCCCTGCCTAAAAAGGGC
706743 CTCTTTAATCTCTACATCACTCACCTCCTTAGTAAGAAAGGTAGCAGCTCCTTCGGCAAAGAGTA
131 CTCTTTAATCTCTACATCACTCACCTCCTTAGTAAGAAAGGTAGCAGCTCCTTCGGCAAAGAGTA
706808 GTTCATCAGATTTTTTCAGACTTTCAACTAGGCAGCTTTAACTAATGGATCAGGAGAGCCAATGA
196 GTT-ATCAGATTTTTTCAGACTTTCAACTAGGCAGCTTTAACTAATGGATCAGGAGAGCCAATGA
706873 GATAGTGAAGTAACCCACTAACTCAGTAGCCATTCCTTCAAAGGAGTCATATCTCTGCCCATCCT
260 GATAGTGAAGTAACCCACTAACTCAGTAGCCATTCCTTCAAAGGAGTCATATCTCTGCCCATCCT
706938 CACCTTTAATAACTCTATAGTGTTCCTTTTCTTGTTAGATTGGACCTCTGGTGGAAGAACTTGGT
325 CACCTTTAATAACTCTATAGTGTTCCTTTTCTTGTTAGATTGGACCTCTGGTGGAAGAACTTGGT
707003 ATTCAAGTCACCCTCCTTAAGCCAATGTACTTTGGTTTTTGTCTGTAAAATCAGATTCAGCAACC
390 ATTCAAGTCACCCTCCTTAAGCCAATGTACTTTGGTTTTTGTCTGTAAAATCAGATTCAGCAACC
707068 TCCAAGTCAACTAATTCAGCATGAAT
455 TCCAAGTCAACTAATTCAGCATGAAT
707094 CAAGATGTTTGGAAGAAGTACCTCACAGCAGAAATAAAATCACTGCCAAC-ATGTCCCATGCATC
1 CAAGATGTTTGGAAGAAGTACCTCACAGCAGAAATAAAATCACTGCCAACAATGTCCCATGCATC
707158 TTTGAAGAAACTAGAAGTGAACCCATCAGGGCCTGGG-TTTTTTTCCTTCCCTGCCT-AAAAGGG
66 TTTGAAGAAACTAGAAGTG-ACCCATCAGGGCCTGGGTTTTTTTTCCTTCCCTGCCTAAAAAGGG
707221 CCTCTTTAATCTCTACATCACTCACCTCCTTAGTAAGAAAGGTAGCAGCTCCTTCGGC-AAGAGT
130 CCTCTTTAATCTCTACATCACTCACCTCCTTAGTAAGAAAGGTAGCAGCTCCTTCGGCAAAGAGT
707285 AGTT-TCAGA-TTTTTCAGACTTTCAACTA-GCAGCTTTAACTAATGGATCAGGAGAGCCAATGA
195 AGTTATCAGATTTTTTCAGACTTTCAACTAGGCAGCTTTAACTAATGGATCAGGAGAGCCAATGA
707347 GATTAGTGAAGTAACCCACTAACTCAGTAGCCATTCCTTCAAAGGAGTCATATCTCTGCCCATCC
260 GA-TAGTGAAGTAACCCACTAACTCAGTAGCCATTCCTTCAAAGGAGTCATATCTCTGCCCATCC
707412 TCACCTTTAATAACTCTTATAGTGTTCCTTTTCTTGTTAGATTGGACCCTCTGGTGGAAGAACTT
324 TCACCTTTAATAACTC-TATAGTGTTCCTTTTCTTGTTAGATTGGA-CCTCTGGTGGAAGAACTT
707477 GGTATTCAAGTCACCCTCCTTAAGCCAATGTACTTTGGTTTTTTGTCTGTAAAAATCAGATTCAG
387 GGTATTCAAGTCACCCTCCTTAAGCCAATGTACTTTGG-TTTTTGTCTGT-AAAATCAGATTCAG
707542 CAACCTCCAAGTCAACTAATTCAGCATGAAT
450 CAACCTCCAAGTCAACTAATTCAGCATGAAT
707573 C
1 C
707574 CTTCTTTCTT
Statistics
Matches: 474, Mismatches: 0, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
474 36 0.08
475 97 0.20
476 34 0.07
477 56 0.12
478 21 0.04
479 111 0.23
480 52 0.11
481 67 0.14
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (480 bp):
CAAGATGTTTGGAAGAAGTACCTCACAGCAGAAATAAAATCACTGCCAACAATGTCCCATGCATC
TTTGAAGAAACTAGAAGTGACCCATCAGGGCCTGGGTTTTTTTTCCTTCCCTGCCTAAAAAGGGC
CTCTTTAATCTCTACATCACTCACCTCCTTAGTAAGAAAGGTAGCAGCTCCTTCGGCAAAGAGTA
GTTATCAGATTTTTTCAGACTTTCAACTAGGCAGCTTTAACTAATGGATCAGGAGAGCCAATGAG
ATAGTGAAGTAACCCACTAACTCAGTAGCCATTCCTTCAAAGGAGTCATATCTCTGCCCATCCTC
ACCTTTAATAACTCTATAGTGTTCCTTTTCTTGTTAGATTGGACCTCTGGTGGAAGAACTTGGTA
TTCAAGTCACCCTCCTTAAGCCAATGTACTTTGGTTTTTGTCTGTAAAATCAGATTCAGCAACCT
CCAAGTCAACTAATTCAGCATGAAT
Found at i:714432 original size:21 final size:21
Alignment explanation
Indices: 714380--714432 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
714370 ATACGTGACC
* *
714380 ATTTAAATCCCATGCTGAATG
1 ATTTGAATCCTATGCTGAATG
* *
714401 ATTTGAATCCTATGTTGGATG
1 ATTTGAATCCTATGCTGAATG
714422 ATTTGAATCCT
1 ATTTGAATCCT
714433 GGAATTGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTTGAATCCTATGCTGAATG
Found at i:716786 original size:14 final size:13
Alignment explanation
Indices: 716763--716796 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
716753 GAAAGAACAC
*
716763 AAAAGAAGAAAAT
1 AAAAGAAGAAAAG
716776 AAAATGAAGAAAAG
1 AAAA-GAAGAAAAG
716790 AAAAGAA
1 AAAAGAA
716797 AAGTTGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (13 bp):
AAAAGAAGAAAAG
Found at i:740152 original size:67 final size:67
Alignment explanation
Indices: 740044--740170 Score: 236
Period size: 67 Copynumber: 1.9 Consensus size: 67
740034 AGTTCATTTT
**
740044 AGGTGCATGTAGTTGCATTTGTGGTAGTTGTGTTATTTTACTTTGTTAAGATGTTATATGACGGG
1 AGGTGCATGTAGTTGCATTTGTGGTAGTTGTGTTATTTTACTTTGGAAAGATGTTATATGACGGG
740109 AA
66 AA
740111 AGGTGCATGTAGTTGCATTTGTGGTAGTTGTGTTATTTTACTTTGGAAAGATGTTATATG
1 AGGTGCATGTAGTTGCATTTGTGGTAGTTGTGTTATTTTACTTTGGAAAGATGTTATATG
740171 TAAAAAATAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (67 bp):
AGGTGCATGTAGTTGCATTTGTGGTAGTTGTGTTATTTTACTTTGGAAAGATGTTATATGACGGG
AA
Found at i:742480 original size:31 final size:33
Alignment explanation
Indices: 742439--742569 Score: 127
Period size: 31 Copynumber: 4.2 Consensus size: 33
742429 ATGCATGTAT
* *
742439 TATGTATGTATGGATATATA-ATTTAT-TATTA
1 TATGTATGTATGTATATATATATATATGTATTA
* *
742470 TATGCATGTATGTATATACATATATATGTATTA
1 TATGTATGTATGTATATATATATATATGTATTA
*
742503 -ATGTATG-A--TATGTATATATATA--TA-TA
1 TATGTATGTATGTATATATATATATATGTATTA
* *
742529 TATGGATGTATGTATATATGTATATATGTATGTA
1 TATGTATGTATGTATATATATATATATGTAT-TA
742563 TATGTAT
1 TATGTAT
742570 ACATAATATA
Statistics
Matches: 79, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.03
27 8 0.10
28 1 0.01
29 12 0.15
30 12 0.15
31 18 0.23
32 13 0.16
33 5 0.06
34 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.48
Consensus pattern (33 bp):
TATGTATGTATGTATATATATATATATGTATTA
Found at i:742484 original size:4 final size:4
Alignment explanation
Indices: 742470--742563 Score: 50
Period size: 4 Copynumber: 23.8 Consensus size: 4
742460 TTTATTATTA
* * ** *
742470 TATG CATG TATG TATA TACA TATA TATG TAT- TAATG TATG ATATG TA--
1 TATG TATG TATG TATG TATG TATG TATG TATG T-ATG TATG -TATG TATG
* * * * * *
742517 TATA TATA TATA TATG GATG TATG TATA TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
742564 ATGTATACAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
2 2 0.03
3 1 0.01
4 64 0.89
5 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:742493 original size:35 final size:37
Alignment explanation
Indices: 742440--742570 Score: 99
Period size: 37 Copynumber: 3.6 Consensus size: 37
742430 TGCATGTATT
** * *
742440 ATGTATGTATGGATATATA-ATTTATTATTATATG-C
1 ATGTATGTATATATATATATATGTATTAATATATGAC
* * *
742475 ATGTATGTATATACATATATATGTATTAATGTATGAT
1 ATGTATGTATATATATATATATGTATTAATATATGAC
* *
742512 ATGTATATATATATATATATGGATGTATGT-ATATATG-T
1 ATGTATGTATATATATATAT--ATGTAT-TAATATATGAC
* * *
742550 ATATATGTATGTATATGTATA
1 ATGTATGTATATATATATATA
742571 CATAATATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
35 16 0.21
36 13 0.17
37 18 0.23
38 17 0.22
39 12 0.16
40 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (37 bp):
ATGTATGTATATATATATATATGTATTAATATATGAC
Found at i:742521 original size:8 final size:8
Alignment explanation
Indices: 742433--742570 Score: 86
Period size: 8 Copynumber: 16.9 Consensus size: 8
742423 TTATTAATGC
742433 ATGTAT-T
1 ATGTATAT
*
742440 ATGTATGT
1 ATGTATAT
*
742448 ATGGATAT
1 ATGTATAT
* *
742456 AT-AATTT
1 ATGTATAT
742463 AT-TATTAT
1 ATGTA-TAT
* *
742471 ATGCATGT
1 ATGTATAT
742479 ATGTATAT
1 ATGTATAT
**
742487 ACATATAT
1 ATGTATAT
742495 ATGTAT-T
1 ATGTATAT
742502 AATGTATGAT
1 -ATGTAT-AT
742512 ATGTATATAT
1 ATG--TATAT
*
742522 ATATATAT
1 ATGTATAT
* *
742530 ATGGATGT
1 ATGTATAT
742538 ATGTATAT
1 ATGTATAT
742546 ATGTATAT
1 ATGTATAT
742554 ATGTATGTAT
1 ATGTA--TAT
742564 ATGTATA
1 ATGTATA
742571 CATAATATAT
Statistics
Matches: 101, Mismatches: 20, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
7 13 0.13
8 68 0.67
9 4 0.04
10 13 0.13
11 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.48
Consensus pattern (8 bp):
ATGTATAT
Found at i:742525 original size:12 final size:12
Alignment explanation
Indices: 742489--742570 Score: 67
Period size: 12 Copynumber: 6.6 Consensus size: 12
742479 ATGTATATAC
742489 ATATATATGTAT
1 ATATATATGTAT
*
742501 -TAATGTATGATAT
1 AT-ATATATG-TAT
* *
742514 GTATATATATAT
1 ATATATATGTAT
742526 ATATATGGATGTAT
1 ATATAT--ATGTAT
*
742540 GTATATATGTAT
1 ATATATATGTAT
*
742552 ATATGTATGTAT
1 ATATATATGTAT
*
742564 ATGTATA
1 ATATATA
742571 CATAATATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
11 1 0.02
12 35 0.64
13 8 0.15
14 11 0.20
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:742538 original size:59 final size:63
Alignment explanation
Indices: 742433--742569 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 63
742423 TTATTAATGC
*
742433 ATGTATT-ATGTATGTATGGATATATAATTTATTATTATATGCATGTATGTATATACATATAT
1 ATGTATTAATGTATGTATGGATATATAATATATTATTATATGCATGTATGTATATACATATAT
* **
742495 ATGTATTAATGTATGATAT-G-TATAT-ATATA-TA-TATATGGATGTATGTATATATGTATAT
1 ATGTATTAATGTATG-TATGGATATATAATATATTATTATATGCATGTATGTATATACATATAT
742554 ATGTATGTATATGTAT
1 ATGTAT-TA-ATGTAT
742570 ACATAATATA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
59 30 0.45
60 4 0.06
61 10 0.15
62 12 0.18
63 8 0.12
64 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (63 bp):
ATGTATTAATGTATGTATGGATATATAATATATTATTATATGCATGTATGTATATACATATAT
Found at i:742579 original size:59 final size:57
Alignment explanation
Indices: 742490--742599 Score: 117
Period size: 51 Copynumber: 2.0 Consensus size: 57
742480 TGTATATACA
*
742490 TATATATGTAT-TAATGTATG-ATATG--TATAT-ATATA-TA-TATATGGATGTATG
1 TATATATGTATAT-ATGTATGTATATGTATATATAATATATTATTATATGCATGTATG
*
742541 TATATATGTATATATGTATGTATATGTATACATAATATATTATTTATTAATGCATGTAT
1 TATATATGTATATATGTATGTATATGTATATATAATATATTA-TTA-T-ATGCATGTAT
742600 CTTGTATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
51 18 0.38
52 6 0.13
54 4 0.09
55 5 0.11
56 2 0.04
58 2 0.04
59 1 0.02
60 9 0.19
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (57 bp):
TATATATGTATATATGTATGTATATGTATATATAATATATTATTATATGCATGTATG
Found at i:752041 original size:23 final size:23
Alignment explanation
Indices: 751965--752042 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
751955 CCTTATGGAC
*
751965 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
751989 ATTCTACGTGGCACTCCGATGCA
1 ATTATATGTGGCACTACGGTGCA
* *
752012 ATTATATGTGGCACTTCGGTGCT
1 ATTATATGTGGCACTACGGTGCA
752035 ATTATATG
1 ATTATATG
752043 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:757623 original size:23 final size:23
Alignment explanation
Indices: 757547--757624 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
757537 CCTTATGGAC
* *
757547 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * *
757571 ATTCTACGCGGCAC-TCTGGTGCA
1 ATTATATGTGGCACTTC-GGTGCA
757594 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
757617 ATTATATG
1 ATTATATG
757625 AGTTGTAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 38 0.86
24 5 0.11
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:760849 original size:32 final size:30
Alignment explanation
Indices: 760787--760850 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
760777 TGATATATAT
* *
760787 ATATATATATTGATTTTTAATATTATTTTA
1 ATATATATATTAATTTTTAATATTAATTTA
760817 ATATATAT-TTAATTTTTTAATAATTTAATTTA
1 ATATATATATTAA-TTTTTAAT-A-TTAATTTA
760849 AT
1 AT
760851 TTTTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.10
30 16 0.55
31 1 0.03
32 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
ATATATATATTAATTTTTAATATTAATTTA
Found at i:760861 original size:19 final size:19
Alignment explanation
Indices: 760812--760865 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
760802 TTTAATATTA
*
760812 TTTTAATATATATTTAATT
1 TTTTAATATTTATTTAATT
760831 TTTTAATAATTTAATTTAA-T
1 TTTTAAT-ATTT-ATTTAATT
760851 TTTTAATATTT-TTTA
1 TTTTAATATTTATTTA
760866 TAAGTATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.12
19 11 0.34
20 11 0.34
21 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAATATTTATTTAATT
Found at i:763657 original size:18 final size:19
Alignment explanation
Indices: 763636--763677 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
763626 TATCTTAACC
763636 TAAAATCACATATTAA-AT
1 TAAAATCACATATTAACAT
* * *
763654 TAAATTCATATCTTAACAT
1 TAAAATCACATATTAACAT
763673 TAAAA
1 TAAAA
763678 AAAATTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCACATATTAACAT
Found at i:763788 original size:31 final size:30
Alignment explanation
Indices: 763707--763794 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
763697 CTTAGCTTGT
* *
763707 AAAATATATTTTATTCTTACCTTAAC-ATA
1 AAAATATATTTTATTATTATCTTAACTATA
*
763736 AAAATTATATTTTATTATTATCTTAACTTTTA
1 AAAA-TATATTTTATTATTATCTTAAC-TATA
* *
763768 AAAATATATTATATTTTTATCTTAACT
1 AAAATATATTTTATTATTATCTTAACT
763795 CATTACATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.08
30 21 0.41
31 20 0.39
32 6 0.12
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (30 bp):
AAAATATATTTTATTATTATCTTAACTATA
Found at i:763792 original size:61 final size:62
Alignment explanation
Indices: 763652--763793 Score: 153
Period size: 61 Copynumber: 2.3 Consensus size: 62
763642 CACATATTAA
* * * * *
763652 ATTAAATTCATATCTTAACATTAAAAAAAATTATTTTAATCTTTTCTTAGCTTGTAAAATAT
1 ATTATATTCTTATCTTAACATTAAAAAAAATTATTTTAATATTATCTTAACTTGTAAAATAT
* * ** * *
763714 ATTTTATTCTTACCTTAACA-TAAAAATTA-TATTTTATTATTATCTTAACTTTTAAAAATAT
1 ATTATATTCTTATCTTAACATTAAAAAAAATTATTTTAATATTATCTTAACTTGT-AAAATAT
*
763775 ATTATATTTTTATCTTAAC
1 ATTATATTCTTATCTTAAC
763794 TCATTACATA
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
60 19 0.29
61 30 0.46
62 16 0.25
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (62 bp):
ATTATATTCTTATCTTAACATTAAAAAAAATTATTTTAATATTATCTTAACTTGTAAAATAT
Found at i:763835 original size:30 final size:30
Alignment explanation
Indices: 763796--763897 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
763786 ATCTTAACTC
* * *
763796 ATTACATATATTATATTCAT-AATTTATATT
1 ATTAAATATATT-TATTCATCAACTTAAATT
*
763826 ATTAAATATATTCTATT-ATCACCTTAAATT
1 ATTAAATATATT-TATTCATCAACTTAAATT
* *
763856 ATTAAATAATATTTATTCCT-ATCTTAAATT
1 ATTAAAT-ATATTTATTCATCAACTTAAATT
*
763886 ATATATATATAT
1 AT-TAAATATAT
763898 ATATATATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
29 2 0.03
30 48 0.80
31 10 0.17
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTAAATATATTTATTCATCAACTTAAATT
Found at i:770873 original size:18 final size:19
Alignment explanation
Indices: 770847--770904 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
770837 TCGAGGGATT
770847 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* *
770866 AT-AGTGGTTCTTCGGAAC
1 ATCAGTGGTCCTTCGGGAC
*
770884 AATCAGTGGTCCTTCGAGAC
1 -ATCAGTGGTCCTTCGGGAC
770904 A
1 A
770905 AATATTCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 14 0.44
19 5 0.16
20 13 0.41
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:770905 original size:20 final size:19
Alignment explanation
Indices: 770847--770905 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
770837 TCGAGGGATT
770847 ATCAGTGGTCCTTCGGGAC-
1 ATCAGTGGTCCTTC-GGACA
*
770866 AT-AGTGGTTCTTCGGAACA
1 ATCAGTGGTCCTTCGG-ACA
770885 ATCAGTGGTCCTTCGAGACA
1 ATCAGTGGTCCTTCG-GACA
770905 A
1 A
770906 ATATTCAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 4 0.12
20 15 0.44
21 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGACA
Found at i:777113 original size:45 final size:45
Alignment explanation
Indices: 777045--777148 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
777035 ATGCACATGA
*** * *
777045 AGTGTATCGATGCATTTCTTTAAAATAAAAACATCAAATGTCATT
1 AGTGTATCGATGCACCCCCTTAAAATAAAAACATCAAATGACATT
* * *
777090 AGTGTATCGATGCACCCCCTTAAAATACAAACATCGAATGAGATT
1 AGTGTATCGATGCACCCCCTTAAAATAAAAACATCAAATGACATT
777135 -GATGTATCGATGCA
1 AG-TGTATCGATGCA
777149 TAGATTGTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 49 0.98
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (45 bp):
AGTGTATCGATGCACCCCCTTAAAATAAAAACATCAAATGACATT
Found at i:777164 original size:19 final size:20
Alignment explanation
Indices: 777130--777167 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
777120 ACATCGAATG
*
777130 AGATTGATGTATCGATGCAT
1 AGATTGATGCATCGATGCAT
777150 AGATTG-TGCATCGATGCA
1 AGATTGATGCATCGATGCA
777168 CCCGTCAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
AGATTGATGCATCGATGCAT
Found at i:781763 original size:40 final size:37
Alignment explanation
Indices: 781689--781779 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 37
781679 AGTCAAATAT
* * *
781689 TACACCGTAGTGCTGAGGTCGAGCCTTGCTCACCTAATAA
1 TACACCGTAGTGTTGAGGTCGAGCCATGCCCACCT--T-A
*
781729 TGCACCGTAGTGTTGAGGTC-AGGCCATGCCCACCTTA
1 TACACCGTAGTGTTGAGGTCGA-GCCATGCCCACCTTA
781766 TACACCGTAGTGTT
1 TACACCGTAGTGTT
781780 CTATATCGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 14 0.31
38 1 0.02
39 1 0.02
40 29 0.64
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (37 bp):
TACACCGTAGTGTTGAGGTCGAGCCATGCCCACCTTA
Found at i:787350 original size:24 final size:22
Alignment explanation
Indices: 787309--787355 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
787299 ATGGGATATT
*
787309 TATTTTATTTTATTTTACTCGA
1 TATTTTATTTTATATTACTCGA
787331 TATTTTATGGTTTATATTACTCGA
1 TATTTTAT--TTTATATTACTCGA
787355 T
1 T
787356 TGAGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
24 14 0.64
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TATTTTATTTTATATTACTCGA
Found at i:788562 original size:20 final size:20
Alignment explanation
Indices: 788516--788554 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
788506 ATAAGTTTCC
*
788516 ATAGCTTTGGACTTCATTTG
1 ATAGCTTTAGACTTCATTTG
788536 ATAGCTTTAGACTTCATTT
1 ATAGCTTTAGACTTCATTT
788555 ACTAGCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
ATAGCTTTAGACTTCATTTG
Found at i:793640 original size:23 final size:23
Alignment explanation
Indices: 793611--793682 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
793601 GATAATTTAA
* *
793611 AAATAATTTTATTTCAAATAAAT
1 AAATAATATTATTTAAAATAAAT
*
793634 AATTAATATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
*
793657 AAATAATATGATTTTAAAAATAAAT
1 AAATAATATTA-TTT-AAAATAAAT
793682 A
1 A
793683 TTTTAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 29 0.69
24 3 0.07
25 10 0.24
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (23 bp):
AAATAATATTATTTAAAATAAAT
Found at i:793692 original size:14 final size:17
Alignment explanation
Indices: 793657--793690 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
793647 TAAAATAAAT
793657 AAATAATATGATTTTAA
1 AAATAATATGATTTTAA
793674 AAATAA-AT-ATTTTAA
1 AAATAATATGATTTTAA
793689 AA
1 AA
793691 TACTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATAATATGATTTTAA
Found at i:800201 original size:2 final size:2
Alignment explanation
Indices: 800194--800231 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
800184 AAGTTGTTTC
* *
800194 AT AT AT AT AT AT GT AT AT AT AT AT AT GT 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
800232 TCAGAATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800213 original size:14 final size:14
Alignment explanation
Indices: 800194--800231 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
800184 AAGTTGTTTC
800194 ATATATATATATGT
1 ATATATATATATGT
800208 ATATATATATATGT
1 ATATATATATATGT
800222 ATATATATAT
1 ATATATATAT
800232 TCAGAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:808363 original size:90 final size:90
Alignment explanation
Indices: 808210--808376 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 90
808200 ATTTAATTTT
* * *
808210 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
*
808275 GGATATAAAAGGATTATTAAATTCA
66 GCATATAAAAGGATTATTAAATTCA
808300 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
*
808365 GCCTATAAAAGG
66 GCATATAAAAGG
808377 GTGTGTTAGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
GCATATAAAAGGATTATTAAATTCA
Found at i:815094 original size:90 final size:90
Alignment explanation
Indices: 814983--815160 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
814973 TAATCCCGAA
* * * *
814983 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
815048 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGCATATAAAAGGAT
*
815073 TATTAAATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
815138 TAGGGTAACTTGCCTATAAAAGG
66 TAGGGTAACTTGCATATAAAAGG
815161 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGCATATAAAAGGAT
Found at i:816651 original size:18 final size:21
Alignment explanation
Indices: 816624--816679 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
816614 ATATGAAATT
*
816624 TGTCCCGAAGGACC-A-C-TA
1 TGTCCTGAAGGACCTATCATA
816642 TGTCCTGAAGGACCTATCATA
1 TGTCCTGAAGGACCTATCATA
816663 TGTCCTGAAGGACCTAT
1 TGTCCTGAAGGACCTAT
816680 GTAACCCTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 13 0.38
19 1 0.03
20 1 0.03
21 19 0.56
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (21 bp):
TGTCCTGAAGGACCTATCATA
Found at i:827227 original size:23 final size:23
Alignment explanation
Indices: 827184--827229 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
827174 ACATATTAGG
**
827184 TAGCGCTTATATAATGTAATAGA
1 TAGCGCTTATATAATAAAATAGA
*
827207 TAGCGTTTATATAATAAAATAGA
1 TAGCGCTTATATAATAAAATAGA
827230 CATTTAACCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGA
Found at i:827746 original size:199 final size:197
Alignment explanation
Indices: 827300--828021 Score: 857
Period size: 199 Copynumber: 3.6 Consensus size: 197
827290 TAAGTAGCGC
* * * *
827300 TTATATTGACCTATTTTATAAGTAAACCGATATATTTATACCGGTAATATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-TAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
827365 TATATTATAATTATCGGTTTCGATTTTTTTGGATCGATACAATTT--GAAATGTATCGACACTTT
65 TACATTATAATTATCGGTTTCGATTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTT
* * * * * *
827428 ATGCGTTCACCTCGTTGGGTATTCATTCTGGA-AAAA-GTATCGACACAAACTTAAAAAGTGTTG
129 ATGCGTGCACC-CGTTTGGCATTCATTCTGGACAAAATGTATCGACACAAATTTAACAAGTGTCG
827491 ATACA
193 ATACA
* * * *
827496 TTAT-TTAGACCTATTTTCTCATAAAACCGATATATTTCTATCGGGTACATTGTAAATTTACCTA
1 TTATGTT-GACCTATTTTCTAAT-AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTA
* * *
827560 TCATATTGTAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
64 TTACATTATAATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTT
* * *
827625 TATGCGTGCACCCGTTTGGCATTCATTATGGACAAAATGTATCGACAAAAATTTAACAAGTGTCA
128 TATGCGTGCACCCGTTTGGCATTCATTCTGGACAAAATGTATCGACACAAATTTAACAAGTGTCG
*
827690 ATACT
193 ATACA
* * * * *
827695 TTATGCTGACCTATTTTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCTAAT-AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
*
827760 TACATTATAATTATCGGTTTCGATTTTATTGGGATCGATACTTTTAATAAATGTATCGATACTTT
65 TACATTATAATTATCGGTTTCGATTTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * ** *
827825 ATGCGTGCATCTCGTTTGGGCATTCATTCTGGACAATAAT-TATCAACACAAATTGCACAAGTAT
129 ATGCGTGCA-CCCGTTT-GGCATTCATTCTGGACAA-AATGTATCGACACAAATTTAACAAGTGT
827889 CGATACA
191 CGATACA
* * * * * *
827896 TTATGTTGATCTGTTTTCTAATTAATCGGTATATTTATACCGGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTCTAATAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATT
* * *
827961 ACATTATAACTATTGGTTTCGATGTTTTTTGGG-TCGACACTTTTAGA-AAATGTATCGACAC
66 ACATTATAATTATCGGTTTCGA--TTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
828022 ATATTTAGGT
Statistics
Matches: 456, Mismatches: 55, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
195 3 0.01
196 78 0.17
197 32 0.07
198 34 0.07
199 148 0.32
200 89 0.20
201 65 0.14
202 7 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (197 bp):
TTATGTTGACCTATTTTCTAATAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT
GCGTGCACCCGTTTGGCATTCATTCTGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATA
CA
Found at i:832339 original size:199 final size:197
Alignment explanation
Indices: 831955--832913 Score: 1176
Period size: 199 Copynumber: 4.8 Consensus size: 197
831945 TTATTTAAAC
*
831955 AGTATCGACACAAATTTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACTGGTAT
1 AGTATCGACACAAATCTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAAC-GGTAT
* *
832020 ATTTATACCGGTTACATTGTAAATTTACCTATTACGTTATAATTATTGGTTTCGATGTTTTTGGG
65 ATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
*** * * * * * *
832085 ATCGATAAAATTTCAAATGTATCGACACTTTGTTCCTACACCCCGTTTT-GCATTCATTCTGGAC
130 ATCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCAACCC-TTTTGGCATTCATTCTGGAC
832149 AAAA
194 AAAA
* * *
832153 TA-TATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACATGT
1 -AGTATCGACACAAATCTAAAA-GTGTCGATACATTATGTTGACCTATTCTCTCATAAAAC-GGT
* * *
832217 AAATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTG
63 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * *
832282 GGATCGATATTTTTTAAAATGTATCGACACTTTATGTGTGCAACCCTTTTGGCATTCATTTTGGA
128 GGATCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTCTGGA
832347 CAAAA
193 CAAAA
* * *
832352 AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAA-TCTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAA-CGGTA
* * * *
832417 TAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-GAGTTTCAATGTTTCTA
64 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCG-GTTTCGATGTTTTTG
* * *
832481 GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTC-ACCATTTTGGGCAATCATTCTG
128 GGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCAACCCTTTT-GGCATTCATTCTG
832545 GACAAAA
191 GACAAAA
* * * *
832552 CGTATCGACACAAAAT-TCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAATCGGT
1 AGTATCGACAC-AAATCT-AAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAA-CGGT
* ** * *
832616 ATATTTATACCGGTTATATTACAAA-TTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
63 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * *
832680 GGATCGATACTTTTTAAAAATGTATAGACACTTTTTGCGTGCATCACGTTTGGCATTCATTTTGG
128 GGATCGATACTTTTT-AAAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTCTGG
832745 ACAAAA
192 ACAAAA
* * * * * * *
832751 AGTATCAACACAAATTCCACAAGCGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCGGT
1 AGTATCGACACAAA-TCTAAAAGTGTCGATACATTATGT-TGACCTATTCTCTCATAAAA-CGGT
* ** * * *
832815 ATATGTATATTGGTTACATTGTAAATTTACCTATTATATTATAATTTTCTGTTTCGATGTTTTTG
63 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
832880 GGATCGATACTTTTTAAACATGTATCGACACTTT
128 GGATCGATACTTTTTAAA-ATGTATCGACACTTT
832914 GTGGGAAACT
Statistics
Matches: 657, Mismatches: 85, Indels: 35
0.85 0.11 0.05
Matches are distributed among these distances:
198 27 0.04
199 437 0.67
200 190 0.29
201 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (197 bp):
AGTATCGACACAAATCTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACGGTATA
TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
TCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTCTGGACAA
AA
Found at i:832770 original size:399 final size:395
Alignment explanation
Indices: 831955--832913 Score: 1273
Period size: 399 Copynumber: 2.4 Consensus size: 395
831945 TTATTTAAAC
* * * *
831955 AGTATCGACACAAATT-TAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACTGGTA
1 AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
*
832019 TATTTATACCGGTTACATTGTAAATTTACCTATTACGTTATAATTATTGGTTTCGATGTTTTTGG
66 TA-TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTA-TGGTTTCGATGTTTTTGG
*** * * * * *
832084 GATCGATAAAATTTCAAATGTATCGACACTTTGTTCCTACACCCCGTTTTGCATTCATTCTGGAC
129 GATCGATACTTTTTAAAATGTATCGACACTTTATGCCTACA-CCCATTTTGCAATCATTCTGGAC
* * * * *
832149 AAAATATATCGACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACA
193 AAAACATATCGACACAAATCTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAACA
* * **
832214 TGTAAATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTT
258 GGTAAATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTT
* * * * *
832279 TTGGGATCGATATTTTTTAAAATGTATCGACACTTTATGTGTGCAACCCTTTTGGCATTCATTTT
323 TTGGGATCGATATTTTTAAAAATGTATAGACACTTTATGCGTGCAACACGTTTGGCATTCATTTT
832344 GGACAAAA
388 GGACAAAA
832352 AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* * *
832417 TAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCAATGTTTCTAG
66 TA-TTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATG-GTTTCGATGTTTTTGG
* *
832482 GATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCA-CCATTTTGGGCAATCATTCTGG
129 GATCGATACTTTTTA-AAATGTATCGACACTTTATGCCTACACCCATTTT--GCAATCATTCTGG
* *
832546 ACAAAACGTATCGACACAAAAT-TCAAAA-GTGTCGACACATTATGTAGACCTATTCTCACATAA
191 ACAAAACATATCGACAC-AAATCT-AAAACGTGTCGACACATTATGTACACCTATTCTCACATAA
* * * **
832609 AATC-GGTATATTTATACCGGTTATATTACAAA-TTACCTATTACATTATAATTATGGGTTTTGA
254 AA-CAGGTAAATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCAA
* *
832672 TGTTTTTGGGATCGATACTTTTTAAAAATGTATAGACACTTTTTGCGTGCATCACGTTTGGCATT
318 TGTTTTTGGGATCGATA-TTTTTAAAAATGTATAGACACTTTATGCGTGCAACACGTTTGGCATT
832737 CATTTTGGACAAAA
382 CATTTTGGACAAAA
* * * * * *
832751 AGTATCAACACAAATTCCACAAGCGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGGTA
1 AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
** * * *
832816 TATGTATATTGGTTACATTGTAAATTTACCTATTATATTATAATTTTCTGTTTCGATGTTTTTGG
66 TAT-TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT-GGTTTCGATGTTTTTGG
832881 GATCGATACTTTTTAAACATGTATCGACACTTT
129 GATCGATACTTTTTAAA-ATGTATCGACACTTT
832914 GTGGGAAACT
Statistics
Matches: 494, Mismatches: 56, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
397 24 0.05
398 160 0.32
399 301 0.61
400 9 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (395 bp):
AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
TATTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTCGATGTTTTTGGGA
TCGATACTTTTTAAAATGTATCGACACTTTATGCCTACACCCATTTTGCAATCATTCTGGACAAA
ACATATCGACACAAATCTAAAACGTGTCGACACATTATGTACACCTATTCTCACATAAAACAGGT
AAATTTATACCGGTTACATTACAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTG
GGATCGATATTTTTAAAAATGTATAGACACTTTATGCGTGCAACACGTTTGGCATTCATTTTGGA
CAAAA
Found at i:835613 original size:6 final size:6
Alignment explanation
Indices: 835605--835644 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
835595 ATCATCATAA
* *
835605 TCATCA TCATCT TCATCG TCATCT TCATCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
835645 TGATCTCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.20, C:0.33, G:0.03, T:0.45
Consensus pattern (6 bp):
TCATCT
Found at i:835620 original size:12 final size:12
Alignment explanation
Indices: 835595--835644 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
835585 ACTTGTTTGG
**
835595 ATCATCATAATC
1 ATCATCATCTTC
835607 ATCATCATCTTC
1 ATCATCATCTTC
*
835619 ATCGTCATCTTC
1 ATCATCATCTTC
*
835631 ATCTTCATCTTC
1 ATCATCATCTTC
835643 AT
1 AT
835645 TGATCTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.42
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:837461 original size:200 final size:199
Alignment explanation
Indices: 837118--838279 Score: 1336
Period size: 200 Copynumber: 5.8 Consensus size: 199
837108 TTTTAAAATG
* * * * * * *
837118 GTATCGAAACAAATT-TAACAATTGTTGATACTTTATGCT-GACCTATTTTCTCATAAAACCGGT
1 GTATCGACACAAATTCCAA-AAGTGTCGATACATTATG-TAGACCTATTCTCACATAAAACCGGT
** * * ***
837181 ATATTTATACCAATTACATTAGAAATTTACCTATTACATTATAATTACCAGTTTCGATGTATT-T
64 ATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGT-TTCT
* * * * *
837245 GGGATCGACACTTTTTAAAACTGTATCGACA-TTTAATGGGGTGCACCCTTTT-GGCATTCCTTT
128 GGGATCGATACTTTTTAAAA-TGTATCGACACTTT-AT-GCGTGCACCATTTTGGGCATTCATTC
837308 TGGACAAAAA
190 TGGACAAAAA
* * * * ** *
837318 GTATCGACACAAATTCCAGAAGTGTCGATACATTTTATAGACTTATTCTGGCATAAAACCTGTAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
837383 ATTTATACTGGTTACATTGA-AAAATTACCTATTACATTATAATCATGGGTTTCGATGTTTCTAG
66 ATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
*
837447 GATCGATACTTTTTATAAATGTATTGACACTTTATGCGTGCACCATTTTTTGGGCATTCATTCTG
130 GATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCACCA--TTTTGGGCATTCATTCTG
*
837512 GACAAAAT
192 GACAAAAA
* * *
837520 GTATCAACACATAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
1 GTATCGACACA-AATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
* *
837584 TATTTATACCGGTTACATTACAAAATTAACTATTACATTATAATTATGGG-TTCGATGTCTCTGG
65 TATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* *
837648 GATCGACACTTTTTAAAACTGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGA
130 GATCGATACTTTTTAAAA-TGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGA
837713 CAAAAA
194 CAAAAA
* * * * * *
837719 GTATCGACGCCAGTTTCAAATGTGTCGATACATTATGTAGACCTATTCTCACATAAAACTGGTAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
837784 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTCTCTGGG
66 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* * * ** * *
837849 ATTGATACTTTTAAACAATGTATCGATACTTTATTTGTGCACCCTTTTGGGCATTCCTTCTGGAC
131 ATCGATACTTTTTAA-AATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGAC
837914 AAACAA
195 AAA-AA
* * * *
837920 -TATCGACACAAATTCCATACGTATCGATACATTATGTAGACCTATTCTCTCATAAAACACCGGT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACAT-AAA-ACCGGT
* * * *
837984 ATAGTTATATCGGTTACATTGA-AAAATTGCCTATTACATTATAATTATGGGTTTTGATGTTTCT
64 ATATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
* * ** * * *
838048 GGGATCGATATTTTTTATAAATATATCGTTACTTTATGTGTTCACCATTTTGAGCATTCATTCTG
128 GGGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTG
*
838113 GACAAATA
192 GACAAAAA
* * * * * *
838121 GAATCGACACTAATTTCAAAAGTGTCAATACATTATGTGGACCTATTCTCACATAAAAACGGTAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * * * *
838186 ATCTATACCGGTTATATTATAAAATTATCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* *
838251 ATCGATACCTTTAATAAATGTATCGACAC
131 ATCGATACTTTTTA-AAATGTATCGACAC
838280 ATCTGCTTAC
Statistics
Matches: 822, Mismatches: 118, Indels: 44
0.84 0.12 0.04
Matches are distributed among these distances:
198 3 0.00
199 138 0.17
200 325 0.40
201 74 0.09
202 276 0.34
203 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (199 bp):
GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
ATCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACA
AAAA
Found at i:838322 original size:15 final size:15
Alignment explanation
Indices: 838302--838334 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
838292 ATTTTATGGA
838302 AACTTTACGTTTGGG
1 AACTTTACGTTTGGG
838317 AACTTTACGTTTGGG
1 AACTTTACGTTTGGG
838332 AAC
1 AAC
838335 CATACTAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (15 bp):
AACTTTACGTTTGGG
Found at i:839948 original size:18 final size:18
Alignment explanation
Indices: 839925--839959 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
839915 TCCTCCTCAT
*
839925 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
839943 TTCCTCCATCTTTTCTT
1 TTCCTCCATCTTTTCTT
839960 ATTCATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:840270 original size:21 final size:21
Alignment explanation
Indices: 840246--840285 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
840236 CCCCTTATTC
840246 CTCTCAAGTATCTCTTCGATT
1 CTCTCAAGTATCTCTTCGATT
*
840267 CTCTCAAGTTTCTCTTCGA
1 CTCTCAAGTATCTCTTCGA
840286 ATCTTGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTATCTCTTCGATT
Found at i:840390 original size:15 final size:15
Alignment explanation
Indices: 840370--840402 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
840360 ACTCTGTTTT
840370 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
840385 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
840400 CCC
1 CCC
840403 AATACAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.64, G:0.06, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:840718 original size:22 final size:24
Alignment explanation
Indices: 840690--840740 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
840680 AACCTGCATT
*
840690 TATAATAAC-AT-TTATAATTTTA
1 TATAATAACTATACTATAATTTTA
*
840712 TATAATAACTATACTATCATTTTA
1 TATAATAACTATACTATAATTTTA
840736 TATAA
1 TATAA
840741 AAAACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 14 0.56
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATAACTATACTATAATTTTA
Found at i:843008 original size:182 final size:182
Alignment explanation
Indices: 842701--843556 Score: 1251
Period size: 182 Copynumber: 4.7 Consensus size: 182
842691 TATGTGTACT
* * * *
842701 TATTAAAGTATCGACACTTTCAATATATCTTGTAGT-GCT-T-TACCGGTTTTGTCATTTCGAGA
1 TATTAAAGTATCGACACTTTCAATATATC-CG-A-TCGCTCTATACCGATTTTGTCCTTTAGAGA
* * *
842763 CCGATTTTGTCATATTTTTACCTGTTATATCATTGTGGA-CTGATACATTGTTATAAAGTATCGA
63 CCGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATC-GATACATTGTTATAAAGTATCGA
842827 CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
127 CACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
*
842883 TATTAAAGTATCGACACTTTAAATATATCCGATCGCTCTATACCGATTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCCTTTAGAGACCG
* * *
842948 GTGTTGTCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTGTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
* *
843013 TTATGGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
843065 TATTAAAGTATCGACATTTTCAATATATTCGGTCGCTCTATACTGATTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCCTTTAGAGACCG
* * *
843130 GTTTTGTCATATTTTTACATATTATATCGTTGTAGATCGATACATTGTTATGAAGTATCGACACT
66 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
* * *
843195 TTATAGGCGCTAAAACGGCTTATCTTTTAAATTCACAAAGCGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
843247 TATTAAAGTATCGACACTTTCAATATATACGGTTGCTCTATACC-AGTTTTGTCCTTTAGAGACT
1 TATTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGA-TTTTGTCCTTTAGAGACC
* *
843311 GGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACAC
*
843376 TTTATAGGCTCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
** * * *
843429 TATTAAAGTATCGACACTTTCAATATATTTGGTACCGCT-T-TACCGATTTTGTCTTTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATA-TCCG-ATCGCTCTATACCGATTTTGTCCTTTAGAGAC
* *
843492 CGGTTTTGTCATATTTTTACATGTTATATTGATGTGGATCGATACAGTT-TTATAAAGTATCGAC
64 CGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACA-TTGTTATAAAGTATCGAC
843556 A
128 A
843557 TAAACCGACA
Statistics
Matches: 613, Mismatches: 52, Indels: 18
0.90 0.08 0.03
Matches are distributed among these distances:
179 1 0.00
180 4 0.01
181 3 0.00
182 595 0.97
183 7 0.01
184 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGATCGCTCTATACCGATTTTGTCCTTTAGAGACCG
GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:844461 original size:19 final size:20
Alignment explanation
Indices: 844414--844461 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
844404 TACTATAGAG
844414 CTTAAAAAAATAGGGAGAAA
1 CTTAAAAAAATAGGGAGAAA
* * *
844434 CGTAGAAAAA-AGGGAGGAA
1 CTTAAAAAAATAGGGAGAAA
*
844453 TTTAAAAAA
1 CTTAAAAAA
844462 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.58, C:0.04, G:0.23, T:0.15
Consensus pattern (20 bp):
CTTAAAAAAATAGGGAGAAA
Found at i:847452 original size:21 final size:21
Alignment explanation
Indices: 847426--847466 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
847416 AAACCATTCA
847426 GGGGGGAATCGGTACCCTCTT
1 GGGGGGAATCGGTACCCTCTT
*
847447 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
847467 GAGCAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCTCTT
Found at i:849928 original size:20 final size:20
Alignment explanation
Indices: 849891--849929 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
849881 AGATTGAGTG
* * *
849891 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
849911 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
849930 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:850154 original size:20 final size:20
Alignment explanation
Indices: 850082--850162 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
850072 TAACCCCCAG
* **
850082 GGGGGTATCGATTCCCTGTT
1 GGGGGAATCGATTCCCTCAT
* *
850102 GTGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AT
*
850125 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
850145 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
850163 TGCACCAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 28 0.58
21 5 0.10
22 4 0.08
23 11 0.23
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:860350 original size:20 final size:19
Alignment explanation
Indices: 860327--860373 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
860317 CGATATACGA
860327 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
860347 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
860367 GGTAAAA
1 GGTAAAA
860374 CGTTACAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Done.