Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008705.1 Hibiscus syriacus cultivar Beakdansim tig00111745_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: 1220187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:715805 original size:14 final size:14
Alignment explanation
Indices: 715786--715813 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
715776 ATACCTCTCA
715786 ATATTGATGTAATT
1 ATATTGATGTAATT
715800 ATATTGATGTAATT
1 ATATTGATGTAATT
715814 TCAAAGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
ATATTGATGTAATT
Found at i:716062 original size:167 final size:167
Alignment explanation
Indices: 715786--716112 Score: 627
Period size: 167 Copynumber: 2.0 Consensus size: 167
715776 ATACCTCTCA
715786 ATATTGATGTAATTATATTGATGTAATTTCAAAGAAATACAAAATAAAAAATAATAAAATATATA
1 ATATTGATGTAATTATATTGATGTAATTTCAAAGAAATACAAAATAAAAAATAATAAAATATATA
715851 TTAAGTTATTTGTTTACAAATTTTATTAAAAATATATAAATTAGAAATAATAAAAAGTAATATTA
66 TTAAGTTATTTGTTTACAAATTTTATTAAAAATATATAAATTAGAAATAATAAAAAGTAATATTA
715916 AGTTATTTGTGTAAAAAAATTAACAAATTACATAATT
131 AGTTATTTGTGTAAAAAAATTAACAAATTACATAATT
* * *
715953 ATATTGATGTAATTATGTTTATGTATTTTCAAAGAAATACAAAATAAAAAATAATAAAATATATA
1 ATATTGATGTAATTATATTGATGTAATTTCAAAGAAATACAAAATAAAAAATAATAAAATATATA
716018 TTAAGTTATTTGTTTACAAATTTTATTAAAAATATATAAATTAGAAATAATAAAAAGTAATATTA
66 TTAAGTTATTTGTTTACAAATTTTATTAAAAATATATAAATTAGAAATAATAAAAAGTAATATTA
716083 AGTTATTTGTGTAAAAAAATTAACAAATTA
131 AGTTATTTGTGTAAAAAAATTAACAAATTA
716113 GAAACATAAT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 157 1.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (167 bp):
ATATTGATGTAATTATATTGATGTAATTTCAAAGAAATACAAAATAAAAAATAATAAAATATATA
TTAAGTTATTTGTTTACAAATTTTATTAAAAATATATAAATTAGAAATAATAAAAAGTAATATTA
AGTTATTTGTGTAAAAAAATTAACAAATTACATAATT
Found at i:716373 original size:41 final size:41
Alignment explanation
Indices: 716311--716482 Score: 191
Period size: 41 Copynumber: 4.2 Consensus size: 41
716301 TTTGGGTCAA
* * * *
716311 AAAATTGCACCTTCTGTCACATTAACAAAAGATGCTTCATGT
1 AAAA-TGCGCCTTCTGCCACATTAACAAAAGACGCTTCATGC
* * *
716353 AAAATGCGCCTTCTGCCACATTAATAAAAGATGCTTCATGT
1 AAAATGCGCCTTCTGCCACATTAACAAAAGACGCTTCATGC
* * * * *
716394 AAAATGCGTCTTCTACCACATCAACAGAAGGCGCTTCATGC
1 AAAATGCGCCTTCTGCCACATTAACAAAAGACGCTTCATGC
* * * *
716435 AGAATGTGCCTTCTTCCACATTAATAAAAGACGCTTCATGC
1 AAAATGCGCCTTCTGCCACATTAACAAAAGACGCTTCATGC
716476 AAAATGC
1 AAAATGC
716483 ATCCTCTACC
Statistics
Matches: 109, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 105 0.96
42 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
AAAATGCGCCTTCTGCCACATTAACAAAAGACGCTTCATGC
Found at i:716458 original size:82 final size:82
Alignment explanation
Indices: 716344--716501 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 82
716334 AACAAAAGAT
* * * * *
716344 GCTTCATGTAAAATGCGCCTTCTGCCACATTAATAAAAGATGCTTCATGTAAAATGCGTCTTCTA
1 GCTTCATGCAAAATGCGCCTTCTGCCACATTAATAAAAGACGCTTCATGCAAAATGCATCCTCTA
716409 CCACATCAACAGAAGGC
66 CCACATCAACAGAAGGC
* * *
716426 GCTTCATGCAGAATGTGCCTTCTTCCACATTAATAAAAGACGCTTCATGCAAAATGCATCCTCTA
1 GCTTCATGCAAAATGCGCCTTCTGCCACATTAATAAAAGACGCTTCATGCAAAATGCATCCTCTA
*
716491 CCATATCAACA
66 CCACATCAACA
716502 AAATCCACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (82 bp):
GCTTCATGCAAAATGCGCCTTCTGCCACATTAATAAAAGACGCTTCATGCAAAATGCATCCTCTA
CCACATCAACAGAAGGC
Found at i:731254 original size:36 final size:36
Alignment explanation
Indices: 731205--731283 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
731195 TTAATTGAGT
* *
731205 TCAAGCTTGAGTACAAGAATCTGTAAACT-AGCTTAA
1 TCAAGCTTAAGTACAAGAATCTGCAAA-TGAGCTTAA
*
731241 TCAAGCTTAAGTACAAGAATCTGCAAATGAGCTTAG
1 TCAAGCTTAAGTACAAGAATCTGCAAATGAGCTTAA
731277 TCAAGCT
1 TCAAGCT
731284 CAAGCTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (36 bp):
TCAAGCTTAAGTACAAGAATCTGCAAATGAGCTTAA
Found at i:734343 original size:48 final size:48
Alignment explanation
Indices: 734291--734387 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
734281 TATAAAAAAA
* *
734291 AGTTTAATAATTTATGCTCTTG-TACAAGCAGCATTTAAGCTCAATTTC
1 AGTTTAATAATTCATGCTCTTGCT-CAAGCAGCATTCAAGCTCAATTTC
* *
734339 AGTTTAATAATTCATGTTCTTGCTCAAGCAGCATTCAAGCTCAGTTTC
1 AGTTTAATAATTCATGCTCTTGCTCAAGCAGCATTCAAGCTCAATTTC
734387 A
1 A
734388 TCTCTGGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (48 bp):
AGTTTAATAATTCATGCTCTTGCTCAAGCAGCATTCAAGCTCAATTTC
Found at i:739697 original size:61 final size:62
Alignment explanation
Indices: 739609--739726 Score: 184
Period size: 61 Copynumber: 1.9 Consensus size: 62
739599 ATTATTTTTA
*
739609 TTATAAAATCAAAATATAAAATTATTATTAAAAATAGGGTTGTAAGGCGTTAGTAATAGTAC
1 TTATAAAATCAAAATATAAAATTATTATTAAAAATAGGATTGTAAGGCGTTAGTAATAGTAC
* * * *
739671 TTATAATATCAAAGT-TAAAATTATTATTTAAAATAGGATTGTAAGGCGTTTGTAAT
1 TTATAAAATCAAAATATAAAATTATTATTAAAAATAGGATTGTAAGGCGTTAGTAAT
739727 TACTTAGTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 38 0.75
62 13 0.25
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.37
Consensus pattern (62 bp):
TTATAAAATCAAAATATAAAATTATTATTAAAAATAGGATTGTAAGGCGTTAGTAATAGTAC
Found at i:740958 original size:27 final size:30
Alignment explanation
Indices: 740928--740987 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 30
740918 ATAGATTTTA
*
740928 TTAAAATTGA-TTATAAATT-TTA-ATAAG
1 TTAAAATTAAGTTATAAATTGTTATATAAG
*
740955 TT-AAATTAAGTTATTAATTGTTATATAAG
1 TTAAAATTAAGTTATAAATTGTTATATAAG
740984 TTAA
1 TTAA
740988 TATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 6 0.22
27 10 0.37
28 3 0.11
29 7 0.26
30 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (30 bp):
TTAAAATTAAGTTATAAATTGTTATATAAG
Found at i:746444 original size:54 final size:55
Alignment explanation
Indices: 746362--746477 Score: 182
Period size: 54 Copynumber: 2.1 Consensus size: 55
746352 TCAGTAACTA
* *
746362 GTTTCCCCTTTTTATTATTTACAGTTGGAGGGAT-TTTTTAGGATAAATTACA-C
1 GTTTCTCCTTTTTATTATTTACAATTGGAGGGATATTTTTAGGATAAATTACATC
*
746415 TGTTTCTCCTTTTTATTATTTACAATTGGAGGGATATTTTTAGGGTAAATTACATC
1 -GTTTCTCCTTTTTATTATTTACAATTGGAGGGATATTTTTAGGATAAATTACATC
746471 GTTTCTC
1 GTTTCTC
746478 ATTAAATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 32 0.56
55 24 0.42
56 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.47
Consensus pattern (55 bp):
GTTTCTCCTTTTTATTATTTACAATTGGAGGGATATTTTTAGGATAAATTACATC
Found at i:753235 original size:54 final size:54
Alignment explanation
Indices: 753164--753268 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
753154 TAATTCTGCT
* * *
753164 TGGCATGTCATTCTAACGGGCCATCAGCTCGGACTAGTAAATAGTAATTTTGAC
1 TGGCATGTCATTCTAACGGGCAATCAACTCAGACTAGTAAATAGTAATTTTGAC
753218 TGGCATGTCATTCTAACGGGCAATCAACTCAGACTAGTAAATAGTAATTTT
1 TGGCATGTCATTCTAACGGGCAATCAACTCAGACTAGTAAATAGTAATTTT
753269 AGAACCGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (54 bp):
TGGCATGTCATTCTAACGGGCAATCAACTCAGACTAGTAAATAGTAATTTTGAC
Found at i:755983 original size:20 final size:20
Alignment explanation
Indices: 755958--755999 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
755948 TTTAACACTT
* *
755958 AAAAGGTATTGATATTTATG
1 AAAAGGTATCGATATTCATG
755978 AAAAGGTATCGATATTCATG
1 AAAAGGTATCGATATTCATG
755998 AA
1 AA
756000 CGAGTACTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (20 bp):
AAAAGGTATCGATATTCATG
Found at i:760547 original size:14 final size:14
Alignment explanation
Indices: 760530--760569 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 14
760520 ATCGAAAAAT
760530 CGAACCGAAAAACC
1 CGAACCGAAAAACC
760544 CGAACCGTTAAAAAACC
1 CGAACCG---AAAAACC
760561 CGAACCGAA
1 CGAACCGAA
760570 CCGAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.39
17 14 0.61
ACGTcount: A:0.47, C:0.33, G:0.15, T:0.05
Consensus pattern (14 bp):
CGAACCGAAAAACC
Found at i:771937 original size:12 final size:12
Alignment explanation
Indices: 771920--771944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
771910 AATCAAAAAG
771920 AAAAATGTTATT
1 AAAAATGTTATT
771932 AAAAATGTTATT
1 AAAAATGTTATT
771944 A
1 A
771945 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAAATGTTATT
Found at i:773812 original size:34 final size:30
Alignment explanation
Indices: 773773--773841 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
773763 TTGATATAAC
773773 AATTTAAGGCAAAATGGGTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GGTTTTGGACTT-AATTG
*
773807 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGGTTTTGGACTTAATTG
773836 AATTTA
1 AATTTA
773842 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (30 bp):
AATTTAACAAAATGGTTTTGGACTTAATTG
Found at i:773852 original size:29 final size:30
Alignment explanation
Indices: 773782--773841 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
773772 CAATTTAAGG
*
773782 CAAAATGGGTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
773813 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
773842 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:774184 original size:21 final size:21
Alignment explanation
Indices: 774155--774194 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
774145 TTTGAGTAGA
774155 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCC-AACGGCTCC
*
774177 AAAA-CATCCTCAACGGCT
1 AAAATCATCCCCAACGGCT
774195 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:775362 original size:19 final size:20
Alignment explanation
Indices: 775338--775385 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
775328 AACGATTTTC
*
775338 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
775357 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
775377 TTTTGAAAA
1 TTTTGAAAA
775386 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:776689 original size:34 final size:30
Alignment explanation
Indices: 776651--776719 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
776641 TTGATATAAC
776651 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
776685 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
776714 AATTTA
1 AATTTA
776720 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:776730 original size:29 final size:30
Alignment explanation
Indices: 776660--776719 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
776650 CAATTTAAGG
776660 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
776691 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
776720 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:776825 original size:21 final size:21
Alignment explanation
Indices: 776799--776959 Score: 197
Period size: 21 Copynumber: 7.7 Consensus size: 21
776789 AGGGTGTCAA
*
776799 AGTGCATCCATACA-CCCTTGC
1 AGTGCATCCATGCATCCC-TGC
*
776820 AGTGCATCCCTGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
776841 AGTGCATCCATGCA-CCCTTGC
1 AGTGCATCCATGCATCCC-TGC
*
776862 AGTGCATCTATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
776883 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
776904 AGTGCATCCATGCA--CCTGCAC
1 AGTGCATCCATGCATCCCTG--C
* *
776925 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCATCCCTGC
776946 AGTGCATCCATGCA
1 AGTGCATCCATGCA
776960 CTCAAACATC
Statistics
Matches: 125, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
19 4 0.03
20 16 0.13
21 83 0.66
22 19 0.15
23 3 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:776846 original size:13 final size:13
Alignment explanation
Indices: 776830--776959 Score: 51
Period size: 13 Copynumber: 10.9 Consensus size: 13
776820 AGTGCATCCC
*
776830 TGCATCCCTGCAG
1 TGCATCCATGCAG
776843 TGCATCCATGCA-
1 TGCATCCATGCAG
*
776855 --C--CCTTGCAG
1 TGCATCCATGCAG
*
776864 TGCATCTATGCA-
1 TGCATCCATGCAG
776876 T-C--CC-TGCAG
1 TGCATCCATGCAG
776885 TGCATCCATGCA-
1 TGCATCCATGCAG
776897 T-C--CC-TGCAG
1 TGCATCCATGCAG
*
776906 TGCATCCATGCACC
1 TGCATCCATGCA-G
*
776920 TGCA-CTAGTGCATCG
1 TGCATCCA-TGCA--G
776935 ATGCA-CCATGCAG
1 -TGCATCCATGCAG
776948 TGCATCCATGCA
1 TGCATCCATGCA
776960 CTCAAACATC
Statistics
Matches: 88, Mismatches: 9, Indels: 40
0.64 0.07 0.29
Matches are distributed among these distances:
8 14 0.16
9 5 0.06
10 3 0.03
11 3 0.03
12 10 0.11
13 34 0.39
14 8 0.09
15 5 0.06
16 6 0.07
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (13 bp):
TGCATCCATGCAG
Found at i:776898 original size:63 final size:62
Alignment explanation
Indices: 776799--776959 Score: 218
Period size: 63 Copynumber: 2.5 Consensus size: 62
776789 AGGGTGTCAA
* *
776799 AGTGCATCCATACACCCTTGCAGTGCATCCCTGCATCCCTGCAGTGCATCCATGCACCCTTG-C-
1 AGTGCATCCATGCACCC-TGCAGTGCATCCATGCATCCCTGCAGTGCATCCATGCA-CC-TGACT
*
776862 AGTGCATCTATGCATCCCTGCAGTGCATCCATGCATCCCTGCAGTGCATCCATGCACCTGCACT
1 AGTGCATCCATGCA-CCCTGCAGTGCATCCATGCATCCCTGCAGTGCATCCATGCACCTG-ACT
* *
776926 AGTGCATCGATGCACCATGCAGTGCATCCATGCA
1 AGTGCATCCATGCACCCTGCAGTGCATCCATGCA
776960 CTCAAACATC
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
61 2 0.02
62 2 0.02
63 69 0.78
64 16 0.18
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (62 bp):
AGTGCATCCATGCACCCTGCAGTGCATCCATGCATCCCTGCAGTGCATCCATGCACCTGACT
Found at i:783822 original size:25 final size:25
Alignment explanation
Indices: 783787--783838 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
783777 CGCGAATGCG
*
783787 ATAGTCGAAGTTCGCGTTGCGATTT
1 ATAGTCCAAGTTCGCGTTGCGATTT
*
783812 ATAGTCCAAGTTCGTGTTGCGATTT
1 ATAGTCCAAGTTCGCGTTGCGATTT
783837 AT
1 AT
783839 TCCAAATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.38
Consensus pattern (25 bp):
ATAGTCCAAGTTCGCGTTGCGATTT
Found at i:783867 original size:19 final size:19
Alignment explanation
Indices: 783839--783887 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
783829 TGCGATTTAT
*
783839 TCCAAATTCGTTGCAATAG
1 TCCAAGTTCGTTGCAATAG
*
783858 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCAATAG
*
783877 TCGAAGTTCGT
1 TCCAAGTTCGT
783888 GTTGCGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (19 bp):
TCCAAGTTCGTTGCAATAG
Found at i:784526 original size:6 final size:6
Alignment explanation
Indices: 784517--784564 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
784507 CAGTCTCGTC
* * * *
784517 TCGTGG TCGTGG TCGTGG TCGTGC TCGT-C TTGTGG TCGTGG TTGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
784564 T
1 T
784565 AATACGTGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.00, C:0.17, G:0.44, T:0.40
Consensus pattern (6 bp):
TCGTGG
Found at i:784681 original size:21 final size:21
Alignment explanation
Indices: 784657--784769 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
784647 GAATAAATCC
* *
784657 CAACGCGAACTTCGACTATCG
1 CAACGCGAATTTGGACTATCG
*
784678 CAA--CGAATTTGGAATAAATCG
1 CAACGCGAATTTGGACT--ATCG
* * *
784699 CAACACGAGTTTCGACTATCG
1 CAACGCGAATTTGGACTATCG
** *
784720 CAA--CGAATTTGGAAAATTG
1 CAACGCGAATTTGGACTATCG
*
784739 CAACGCGAACTTGGACTATCG
1 CAACGCGAATTTGGACTATCG
*
784760 CAATGCGAAT
1 CAACGCGAAT
784770 ATGTAAATCG
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
19 23 0.33
21 37 0.54
23 9 0.13
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
CAACGCGAATTTGGACTATCG
Found at i:784686 original size:42 final size:41
Alignment explanation
Indices: 784639--784787 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 41
784629 TGCACTACCC
*
784639 CGAATTTAGAATAAATCCCAACGCGAACTTCGACTATCGCAA
1 CGAATTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAA
* **
784681 CGAATTTGGAATAAATCGCAACACGAGTTTCGACTATCGCAA
1 CGAATTT-GAATAAATCGCAACGCGAACTTCGACTATCGCAA
* * *
784723 CGAATTTGGA-AAATTGCAACGCGAACTTGGACTATCGCAA
1 CGAATTTGAATAAATCGCAACGCGAACTTCGACTATCGCAA
* *
784763 TGCGAATATG--TAAATCGCAATGCGA
1 --CGAATTTGAATAAATCGCAACGCGA
784788 TAGTCGAAGT
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 25 0.28
41 14 0.16
42 51 0.57
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (41 bp):
CGAATTTGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:795113 original size:36 final size:36
Alignment explanation
Indices: 795066--795137 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
795056 GAGCTTATAT
795066 ACAATATATAAACGATATGATTCAAGGGAGTGCTAA
1 ACAATATATAAACGATATGATTCAAGGGAGTGCTAA
*
795102 ACAATATATAAACTATATGATTCAAGGGAGTGCTAA
1 ACAATATATAAACGATATGATTCAAGGGAGTGCTAA
795138 CATGACAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.26
Consensus pattern (36 bp):
ACAATATATAAACGATATGATTCAAGGGAGTGCTAA
Found at i:803819 original size:2 final size:2
Alignment explanation
Indices: 803806--803844 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
803796 TCGGTAAGAA
*
803806 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
803845 CCGGGAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:806214 original size:12 final size:13
Alignment explanation
Indices: 806189--806221 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
806179 GATTAAAAAT
806189 AATATTTATTTTA
1 AATATTTATTTTA
806202 AATATTT-TTTTA
1 AATATTTATTTTA
806214 AATTATTT
1 AA-TATTT
806222 GATATTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATATTTATTTTA
Found at i:821671 original size:67 final size:67
Alignment explanation
Indices: 821555--821686 Score: 169
Period size: 67 Copynumber: 2.0 Consensus size: 67
821545 ATGCTATCAA
* *
821555 TAGTTGTCTCCGAAGGAAAATGTAACTGTTGTCAATAATGTCTTTTATTTACCCCAAATTAATCG
1 TAGTTGTCTCCGAAGGAAAATGTAACAGTTGTCAATAATATCTTTTATTTACCCCAAATTAATCG
821620 AG
66 AG
* * ** *
821622 TAGTTGTCTCC-AGAGGGAAATGTAACAGTTGTCAATATTAT-TTTGTATTTATTCCAGATTAAT
1 TAGTTGTCTCCGA-AGGAAAATGTAACAGTTGTCAATAATATCTTT-TATTTACCCCAAATTAAT
821685 CG
64 CG
821687 GAAAAATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 4 0.07
67 52 0.93
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (67 bp):
TAGTTGTCTCCGAAGGAAAATGTAACAGTTGTCAATAATATCTTTTATTTACCCCAAATTAATCG
AG
Found at i:821987 original size:13 final size:13
Alignment explanation
Indices: 821969--821995 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
821959 TTGTTCACCT
821969 CTTTTAATTTACA
1 CTTTTAATTTACA
821982 CTTTTAATTTACA
1 CTTTTAATTTACA
821995 C
1 C
821996 GAAGAGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTTAATTTACA
Found at i:823002 original size:24 final size:22
Alignment explanation
Indices: 822975--823018 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
822965 CTACATTATA
822975 TTGAAACAATAATAATATATCATG
1 TTGAAACAATAA-AAT-TATCATG
*
822999 TTGAAATAATAAAATTATCA
1 TTGAAACAATAAAATTATCA
823019 AAGTGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 3 0.16
24 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
TTGAAACAATAAAATTATCATG
Found at i:826940 original size:21 final size:21
Alignment explanation
Indices: 826914--826955 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
826904 ACTAACGCTA
826914 CGGTGATAAAACGTGGATCAT
1 CGGTGATAAAACGTGGATCAT
826935 CGGTGATAAAACGTGGATCAT
1 CGGTGATAAAACGTGGATCAT
826956 GAAGCGCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (21 bp):
CGGTGATAAAACGTGGATCAT
Found at i:829382 original size:23 final size:23
Alignment explanation
Indices: 829323--829391 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
829313 CATTATTATA
* *
829323 TGGCACTACGGTGCAATTCTAAG
1 TGGCACTTCGGTGCAATTCTACG
* *
829346 CGGCAC-TCTAGTGCAATTCTACG
1 TGGCACTTC-GGTGCAATTCTACG
*
829369 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTCTACG
829392 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 34 0.92
24 2 0.05
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:842038 original size:22 final size:21
Alignment explanation
Indices: 841996--842035 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
841986 GAGTTTATTT
*
841996 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
842017 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
842036 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:844915 original size:41 final size:41
Alignment explanation
Indices: 844836--844922 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
844826 TTTCAGATGT
* *
844836 CACCGCAACTATTTCAGATGCCACAATAACTATTTTTTATGC
1 CACCGCAACTATTTCAGATGCCACAAT-ACTATGTTTTATGA
* *
844878 CACCGCATC-ATTTCAGATGCCACCAT-CGTATGGTTTTATGA
1 CACCGCAACTATTTCAGATGCCACAATAC-TAT-GTTTTATGA
844919 CACC
1 CACC
844923 TCCTGGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 3 0.08
41 27 0.69
42 8 0.21
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.31
Consensus pattern (41 bp):
CACCGCAACTATTTCAGATGCCACAATACTATGTTTTATGA
Found at i:845422 original size:24 final size:23
Alignment explanation
Indices: 845389--845457 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
845379 TTATGGGCTT
845389 TTTATTTATTTTGTTTCTTAATA
1 TTTATTTATTTTGTTTCTTAATA
** * * *
845412 TTTATATTA-TTTAATTATGAACTT
1 TTTAT-TTATTTTGTTTCTTAA-TA
845436 TTTATTTATTTTGTTTCTTAAT
1 TTTATTTATTTTGTTTCTTAAT
845458 GTTTTTATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
23 17 0.50
24 17 0.50
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTATTTATTTTGTTTCTTAATA
Found at i:845462 original size:24 final size:24
Alignment explanation
Indices: 845387--845470 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
845377 AATTATGGGC
845387 TTTTTAT-TTATTTTGTTTCTTAA
1 TTTTTATATTATTTTGTTTCTTAA
* ** * *
845410 TATTTATATTA-TTTAATTATGAA
1 TTTTTATATTATTTTGTTTCTTAA
845433 CTTTTTAT-TTATTTTGTTTCTTAA
1 -TTTTTATATTATTTTGTTTCTTAA
845457 TGTTTT-TATTATTT
1 T-TTTTATATTATTT
845471 AATTGTTTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
23 19 0.41
24 27 0.59
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTTTATATTATTTTGTTTCTTAA
Found at i:845468 original size:86 final size:84
Alignment explanation
Indices: 845301--845461 Score: 241
Period size: 86 Copynumber: 1.8 Consensus size: 84
845291 AATAGACTTG
*
845301 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGACTTTTATTTATTTTTTTCTTAA
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAACTTTTATTTATTTTTTTCTTAA
845366 TGTTTTTATTTAATTATGGGC
66 TG--TTTATTTAATTATGGGC
*
845387 TTTTTATTTATTTTGTTTCTTAATATTTATATTATTTAATTATGAACTTTTTATTTATTTTGTTT
1 TTTTTATTTATTTTGTTTCTTAAT-GTT-T-TTATTTAATTATGAAC-TTTTATTTATTTT-TTT
845452 CTTAATGTTT
61 CTTAATGTTT
845462 TTATTATTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
86 24 0.35
87 2 0.03
88 1 0.01
89 18 0.26
90 13 0.19
91 10 0.15
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.67
Consensus pattern (84 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAACTTTTATTTATTTTTTTCTTAA
TGTTTATTTAATTATGGGC
Found at i:845474 original size:47 final size:44
Alignment explanation
Indices: 845301--845466 Score: 264
Period size: 47 Copynumber: 3.8 Consensus size: 44
845291 AATAGACTTG
845301 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
*
845345 -TTTTATTTATTTT-TTTCTTAATGTTTTTATTTAATTATGGGC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
* *
845387 TTTTTATTTATTTTGTTTCTTAATATTTATATTATTTAATTATGAAC
1 TTTTTATTTATTTTGTTTCTTAAT-GTT-T-TTATTTAATTATGGAC
845434 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
845467 ATTTAATTGT
Statistics
Matches: 112, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
42 28 0.25
43 26 0.23
44 14 0.12
45 3 0.03
46 3 0.03
47 38 0.34
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.67
Consensus pattern (44 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
Found at i:845508 original size:13 final size:13
Alignment explanation
Indices: 845490--845514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
845480 AATTGTAACG
845490 TTTGTATTTAATA
1 TTTGTATTTAATA
845503 TTTGTATTTAAT
1 TTTGTATTTAAT
845515 TGTTTTAATT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTGTATTTAATA
Found at i:845533 original size:23 final size:24
Alignment explanation
Indices: 845498--845561 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
845488 CGTTTGTATT
* *
845498 TAATATTTGTATTTAATT-GTTT-
1 TAATGTTTTTATTTAATTAGTTTG
*
845520 TAATTGTTTTTA-TTATTTAGTTTG
1 TAA-TGTTTTTATTTAATTAGTTTG
845544 TAATGTTTTTATTTAATT
1 TAATGTTTTTATTTAATT
845562 TTCACTTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 8 0.24
23 18 0.53
24 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (24 bp):
TAATGTTTTTATTTAATTAGTTTG
Found at i:850964 original size:14 final size:14
Alignment explanation
Indices: 850916--850990 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 14
850906 ATTATAAAAA
*
850916 ATAAATATTATTAT
1 ATAAAAATTATTAT
* *
850930 TTAAAAAGTATATTTT
1 ATAAAAA-T-TATTAT
850946 AATAAAAATTATTAT
1 -ATAAAAATTATTAT
* *
850961 ATAAATATCATTAT
1 ATAAAAATTATTAT
850975 -TAAAATATTATT-T
1 ATAAAA-ATTATTAT
850988 ATA
1 ATA
850991 TTCATAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
13 5 0.11
14 24 0.51
15 6 0.13
16 6 0.13
17 6 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
ATAAAAATTATTAT
Found at i:851090 original size:20 final size:18
Alignment explanation
Indices: 851065--851108 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
851055 TAAAAATTGT
851065 ATATTATTCAATATGTTTAA
1 ATATTATT-AATAT-TTTAA
*
851085 ATATTA-TAATATTTTTA
1 ATATTATTAATATTTTAA
851102 ATATTAT
1 ATATTAT
851109 ATTAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 5 0.23
19 1 0.05
20 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTATTAATATTTTAA
Found at i:851101 original size:18 final size:18
Alignment explanation
Indices: 851074--851127 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
851064 TATATTATTC
*
851074 AATATGTTTAAATATTAT
1 AATATTTTTAAATATTAT
851092 AATATTTTT-AATATTAT
1 AATATTTTTAAATATTAT
* * *
851109 ATTAATATTAAATA-TAT
1 AATATTTTTAAATATTAT
851126 AA
1 AA
851128 AATAATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATATTTTTAAATATTAT
Found at i:851119 original size:17 final size:17
Alignment explanation
Indices: 851084--851137 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
851074 AATATGTTTA
* *
851084 AATATTATAATATTTTT
1 AATATTATAATAATATT
*
851101 AATATTATATTAATATT
1 AATATTATAATAATATT
*
851118 AAATATATAAAATAATATT
1 -AATAT-TATAATAATATT
851137 A
1 A
851138 CTCATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 14 0.47
18 6 0.20
19 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTATAATAATATT
Found at i:851196 original size:19 final size:18
Alignment explanation
Indices: 851159--851197 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
851149 AAATTCAATA
*
851159 ATAATATTTTTAAACATT
1 ATAATATTATTAAACATT
*
851177 ATAATGATTATTAAATATT
1 ATAAT-ATTATTAAACATT
851196 AT
1 AT
851198 TTCCATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
ATAATATTATTAAACATT
Found at i:851376 original size:18 final size:19
Alignment explanation
Indices: 851355--851436 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 19
851345 ACATTTAAAA
851355 AATATTAAATATTATAT-T
1 AATATTAAATATTATATAT
*
851373 AATATTAAATA-AATATAT
1 AATATTAAATATTATATAT
*
851391 AATA-T-ATTATTA-ATAT
1 AATATTAAATATTATATAT
*
851407 ACTATTAAAATATTATAT-T
1 AATATT-AAATATTATATAT
851426 AATATTAAATA
1 AATATTAAATA
851437 CATAAATGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 10 0.19
17 7 0.13
18 21 0.40
19 12 0.23
20 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATTAAATATTATATAT
Found at i:851378 original size:11 final size:11
Alignment explanation
Indices: 851356--851432 Score: 58
Period size: 11 Copynumber: 7.1 Consensus size: 11
851346 CATTTAAAAA
851356 ATATTAAATATT
1 ATATT-AATATT
851368 ATATTAATATT
1 ATATTAATATT
*
851379 A-AATAA-A-T
1 ATATTAATATT
851387 ATA-TAATA-T
1 ATATTAATATT
851396 ATTATTAATA-T
1 A-TATTAATATT
851407 ACTATTAAAATATT
1 A-TATT--AATATT
851421 ATATTAATATT
1 ATATTAATATT
851432 A
1 A
851433 AATACATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
8 5 0.09
9 5 0.09
10 6 0.11
11 25 0.45
12 5 0.09
13 8 0.14
14 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAATATT
Found at i:851394 original size:29 final size:29
Alignment explanation
Indices: 851349--851436 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
851339 TATAAAACAT
851349 TTAAA-AAATAT-TAAATATTATATTAATA
1 TTAAATAAATATAT-AATATTATATTAATA
851377 TTAAATAAATATATAATA-TATTATTAATA
1 TTAAATAAATATATAATATTA-TATTAATA
* *
851406 -T-ACT--AT-TAAAATATTATATTAATA
1 TTAAATAAATATATAATATTATATTAATA
851430 TTAAATA
1 TTAAATA
851437 CATAAATGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
24 14 0.28
25 5 0.10
26 2 0.04
27 2 0.04
28 8 0.16
29 18 0.36
30 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAAATAAATATATAATATTATATTAATA
Found at i:856382 original size:112 final size:112
Alignment explanation
Indices: 856191--856584 Score: 646
Period size: 112 Copynumber: 3.5 Consensus size: 112
856181 GTTTGTGTCC
* * * *
856191 ATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATAACAAAA-TCGGTCT
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACT-GGTCT
* *
856255 ATAAATGACAAAACAGGTAAAGCGTTACCGGATATATTGAAAGTGTCG
65 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCG
* * *
856303 ATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGATAAAACTGATCTA
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACTGGTCTA
*
856368 TAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTATCG
66 TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCG
* *
856415 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAAGACAAAACCGGTCTA
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACTGGTCTA
**
856480 TAAATGACAAAACAGGTAAAGCGCTACATGATATATTGAAAGTATCG
66 TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCG
856527 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
856585 AGGTAAAGCG
Statistics
Matches: 262, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
112 261 1.00
113 1 0.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (112 bp):
ATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACTGGTCTA
TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCG
Found at i:856594 original size:92 final size:92
Alignment explanation
Indices: 856481--856676 Score: 338
Period size: 92 Copynumber: 2.1 Consensus size: 92
856471 ACCGGTCTAT
*
856481 AAATGACAAAACAGGTAAAGCGCTACATGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACAGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
*
856546 CGATCCATAACAATATAACAGGTAAAA
66 CGATCCATAACAATATAACAAGTAAAA
* * *
856573 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACAGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
*
856638 CTATCCATAACAATATAACAAGTAAAA
66 CGATCCATAACAATATAACAAGTAAAA
856665 AAATGACAAAAC
1 AAATGACAAAAC
856677 CGATCTATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 98 1.00
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.24
Consensus pattern (92 bp):
AAATGACAAAACAGGTAAAGCGCTACAGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAAGTAAAA
Found at i:856624 original size:204 final size:204
Alignment explanation
Indices: 856369--857001 Score: 845
Period size: 204 Copynumber: 3.0 Consensus size: 204
856359 ACTGATCTAT
*
856369 AAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
* *
856434 CGATCCATAACAATATAACAGGTAAAAAAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAA
66 CGATCCATAACAATATAACAAGTAAAAAAAAGACAAAACCGATCTATAAATGACAAAACAGGTAA
*
856499 AGCGCTACATGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAA
131 AGCGCTAC-GGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAA
856564 CAGGT-AAAA
195 CAGGTAAAAA
* *
856573 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
* *
856638 CTATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACAGGTAA
66 CGATCCATAACAATATAACAAGTAAAAAAAAGACAAAACCGATCTATAAATGACAAAACAGGTAA
*
856703 AGCGCTACGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
131 AGCGCTACGGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
856768 AGGTAAAAA
196 AGGTAAAAA
* * *
856777 AAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGTGTACCGGATATATTGAAAATATCG
1 AAATGACAAAACAGG----TAAA-G------C-------G-CTACCGGATATATTGAAAGTATCG
* * * * *
856842 ATACTTTATAAAAATTTATCGATCTATAACAATATAACAAGTAAAAAAATGACAAAATCGGTCTA
47 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAAAGACAAAACCGATCTA
* * * * *
856907 TAAATGACAAAACAGGTAAAGTGCTATCAGATATGTTGATAGTGTCGATACTTTATAAAAATGTA
112 TAAATGACAAAACAGGTAAAGCGCTA-CGGATATATTGAAAGTATCGATACTTTATAAAAATGTA
* * *
856972 TCGATCCATAACAATAAAATAGTTAAAAA
176 TCGATCCATAACAATATAACAGGTAAAAA
857001 A
1 A
857002 TGACAATCGT
Statistics
Matches: 382, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
203 59 0.15
204 149 0.39
208 4 0.01
209 1 0.00
215 1 0.00
222 1 0.00
223 105 0.27
224 62 0.16
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (204 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTATCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAAGTAAAAAAAAGACAAAACCGATCTATAAATGACAAAACAGGTAA
AGCGCTACGGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
AGGTAAAAA
Found at i:856796 original size:112 final size:112
Alignment explanation
Indices: 856573--857071 Score: 740
Period size: 112 Copynumber: 4.5 Consensus size: 112
856563 ACAGGTAAAA
*
856573 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
* *
856638 CTATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTAT
66 CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTAT
856685 AAATGACAAAACAGGTAAAGCGCTA-CGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
*
856749 CGATCCATAACAATATAACAGGTAAAAAAAATGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACAAGT-AAAAAAATGACAAAACCGGTCTAT
* * * *
856797 AAATGACAAAACAGGTAAAGTG-TACCGGATATATTGAAAATATCGATACTTTATAAAAATTTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
* *
856861 CGATCTATAACAATATAACAAGTAAAAAAATGACAAAATCGGTCTAT
66 CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTAT
* * * * *
856908 AAATGACAAAACAGGTAAAGTGCTATCAGATATGTTGATAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
* * *
856973 CGATCCATAACAATA-AA-ATAGTTAAAAAATGAC--AATCGTTCTAT
66 CGATCCATAACAATATAACA-AGTAAAAAAATGACAAAACCGGTCTAT
* * * *
857017 AAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATAATTTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
857072 TATAAGTATC
Statistics
Matches: 359, Mismatches: 24, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
109 62 0.17
110 1 0.00
111 121 0.34
112 175 0.49
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (112 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTAT
Found at i:856873 original size:223 final size:221
Alignment explanation
Indices: 856573--857054 Score: 734
Period size: 223 Copynumber: 2.2 Consensus size: 221
856563 ACAGGTAAAA
* * *
856573 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTAT
*
856638 CTATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACAGGTAA
66 CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACAGGTAA
* *
856703 AGCGCTA-CGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAA
131 AGCGCTATCAGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAA
856767 CAGGTAAAAAAAATGACAAAACCGGTCTAT
196 CA-GT-AAAAAAATGAC--AACCGGTCTAT
* *
856797 AAATGACAAAACAGGTAAAGTG-TACCGGATATATTGAAAATATCGATACTTTATAAAAATTTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTAT
* * *
856861 CGATCTATAACAATATAACAAGTAAAAAAATGACAAAATCGGTCTATAAATGACAAAACAGGTAA
66 CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACAGGTAA
* * *
856926 AGTGCTATCAGATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAA
131 AGCGCTATCAGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAA
* * * *
856991 TAGTTAAAAAATGACAATCGTTCTAT
196 CAGTAAAAAAATGACAACCGGTCTAT
* *
857017 AAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGA
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGA
857055 TAGTGTCGAT
Statistics
Matches: 235, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
220 30 0.13
221 13 0.06
222 10 0.04
223 107 0.46
224 75 0.32
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (221 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACAGGTAA
AGCGCTATCAGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAA
CAGTAAAAAAATGACAACCGGTCTAT
Found at i:856987 original size:427 final size:427
Alignment explanation
Indices: 856185--857007 Score: 1357
Period size: 427 Copynumber: 1.9 Consensus size: 427
856175 TTGTCGGTTT
*
856185 GTGTCCATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATAACAAAATC
1 GTGTCCATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATAACAAAACC
* *
856250 GGTCTATAAATGACAAAACAGGTAAAGCGTTACCGGATATATTGAAAGTGTCGATACTTTATAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
* * *
856315 AATGTATCTATCCATAACAATATAACAGGTAAAAAAATGATAAAACTGATCTATAAATGACAAAA
131 AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATCTATAAATGACAAAA
* *
856380 CAGGTAAAGCGCTATCGGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAAC
196 CAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTATCGATCCATAAC
*
856445 AATATAACAGGTAAAAAAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACATG
261 AATATAACAAGTAAAAAAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACATG
*
856510 ATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAA
326 ATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACA-GTAAAAAA
856575 ATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAA
390 ATGACAAAACAGGTAAAGCGCTACCGGATATATTTAAA
* * *
856613 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAAGTAAAAAAATGACAAAAC
1 GTGTCCATACTTTATAAAAATATAT-TGATCCATAACAATATAACAAGTAAAAAAATAACAAAAC
856677 CGATCTATAAATGACAAAACAGGTAAAGCGCTA-CGGATATATTGAAAGTGTCGATACTTTATAA
65 CGATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAA
*
856741 AAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAACCGGTCTATAAATGACAA
130 AAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGATCTATAAATGACAA
* * *
856806 AACAGGTAAAGTG-TACCGGATATATTGAAAATATCGATACTTTATAAAAATTTATCGATCTATA
194 AACAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTATCGATCCATA
* * *
856870 ACAATATAACAAGTAAAAAAATGACAAAATCGGTCTATAAATGACAAAACAGGTAAAGTGCTATC
259 ACAATATAACAAGTAAAAAAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTA-C
* * * * *
856935 A-GATATGTTGATAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAATAGTTAAA
323 ATGATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGTAAAA
856999 AAATGACAA
388 AAATGACAA
857008 TCGTTCTATA
Statistics
Matches: 367, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
426 14 0.04
427 219 0.60
428 133 0.36
429 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (427 bp):
GTGTCCATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATAACAAAACC
GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGATCTATAAATGACAAAA
CAGGTAAAGCGCTACCGGATATATTGAAAATATCGATACTTTATAAAAATGTATCGATCCATAAC
AATATAACAAGTAAAAAAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACATG
ATATATTGAAAGTATCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGTAAAAAAA
TGACAAAACAGGTAAAGCGCTACCGGATATATTTAAA
Found at i:857255 original size:182 final size:182
Alignment explanation
Indices: 856947--857397 Score: 696
Period size: 182 Copynumber: 2.5 Consensus size: 182
856937 ATATGTTGAT
856947 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATA-AA-ATAGTTAAAAA-ATGAC--A
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT-G-TAAAAATATGACAAA
* ** * *
857007 ATCGTTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATAATTTAT
64 ATCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATAATTTAT
* *
857072 TATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGAGCTAATAA
129 TATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAA
* * *
857126 AGTGTCGATACTTTATAAAAATGTATCTATCTATAACAATATAACATGTAAAAATATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
* *
857191 CGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
66 CGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATAATTTATTA
* *
857256 TAAGTATCGACACTTTTTGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAA
** *
857308 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAATAAAAATATAACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
857373 CGATCTCGAAATGACAAAACCGGTA
66 CGATCTCGAAATGACAAAACCGGTA
857398 GTAAAAAAGT
Statistics
Matches: 247, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
179 45 0.18
180 8 0.03
181 2 0.01
182 192 0.78
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
CGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATAATTTATTA
TAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGAGCCAATAA
Found at i:857363 original size:15 final size:15
Alignment explanation
Indices: 857340--857370 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
857330 GTATCGATCC
*
857340 ATAACAATATAACAA
1 ATAAAAATATAACAA
857355 ATAAAAATATAACAA
1 ATAAAAATATAACAA
857370 A
1 A
857371 ATCGATCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAATATAACAA
Found at i:862795 original size:21 final size:21
Alignment explanation
Indices: 862753--862795 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
862743 TTTCTGGGCT
*
862753 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
862774 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
862795 A
1 A
862796 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:869584 original size:21 final size:21
Alignment explanation
Indices: 869542--869584 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
869532 TTTTTGGGCT
*
869542 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
869563 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
869584 A
1 A
869585 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:870268 original size:23 final size:23
Alignment explanation
Indices: 870233--870300 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
870223 ATTATTATAT
*
870233 GGCACTACAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* **
870256 GGCACTCCGGTGCAATTCTACAT
1 GGCACTACGGTGCAATTCTACGC
* *
870279 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
870301 AGTTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:874583 original size:35 final size:35
Alignment explanation
Indices: 874541--874650 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 35
874531 TTCATCTTGG
874541 TTGGTGGCCAAACTTTGAACATGTGAATTTCATAT
1 TTGGTGGCCAAACTTTGAACATGTGAATTTCATAT
* *
874576 TTGGTGG-CTAAC-TTGTACACAT-TGGAAAATTC-T-T
1 TTGGTGGCCAAACTTTG-A-ACATGT-G-AATTTCATAT
* *
874610 TGGTAGGTAGCCAAACTTTGAACATGAGAATTTCATAT
1 T--T-GGTGGCCAAACTTTGAACATGTGAATTTCATAT
874648 TTG
1 TTG
874651 ATCCCTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
33 3 0.05
34 8 0.14
35 14 0.25
36 12 0.21
37 10 0.18
38 7 0.12
39 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (35 bp):
TTGGTGGCCAAACTTTGAACATGTGAATTTCATAT
Found at i:875236 original size:3 final size:3
Alignment explanation
Indices: 875228--875264 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
875218 TGTTTATACA
875228 TTC TTC TTC TTC TTC TTC TTC TTC TATC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC T
875265 GGCTCTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:876459 original size:12 final size:12
Alignment explanation
Indices: 876442--876469 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
876432 AATCCCAAGT
876442 GAAACTGAAAAA
1 GAAACTGAAAAA
876454 GAAACTGAAAAA
1 GAAACTGAAAAA
876466 GAAA
1 GAAA
876470 ATGGAAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.07, G:0.18, T:0.07
Consensus pattern (12 bp):
GAAACTGAAAAA
Found at i:881891 original size:64 final size:65
Alignment explanation
Indices: 881808--881943 Score: 170
Period size: 64 Copynumber: 2.1 Consensus size: 65
881798 GTGATACAAT
* *
881808 GATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGTATTTCATGCA
1 GATGCACCAAGCCATGCATCGATGCACGCA-GG-ATAAATTGAAACATCGAATGCATTTCATGCA
881871 CC
64 CC
* ** * *
881873 GATGCACC-AGCCATGCATCGATGCACGCAGGCTATTTTGAAACATCGAATGCATTTTATGCATC
1 GATGCACCAAGCCATGCATCGATGCACGCAGGATAAATTGAAACATCGAATGCATTTCATGCACC
881937 GATGCAC
1 GATGCAC
881944 TCTTAGTGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 5 0.08
64 47 0.76
65 10 0.16
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (65 bp):
GATGCACCAAGCCATGCATCGATGCACGCAGGATAAATTGAAACATCGAATGCATTTCATGCACC
Found at i:886487 original size:20 final size:19
Alignment explanation
Indices: 886449--886488 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
886439 AAATAAATTG
* *
886449 AAAATAAATAAATCAATCA
1 AAAATAAACAAAACAATCA
886468 AAAATAAAACAAAACAATCA
1 AAAAT-AAACAAAACAATCA
886488 A
1 A
886489 GCATAACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATAAACAAAACAATCA
Found at i:889015 original size:29 final size:28
Alignment explanation
Indices: 888951--889009 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
888941 CTCGACTCAT
888951 TGCTCATT--AAAATTTTGCTCGAATCG
1 TGCTCATTAAAAAATTTTGCTCGAATCG
* *
888977 TGCTCATTAAAAAATTGTTGCTTGACTCG
1 TGCTCATTAAAAAATT-TTGCTCGAATCG
889006 TGCT
1 TGCT
889010 TGTTAAGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
28 6 0.21
29 14 0.50
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (28 bp):
TGCTCATTAAAAAATTTTGCTCGAATCG
Found at i:889786 original size:15 final size:16
Alignment explanation
Indices: 889760--889814 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
889750 CGAGTGTTGT
889760 TTATATTTATTATAT-A
1 TTATA-TTATTATATAA
889776 TTATATTATTATATAA
1 TTATATTATTATATAA
889792 TATATATTATTAT-TAA
1 T-TATATTATTATATAA
889808 TT-TATTA
1 TTATATTA
889815 CAAGACCTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.14
15 10 0.27
16 11 0.30
17 11 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTATTATATAA
Found at i:894023 original size:30 final size:30
Alignment explanation
Indices: 893982--894049 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
893972 CAGAATTATT
*
893982 ACCCTTTCTCTTTGAAAGTGGTCTTGTAAC
1 ACCCATTCTCTTTGAAAGTGGTCTTGTAAC
894012 ACCCATTCTCTTTGAAAGTGGTCTTGTAAC
1 ACCCATTCTCTTTGAAAGTGGTCTTGTAAC
894042 ACCCATTC
1 ACCCATTC
894050 CTCCTAGTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (30 bp):
ACCCATTCTCTTTGAAAGTGGTCTTGTAAC
Found at i:897101 original size:40 final size:40
Alignment explanation
Indices: 897011--897112 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 40
897001 CCAAAAATAG
** * * * *
897011 AATG-TGGGGCATTTTGAATTCCCATATCATCCAGAAGCA
1 AATGTTGGGGCATTTTGAAGGCCCACATCAACAAGAAACA
* * *
897050 AAGGTTAGGGCATTTTGAAGGCTCACATCAACAAGAAACA
1 AATGTTGGGGCATTTTGAAGGCCCACATCAACAAGAAACA
*
897090 AATGTTGGGGCATGTTGAAGGCC
1 AATGTTGGGGCATTTTGAAGGCC
897113 GTATCATCCT
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
39 3 0.06
40 46 0.94
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (40 bp):
AATGTTGGGGCATTTTGAAGGCCCACATCAACAAGAAACA
Found at i:898324 original size:20 final size:20
Alignment explanation
Indices: 898299--898350 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
898289 CTTCTCATTT
* *
898299 AAACCTTCGGGTTATTTGTA
1 AAACCTTTGGGTAATTTGTA
*
898319 AAACCTTTTGGTAATTTGTA
1 AAACCTTTGGGTAATTTGTA
*
898339 AATCCTTTGGGT
1 AAACCTTTGGGT
898351 CATCTGTCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (20 bp):
AAACCTTTGGGTAATTTGTA
Found at i:898529 original size:39 final size:38
Alignment explanation
Indices: 898477--898592 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 38
898467 ACAGATTCTT
898477 TCAGTCATCATTTTCAACCTTCACAGAAGAGTAGTGAAG
1 TCAGTCATCATTTTCAACCTTCAC-GAAGAGTAGTGAAG
*
898516 TCAGTCATTATTTTCAACCTTCACGAAAGAGTAGTGAAG
1 TCAGTCATCATTTTCAACCTTCACG-AAGAGTAGTGAAG
*
898555 TCAGTCATCATTTTCAATCTTCACGGAAGAGTAGTGAA
1 TCAGTCATCATTTTCAACCTTCAC-GAAGAGTAGTGAA
898593 AGAAATACAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 70 0.97
40 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (38 bp):
TCAGTCATCATTTTCAACCTTCACGAAGAGTAGTGAAG
Found at i:898878 original size:15 final size:16
Alignment explanation
Indices: 898852--898906 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
898842 CGAATGTCGT
898852 TTATATTTATTATAT-A
1 TTATA-TTATTATATAA
898868 TTATATTATTATATAA
1 TTATATTATTATATAA
898884 TATATATTATTAT-TAA
1 T-TATATTATTATATAA
898900 TT-TATTA
1 TTATATTA
898907 CAAGACCTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.14
15 10 0.27
16 11 0.30
17 11 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTATTATATAA
Found at i:903352 original size:50 final size:50
Alignment explanation
Indices: 903227--903352 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
903217 GTAGCAGTAA
*
903227 AGCGCGCCCCCTAAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTAT
* * * * *
903277 AGCGCGCCCCCTG-CCTCGTGATATACGGTGATTTGGCGCCACGTGTGTAT
1 AGCGCGCCCCCTGAAC-CGCGCTATACGCTGATTTGGCGCCACGTGGGTAT
* *
903327 AGCTCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
903353 ATGGGTATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.02
50 62 0.97
51 1 0.02
ACGTcount: A:0.16, C:0.35, G:0.27, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGCTGATTTGGCGCCACGTGGGTAT
Found at i:903819 original size:111 final size:111
Alignment explanation
Indices: 903625--903963 Score: 597
Period size: 111 Copynumber: 3.1 Consensus size: 111
903615 CTCGGATGGA
* *
903625 AATTATATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
*
903690 TAGTAATATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
903736 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
*
903801 TAGTAATAATTAGTTGATTTATTTAATGCACGATTATTAGATTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
* * *
903847 AATTAAATATCTTGACACTTTTCTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
* *
903912 TAGTAATAATTAGTTGATTTATTTAATACATGATTATTAGAGTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
903958 AATTAA
1 AATTAA
903964 TTTTTGTAAT
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 218 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
Found at i:905839 original size:3 final size:3
Alignment explanation
Indices: 905831--905865 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
905821 ACCTGCTCAG
* *
905831 GAC GAC GAC GAC GAC GAT GAC GAC GAT GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
905866 TGATGACGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.34, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:905843 original size:9 final size:9
Alignment explanation
Indices: 905831--905875 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
905821 ACCTGCTCAG
*
905831 GACGACGAC
1 GACGACGAT
905840 GACGACGAT
1 GACGACGAT
905849 GACGACGAT
1 GACGACGAT
905858 GACGACGAT
1 GACGACGAT
*
905867 GATGACGAT
1 GACGACGAT
905876 AATGATGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.11
Consensus pattern (9 bp):
GACGACGAT
Found at i:905852 original size:12 final size:12
Alignment explanation
Indices: 905834--905874 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
905824 TGCTCAGGAC
*
905834 GACGACGACGAC
1 GACGACGACGAT
*
905846 GATGACGACGAT
1 GACGACGACGAT
*
905858 GACGACGATGAT
1 GACGACGACGAT
905870 GACGA
1 GACGA
905875 TAATGATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.34, T:0.10
Consensus pattern (12 bp):
GACGACGACGAT
Found at i:906133 original size:35 final size:33
Alignment explanation
Indices: 906094--906178 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
906084 ATATTTCAGT
906094 TAATTTTGTT-TATTACCATTTAATATTAGTTATTG
1 TAATTTTGTTATATTACCATTT-A-ATTA-TTATTG
*
906129 TAATTTGGTTATCATTTACCATTTAATTATTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTATTATTG
* *
906164 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
906179 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 5 0.12
37 2 0.05
38 9 0.21
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTATTATTG
Found at i:912251 original size:31 final size:31
Alignment explanation
Indices: 912215--912273 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
912205 AACCTAAAAG
*
912215 AGTTTTACAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
912246 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
912274 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:912370 original size:18 final size:18
Alignment explanation
Indices: 912349--912427 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
912339 CATATTTTAA
912349 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* *
912367 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
912381 AATAAATCAA-TCTATATTTT
1 AATAAATCAATTC-ATA--CT
912401 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATACT
912421 AATAAAT
1 AATAAAT
912428 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 20
0.65 0.07 0.28
Matches are distributed among these distances:
14 8 0.17
15 3 0.07
17 5 0.11
18 14 0.30
20 1 0.02
22 13 0.28
23 2 0.04
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:912386 original size:54 final size:54
Alignment explanation
Indices: 912327--912817 Score: 352
Period size: 54 Copynumber: 9.1 Consensus size: 54
912317 CAACTACGAT
*
912327 AATAAAACAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
*
912381 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * ** * ** *
912435 AATAAATCAATCCATACAACTATAATAATAAATCAATTCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATTCATACTAATAAATTATTTAA
** ** ** * ** *
912491 AATCCATACTAATAAAT-TATTTAAAATAAATCAA-TCTATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
** ** * ** * ** *
912545 AATTCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTCATACTAATAAATTATTTAA
** ** * *
912599 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTCATACTAA-TAAATTATTTAA
912649 AATAAATCAATCCATATTTTAAAATAAATCAA-TCAATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
* *
912703 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
*
912757 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
912811 AATAAAT
1 AATAAAT
912818 TATTTTAAAA
Statistics
Matches: 384, Mismatches: 32, Indels: 42
0.84 0.07 0.09
Matches are distributed among these distances:
47 1 0.00
48 27 0.07
49 4 0.01
50 6 0.02
51 1 0.00
52 1 0.00
53 3 0.01
54 292 0.76
55 9 0.02
56 5 0.01
57 14 0.04
58 21 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:912438 original size:134 final size:133
Alignment explanation
Indices: 912288--912718 Score: 551
Period size: 134 Copynumber: 3.2 Consensus size: 133
912278 ACAACTACAA
* * *
912288 TAATAAATTA-TT-AAATAAATCAATTCATACAACTACGATAATAAAACAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTA-AATAATAAAACAATACATATTTTAAAA
*
912351 TAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTC
65 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTC
912416 ATAC
130 ATAC
* *
912420 TAATAAATTATTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATTCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATACAACTA-AATAATAAAACAATACATATTTTAAAA
912485 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTC
65 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTC
912550 ATAC
130 ATAC
* * * * *
912554 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT-TA
1 TAATAAATTATTTAAAATAAATCAATCCATA----CAACTAAAT-AAT-AAAAC-AATACATAT-
* *
912618 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
58 TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAA
912676 ATCAA-TCAATAC
122 ATCAATTC-ATAC
*
912688 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
912719 TTTTAAAATA
Statistics
Matches: 271, Mismatches: 16, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
132 10 0.04
133 4 0.01
134 210 0.77
136 1 0.00
137 3 0.01
138 8 0.03
139 5 0.02
140 30 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (133 bp):
TAATAAATTATTTAAAATAAATCAATCCATACAACTAAATAATAAAACAATACATATTTTAAAAT
AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCA
TAC
Found at i:912507 original size:22 final size:23
Alignment explanation
Indices: 912432--912506 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 23
912422 ATAAATTATT
*
912432 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACTA--A
* **
912457 TAATAATAAATCAATTCATA-TTT
1 TAA-AATAAATCAATCCATACTAA
912480 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
912503 TAAA
1 TAAA
912507 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:912551 original size:188 final size:188
Alignment explanation
Indices: 912327--912817 Score: 894
Period size: 188 Copynumber: 2.6 Consensus size: 188
912317 CAACTACGAT
* *
912327 AATAAAACAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
* *
912392 CTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
* * *
912457 TAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
131 CAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
912515 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
912580 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
66 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
912645 CAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
131 CAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
*
912703 AATAAATCAAT-TCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCT-ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
912767 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
65 TCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
912818 TATTTTAAAA
Statistics
Matches: 294, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
187 1 0.00
188 293 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (188 bp):
AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
CAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
Found at i:912590 original size:22 final size:22
Alignment explanation
Indices: 912564--912606 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
912554 TAATAAATTA
912564 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
912586 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
912607 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:912615 original size:22 final size:22
Alignment explanation
Indices: 912566--912614 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
912556 ATAAATTATT
**
912566 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
912588 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
912611 TAAA
1 TAAA
912615 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:912695 original size:22 final size:22
Alignment explanation
Indices: 912623--912695 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
912613 AATTATTTAA
* *
912623 AATAAATCAATCCATACAACTAC-
1 AATAAATAAATCAAT-CAA-TACT
*
912646 AAT-AATAAATCAATCCATA-T
1 AATAAATAAATCAATCAATACT
**
912666 TTTAAAATAAATCAATCAATACT
1 AAT-AAATAAATCAATCAATACT
912689 AATAAAT
1 AATAAAT
912696 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 28 0.74
23 5 0.13
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATCAATACT
Found at i:912705 original size:32 final size:31
Alignment explanation
Indices: 912666--912817 Score: 151
Period size: 32 Copynumber: 5.4 Consensus size: 31
912656 CAATCCATAT
912666 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
912698 TTTAAAATAAATCAAT--T-C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
912720 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
912752 TTTAAAATAAATCAATC---C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
912774 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
912806 TTTAAAATAAAT
1 TTTAAAATAAAT
912818 TATTTTAAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 40
0.71 0.00 0.29
Matches are distributed among these distances:
22 32 0.32
23 3 0.03
24 2 0.02
25 1 0.01
26 6 0.06
28 6 0.06
29 1 0.01
30 2 0.02
31 3 0.03
32 44 0.44
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:912724 original size:22 final size:22
Alignment explanation
Indices: 912698--912740 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
912688 TAATAAATTA
*
912698 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
912720 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
912741 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:912724 original size:134 final size:137
Alignment explanation
Indices: 912344--912772 Score: 594
Period size: 134 Copynumber: 3.2 Consensus size: 137
912334 CAATCCATAT
*
912344 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCTATATTTTAAAATAAA
*** * *
912409 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTATAAT-AATAAAT-CA-A
63 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATA
* *
912471 TTCAT--A-T-
127 CTAATAAATTA
912478 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCTATATTTTAAAATAAA
912543 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
63 TCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
912608 TAATAAATTA
128 TAATAAATTA
* *
912618 TTTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCTATATTTTAAAATAAATC
*
912679 AA-TCAATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACT
65 AATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
912743 AATAAATTA
129 AATAAATTA
912752 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
912773 TTTTAAAATA
Statistics
Matches: 275, Mismatches: 11, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
133 7 0.03
134 231 0.84
135 2 0.01
136 5 0.02
138 2 0.01
139 3 0.01
140 25 0.09
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (137 bp):
TTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCTATATTTTAAAATAAATCA
ATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
TAAATTA
Found at i:912749 original size:22 final size:22
Alignment explanation
Indices: 912700--912748 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
912690 ATAAATTATT
* **
912700 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
912722 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
912745 TAAA
1 TAAA
912749 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:912778 original size:22 final size:22
Alignment explanation
Indices: 912752--912852 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
912742 TAATAAATTA
912752 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
912774 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
912797 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
912821 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
912843 TTTATAATAA
1 TTTAAAATAA
912853 TTTATTTTAA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:912816 original size:14 final size:15
Alignment explanation
Indices: 912797--912832 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
912787 AATCCATACT
912797 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
912811 AATAAATTATTTTAA
1 AATAAATTATTTTAA
912826 AATAAAT
1 AATAAAT
912833 CAATCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:919464 original size:18 final size:18
Alignment explanation
Indices: 919437--919500 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
919427 ATTTTTCCTA
919437 AAGGACCACTATGTCCCG
1 AAGGACCACTATGTCCCG
*
919455 AAGAACCACTATGTCCCG
1 AAGGACCACTATGTCCCG
919473 AAGGACCACTATGTCCCG
1 AAGGACCACTATGTCCCG
919491 AAGGACCACT
1 AAGGACCACT
919501 GATAATCCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (18 bp):
AAGGACCACTATGTCCCG
Found at i:920938 original size:3 final size:3
Alignment explanation
Indices: 920925--920962 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
920915 GTTCGAGTCT
920925 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
920963 CACTTTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:924258 original size:27 final size:27
Alignment explanation
Indices: 924228--924288 Score: 115
Period size: 26 Copynumber: 2.3 Consensus size: 27
924218 ATTTTGTTAT
924228 AATTATTAAAAAATTACAATAACATAA
1 AATTATTAAAAAATTACAATAACATAA
924255 AATTATT-AAAAATTACAATAACATAA
1 AATTATTAAAAAATTACAATAACATAA
924281 AATTATTA
1 AATTATTA
924289 TGAACAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
AATTATTAAAAAATTACAATAACATAA
Found at i:927167 original size:21 final size:22
Alignment explanation
Indices: 927143--927190 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
927133 ACAACCGAAC
*
927143 ATAAAATTTAA-AATTCGA-AAT
1 ATAAAATCTAATAATTC-ATAAT
927164 ATAAAATCTAATAATTCATAAT
1 ATAAAATCTAATAATTCATAAT
927186 ATAAA
1 ATAAA
927191 TAATCCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAAAATCTAATAATTCATAAT
Found at i:931839 original size:30 final size:30
Alignment explanation
Indices: 931803--931874 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
931793 TTCTCGACCG
931803 AACTAATTCGGTGGTCGAACGAATTAACCA
1 AACTAATTCGGTGGTCGAACGAATTAACCA
*
931833 AACTAATTCGGTGGTCGATCGAATTAACCA
1 AACTAATTCGGTGGTCGAACGAATTAACCA
*
931863 AACCAATTCGGT
1 AACTAATTCGGT
931875 TAAAACCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (30 bp):
AACTAATTCGGTGGTCGAACGAATTAACCA
Found at i:933494 original size:2 final size:2
Alignment explanation
Indices: 933487--933518 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
933477 TGTATGATTT
933487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
933519 GGGTTAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:934662 original size:59 final size:60
Alignment explanation
Indices: 934517--934662 Score: 142
Period size: 60 Copynumber: 2.5 Consensus size: 60
934507 AACACAATGA
* *
934517 ATAGTCGA-ATGATCATTTCATA-ACTTTTAATAGTCGAGGGACTTAAAAAAGCAATGTCCT
1 ATAGTCGAGA-GATCATTT-ATATACTTTTAATAGTCGAGGGACTCAAAAAAGCAATCTCCT
* * * *
934577 ATAGTC-AGGAGATCATTT-TGTAACTTTTAATAGTCG-GATGACTCAATAAAGTAATCT-CT
1 ATAGTCGA-GAGATCATTTATAT-ACTTTTAATAGTCGAG-GGACTCAAAAAAGCAATCTCCT
*
934636 ATAGTCGAGAGACCATTTATATACTTT
1 ATAGTCGAGAGATCATTTATATACTTT
934663 ACTCTTAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.34
60 45 0.63
61 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (60 bp):
ATAGTCGAGAGATCATTTATATACTTTTAATAGTCGAGGGACTCAAAAAAGCAATCTCCT
Found at i:934991 original size:21 final size:22
Alignment explanation
Indices: 934969--935026 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
934959 ACTGCGTTTA
934969 AAATATAAAAT-TATTTT-TTT
1 AAATATAAAATATATTTTATTT
*
934989 AAATCTCAAAATACTATTTTATTT
1 AAATAT-AAAATA-TATTTTATTT
935013 AAATATAAAGATAT
1 AAATATAAA-ATAT
935027 TGTTAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 5 0.16
23 10 0.32
24 11 0.35
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATATAAAATATATTTTATTT
Found at i:936472 original size:29 final size:29
Alignment explanation
Indices: 936417--936473 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
936407 ATACTCTCTC
*
936417 TATATTTTACACATTGTACTTTCAAATTT
1 TATATTTTACACATTGAACTTTCAAATTT
* * *
936446 TATATTTTACTCATTGAATTTTGAAATT
1 TATATTTTACACATTGAACTTTCAAATT
936474 GCTCATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (29 bp):
TATATTTTACACATTGAACTTTCAAATTT
Found at i:963760 original size:21 final size:21
Alignment explanation
Indices: 963736--963777 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
963726 AGTTTATTTT
963736 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
963757 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
963778 AACTTGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:963814 original size:33 final size:32
Alignment explanation
Indices: 963766--963842 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
963756 GTAAACTTTG
*
963766 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
*
963798 TTTGAATTTATCGAACTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
963831 TTTCAATTATCG
1 TTTCAATTATCG
963843 TAAACTTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:964847 original size:21 final size:21
Alignment explanation
Indices: 964822--964863 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
964812 CTTCCAAGTT
964822 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
964843 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
964864 AAAATAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:986586 original size:28 final size:28
Alignment explanation
Indices: 986555--986608 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
986545 ATCATATTGA
*
986555 ACAAAATCGACACAAA-ACAAAAACAACC
1 ACAAAATCAACACAAATA-AAAAACAACC
986583 ACAAAATCAACACAAATAAAAAACAA
1 ACAAAATCAACACAAATAAAAAACAA
986609 ATCAGAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.06
Consensus pattern (28 bp):
ACAAAATCAACACAAATAAAAAACAACC
Found at i:986946 original size:24 final size:24
Alignment explanation
Indices: 986919--986966 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
986909 AGTGTGTGGA
986919 ATAATAAGAAGGAAACATGCGTTT
1 ATAATAAGAAGGAAACATGCGTTT
* *
986943 ATAATAAGAAGGAAATATGTGTTT
1 ATAATAAGAAGGAAACATGCGTTT
986967 TTTCCTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAATAAGAAGGAAACATGCGTTT
Found at i:987664 original size:28 final size:28
Alignment explanation
Indices: 987632--987685 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
987622 ATCATATTGA
* *
987632 ACAAAGTCAACACAAATCAAAAACAACC
1 ACAAAATCAACACAAATAAAAAACAACC
987660 ACAAAATCAACACAAATAAAAAACAA
1 ACAAAATCAACACAAATAAAAAACAA
987686 ATCAGAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.67, C:0.24, G:0.02, T:0.07
Consensus pattern (28 bp):
ACAAAATCAACACAAATAAAAAACAACC
Found at i:988032 original size:24 final size:24
Alignment explanation
Indices: 988005--988052 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
987995 AATAATAAGA
988005 ATAATAAGAAGGAAACATGCGTTT
1 ATAATAAGAAGGAAACATGCGTTT
* *
988029 ATAATAAGAAGGAAATATGTGTTT
1 ATAATAAGAAGGAAACATGCGTTT
988053 TTCCTTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAATAAGAAGGAAACATGCGTTT
Found at i:989059 original size:23 final size:23
Alignment explanation
Indices: 989027--989078 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
989017 GTATGATACA
*
989027 TATGT-TATATGCATATATTATG
1 TATGTATATATGCATATATGATG
* *
989049 TATGTATATATGTATGTATGATG
1 TATGTATATATGCATATATGATG
*
989072 CATGTAT
1 TATGTAT
989079 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
TATGTATATATGCATATATGATG
Found at i:989073 original size:34 final size:35
Alignment explanation
Indices: 989003--989080 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
988993 TATTATAAAA
*
989003 ATATATTGATGTGTGTATGATACATATGTTATATGC
1 ATATATT-ATGTATGTATGATACATATGTTATATGC
**
989039 ATATATTATGTATGTAT-ATATGTATG-TATGATGC
1 ATATATTATGTATGTATGATACATATGTTAT-ATGC
*
989073 ATGTATTA
1 ATATATTA
989081 AAATTTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 18 0.49
35 9 0.24
36 7 0.19
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (35 bp):
ATATATTATGTATGTATGATACATATGTTATATGC
Found at i:989427 original size:16 final size:16
Alignment explanation
Indices: 989390--989428 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
989380 CGGATCATTT
*
989390 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
989406 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
*
989422 ATAGGTC
1 ACAGGTC
989429 GGGTAATACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:999063 original size:47 final size:47
Alignment explanation
Indices: 998982--999102 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
998972 TAAGATGTGT
* * * * * *
998982 ACTTTTAATGCAATGTAATATTATTTACGTACTTAGACAATATTTTA
1 ACTTTAAATGTAATGTAATACTAATTACGCACTTAAACAATATTTTA
* ** *
999029 ACTTTACATGTGTTGTAGTACTAATTACGCACTTAAACAATATTTTA
1 ACTTTAAATGTAATGTAATACTAATTACGCACTTAAACAATATTTTA
*
999076 GCTTTAAATGTAATGTAATACTAATTA
1 ACTTTAAATGTAATGTAATACTAATTA
999103 TGAACATCAA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (47 bp):
ACTTTAAATGTAATGTAATACTAATTACGCACTTAAACAATATTTTA
Found at i:999115 original size:47 final size:47
Alignment explanation
Indices: 998982--999122 Score: 129
Period size: 47 Copynumber: 3.0 Consensus size: 47
998972 TAAGATGTGT
* * * * * * *
998982 ACTTTTAATGCAATGTAATATTATTTACGTACTTAGACAATATTTTA
1 ACTTTAAATGTAATGTAATACTAATTACGAACATAAACAATATTTTA
* ** * * *
999029 ACTTTACATGTGTTGTAGTACTAATTACGCACTTAAACAATATTTTA
1 ACTTTAAATGTAATGTAATACTAATTACGAACATAAACAATATTTTA
* * *
999076 GCTTTAAATGTAATGTAATACTAATTATGAACATCAACAATAATTTT
1 ACTTTAAATGTAATGTAATACTAATTACGAACATAAACAAT-ATTTT
999123 GGTTTATTAT
Statistics
Matches: 74, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
47 69 0.93
48 5 0.07
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (47 bp):
ACTTTAAATGTAATGTAATACTAATTACGAACATAAACAATATTTTA
Found at i:1004790 original size:2 final size:2
Alignment explanation
Indices: 1004778--1004857 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
1004768 TTTGTATTAC
*
1004778 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1004820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1004858 GCATATGCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1006192 original size:4 final size:4
Alignment explanation
Indices: 1006173--1006375 Score: 58
Period size: 4 Copynumber: 46.5 Consensus size: 4
1006163 ACATAACGTC
* * * *
1006173 TTAT TTAT ATTTT TTAT TTAT TTCTT CTTAT TATAT ATAT TGTAGT TTTT
1 TTAT TTAT -TTAT TTAT TTAT TT-AT -TTAT T-TAT TTAT T-TA-T TTAT
* * *
1006223 TTATT TTAT TCTCT ATTAT TTAT TTA- TT-T TTAT TTTT TTGT TTAT GTT-T
1 TTA-T TTAT T-TAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
* *
1006272 TTAT TTGAT TTAAT TT-T CTTTT TCTATT TTATT TTACT TTGTT TTAT TTAT
1 TTAT TT-AT TT-AT TTAT -TTAT T-TA-T TTA-T TTA-T TT-AT TTAT TTAT
* *
1006323 TTGTT TTAT TTAT TTCAT TT-T CTT-T TTTT TTAT GTTAT TTAT GTTAT
1 TT-AT TTAT TTAT TT-AT TTAT -TTAT TTAT TTAT -TTAT TTAT -TTAT
1006370 TTAT TT
1 TTAT TT
1006376 TTCTTTTTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 50
0.68 0.09 0.22
Matches are distributed among these distances:
3 10 0.07
4 77 0.50
5 59 0.39
6 7 0.05
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:1006231 original size:5 final size:5
Alignment explanation
Indices: 1006221--1006376 Score: 55
Period size: 5 Copynumber: 32.8 Consensus size: 5
1006211 ATTGTAGTTT
* * * * *
1006221 TTTTA TTTTA TTCTC TATTA -TTTA -TTTA TTTTTA TTTT- TTTGT- TTATG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTTA
* * * * * *
1006269 TTTTTA TTTGA TTTAA TTTTC TTTT- TCT-A TTTTA TTTTA CTTTG TTTTA
1 TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * * *
1006318 -TTTA -TTTG TTTTA -TTTA TTTCA TTTTC TTTTT TTTTA TGTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
1006364 TGTTA -TTTA TTTT
1 TTTTA TTTTA TTTT
1006377 TCTTTTTTTT
Statistics
Matches: 110, Mismatches: 30, Indels: 22
0.68 0.19 0.14
Matches are distributed among these distances:
4 32 0.29
5 71 0.65
6 7 0.06
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1006302 original size:28 final size:25
Alignment explanation
Indices: 1006218--1006364 Score: 79
Period size: 27 Copynumber: 5.6 Consensus size: 25
1006208 TATATTGTAG
*
1006218 TTTT-TTTATTTTATTCTCTATTATTTA
1 TTTTATTTA-TTTATTTTCT-TT-TTTA
* * *
1006245 TTTATTTTTATTT-TTTTGTTTATGT-
1 TTT-TATTTATTTATTTTCTTT-TTTA
1006270 TTTTATTTGATTTAATTTTCTTTTTCTA
1 TTTTATTT-ATTT-ATTTTCTTTTT-TA
* * *
1006298 TTTTATTTTACTTTGTTTTATTTATTTG
1 TTTTA-TTTA-TTTATTTTCTTT-TTTA
1006326 TTTTATTTATTTCATTTTC-TTTTT-
1 TTTTATTTATTT-ATTTTCTTTTTTA
1006350 TTTTATGTTATTTAT
1 TTTTAT-TTATTTAT
1006365 GTTATTTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
24 12 0.12
25 16 0.16
26 11 0.11
27 23 0.24
28 23 0.24
29 12 0.12
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTTATTTATTTATTTTCTTTTTTA
Done.