Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 55
Found at i:8631980 original size:85 final size:84
Alignment explanation
Indices: 8631879--8632044 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 84
8631869 ATATAATCAC
* * ***
8631879 GACACACGAATGTGTGTCATCTT-TTCTAATGATGTTTGCTTCAATGACATGCAATGTA-AGTCA
1 GACACACAAATGTGTGTCATCTTATT-T-ATGACGGGGGCTTCAATGACATGCAATG-AGAGTCA
*
8631942 TAAATGCGTGTCATAAATTTAT
63 TAAATGCGCGTCATAAATTTAT
* * *
8631964 GACACACAAATGTGTGTCGTCTTCATTTATGACGGGGGCTTCAATGACGTGCAATGAGCGTCATA
1 GACACACAAATGTGTGTCATCTT-ATTTATGACGGGGGCTTCAATGACATGCAATGAGAGTCATA
8632029 AATGCGCGTCATAAAT
65 AATGCGCGTCATAAAT
8632045 GCGTGTCATA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 65 0.94
86 1 0.01
87 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (84 bp):
GACACACAAATGTGTGTCATCTTATTTATGACGGGGGCTTCAATGACATGCAATGAGAGTCATAA
ATGCGCGTCATAAATTTAT
Found at i:8632037 original size:13 final size:13
Alignment explanation
Indices: 8632016--8632070 Score: 92
Period size: 13 Copynumber: 4.2 Consensus size: 13
8632006 AATGACGTGC
*
8632016 AATGAGCGTCATA
1 AATGCGCGTCATA
8632029 AATGCGCGTCATA
1 AATGCGCGTCATA
*
8632042 AATGCGTGTCATA
1 AATGCGCGTCATA
8632055 AATGCGCGTCATA
1 AATGCGCGTCATA
8632068 AAT
1 AAT
8632071 TTATGACGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:8640180 original size:21 final size:21
Alignment explanation
Indices: 8640154--8640193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8640144 ACCCCTTTGA
*
8640154 AGGGGAATCGATTCCCCCCAC
1 AGGGGAATCGATACCCCCCAC
8640175 AGGGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
8640194 TGGGGTTCTG
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:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAATCGATACCCCCCAC
Found at i:8640245 original size:20 final size:20
Alignment explanation
Indices: 8640222--8640265 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
8640212 GGGGGTAGAA
8640222 CCTTTATTTTTGTTCAAAAC
1 CCTTTATTTTTGTTCAAAAC
8640242 CC-TTATTTTTGTTCAAAAC
1 CCTTTATTTTTGTTCAAAAC
8640261 CCTTT
1 CCTTT
8640266 TCTTCCTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (20 bp):
CCTTTATTTTTGTTCAAAAC
Found at i:8640606 original size:20 final size:20
Alignment explanation
Indices: 8640581--8640621 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8640571 GAATTTTTCC
8640581 AAAAAAAT-TTAAATTTTCAA
1 AAAAAAATGTT-AATTTTCAA
*
8640601 AAAAAAATGTTGATTTTCAA
1 AAAAAAATGTTAATTTTCAA
8640621 A
1 A
8640622 TTATTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAAATGTTAATTTTCAA
Found at i:8644661 original size:23 final size:23
Alignment explanation
Indices: 8644628--8644695 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
8644618 AATCTTATAT
8644628 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
8644651 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
8644674 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
8644696 AGCTGTGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:8645309 original size:25 final size:25
Alignment explanation
Indices: 8645252--8645302 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8645242 ATAAGTTTGT
8645252 AAACTTTTATGATGAAATAATATGA
1 AAACTTTTATGATGAAATAATATGA
8645277 AAACTTTTATGATGAAATAATATGA
1 AAACTTTTATGATGAAATAATATGA
8645302 A
1 A
8645303 GTTTTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (25 bp):
AAACTTTTATGATGAAATAATATGA
Found at i:8646866 original size:16 final size:18
Alignment explanation
Indices: 8646841--8646877 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
8646831 TAGAAAAGTT
8646841 AAAAGGATAAA-GA-ATG
1 AAAAGGATAAATGACATG
*
8646857 AAAAGTATAAATGACATG
1 AAAAGGATAAATGACATG
8646875 AAA
1 AAA
8646878 GTAATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAAGGATAAATGACATG
Found at i:8649790 original size:23 final size:23
Alignment explanation
Indices: 8649730--8649791 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
8649720 ACAATCTTAT
*
8649730 ATGGCACTTCGGTACAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* * *
8649753 ACGGCACTACAGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
8649776 ATGGCACTTCGGTGCA
1 ATGGCACTTCGGTGCA
8649792 TTTATACGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:8659615 original size:29 final size:27
Alignment explanation
Indices: 8659566--8659682 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 27
8659556 TCACATGCAC
*
8659566 AATCAGGACAGGAAT-ATAATCTCATGTCG
1 AATCAGGACA-GAATCA-AATCCCATG-CG
8659595 AATCAGGACGAGAATCAAATCCCATGC-
1 AATCAGGAC-AGAATCAAATCCCATGCG
8659622 AGATCA-GAC-GAATC-AATCCCCATGCAG
1 A-ATCAGGACAGAATCAAAT-CCCATGC-G
*
8659649 AATCAGGACGAGAATCAAATACCATGCAG
1 AATCAGGAC-AGAATCAAATCCCATGC-G
8659678 AATCA
1 AATCA
8659683 AGATTGCATC
Statistics
Matches: 76, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.04
25 12 0.16
26 4 0.05
27 8 0.11
28 5 0.07
29 39 0.51
30 5 0.07
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (27 bp):
AATCAGGACAGAATCAAATCCCATGCG
Found at i:8659635 original size:25 final size:27
Alignment explanation
Indices: 8659596--8659678 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 27
8659586 CTCATGTCGA
8659596 ATCAGGACGAGAATCAAATCCCATGCAG
1 ATCAGGAC-AGAATCAAATCCCATGCAG
8659624 ATCA-GAC-GAATC-AATCCCCATGCAG
1 ATCAGGACAGAATCAAAT-CCCATGCAG
*
8659649 AATCAGGACGAGAATCAAATACCATGCAG
1 -ATCAGGAC-AGAATCAAATCCCATGCAG
8659678 A
1 A
8659679 ATCAAGATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
24 3 0.06
25 14 0.29
26 4 0.08
27 6 0.12
28 5 0.10
29 13 0.27
30 3 0.06
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.14
Consensus pattern (27 bp):
ATCAGGACAGAATCAAATCCCATGCAG
Found at i:8660645 original size:12 final size:12
Alignment explanation
Indices: 8660628--8660740 Score: 58
Period size: 12 Copynumber: 9.3 Consensus size: 12
8660618 TTCAAAGATG
8660628 TTTTATATTTAA
1 TTTTATATTTAA
8660640 TTTTATA-TTATA
1 TTTTATATTTA-A
*
8660652 TTTGAT-TTTAA
1 TTTTATATTTAA
8660663 TTTTA-ATATTAA
1 TTTTATAT-TTAA
* **
8660675 TTTTTTAAATAA
1 TTTTATATTTAA
* *
8660687 ATTAATA-TTAA
1 TTTTATATTTAA
8660698 TTTT-TACTATTATA
1 TTTTATA-T-TTA-A
*
8660712 TTATATATATTAA
1 TTTTATAT-TTAA
8660725 TTTTA-ATATTAA
1 TTTTATAT-TTAA
8660737 TTTT
1 TTTT
8660741 TTAAATAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
10 2 0.03
11 14 0.18
12 42 0.54
13 9 0.12
14 9 0.12
15 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:8660731 original size:62 final size:59
Alignment explanation
Indices: 8660636--8660792 Score: 203
Period size: 62 Copynumber: 2.6 Consensus size: 59
8660626 TGTTTTATAT
8660636 TTAATTTTATATTATATT-TGAT-T-TTAATTTTAATATTAATTTTTTAAATAAATTAATA
1 TTAATTTTATATTATATTAT-ATATATTAATTTTAATATTAATTTTTTAAAT-AATTAATA
*
8660694 TTAATTTTTACTATTATATTATATATATTAATTTTAATATTAATTTTTTAAATAATTAATT
1 TTAA-TTTTA-TATTATATTATATATATTAATTTTAATATTAATTTTTTAAATAATTAATA
*
8660755 TTAAAATTTTAATATTATATTATAGATATTTAATTTTA
1 TT--AATTTT-ATATTATATTATATATA-TTAATTTTA
8660793 TATCATATAA
Statistics
Matches: 88, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
58 4 0.05
59 5 0.06
60 11 0.12
61 11 0.12
62 45 0.51
63 12 0.14
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (59 bp):
TTAATTTTATATTATATTATATATATTAATTTTAATATTAATTTTTTAAATAATTAATA
Found at i:8660786 original size:21 final size:22
Alignment explanation
Indices: 8660762--8660817 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
8660752 ATTTTAAAAT
8660762 TTTAATATTATAT-TATAGA-TA
1 TTTAATATTATATATATA-ATTA
*
8660783 TTTAATTTTATATCATATAATTA
1 TTTAATATTATAT-ATATAATTA
8660806 TTTATATATTAT
1 TTTA-ATATTAT
8660818 TAAAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 10 0.34
24 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTAATATTATATATATAATTA
Found at i:8660821 original size:62 final size:60
Alignment explanation
Indices: 8660638--8660827 Score: 194
Period size: 62 Copynumber: 3.1 Consensus size: 60
8660628 TTTTATATTT
* *
8660638 AATTTT-ATATTATATT-T-GAT-TTTAATTTTAATATTAATTTTTTAAATAAATTAATATTA
1 AATTTTAATATTATATTATAGATATTTAATTTTAATATTAATTTTTT--ATATATTAAT-TAA
* * * *
8660697 ATTTTTACTATTATATTATATATA-TTAATTTTAATATTAATTTTTTAAATAATTAATTTTAA
1 AATTTTAATATTATATTATAGATATTTAATTTTAATATTAATTTTTTATAT-ATTAA--TTAA
*
8660759 AATTTTAATATTATATTATAGATATTTAATTTTATATCATATAATTATTTATATATT-ATTAA
1 AATTTTAATATTATATTATAGATATTTAATTTTA-AT-AT-TAATTTTTTATATATTAATTAA
8660821 AATTTTA
1 AATTTTA
8660828 TGTTTATTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
59 5 0.05
60 11 0.10
61 6 0.06
62 58 0.53
63 10 0.09
64 3 0.03
65 5 0.05
66 11 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (60 bp):
AATTTTAATATTATATTATAGATATTTAATTTTAATATTAATTTTTTATATATTAATTAA
Found at i:8662155 original size:206 final size:203
Alignment explanation
Indices: 8661804--8662213 Score: 777
Period size: 206 Copynumber: 2.0 Consensus size: 203
8661794 AATAATATCT
8661804 ATAAAATAAGAACCAACAAAATAAAGGCTTAATGAAAATAAGTGACTGAAATATAATAGAAATTA
1 ATAAAATAAGAACCAACAAAATAAAGGCTTAATGAAAATAAGTGACTGAAATATAATAGAAATTA
8661869 ACTATTGAACATGTAATGGTATTTACCTAAGTCCAACAGTAGTCAAAGTAAGGGCAAAAACAAAA
66 ACTATTGAACATGTAATGGTATTTACCTAAGTCCAACAGTAGTCAAAGTAAGGGCAAAAACAAAA
8661934 GATTTTTAAATCTCATGGCAAAATTCCAGTATACACAAAAATATGATAATAAAATACAAAGTGAT
131 GATTTTTAAATCTCATGGCAAAATTCCAGTATACACAAAAATATGATAATAAAATACAAAGTGA-
8661999 C-AATCGTA
195 CAAATCGTA
8662007 ATAAAATAAGAACCAACAAAATAAAGGCTTAATGAAAAATAAGTGACTGAAATATAATAGAAATT
1 ATAAAATAAGAACCAACAAAATAAAGGCTTAATG-AAAATAAGTGACTGAAATATAATAGAAATT
8662072 AAACTATTGAACATGTAATGGTATTTACCCTAAGTCCAACAGTAGTCAAAGTAAGGGCAAAAACA
65 -AACTATTGAACATGTAATGGTATTTA-CCTAAGTCCAACAGTAGTCAAAGTAAGGGCAAAAACA
8662137 AAAGATTTTTAAATCTCATGGCAAAATTCCAGTATACACAAAAATATGATAATAAAATACAAAGT
128 AAAGATTTTTAAATCTCATGGCAAAATTCCAGTATACACAAAAATATGATAATAAAATACAAAGT
8662202 GACAAATCGTA
193 GACAAATCGTA
8662213 A
1 A
8662214 ATATATAAAA
Statistics
Matches: 203, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
203 34 0.17
204 30 0.15
205 27 0.13
206 112 0.55
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.24
Consensus pattern (203 bp):
ATAAAATAAGAACCAACAAAATAAAGGCTTAATGAAAATAAGTGACTGAAATATAATAGAAATTA
ACTATTGAACATGTAATGGTATTTACCTAAGTCCAACAGTAGTCAAAGTAAGGGCAAAAACAAAA
GATTTTTAAATCTCATGGCAAAATTCCAGTATACACAAAAATATGATAATAAAATACAAAGTGAC
AAATCGTA
Found at i:8663368 original size:46 final size:45
Alignment explanation
Indices: 8663306--8663413 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
8663296 ATGCACATAC
*
8663306 CATGCATCAATGCACTCAAGATT-TTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTC-AGATTATTATG-AAACATCGAATGCATTT
* * * * *
8663352 GATGTATCGATGCACTCTGGTTATTTTGAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGATTATTATGAAACATCGAATGCATTT
8663397 CATGCATCGATGCACTC
1 CATGCATCGATGCACTC
8663414 TTAGTGCACC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 35 0.66
46 18 0.34
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (45 bp):
CATGCATCGATGCACTCAGATTATTATGAAACATCGAATGCATTT
Found at i:8671886 original size:45 final size:47
Alignment explanation
Indices: 8671790--8671898 Score: 163
Period size: 45 Copynumber: 2.4 Consensus size: 47
8671780 TGTACCAATC
8671790 CATGCATCGATGCACTC-AGGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCTAGGATTTTATGAAAACATCGAATGCATTT
* *
8671836 GATGCATCGATGCACTCTA-GCTATTT-TG-AAACATCGAATGCATTT
1 CATGCATCGATGCACTCTAGGAT-TTTATGAAAACATCGAATGCATTT
8671881 CATGCATCGATGCACTCT
1 CATGCATCGATGCACTCT
8671899 TAGTGCACCG
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 34 0.59
46 20 0.34
47 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (47 bp):
CATGCATCGATGCACTCTAGGATTTTATGAAAACATCGAATGCATTT
Found at i:8673756 original size:39 final size:38
Alignment explanation
Indices: 8673709--8673783 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
8673699 TGGTTATCTA
* * *
8673709 GGGGTGACATGGCTCCTACGTGATGAGGAGGTCTGGTC
1 GGGGTGACACGGCTCATACGTGATGAAGAGGTCTGGTC
*
8673747 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGG
1 GGGG-TGACACGGCTCATACGTGATGAAGAGGTCTGG
8673784 CCATATTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 4 0.12
39 28 0.88
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (38 bp):
GGGGTGACACGGCTCATACGTGATGAAGAGGTCTGGTC
Found at i:8673862 original size:130 final size:131
Alignment explanation
Indices: 8673571--8673904 Score: 373
Period size: 130 Copynumber: 2.5 Consensus size: 131
8673561 AGAAGACTGG
* * * * * * * * *
8673571 TCTAAGGGTGACGCGACTCCTACATAATGAGAAGATCTAGTCGAGGGATGACACGGCTCATATGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCG-GGGATGACACGGCTCATACGT
* * * *
8673636 GATGAAGAGTTCTGGCTATCTTTAGGTATGGTGATAACACGGTTCTTACGCGACAAAGACGACTG
65 GATGAAGAGTTCTGGCCATATTTAGG--TGATGATAACACGGTTCTTACACGACAAAGACGACTG
8673701 GTTA
128 GTTA
*
8673705 TCTAGGGGTGACATGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGCTCATACGTG
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGCTCATACGTG
* * * * *
8673770 ATGAAGAGTTCTGGCCATATTTAGG-GATGATAACACGGTTTTTATATGACAATGACGGCTGGTT
66 ATGAAGAGTTCTGGCCATATTTAGGTGATGATAACACGGTTCTTACACGACAAAGACGACTGGTT
8673834 A
131 A
** * * * * * **
8673835 TCTTTGGTTGACACGGCTTCTACGTGATGAGGAGGTCTGGTTAGGGGATGATATGATTCATACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGG-TCGGGGATGACACGGCTCATACGT
8673900 GATGA
65 GATGA
8673905 GGATGGCTGG
Statistics
Matches: 170, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
130 68 0.40
131 24 0.14
133 44 0.26
134 34 0.20
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (131 bp):
TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGCTCATACGTG
ATGAAGAGTTCTGGCCATATTTAGGTGATGATAACACGGTTCTTACACGACAAAGACGACTGGTT
A
Found at i:8674859 original size:33 final size:34
Alignment explanation
Indices: 8674772--8674870 Score: 103
Period size: 33 Copynumber: 2.9 Consensus size: 34
8674762 TATCTCAGAG
* *
8674772 AAAAATGTCTCAAGCGAGACAAAATTTATTTTGAGA
1 AAAAATGTCTAAAGCGAGACAAAA-TT-TTGTGAGA
* *
8674808 AAAATTGTCTCAAA-CGAGACAAAACTTTGTG-GA
1 AAAAATGTCT-AAAGCGAGACAAAATTTTGTGAGA
* *
8674841 AAAAATATCTAAAGCGAGACAGAATTTTGT
1 AAAAATGTCTAAAGCGAGACAAAATTTTGT
8674871 TTCAAGAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.06
33 24 0.45
34 4 0.08
35 1 0.02
36 19 0.36
37 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (34 bp):
AAAAATGTCTAAAGCGAGACAAAATTTTGTGAGA
Found at i:8675207 original size:14 final size:15
Alignment explanation
Indices: 8675181--8675213 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8675171 TGCAAATTTC
8675181 ATGTGTCATGTATGT
1 ATGTGTCATGTATGT
8675196 ATGTGT-ATGTATGT
1 ATGTGTCATGTATGT
8675210 ATGT
1 ATGT
8675214 ATGTTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.48
Consensus pattern (15 bp):
ATGTGTCATGTATGT
Found at i:8675226 original size:18 final size:18
Alignment explanation
Indices: 8675188--8675226 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8675178 TTCATGTGTC
*
8675188 ATGTATGTATGTGTATGT
1 ATGTATGTATGTGTATAT
8675206 ATGTATGTATGT-TGATAT
1 ATGTATGTATGTGT-ATAT
8675224 ATG
1 ATG
8675227 AGGGGAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (18 bp):
ATGTATGTATGTGTATAT
Found at i:8680015 original size:17 final size:17
Alignment explanation
Indices: 8679993--8680026 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8679983 AAAAACGTCT
*
8679993 TTTAAAATAATTTTAAG
1 TTTAAAACAATTTTAAG
8680010 TTTAAAACAATTTTAAG
1 TTTAAAACAATTTTAAG
8680027 GAAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTAAAACAATTTTAAG
Found at i:8684574 original size:2 final size:2
Alignment explanation
Indices: 8684567--8684600 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8684557 ATTATTGATA
8684567 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
8684601 TACAAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8689113 original size:21 final size:20
Alignment explanation
Indices: 8689027--8689184 Score: 79
Period size: 21 Copynumber: 7.8 Consensus size: 20
8689017 AAATGACCAA
**
8689027 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
8689046 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
8689066 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
8689086 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
8689107 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* * **
8689128 CAAATTTGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
8689148 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
8689170 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
8689185 ACACATAAAT
Statistics
Matches: 103, Mismatches: 29, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
19 17 0.17
20 40 0.39
21 42 0.41
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:8689175 original size:20 final size:19
Alignment explanation
Indices: 8689149--8689203 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
8689139 TGCGATTTTC
*
8689149 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
*
8689168 TTAAAATCGCAACGCGAACA
1 -CAAAATCGCAACGCGAACA
8689188 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
8689204 TATCCGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:8689213 original size:20 final size:20
Alignment explanation
Indices: 8689171--8689380 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
8689161 GCGAATATTA
* *
8689171 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
8689191 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8689211 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
8689231 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
8689251 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8689271 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
8689291 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
8689311 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
8689331 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
8689351 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
8689371 AAATCACAAC
1 AAATCGCAAC
8689381 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 159 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:8690101 original size:24 final size:24
Alignment explanation
Indices: 8690062--8690108 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8690052 AAATTTGGTC
8690062 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
8690086 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
8690109 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:8692604 original size:31 final size:32
Alignment explanation
Indices: 8692554--8692689 Score: 163
Period size: 31 Copynumber: 4.2 Consensus size: 32
8692544 CGGAAATTAC
*
8692554 AATCGCAACGAGAGAATCGC-ATGCGAAATG-A
1 AATCGCAAC-AGAAAATCGCAATGCGAAATGAA
*
8692585 AATCCCAACATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACA-GAAAATCGCAATGCGAAATGAA
* *
8692618 AATCGCAACGAGAGAATCCCAATGCGAAATGAA
1 AATCGCAAC-AGAAAATCGCAATGCGAAATGAA
*
8692651 AATCGCAAC-GAGAGATCGC-ATGCGAAATGAA
1 AATCGCAACAGA-AAATCGCAATGCGAAATGAA
8692682 AATCGCAA
1 AATCGCAA
8692690 TGCGAAATGA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
30 1 0.01
31 38 0.41
32 14 0.15
33 38 0.41
34 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (32 bp):
AATCGCAACAGAAAATCGCAATGCGAAATGAA
Found at i:8692616 original size:19 final size:19
Alignment explanation
Indices: 8692594--8692778 Score: 208
Period size: 19 Copynumber: 10.7 Consensus size: 19
8692584 AAATCCCAAC
8692594 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692613 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
* *
8692628 A-GAGAATCCCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692646 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
8692661 A-G-AGATCGC-ATGCGAA
1 ATGAAAATCGCAATGCGAA
8692677 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692696 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
8692711 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692729 ATG-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692747 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
8692766 ATGAAAATCGCAA
1 ATGAAAATCGCAA
8692779 CGAGAGAATC
Statistics
Matches: 140, Mismatches: 8, Indels: 36
0.76 0.04 0.20
Matches are distributed among these distances:
12 1 0.01
13 6 0.04
14 22 0.16
15 3 0.02
16 5 0.04
17 7 0.05
18 25 0.18
19 71 0.51
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:8692641 original size:33 final size:32
Alignment explanation
Indices: 8692554--8692689 Score: 197
Period size: 33 Copynumber: 4.2 Consensus size: 32
8692544 CGGAAATTAC
8692554 AATCGCAACGAGAGAATCGCATGCGAAATG-A
1 AATCGCAACGAGAGAATCGCATGCGAAATGAA
* *
8692585 AATCCCAAC-ATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGA-GAGAATCGC-ATGCGAAATGAA
*
8692618 AATCGCAACGAGAGAATCCCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGC-ATGCGAAATGAA
8692651 AATCGCAACGAGAG-ATCGCATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCATGCGAAATGAA
8692682 AATCGCAA
1 AATCGCAA
8692690 TGCGAAATGA
Statistics
Matches: 95, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
30 1 0.01
31 36 0.38
32 14 0.15
33 43 0.45
34 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (32 bp):
AATCGCAACGAGAGAATCGCATGCGAAATGAA
Found at i:8692674 original size:64 final size:64
Alignment explanation
Indices: 8692554--8692689 Score: 197
Period size: 64 Copynumber: 2.1 Consensus size: 64
8692544 CGGAAATTAC
*
8692554 AATCGCAACGAGAGAATCGCATGCGAAATGAAATCCCAACATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCCCATGCGAAATGAAATCCCAACATGAAAATCGCAATGCGAAATGAA
* *
8692618 AATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAAC--GAGAGATCGC-ATGCGAAATG
1 AATCGCAACGAGAGAATCCC-ATGCGAAATG-AAATCCCAACATGA-AAATCGCAATGCGAAATG
8692680 AA
63 AA
8692682 AATCGCAA
1 AATCGCAA
8692690 TGCGAAATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
64 41 0.62
65 16 0.24
66 9 0.14
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (64 bp):
AATCGCAACGAGAGAATCCCATGCGAAATGAAATCCCAACATGAAAATCGCAATGCGAAATGAA
Found at i:8692691 original size:83 final size:87
Alignment explanation
Indices: 8692594--8692778 Score: 290
Period size: 83 Copynumber: 2.1 Consensus size: 87
8692584 AAATCCCAAC
8692594 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCCCAATGCGAAATG-AAATCGCAA
*
8692659 -CG-A-G-AGATCGC-ATGCGAA
65 GCGAATGAAAATCGCAATGCGAA
*
8692677 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAATCGCAA-
8692742 GCGAAATGAAAATCGCAATGCGAA
65 GCG-AATGAAAATCGCAATGCGAA
8692766 ATGAAAATCGCAA
1 ATGAAAATCGCAA
8692779 CGAGAGAATC
Statistics
Matches: 93, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
82 9 0.10
83 54 0.58
84 2 0.02
86 1 0.01
87 1 0.01
88 6 0.06
89 20 0.22
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (87 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAATCGCAAG
CGAATGAAAATCGCAATGCGAA
Found at i:8692720 original size:33 final size:33
Alignment explanation
Indices: 8692682--8692800 Score: 177
Period size: 33 Copynumber: 3.5 Consensus size: 33
8692672 GCGAAATGAA
8692682 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
8692715 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
8692752 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
8692785 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
8692801 TATAAACGCA
Statistics
Matches: 78, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
32 9 0.12
33 35 0.45
34 3 0.04
36 3 0.04
37 19 0.24
38 9 0.12
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:8692758 original size:70 final size:69
Alignment explanation
Indices: 8692665--8692800 Score: 263
Period size: 70 Copynumber: 2.0 Consensus size: 69
8692655 GCAACGAGAG
8692665 ATCGCATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1 ATCGCATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
8692730 TGAA
66 TGAA
8692734 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATCGC-ATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
8692799 AT
65 AT
8692801 TATAAACGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 5 0.08
70 61 0.92
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (69 bp):
ATCGCATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
TGAA
Found at i:8692919 original size:52 final size:53
Alignment explanation
Indices: 8692807--8692922 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
8692797 AAATTATAAA
8692807 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
8692860 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
8692912 CGCATTGCGAT
1 CGCATTGCGAT
8692923 AGTCATTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:8692930 original size:19 final size:19
Alignment explanation
Indices: 8692825--8692922 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
8692815 GATTCTCTCG
8692825 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
8692845 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8692864 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8692878 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8692897 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8692916 TTGCGAT
1 TTGCGAT
8692923 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8693052 original size:14 final size:14
Alignment explanation
Indices: 8693025--8693060 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8693015 CATCAATTAC
8693025 ACAAATCA-CTTTT
1 ACAAATCATCTTTT
8693038 ACAAATCATCTTTT
1 ACAAATCATCTTTT
8693052 ACAAATCAT
1 ACAAATCAT
8693061 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (14 bp):
ACAAATCATCTTTT
Found at i:8694855 original size:20 final size:19
Alignment explanation
Indices: 8694830--8694894 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
8694820 TAGTTTACTT
*
8694830 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
8694850 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
8694868 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
8694887 TCGCAACG
1 TCGCAACG
8694895 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:8694889 original size:19 final size:19
Alignment explanation
Indices: 8694830--8694963 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
8694820 TAGTTTACTT
* *
8694830 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
8694850 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
8694868 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
8694887 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
8694901 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
8694920 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
8694934 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
8694953 TCGCAATGCGA
1 TCGCAACGCGA
8694964 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:8694904 original size:14 final size:14
Alignment explanation
Indices: 8694885--8694941 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8694875 GCGAAATGAA
*
8694885 AATCGCAACGACAG
1 AATCGCAACGAAAG
8694899 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
8694916 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
8694932 AATCGCAACG
1 AATCGCAACG
8694942 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:8694912 original size:33 final size:33
Alignment explanation
Indices: 8694830--8694958 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
8694820 TAGTTTACTT
* * *
8694830 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
8694868 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
8694901 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
8694934 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
8694959 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:8694975 original size:19 final size:19
Alignment explanation
Indices: 8694959--8695087 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
8694949 AAAATCGCAA
8694959 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
8694978 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
8694992 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
8695011 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
** *
8695025 TGCGATTTTCATTTCGCAT
1 TGCGATTTTGGTTTCGCGT
8695044 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
8695063 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
8695083 TGCGA
1 TGCGA
8695088 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:8695001 original size:33 final size:33
Alignment explanation
Indices: 8694959--8695050 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
8694949 AAAATCGCAA
8694959 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
8694992 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
8695025 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
8695051 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:8695404 original size:93 final size:93
Alignment explanation
Indices: 8695135--8695509 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
8695125 ATGGATTGCA
8695135 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
8695199 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
8695227 TTACTTTCAACCAAAAGA-AAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
8695291 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
8695319 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACATAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
8695384 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
8695412 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
8695477 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
8695505 TTACT
1 TTACT
8695510 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 96 0.35
93 182 0.65
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:8697224 original size:19 final size:19
Alignment explanation
Indices: 8697200--8697283 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
8697190 GCAACGAGAG
*
8697200 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
8697219 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
8697238 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
8697252 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
8697271 AATCGCAATGCGA
1 AATCGCAACGCGA
8697284 TTTTGGTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.71
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:8697240 original size:52 final size:52
Alignment explanation
Indices: 8697178--8697283 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
8697168 TCTTTTGGTT
*
8697178 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGACAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
*
8697230 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
8697282 GA
1 GA
8697284 TTTTGGTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (52 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:8697359 original size:41 final size:41
Alignment explanation
Indices: 8697302--8697379 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
8697292 TCGCGTTGCG
*
8697302 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
8697343 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
8697380 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:8697364 original size:20 final size:21
Alignment explanation
Indices: 8697303--8697378 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
8697293 CGCGTTGCGA
8697303 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
8697324 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
8697344 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
8697365 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
8697379 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:8697498 original size:33 final size:33
Alignment explanation
Indices: 8697456--8697526 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
8697446 AATACTAACT
*
8697456 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
8697489 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
8697522 TGAAA
1 TGAAA
8697527 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:8697758 original size:22 final size:22
Alignment explanation
Indices: 8697706--8697759 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
8697696 ATGGTTGTGA
**
8697706 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
8697728 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
8697750 GGATTTCTTC
1 GGATTTCTTC
8697760 CCCGTAGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:8697932 original size:20 final size:20
Alignment explanation
Indices: 8697907--8698100 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
8697897 CTTTAAATAT
8697907 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
8697927 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
8697949 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
8697968 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
8697988 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
8698008 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
8698028 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
8698048 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
8698068 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
8698088 CGCGTTGCGATTT
1 CGCGTTGCGATTT
8698101 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:8698094 original size:60 final size:60
Alignment explanation
Indices: 8697907--8698100 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
8697897 CTTTAAATAT
**
8697907 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
8697968 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
8698028 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
8698088 CGCGTTGCGATTT
1 CGCGTTGCGATTT
8698101 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:8698117 original size:21 final size:21
Alignment explanation
Indices: 8698087--8698169 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
8698077 ATTTTCATAT
*
8698087 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
8698108 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
8698129 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
8698150 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
8698170 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:8698160 original size:42 final size:43
Alignment explanation
Indices: 8698067--8698165 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
8698057 ATTTATGTGT
* *
8698067 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
8698108 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
8698150 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
8698166 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:8708048 original size:22 final size:22
Alignment explanation
Indices: 8708023--8708074 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
8708013 CAATTCATTT
*
8708023 TCTTCTCTTTTTTATCTTATTC
1 TCTTCTCTTCTTTATCTTATTC
* *
8708045 TCTTCTATTCTTTATCTTCTTC
1 TCTTCTCTTCTTTATCTTATTC
8708067 TCTTCTCT
1 TCTTCTCT
8708075 AATGTGAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (22 bp):
TCTTCTCTTCTTTATCTTATTC
Found at i:8708628 original size:20 final size:20
Alignment explanation
Indices: 8708603--8708647 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
8708593 GTAAGGGTAC
8708603 CGATACCTCAAGGGATGTAT
1 CGATACCTCAAGGGATGTAT
*
8708623 CGATACCTCAAGGGGTGTAT
1 CGATACCTCAAGGGATGTAT
8708643 CGATA
1 CGATA
8708648 ACCCCTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
CGATACCTCAAGGGATGTAT
Found at i:8709056 original size:10 final size:12
Alignment explanation
Indices: 8709030--8709057 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8709020 TGTCTACGCG
8709030 ATATAAGAAGTT
1 ATATAAGAAGTT
8709042 ATATAAGAAGTT
1 ATATAAGAAGTT
8709054 ATAT
1 ATAT
8709058 GTCTACGCGA
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:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
ATATAAGAAGTT
Found at i:8716679 original size:3 final size:3
Alignment explanation
Indices: 8716628--8716659 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8716618 TGAATAGAAA
8716628 AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8716660 TCATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8718543 original size:40 final size:40
Alignment explanation
Indices: 8718499--8718580 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
8718489 AGTTCTCTAT
*
8718499 TTGAAATTATTAATTACTCATTTTGATCGTATATAAAGGC
1 TTGAAATTATTAATTACTCATTTTGATCATATATAAAGGC
*
8718539 TTGAAATTATTAATTACTCATTTTGATTATATATAAAGGC
1 TTGAAATTATTAATTACTCATTTTGATCATATATAAAGGC
8718579 TT
1 TT
8718581 AATTAAGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (40 bp):
TTGAAATTATTAATTACTCATTTTGATCATATATAAAGGC
Found at i:8718979 original size:21 final size:21
Alignment explanation
Indices: 8718953--8718997 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
8718943 TTTAAAATAT
8718953 TAAAAA-AATTAATATTTTAAA
1 TAAAAATAA-TAATATTTTAAA
8718974 TAAAAATAATAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
8718995 TAA
1 TAA
8718998 TTTTTTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:8720296 original size:21 final size:20
Alignment explanation
Indices: 8720263--8720301 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8720253 ATGGGAACTC
* *
8720263 AAAAATTTGAGTCGACTCGA
1 AAAAATTTAAGTCAACTCGA
8720283 AAAAATTTCAAGTCAACTC
1 AAAAATTT-AAGTCAACTC
8720302 CGAGTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
AAAAATTTAAGTCAACTCGA
Found at i:8731072 original size:18 final size:18
Alignment explanation
Indices: 8731049--8731090 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
8731039 GAAAATTGAT
8731049 CCAACATGATTTCAACGG
1 CCAACATGATTTCAACGG
8731067 CCAACATGATTTCAACGG
1 CCAACATGATTTCAACGG
8731085 CCAACA
1 CCAACA
8731091 GCAACAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (18 bp):
CCAACATGATTTCAACGG
Found at i:8735247 original size:23 final size:23
Alignment explanation
Indices: 8735221--8735298 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
8735211 CACCACAGCT
8735221 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
8735244 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
8735267 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
8735290 TATAATAAT
1 CAT-ATAAT
8735299 GTCCATAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:8735478 original size:103 final size:103
Alignment explanation
Indices: 8735309--8735522 Score: 383
Period size: 103 Copynumber: 2.1 Consensus size: 103
8735299 GTCCATAAGT
* ** *
8735309 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCAAACT
8735374 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
*
8735412 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGTCTCACCAAACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCAAACT
8735477 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
8735515 ACCACATA
1 ACCACATA
8735523 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCAAACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
Found at i:8748439 original size:23 final size:23
Alignment explanation
Indices: 8748413--8748473 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
8748403 CACCACAACT
8748413 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
8748436 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
8748459 CGTAGAATTGCACCG
1 CATATAATTGCACCG
8748474 TAGTACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:8748676 original size:103 final size:103
Alignment explanation
Indices: 8748497--8748714 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
8748487 TAATGCCCAT
* * *
8748497 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
8748562 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
8748600 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAATATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
*
8748665 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
8748703 AATGACCACATA
1 AAGGACCACATA
8748715 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:8752557 original size:22 final size:22
Alignment explanation
Indices: 8752529--8752571 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8752519 TGTCAAATGA
8752529 TTAAGAGTTGTCTTGGAACATG
1 TTAAGAGTTGTCTTGGAACATG
8752551 TTAAGAGTTGTCTTGGAACAT
1 TTAAGAGTTGTCTTGGAACAT
8752572 ATGCATTGTA
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:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (22 bp):
TTAAGAGTTGTCTTGGAACATG
Found at i:8753375 original size:152 final size:153
Alignment explanation
Indices: 8753032--8753435 Score: 558
Period size: 152 Copynumber: 2.7 Consensus size: 153
8753022 CATGTTTACT
8753032 TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAA-TTAGTCCTTC-A-TTTTCATAATCT
1 TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCT
* * * ** *
8753094 CCTTATTTCTTCAATTCGTCATTTA-GTCACCTTTTTTACCAAATTTGAGTCACATGCTCCTAAA
66 CCTTATTTCTTCAATTTGTCATTTATTTTAAGTTTTTTACCAAATTTGAGCCACATGCTCCTAAA
* *
8753158 CCATAGTAGAATACATGTATACT
131 CCATAGTAGAATACATATATACA
*
8753181 TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCCTAATCT
1 TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCT
* *
8753246 CCCTATTTCTTCAATTTGTCATTTATTTTAAGTTATTTTAACCAAATTTGAGCCGCATGCTCCTA
66 CCTTATTTCTTCAATTTGTCATTTATTTTAAGTT-TTTT-ACCAAATTTGAGCCACATGCTCCTA
8753311 AACCATAGTA-AATACATATGA-ACA
129 AACCATAGTAGAATACATAT-ATACA
* * *
8753335 TTCAATTCCTCTTTTAGATAAC-AATTTTT-TATTTCAATTTAGTCATTCAATTTTT-ATAATCT
1 TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCT
*
8753397 CCTTA-TTCATTCAATTTGTCATTCATTTTAAGTTGTTTT
66 CCTTATTTC-TTCAATTTGTCATTTATTTTAAGTT-TTTT
8753436 TTTACCAAAT
Statistics
Matches: 229, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
149 39 0.17
150 13 0.06
151 39 0.17
152 58 0.25
153 11 0.05
154 35 0.15
155 34 0.15
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (153 bp):
TTCAATTCCTCTTTTTGATAACAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCT
CCTTATTTCTTCAATTTGTCATTTATTTTAAGTTTTTTACCAAATTTGAGCCACATGCTCCTAAA
CCATAGTAGAATACATATATACA
Found at i:8754028 original size:15 final size:15
Alignment explanation
Indices: 8754005--8754036 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8753995 GGCTTCATTG
8754005 ACTGCTCTTCTACTA
1 ACTGCTCTTCTACTA
*
8754020 ACTGTTCTTCTACTA
1 ACTGCTCTTCTACTA
8754035 AC
1 AC
8754037 CTGCCTAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (15 bp):
ACTGCTCTTCTACTA
Found at i:8755606 original size:15 final size:16
Alignment explanation
Indices: 8755586--8755619 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8755576 CTAATGAAAA
8755586 TAAAATACT-AACTCT
1 TAAAATACTCAACTCT
*
8755601 TAAAATATTCAACTCT
1 TAAAATACTCAACTCT
8755617 TAA
1 TAA
8755620 TTCTAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATACTCAACTCT
Found at i:8763714 original size:100 final size:100
Alignment explanation
Indices: 8763541--8763745 Score: 392
Period size: 100 Copynumber: 2.0 Consensus size: 100
8763531 GAAAAAATAA
8763541 ATGTCGTGAGGATATTTGTAGAAGCACCAACACAGCCTCATAATTATGCGAAAAACTTACCGAAA
1 ATGTCGTGAGGATATTTGTAGAAGCACCAACACAGCCTCATAATTATGCGAAAAACTTACCGAAA
*
8763606 ACCATAAGAAACGGACCATGAGAGCTGCGAAAAAT
66 ACCATAAGAAACGGACCACGAGAGCTGCGAAAAAT
8763641 ATGTCGTGAGGATATTTGTAGAAGCACCAACACAGCCTCATAATTATGCGAAAAACTTACCGAAA
1 ATGTCGTGAGGATATTTGTAGAAGCACCAACACAGCCTCATAATTATGCGAAAAACTTACCGAAA
8763706 ACCATAAGAAACGGACCACGAGAGCTGCGAAAAAT
66 ACCATAAGAAACGGACCACGAGAGCTGCGAAAAAT
*
8763741 GTGTC
1 ATGTC
8763746 ACAAGGATAA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (100 bp):
ATGTCGTGAGGATATTTGTAGAAGCACCAACACAGCCTCATAATTATGCGAAAAACTTACCGAAA
ACCATAAGAAACGGACCACGAGAGCTGCGAAAAAT
Found at i:8764334 original size:20 final size:20
Alignment explanation
Indices: 8764309--8764346 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8764299 TTAGCTTAAA
8764309 ATATTTTTTGGAAAATATAG
1 ATATTTTTTGGAAAATATAG
8764329 ATATTTTTTGGAAAATAT
1 ATATTTTTTGGAAAATAT
8764347 TTTTCGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (20 bp):
ATATTTTTTGGAAAATATAG
Found at i:8764643 original size:22 final size:23
Alignment explanation
Indices: 8764607--8764654 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
8764597 GAAATAAATG
*
8764607 TATTATAAATTATATTAATTAT-T
1 TATTATAAATAATATT-ATTATAT
8764630 TATTA-AAATAATATTATTATAT
1 TATTATAAATAATATTATTATAT
8764652 TAT
1 TAT
8764655 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTATAAATAATATTATTATAT
Found at i:8764669 original size:25 final size:25
Alignment explanation
Indices: 8764619--8764686 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
8764609 TTATAAATTA
8764619 TATTAATTAT-TTATTAAAATAATAT
1 TATTAATTATATT-TTAAAATAATAT
*
8764644 TATTATATTATATTTTAAAA-AGTAT
1 TATTA-ATTATATTTTAAAATAATAT
*
8764669 TAATTGA-TATATTTTAAA
1 T-ATTAATTATATTTTAAA
8764687 TATCTTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 11 0.29
25 11 0.29
26 14 0.37
27 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
TATTAATTATATTTTAAAATAATAT
Found at i:8774968 original size:20 final size:20
Alignment explanation
Indices: 8774929--8774968 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8774919 TTAATATAAA
* **
8774929 TTAATTATTTAATTTTTATT
1 TTAATCATTTAATTAATATT
8774949 TTAATCATTTAATTAATATT
1 TTAATCATTTAATTAATATT
8774969 CTAGCACAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAATCATTTAATTAATATT
Found at i:8781689 original size:138 final size:134
Alignment explanation
Indices: 8781495--8781766 Score: 499
Period size: 138 Copynumber: 2.0 Consensus size: 134
8781485 AAATATTAGT
8781495 TCTACAATCTCCCATTTTGATATAACAAAACCTTGAGAATAGTTTTTGGCAAAAGCTCCTCCCCC
1 TCTACAATCTCCCATTTTGATATAACAAAACCTTGAGAATAGTTTTTGGCAAAAGCTCCTCCCCC
8781560 TTGAAAACATTTAATGAAAAAGAGAAATATTTTAAAAAATATTAAAGACATTAAATTTCAACAAA
66 TTGAAAACATTTAATGAAAAAGAGAAATATTTTAAAAAATATTAAAGACATTAAATTTCAACAAA
8781625 GATG
131 GATG
*
8781629 TCTACAATCTCCCCCTTTTTGATATAACAAAACCTTTGAGAAATAGTTTTTGGCAAAAGCTCCTC
1 TCTACAATCT--CCCATTTTGATATAACAAAACC-TTGAG-AATAGTTTTTGGCAAAAGCTCCTC
8781694 CCCCTTGAAAACATTTAATGAAAAAGAGAAATATTTTAAAAAATATTAAAGACATTAAATTTCAA
62 CCCCTTGAAAACATTTAATGAAAAAGAGAAATATTTTAAAAAATATTAAAGACATTAAATTTCAA
8781759 CAAAGATG
127 CAAAGATG
8781767 AACAAACATG
Statistics
Matches: 133, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
134 10 0.08
136 21 0.16
137 5 0.04
138 97 0.73
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (134 bp):
TCTACAATCTCCCATTTTGATATAACAAAACCTTGAGAATAGTTTTTGGCAAAAGCTCCTCCCCC
TTGAAAACATTTAATGAAAAAGAGAAATATTTTAAAAAATATTAAAGACATTAAATTTCAACAAA
GATG
Found at i:8784396 original size:31 final size:31
Alignment explanation
Indices: 8784329--8784482 Score: 258
Period size: 31 Copynumber: 5.0 Consensus size: 31
8784319 AGAGTCAGGG
8784329 TTACCTATGTTCTTCGGGACATAT-GACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
8784359 TTACCTATGTTCTTCGGGACATATGGACTAA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
8784390 TTACCTATGTTCTTCAGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
8784421 TTACTTATGTTCTTCGGGACAT-TGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
8784451 TTACCTATGTTCTTCGGAACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
8784482 T
1 T
8784483 CCTTCGGGAT
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.45
31 63 0.55
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:8784403 original size:61 final size:61
Alignment explanation
Indices: 8784329--8784482 Score: 256
Period size: 61 Copynumber: 2.5 Consensus size: 61
8784319 AGAGTCAGGG
8784329 TTACCTATGTTCTTCGGGACATAT-GACTGATTACCTATGTTCTTCGGGACATATGGACTAA
1 TTACCTATGTTCTTCGGGACATATGGACTGATTACCTATGTTCTTCGGGACAT-TGGACTAA
* * *
8784390 TTACCTATGTTCTTCAGGACATATGGACTGATTACTTATGTTCTTCGGGACATTGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGATTACCTATGTTCTTCGGGACATTGGACTAA
*
8784451 TTACCTATGTTCTTCGGAACATATGGACTGAT
1 TTACCTATGTTCTTCGGGACATATGGACTGAT
8784483 CCTTCGGGAT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 60 0.69
62 27 0.31
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (61 bp):
TTACCTATGTTCTTCGGGACATATGGACTGATTACCTATGTTCTTCGGGACATTGGACTAA
Found at i:8787268 original size:16 final size:17
Alignment explanation
Indices: 8787236--8787269 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8787226 CACATAGTTC
*
8787236 TTGTTTCAGTTTCTTTT
1 TTGTTTCAGTCTCTTTT
8787253 TTGTTTCA-TCTCTTTT
1 TTGTTTCAGTCTCTTTT
8787269 T
1 T
8787270 AATGATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.15, G:0.09, T:0.71
Consensus pattern (17 bp):
TTGTTTCAGTCTCTTTT
Found at i:8791605 original size:2 final size:2
Alignment explanation
Indices: 8791598--8791625 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8791588 TAAAAAGATA
8791598 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
8791626 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8792245 original size:3 final size:3
Alignment explanation
Indices: 8792237--8792269 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8792227 AATATATGAC
8792237 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8792270 TAAAGTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8792729 original size:22 final size:22
Alignment explanation
Indices: 8792702--8792773 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
8792692 AACTATTTAT
*
8792702 TATATTTTAAAATATTAAATGA
1 TATATTTTAAAATATTAAATAA
8792724 TATATTTTAATAATA-TAAA-AA
1 TATATTTTAA-AATATTAAATAA
*
8792745 TAAATTCTTAAAATATTAAATTAA
1 TATATT-TTAAAATATTAAA-TAA
8792769 TATAT
1 TATAT
8792774 ATAAACGATC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 10 0.24
22 22 0.52
23 4 0.10
24 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (22 bp):
TATATTTTAAAATATTAAATAA
Found at i:8793003 original size:229 final size:227
Alignment explanation
Indices: 8792550--8793005 Score: 684
Period size: 229 Copynumber: 2.0 Consensus size: 227
8792540 TTGGCTGCTC
*
8792550 CGATCTCGACTAAAATATATACTTAAAATTTGACTCCGTTACATCTTGATAAATTTTAGGTTTTT
1 CGATCTCGACTAAAAAATATACTTAAAATTTGACTCCGTTACATCTTGATAAATTTTAGGTTTTT
*
8792615 TGCTGTTGAATCCGTCTCCATTTTTGGGCTAAACTTAACCTGACCTTTGAATTTAATATTTTTAA
66 TGCTGTTGAATCCGTCTCCATTTTTGGGCTAAACTTAACCTGA-CTTCGAATTTAATA-TTTTAA
8792680 AATAATATTTTTAACTATTTATTATATTTTAAAATATTAAATGATATATTTTAATAATATAAAAA
129 AATAATATTTTTAACTATTTATTATATTTTAAAATATTAAATGATATATTTTAATAATATAAAAA
8792745 TAAATTCTTAAAATATTAAATTAATATATATAAA
194 TAAATTCTTAAAATATTAAATTAATATATATAAA
8792779 CGATCTCGACTAAAAAATATACTTAAAATTTGACTCCGTTACATCTTGATAAA-TTTAGG-TTTT
1 CGATCTCGACTAAAAAATATACTTAAAATTTGACTCCGTTACATCTTGATAAATTTTAGGTTTTT
8792842 TGCTGTTTTGAATCCGTC-CC-TTTTTGGGCTAAAATCTTAATCCTGA-TTCGAATATTTTAATA
66 TGCTG--TTGAATCCGTCTCCATTTTTGGGCT-AAA-CTTAA-CCTGACTTCG-A-A-TTTAATA
8792904 -TTT--AATAATATATTTTAACTATTTA-TATATTTTAAAATATTAAATTGATATA-TTT--TAA
123 TTTTAAAATAATAT-TTTTAACTATTTATTATATTTTAAAATATTAAA-TGATATATTTTAATAA
8792962 TATAAAAATAAAATTCTTAAAATATTAAATATAATATATATAAA
186 TATAAAAAT-AAATTCTTAAAATATTAAAT-TAATATATATAAA
8793006 TTAATCAAAT
Statistics
Matches: 213, Mismatches: 2, Indels: 26
0.88 0.01 0.11
Matches are distributed among these distances:
225 12 0.06
226 20 0.09
227 62 0.29
228 34 0.16
229 72 0.34
230 6 0.03
231 7 0.03
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.43
Consensus pattern (227 bp):
CGATCTCGACTAAAAAATATACTTAAAATTTGACTCCGTTACATCTTGATAAATTTTAGGTTTTT
TGCTGTTGAATCCGTCTCCATTTTTGGGCTAAACTTAACCTGACTTCGAATTTAATATTTTAAAA
TAATATTTTTAACTATTTATTATATTTTAAAATATTAAATGATATATTTTAATAATATAAAAATA
AATTCTTAAAATATTAAATTAATATATATAAA
Found at i:8798681 original size:2 final size:2
Alignment explanation
Indices: 8798674--8798717 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8798664 ACATAAAATC
8798674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8798716 AT
1 AT
8798718 GAACAGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8803304 original size:22 final size:22
Alignment explanation
Indices: 8803273--8803318 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8803263 TTTCTTAAAA
* *
8803273 AATATTAAAATAATACTCGATG
1 AATATAAAAATAATACTCAATG
*
8803295 AATATAAAAATAATATTCAATG
1 AATATAAAAATAATACTCAATG
8803317 AA
1 AA
8803319 CTCGTCACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AATATAAAAATAATACTCAATG
Found at i:8806687 original size:14 final size:14
Alignment explanation
Indices: 8806644--8806693 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8806634 TTAGTCACTA
*
8806644 TTTAATTGCAATTT
1 TTTAATTTCAATTT
*
8806658 TTT-A-TTAATATCTT
1 TTTAATTTCA-AT-TT
8806672 TTTAATTTCAATTT
1 TTTAATTTCAATTT
8806686 TTTAATTT
1 TTTAATTT
8806694 AATACTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
12 2 0.07
13 3 0.10
14 18 0.62
15 3 0.10
16 3 0.10
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTAATTTCAATTT
Found at i:8809340 original size:8 final size:7
Alignment explanation
Indices: 8809318--8809357 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
8809308 TTCATACATA
8809318 CATTTT-
1 CATTTTG
8809324 CATTTTG
1 CATTTTG
8809331 CATCTTTG
1 CAT-TTTG
8809339 CATTTT-
1 CATTTTG
8809345 CATTTTG
1 CATTTTG
8809352 C-TTTTG
1 CATTTTG
8809358 TATTGCACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 17 0.55
7 7 0.23
8 7 0.23
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.60
Consensus pattern (7 bp):
CATTTTG
Found at i:8809468 original size:35 final size:34
Alignment explanation
Indices: 8809413--8809505 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 34
8809403 CATTCACATA
*
8809413 TTTACATTTGCATTTGCATTTTGCATATTTGCATT
1 TTTACATTTGCATTTACATTTT-CATATTTGCATT
* * *
8809448 TTTACGTTTGTATTTACATTTTCATTTTTGCATT
1 TTTACATTTGCATTTACATTTTCATATTTGCATT
** *
8809482 TGCATATTTGCATAATTACATTTT
1 TTTACATTTGCAT--TTACATTTT
8809506 GTTTCAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 19 0.40
35 19 0.40
36 9 0.19
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.56
Consensus pattern (34 bp):
TTTACATTTGCATTTACATTTTCATATTTGCATT
Found at i:8809481 original size:14 final size:14
Alignment explanation
Indices: 8809418--8809494 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
8809408 ACATATTTAC
8809418 ATTTGCATTTGCAT
1 ATTTGCATTTGCAT
8809432 -TTTGCATATTTGCAT
1 ATTTGC--ATTTGCAT
* * *
8809447 TTTTACGTTTG--T
1 ATTTGCATTTGCAT
* *
8809459 ATTTACATTTTCAT
1 ATTTGCATTTGCAT
*
8809473 TTTTGCATTTGCAT
1 ATTTGCATTTGCAT
8809487 ATTTGCAT
1 ATTTGCAT
8809495 AATTACATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
12 9 0.18
13 5 0.10
14 23 0.47
15 8 0.16
16 4 0.08
ACGTcount: A:0.19, C:0.13, G:0.12, T:0.56
Consensus pattern (14 bp):
ATTTGCATTTGCAT
Found at i:8811889 original size:14 final size:14
Alignment explanation
Indices: 8811870--8811908 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8811860 CATTTATCAG
* *
8811870 AAAATAAAAAGGGA
1 AAAATAAAAAAGAA
8811884 AAAATAAAAAAGAA
1 AAAATAAAAAAGAA
*
8811898 AAAAGAAAAAA
1 AAAATAAAAAA
8811909 ATAAGAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (14 bp):
AAAATAAAAAAGAA
Found at i:8814145 original size:75 final size:75
Alignment explanation
Indices: 8814022--8814198 Score: 257
Period size: 75 Copynumber: 2.4 Consensus size: 75
8814012 AACAATAAGA
* * * *
8814022 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATATGAATGTTGATGCATTTTGAATGT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATAGGAATGTTGATGCATTTTGAACGC
8814087 TTGTATCAGC
66 TTGTATCAGC
* * * *
8814097 AAATGCTGGGACATACTGAAAGCTCATTTCAATAAG-AATCAGGAATGTTGATGCATTTTGAACG
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATAAGAAAT-AGGAATGTTGATGCATTTTGAACG
8814161 CTTGTATCAGC
65 CTTGTATCAGC
*
8814172 AAATGTTGGGGCATGCTGAAGGCCCAT
1 AAATGTTGGGGCATGCTGAAAGCCCAT
8814199 ATTATCCTGT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 3 0.03
75 85 0.97
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATAAGAAATAGGAATGTTGATGCATTTTGAACGC
TTGTATCAGC
Found at i:8815160 original size:53 final size:53
Alignment explanation
Indices: 8815056--8815211 Score: 215
Period size: 53 Copynumber: 2.9 Consensus size: 53
8815046 ATGACCAGAA
* ** * * *
8815056 ATCTGTGCAAAAAACACAAGAAATGATGAATGTTTGTCAAATGCTTAACGAAC
1 ATCTGTGCAGAAGCCACAGGAAATGATGAATGTTTGTCAAATGTTTTACGAAC
*
8815109 ATCTAG-GTAGAAGCCACAGGAAATGATGAATGTTTGTCAAATGTTTTACGAAC
1 ATCT-GTGCAGAAGCCACAGGAAATGATGAATGTTTGTCAAATGTTTTACGAAC
*
8815162 ATCTGTGCAGAAGCCACAGGAAATGATGAATATGTTGTCAAATGTTTTAC
1 ATCTGTGCAGAAGCCACAGGAAATGATGAATGT-TTGTCAAATGTTTTAC
8815212 AAACTAGTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 73 0.80
54 17 0.19
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (53 bp):
ATCTGTGCAGAAGCCACAGGAAATGATGAATGTTTGTCAAATGTTTTACGAAC
Found at i:8815607 original size:22 final size:22
Alignment explanation
Indices: 8815578--8815696 Score: 166
Period size: 22 Copynumber: 5.4 Consensus size: 22
8815568 TATATTCTTT
*
8815578 AAAGATGATATATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
* *
8815600 AATGATGATAGATTCTCTTTTA
1 AAAGATGATAGATTCTCTTTTC
*
8815622 AAAAATGATAGATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
*
8815644 AAAGATGATATATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
* *
8815666 AAAAGATAATAGATTCTCTCTTC
1 -AAAGATGATAGATTCTCTTTTC
8815689 AAAGATGA
1 AAAGATGA
8815697 AAGCTTTATT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
22 65 0.77
23 19 0.23
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTC
Found at i:8816480 original size:45 final size:45
Alignment explanation
Indices: 8816337--8816689 Score: 544
Period size: 45 Copynumber: 7.8 Consensus size: 45
8816327 CTATTTCCCA
* *
8816337 CATCTTTAAAACCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
8816383 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
* *
8816429 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
8816474 CATCTGTAAGACCTTTAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
8816519 CATCTGTAAGCCCTTTAGTGCATGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
8816564 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACTTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
8816609 CATCTGTAAGACCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
8816654 CATCCGTAAGACCTACAGTGCAGGATGTTTTCAAAA
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAA
8816690 AGCCTTTGGG
Statistics
Matches: 284, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
45 210 0.74
46 74 0.26
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:8816882 original size:76 final size:75
Alignment explanation
Indices: 8816738--8816907 Score: 313
Period size: 76 Copynumber: 2.3 Consensus size: 75
8816728 GTCATCTGTA
*
8816738 AGTGCAGGATGTTTTCAAAAAGCCTTTGGGAGCTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
8816803 TAAGACCTAC
66 TAAGACCTAC
8816813 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCT
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAACCTTCGGGTCATCT
*
8816878 GTAAGACCTTC
65 GTAAGACCTAC
8816889 AGTGCAGGATGTTTTCAAA
1 AGTGCAGGATGTTTTCAAA
8816908 TCCTTCGGGT
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
75 32 0.35
76 60 0.65
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (75 bp):
AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
TAAGACCTAC
Found at i:8816903 original size:45 final size:45
Alignment explanation
Indices: 8816850--8817008 Score: 264
Period size: 45 Copynumber: 3.5 Consensus size: 45
8816840 GGGAGCTTTT
8816850 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
* *
8816895 GGATGTTTTCAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
* *
8816940 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
8816985 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
8817009 AGCTTTTTGA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 93 0.89
46 4 0.04
47 8 0.08
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
Found at i:8817110 original size:102 final size:102
Alignment explanation
Indices: 8816990--8817182 Score: 316
Period size: 102 Copynumber: 1.9 Consensus size: 102
8816980 GTGCATGATG
* *
8816990 TTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAACCT-TCGGTCATTTGTAAGACCTACAG
1 TTTTCAAAAAGCCTTCGGGAGC-TTTTGATATTTAAAACCTCTCGGTCATCTGTAAGACCTACAA
* *
8817054 TGCAATATGATAAGACCTCAGGGCCATCCATAACATGT
65 TGCAAGATAATAAGACCTCAGGGCCATCCATAACATGT
* *
8817092 TTTTCAAAAAGCCTTCGGGAGCTTTTGATATTTAAAACCTCTGGGTCATCTGTAAGACCTATAAT
1 TTTTCAAAAAGCCTTCGGGAGCTTTTGATATTTAAAACCTCTCGGTCATCTGTAAGACCTACAAT
8817157 GCAAGATAATAAGACCTCAGGGCCAT
66 GCAAGATAATAAGACCTCAGGGCCAT
8817183 TTATAAGACC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 18 0.21
102 66 0.79
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (102 bp):
TTTTCAAAAAGCCTTCGGGAGCTTTTGATATTTAAAACCTCTCGGTCATCTGTAAGACCTACAAT
GCAAGATAATAAGACCTCAGGGCCATCCATAACATGT
Found at i:8817332 original size:3 final size:3
Alignment explanation
Indices: 8817324--8817354 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
8817314 TAAAATTGTT
8817324 TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
8817355 GATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8818743 original size:23 final size:23
Alignment explanation
Indices: 8818700--8818745 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8818690 ATTATCTTTT
* *
8818700 TAATTTCAATTTGTTTAATTTAA
1 TAATTTAAATTTATTTAATTTAA
*
8818723 TAATTTAAATATTATTTATTTTA
1 TAATTTAAAT-TTATTTAATTTA
8818746 TCATATGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TAATTTAAATTTATTTAATTTAA
Found at i:8818878 original size:2 final size:2
Alignment explanation
Indices: 8818871--8818908 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8818861 ATAAAAACAA
8818871 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8818909 GTTAGTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8818980 original size:2 final size:2
Alignment explanation
Indices: 8818969--8819013 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
8818959 AATTTTAGTC
8818969 AT AT -T 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
8819010 AT AT
1 AT AT
8819014 GAAAGATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8819226 original size:16 final size:17
Alignment explanation
Indices: 8819196--8819235 Score: 73
Period size: 16 Copynumber: 2.4 Consensus size: 17
8819186 TTAAGAAAAA
8819196 AATATTATATTATTATT
1 AATATTATATTATTATT
8819213 AATATTAT-TTATTATT
1 AATATTATATTATTATT
8819229 AATATTA
1 AATATTA
8819236 AAGAAATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATTATATTATTATT
Found at i:8823493 original size:4 final size:4
Alignment explanation
Indices: 8823481--8823521 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
8823471 TACATAAAAG
* *
8823481 ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
8823522 ACATAGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:8834309 original size:14 final size:14
Alignment explanation
Indices: 8834290--8834317 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8834280 CAACATTACA
8834290 GGATAACGTCAGTC
1 GGATAACGTCAGTC
8834304 GGATAACGTCAGTC
1 GGATAACGTCAGTC
8834318 TTCATCCTTC
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:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
GGATAACGTCAGTC
Found at i:8842998 original size:21 final size:21
Alignment explanation
Indices: 8842974--8843029 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
8842964 TTTTTTGAAA
8842974 TTTTGGCTTTTGTTTT-TGCTT
1 TTTTGGCTTTT-TTTTGTGCTT
*
8842995 TTTTGTG-TTTTTTTTGTGTTT
1 TTTTG-GCTTTTTTTTGTGCTT
*
8843016 TTTTTGCTTTTTTT
1 TTTTGGCTTTTTTT
8843030 AAAAATAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.17
21 24 0.80
22 1 0.03
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.79
Consensus pattern (21 bp):
TTTTGGCTTTTTTTTGTGCTT
Found at i:8843009 original size:11 final size:11
Alignment explanation
Indices: 8842993--8843021 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8842983 TTGTTTTTGC
8842993 TTTTTTGTGTT
1 TTTTTTGTGTT
8843004 TTTTTTGTGTT
1 TTTTTTGTGTT
8843015 TTTTTTG
1 TTTTTTG
8843022 CTTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
TTTTTTGTGTT
Found at i:8850307 original size:24 final size:24
Alignment explanation
Indices: 8850280--8850370 Score: 100
Period size: 24 Copynumber: 3.8 Consensus size: 24
8850270 AAATTGAATG
8850280 ACCGGTTTTTTT-ACCGGATTAAAA
1 ACCGGTTTTTTTAACCGGA-TAAAA
8850304 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT--AACCGGAT-AAAA
8850331 ACCGG-TTTTTTAACC-GA-AAAA
1 ACCGGTTTTTTTAACCGGATAAAA
*
8850352 ATCCGATTTTTTTAACCGG
1 A-CCGGTTTTTTTAACCGG
8850371 TTTTTTGCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
21 5 0.08
22 3 0.05
23 12 0.20
24 17 0.29
26 7 0.12
27 15 0.25
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (24 bp):
ACCGGTTTTTTTAACCGGATAAAA
Found at i:8850323 original size:27 final size:24
Alignment explanation
Indices: 8850280--8850370 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 24
8850270 AAATTGAATG
*
8850280 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
8850304 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATAAAAA
*
8850331 ACCGGTTTTTTAACC-GA-AAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
* *
8850353 TCCGATTTTTTTAACCGG
1 ACCGGTTTTTTT-ACCGG
8850371 TTTTTTGCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 14 0.25
23 5 0.09
24 16 0.28
27 22 0.39
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:8850361 original size:22 final size:22
Alignment explanation
Indices: 8850326--8850369 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
8850316 CAAACCGGAT
*
8850326 AAAAAACCG-GTTTTTTAACCG
1 AAAAAACCGATTTTTTTAACCG
8850347 AAAAAATCCGATTTTTTTAACCG
1 AAAAAA-CCGATTTTTTTAACCG
8850370 GTTTTTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 11 0.55
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (22 bp):
AAAAAACCGATTTTTTTAACCG
Found at i:8850678 original size:35 final size:34
Alignment explanation
Indices: 8850627--8850755 Score: 100
Period size: 35 Copynumber: 3.7 Consensus size: 34
8850617 TGAAAGTATT
*
8850627 AAAATGTTTTTC-AAGTTTGGTAA-CCAACTTTG
1 AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
****
8850659 AAAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 --AAAATGGTTTTCAAAGTTTGGT-AATCCAACTTTG
****
8850696 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGT-AATCCAACTTTG
*
8850731 AAAAATAGTTTTTCAAAGTTTGGTA
1 -AAAAT-GGTTTTCAAAGTTTGGTA
8850756 GATGTTTGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
34 11 0.13
35 44 0.52
36 8 0.10
37 21 0.25
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (34 bp):
AAAATGGTTTTCAAAGTTTGGTAATCCAACTTTG
Found at i:8850686 original size:21 final size:21
Alignment explanation
Indices: 8850662--8850722 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
8850652 AACTTTGAAA
8850662 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
8850683 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
8850697 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
8850718 AAATG
1 AAATG
8850723 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:8850753 original size:37 final size:37
Alignment explanation
Indices: 8850654--8850772 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
8850644 TGGTAACCAA
8850654 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
8850691 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
8850726 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
8850763 -GTTGAAAAAT
1 CTTTGAAAAAT
8850773 GATAATGAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:8851199 original size:16 final size:16
Alignment explanation
Indices: 8851178--8851222 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
8851168 TTACTATTCA
8851178 CGTGAATAGTGAATTT
1 CGTGAATAGTGAATTT
8851194 CGTGAATAGTGAATTT
1 CGTGAATAGTGAATTT
8851210 CGTGAATAGTGAA
1 CGTGAATAGTGAA
8851223 ATTTGGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (16 bp):
CGTGAATAGTGAATTT
Found at i:8855322 original size:21 final size:21
Alignment explanation
Indices: 8855298--8855358 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8855288 AACTTTGAAA
8855298 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
8855319 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
8855333 AAATGGTTTTCAAAGTTTGTT
1 AAATGGTTTTCAAAGTTTGGT
8855354 AAATG
1 AAATG
8855359 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:8855379 original size:36 final size:36
Alignment explanation
Indices: 8855290--8855408 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
8855280 TGGTAACCAA
8855290 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
8855327 CTTTG-AAAATGGTTTTCAAAGTTTGTTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
8855362 CTTTGAAAAATAGTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
8855398 -GTTGAAAAATG
1 CTTTGAAAAATG
8855409 ATAATGAGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 43 0.57
36 27 0.36
37 5 0.07
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:8860094 original size:3 final size:3
Alignment explanation
Indices: 8860083--8860134 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8860073 TTTTCATTTA
*
8860083 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8860131 ATT A
1 ATT A
8860135 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8862356 original size:26 final size:27
Alignment explanation
Indices: 8862314--8862388 Score: 68
Period size: 30 Copynumber: 2.8 Consensus size: 27
8862304 TCATATATTT
*
8862314 AATTTATA-AT-TCTTTATTTTCA-AA
1 AATTTATATATATATTTATTTTCATAA
*
8862338 AATTTGTATATATACTTATTATTTTCATAA
1 AATTTATATATATA--T-TTATTTTCATAA
*
8862368 TATTTATATATATA-TTATTTT
1 AATTTATATATATATTTATTTT
8862389 ATTAATGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 7 0.17
25 2 0.05
26 8 0.20
28 1 0.02
29 9 0.22
30 14 0.34
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (27 bp):
AATTTATATATATATTTATTTTCATAA
Found at i:8862359 original size:29 final size:29
Alignment explanation
Indices: 8862327--8862386 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
8862317 TTATAATTCT
*
8862327 TTATTTTCA-AAAATTTGTATATATACTTA
1 TTATTTTCATAAAATTTATATATATA-TTA
*
8862356 TTATTTTCATAATATTTATATATATATTA
1 TTATTTTCATAAAATTTATATATATATTA
8862385 TT
1 TT
8862387 TTATTAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
TTATTTTCATAAAATTTATATATATATTA
Done.