Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_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: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:776449 original size:72 final size:72
Alignment explanation
Indices: 776370--776503 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 72
776360 AAATTTTGGT
* * * *
776370 GAGCTTAACGAGCAACGAGTTGAGTCAAGAAACAAGTATTTTTAACGAGCAC-ATGTCGAGCAAA
1 GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGAT-TCGAGCAAA
776434 ATTTTAAC
65 ATTTTAAC
* ** * *
776442 GAGCTTAATGAGCAACAAGTCGAGTTGACCAACAAATTTTTTTAACGAGCACGATTCGAGCA
1 GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGATTCGAGCA
776504 TTGCCCGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 50 0.96
73 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (72 bp):
GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGATTCGAGCAAAA
TTTTAAC
Found at i:781046 original size:72 final size:72
Alignment explanation
Indices: 780967--781100 Score: 169
Period size: 72 Copynumber: 1.9 Consensus size: 72
780957 AAATTTTGGT
* * * *
780967 GAGCTTAACGAGCAACGAGTTGAGTCAAGAAACAAGTATTTTTAACGAGCACGAGTCAAGCAAAA
1 GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGAGTCAAGCAAAA
781032 TTTTAAC
66 TTTTAAC
* ** * * * *
781039 GAGCTTAATGAGCAACAAGTCGAGTTGACAAACAAATTTTTTTAATGAGCATGAGTCGAGCA
1 GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGAGTCAAGCA
781101 TTGCCCGACT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 51 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (72 bp):
GAGCTTAACGAGCAACAAGTCGAGTCAACAAACAAATATTTTTAACGAGCACGAGTCAAGCAAAA
TTTTAAC
Found at i:789928 original size:42 final size:43
Alignment explanation
Indices: 789870--789963 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
789860 TTAAGAATGT
* *
789870 TTTTAATATGTTAGTTTGATTTATTTGTGAATTGTTA-TTTGG
1 TTTTAATACGTTAGTTTGATATATTTGTGAATTGTTACTTTGG
* *
789912 TTTTATTACGTTAGTTTGATATGTTTGTGAATTGTTACTTTGG
1 TTTTAATACGTTAGTTTGATATATTTGTGAATTGTTACTTTGG
**
789955 ACTTAATAC
1 TTTTAATAC
789964 TTTGAAATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 33 0.75
43 11 0.25
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.55
Consensus pattern (43 bp):
TTTTAATACGTTAGTTTGATATATTTGTGAATTGTTACTTTGG
Found at i:790530 original size:22 final size:21
Alignment explanation
Indices: 790505--790553 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
790495 TATGTTATTC
*
790505 ATATATATGTGCTCACCCTAAA
1 ATATATATGTG-GCACCCTAAA
* *
790527 ATATAT-TTTGGGACCCTAAA
1 ATATATATGTGGCACCCTAAA
790547 ATATATA
1 ATATATA
790554 GAGACAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 6 0.26
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATATATGTGGCACCCTAAA
Found at i:792587 original size:51 final size:53
Alignment explanation
Indices: 792531--792634 Score: 176
Period size: 51 Copynumber: 2.0 Consensus size: 53
792521 ATAGAATGGA
*
792531 GCAAACAAAGAAATAAGAAATGATAGA-TTTGAAATT-AGTCTGATGGATGTT
1 GCAAACAAAGAAAGAAGAAATGATAGATTTTGAAATTAAGTCTGATGGATGTT
*
792582 GCAAACAAAGAAAGGAGAAATGATAGATTTTGAAATTAAGTCTGATGGATGTT
1 GCAAACAAAGAAAGAAGAAATGATAGATTTTGAAATTAAGTCTGATGGATGTT
792635 TATTATCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 25 0.51
52 9 0.18
53 15 0.31
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (53 bp):
GCAAACAAAGAAAGAAGAAATGATAGATTTTGAAATTAAGTCTGATGGATGTT
Found at i:794407 original size:11 final size:11
Alignment explanation
Indices: 794391--794419 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
794381 TAGTGTGATA
794391 TCGATTTAATT
1 TCGATTTAATT
794402 TCGATTTAATT
1 TCGATTTAATT
794413 TCGATTT
1 TCGATTT
794420 TTATTTTATA
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:0.24, C:0.10, G:0.10, T:0.55
Consensus pattern (11 bp):
TCGATTTAATT
Found at i:795060 original size:18 final size:18
Alignment explanation
Indices: 795037--795087 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
795027 GTAGCATGTA
795037 TAATTATGTCAGTAATTC
1 TAATTATGTCAGTAATTC
* *
795055 TAATTATCGT-AGTTATTT
1 TAATTAT-GTCAGTAATTC
*
795073 TAATTA-GTCTGTAAT
1 TAATTATGTCAGTAAT
795088 AATAATTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 4 0.15
18 19 0.70
19 2 0.07
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (18 bp):
TAATTATGTCAGTAATTC
Found at i:795956 original size:13 final size:13
Alignment explanation
Indices: 795922--795956 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
795912 CTTTTCTTCG
795922 ATATTGAAAATAA
1 ATATTGAAAATAA
795935 ATATT-AAAATAA
1 ATATTGAAAATAA
*
795947 TTATTGAAAA
1 ATATTGAAAA
795957 AATAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATATTGAAAATAA
Found at i:797365 original size:12 final size:13
Alignment explanation
Indices: 797340--797372 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
797330 AATATTATTA
797340 AAAT-ATAATAAT
1 AAATAATAATAAT
797352 AAATAATAAT-AT
1 AAATAATAATAAT
797364 AAATAATAA
1 AAATAATAA
797373 AAAAAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:797737 original size:20 final size:20
Alignment explanation
Indices: 797712--797777 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
797702 GTTAAACAAG
797712 TTCTTCTCATTATGAACTCC
1 TTCTTCTCATTATGAACTCC
* * * **
797732 TTCTTC-CTTTTTCAGA-TGAG
1 TTCTTCTCATTATGA-ACT-CC
797752 TTCTTCTCATTATGAACTCC
1 TTCTTCTCATTATGAACTCC
797772 TTCTTC
1 TTCTTC
797778 CTTTTTCAGA
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 6 0.19
20 20 0.62
21 6 0.19
ACGTcount: A:0.17, C:0.27, G:0.08, T:0.48
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTCC
Found at i:797754 original size:40 final size:40
Alignment explanation
Indices: 797710--797809 Score: 191
Period size: 40 Copynumber: 2.5 Consensus size: 40
797700 GGGTTAAACA
797710 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATG
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATG
797750 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATG
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATG
*
797790 AGTTTTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
797810 TTCTTTGGCG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATG
Found at i:797878 original size:153 final size:146
Alignment explanation
Indices: 797607--797928 Score: 457
Period size: 153 Copynumber: 2.2 Consensus size: 146
797597 TTGAATAAGC
*
797607 TCTTCTTATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTAAAGGT
1 TCTTCTCATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTAAAGGT
* * *
797672 GATCCATTAAGTGATGAATTTGAACAAAGGGTTAAACAAGTTCTTCTCATTATGAACTCCTTCTT
66 GATCCATCAAATGATGAATTTCAACAAAGGGTTAAACAAGTTCTTCTCATTATGAACTCCTTCTT
*
797737 CCTTTTTCAGATGAGT
131 CCTTCTTCAGATGAGT
* * * **
797753 TCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATGAGTTTTTCTCATTATGAACTTTCTTTGG
1 TCTTCTCATTATGAACT--TTC-T-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTAA
*
797818 CGCTGCTGATCCATCAAATGATGAA-TTCAAGCAAAGGGTTAAACAAGTTCTTCTCATTATGAAC
62 AG--G-TGATCCATCAAATGATGAATTTCAA-CAAAGGGTTAAACAAGTTCTTCTCATTATGAAC
*
797882 TTCTTCTTCCTTCTTCAGATGAGT
123 TCCTTCTTCCTTCTTCAGATGAGT
797906 TCTTCTCATTATGAACTTTCTCT
1 TCTTCTCATTATGAACTTTCTCT
797929 GGCAAAGCTG
Statistics
Matches: 156, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
146 16 0.10
148 3 0.02
149 3 0.02
150 37 0.24
151 3 0.02
152 5 0.03
153 89 0.57
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (146 bp):
TCTTCTCATTATGAACTTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTAAAGGT
GATCCATCAAATGATGAATTTCAACAAAGGGTTAAACAAGTTCTTCTCATTATGAACTCCTTCTT
CCTTCTTCAGATGAGT
Found at i:798032 original size:221 final size:222
Alignment explanation
Indices: 797750--798255 Score: 888
Period size: 221 Copynumber: 2.3 Consensus size: 222
797740 TTTTCAGATG
* * *
797750 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATGAGTTTTTCTCATTATGAACTTTCTT
1 AGTTCTTCTTATTATGAACTTCTTCTTCC---TTCAGATGAGTTCTTCTCATTATGAACTTTCTT
797815 TGGCGCTGCTGATCCATCAAATGATGAATTCAAGCAAAGGGTTAAACAAGTTCTTCTCATTATGA
63 TGGCGCTGCTGATCCATCAAATGATGAATTCAAGCAAAGGGTTAAACAAGTTCTTCTCATTATGA
797880 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCAT
128 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCAT
797945 CAAATGATGAATTCAAGCAAAAGTTGAACA
193 CAAATGATGAATTCAAGCAAAAGTTGAACA
797975 AGTTCTTCTTATTATGAACTTCTTCTTCC-TCAGATGAGTTCTTCTCATTATGAACTTTCTTTGG
1 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGG
*
798039 CGCTGCTGATCCATCAAATGATGAATTCAAGTAAAGGGTTAAACAAGTTCTTCTCATTATGAACT
66 CGCTGCTGATCCATCAAATGATGAATTCAAGCAAAGGGTTAAACAAGTTCTTCTCATTATGAACT
* * *
798104 TTTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGGCAAAGCTGATCCATCAA
131 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAA
798169 ATGATGAATTCAAGCAAAAGTTGAACA
196 ATGATGAATTCAAGCAAAAGTTGAACA
798196 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AGTTCTTCTTATTATGAACTTCTTCTT-C--CTTCAGATGAGTTCTTCTCATTATGAACT
798256 CTAACTGGAA
Statistics
Matches: 270, Mismatches: 7, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
221 214 0.79
222 1 0.00
224 1 0.00
225 54 0.20
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (222 bp):
AGTTCTTCTTATTATGAACTTCTTCTTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGG
CGCTGCTGATCCATCAAATGATGAATTCAAGCAAAGGGTTAAACAAGTTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAA
ATGATGAATTCAAGCAAAAGTTGAACA
Found at i:798286 original size:112 final size:113
Alignment explanation
Indices: 797750--798255 Score: 799
Period size: 113 Copynumber: 4.5 Consensus size: 113
797740 TTTTCAGATG
* * *
797750 AGTTCTTCTCATTATGAACTCCTTCTTCCTTTTTCAGATGAGTTTTTCTCATTATGAACTTTCTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
*** *
797815 TGGCGCTGCTGATCCATCAAATGATGAATTCAAGCAAAGGGTTAAACA
66 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACA
*
797863 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
*
797928 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAA-AGTTGAACA
66 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACA
*
797975 AGTTCTTCTTATTATGAACTTCTTCTT-C--C-TCAGATGAGTTCTTCTCATTATGAACTTTCTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
*** * *
798036 TGGCGCTGCTGATCCATCAAATGATGAATTCAAGTAAAGGGTTAAACA
66 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACA
* *
798084 AGTTCTTCTCATTATGAACTTTTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
*
798149 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAA-AGTTGAACA
66 TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACA
*
798196 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
798256 CTAACTGGAA
Statistics
Matches: 360, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
108 65 0.18
109 33 0.09
110 1 0.00
111 1 0.00
112 98 0.27
113 162 0.45
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTT
TGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAGAGTTAAACA
Found at i:799100 original size:91 final size:90
Alignment explanation
Indices: 798968--799149 Score: 262
Period size: 91 Copynumber: 2.0 Consensus size: 90
798958 GATCATGCAG
* * *
798968 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAATTCCAATGATTGGTTCTGTGGGTCATACCAAA-CAGATCAGATAACTCAAAGA
799033 A-ACTTCCAGAAGATGCTATGAGCACA
65 ACACTTCCAG-AGATGCTATGAGCACA
*
799059 TTCATCTTTCAAATT-CAATGATTGGTT-TTTAGGGTCATACCAAACAGATCAGATAACTCAAAG
1 TTCATCTTT-AAATTCCAATGATTGGTTCTGT-GGGTCATACCAAACAGATCAGATAACTCAAAG
*
799122 AACACTTCCAGAGATGCTATTAGCACA
64 AACACTTCCAGAGATGCTATGAGCACA
799149 T
1 T
799150 GCATTTGTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
90 39 0.47
91 40 0.48
92 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (90 bp):
TTCATCTTTAAATTCCAATGATTGGTTCTGTGGGTCATACCAAACAGATCAGATAACTCAAAGAA
CACTTCCAGAGATGCTATGAGCACA
Found at i:800638 original size:7 final size:7
Alignment explanation
Indices: 800626--800750 Score: 129
Period size: 7 Copynumber: 18.3 Consensus size: 7
800616 CTTGACCCCC
800626 TTTTTCT
1 TTTTTCT
800633 TTTTTC-
1 TTTTTCT
*
800639 TTTCT-T
1 TTTTTCT
800645 TTTTTCT
1 TTTTTCT
800652 TTTTT-T
1 TTTTTCT
800658 TTTTT-T
1 TTTTTCT
800664 TTTTT-T
1 TTTTTCT
*
800670 TTCTTTTT
1 TT-TTTCT
800678 TTTTTCT
1 TTTTTCT
800685 TTTTTCT
1 TTTTTCT
800692 TTTTT-T
1 TTTTTCT
800698 TTTCCTT-T
1 TTT--TTCT
800706 TTTTTCT
1 TTTTTCT
800713 TTTTTCT
1 TTTTTCT
**
800720 TCCTTCT
1 TTTTTCT
800727 TTTTTCT
1 TTTTTCT
800734 TTTTTCT
1 TTTTTCT
800741 TTTTCTCT
1 TTTT-TCT
800749 TT
1 TT
800751 AAGCATAATA
Statistics
Matches: 103, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
6 29 0.28
7 60 0.58
8 14 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:800644 original size:11 final size:11
Alignment explanation
Indices: 800628--800735 Score: 120
Period size: 11 Copynumber: 10.3 Consensus size: 11
800618 TGACCCCCTT
800628 TTTCTTTTTTC
1 TTTCTTTTTTC
800639 TTTCTTTTTTTC
1 TTTC-TTTTTTC
800651 TTT-TTTTTT-
1 TTTCTTTTTTC
800660 TTT-TTTTTT-
1 TTTCTTTTTTC
*
800669 TTTCTTTTTTT
1 TTTCTTTTTTC
800680 TTTCTTTTTTC
1 TTTCTTTTTTC
*
800691 TTTTTTTTTTC
1 TTTCTTTTTTC
*
800702 CTT-TTTTTTC
1 TTTCTTTTTTC
*
800712 TTT-TTTCTTC
1 TTTCTTTTTTC
*
800722 CTTCTTTTTTC
1 TTTCTTTTTTC
800733 TTT
1 TTT
800736 TTTCTTTTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
9 12 0.14
10 29 0.34
11 34 0.40
12 10 0.12
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:800676 original size:28 final size:28
Alignment explanation
Indices: 800626--800744 Score: 122
Period size: 30 Copynumber: 4.3 Consensus size: 28
800616 CTTGACCCCC
* *
800626 TTTTTCTTTTTTCTTTC--TTTT-TTTC
1 TTTTTTTTTTTTCTTTCTTTTTTCTTTT
800651 TTTTTTTTTTTT-TTT-TTTTTTCTTTT
1 TTTTTTTTTTTTCTTTCTTTTTTCTTTT
*
800677 TTTTTTCTTTTTTCTTTTTTTTTTCCTTTT
1 TTTTTT-TTTTTTCTTTCTTTTTT-CTTTT
*
800707 TTTTCTTTTTTCTTCCTTCTTTTTTCTTTT
1 TTTT-TTTTTT-TTCTTTCTTTTTTCTTTT
*
800737 TTCTTTTT
1 TTTTTTTT
800745 CTCTTTAAGC
Statistics
Matches: 80, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.04
25 15 0.19
26 9 0.11
27 6 0.08
28 3 0.04
29 10 0.12
30 21 0.26
31 13 0.16
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (28 bp):
TTTTTTTTTTTTCTTTCTTTTTTCTTTT
Found at i:800737 original size:1 final size:1
Alignment explanation
Indices: 800626--800717 Score: 94
Period size: 1 Copynumber: 92.0 Consensus size: 1
800616 CTTGACCCCC
* * * * * * *
800626 TTTTTCTTTTTTCTTTCTTTTTTTCTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTCTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** *
800691 TTTTTTTTTTCCTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
800718 CTTCCTTCTT
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:808069 original size:15 final size:15
Alignment explanation
Indices: 808045--808077 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
808035 GAAAATCATG
808045 AAATGAATGTATGCA
1 AAATGAATGTATGCA
*
808060 AAATGCATGTATGCA
1 AAATGAATGTATGCA
808075 AAA
1 AAA
808078 AAAAGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (15 bp):
AAATGAATGTATGCA
Found at i:813472 original size:3 final size:3
Alignment explanation
Indices: 813460--813506 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
813450 TAATATTTAT
813460 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
813504 TAA
1 TAA
813507 AAAAATGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:815088 original size:15 final size:15
Alignment explanation
Indices: 815050--815096 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
815040 TTTTCTTCGA
*
815050 TATTGAAAAATAAA-
1 TATTAAAAAATAAAT
*
815064 TATT--AAAATAATT
1 TATTAAAAAATAAAT
815077 TATTAAAAAATAAAT
1 TATTAAAAAATAAAT
815092 TATTA
1 TATTA
815097 TTTATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 4 0.14
15 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TATTAAAAAATAAAT
Found at i:816291 original size:16 final size:16
Alignment explanation
Indices: 816270--816310 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
816260 ACCGTTGGCT
*
816270 GAGGCGGTTGGAGGCA
1 GAGGCGGCTGGAGGCA
816286 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
816302 GAGGCGGCT
1 GAGGCGGCT
816311 AGGGTTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.56, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:816433 original size:3 final size:3
Alignment explanation
Indices: 816425--816543 Score: 132
Period size: 3 Copynumber: 40.0 Consensus size: 3
816415 TATATATATT
* *
816425 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
816473 TAA T-A TAT TTA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAT TTA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
816520 TAA TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
816544 ATCAATATGG
Statistics
Matches: 93, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
2 2 0.02
3 91 0.98
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:817028 original size:113 final size:114
Alignment explanation
Indices: 816890--817383 Score: 712
Period size: 113 Copynumber: 4.4 Consensus size: 114
816880 AACAAGTTCT
* * *
816890 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATCCATCAAGTAATGGAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGAT
* *
816955 TTGA-GCAAAA-ATCTGAACAAATTCTTCTCATTATGAACTTCTTCATCA
66 TTGAGGCAAAAGGT-TGAACAAATTCTTCTCATTATGAACTTCTTCATCC
* **** * * *
817003 TTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTAATCTATCAAGTGATAGAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGAT
817068 TTGA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
66 TTGAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
* * *
817116 TTCTTCAGATGAGTTCATT-TCATTATGAACTTTTTCTGGAAAGGCTGATCCATCAATTGAT-GA
1 TTCTTCAGATGAGTTC-TTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGA
* * * * *
817179 ATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
65 TTTGAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
*
817229 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGAT
* *
817294 TT-AGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
66 TTGAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
817342 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
817384 TGTCAATCTA
Statistics
Matches: 343, Mismatches: 33, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
112 7 0.02
113 330 0.96
114 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (114 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGAT
TTGAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCC
Found at i:818302 original size:83 final size:83
Alignment explanation
Indices: 818201--818636 Score: 818
Period size: 83 Copynumber: 5.3 Consensus size: 83
818191 TTATTTCTAT
* *
818201 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAGCCCAAAG
1 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
*
818266 AACACTTCCAGAAGATGT
66 AACACTTCCAGAAGATGC
818284 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
1 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
*
818349 AACACTTCCAGAAGATGT
66 AACACTTCCAGAAGATGC
* *
818367 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAG
1 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
818432 AACACTTCCAGAAGATGC
66 AACACTTCCAGAAGATGC
818450 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
1 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
818515 AACACTTCCAGAAGATGC
66 AACACTTCCAGAAGATGC
818533 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
1 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
818598 AACACTTCCAGAAGATGC
66 AACACTTCCAGAAGATGC
818616 TATGAGCAAATTCATCTTCCA
1 TATGAGCAAATTCATCTTCCA
818637 TTTAATGTTT
Statistics
Matches: 346, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 346 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACCCAAAG
AACACTTCCAGAAGATGC
Found at i:819599 original size:9 final size:8
Alignment explanation
Indices: 819585--819661 Score: 88
Period size: 9 Copynumber: 9.4 Consensus size: 8
819575 TTAACCCCCC
819585 CTTTTTCTT
1 CTTTTT-TT
819594 CTTTTTTCT
1 CTTTTTT-T
819603 CTTTTTTT
1 CTTTTTTT
819611 C-TTTTTT
1 CTTTTTTT
819618 CTCTTTTTT
1 CT-TTTTTT
819627 CTTTTTCTT
1 CTTTTT-TT
819636 -TTTTTTT
1 CTTTTTTT
819643 CTTTTTTT
1 CTTTTTTT
819651 -TTATTTTT
1 CTT-TTTTT
819659 CTT
1 CTT
819662 CAAGCATAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
7 11 0.18
8 24 0.39
9 26 0.43
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (8 bp):
CTTTTTTT
Found at i:819657 original size:16 final size:16
Alignment explanation
Indices: 819585--819661 Score: 95
Period size: 16 Copynumber: 4.8 Consensus size: 16
819575 TTAACCCCCC
*
819585 CTTTTTCTTCTTTTTT
1 CTTTTTTTTCTTTTTT
819601 CTCTTTTTTTCTTTTTT
1 CT-TTTTTTTCTTTTTT
*
819618 CTCTTTTTTC-TTTTT
1 CTTTTTTTTCTTTTTT
819633 CTTTTTTTTTCTTTTTT
1 C-TTTTTTTTCTTTTTT
819650 -TTTATTTTTCTT
1 CTTT-TTTTTCTT
819662 CAAGCATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
15 9 0.17
16 25 0.46
17 20 0.37
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:830056 original size:16 final size:16
Alignment explanation
Indices: 830035--830091 Score: 105
Period size: 16 Copynumber: 3.6 Consensus size: 16
830025 ACCGTTGGCT
*
830035 GAGGCGGTTGGAGGCA
1 GAGGCGGCTGGAGGCA
830051 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
830067 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
830083 GAGGCGGCT
1 GAGGCGGCT
830092 AGGGTTAGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.56, T:0.09
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:830202 original size:3 final size:3
Alignment explanation
Indices: 830196--830293 Score: 101
Period size: 3 Copynumber: 33.3 Consensus size: 3
830186 TGTATATATT
* * *
830196 ATA ATA ATA ATA ATA ATA AT- ATT ATA ATA ATA ATA ATA AT- ATA TTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
830242 ATA GTA ATA ATA ATA ATA ATA TTT ATA GTA ATT ATA ATA ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
830290 ATA A
1 ATA A
830294 ATCAATATGA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
2 4 0.05
3 72 0.95
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:836161 original size:16 final size:16
Alignment explanation
Indices: 836132--836164 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
836122 CATGGTAAGT
836132 AAAGGATTATATGATA
1 AAAGGATTATATGATA
836148 AAAGAGATTA-ATGATA
1 AAAG-GATTATATGATA
836164 A
1 A
836165 TGCTAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (16 bp):
AAAGGATTATATGATA
Found at i:841056 original size:18 final size:18
Alignment explanation
Indices: 841033--841067 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
841023 TTAGGTTATG
841033 AAGAGTT-TAGTGATTTTA
1 AAGAGTTGTAG-GATTTTA
841051 AAGAGTTGTAGGATTTT
1 AAGAGTTGTAGGATTTT
841068 TATGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (18 bp):
AAGAGTTGTAGGATTTTA
Found at i:842538 original size:31 final size:31
Alignment explanation
Indices: 842503--842565 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
842493 TACATATCAA
*
842503 TTATCAGCT-TTGGTATATTCGTGTACCAATG
1 TTATCAG-TGTTGGTACATTCGTGTACCAATG
*
842534 TTATCAGTGTTGGTACATTCGTGTATCAATG
1 TTATCAGTGTTGGTACATTCGTGTACCAATG
842565 T
1 T
842566 CCAGCACCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (31 bp):
TTATCAGTGTTGGTACATTCGTGTACCAATG
Found at i:843529 original size:74 final size:73
Alignment explanation
Indices: 843407--843710 Score: 296
Period size: 75 Copynumber: 4.1 Consensus size: 73
843397 GGTGTTACAT
* * *
843407 TTATAATTTACAATATTTTTATATTTTTAAATTTTTGGTAATGAAAGAAATGATTCTTATTTTTT
1 TTATAATTTACAATATTTTTATATTTTT-AATTTTTGTTAATGGAAGAAATAATTCTTATTTTTT
843472 ATTTATTAA
65 ATTTATTAA
* * * * * *
843481 CTATAATTTACAACATTTTTTATATTTTTAATTTTTATTAATGGAAG-AATATTTTTTTAAATTT
1 TTATAATTTACAATA-TTTTTATATTTTTAATTTTTGTTAATGGAAGAAATA-ATTCTT-ATTTT
* *
843545 TTACTTGTTAA
63 TTATTTATTAA
* * * *
843556 TTATAATTTATAGTGTTTTTAGATATTTTTAATTTTTGTTAATGGAAGAAACAATTCTT-TATTT
1 TTATAATTTACAATATTTTT--ATATTTTTAATTTTTGTTAATGGAAGAAATAATTCTTAT-TTT
843620 TTATTTATTAA
63 TTATTTATTAA
* * * * * **
843631 TTATATTTTACAATATTTTTA-CTTTTCAA-TATT-TTAATGGAATAAATAATTCTTA-AATTTA
1 TTATAATTTACAATATTTTTATATTTTTAATTTTTGTTAATGGAAGAAATAATTCTTATTTTTTA
843692 TTTATGTAA
66 TTTAT-TAA
843701 TTATAATTTA
1 TTATAATTTA
843711 ATAGTTATAT
Statistics
Matches: 186, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
69 9 0.05
70 31 0.17
71 3 0.02
72 6 0.03
73 4 0.02
74 37 0.20
75 64 0.34
76 29 0.16
77 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (73 bp):
TTATAATTTACAATATTTTTATATTTTTAATTTTTGTTAATGGAAGAAATAATTCTTATTTTTTA
TTTATTAA
Found at i:844972 original size:2 final size:2
Alignment explanation
Indices: 844961--845004 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
844951 TTGAAACAAT
844961 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
845001 TA TA
1 TA TA
845005 ATGAATGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:845142 original size:2 final size:2
Alignment explanation
Indices: 845131--845237 Score: 86
Period size: 2 Copynumber: 55.5 Consensus size: 2
845121 TTGAAACAAT
845131 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
845169 TA -A TA TG TA TGA TGA -A TG T- TA TGA TA -A TA TGA TG CA TA TA
1 TA TA TA TA TA T-A T-A TA TA TA TA T-A TA TA TA T-A TA TA TA TA
845209 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
845238 CATAATGTAC
Statistics
Matches: 87, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
1 8 0.09
2 71 0.82
3 8 0.09
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.46
Consensus pattern (2 bp):
TA
Found at i:845326 original size:2 final size:2
Alignment explanation
Indices: 845315--845411 Score: 60
Period size: 2 Copynumber: 48.0 Consensus size: 2
845305 ACATTAAACT
*
845315 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A GTA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * *
845357 -A GTA TA TA AA T- TA TA TA GTA TA AA TA TA TA AA CTA TA AA CTA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA
845399 -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
845412 AGCATATACA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
1 5 0.07
2 62 0.84
3 7 0.09
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (2 bp):
TA
Found at i:845364 original size:15 final size:16
Alignment explanation
Indices: 845346--845378 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
845336 TATATATAAG
845346 TATAAAGTATA-AGTA
1 TATAAAGTATATAGTA
*
845361 TATAAATTATATAGTA
1 TATAAAGTATATAGTA
845377 TA
1 TA
845379 AATATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (16 bp):
TATAAAGTATATAGTA
Found at i:845376 original size:22 final size:21
Alignment explanation
Indices: 845315--845393 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 21
845305 ACATTAAACT
*
845315 TATAATATATATA-TATATA-
1 TATAATATATAAATTATATAG
* *
845334 TAT-ATATAT-AAGTATAAAG
1 TATAATATATAAATTATATAG
845353 TATAAGTATATAAATTATATAG
1 TATAA-TATATAAATTATATAG
*
845375 TATAAATATATAAACTATA
1 TAT-AATATATAAATTATA
845394 AACTAATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.02
18 11 0.22
19 6 0.12
20 1 0.02
21 5 0.10
22 23 0.47
23 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (21 bp):
TATAATATATAAATTATATAG
Found at i:845384 original size:57 final size:56
Alignment explanation
Indices: 845272--845413 Score: 143
Period size: 57 Copynumber: 2.5 Consensus size: 56
845262 TGCAACATAA
* *
845272 ATATATTTTTATATAAGTATATAATATAAGTATACATTAAACTTATAATATATATAT
1 ATATATATATATATAAGTATATAATATAAGTATA-ATTAAACTTATAATATATATAT
*
845329 ATATATATATATATAAGTATA-AAGTATAAGTAT-A-TAAA-TTAT-ATAGTATAAAT
1 ATATATATATATATAAGTATATAA-TATAAGTATAATTAAACTTATAATA-TATATAT
* *
845382 ATATAAACTATAAACTAA-TATATATATATAAG
1 ATATATA-TATATA-TAAGTATATA-ATATAAG
845414 CATATACATA
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
52 3 0.04
53 16 0.22
54 13 0.18
55 11 0.15
56 3 0.04
57 28 0.38
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (56 bp):
ATATATATATATATAAGTATATAATATAAGTATAATTAAACTTATAATATATATAT
Found at i:846360 original size:19 final size:19
Alignment explanation
Indices: 846321--846362 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
846311 TATTATAAAT
* *
846321 TCAAAATCTAACAATTTCA
1 TCAAAATCTAACAACTACA
*
846340 TCAAAATCTTACAACTACA
1 TCAAAATCTAACAACTACA
846359 TCAA
1 TCAA
846363 TTGTAACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (19 bp):
TCAAAATCTAACAACTACA
Found at i:846771 original size:32 final size:37
Alignment explanation
Indices: 846700--846784 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 37
846690 ATATTTAAAA
* *
846700 TATATTTATTAATATTTATAATAATATAATATTATAT
1 TATATTTATTAATATTTATAATAAAATAATATCATAT
846737 TATATTT-TTAATA-TTATAATAAAAT-A-ATCA-AT
1 TATATTTATTAATATTTATAATAAAATAATATCATAT
*
846769 TATATTATAATAATAT
1 TATATT-TATTAATAT
846785 AAGATATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 8 0.19
33 4 0.10
34 6 0.14
35 11 0.26
36 6 0.14
37 7 0.17
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (37 bp):
TATATTTATTAATATTTATAATAAAATAATATCATAT
Found at i:846896 original size:19 final size:18
Alignment explanation
Indices: 846872--846939 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
846862 ATATTATTAA
846872 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* **
846891 ATTATTTAT-ATTTTAAT
1 ATTATTAATAATAATAAT
846908 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
846930 ATT-TTAATAA
1 ATTATTAATAA
846940 ATATATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
17 7 0.18
18 4 0.11
19 17 0.45
20 2 0.05
22 8 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:846953 original size:23 final size:23
Alignment explanation
Indices: 846906--846978 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
846896 TTATATTTTA
*
846906 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
846930 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
846953 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
846976 ATA
1 ATA
846979 ATATAACACT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 29 0.69
24 13 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:847088 original size:16 final size:18
Alignment explanation
Indices: 847072--847107 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
847062 TAAAACTATA
847072 AAATAA-TATTTTAATAAT
1 AAATAATTATTTTAAT-AT
847090 AAATAATTATTTTAATAT
1 AAATAATTATTTTAATAT
847108 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATTATTTTAATAT
Found at i:847358 original size:16 final size:16
Alignment explanation
Indices: 847339--847372 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
847329 TGTAACTTAT
847339 AAGTCAAGTAAACATC
1 AAGTCAAGTAAACATC
* *
847355 AAGTCAGGTAAATATC
1 AAGTCAAGTAAACATC
847371 AA
1 AA
847373 ATCAGCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (16 bp):
AAGTCAAGTAAACATC
Found at i:847532 original size:26 final size:26
Alignment explanation
Indices: 847496--847551 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
847486 TCGAGTTCAT
*
847496 GTTCATTTCATTCAGATGCAGGTCAG
1 GTTCATTTCATTCAGATGCAGGCCAG
*
847522 GTTCATTTCATTTAGATGCAGGCCAG
1 GTTCATTTCATTCAGATGCAGGCCAG
847548 GTTC
1 GTTC
847552 GGTTATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCATTTCATTCAGATGCAGGCCAG
Found at i:850691 original size:20 final size:20
Alignment explanation
Indices: 850654--850691 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
850644 CTTCATAACG
*
850654 AAGTTCGAACATACGTTTTC
1 AAGTTCGAACAAACGTTTTC
850674 AAGTTCGAA-AAACAGTTT
1 AAGTTCGAACAAAC-GTTT
850692 CTTTCTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
AAGTTCGAACAAACGTTTTC
Found at i:863622 original size:35 final size:35
Alignment explanation
Indices: 863566--863634 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
863556 TGAAGTCTTG
*
863566 TAGGTTCAGCTCGATCAAAATGGTAATTCCTTATA
1 TAGGTTCAGATCGATCAAAATGGTAATTCCTTATA
* *
863601 TAGGTTCAGATTGATCGAAATGGTAATTCCTTAT
1 TAGGTTCAGATCGATCAAAATGGTAATTCCTTAT
863635 GGATCTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (35 bp):
TAGGTTCAGATCGATCAAAATGGTAATTCCTTATA
Found at i:874989 original size:70 final size:70
Alignment explanation
Indices: 874910--875056 Score: 276
Period size: 70 Copynumber: 2.1 Consensus size: 70
874900 GTGAAATTTT
874910 TATAAATAGCATGTAAACCTTCTAGGTTAAACACAACGGGAAAATCATTTTATTCTCTTCTAGTT
1 TATAAATAGCATGTAAACCTTCTAGGTTAAACACAACGGGAAAATCATTTTATTCTCTTCTAGTT
*
874975 TTTGA
66 TTCGA
874980 TATAAATAGCATGTAAACCTTCTAGGTTAAACACAACGGGAAAATCATTTTATTCTCTTCTAGTT
1 TATAAATAGCATGTAAACCTTCTAGGTTAAACACAACGGGAAAATCATTTTATTCTCTTCTAGTT
875045 TTCGA
66 TTCGA
875050 TGATAAA
1 T-ATAAA
875057 CAAAAGGCAA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 70 0.93
71 5 0.07
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (70 bp):
TATAAATAGCATGTAAACCTTCTAGGTTAAACACAACGGGAAAATCATTTTATTCTCTTCTAGTT
TTCGA
Found at i:876131 original size:18 final size:18
Alignment explanation
Indices: 876096--876132 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
876086 TTGTTCGATT
*
876096 CCATAGCTTTTCTCTTTC
1 CCATAGCTTTCCTCTTTC
*
876114 CCATAGCTTTCCTGTTTC
1 CCATAGCTTTCCTCTTTC
876132 C
1 C
876133 GTCCCTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.35, G:0.08, T:0.46
Consensus pattern (18 bp):
CCATAGCTTTCCTCTTTC
Found at i:878312 original size:30 final size:30
Alignment explanation
Indices: 878278--878337 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
878268 ATATATTTTC
878278 ATCAAAATTTATAGAATAATAACATTTTAT
1 ATCAAAATTTATAGAATAATAACATTTTAT
* * *
878308 ATCAACATTTATTGGATAATAACATTTTAT
1 ATCAAAATTTATAGAATAATAACATTTTAT
878338 TTAATGCGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
ATCAAAATTTATAGAATAATAACATTTTAT
Found at i:878966 original size:2 final size:2
Alignment explanation
Indices: 878961--878991 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
878951 ATTATTTATT
878961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
878992 TATGGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:880905 original size:21 final size:21
Alignment explanation
Indices: 880879--880937 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
880869 ATTTACCGTG
*
880879 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGCACT
* **
880900 ATTGCGGCTGTCGCGGATACT
1 ATTGCGGCCGTCGCGGGCACT
*
880921 ATTGCGGTCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
880938 TAACTCGGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.08, C:0.27, G:0.41, T:0.24
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCACT
Found at i:882904 original size:64 final size:64
Alignment explanation
Indices: 882832--882988 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
882822 TTCCCTATCG
* * **
882832 GTGCATCGATGCACTACCTGTGCATCGGTGCA-TAAAATACATTCGATGTTTGTT-TATT-ACTG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACT-AAATACATTCGATGTTT-TTAGATTAAAAG
*
882894 G
64 A
* * * *
882895 GATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACTAAATACATTCGATGTTTTTAGATTAAAAG
882959 A
64 A
882960 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
882989 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
63 6 0.08
64 64 0.83
65 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACTAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:883331 original size:13 final size:13
Alignment explanation
Indices: 883300--883335 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
883290 GATGATAATT
883300 CAAATTCATCCTC
1 CAAATTCATCCTC
883313 CAAAATTCATCCTC
1 C-AAATTCATCCTC
883327 CAAATTCAT
1 CAAATTCAT
883336 TTAAACCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAATTCATCCTC
Found at i:887523 original size:23 final size:23
Alignment explanation
Indices: 887463--887526 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
887453 CAGCTCATAT
**
887463 AATTGCACCGAAGTATCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
887486 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
887509 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
887527 TATAATAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:887713 original size:103 final size:103
Alignment explanation
Indices: 887542--887759 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
887532 TAATGTCCAT
* * *
887542 AAGGACCGCATATCATTCCTTAAGAATCATATACATAAACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
887607 GACTTCACACATGTTCCAAAGAATACATATATGTCACG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCACG
**
887645 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
*
887710 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCACG
887748 AAGGACCACATA
1 AAGGACCACATA
887760 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:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATAAACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCACG
Found at i:888382 original size:64 final size:64
Alignment explanation
Indices: 888310--888466 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 64
888300 TTCCCTATCG
* * **
888310 GTGCATCGATGCACTACCTGTGCATCGGTGC-ATAAAATACATTCGATGTTTGTT-TATTACTAG
1 GTGCATCGATGCACTACCTGTGCATCGATGCAAT-AAATACATTCGATGTTT-TTAGATTAGAAG
888373 -
64 A
* * * *
888373 GATGCATCGATGCA-TGCCTTATGCATCGATGCAATAATTGCATTCGATGTTTTTAGATTAGAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCAATAAATACATTCGATGTTTTTAGATTAGAAG
888437 A
64 A
888438 GTGCATCGATGCACTACCTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
888467 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
63 6 0.08
64 66 0.85
65 6 0.08
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCAATAAATACATTCGATGTTTTTAGATTAGAAGA
Found at i:889428 original size:23 final size:23
Alignment explanation
Indices: 889402--889453 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
889392 ATGGCACTAC
* *
889402 GGTGCAATTCTATGCGGTACTTT
1 GGTGCAATTCTACGCGGCACTTT
*
889425 GGTGCAATTCTACGTGGCACTTT
1 GGTGCAATTCTACGCGGCACTTT
889448 GGTGCA
1 GGTGCA
889454 TTTATACAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (23 bp):
GGTGCAATTCTACGCGGCACTTT
Found at i:890241 original size:25 final size:21
Alignment explanation
Indices: 890208--890284 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 21
890198 AGTGTTATTA
890208 GTTTGTTATTAGCTTGTTATG
1 GTTTGTTATTAGCTTGTTATG
*
890229 GTTTGCTTGTTATTAGTTTGTTATG
1 G--T--TTGTTATTAGCTTGTTATG
*
890254 GTTTGTTATTAGCTTGTTATTA
1 GTTTGTTATTAGCTTGTTA-TG
890276 GTTTGTTAT
1 GTTTGTTAT
890285 GGTTTGTTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 17 0.35
22 10 0.21
23 2 0.04
25 19 0.40
ACGTcount: A:0.14, C:0.04, G:0.22, T:0.60
Consensus pattern (21 bp):
GTTTGTTATTAGCTTGTTATG
Found at i:890292 original size:10 final size:11
Alignment explanation
Indices: 890200--890284 Score: 91
Period size: 11 Copynumber: 7.5 Consensus size: 11
890190 AATGTTAGAG
890200 TGTTATTAGTT
1 TGTTATTAGTT
*
890211 TGTTATTAGCT
1 TGTTATTAGTT
* *
890222 TGTTATGGTTTGCT
1 TGTTA---TTAGTT
890236 TGTTATTAGTT
1 TGTTATTAGTT
*
890247 TGTTA-TGGTT
1 TGTTATTAGTT
*
890257 TGTTATTAGCT
1 TGTTATTAGTT
890268 TGTTATTAGTT
1 TGTTATTAGTT
890279 TGTTAT
1 TGTTAT
890285 GGTTTGTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.15
11 43 0.69
14 10 0.16
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:893962 original size:21 final size:22
Alignment explanation
Indices: 893938--893981 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
893928 TTCTAAACCC
893938 TAAATTCT-AAAATACTTCAAT
1 TAAATTCTAAAAATACTTCAAT
893959 TAAATTCTAAAAATACTTCAAT
1 TAAATTCTAAAAATACTTCAAT
893981 T
1 T
893982 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATTCTAAAAATACTTCAAT
Found at i:897190 original size:128 final size:128
Alignment explanation
Indices: 896962--897217 Score: 503
Period size: 128 Copynumber: 2.0 Consensus size: 128
896952 TTTATCTGAA
*
896962 AACTGCAACATATTAGAATAGGAACTTATATATCTTGCATTTGGCTTCATTATACATGTTCTTGA
1 AACTGCAACATATTAGAATAGGAAATTATATATCTTGCATTTGGCTTCATTATACATGTTCTTGA
897027 GTTGTGTTACCTTCATGTTTATAATTTAGTACACTTACTCCTAATTTCTACAAGCACTACATT
66 GTTGTGTTACCTTCATGTTTATAATTTAGTACACTTACTCCTAATTTCTACAAGCACTACATT
897090 AACTGCAACATATTAGAATAGGAAATTATATATCTTGCATTTGGCTTCATTATACATGTTCTTGA
1 AACTGCAACATATTAGAATAGGAAATTATATATCTTGCATTTGGCTTCATTATACATGTTCTTGA
897155 GTTGTGTTACCTTCATGTTTATAATTTAGTACACTTACTCCTAATTTCTACAAGCACTACATT
66 GTTGTGTTACCTTCATGTTTATAATTTAGTACACTTACTCCTAATTTCTACAAGCACTACATT
897218 CATAAAAGAC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.41
Consensus pattern (128 bp):
AACTGCAACATATTAGAATAGGAAATTATATATCTTGCATTTGGCTTCATTATACATGTTCTTGA
GTTGTGTTACCTTCATGTTTATAATTTAGTACACTTACTCCTAATTTCTACAAGCACTACATT
Found at i:899550 original size:17 final size:18
Alignment explanation
Indices: 899522--899558 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
899512 TTCCTCCATT
899522 CCCAACTCTCCGCCACCG
1 CCCAACTCTCCGCCACCG
899540 CCCAA-TCTCCGCCACCG
1 CCCAACTCTCCGCCACCG
899557 CC
1 CC
899559 ACCACTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.16, C:0.62, G:0.11, T:0.11
Consensus pattern (18 bp):
CCCAACTCTCCGCCACCG
Found at i:902876 original size:87 final size:87
Alignment explanation
Indices: 902730--902914 Score: 334
Period size: 87 Copynumber: 2.1 Consensus size: 87
902720 ACGACTTTGA
*
902730 TCAATATATGTGGGGGTTCAGGCAATGTAGAAGGTGCAGTTCAGGTTAGGTATCCTTTCATTAAG
1 TCAATATATGTGGGGGTTCAGGCAATGTAGAAGGTGCAGTTCAGGTTAGGTATCCTTTCATGAAG
902795 GAATTTTATCTTATTTTCCTCT
66 GAATTTTATCTTATTTTCCTCT
*
902817 TCAATATATGTGGGGGTTCAGGCAATGTAGAAGGTGCAGTTTAGGTTAGGTATCCTTTCATGAAG
1 TCAATATATGTGGGGGTTCAGGCAATGTAGAAGGTGCAGTTCAGGTTAGGTATCCTTTCATGAAG
902882 GAATTTTATCTTATTTTCCTCT
66 GAATTTTATCTTATTTTCCTCT
* *
902904 TCCATTTATGT
1 TCAATATATGT
902915 TGTTTCTCTA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (87 bp):
TCAATATATGTGGGGGTTCAGGCAATGTAGAAGGTGCAGTTCAGGTTAGGTATCCTTTCATGAAG
GAATTTTATCTTATTTTCCTCT
Found at i:909057 original size:23 final size:21
Alignment explanation
Indices: 909034--909081 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
909024 GAGATGTTAT
*
909034 TTTAATTTAAAATATTATAATA
1 TTTAA-TTAAAAAATTATAATA
909056 TTTAATTAAAAAATTAT-ATA
1 TTTAATTAAAAAATTATAATA
*
909076 ATTAAT
1 TTTAAT
909082 AATAATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAATTAAAAAATTATAATA
Found at i:912109 original size:16 final size:16
Alignment explanation
Indices: 912062--912109 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
912052 TTTGGAATGA
912062 TAACTACTCAGGTCTT
1 TAACTACTCAGGTCTT
* **
912078 GAAGCTAC-CAAATCTT
1 TAA-CTACTCAGGTCTT
912094 TAACTACTCAGGTCTT
1 TAACTACTCAGGTCTT
912110 GAATCTCTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (16 bp):
TAACTACTCAGGTCTT
Found at i:918940 original size:20 final size:20
Alignment explanation
Indices: 918917--919043 Score: 182
Period size: 20 Copynumber: 6.3 Consensus size: 20
918907 GAATATGTAA
* * *
918917 ATCGCAATGCGAGTATGACT
1 ATCGCAACGCGATTCTGACT
918937 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
918957 ATCGCAACGAGATTTTGACT
1 ATCGCAACGCGATTCTGACT
*
918977 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
918997 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
919017 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
919037 ATCGCAA
1 ATCGCAA
919044 TGCAATTTTC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 97 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:918963 original size:60 final size:60
Alignment explanation
Indices: 918893--919028 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 60
918883 GCGATTTTCC
* * *
918893 GACTATCGCAATGCGAATATGTA-AATCGCAATGCGAGTATGACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGAATATG-ACAATCGCAACGAGAGTATGACTATCGCAACGCGATTCT
* * * * * *
918953 GACTATCGCAACGAGATTTTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGAATATGACAATCGCAACGAGAGTATGACTATCGCAACGCGATTCT
*
919013 GACTGTCGCAACGCGA
1 GACTATCGCAACGCGA
919029 TGCTGACTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 63 0.98
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (60 bp):
GACTATCGCAACGCGAATATGACAATCGCAACGAGAGTATGACTATCGCAACGCGATTCT
Found at i:919259 original size:22 final size:23
Alignment explanation
Indices: 919214--919267 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
919204 CACTCTCTAA
919214 GACGAAATCAGTCCCCAATCTCC
1 GACGAAATCAGTCCCCAATCTCC
919237 GACGAAATCAGTCCCC-ATCTCC
1 GACGAAATCAGTCCCCAATCTCC
*
919259 GGCGAAATC
1 GACGAAATC
919268 CATCTATCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (23 bp):
GACGAAATCAGTCCCCAATCTCC
Found at i:919696 original size:19 final size:20
Alignment explanation
Indices: 919653--919739 Score: 97
Period size: 20 Copynumber: 4.5 Consensus size: 20
919643 ATAATCGCAA
* *
919653 TGCGATTTT-AGTTTCGCAT
1 TGCGATTTTCATTTTCGCGT
*
919672 TTCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
919691 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
919711 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
919731 TGCGATTTT
1 TGCGATTTT
919740 AAGTTTCAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 23 0.40
20 35 0.60
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:919737 original size:20 final size:20
Alignment explanation
Indices: 919674--919739 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
919664 TTTCGCATTT
*
919674 CGATTTTCA-TTTCGCGTTG
1 CGATTTTCATTTTCGTGTTG
**
919693 CGATAGTCATTTTCGTGTTG
1 CGATTTTCATTTTCGTGTTG
919713 CGATTTTCATTTTCGTGTTG
1 CGATTTTCATTTTCGTGTTG
919733 CGATTTT
1 CGATTTT
919740 AAGTTTCAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
CGATTTTCATTTTCGTGTTG
Found at i:921672 original size:20 final size:20
Alignment explanation
Indices: 921647--921692 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
921637 GTTTACTTTT
921647 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
921667 GCAACGTGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
921687 GCAACG
1 GCAACG
921693 AAAGAATCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:921760 original size:20 final size:20
Alignment explanation
Indices: 921735--921810 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
921725 GCGATTCTCT
**
921735 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
921755 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
921775 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
921795 CGTTACGATAGTCATT
1 CGTTGCGATAGTCATT
921811 CGTGTTACGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:921817 original size:18 final size:19
Alignment explanation
Indices: 921735--921821 Score: 95
Period size: 20 Copynumber: 4.5 Consensus size: 19
921725 GCGATTCTCT
* *
921735 CGTTGCGATAGTCAAATTCG
1 CGTTACGATAGTC-ATTTCG
*
921755 CGTTGCGATAGTCATTTTCG
1 CGTTACGATAGTCA-TTTCG
*
921775 CGTTGCGATAGTCATTTTCG
1 CGTTACGATAGTCA-TTTCG
921795 CGTTACGATAGTCA-TTCG
1 CGTTACGATAGTCATTTCG
*
921813 TGTTACGAT
1 CGTTACGAT
921822 TTTAAGTTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 12 0.19
19 1 0.02
20 50 0.79
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTACGATAGTCATTTCG
Found at i:922402 original size:21 final size:21
Alignment explanation
Indices: 922311--922409 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
922301 GACTCACATG
922311 TCATCGTTCAAGAGG--ACTCC
1 TCATCGTTCAAGAGGCCACT-C
* * *
922331 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
922353 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* * *
922374 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
922395 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
922410 TCCCTCCCAA
Statistics
Matches: 58, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 54 0.93
22 1 0.02
23 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:922408 original size:42 final size:42
Alignment explanation
Indices: 922336--922418 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
922326 ACTCCCCTAT
*
922336 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
922378 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
922419 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:923841 original size:14 final size:14
Alignment explanation
Indices: 923804--923865 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
923794 TTTCTTGTTT
*
923804 AATTGATTTATAAA
1 AATTGATTTGTAAA
923818 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
923832 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
923847 TATTGATGTGTAAA
1 AATTGATTTGTAAA
923861 TAATT
1 -AATT
923866 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:923989 original size:20 final size:20
Alignment explanation
Indices: 923964--924016 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
923954 AGGTACACTT
* **
923964 TCGCAACGCTAAACTTAAAA
1 TCGCAACGCGAAACACAAAA
* *
923984 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAACACAAAA
924004 TCGCAACGCGAAA
1 TCGCAACGCGAAA
924017 GTCAATTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACACAAAA
Found at i:924017 original size:20 final size:20
Alignment explanation
Indices: 923980--924017 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
923970 CGCTAAACTT
*
923980 AAAATCGCAATGCGAAAGAC
1 AAAATCGCAACGCGAAAGAC
924000 AAAATCGCAACGCGAAAG
1 AAAATCGCAACGCGAAAG
924018 TCAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAGAC
Found at i:924033 original size:19 final size:20
Alignment explanation
Indices: 924011--924052 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
924001 AAATCGCAAC
*
924011 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
924030 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
924050 GCG
1 GCG
924053 CTTTTCTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:924085 original size:20 final size:20
Alignment explanation
Indices: 924060--924324 Score: 268
Period size: 20 Copynumber: 13.8 Consensus size: 20
924050 GCGCTTTTCT
* *
924060 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
924080 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
924100 CGTTGCAATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
924120 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
924140 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
924154 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
*
924173 TCATTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
*
924194 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
924214 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
924234 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
924254 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
924268 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
924288 CGTTGCGATCGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
924308 CATTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
924325 GAATGTGTAA
Statistics
Matches: 201, Mismatches: 30, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
14 23 0.11
16 2 0.01
18 2 0.01
19 1 0.00
20 171 0.85
21 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:924158 original size:74 final size:74
Alignment explanation
Indices: 924080--924222 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
924070 GTCAAATACC
* * * *
924080 CGTTGCGATAATCAAATTCG-CGTTGCAATACTCAAATTCGTGTTGCGATAGTCAAATTCGCGTT
1 CGTTGCGATAATCAAA-TAGTCATTGCAATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTT
924144 GCGATTTTCT
65 GCGATTTTCT
* * *
924154 CGTTGCGATAGTCAAATAGTCATTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTG
1 CGTTGCGATAATCAAATAGTCATTGCAATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTTG
924219 CGAT
66 CGAT
924223 AGTCATATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 2 0.03
74 59 0.97
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (74 bp):
CGTTGCGATAATCAAATAGTCATTGCAATACTCAAATTCGCGTTGCGATAGACAAATTCGCGTTG
CGATTTTCT
Found at i:924181 original size:94 final size:94
Alignment explanation
Indices: 924020--924242 Score: 320
Period size: 94 Copynumber: 2.4 Consensus size: 94
924010 CGCGAAAGTC
* * * * *
924020 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGCTTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCATTG
*
924085 CGATAATCAAATTCGCGTTGCAATACTCA
66 CGATAATCAAATTCGCGTTGCAATACACA
* **
924114 AATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATAGTCATTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCATTG
* * *
924179 CGATAGTCAAATTCGCGTTGCGATAGACA
66 CGATAATCAAATTCGCGTTGCAATACACA
* *
924208 AATTCGCGTTGCGATAGTCATATTCGTGTTGCGAT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
924243 AGTCAAATTC
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCATTG
CGATAATCAAATTCGCGTTGCAATACACA
Found at i:924182 original size:54 final size:54
Alignment explanation
Indices: 924059--924316 Score: 218
Period size: 54 Copynumber: 4.6 Consensus size: 54
924049 TGCGCTTTTC
* * * * *
924059 TCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCAATACTCAAATTCG
1 TCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCTCGTTGCGATAGTCAAA-TCG
*
924120 T-GTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATAG
1 TCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATCG
* * * *
924173 TCATTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTCGCGTTGCGATAGTCATATTCG
1 TCGTTGCGATAGTCAAATTCGCGTTGCGAT------TTTCTCGTTGCGATAGTCA-AATCG
* *
924234 T-GTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAATTCG
1 TCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAA-TCG
* *
924288 -CGTTGCGATCGTCAAATTCGCATTGCGAT
1 TCGTTGCGATAGTCAAATTCGCGTTGCGAT
924317 ATTCAAATGA
Statistics
Matches: 167, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
53 4 0.02
54 87 0.52
58 1 0.01
60 70 0.42
61 5 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (54 bp):
TCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATCG
Found at i:924233 original size:114 final size:114
Alignment explanation
Indices: 924062--924324 Score: 370
Period size: 114 Copynumber: 2.3 Consensus size: 114
924052 GCTTTTCTCG
* *
924062 TTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCAATACTCAAATTCGTGTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCAATACTCAAATTCGTGTTGCG
* *
924127 ATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAA-TAGTCA
66 ATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAATTAG-CA
* * *
924176 TTGCGATAGTCAAATTCGCGTTGCGATAGA-CAAATTCGCGTTGCGATAGTCATATTCGTGTTGC
1 TTGCGATAGTCAAATTCGCGTTGCGATA-ATCAAATTCGCGTTGCAATACTCAAATTCGTGTTGC
* *
924240 GATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCGCG
65 GATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTAGCA
* * *
924290 TTGCGATCGTCAAATTCGCATTGCGATATTCAAAT
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAAT
924325 GAATGTGTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
113 1 0.01
114 129 0.97
115 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (114 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCAATACTCAAATTCGTGTTGCG
ATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTAGCA
Found at i:924550 original size:140 final size:140
Alignment explanation
Indices: 924298--924564 Score: 507
Period size: 140 Copynumber: 1.9 Consensus size: 140
924288 CGTTGCGATC
924298 GTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
1 GTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
* *
924363 TAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGATAATGTTAAAAGTTTACACATAAAAT
66 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAAT
924428 ACACATAATA
131 ACACATAATA
*
924438 GTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
1 GTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
924503 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
924565 TACAACGTTT
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (140 bp):
GTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAAT
ACACATAATA
Found at i:924647 original size:18 final size:18
Alignment explanation
Indices: 924624--924658 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
924614 AAGCCGGTTG
*
924624 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
924642 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
924659 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:926713 original size:14 final size:14
Alignment explanation
Indices: 926694--926729 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
926684 TCCCGTGGCA
926694 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
926708 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
926722 TTTTCTTC
1 TTTTCTTC
926730 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.19, G:0.22, T:0.53
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:926953 original size:24 final size:24
Alignment explanation
Indices: 926919--926972 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
926909 CTGAAACATC
926919 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
926943 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
926967 ATCAAA
1 ATCAAA
926973 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:927838 original size:40 final size:40
Alignment explanation
Indices: 927809--927944 Score: 236
Period size: 40 Copynumber: 3.4 Consensus size: 40
927799 ACAGTCAGAA
* *
927809 TCGCGTTGCGATAGTCATAATCGCATTGCGATTTACATAT
1 TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
927849 TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
1 TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
927889 TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
1 TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
* *
927929 TCGCATTGCGATAGTC
1 TCGCGTTTCGATAGTC
927945 GAAAAATCGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (40 bp):
TCGCGTTTCGATAGTCATACTCGCATTGCGATTTACATAT
Found at i:927840 original size:20 final size:20
Alignment explanation
Indices: 927794--927944 Score: 128
Period size: 20 Copynumber: 7.5 Consensus size: 20
927784 AAATTTAGTG
* * * *
927794 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCATATTCGCA
*
927814 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCATATTCGCA
* *
927834 TTGCGAT-TTACATATTCGCG
1 TTGCGATAGT-CATATTCGCA
* *
927854 TTTCGATAGTCATACTCGCA
1 TTGCGATAGTCATATTCGCA
* *
927874 TTGCGAT-TTACATATTCGCG
1 TTGCGATAGT-CATATTCGCA
* *
927894 TTTCGATAGTCATACTCGCA
1 TTGCGATAGTCATATTCGCA
*
927914 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CATATTCGCA
927934 TTGCGATAGTC
1 TTGCGATAGTC
927945 GAAAAATCGC
Statistics
Matches: 103, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.03
20 97 0.94
21 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATATTCGCA
Found at i:927961 original size:22 final size:22
Alignment explanation
Indices: 927936--927987 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
927926 TATTCGCATT
927936 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
927958 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
927979 GCGATAGTC
1 GCGATAGTC
927988 AGAATCGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:928006 original size:41 final size:40
Alignment explanation
Indices: 927958--928045 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
927948 AAATCGCAAC
*
927958 GCGAATTTGGAAAATCGCA-ATGCGATAGTCAGA-ATCGCGTT
1 GCGAATTTGGAAAAT-G-ATATGCGATA-CCAGAGATCGCGTT
* *
927999 GCGAATTTGGAAACTGATTTGCGATACCAGAGATCGCGTT
1 GCGAATTTGGAAAATGATATGCGATACCAGAGATCGCGTT
928039 GCGAATT
1 GCGAATT
928046 ATCGATCACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 5 0.12
40 23 0.55
41 14 0.33
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (40 bp):
GCGAATTTGGAAAATGATATGCGATACCAGAGATCGCGTT
Found at i:932365 original size:108 final size:108
Alignment explanation
Indices: 932246--932491 Score: 270
Period size: 108 Copynumber: 2.3 Consensus size: 108
932236 CTTAGTGTCG
* * *
932246 ATACGGTAATTCACAAACTCATTATGAATTACGTGGA-G-TGCACATATAATGCCAAAAC-AAAA
1 ATACGGAAATTCATAAACTCATTATGAATTAC-T-GATGTTGCACACATAATGCCAAAACGAAAA
*
932308 TTCAT-AACTAATTATGAATTTCTTAAGTTGCACACACACAGTGCCA-
64 TTCATAAACTAATTATGAATTTCTTAAGATG--CACACACAGTG-CAT
* * * * *
932354 ATACGGAAATTCATAAAC-CAATTATGAATTTCTTATGTTGCACACATAGTGTCAATACGAAAAT
1 ATACGGAAATTCATAAACTC-ATTATGAATTACTGATGTTGCACACATAATGCCAAAACGAAAAT
* * *
932418 TCATAAATTAATTATGAATTTCTTAGGATGCACATACAGTGCAT
65 TCATAAACTAATTATGAATTTCTTAAGATGCACACACAGTGCAT
* *
932462 ATACGAAAATTCATAAACTAATTATGAATT
1 ATACGGAAATTCATAAACTCATTATGAATT
932492 TTTTAGGTTG
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
106 1 0.01
107 5 0.04
108 80 0.68
109 9 0.08
110 22 0.19
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (108 bp):
ATACGGAAATTCATAAACTCATTATGAATTACTGATGTTGCACACATAATGCCAAAACGAAAATT
CATAAACTAATTATGAATTTCTTAAGATGCACACACAGTGCAT
Found at i:932422 original size:54 final size:53
Alignment explanation
Indices: 932304--932509 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 53
932294 ATGCCAAAAC
*
932304 AAAATTCAT-AACTAATTATGAATTTCTTAAGTTGCACACACACAGTGCCAATACG
1 AAAATTCATAAACTAATTATGAATTTCTTAGGTTG--CACACACAGTG-CAATACG
* * * *
932359 GAAATTCATAAACCAATTATGAATTTCTTATGTTGCACACATAGTGTCAATACG
1 AAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACACAGTG-CAATACG
* * *
932413 AAAATTCATAAATTAATTATGAATTTCTTAGGATGCACATACAGTGCATATACG
1 AAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACACAGTGCA-ATACG
*
932467 AAAATTCATAAACTAATTATGAATTTTTTAGGTTGCACACACA
1 AAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACACA
932510 ATGTCATTCG
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.02
54 100 0.75
55 8 0.06
56 23 0.17
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (53 bp):
AAAATTCATAAACTAATTATGAATTTCTTAGGTTGCACACACAGTGCAATACG
Found at i:933330 original size:12 final size:12
Alignment explanation
Indices: 933312--933352 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
933302 ACTATACGGT
933312 ATGAACAATACC
1 ATGAACAATACC
*
933324 GTGAACAATA--
1 ATGAACAATACC
933334 ATGAACAATACC
1 ATGAACAATACC
933346 ATGAACA
1 ATGAACA
933353 GTGCTACAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:933380 original size:21 final size:21
Alignment explanation
Indices: 933354--933394 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
933344 CCATGAACAG
* *
933354 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTACACCGATGCAT
933375 TGCTACAGTACACCGATGCA
1 TGCTACAGTACACCGATGCA
933395 CTAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCTACAGTACACCGATGCAT
Found at i:934191 original size:62 final size:63
Alignment explanation
Indices: 934101--934220 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 63
934091 AACCTCGAAA
* *
934101 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA-AATGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAAGAACATAGGTAATAATGTCCATATGTTCCGTAGAACATAGGTAT
* * **
934163 ACTGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATA
1 ACTGTCCATAGGTCCCGAAGA-ACATAGGTAATAATGTCCATATGTTCCGTAGAACATA
934221 AGTAAACCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 26 0.52
63 23 0.46
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (63 bp):
ACTGTCCATAGGTCCCGAAGAACATAGGTAATAATGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:934220 original size:32 final size:32
Alignment explanation
Indices: 934101--934225 Score: 123
Period size: 31 Copynumber: 4.0 Consensus size: 32
934091 AACCTCGAAA
* * * *
934101 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
934132 AATGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
*
934163 ACTGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
* *
934195 TCTGTCCATATGTTCCGTAGAACATAAGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
934226 ACCCTCGACT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
30 5 0.07
31 43 0.57
32 24 0.32
33 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:936144 original size:42 final size:42
Alignment explanation
Indices: 936016--936303 Score: 350
Period size: 43 Copynumber: 6.8 Consensus size: 42
936006 CTGTACACCA
* * * *
936016 GTAAGGCTTAACCTGTGCACAAAGCAGA-GGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCTTTGCACACAGCAAAGGGA-CCT-GGGAAACT
* * * *
936060 GTAAGGCTTACCCTTGCACATAACAAAAGGGACATGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGC-AAAGGGACCTGGGAAACT
936103 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* *
936145 GTAAGGCTTACCTTTGCACACAACAAAAGGGACATGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGC-AAAGGGACCTGGGAAACT
* *
936188 GTAAGTCTTACCTTTGCACACA--AAATGGACCTGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* *
936228 GTAAGG-TTACCTTTGCACACATCAAAGGGACATGGGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* * *
936269 GTATGGCTTACCTTTGCATACAGCAAAGAGACCTG
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
936304 ATAATACTTC
Statistics
Matches: 214, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
39 15 0.07
40 21 0.10
41 21 0.10
42 64 0.30
43 77 0.36
44 13 0.06
45 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (42 bp):
GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
Found at i:936162 original size:85 final size:85
Alignment explanation
Indices: 936016--936303 Score: 406
Period size: 85 Copynumber: 3.4 Consensus size: 85
936006 CTGTACACCA
* * * * *
936016 GTAAGGCTTAACCTGTGCACAAAGCAGA-GGAGCCTAGGAAAACTGTAAGGCTTACCCTTGCACA
1 GTAAGGCTT-ACCTTTGCACACAGCAAAGGGA-CCT-GGGAAACTGTAAGGCTTACCTTTGCACA
*
936080 TAACAAAAGGGACATGGGAAACT
63 CAACAAAAGGGACATGGGAAACT
936103 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTTGCACACAA
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTTGCACACAA
936168 CAAAAGGGACATGGGAAACT
66 CAAAAGGGACATGGGAAACT
* * *
936188 GTAAGTCTTACCTTTGCACACA--AAATGGACCTGGGAAACTGTAAGG-TTACCTTTGCACACAT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTTGCACACAA
936250 C-AAAGGGACATGGGAAACT
66 CAAAAGGGACATGGGAAACT
* * *
936269 GTATGGCTTACCTTTGCATACAGCAAAGAGACCTG
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
936304 ATAATACTTC
Statistics
Matches: 184, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
81 37 0.20
82 16 0.09
83 32 0.17
85 69 0.38
86 18 0.10
87 12 0.07
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (85 bp):
GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTTGCACACAA
CAAAAGGGACATGGGAAACT
Found at i:937280 original size:30 final size:28
Alignment explanation
Indices: 937243--937448 Score: 216
Period size: 29 Copynumber: 7.0 Consensus size: 28
937233 CAATTATTAC
* * *
937243 CCTTTTAAGAAATATTTAAGAAACTATCA
1 CCTTTTAA-AAATATTTACGAAAATAACA
937272 CTCTTTTAAAAATATTTACGAAAATAACA
1 C-CTTTTAAAAATATTTACGAAAATAACA
937301 CCATTTTAAAAATATTTACGAAAATAACA
1 CC-TTTTAAAAATATTTACGAAAATAACA
* * * *
937330 CTATTTTTAAAAAATAATTATGAAAATAGCA
1 C--CTTTT-AAAAATATTTACGAAAATAACA
* *
937361 CCATTTTAAAAATAATTACGAAAATAGCA
1 CC-TTTTAAAAATATTTACGAAAATAACA
*
937390 CCATTTTAAAAATAATTACGAAAATAACA
1 CC-TTTTAAAAATATTTACGAAAATAACA
*
937419 CCATTTTAAAAATAATTAC-AAAACTAACA
1 CC-TTTTAAAAATATTTACGAAAA-TAACA
937448 C
1 C
937449 TCGGTCAACG
Statistics
Matches: 160, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
28 5 0.03
29 120 0.75
30 15 0.09
31 20 0.12
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (28 bp):
CCTTTTAAAAATATTTACGAAAATAACA
Found at i:937287 original size:29 final size:29
Alignment explanation
Indices: 937275--937448 Score: 260
Period size: 29 Copynumber: 5.9 Consensus size: 29
937265 ACTATCACTC
*
937275 TTTTAAAAATATTTACGAAAATAACACCA
1 TTTTAAAAATAATTACGAAAATAACACCA
* *
937304 TTTTAAAAATATTTACGAAAATAACACTA
1 TTTTAAAAATAATTACGAAAATAACACCA
* *
937333 TTTTTAAAAAATAATTATGAAAATAGCACCA
1 -TTTT-AAAAATAATTACGAAAATAACACCA
*
937364 TTTTAAAAATAATTACGAAAATAGCACCA
1 TTTTAAAAATAATTACGAAAATAACACCA
937393 TTTTAAAAATAATTACGAAAATAACACCA
1 TTTTAAAAATAATTACGAAAATAACACCA
937422 TTTTAAAAATAATTAC-AAAACTAACAC
1 TTTTAAAAATAATTACGAAAA-TAACAC
937449 TCGGTCAACG
Statistics
Matches: 135, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
28 4 0.03
29 102 0.76
30 8 0.06
31 21 0.16
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (29 bp):
TTTTAAAAATAATTACGAAAATAACACCA
Found at i:937396 original size:89 final size:87
Alignment explanation
Indices: 937275--937436 Score: 270
Period size: 89 Copynumber: 1.8 Consensus size: 87
937265 ACTATCACTC
* * *
937275 TTTTAAAAATATTTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACTATTTTTAA
1 TTTTAAAAATAATTACGAAAATAACACCATTTTAAAAATAATTACGAAAATAACACCA-TTTT-A
937340 AAAATAATTATGAAAATAGCACCA
64 AAAATAATTATGAAAATAGCACCA
*
937364 TTTTAAAAATAATTACGAAAATAGCACCATTTTAAAAATAATTACGAAAATAACACCATTTTAAA
1 TTTTAAAAATAATTACGAAAATAACACCATTTTAAAAATAATTACGAAAATAACACCATTTTAAA
937429 AATAATTA
66 AATAATTA
937437 CAAAACTAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 11 0.16
88 4 0.06
89 54 0.78
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.32
Consensus pattern (87 bp):
TTTTAAAAATAATTACGAAAATAACACCATTTTAAAAATAATTACGAAAATAACACCATTTTAAA
AATAATTATGAAAATAGCACCA
Found at i:937487 original size:13 final size:13
Alignment explanation
Indices: 937469--937493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
937459 GTCAACGATT
937469 AACGGGTCGGGTC
1 AACGGGTCGGGTC
937482 AACGGGTCGGGT
1 AACGGGTCGGGT
937494 TGGAACCGGT
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:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:948096 original size:12 final size:12
Alignment explanation
Indices: 948079--948103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
948069 TAAAAGTTTA
948079 TTTTAATATTTT
1 TTTTAATATTTT
948091 TTTTAATATTTT
1 TTTTAATATTTT
948103 T
1 T
948104 AAATAATTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTAATATTTT
Found at i:948977 original size:14 final size:14
Alignment explanation
Indices: 948960--949005 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
948950 GTATTAATTA
948960 TTTTATTATTTAAT
1 TTTTATTATTTAAT
948974 TTTTATTATTTAA-
1 TTTTATTATTTAAT
*
948987 TTTAATTATTTTAAT
1 TTTTATTA-TTTAAT
949002 TTTT
1 TTTT
949006 TACAGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 7 0.25
14 18 0.64
15 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTATTTAAT
Found at i:949277 original size:13 final size:13
Alignment explanation
Indices: 949259--949320 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
949249 AACTGCAAAA
949259 AAATAAAATAATT
1 AAATAAAATAATT
949272 AAATAAAATAA-T
1 AAATAAAATAATT
949284 -AATAAAA-AATT
1 AAATAAAATAATT
949295 AAATAATACAATAATT
1 AAAT-A-A-AATAATT
949311 AAATAAAATA
1 AAATAAAATA
949321 CTAACAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
10 2 0.05
11 8 0.19
12 4 0.09
13 16 0.37
14 2 0.05
15 3 0.07
16 8 0.19
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:949298 original size:23 final size:24
Alignment explanation
Indices: 949260--949316 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
949250 ACTGCAAAAA
*
949260 AATAAAATAATTAAATAAAATAAT
1 AATAAAATAATTAAATAAAACAAT
*
949284 AATAAAA-AATTAAATAATACAAT
1 AATAAAATAATTAAATAAAACAAT
*
949307 AATTAAATAA
1 AATAAAATAA
949317 AATACTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AATAAAATAATTAAATAAAACAAT
Found at i:952818 original size:226 final size:229
Alignment explanation
Indices: 952295--953222 Score: 1639
Period size: 226 Copynumber: 4.1 Consensus size: 229
952285 GTTATATTGT
* *
952295 AAAGTATCTATCA-TTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
952358 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
*
952423 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
952488 AAAAAAATTG-AA-ATAAATTATATAACTTT-AAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
952520 AAAGTATATATCATTTTTATAAAAGTGTCTATACTTATTTCACTGTGGAAAACATATTTATTA-T
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
952584 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
952649 TAA-TTTTT-TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
952711 AAAAATTTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
952745 AAAATATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
952810 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
952875 TAATTTTTTGTGTAAATGAAATTATTAAA-TAATA-TGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
*
952937 AAAAATTTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
952971 AAAGTATATATCATTTTTATAAAAGTGTCC-TACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
953035 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
953100 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
953165 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
* ** *
953199 AAAGTGTCGATCCTTTTTATAAAA
1 AAAGTATATATCATTTTTATAAAA
953223 AGTATGGACA
Statistics
Matches: 677, Mismatches: 15, Indels: 19
0.95 0.02 0.03
Matches are distributed among these distances:
222 9 0.01
223 55 0.08
224 20 0.03
225 217 0.32
226 251 0.37
227 52 0.08
228 73 0.11
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:953289 original size:23 final size:23
Alignment explanation
Indices: 953258--953315 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
953248 GTAAAAATAG
953258 ATGT-ATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
953280 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
953303 ATGTAATAGGTAG
1 ATGTAATAGGTAG
953316 TTGTAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:953762 original size:23 final size:23
Alignment explanation
Indices: 953731--953793 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
953721 ATAGGTAAAA
*
953731 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
953754 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
953777 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
953794 GTTGTAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:954230 original size:472 final size:479
Alignment explanation
Indices: 953021--954667 Score: 2995
Period size: 472 Copynumber: 3.5 Consensus size: 479
953011 ACTGTGGAAA
*
953021 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
*
953086 ATC-AAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
953150 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
953215 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA-GATGT-ATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
953278 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATC--TCCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
953341 AGTGTCCATAC-TTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
*
953405 ATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATA-TATTATT
953470 AAATTAAAAATAATAAAAATATATATT
454 AAATTAAAAATAAT-AAAATATATATT
953497 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
953562 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
953627 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAATAAA-TGTCGATCCTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAA-AAAGTGTCGATCCTT
*
953691 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACGCTTAT
195 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT
953756 ATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAA
260 ATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAA
953821 AAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
325 AAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
953886 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTACGTTACGATATATATATTATTA
390 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATATTATTA
*
953950 AATTAAAAACAATAAAATATATATT
455 AATTAAAAATAATAAAATATATATT
953975 ACATA-TTATTATTATCTTTGGTTAATATTGTTAAA-TTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
954038 ATCAAAACAATC-AATAA-TTTTTGTGTAAATGAAATTATTAAATTAATA-TGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
* *
954100 AT-AAAAACTATTAAAAAAAATTAAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
954164 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
954229 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATTCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
954294 AGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
954359 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG--ATATATATTATTA
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATATTATT-
954422 AAATTAAAAATAATAAAA-ATATATT
454 AAATTAAAAATAATAAAATATATATT
954447 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
* * *
954512 ATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAAT
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
* *
954577 ATGAAACACTATTAAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTT
131 ATGAAACACTATT-AAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTT
954642 TTTATAAAAAGTATGGACACTTTCAA
195 TTTATAAAAAGTATGGACACTTTCAA
954668 CATATTATAA
Statistics
Matches: 1136, Mismatches: 17, Indels: 33
0.96 0.01 0.03
Matches are distributed among these distances:
471 3 0.00
472 309 0.27
473 63 0.06
474 83 0.07
475 10 0.01
476 137 0.12
477 207 0.18
478 34 0.03
479 159 0.14
480 19 0.02
481 24 0.02
482 88 0.08
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (479 bp):
ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
AGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATATTATTAA
ATTAAAAATAATAAAATATATATT
Found at i:954234 original size:23 final size:23
Alignment explanation
Indices: 954203--954266 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
954193 ATAGGTAAAA
*
954203 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
954226 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
954249 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
954267 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:956107 original size:7 final size:7
Alignment explanation
Indices: 956097--956152 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
956087 ACCCTTTATA
956097 TTTTAAT
1 TTTTAAT
956104 TTTT-AT
1 TTTTAAT
*
956110 TAATTTATT
1 T--TTTAAT
956119 TTTTAAT
1 TTTTAAT
956126 TTTTAAT
1 TTTTAAT
* *
956133 TAATTATT
1 T-TTTAAT
956141 TTTTAAT
1 TTTTAAT
956148 TTTTA
1 TTTTA
956153 TGTTATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 3 0.08
7 26 0.67
8 8 0.21
9 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:956122 original size:22 final size:22
Alignment explanation
Indices: 956091--956153 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
956081 AATAGTACCC
*
956091 TTTATATTTTAATTTTTATTAA
1 TTTATTTTTTAATTTTTATTAA
956113 TTTATTTTTTAATTTTTAATTAA
1 TTTATTTTTTAATTTTT-ATTAA
956136 -TTATTTTTTAATTTTTAT
1 TTTATTTTTTAATTTTTAT
956154 GTTATGATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 2 0.05
22 32 0.82
23 5 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTTTTTAATTTTTATTAA
Found at i:958362 original size:14 final size:14
Alignment explanation
Indices: 958343--958370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
958333 TGAGAGGTTA
958343 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
958357 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
958371 TTCTTTGATT
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:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
AAATCTTTGAGTCT
Found at i:961405 original size:15 final size:14
Alignment explanation
Indices: 961366--961405 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
961356 TTCTAACATA
961366 TAAAATAATAATAG
1 TAAAATAATAATAG
*
961380 TAAATACAATAATAG
1 TAAA-ATAATAATAG
961395 TAATAATAATA
1 TAA-AATAATA
961406 GATCTACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (14 bp):
TAAAATAATAATAG
Done.