Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008072.1 Hibiscus syriacus cultivar Beakdansim tig00110570_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: 1263316
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 3 of 5
Found at i:692730 original size:23 final size:22
Alignment explanation
Indices: 692704--692750 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
692694 AAATTTGTGG
692704 TATAATAATAA-ATGATTTTTTAT
1 TATAATAA-AATATGA-TTTTTAT
*
692727 TATAATAAAATTTGATTTTTAT
1 TATAATAAAATATGATTTTTAT
692749 TA
1 TA
692751 GACTTTAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TATAATAAAATATGATTTTTAT
Found at i:703430 original size:183 final size:183
Alignment explanation
Indices: 703116--703445 Score: 527
Period size: 183 Copynumber: 1.8 Consensus size: 183
703106 TGGATATGCA
* *
703116 CCAGAAAAATGCATATTACTCAATTGATGGTCCAAACGTGGATAAGCAACAGGTAGCGCACTACC
1 CCAGAAAAATGCATATTACTCAATTGATGGTCCAAACGCGGATAAGCAACAGGCAGCGCACTACC
* *
703181 CGTACTTGCTCCTAAGGAACTCAGACCGTCCTGCCTGTTATGTCCAGAGAAACTATTCTGTCTGG
66 CGTACTTGCTCCTAAGGAACTCAGACCATCCTGCCTGTAATGTCCAGAGAAACTATTCTGTCTGG
703246 AGTGGAGCTCAGAATTAGGAGGATATTGCACAGGTTGTTGATAAGAGTTGGAT
131 AGTGGAGCTCAGAATTAGGAGGATATTGCACAGGTTGTTGATAAGAGTTGGAT
* * *
703299 CCAGACAAATGCATATTACTCAATTGATGGTCCAAA-GACGGATAAGCAATAGGCAGGGCACTAC
1 CCAGAAAAATGCATATTACTCAATTGATGGTCCAAACG-CGGATAAGCAACAGGCAGCGCACTAC
* * * * *
703363 CTGTACTTGCTCCTAAGTAACTCATACTATCCTGCCTGTAATGTCCAGAGAAGCTATTCTGTCTG
65 CCGTACTTGCTCCTAAGGAACTCAGACCATCCTGCCTGTAATGTCCAGAGAAACTATTCTGTCTG
*
703428 GAGTGGGGCTCAGAATTA
130 GAGTGGAGCTCAGAATTA
703446 CTTTCAGGAG
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
182 1 0.01
183 132 0.99
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (183 bp):
CCAGAAAAATGCATATTACTCAATTGATGGTCCAAACGCGGATAAGCAACAGGCAGCGCACTACC
CGTACTTGCTCCTAAGGAACTCAGACCATCCTGCCTGTAATGTCCAGAGAAACTATTCTGTCTGG
AGTGGAGCTCAGAATTAGGAGGATATTGCACAGGTTGTTGATAAGAGTTGGAT
Found at i:709595 original size:17 final size:18
Alignment explanation
Indices: 709575--709612 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
709565 TACAAAAAAT
*
709575 AAAAATTAAAT-TATTAA
1 AAAAAGTAAATATATTAA
*
709592 AAAAAGTATATATATTAA
1 AAAAAGTAAATATATTAA
709610 AAA
1 AAA
709613 TACTATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAAGTAAATATATTAA
Found at i:710078 original size:16 final size:16
Alignment explanation
Indices: 710055--710118 Score: 64
Period size: 15 Copynumber: 4.1 Consensus size: 16
710045 AATAATTTAA
710055 TTTT-TATTTTAATAT
1 TTTTGTATTTTAATAT
710070 TTTTGTA-TTTAAT-T
1 TTTTGTATTTTAATAT
* *
710084 TTTTGAATATTTATATAC
1 TTTTGTAT-TTTA-ATAT
710102 TTTTGTATTTTAA-AT
1 TTTTGTATTTTAATAT
710117 TT
1 TT
710119 AAGATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 7 0.17
15 13 0.32
16 7 0.17
17 6 0.15
18 7 0.17
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTGTATTTTAATAT
Found at i:712908 original size:38 final size:38
Alignment explanation
Indices: 712821--712916 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 38
712811 ATTTTAGGCT
*
712821 TGATTTTTCACATAGAAATCGGGTTTTTAGGTTGCAACA
1 TGATTTTTCATATAGAAA-CGGGTTTTTAGGTTGCAACA
* *
712860 TGATTTTTCATATAGAAACGGGATTTTT-GGTTTCAATA
1 TGATTTTTCATATAGAAACGGG-TTTTTAGGTTGCAACA
*
712898 TGATTTTTCATATGGAAAC
1 TGATTTTTCATATAGAAAC
712917 CAGATTTAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 30 0.58
39 22 0.42
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (38 bp):
TGATTTTTCATATAGAAACGGGTTTTTAGGTTGCAACA
Found at i:717759 original size:14 final size:14
Alignment explanation
Indices: 717740--717767 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
717730 TACCTGTTTG
717740 AAATTTTATTTATA
1 AAATTTTATTTATA
717754 AAATTTTATTTATA
1 AAATTTTATTTATA
717768 TTCATTCAAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AAATTTTATTTATA
Found at i:722495 original size:15 final size:15
Alignment explanation
Indices: 722475--722523 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
722465 TTATTTAAAT
722475 AATTAAATAATTTTA
1 AATTAAATAATTTTA
722490 AATTAATATAA--TTA
1 AATTAA-ATAATTTTA
*
722504 AA-AAAATAATATTTA
1 AATTAAATAAT-TTTA
722519 AATTA
1 AATTA
722524 CAATTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.15
13 2 0.07
14 5 0.19
15 11 0.41
16 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAAATAATTTTA
Found at i:723157 original size:44 final size:44
Alignment explanation
Indices: 723096--723309 Score: 302
Period size: 44 Copynumber: 4.8 Consensus size: 44
723086 GATAGACTTG
*
723096 TTTTTATTTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
1 TTTTTA-TTTATTTTGTTTCTTAATGTTTTTATTTAATTATAGAC
* * * *
723141 TTTTTATTTATTTTGTTTCTTAATTTTTTTATTTAACTATAAAT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATAGAC
* *
723185 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATCATAGAT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATAGAC
*
723229 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATG--TTT-TTATTTAATTATAGAC
*
723276 TTTTTTATTTATTTTGTTTCTTAATATTTTTATT
1 -TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
723310 GTTTGAATTG
Statistics
Matches: 152, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
44 98 0.64
45 11 0.07
46 6 0.04
47 13 0.09
48 24 0.16
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (44 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATAGAC
Found at i:723388 original size:23 final size:21
Alignment explanation
Indices: 723333--723395 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
723323 CGTTTGTATC
*
723333 TAATGTTTATATTTAATTATTT
1 TAATGTTTTTA-TTAATTATTT
* *
723355 TATTGTTTTTATTATTTAGTTT
1 TAATGTTTTTATTAATTA-TTT
723377 GTAATGTTTTTATTTAATT
1 -TAATGTTTTTA-TTAATT
723396 TTCACTTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 6 0.18
22 12 0.36
23 10 0.30
24 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TAATGTTTTTATTAATTATTT
Found at i:732882 original size:24 final size:24
Alignment explanation
Indices: 732855--732900 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
732845 GCCATTAACG
732855 AAAT-CCCGAAGATCAACCCCATCA
1 AAATACCCGAA-ATCAACCCCATCA
*
732879 AAATACCCGAAATCAGCCCCAT
1 AAATACCCGAAATCAACCCCAT
732901 TTTCCTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.41, C:0.37, G:0.09, T:0.13
Consensus pattern (24 bp):
AAATACCCGAAATCAACCCCATCA
Found at i:733877 original size:2 final size:2
Alignment explanation
Indices: 733866--733896 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
733856 AATAAACATA
733866 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
733897 TAGAAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:734256 original size:25 final size:25
Alignment explanation
Indices: 734221--734281 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
734211 ACTTTTATCC
734221 CTTCTTCTTCTCCAGGTTATTCCTT
1 CTTCTTCTTCTCCAGGTTATTCCTT
* * *
734246 TTTCTTCTTCTCCCGGTTATTTCTT
1 CTTCTTCTTCTCCAGGTTATTCCTT
734271 CTTCTTCTTCT
1 CTTCTTCTTCT
734282 TCAAATCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.05, C:0.31, G:0.07, T:0.57
Consensus pattern (25 bp):
CTTCTTCTTCTCCAGGTTATTCCTT
Found at i:739086 original size:19 final size:19
Alignment explanation
Indices: 739059--739155 Score: 73
Period size: 19 Copynumber: 5.3 Consensus size: 19
739049 ATTAGCAACA
*
739059 TAATAAAAATGATTCTATC
1 TAATAAAAATGATCCTATC
*
739078 TAATTAAAATGATCCTATC
1 TAATAAAAATGATCCTATC
*
739097 TAATAACTAATAGA----A--
1 TAATAA-AAAT-GATCCTATC
* *
739112 TAA-AAAACTGATTCTATC
1 TAATAAAAATGATCCTATC
739130 TAATTAAAAATGATCCTATC
1 TAA-TAAAAATGATCCTATC
739150 TAATAA
1 TAATAA
739156 CTAATAGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 2 0.03
15 3 0.05
16 1 0.02
17 1 0.02
18 3 0.05
19 25 0.42
20 19 0.32
21 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (19 bp):
TAATAAAAATGATCCTATC
Found at i:739143 original size:20 final size:21
Alignment explanation
Indices: 739114--739153 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
739104 TAATAGAATA
*
739114 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
739135 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
739154 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:739154 original size:53 final size:52
Alignment explanation
Indices: 739060--739206 Score: 262
Period size: 52 Copynumber: 2.8 Consensus size: 52
739050 TTAGCAACAT
739060 AATAAAAA-TGATTCTATCTAATT-AAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
739110 AATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
*
739163 AATAAAAACTGATTCTATCTAATTAAAATTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
739207 TTTAATTTAG
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
50 3 0.03
51 5 0.05
52 55 0.59
53 30 0.32
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
Found at i:739195 original size:20 final size:20
Alignment explanation
Indices: 739167--739205 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
739157 TAATAGAATA
*
739167 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
*
739187 AAAATTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
739206 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:741478 original size:21 final size:21
Alignment explanation
Indices: 741452--741496 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
741442 GATTTCTGGG
* *
741452 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
741473 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
741494 CAA
1 CAA
741497 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:743213 original size:13 final size:13
Alignment explanation
Indices: 743195--743235 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
743185 TCTACGGGCA
743195 CTACGGTGCAATT
1 CTACGGTGCAATT
743208 CTACGG-GC-A--
1 CTACGGTGCAATT
743217 CTACGGTGCAATT
1 CTACGGTGCAATT
743230 CTACGG
1 CTACGG
743236 GCACTTCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 2 0.08
12 2 0.08
13 12 0.50
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:743256 original size:22 final size:22
Alignment explanation
Indices: 743183--743248 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
743173 TATGGACATC
743183 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
743205 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
743227 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCA
743249 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTACGGTGCA
Found at i:746964 original size:20 final size:20
Alignment explanation
Indices: 746939--746977 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
746929 AGCAACAGAA
*
746939 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
746959 TAAAAATGATCCTATCTAA
1 TAAAAATGATCCTATCTAA
746978 AAACTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:747002 original size:53 final size:52
Alignment explanation
Indices: 746935--747082 Score: 262
Period size: 53 Copynumber: 2.8 Consensus size: 52
746925 AATTAGCAAC
746935 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAAAAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAAAAACTAAT
*
746986 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAAAAACTAAT
*
747039 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAA
747083 TATTTAATTT
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 5 0.05
52 43 0.46
53 45 0.48
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.32
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAAAAACTAAT
Found at i:747021 original size:20 final size:21
Alignment explanation
Indices: 746992--747031 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
746982 TAATAGAATA
*
746992 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
747013 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
747032 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:747070 original size:20 final size:20
Alignment explanation
Indices: 747045--747083 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
747035 TAATAGAATA
*
747045 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
747065 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
747084 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:747074 original size:52 final size:52
Alignment explanation
Indices: 746935--747084 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
746925 AATTAGCAAC
*
746935 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAAAAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
746986 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
747039 AGAATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
747085 TTTAATTTAG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 5 0.05
52 45 0.47
53 45 0.47
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:752188 original size:18 final size:17
Alignment explanation
Indices: 752165--752212 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
752155 TGTTTCTGAG
752165 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
*
752183 GGAATTGAAATCTGTAA
1 GGAATTGGAATCTGTAA
*
752200 -GAATTAGAATCTG
1 GGAATTGGAATCTG
752213 AAACATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 14 0.52
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:752988 original size:26 final size:26
Alignment explanation
Indices: 752952--753010 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
752942 GGTGTAATTG
752952 GATTCCAATTCCCCCTAATTCCAAGA
1 GATTCCAATTCCCCCTAATTCCAAGA
*
752978 GATTCCAATTCCCCCTAATTCCAAGG
1 GATTCCAATTCCCCCTAATTCCAAGA
753004 GATTCCA
1 GATTCCA
753011 GAGGACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (26 bp):
GATTCCAATTCCCCCTAATTCCAAGA
Found at i:765424 original size:15 final size:16
Alignment explanation
Indices: 765404--765438 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
765394 CTCCAACTGT
765404 TCTGCTTCAGG-CTGC
1 TCTGCTTCAGGTCTGC
*
765419 TCTGCTTCGGGTCTGC
1 TCTGCTTCAGGTCTGC
765435 TCTG
1 TCTG
765439 ACTTAGCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.03, C:0.31, G:0.29, T:0.37
Consensus pattern (16 bp):
TCTGCTTCAGGTCTGC
Found at i:765845 original size:51 final size:51
Alignment explanation
Indices: 765624--766037 Score: 463
Period size: 51 Copynumber: 7.9 Consensus size: 51
765614 GACGAGCCTA
* * **
765624 CTCCCTATTCCTTCAG-GAAGTACAAGACTCGAACAATCTTCATA-AAATGTGTATG
1 CTCCCTATTCCTTCAGAG-AGTATAAGACT----CAATCTTCA-ACAAACGTGTCCG
* * *
765679 CTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAACAAACGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATAAGAC-T---CAATCTTCAACAAACGTGTCCG
* * *
765734 CTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTC----AATCTTCAACAAACGTGTCCG
* * *
765789 CTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTTAATAAACGTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCG
* * *
765840 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCG
* * *
765891 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCG
* * *
765942 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCG
* * *
765993 CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACCAACG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACG
766038 AATTTGCTTC
Statistics
Matches: 327, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
51 207 0.63
54 2 0.01
55 116 0.35
56 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
CTCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCG
Found at i:767454 original size:26 final size:25
Alignment explanation
Indices: 767392--767497 Score: 69
Period size: 26 Copynumber: 4.2 Consensus size: 25
767382 CCTCCTTTTA
767392 TTTCTTT-TTTTTCATTTTTCATTT
1 TTTCTTTCTTTTTCATTTTTCATTT
* * *
767416 TTTCTTCCCTTTTCCA-TTTTCTTCTT
1 TTTCTT-TCTTTTTCATTTTTCAT-TT
*
767442 TTTCTTTCTTTTT--TTTTCCATCATT
1 TTTCTTTCTTTTTCATTTTTCAT--TT
* *
767467 TTTGTTT-TTTCTCATTTTTTTCATTT
1 TTTCTTTCTTTTTCA--TTTTTCATTT
767493 TTTCT
1 TTTCT
767498 CTTTTATTTC
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
24 15 0.25
25 19 0.31
26 20 0.33
28 7 0.11
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.74
Consensus pattern (25 bp):
TTTCTTTCTTTTTCATTTTTCATTT
Found at i:767487 original size:19 final size:18
Alignment explanation
Indices: 767471--767507 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
767461 ATCATTTTTG
767471 TTTTTTCTCATTTTTTTCA
1 TTTTTTCTC-TTTTTTTCA
767490 TTTTTTCTCTTTTATTTC
1 TTTTTTCTCTTTT-TTTC
767508 TTCTTCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTTCA
Found at i:767490 original size:9 final size:10
Alignment explanation
Indices: 767471--767508 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
767461 ATCATTTTTG
767471 TTTTTTCTCA
1 TTTTTTCTCA
767481 TTTTTT-TCA
1 TTTTTTCTCA
*
767490 TTTTTTCTCT
1 TTTTTTCTCA
767500 TTTATTTCT
1 TTT-TTTCT
767509 TCTTCAAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 11 0.44
11 5 0.20
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCTCA
Found at i:774074 original size:21 final size:21
Alignment explanation
Indices: 774048--774092 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
774038 GATTTCTGGG
* *
774048 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
774069 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
774090 CAA
1 CAA
774093 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:776068 original size:21 final size:21
Alignment explanation
Indices: 776042--776084 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
776032 TTTCTGGGTT
* *
776042 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
776063 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
776084 A
1 A
776085 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:776177 original size:65 final size:66
Alignment explanation
Indices: 776042--776211 Score: 202
Period size: 65 Copynumber: 2.6 Consensus size: 66
776032 TTTCTGGGTT
* * *
776042 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCTTCAACGAATATGAATTCCAGAATGC
776106 TAG
64 TAG
* * * *
776109 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCC-TCATCGTATATGAATTCCAGATTGCTT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCTTCAACGAATATGAATTCCAGAATGCTA
776173 G
66 G
* *
776174 AGGGGAATCGATA-CCCCAGGGGGGGGAACCGATTCCCC
1 AGGGGAATCGGTACCCCCA--GGGGGGAACCGATACCCC
776212 CATGAGAAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 5 0.05
65 37 0.41
66 33 0.36
67 16 0.18
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (66 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCTTCAACGAATATGAATTCCAGAATGCTA
G
Found at i:776549 original size:29 final size:29
Alignment explanation
Indices: 776515--776586 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
776505 CATATTATGA
**
776515 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
776544 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
776573 TACATGACATGAAT
1 TACATGACATGAAT
776587 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:776641 original size:30 final size:31
Alignment explanation
Indices: 776601--776659 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
776591 AGAAAAGTTC
*
776601 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
776632 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
776660 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Found at i:776953 original size:22 final size:22
Alignment explanation
Indices: 776879--776945 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
776869 TTATGGACAA
776879 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
776901 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
776923 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
776945 A
1 A
776946 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:783001 original size:21 final size:21
Alignment explanation
Indices: 782975--783017 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
782965 TTTCTGGGTT
* *
782975 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
782996 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
783017 A
1 A
783018 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:783092 original size:67 final size:67
Alignment explanation
Indices: 782997--783147 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
782987 ACCCATTCAA
* * *
782997 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATA-CCCCAG
783061 GGG
65 GGG
* * * *
783064 GGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTGAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
783129 GG
66 GG
*
783131 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
783148 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
66 5 0.07
67 70 0.93
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCAGG
GG
Found at i:783483 original size:29 final size:29
Alignment explanation
Indices: 783449--783520 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
783439 CATATTATGA
**
783449 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
783478 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
783507 TACATGACATGAAT
1 TACATGACATGAAT
783521 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:783575 original size:30 final size:31
Alignment explanation
Indices: 783535--783593 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
783525 AGAAAAGTTC
*
783535 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
783566 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
783594 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Found at i:783887 original size:22 final size:22
Alignment explanation
Indices: 783813--783879 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
783803 TTATGGACAA
783813 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
783835 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
783857 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
783879 A
1 A
783880 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:784577 original size:13 final size:13
Alignment explanation
Indices: 784559--784621 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
784549 TCTACGGGCA
784559 CTACGGTGCAATT
1 CTACGGTGCAATT
784572 CTACGG-GC-A--
1 CTACGGTGCAATT
784581 CTACGGTGCAATT
1 CTACGGTGCAATT
*
784594 CTACGG-GCACTT
1 CTACGGTGCAATT
784606 -T--GGTGCAATT
1 CTACGGTGCAATT
784616 CTACGG
1 CTACGG
784622 GCACTTCGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
9 8 0.20
10 7 0.17
11 4 0.10
12 7 0.17
13 14 0.35
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:784642 original size:22 final size:22
Alignment explanation
Indices: 784546--784634 Score: 151
Period size: 22 Copynumber: 4.0 Consensus size: 22
784536 TTATGGACAT
784546 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
784568 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
**
784590 AATTCTACGGGCACTTTGGTGC
1 AATTCTACGGGCACTACGGTGC
*
784612 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTACGGTGC
784634 A
1 A
784635 TTTATACGAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTACGGTGC
Found at i:787932 original size:21 final size:21
Alignment explanation
Indices: 787906--787950 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
787896 GATTTCTGGG
* *
787906 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
787927 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
787948 CAA
1 CAA
787951 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:789325 original size:13 final size:13
Alignment explanation
Indices: 789307--789369 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
789297 TCTACGGGCA
789307 CTACGGTGCAATT
1 CTACGGTGCAATT
789320 CTACGG-GC-A--
1 CTACGGTGCAATT
789329 CTACGGTGCAATT
1 CTACGGTGCAATT
789342 CTACGG-GC-A--
1 CTACGGTGCAATT
*
789351 CTTCGGTGCAATT
1 CTACGGTGCAATT
789364 CTACGG
1 CTACGG
789370 GCACTTCGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
9 11 0.28
10 4 0.10
11 4 0.10
12 4 0.10
13 17 0.43
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:789390 original size:22 final size:22
Alignment explanation
Indices: 789294--789382 Score: 160
Period size: 22 Copynumber: 4.0 Consensus size: 22
789284 TTATGGACAT
789294 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
789316 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
*
789338 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTACGGTGC
*
789360 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTACGGTGC
789382 A
1 A
789383 TTTATACGAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (22 bp):
AATTCTACGGGCACTACGGTGC
Found at i:793912 original size:45 final size:45
Alignment explanation
Indices: 793845--793988 Score: 200
Period size: 45 Copynumber: 3.1 Consensus size: 45
793835 TGTTATCCAC
* * *
793845 AAAAAGAAATCCTAACCTCATGATATCTAATTCGCATGCTTATTC-
1 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
*
793890 AGAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
1 A-AAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
*
793936 AAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGCATTTATTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC--TTATTCG
793983 AAAAAT
1 AAAAAT
793989 GAAAATAAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
45 69 0.78
46 8 0.09
47 12 0.13
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.28
Consensus pattern (45 bp):
AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTATTCG
Found at i:796852 original size:15 final size:16
Alignment explanation
Indices: 796832--796866 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
796822 CTCCAACTGT
796832 TCTGCTTCGGG-CTGC
1 TCTGCTTCGGGTCTGC
796847 TCTGCTTCGGGTCTGC
1 TCTGCTTCGGGTCTGC
796863 TCTG
1 TCTG
796867 ACTTAGCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.00, C:0.31, G:0.31, T:0.37
Consensus pattern (16 bp):
TCTGCTTCGGGTCTGC
Found at i:808410 original size:44 final size:44
Alignment explanation
Indices: 808362--808455 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
808352 TTTTCTATTC
* * * *
808362 TACTGTGAAGGTTTTTATGGCAGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
808406 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
808450 TACTGT
1 TACTGT
808456 TATTGCTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (44 bp):
TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
Found at i:820671 original size:18 final size:18
Alignment explanation
Indices: 820645--820688 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
820635 TTATTTAGAT
* *
820645 TTTAGTATTT-TTTTATT
1 TTTATTATTTATTTTATA
820662 TTCTATTATTTATTTTATA
1 TT-TATTATTTATTTTATA
820681 TTTATTAT
1 TTTATTAT
820689 AAACTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 8 0.35
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTATTTATTTTATA
Found at i:820685 original size:15 final size:15
Alignment explanation
Indices: 820643--820686 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
820633 AATTATTTAG
*
820643 ATTTTAGTATTTTTTT
1 ATTTTA-TATTTATTT
*
820659 ATTTTCTA-TTATTT
1 ATTTTATATTTATTT
820673 ATTTTATATTTATT
1 ATTTTATATTTATT
820687 ATAAACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTATATTTATTT
Found at i:826648 original size:184 final size:184
Alignment explanation
Indices: 826321--826690 Score: 674
Period size: 184 Copynumber: 2.0 Consensus size: 184
826311 TATCTATTCA
826321 ATAAACTATCTATCAAGGCTATTTTGCCAATATGAGAAGTTGAACAAACCAAAATACTCGTGAAA
1 ATAAACTATCTATCAAGGCTATTTTGCCAATATGAGAAGTTGAACAAACCAAAATACTCGTGAAA
826386 CAGAGCAGGCTTTACAGAACTAAAACCTTTGGGATAGAAATTTAATGTATAAAAAAACATATATC
66 CAGAGCAGGCTTTACAGAACTAAAACCTTTGGGATAGAAATTTAATGTATAAAAAAACATATATC
826451 AGAACATAATTTAAGCATACCTCCATTGTCTCCATTAATAATGATAAGAGGTCATC
131 AGAACA-AATTTAAGCATACCTCCATTGTCTCCATTAATAATGATAA-AGGTCATC
826507 ATAAACTATCTATCAAGGCTATTTTGCC-ATATGAGAAGTTGAACAAACCAAAATACTCGTGAAA
1 ATAAACTATCTATCAAGGCTATTTTGCCAATATGAGAAGTTGAACAAACCAAAATACTCGTGAAA
*
826571 CAGAGCAGGC-TTACAGAACTAAAACCTTTGGGATAGAAATTTAATGTTATAAAAAACATATATA
66 CAGAGCAGGCTTTACAGAACTAAAACCTTTGGGATAGAAATTTAATG-TATAAAAAA-ACATATA
826635 TCAGAAC-AATTTAAGCATACCTCCATTGTCTCCATTAATAATGATAAAGGTCATC
129 TCAGAACAAATTTAAGCATACCTCCATTGTCTCCATTAATAATGATAAAGGTCATC
826690 A
1 A
826691 ACTGAACGAT
Statistics
Matches: 181, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
183 9 0.05
184 76 0.42
185 55 0.30
186 41 0.23
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (184 bp):
ATAAACTATCTATCAAGGCTATTTTGCCAATATGAGAAGTTGAACAAACCAAAATACTCGTGAAA
CAGAGCAGGCTTTACAGAACTAAAACCTTTGGGATAGAAATTTAATGTATAAAAAAACATATATC
AGAACAAATTTAAGCATACCTCCATTGTCTCCATTAATAATGATAAAGGTCATC
Found at i:826912 original size:17 final size:18
Alignment explanation
Indices: 826875--826912 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
826865 TACAGTTACC
*
826875 TTTAGTTTCTGCCTCTCT
1 TTTAGTTCCTGCCTCTCT
*
826893 TTTAGTTCCTTCCTCT-T
1 TTTAGTTCCTGCCTCTCT
826910 TTT
1 TTT
826913 GCATACATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.05, C:0.26, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTAGTTCCTGCCTCTCT
Found at i:830273 original size:180 final size:176
Alignment explanation
Indices: 829975--830330 Score: 676
Period size: 180 Copynumber: 2.0 Consensus size: 176
829965 CTCATATTAC
829975 AACCATTCCACCTCTATTACCATTTTAGAAACATACTTCTTTAATTGACTTTTAAAATGAATATT
1 AACCATTCCACCTCTATTACCATTTTAGAAACATACTTCTTTAATTGACTTTTAAAATGAATATT
830040 TACTTATGGTAACTAAATTACCAAAGAGGGAAAGCTCGGCCGCTCAACGTTTATGAGAATACCGA
66 TACTTATGGTAACTAAATTACCAAAGAGGGAAAGCTCGGCCGCTCAACGTTTATGAGAATACCGA
830105 AATACCACGTGGCAGCTAAAATTTCATCTACCAAGCTTATGGGAGA
131 AATACCACGTGGCAGCTAAAATTTCATCTACCAAGCTTATGGGAGA
830151 AACCATTCCACCTCTATTACCATTTTAGAAACATACTTCCTTTAATTGACTTTTAAAATGAGATA
1 AACCATTCCACCTCTATTACCATTTTAGAAACATACTT-CTTTAATTGACTTTTAAAATGA-ATA
830216 TTCTACTTATGGTAACTTAAATTACCAAAGAGGGAAAGCTCGGCCGCTCAACGTTTATGAGAATA
64 TT-TACTTATGGTAAC-TAAATTACCAAAGAGGGAAAGCTCGGCCGCTCAACGTTTATGAGAATA
830281 CCGAAATACCACGTGGCAGCTAAAATTTCATCTACCAAGCTTATGGGAGA
127 CCGAAATACCACGTGGCAGCTAAAATTTCATCTACCAAGCTTATGGGAGA
830331 TAACAAGAGA
Statistics
Matches: 176, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
176 38 0.22
177 22 0.12
178 5 0.03
179 13 0.07
180 98 0.56
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (176 bp):
AACCATTCCACCTCTATTACCATTTTAGAAACATACTTCTTTAATTGACTTTTAAAATGAATATT
TACTTATGGTAACTAAATTACCAAAGAGGGAAAGCTCGGCCGCTCAACGTTTATGAGAATACCGA
AATACCACGTGGCAGCTAAAATTTCATCTACCAAGCTTATGGGAGA
Found at i:832991 original size:16 final size:18
Alignment explanation
Indices: 832970--833010 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
832960 AAAAAAATTT
832970 TTAATTCGGTT-AA-CGA
1 TTAATTCGGTTCAATCGA
*
832986 TTAATTTGGTTCGAATCGA
1 TTAATTCGGTTC-AATCGA
833005 TTAATT
1 TTAATT
833011 AACCGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (18 bp):
TTAATTCGGTTCAATCGA
Found at i:833021 original size:9 final size:9
Alignment explanation
Indices: 833007--833040 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
832997 CGAATCGATT
833007 AATTAACCG
1 AATTAACCG
*
833016 AATTAACCA
1 AATTAACCG
833025 AATTAACCG
1 AATTAACCG
833034 AAATTAA
1 -AATTAA
833041 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:833350 original size:175 final size:176
Alignment explanation
Indices: 833046--833416 Score: 594
Period size: 175 Copynumber: 2.1 Consensus size: 176
833036 ATTAAATTTT
*
833046 AAATATTAAATATATTATATAACATATGGGCTCAACCCAAATCATTAAAAACCCAATTAATACTT
1 AAATATTAAATATATTATATAACATATGGGCTAAACCCAAATCATTAAAAACCCAATTAATACTT
*
833111 AAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTATATAAATTTTTATTT
66 AAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTATATAAATATTTATTT
* *
833176 TATAATTATATA-TATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
131 TATAATTATATATTATTTAAATTAATTAT-AACT-TTTTTGAATTAAA
833223 AAATATTAAATATATTATATAACATAT-GGCTAAACCCAAA-CTATTAAAAACCCAATTAATA-T
1 AAATATTAAATATATTATATAACATATGGGCTAAACCCAAATC-ATTAAAAACCCAATTAATACT
*
833285 TAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATCTAAA-ATTTAT
65 TAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATT-AAAAATTATATAAATATTTAT
*
833349 TTTATAATTATTTATTATTTAAATTAATTATAACTTTTTTGAATTAAA
129 TTTATAATTATATATTATTTAAATTAATTATAACTTTTTTGAATTAAA
*
833397 AAATATTTAAT-T-TTATATAA
1 AAATATTAAATATATTATATAA
833417 ATTAGAAAAT
Statistics
Matches: 184, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
172 8 0.04
173 1 0.01
174 22 0.12
175 67 0.36
176 59 0.32
177 27 0.15
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (176 bp):
AAATATTAAATATATTATATAACATATGGGCTAAACCCAAATCATTAAAAACCCAATTAATACTT
AAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTATATAAATATTTATTT
TATAATTATATATTATTTAAATTAATTATAACTTTTTTGAATTAAA
Found at i:836043 original size:95 final size:96
Alignment explanation
Indices: 835880--836073 Score: 363
Period size: 95 Copynumber: 2.0 Consensus size: 96
835870 CTAGCGTGGG
835880 TGGTTGCTGCCTACCCATTTCGACAGTCGTAACTCAGCATAAGGTTGCTCATAAATTCTCCAAAT
1 TGGTTGCTGCCTACCCATTTCGACAGTCGTAACTCAGCATAAGGTTGCTCATAAATTCTCCAAAT
* *
835945 AAATGCTTTTGAAATC-AGTCCTAAGCCATT
66 AAATGCTTTCGAAATCAAGTCCAAAGCCATT
835975 TGGTTGCTGCCTACCCATTTCGACAGTCGTAACTCAGCATAAGGTTGCTCATAAATTCTCCAAAT
1 TGGTTGCTGCCTACCCATTTCGACAGTCGTAACTCAGCATAAGGTTGCTCATAAATTCTCCAAAT
836040 AAATGCTTTCGAAATCAAGTCCAAAGCCATT
66 AAATGCTTTCGAAATCAAGTCCAAAGCCATT
836071 TGG
1 TGG
836074 GCCATCAGCC
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 80 0.83
96 16 0.17
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (96 bp):
TGGTTGCTGCCTACCCATTTCGACAGTCGTAACTCAGCATAAGGTTGCTCATAAATTCTCCAAAT
AAATGCTTTCGAAATCAAGTCCAAAGCCATT
Found at i:848732 original size:13 final size:13
Alignment explanation
Indices: 848714--848738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
848704 ACAAACTAGA
848714 AATTTTATAAAAC
1 AATTTTATAAAAC
848727 AATTTTATAAAA
1 AATTTTATAAAA
848739 AAAAATCAAA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTTATAAAAC
Found at i:849361 original size:96 final size:96
Alignment explanation
Indices: 849197--849388 Score: 348
Period size: 96 Copynumber: 2.0 Consensus size: 96
849187 GAACTCCTTC
* * *
849197 CCGTCGGCTGATAACCACTTTTGGAGACGAAACTCGAAACAATCGTCTCCCATGTTGACCTCATT
1 CCGTCGGCTGATAACCACCTTTGGAGACAAAACTCGAAACAATCGTCACCCATGTTGACCTCATT
849262 CTTCCTACTGAATATATTGAATATGTCACCG
66 CTTCCTACTGAATATATTGAATATGTCACCG
*
849293 CCGTCGGCTGATAACCACCTTTGGAGACAAAACTTGAAACAATCGTCACCCATGTTGACCTCATT
1 CCGTCGGCTGATAACCACCTTTGGAGACAAAACTCGAAACAATCGTCACCCATGTTGACCTCATT
849358 CTTCCTACTGAATATATTGAATATGTCACCG
66 CTTCCTACTGAATATATTGAATATGTCACCG
849389 ATGATCTTGT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (96 bp):
CCGTCGGCTGATAACCACCTTTGGAGACAAAACTCGAAACAATCGTCACCCATGTTGACCTCATT
CTTCCTACTGAATATATTGAATATGTCACCG
Found at i:857210 original size:19 final size:20
Alignment explanation
Indices: 857188--857232 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
857178 ATATAATATA
* *
857188 TTAAATATTA-AATTACTAT
1 TTAAATATGATAATAACTAT
857207 TTAAATATGATAATAACTAT
1 TTAAATATGATAATAACTAT
857227 TTAAAT
1 TTAAAT
857233 GTTGAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TTAAATATGATAATAACTAT
Found at i:857394 original size:3 final size:3
Alignment explanation
Indices: 857386--857415 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
857376 AATGCTAATG
857386 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
857416 CAATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:868472 original size:30 final size:30
Alignment explanation
Indices: 868438--868499 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
868428 CTCGATAACT
868438 ATCATTTCATATTGTGTATTTCGATTTAGC
1 ATCATTTCATATTGTGTATTTCGATTTAGC
*
868468 ATCATTTCTTATTGTGTATTTCGATTTAGC
1 ATCATTTCATATTGTGTATTTCGATTTAGC
868498 AT
1 AT
868500 TTTTTAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (30 bp):
ATCATTTCATATTGTGTATTTCGATTTAGC
Found at i:876378 original size:55 final size:54
Alignment explanation
Indices: 876309--876747 Score: 395
Period size: 55 Copynumber: 8.1 Consensus size: 54
876299 TGGATAAGCG
* * * * * * *
876309 AGACTTGAAAAATCTTCAAATGACGGGTCCACTCCCTATTCTTTCAGGGAGTATA
1 AGACTCGAACAATCTTCAAA-AACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
** * * *
876364 AGACTCGAACAATCTTCGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA
1 AGACTCGAACAATCTTC-AAAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * *
876419 AGACTCGAACAATCTTCAATAAACATGTCTGCTCCCTA-TCCGTTCAGGGAGTAT-
1 AGACTCGAACAATCTTCAA-AAACGTGTCCGCTCCCTATTCC-TTCAGAGAGTATA
* * *
876473 AGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCTATTCCTTCAAAGAGTATA
1 AG-ACTCGAACAATCTTCA-AAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * *
876529 TGACTCGAACAATCTT-AACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-
1 AGACTCGAACAATCTTCAA-AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
* * * *
876582 AGAACTC-AATCAATCTTCATAAAACAG-GTCTGCTCTCTATTCGTTCAGGGAGTAT-
1 AG-ACTCGAA-CAATCTTCA-AAAAC-GTGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
876637 AGAACTCG----ATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATA
1 AG-ACTCGAACAATCTTCAA-AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
876689 AGACTCG----ATCTTCAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATA
1 AGACTCGAACAATCTTCAA-AAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
*
876740 GGACTCGA
1 AGACTCGA
876748 TCTTCATAAA
Statistics
Matches: 334, Mismatches: 32, Indels: 39
0.82 0.08 0.10
Matches are distributed among these distances:
50 2 0.01
51 89 0.27
52 2 0.01
53 4 0.01
54 48 0.14
55 181 0.54
56 8 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (54 bp):
AGACTCGAACAATCTTCAAAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
Found at i:876513 original size:110 final size:110
Alignment explanation
Indices: 876340--876747 Score: 416
Period size: 109 Copynumber: 3.8 Consensus size: 110
876330 GACGGGTCCA
* * *** * *
876340 CTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCGGCAAACGTGTCTGCTCCCTATTC
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGAGTCCGCTCCCTATTC
* * *
876405 ATTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACATGTCTG
66 ATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTG
* *
876450 CTCCCTA-TCCGTTCAGGGAGTAT-AGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCTAT
1 CTCCCTATTCC-TTCAGAGAGTATAAG-ACTCGAACAATCTTCATAAAACGAGTCCGCTCCCTAT
* * * * *
876513 TCCTTCAAAGAGTATATGACTCGAACAATCTT-AACAAACGGGTCCG
64 TCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTG
* * *
876559 CTCTCTATTCCTTCAGAGAGTAT-AGAACTC-AATCAATCTTCATAAAAC-AGGTCTGCTCTCTA
1 CTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAA-CAATCTTCATAAAACGA-GTCCGCTCCCTA
* *
876621 TTCGTTCAGGGAGTAT-AGAACTCG----ATCTTCAACAAACGTGTCTG
63 TTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGTGTCTG
*
876665 CTCCCTATTCCTTCAGAGAGTATAAGACTCG----ATCTTCA-ACAAACGTGTCCGCTCCCTATT
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACGAGTCCGCTCCCTATT
* *
876725 CTTTCAGAGAGTATAGGACTCGA
65 CATTCAGAGAGTATAAGACTCGA
876748 TCTTCATAAA
Statistics
Matches: 254, Mismatches: 31, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
101 1 0.00
102 40 0.16
103 1 0.00
105 5 0.02
106 38 0.15
107 2 0.01
108 4 0.02
109 82 0.32
110 81 0.32
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (110 bp):
CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGAGTCCGCTCCCTATTC
ATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTG
Found at i:876629 original size:164 final size:161
Alignment explanation
Indices: 876335--876747 Score: 502
Period size: 164 Copynumber: 2.6 Consensus size: 161
876325 CAAATGACGG
* * ** ** *
876335 GTCCACTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCGGCAAACGTGTCTGCTCCC
1 GTCCGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
* *
876400 TATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCAATAAACATGTCTGCTCCCTATCCGTTC
66 TATTCATTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAACAGGTCTGCTCCCTATCCGTTC
876464 AGGGAGTATAGAACTCGAACAATCTTCATA-AAACGA
130 AGGGAGTATAGAACTCG----ATCTTCA-ACAAACGA
* * * *
876500 GTCCGCTCTCTATTCCTTCAAAGAGTATATGACTCGAACAATCTT-AACAAACGGGTCCGCTCTC
1 GTCCGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
* * *
876564 TATTCCTTCAGAGAGTATAGAACTC-AATCAATCTTC-ATAAAACAGGTCTGCTCTCTATTCGTT
66 TATTCATTCAGAGAGTATAGAACTCGAA-CAATCTTCAAT-AAACAGGTCTGCTCCCTATCCGTT
*
876627 CAGGGAGTATAGAACTCGATCTTCAACAAACGT
129 CAGGGAGTATAGAACTCGATCTTCAACAAACGA
* *
876660 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG----ATCTTCAACAAACGTGTCCGCTCCC
1 GTCCGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
* *
876721 TATTCTTTCAGAGAGTATAGGACTCGA
66 TATTCATTCAGAGAGTATAGAACTCGA
876748 TCTTCATAAA
Statistics
Matches: 217, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
156 5 0.02
157 40 0.18
158 1 0.00
159 1 0.00
160 44 0.20
163 4 0.02
164 82 0.38
165 40 0.18
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (161 bp):
GTCCGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
TATTCATTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACAGGTCTGCTCCCTATCCGTTCA
GGGAGTATAGAACTCGATCTTCAACAAACGA
Found at i:876814 original size:37 final size:36
Alignment explanation
Indices: 876764--876833 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
876754 TAAAATGAGC
*
876764 TTGCTTCACTACTC-TTCTGTGAAGTCTTATAGATGAT
1 TTGCTTCACTACTCTTTC-GTGAAGGCTTA-AGATGAT
876801 TTGCTTCACTACTCTTTCGTGAAGGCTTAAGAT
1 TTGCTTCACTACTCTTTCGTGAAGGCTTAAGAT
876834 TGACTTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 4 0.13
37 24 0.77
38 3 0.10
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.41
Consensus pattern (36 bp):
TTGCTTCACTACTCTTTCGTGAAGGCTTAAGATGAT
Found at i:878211 original size:14 final size:13
Alignment explanation
Indices: 878112--878216 Score: 57
Period size: 14 Copynumber: 7.5 Consensus size: 13
878102 CTTGAACCCC
878112 CTTTTATTTATTTTT
1 CTTTT-TTT-TTTTT
878127 CTTTTTTCATTTTTT
1 CTTTTTT--TTTTTT
* *
878142 CATTTTTTTTCTT
1 CTTTTTTTTTTTT
* * *
878155 CTCTATTTTTCTCT
1 CT-TTTTTTTTTTT
* **
878169 CTCTTTTTTTCAT
1 CTTTTTTTTTTTT
*
878182 CATTTTCATTTTTTT
1 C-TTTT-TTTTTTTT
878197 CTTTTTTTTTATTT
1 CTTTTTTTTT-TTT
878211 CTTTTT
1 CTTTTT
878217 CAAGAGAAAT
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
13 17 0.25
14 27 0.40
15 22 0.33
16 1 0.01
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:887816 original size:50 final size:48
Alignment explanation
Indices: 887741--887875 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 48
887731 TCCTACCCAA
** *
887741 CATGATATCTACCTC-CATGCTTTGTTATTCACAAAAAGAAATCCTAACTG
1 CATGATATCTAATTCGCATGC-TTGTTATTCA-AAAAAGAAA-CCTAACCG
* *
887791 CATGATATCTAATTCGCATGCTTG---TTCGAAAAATAAACCTAACCG
1 CATGATATCTAATTCGCATGCTTGTTATTCAAAAAAGAAACCTAACCG
* * *
887836 CATGATATCTAGTTCGCAAGCAT-TTATTCAAAAAACGAAA
1 CATGATATCTAATTCGCATGCTTGTTATTCAAAAAA-GAAA
887876 ATAAATTACT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
45 27 0.39
46 8 0.11
47 11 0.16
48 3 0.04
50 16 0.23
51 5 0.07
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (48 bp):
CATGATATCTAATTCGCATGCTTGTTATTCAAAAAAGAAACCTAACCG
Found at i:898583 original size:3 final size:3
Alignment explanation
Indices: 898571--898619 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
898561 CATAATAATA
* * *
898571 ATT ATA ATT ATT ATT AAT ATA ATAT ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A-TT ATT
898618 AT
1 AT
898620 ATATATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
3 33 0.87
4 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:898589 original size:22 final size:22
Alignment explanation
Indices: 898563--898608 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
898553 AATTTTTTCA
898563 TAATAATAAT-TATAATTATTAT
1 TAAT-ATAATATATAATTATTAT
*
898585 TAATATAATATATTATTATTAT
1 TAATATAATATATAATTATTAT
898607 TA
1 TA
898609 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATAATATATAATTATTAT
Found at i:898599 original size:19 final size:19
Alignment explanation
Indices: 898563--898637 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 19
898553 AATTTTTTCA
898563 TAATAATAATTATAATTATTAT
1 TAAT-ATAA-TAT-ATTATTAT
898585 TAATATAATATATTATTAT
1 TAATATAATATATTATTAT
*
898604 T-AT-TATTAT-TTATTAT
1 TAATATAATATATTATTAT
898620 ATATATATATATATATTA
1 -TA-ATATA-ATATATTA
898638 CAAATTACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
16 7 0.16
17 6 0.13
18 2 0.04
19 11 0.24
20 5 0.11
21 7 0.16
22 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATAATATATTATTAT
Found at i:900099 original size:34 final size:33
Alignment explanation
Indices: 900024--900105 Score: 89
Period size: 35 Copynumber: 2.5 Consensus size: 33
900014 TAATTTAATT
*
900024 TTTATTATTTTTTAATATATTTTAAATCATTAC
1 TTTATTATTTTTTAATATATTATAAATCATTAC
*
900057 TTTAATTATTGTTTTACTATATTATAAAT-A-TA-
1 TTT-ATTATT-TTTTAATATATTATAAATCATTAC
* *
900089 TATATTATTATTTAATA
1 TTTATTATTTTTTAATA
900106 ATGTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 6 0.14
31 6 0.14
32 2 0.05
33 5 0.12
34 7 0.17
35 16 0.38
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (33 bp):
TTTATTATTTTTTAATATATTATAAATCATTAC
Found at i:909810 original size:54 final size:54
Alignment explanation
Indices: 909723--909834 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
909713 ACTTCAATGA
* * *
909723 TTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTATTGTCAAATGTT
1 TTACAAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTACTGTCAAATATT
**
909777 TTACAAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGTACTGTCAAATATT
1 TTACAAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTACTGTCAAATATT
909831 TTAC
1 TTAC
909835 GAACCTGTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (54 bp):
TTACAAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTACTGTCAAATATT
Found at i:910237 original size:22 final size:22
Alignment explanation
Indices: 910206--910260 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
910196 ATCTACACTC
*
910206 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
910228 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
910250 TTCAAAGATGA
1 TTCAAAGATGA
910261 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:911188 original size:76 final size:76
Alignment explanation
Indices: 911001--911684 Score: 1146
Period size: 76 Copynumber: 9.0 Consensus size: 76
910991 ATATTTCTCA
*
911001 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
911065 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
911076 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
911141 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
911152 CATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
911216 AGCCTTCGGGT
66 AGCCTTCGGGT
*
911227 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
911291 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
911302 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
911367 AGCCTTCGGGT
66 AGCCTTCGGGT
911378 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
911443 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
911454 CATCTGTAAGTCCTGCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
911519 ATCC-TCAGGGT
66 AGCCTTC-GGGT
*
911530 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
911595 ATCC-TCAGGGT
66 AGCCTTC-GGGT
* *
911606 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
911671 A-CCCTCGGGGT
66 AGCCTTC-GGGT
911682 CAT
1 CAT
911685 TCATAAGACC
Statistics
Matches: 584, Mismatches: 21, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
75 205 0.35
76 379 0.65
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:911853 original size:3 final size:3
Alignment explanation
Indices: 911841--911888 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
911831 CATAATAATA
* * *
911841 ATT ATA ATT ATT ATT AAT ATA ATAT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT ATT
911888 A
1 A
911889 AATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:911859 original size:22 final size:22
Alignment explanation
Indices: 911833--911878 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
911823 AATTTTTTCA
911833 TAATAATAAT-TATAATTATTAT
1 TAAT-ATAATATATAATTATTAT
*
911855 TAATATAATATATTATTATTAT
1 TAATATAATATATAATTATTAT
911877 TA
1 TA
911879 TTTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATAATATATAATTATTAT
Found at i:911868 original size:16 final size:16
Alignment explanation
Indices: 911843--911901 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
911833 TAATAATAAT
911843 TATAAT-TATTATTAA
1 TATAATATATTATTAA
*
911858 TATAATATATTATTAT
1 TATAATATATTATTAA
* *
911874 TATTATTTATTATTAAA
1 TATAATATATTATT-AA
911891 TATATATATAT
1 TATA-ATATAT
911902 ATATATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
15 6 0.17
16 20 0.57
17 4 0.11
18 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATAATATATTATTAA
Found at i:911892 original size:28 final size:28
Alignment explanation
Indices: 911832--911904 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
911822 TAATTTTTTC
*
911832 ATAATA-ATAATTATAATTATTATTAAT
1 ATAATATATTATTATAATTATTATTAAT
* *
911859 ATAATATATTATTATTATTATTTATTATT
1 ATAATATATTATTATAATTA-TTATTAAT
911888 A-AATATATATATATATA
1 ATAATATAT-TAT-TATA
911905 TATATTACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 6 0.16
28 18 0.47
29 11 0.29
30 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATATATTATTATAATTATTATTAAT
Found at i:913340 original size:35 final size:35
Alignment explanation
Indices: 913301--913369 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
913291 TTTTTATTAT
*
913301 TTTTAATATATTTTAAATA-ATTACTTTAATTATTG
1 TTTTAATATATTATAAATATATTA-TTTAATTATTG
* * *
913336 TTTTACTATATTATATATATATTATTTATTTATT
1 TTTTAATATATTATAAATATATTATTTAATTATT
913370 TAATAATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (35 bp):
TTTTAATATATTATAAATATATTATTTAATTATTG
Found at i:922819 original size:2 final size:2
Alignment explanation
Indices: 922814--922856 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
922804 TTTATTAAAA
922814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
922856 A
1 A
922857 GTTTAGACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:923382 original size:22 final size:22
Alignment explanation
Indices: 923325--923384 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
923315 AGGAATGAAT
923325 TTATAAAATTT-TAATAAATAAA
1 TTATAAAATTTATAA-AAATAAA
** ** *
923347 AAATAAAAAATATAAAAATAGA
1 TTATAAAATTTATAAAAATAAA
923369 TTATAAAATTTATAAA
1 TTATAAAATTTATAAA
923385 GTTTCAAGCC
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TTATAAAATTTATAAAAATAAA
Found at i:924282 original size:16 final size:16
Alignment explanation
Indices: 924256--924310 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
924246 AATAATTAAT
924256 TAATAAATTTAAATAAA
1 TAAT-AATTTAAATAAA
*
924273 TAATAATTTATATAAA
1 TAATAATTTAAATAAA
* *
924289 T-ATTATTTTAATAAA
1 TAATAATTTAAATAAA
*
924304 AAATAAT
1 TAATAAT
924311 AACTATATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.35
16 16 0.52
17 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAATTTAAATAAA
Found at i:924330 original size:30 final size:32
Alignment explanation
Indices: 924290--924348 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
924280 TTATATAAAT
*
924290 ATTATTTTAATA-AAAA-ATAATAACTATATA
1 ATTATATTAATATAAAATATAATAACTATATA
924320 ATTATATTAATATAAAATATAATAACTAT
1 ATTATATTAATATAAAATATAATAACTAT
924349 GTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 4 0.15
32 11 0.42
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (32 bp):
ATTATATTAATATAAAATATAATAACTATATA
Found at i:928950 original size:37 final size:39
Alignment explanation
Indices: 928865--928955 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 39
928855 CATTAAACTT
*
928865 TTTTATATTTTTAATTTTGTAAAAAAAATTATATAAATA
1 TTTTATAATTTTAATTTTGTAAAAAAAATTATATAAATA
* *
928904 --TTATGAATTTT-ATTTTTTAAAGAAAA-TATATAAATA
1 TTTTAT-AATTTTAATTTTGTAAAAAAAATTATATAAATA
928940 TTTTATAATTTGTAAT
1 TTTTATAATTT-TAAT
928956 ATTATACAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
36 10 0.23
37 22 0.50
38 10 0.23
39 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (39 bp):
TTTTATAATTTTAATTTTGTAAAAAAAATTATATAAATA
Found at i:930492 original size:68 final size:69
Alignment explanation
Indices: 930358--930494 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
930348 CTATGTGAAC
*
930358 CCTCTTCCGGAAAAGCAAAGGAAACTTTGGGTCAATTCCCACTTCGTTGGTAAGCTAGTGGAGAT
1 CCTCTTCCGGAAAAGCAAAGGAAACTTTGGGCCAATTCCCACTTCGTTGGTAAGCTAGTGGAGAT
930423 GGAA
66 GGAA
930427 CCTCTTCCGGAAAAGCAAAGGAAACTTTGGGCCAA-TCCCACTTCGTTGGTAAGCTAGTGGAGAT
1 CCTCTTCCGGAAAAGCAAAGGAAACTTTGGGCCAATTCCCACTTCGTTGGTAAGCTAGTGGAGAT
930491 GGAA
66 GGAA
930495 ATTTGGGGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 33 0.49
69 34 0.51
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (69 bp):
CCTCTTCCGGAAAAGCAAAGGAAACTTTGGGCCAATTCCCACTTCGTTGGTAAGCTAGTGGAGAT
GGAA
Found at i:930542 original size:26 final size:26
Alignment explanation
Indices: 930512--930591 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
930502 GGGATGTGAT
930512 GGTCTTCGTTGATTGTGATGTTGGAG
1 GGTCTTCGTTGATTGTGATGTTGGAG
930538 GGTCTTCGTTGATTGTGATGTTGGAG
1 GGTCTTCGTTGATTGTGATGTTGGAG
* *
930564 GGTCTTCGTTGATTGTGACGTAGGAG
1 GGTCTTCGTTGATTGTGATGTTGGAG
930590 GG
1 GG
930592 CCGTCATTGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.12, C:0.09, G:0.40, T:0.39
Consensus pattern (26 bp):
GGTCTTCGTTGATTGTGATGTTGGAG
Found at i:936833 original size:21 final size:19
Alignment explanation
Indices: 936795--936832 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
936785 GATAAATAAA
936795 AGGTTTGTTCTTTCTCTCT
1 AGGTTTGTTCTTTCTCTCT
*
936814 AGGTTTGTTCTTTTTCTCT
1 AGGTTTGTTCTTTCTCTCT
936833 CCAGAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.18, G:0.16, T:0.61
Consensus pattern (19 bp):
AGGTTTGTTCTTTCTCTCT
Found at i:939875 original size:20 final size:20
Alignment explanation
Indices: 939852--939897 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
939842 TTAACCGGAA
939852 ATATTATCAAGTACA-ATAAC
1 ATATTATCAA-TACATATAAC
939872 ATATTATCAATACATATAAC
1 ATATTATCAATACATATAAC
939892 ATATTA
1 ATATTA
939898 GGTACAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATTATCAATACATATAAC
Found at i:939909 original size:17 final size:18
Alignment explanation
Indices: 939861--939911 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
939851 AATATTATCA
939861 AGTACAATAACATATTATC
1 AGTACAATAACATATTA-C
*
939880 AATACATATAACATATTA-
1 AGTACA-ATAACATATTAC
*
939898 GGTACAATAACATA
1 AGTACAATAACATA
939912 GCTCTTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 4 0.14
19 5 0.18
20 11 0.39
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (18 bp):
AGTACAATAACATATTAC
Found at i:950505 original size:2 final size:2
Alignment explanation
Indices: 950498--950550 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
950488 TTCAATGAAC
950498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
950540 AT AT AT AT AT A
1 AT AT AT AT AT A
950551 ACTTCATCGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:952072 original size:22 final size:22
Alignment explanation
Indices: 952047--952097 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
952037 ACGTGAGAAT
*
952047 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
952069 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
952091 CACGGGT
1 CACGGGT
952098 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:952926 original size:172 final size:171
Alignment explanation
Indices: 952587--952943 Score: 540
Period size: 172 Copynumber: 2.1 Consensus size: 171
952577 TTGTAAAGTT
* * * *
952587 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
952652 ACTATGCTGGAATTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTAAAATTTATGGA
66 ACTATGCTGGAATTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTAAAATTTATGGA
*
952717 TTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 TTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * *
952758 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTTG-TA
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAG-TTGCTA
* *
952822 TACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTA-
65 TACTATGCTGGAA-TTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTAT
* *
952886 GTGATTAAATTGCAAAGTTTG-AAATGTTGAGAAGCAAATAGTAA
128 G-GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
952930 TTAGGGATCATTTT
1 TTAGGGATCATTTT
952944 ATATTTGATG
Statistics
Matches: 168, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
171 65 0.39
172 79 0.47
173 24 0.14
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (171 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTAAAATTTATGGA
TTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:955634 original size:18 final size:18
Alignment explanation
Indices: 955611--955645 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
955601 ACCAACTTGC
955611 TTCAGACGAATCTCACGT
1 TTCAGACGAATCTCACGT
955629 TTCAGACGAATCTCACG
1 TTCAGACGAATCTCACG
955646 CTTCGGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
TTCAGACGAATCTCACGT
Found at i:957133 original size:15 final size:16
Alignment explanation
Indices: 957095--957135 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
957085 ACAGAACCTC
*
957095 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
957111 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
957127 T-AATCATTC
1 TGAATCATTC
957136 TGAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:969990 original size:22 final size:22
Alignment explanation
Indices: 969946--970006 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
969936 TTGGTACAGC
969946 TCTATCGATTTTGTTA-TTTTT
1 TCTATCGATTTTGTTATTTTTT
*
969967 TCTATCGGTTTTGTTATTTTTT
1 TCTATCGATTTTGTTATTTTTT
*
969989 TCTACCGATTTTGTTATT
1 TCTATCGATTTTGTTATT
970007 ATTAGACACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 15 0.42
22 21 0.58
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.64
Consensus pattern (22 bp):
TCTATCGATTTTGTTATTTTTT
Found at i:970057 original size:21 final size:21
Alignment explanation
Indices: 970032--970076 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
970022 CGGAAAATAT
**
970032 TAAAAAAAATGATGTTTTAAA
1 TAAAAAAAACAATGTTTTAAA
* *
970053 TAAAAATAACAATGTTTTAGA
1 TAAAAAAAACAATGTTTTAAA
970074 TAA
1 TAA
970077 TTTTTTACCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAAAAAAACAATGTTTTAAA
Found at i:975167 original size:34 final size:31
Alignment explanation
Indices: 975089--975171 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
975079 TTTGATTAAT
* *
975089 AAATTTTAGATAAAATATTAATTTAATTTTT
1 AAATTTTAGATAAAATATTAATTTAATATTG
* *
975120 AAATTTTAAATAAAATATTAATTTGATAATTG
1 AAATTTTAGATAAAATATTAATTTAAT-ATTG
*
975152 AGTATATTTAGATAAAATAT
1 A-AAT-TTTAGATAAAATAT
975172 CAATCTAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
31 25 0.58
32 3 0.07
33 2 0.05
34 13 0.30
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (31 bp):
AAATTTTAGATAAAATATTAATTTAATATTG
Found at i:980767 original size:24 final size:26
Alignment explanation
Indices: 980721--980768 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
980711 CTAATGTTCG
*
980721 TCTTCTTTATTTTTCATACCAACATT
1 TCTTCTTTATTTTTCATAACAACATT
*
980747 TCTT-TTTA-TTTTCGTAACAACA
1 TCTTCTTTATTTTTCATAACAACA
980769 CTTAATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 4 0.20
26 4 0.20
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.52
Consensus pattern (26 bp):
TCTTCTTTATTTTTCATAACAACATT
Found at i:981200 original size:21 final size:21
Alignment explanation
Indices: 981162--981201 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
981152 CTATCTGCTA
*
981162 CGAAGATCTGAAACCCATCGT
1 CGAAGATCTCAAACCCATCGT
* *
981183 CGAAGATCTCCAATCCATC
1 CGAAGATCTCAAACCCATC
981202 TCCATTTGCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (21 bp):
CGAAGATCTCAAACCCATCGT
Found at i:986921 original size:34 final size:30
Alignment explanation
Indices: 986883--986951 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
986873 TTGATATAAC
986883 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
986917 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
986946 AATTTA
1 AATTTA
986952 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:986962 original size:29 final size:30
Alignment explanation
Indices: 986892--986951 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
986882 CAATTTAAGG
986892 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
986923 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
986952 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:987046 original size:8 final size:8
Alignment explanation
Indices: 987033--987152 Score: 67
Period size: 8 Copynumber: 17.0 Consensus size: 8
987023 GGTGTCAAAG
987033 TGCATCCA
1 TGCATCCA
*
987041 TGCATCCC
1 TGCATCCA
*
987049 TGCA---G
1 TGCATCCA
987054 TGCATCCA
1 TGCATCCA
*
987062 TGCATCCC
1 TGCATCCA
987070 TGCA---A
1 TGCATCCA
987075 TGCATCCA
1 TGCATCCA
987083 TGCAT-C-
1 TGCATCCA
*
987089 TGCA-CTAA
1 TGCATC-CA
*
987097 TGCATCGA
1 TGCATCCA
987105 TGCAT-CA
1 TGCATCCA
987112 TGCA---A
1 TGCATCCA
987117 TGCATCCA
1 TGCATCCA
987125 TGCAT-CA
1 TGCATCCA
987132 TGCA---A
1 TGCATCCA
987137 TGCATCCA
1 TGCATCCA
987145 TGCATCCA
1 TGCATCCA
987153 AACATCGAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 32
0.69 0.06 0.25
Matches are distributed among these distances:
5 18 0.20
6 4 0.05
7 12 0.14
8 53 0.60
9 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (8 bp):
TGCATCCA
Found at i:987057 original size:21 final size:20
Alignment explanation
Indices: 987033--987151 Score: 150
Period size: 20 Copynumber: 5.8 Consensus size: 20
987023 GGTGTCAAAG
*
987033 TGCATCCATGCATCCCTGCAG
1 TGCATCCATGCAT-CCTGCAA
987054 TGCATCCATGCATCCCTGCAA
1 TGCATCCATGCAT-CCTGCAA
987075 TGCATCCATGCAT-CTGCACTAA
1 TGCATCCATGCATCCTG--C-AA
* *
987097 TGCATCGATGCATCATGCAA
1 TGCATCCATGCATCCTGCAA
*
987117 TGCATCCATGCATCATGCAA
1 TGCATCCATGCATCCTGCAA
987137 TGCATCCATGCATCC
1 TGCATCCATGCATCC
987152 AAACATCGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.03
20 35 0.39
21 35 0.39
22 14 0.16
23 2 0.02
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (20 bp):
TGCATCCATGCATCCTGCAA
Found at i:987121 original size:12 final size:12
Alignment explanation
Indices: 987104--987148 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
987094 TAATGCATCG
987104 ATGCATCATGCA
1 ATGCATCATGCA
987116 ATGCATC---C-
1 ATGCATCATGCA
987124 ATGCATCATGCA
1 ATGCATCATGCA
987136 ATGCATCCATGCA
1 ATGCAT-CATGCA
987149 TCCAAACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
11 1 0.04
12 13 0.46
13 6 0.21
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGCATCATGCA
Found at i:987148 original size:13 final size:14
Alignment explanation
Indices: 987061--987135 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 14
987051 CAGTGCATCC
*
987061 ATGCATCCCTGCA-
1 ATGCATCCATGCAT
987074 ATGCATCCATGCAT
1 ATGCATCCATGCAT
* *
987088 CTGCA-CTAATGCAT
1 ATGCATC-CATGCAT
987102 CGATGCAT-CATGCA-
1 --ATGCATCCATGCAT
987116 ATGCATCCATGCAT
1 ATGCATCCATGCAT
987130 CATGCA
1 -ATGCA
987136 ATGCATCCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
12 6 0.12
13 19 0.39
14 10 0.20
15 10 0.20
16 4 0.08
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (14 bp):
ATGCATCCATGCAT
Found at i:987196 original size:20 final size:19
Alignment explanation
Indices: 987171--987237 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 19
987161 ATGCAATTAG
987171 TGCATCGATGCATCTTGCTA
1 TGCATCGATGCATCTTGC-A
987191 TGCATCGATGCATCCTTGGCA
1 TGCATCGATGCAT-CTT-GCA
*
987212 TGCATCGATGCATCCTGCCA
1 TGCATCGATGCATCTTG-CA
987232 TGCATC
1 TGCATC
987238 AAGGCTGCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.02
20 23 0.53
21 17 0.40
22 2 0.05
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCATCTTGCA
Found at i:987632 original size:34 final size:32
Alignment explanation
Indices: 987593--987662 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
987583 TTTTGTAAAG
*
987593 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
987627 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
987659 GGGA
1 GGGA
987663 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:990492 original size:34 final size:30
Alignment explanation
Indices: 990454--990522 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
990444 TTGATATAAC
990454 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
990488 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
990517 AATTTA
1 AATTTA
990523 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:990533 original size:29 final size:30
Alignment explanation
Indices: 990463--990522 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
990453 CAATTTAAGG
990463 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
990494 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
990523 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:990617 original size:8 final size:8
Alignment explanation
Indices: 990604--990703 Score: 55
Period size: 8 Copynumber: 14.0 Consensus size: 8
990594 GGTGTCAAAG
990604 TGCATCCA
1 TGCATCCA
*
990612 TGCATCCC
1 TGCATCCA
*
990620 TGCA---G
1 TGCATCCA
990625 TGCATCCA
1 TGCATCCA
*
990633 TGCATCCC
1 TGCATCCA
990641 TGCA---A
1 TGCATCCA
990646 TGCATCCA
1 TGCATCCA
990654 TGCAT-C-
1 TGCATCCA
*
990660 TGCA-CTAA
1 TGCATC-CA
*
990668 TGCATCGA
1 TGCATCCA
990676 TGCAT-CA
1 TGCATCCA
990683 TGCA---A
1 TGCATCCA
990688 TGCATCCA
1 TGCATCCA
990696 TGCATCCA
1 TGCATCCA
990704 AACATCGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 26
0.68 0.08 0.25
Matches are distributed among these distances:
5 13 0.18
6 4 0.06
7 6 0.08
8 47 0.66
9 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (8 bp):
TGCATCCA
Found at i:990628 original size:21 final size:21
Alignment explanation
Indices: 990604--990702 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
990594 GGTGTCAAAG
*
990604 TGCATCCATGCATCCCTGCAG
1 TGCATCCATGCATCCCTGCAA
990625 TGCATCCATGCATCCCTGCAA
1 TGCATCCATGCATCCCTGCAA
990646 TGCATCCATGCAT--CTGCACTAA
1 TGCATCCATGCATCCCTG--C-AA
* *
990668 TGCATCGATGCAT-CATGCAA
1 TGCATCCATGCATCCCTGCAA
990688 TGCATCCATGCATCC
1 TGCATCCATGCATCC
990703 AAACATCGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
19 3 0.04
20 14 0.20
21 36 0.52
22 14 0.20
23 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.25
Consensus pattern (21 bp):
TGCATCCATGCATCCCTGCAA
Found at i:990648 original size:13 final size:13
Alignment explanation
Indices: 990632--990699 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
990622 CAGTGCATCC
*
990632 ATGCATCCCTGCA
1 ATGCATCCATGCA
990645 ATGCATCCATGCA
1 ATGCATCCATGCA
* *
990658 TCTGCA-CTAATGCA
1 -ATGCATC-CATGCA
990672 TCGATGCAT-CATGCA
1 ---ATGCATCCATGCA
990687 ATGCATCCATGCA
1 ATGCATCCATGCA
990700 TCCAAACATC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 6 0.14
13 19 0.44
14 9 0.21
15 5 0.12
16 4 0.09
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (13 bp):
ATGCATCCATGCA
Found at i:991180 original size:34 final size:32
Alignment explanation
Indices: 991141--991210 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
991131 TTTTGTAAAG
*
991141 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
991175 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
991207 GGGA
1 GGGA
991211 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:994023 original size:130 final size:129
Alignment explanation
Indices: 993787--994037 Score: 412
Period size: 130 Copynumber: 1.9 Consensus size: 129
993777 TTACTCTACG
* * * * *
993787 AAAATTAAATATGTTCCTTAAATGTATCATATCTTTTTGAATATTCTGAATTTAAAAAATATTAT
1 AAAATTAAATATGTTCCTTAAATATAGCATATATTTTTGAATATTCTAAATTAAAAAAATATTAT
* * *
993852 ATGATTTTCTTTTAATTCAAATGTTAATATGGTATGACTTACAGTTCACGAATATATCACTAAA
66 ACGATTTACTTTTAATTCAAATGTTAATATGATATGACTTACAGTTCACGAATATATCACTAAA
*
993916 AAAATTAAATATTTTCCTTAAATATAGCATATATTTTTGAATATTCTAAATTAAAAAAGATATTA
1 AAAATTAAATATGTTCCTTAAATATAGCATATATTTTTGAATATTCTAAATTAAAAAA-ATATTA
993981 TACGATTTACTTTTAATTCAAATGTTAATATGATATGACTTACAGTTCACGAATATA
65 TACGATTTACTTTTAATTCAAATGTTAATATGATATGACTTACAGTTCACGAATATA
994038 GTCTAATTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 52 0.46
130 60 0.54
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (129 bp):
AAAATTAAATATGTTCCTTAAATATAGCATATATTTTTGAATATTCTAAATTAAAAAAATATTAT
ACGATTTACTTTTAATTCAAATGTTAATATGATATGACTTACAGTTCACGAATATATCACTAAA
Found at i:995558 original size:20 final size:21
Alignment explanation
Indices: 995523--995570 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
995513 TCGTAACACG
* *
995523 GAATTT-TAAATTCGCAACTC
1 GAATTTCTAAATCCGCAACGC
995543 G-ATTTCTAAATCCGCAACGC
1 GAATTTCTAAATCCGCAACGC
995563 GAATTTCT
1 GAATTTCT
995571 TTTTCGCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
GAATTTCTAAATCCGCAACGC
Found at i:995639 original size:20 final size:20
Alignment explanation
Indices: 995555--995680 Score: 68
Period size: 20 Copynumber: 6.4 Consensus size: 20
995545 TTTCTAAATC
*
995555 CGCAACGCGAA-TTTCTTTTT
1 CGCAACACGAATTTTC-TTTT
*
995575 CGCAACAC-AAGTTTCCTTTT
1 CGCAACACGAA-TTTTCTTTT
* *
995595 CGCAACAAG-ATTTTCTAAATT
1 CGCAACACGAATTTTCT--TTT
*
995616 -GCAACACGAATTTTGTTTT
1 CGCAACACGAATTTTCTTTT
* **
995635 CGCAACTCG-ATTTTCGAATT
1 CGCAACACGAATTTTC-TTTT
* *
995655 CGCAACA--ACTTTTATTTT
1 CGCAACACGAATTTTCTTTT
995673 CGCAACAC
1 CGCAACAC
995681 AAATGTTTTG
Statistics
Matches: 79, Mismatches: 17, Indels: 21
0.68 0.15 0.18
Matches are distributed among these distances:
18 9 0.11
19 18 0.23
20 41 0.52
21 11 0.14
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (20 bp):
CGCAACACGAATTTTCTTTT
Found at i:995657 original size:60 final size:60
Alignment explanation
Indices: 995531--995662 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
995521 CGGAATTTTA
** *
995531 AATTCGCAACTCGATTTCTAAATCCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCC
1 AATTCGCAACAAGATTTCTAAATCCGCAACACGAATTTCTTTTTCGCAACACAAGTTTCC
** * * * * *
995591 TTTTCGCAACAAGATTTTCTAAAT-TGCAACACGAATTT-TGTTTTCGCAACTCGATTTTCG
1 AATTCGCAACAAGA-TTTCTAAATCCGCAACACGAATTTCT-TTTTCGCAACACAAGTTTCC
995651 AATTCGCAACAA
1 AATTCGCAACAA
995663 CTTTTATTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
59 1 0.02
60 48 0.83
61 9 0.16
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (60 bp):
AATTCGCAACAAGATTTCTAAATCCGCAACACGAATTTCTTTTTCGCAACACAAGTTTCC
Done.