Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 38 of 150
Found at i:10333190 original size:22 final size:20
Alignment explanation
Indices: 10333146--10333182 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
10333136 TGGGCCAGTC
10333146 GGGTTATTGGGCTTAAGTTT
1 GGGTTATTGGGCTTAAGTTT
10333166 GGGTT-TTGGGCTTAAGT
1 GGGTTATTGGGCTTAAGT
10333183 GGTTTGGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.14, C:0.05, G:0.38, T:0.43
Consensus pattern (20 bp):
GGGTTATTGGGCTTAAGTTT
Found at i:10333521 original size:29 final size:29
Alignment explanation
Indices: 10333488--10333584 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 29
10333478 AGGACAATAT
10333488 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
1 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
* ** * *
10333517 TTTGTGGTGAACCTAT-TA-AAGGGTAA-CC
1 TTTGTGG-CAAAAT-TCTAGAAAGGCAAGCC
* * *
10333545 TTTGTGGAAAAACTCTGGAAAGGCAAGCC
1 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
10333574 TTTGTGGCAAA
1 TTTGTGGCAAA
10333585 CCTATTAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 15 0.30
29 25 0.50
30 5 0.10
31 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (29 bp):
TTTGTGGCAAAATTCTAGAAAGGCAAGCC
Found at i:10333595 original size:29 final size:29
Alignment explanation
Indices: 10333506--10333667 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 29
10333496 AAAATTCTAG
**
10333506 AAAGGCAAGCCTTTGTGGTGAACCTATTA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
* * * * * **
10333535 AAGGGTAA-CCTTTGTGGAAAAACTCTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
10333563 AAAGGCAAGCCTTTGTGGCAAACCTATTA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
* * * * *
10333592 AAAGAC-AGGCTTTGTGGTAAAACT-TTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATT-A
* * ** *
10333620 AAATGCAACCCTTCATGGCAAACCTGTT-
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
*
10333648 AAAGG-ATGCCTTTGTGGCAA
1 AAAGGCAAGCCTTTGTGGCAA
10333668 TCTCTGGATA
Statistics
Matches: 96, Mismatches: 33, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
27 13 0.14
28 43 0.45
29 38 0.40
30 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (29 bp):
AAAGGCAAGCCTTTGTGGCAAACCTATTA
Found at i:10333605 original size:57 final size:57
Alignment explanation
Indices: 10333488--10333650 Score: 173
Period size: 57 Copynumber: 2.9 Consensus size: 57
10333478 AGGACAATAT
* * * ** * **
10333488 TTTGTGGCAAAATTCTAGAAAGGCAAGCCTTTGTGGTGAACCTATTAAAGGGTAACC
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
**
10333545 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAGGC
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
* * * * ** *
10333602 TTTGTGGTAAAACTTTGGAAATGCAACCCTTCATGGCAAACCTGTTAAA
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAA
10333651 GGATGCCTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 89 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (57 bp):
TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
Found at i:10341903 original size:18 final size:19
Alignment explanation
Indices: 10341882--10341922 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
10341872 TAAATCCTTA
10341882 AAAATACC-TA-ACCCTAAC
1 AAAATACCATACA-CCTAAC
10341900 AAAA-ACCATACACCTAAC
1 AAAATACCATACACCTAAC
10341918 AAAAT
1 AAAAT
10341923 TAAAAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.15
18 16 0.80
19 1 0.05
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATACCATACACCTAAC
Found at i:10343463 original size:33 final size:33
Alignment explanation
Indices: 10343411--10343477 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
10343401 GAAGGGAGCA
*
10343411 AGGACAATGCGTCAGTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
* *
10343444 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
10343477 A
1 A
10343478 CTAACTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
Found at i:10352003 original size:20 final size:20
Alignment explanation
Indices: 10351978--10352070 Score: 85
Period size: 19 Copynumber: 4.9 Consensus size: 20
10351968 CAAAATTCTG
10351978 AAAAAAAGTAT-AAATAAAT
1 AAAAAAAGTATAAAATAAAT
10351997 AAAAAAAGTATAAAATAAAT
1 AAAAAAAGTATAAAATAAAT
10352017 AAAATAAA-TA-AAAA-AAAGT
1 AAAA-AAAGTATAAAATAAA-T
* *
10352036 ATAAATAA--ATAAAGT--AT
1 A-AAAAAAGTATAAAATAAAT
10352053 AAAAAAAGTATAAAATAA
1 AAAAAAAGTATAAAATAA
10352071 GAAACGTACT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.08
17 2 0.03
18 11 0.18
19 22 0.37
20 17 0.28
21 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAAAAGTATAAAATAAAT
Found at i:10352011 original size:29 final size:27
Alignment explanation
Indices: 10351979--10352067 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 27
10351969 AAAATTCTGA
10351979 AAAAAAGTATAAATAAATAAAAAAAGTAT
1 AAAAAA-TA-AAATAAATAAAAAAAGTAT
10352008 AAAATAAATAAAATAAATAAAAAAAAGTAT
1 -AAA-AAATAAAATAAAT-AAAAAAAGTAT
*
10352038 AAATAAATAAAGT--ATAAAAAAAGTAT
1 AAA-AAATAAAATAAATAAAAAAAGTAT
10352064 AAAA
1 AAAA
10352068 TAAGAAACGT
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
25 1 0.02
26 14 0.25
27 2 0.04
29 20 0.36
30 16 0.29
31 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAAATAAAATAAATAAAAAAAGTAT
Found at i:10365526 original size:27 final size:27
Alignment explanation
Indices: 10365489--10365553 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10365479 GCAATCATAT
**
10365489 AGAGTATGCCAGCAAGGCGATCCATTC
1 AGAGTATGCCAAAAAGGCGATCCATTC
* *
10365516 AGAGTACGCCAAAAAGGTGATCCATTC
1 AGAGTATGCCAAAAAGGCGATCCATTC
*
10365543 AGCGTATGCCA
1 AGAGTATGCCA
10365554 TGGCCATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGTATGCCAAAAAGGCGATCCATTC
Found at i:10374975 original size:24 final size:24
Alignment explanation
Indices: 10374889--10374974 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
10374879 TTTACTGCAA
* * **
10374889 TATTGAGTGGTTTAACCACAATTT
1 TATTGAGTGGCTTGACCACAACGT
* *
10374913 TATTGAGTGGCTTGACCCCAACGC
1 TATTGAGTGGCTTGACCACAACGT
*
10374937 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
10374961 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
10374975 GTCACAATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:10376880 original size:13 final size:15
Alignment explanation
Indices: 10376856--10376887 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10376846 ATCCTATATT
10376856 TATTATTAATTAA-A
1 TATTATTAATTAACA
10376870 TATTA-TAATTAACA
1 TATTATTAATTAACA
10376884 TATT
1 TATT
10376888 TTCACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:10377116 original size:21 final size:21
Alignment explanation
Indices: 10377092--10377133 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10377082 GTCACCTGCC
*
10377092 ATAAATATTTAATATAAATAT
1 ATAAATATTTAATAGAAATAT
*
10377113 ATAAATGTTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
10377134 TTATGAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAAATATTTAATAGAAATAT
Found at i:10382639 original size:19 final size:19
Alignment explanation
Indices: 10382611--10382655 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
10382601 GTGTGGCCAG
10382611 GCCGTGTGACACAACTTAA
1 GCCGTGTGACACAACTTAA
*
10382630 GCCGTTTGACACAACTTAA
1 GCCGTGTGACACAACTTAA
10382649 GCCGTGT
1 GCCGTGT
10382656 CCCAGCCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (19 bp):
GCCGTGTGACACAACTTAA
Found at i:10383990 original size:21 final size:21
Alignment explanation
Indices: 10383966--10384018 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
10383956 GCATCGTATA
*
10383966 TGCAGAACAGGGGCA-CATACG
1 TGCAGAACAGGGGCACCA-AAG
*
10383987 TGCAG-TCAGGGGCACCAAAG
1 TGCAGAACAGGGGCACCAAAG
10384007 TGC-GAACAGGGG
1 TGCAGAACAGGGG
10384019 AATAGACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.30, C:0.23, G:0.38, T:0.09
Consensus pattern (21 bp):
TGCAGAACAGGGGCACCAAAG
Found at i:10385944 original size:20 final size:19
Alignment explanation
Indices: 10385915--10385952 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
10385905 AGCTAATAAC
10385915 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
10385934 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
10385953 CAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:10388877 original size:6 final size:6
Alignment explanation
Indices: 10388866--10388890 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10388856 AGGTTTCCAA
10388866 AAATGG AAATGG AAATGG AAATGG A
1 AAATGG AAATGG AAATGG AAATGG A
10388891 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:10393592 original size:23 final size:23
Alignment explanation
Indices: 10393566--10393616 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10393556 TATCAGATTT
10393566 CGCCATGAGGGCGTTACAGAATA
1 CGCCATGAGGGCGTTACAGAATA
* *
10393589 CGCCATGAGGGTGTTACATAATA
1 CGCCATGAGGGCGTTACAGAATA
*
10393612 TGCCA
1 CGCCA
10393617 CAAAAGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (23 bp):
CGCCATGAGGGCGTTACAGAATA
Found at i:10393656 original size:23 final size:23
Alignment explanation
Indices: 10393608--10393738 Score: 129
Period size: 23 Copynumber: 5.7 Consensus size: 23
10393598 GGTGTTACAT
* *
10393608 AATATGCCACAAAAGGCTTCATAG
1 AATACGCCAC-AAAGGCATCATAG
* *
10393632 AATATGCCACAAAAGCATCATAG
1 AATACGCCACAAAGGCATCATAG
* * *
10393655 AATACACCACAAAGGCTTCACAG
1 AATACGCCACAAAGGCATCATAG
* *
10393678 AATACACCATAAAGGCATCA-AG
1 AATACGCCACAAAGGCATCATAG
* *
10393700 AGTACGCAACAAAGGCATCATAG
1 AATACGCCACAAAGGCATCATAG
* *
10393723 GATACACCACAAAGGC
1 AATACGCCACAAAGGC
10393739 TTTTCTTGAG
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
22 18 0.20
23 61 0.69
24 10 0.11
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (23 bp):
AATACGCCACAAAGGCATCATAG
Found at i:10395177 original size:25 final size:25
Alignment explanation
Indices: 10395134--10395185 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
10395124 TTCCTTAATG
*
10395134 AAAATTTTGTCCTCAAAATTTTTCT
1 AAAATTTTGTACTCAAAATTTTTCT
* *
10395159 AAAATTTTTTACTCGAAATTTTTCT
1 AAAATTTTGTACTCAAAATTTTTCT
10395184 AA
1 AA
10395186 CTTAGGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (25 bp):
AAAATTTTGTACTCAAAATTTTTCT
Found at i:10400252 original size:29 final size:29
Alignment explanation
Indices: 10400210--10400270 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
10400200 TCGAAACCGT
*
10400210 TTTTTGAAAACAAAAATTTTGTTGTCGAC
1 TTTTTGAAAACAAAAATTTGGTTGTCGAC
* *
10400239 TTTTTGAAAGCAAAAATTTGGTTGTGGAC
1 TTTTTGAAAACAAAAATTTGGTTGTCGAC
10400268 TTT
1 TTT
10400271 AGTCATTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (29 bp):
TTTTTGAAAACAAAAATTTGGTTGTCGAC
Found at i:10401701 original size:6 final size:6
Alignment explanation
Indices: 10401690--10401728 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
10401680 GGTTTTATCC
**
10401690 AAAATG AAAATG GGAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
10401729 TTCATTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:10404592 original size:28 final size:29
Alignment explanation
Indices: 10404487--10404591 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
10404477 GAACACACAA
10404487 GAAAATGGAAGCCTTTGTGGCATAT-T-T
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* * *
10404514 G-AAATGGAAGCCTTTGTGGTATATCCAA
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* *
10404542 GAAAATAGAAGCCTATGTGGCA-ATCTAT
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* *
10404570 GAAAATGGAAGCTTTTATGGCA
1 GAAAATGGAAGCCTTTGTGGCA
10404592 AATCCTCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.35
27 1 0.02
28 23 0.37
29 17 0.27
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (29 bp):
GAAAATGGAAGCCTTTGTGGCATATCTAT
Found at i:10405622 original size:26 final size:27
Alignment explanation
Indices: 10405523--10405644 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
10405513 TTGGGGAGTT
* * *
10405523 ACAAAGGCATTCCTTTCATATTCTGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
10405550 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
10405577 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
* * *
10405604 ACGAATGC-TTTCTTTCATATTACGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
10405630 ACAAAGGC-TTTCTTT
1 ACAAAGGCTTTTCTTT
10405645 ATTTGTCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 30 0.34
27 57 0.66
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (27 bp):
ACAAAGGCTTTTCTTTCATATTATGCC
Found at i:10427457 original size:18 final size:18
Alignment explanation
Indices: 10427436--10427479 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10427426 AATGAAACAG
10427436 AAAGAAAGAA-AGAAAGAA
1 AAAGAAA-AAGAGAAAGAA
*
10427454 AAAGAAAAAGGGAAAGAA
1 AAAGAAAAAGAGAAAGAA
10427472 AGAAGAAA
1 A-AAGAAA
10427480 CGCAAGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAGAAAGAA
Found at i:10427459 original size:22 final size:22
Alignment explanation
Indices: 10427404--10427475 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
10427394 CAAGTAATAA
10427404 AAAG-AAAA-AAAGAAAG-AAG
1 AAAGAAAAAGAAAGAAAGAAAG
*
10427423 CCAAATGAAACAGAAAGAAAGAAAG
1 --AAA-GAAAAAGAAAGAAAGAAAG
*
10427448 AAAGAAAAAGAAA-AAGGGAAAG
1 AAAGAAAAAGAAAGAA-AGAAAG
10427470 AAAGAA
1 AAAGAA
10427476 GAAACGCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
21 5 0.12
22 21 0.49
23 6 0.14
24 8 0.19
25 3 0.07
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (22 bp):
AAAGAAAAAGAAAGAAAGAAAG
Found at i:10430262 original size:20 final size:20
Alignment explanation
Indices: 10430224--10430262 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10430214 ACCCCAAACC
* *
10430224 CTTAAACCTTAAACTTGAAT
1 CTTAAACCCTAAACCTGAAT
*
10430244 CTTAAACCCTAAGCCTGAA
1 CTTAAACCCTAAACCTGAA
10430263 CCCTAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (20 bp):
CTTAAACCCTAAACCTGAAT
Found at i:10431288 original size:15 final size:15
Alignment explanation
Indices: 10431268--10431297 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10431258 ATTTTTGTAT
*
10431268 TATTTTAATATTAAA
1 TATTTTAAAATTAAA
10431283 TATTTTAAAATTAAA
1 TATTTTAAAATTAAA
10431298 CAATATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATTAAA
Found at i:10440748 original size:50 final size:50
Alignment explanation
Indices: 10440631--10440866 Score: 228
Period size: 50 Copynumber: 4.7 Consensus size: 50
10440621 GATAATAACA
* * *
10440631 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * * * *
10440680 TGCCAATGCCATATCCCAGATATGGTATTACGTGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
** * * **
10440730 TGCCCGTGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACTTCTCATCTCGG
* * * * * *
10440780 TGCCAACGCCATGTCCCAAATATGGTCTTACATGAGACATCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
10440830 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
10440867 TCTCTTTACC
Statistics
Matches: 149, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 40 0.27
50 107 0.72
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:10440830 original size:100 final size:99
Alignment explanation
Indices: 10440631--10440871 Score: 268
Period size: 100 Copynumber: 2.4 Consensus size: 99
10440621 GATAATAACA
* * ** * *
10440631 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTACTGCCAATGCCATATCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGTACTGCCAACGCCATATCC
* * * **
10440696 CAGATATGGTATTACGTGGGAGTTCTCATATCGG
66 CAAATATGGTATTACATGAGACATCTCATATCGG
** * * *
10440730 TGCCCGTGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAGTGCCAACGCCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCAT-GTACTGCCAACGCCATAT
* * *
10440794 CCCAAATATGGTCTTACATGAGACATCTCGTCTCGG
64 CCCAAATATGGTATTACATGAGACATCTCATATCGG
* *
10440830 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
10440872 TTACCCAAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
98 2 0.02
99 35 0.30
100 77 0.66
101 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (99 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGTACTGCCAACGCCATATCC
CAAATATGGTATTACATGAGACATCTCATATCGG
Found at i:10444928 original size:14 final size:15
Alignment explanation
Indices: 10444909--10444949 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
10444899 GTGGCTAGTT
10444909 CGGTTC-ACTAGATG
1 CGGTTCAACTAGATG
*
10444923 CGGTTCAACCA-ATG
1 CGGTTCAACTAGATG
10444937 CGGTTCAACTAGA
1 CGGTTCAACTAGA
10444950 CGCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (15 bp):
CGGTTCAACTAGATG
Found at i:10459321 original size:40 final size:40
Alignment explanation
Indices: 10459265--10459645 Score: 478
Period size: 40 Copynumber: 9.6 Consensus size: 40
10459255 AATTATTGAA
* * * *
10459265 TGATTGCATTTATGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * * *
10459305 TGATTGCTCTTTTGTGCCCCTGTTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
10459345 TGATTGCACTTACATGCCCTTGTTT-TACTTTC-GTACTCC
1 TGATTGCACTTACGTGCCCCTGTTTGTAC-TTCGGTACCCC
* *
10459384 TGATTGCACTTACATGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
*
10459424 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACACC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
*
10459464 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
10459504 TGATTGCACTTGCGTGCCCTTATTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
10459544 TGTTTGCACTTACGTGCCCATATTTGTACTTCAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
10459584 TGACTGCACTTACGTGCACCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
10459624 TGGTTGCACTTCCGTGCCCCTG
1 TGATTGCACTTACGTGCCCCTG
10459646 GTTATACTCC
Statistics
Matches: 297, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
39 36 0.12
40 261 0.88
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:10459443 original size:20 final size:20
Alignment explanation
Indices: 10459265--10459645 Score: 159
Period size: 20 Copynumber: 19.1 Consensus size: 20
10459255 AATTATTGAA
* *
10459265 TGATTGCATTTATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * *
10459285 TGTTTGCACTT-CGGTACCCT
1 TGATTGCACTTAC-GTGCCCC
* **
10459305 TGATTGCTCTTTTGTGCCCC
1 TGATTGCACTTACGTGCCCC
* ** * ** *
10459325 TGTTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
* *
10459345 TGATTGCACTTACATGCCCT
1 TGATTGCACTTACGTGCCCC
** * * *
10459365 TG-TTTTACTTTCGTACTCC
1 TGATTGCACTTACGTGCCCC
* *
10459384 TGATTGCACTTACATGCCCT
1 TGATTGCACTTACGTGCCCC
* * *
10459404 TGTTTGTACTT-CGGTACCCC
1 TGATTGCACTTAC-GTGCCCC
10459424 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
10459444 TGTTTGTACTT-CGGTACACC
1 TGATTGCACTTAC-GTGCCCC
10459464 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
10459484 TGTTTGTACTT-CGGTACCCT
1 TGATTGCACTTAC-GTGCCCC
*
10459504 TGATTGCACTTGCGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * *
10459523 TTATTTGTACTT-CGGTACCCC
1 TGA-TTGCACTTAC-GTGCCCC
* *
10459544 TGTTTGCACTTACGTGCCCA
1 TGATTGCACTTACGTGCCCC
* *
10459564 T-ATTTGTACTT-CAGTACCCC
1 TGA-TTGCACTTAC-GTGCCCC
* *
10459584 TGACTGCACTTACGTGCACC
1 TGATTGCACTTACGTGCCCC
* * ** *
10459604 TGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
* *
10459624 TGGTTGCACTTCCGTGCCCC
1 TGATTGCACTTACGTGCCCC
10459644 TG
1 TG
10459646 GTTATACTCC
Statistics
Matches: 252, Mismatches: 92, Indels: 34
0.67 0.24 0.09
Matches are distributed among these distances:
19 21 0.08
20 221 0.88
21 10 0.04
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:10476358 original size:19 final size:19
Alignment explanation
Indices: 10476334--10476380 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
10476324 TTTATATTTC
*
10476334 TAAAAGAATTATAAA-AATT
1 TAAAAGAA-TATAAAGAATA
10476353 TAAAAGAATATAAAGAATA
1 TAAAAGAATATAAAGAATA
10476372 TATAAAGAA
1 TA-AAAGAA
10476381 AATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
TAAAAGAATATAAAGAATA
Found at i:10478243 original size:19 final size:19
Alignment explanation
Indices: 10478219--10478260 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10478209 AGTAATAGCT
10478219 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
10478238 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
10478257 TAAC
1 TAAC
10478261 AGCTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (19 bp):
TAACTGCTAACAGACTTAG
Found at i:10482857 original size:19 final size:19
Alignment explanation
Indices: 10482833--10482874 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10482823 AGTAACAGCT
10482833 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
10482852 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
10482871 TAAC
1 TAAC
10482875 AACTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (19 bp):
TAACTGCTAACAGACTTAG
Found at i:10489264 original size:140 final size:141
Alignment explanation
Indices: 10489011--10489278 Score: 475
Period size: 140 Copynumber: 1.9 Consensus size: 141
10489001 TTTGGCTGGG
* *
10489011 GGAGAGTGTTAGTATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGTTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
10489076 TGGTCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
10489141 CTCTGGCATGA
131 CTCTGGCATGA
* *
10489152 GGAGAGTGTTAGGATTTTGTTTTTGAGTAATCAGGAACA-TTTCTTTTGTTGTCTAAATGCTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
10489216 TGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
10489279 AGTGGCTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
140 85 0.70
141 36 0.30
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (141 bp):
GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
CTCTGGCATGA
Found at i:10496245 original size:23 final size:23
Alignment explanation
Indices: 10496192--10496246 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
10496182 TTTAATAATT
*
10496192 AAAT-TAATTAAATAATTTAAGA
1 AAATCTAATTAAATAATTTAACA
* * *
10496214 AAATGTAATTAAATATTTTTACA
1 AAATCTAATTAAATAATTTAACA
*
10496237 CAATCTAATT
1 AAATCTAATT
10496247 CTAATTCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATCTAATTAAATAATTTAACA
Found at i:10500778 original size:32 final size:32
Alignment explanation
Indices: 10500742--10500802 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10500732 AAGTAAACAC
10500742 ATAATTATTCATTT-AATA-TTATAAATATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAAATATTCAA
*
10500774 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAAATATT
10500803 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAAATATTCAA
Found at i:10505188 original size:20 final size:20
Alignment explanation
Indices: 10505163--10505204 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10505153 AAATAAACGC
**
10505163 ATAACTATTCATTTAATATT
1 ATAACTATTCAAATAATATT
10505183 ATAACTATTCAAATAATATT
1 ATAACTATTCAAATAATATT
10505203 AT
1 AT
10505205 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAATAATATT
Found at i:10505962 original size:5 final size:5
Alignment explanation
Indices: 10505952--10506252 Score: 289
Period size: 5 Copynumber: 60.2 Consensus size: 5
10505942 GAGTATAACT
* *
10505952 TATCA TATCA TAACGA -ATCA TAACA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* *
10506002 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TACCA TACCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * * * * * *
10506052 TACCA TACCA TACCA TACCA TACCA TACCA TACCA TACCA TACCA TACCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * * * *
10506102 TACCA TACCA TACCA TACCA TACCA TACCA TACCA TACCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* *
10506152 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCG TAACA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * ** * *
10506202 TAGCA TAGCA TAGCA TAGCA TAGCA TAGGA TAGCA TATCA AATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
10506252 T
1 T
10506253 GTCCTACCCC
Statistics
Matches: 279, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
4 1 0.00
5 277 0.99
6 1 0.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.30
Consensus pattern (5 bp):
TATCA
Found at i:10506595 original size:14 final size:14
Alignment explanation
Indices: 10506576--10506606 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10506566 GTTTTAATTG
*
10506576 TAACATATTATATT
1 TAACATATCATATT
10506590 TAACATATCATATT
1 TAACATATCATATT
10506604 TAA
1 TAA
10506607 TTGTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TAACATATCATATT
Found at i:10506951 original size:97 final size:98
Alignment explanation
Indices: 10506759--10506966 Score: 249
Period size: 97 Copynumber: 2.1 Consensus size: 98
10506749 TACAAAATCT
* * * * ** *
10506759 CACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGCTATAAAAACACACACGGTTGTGTGCT
1 CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
* *
10506824 CCACACAGCCTAGCCACATGTGATACAAAAA-A
66 CCACACAGCCTAGCCACACGGGATACAAAAATA
* * * * * *
10506856 TACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGATGCAAAAACACACACGGCCGTGTACT
1 CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
*
10506921 CCACACAGCCTAGCCACACGGGCTGA-AAAAATA
66 CCACACAGCCTAGCCACACGGGAT-ACAAAAATA
10506954 CACACGGTCGTGT
1 CACACGGTCGTGT
10506967 AGTGCACATG
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
97 78 0.86
98 13 0.14
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (98 bp):
CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
CCACACAGCCTAGCCACACGGGATACAAAAATA
Found at i:10506967 original size:49 final size:49
Alignment explanation
Indices: 10506749--10506966 Score: 242
Period size: 49 Copynumber: 4.5 Consensus size: 49
10506739 CCACACAGTC
* * * ** * * *
10506749 TACAAAATCTCACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * *
10506798 TATAAAAACACACACGGTTGTGTGCTCCACACAGCCTAGCCACATGTGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* *
10506847 TACAAAAA-ATACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * *
10506895 TGCAAAAACACACACGGCCGTGTACTCCACACAGCCTAGCCACACGGGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
*
10506944 TGA-AAAAATACACACGGTCGTGT
1 T-ACAAAAACACACACGGTCGTGT
10506967 AGTGCACATG
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
48 44 0.31
49 99 0.69
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (49 bp):
TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
Found at i:10510085 original size:29 final size:30
Alignment explanation
Indices: 10510024--10510089 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10510014 AAAATAAACA
* * * *
10510024 TTAGTGACCGATTTGTCATTTTTCTAAATT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
*
10510054 TTAGTGACTGAGTTGTAACTTTT-TAAAGT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
10510083 TTAGTGA
1 TTAGTGA
10510090 TTGTTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (30 bp):
TTAGTGACCGAGTTGTAACTTTTCTAAAGT
Found at i:10512548 original size:18 final size:18
Alignment explanation
Indices: 10512527--10512587 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
10512517 AGTTTGGAAA
10512527 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* ** * *
10512545 ATTAATAAAAATCACCAA
1 ATTAATACAGTTCGCCAT
*
10512563 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
10512581 AATAATA
1 ATTAATA
10512588 TAATTCACCA
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:10512566 original size:36 final size:36
Alignment explanation
Indices: 10512525--10512611 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
10512515 ACAGTTTGGA
* *
10512525 AAATTAATACAGTTCGCCATATTAATAAAAATCACC
1 AAATTAACACAGTTCGCCATAATAATAAAAATCACC
* *
10512561 AAATTAACACAGTTCGCCATAATAATATAATTCACC
1 AAATTAACACAGTTCGCCATAATAATAAAAATCACC
* *
10512597 AAGTTAACATAGTTC
1 AAATTAACACAGTTC
10512612 ACAATATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.29
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATAAAAATCACC
Found at i:10514738 original size:13 final size:13
Alignment explanation
Indices: 10514722--10514755 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10514712 GTACGTTTGA
10514722 TCTGTTATCTGAT
1 TCTGTTATCTGAT
* *
10514735 TCTGATATCTGTT
1 TCTGTTATCTGAT
10514748 TCTGTTAT
1 TCTGTTAT
10514756 GGACTTAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TCTGTTATCTGAT
Found at i:10518107 original size:23 final size:24
Alignment explanation
Indices: 10518077--10518132 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
10518067 ATTATTTATT
10518077 AAATAATATATT-TTA-TAATTTC
1 AAATAATATATTGTTACTAATTTC
10518099 AAATAAATATATTGTTACTAA-TT-
1 AAAT-AATATATTGTTACTAATTTC
10518122 AAATAAT-TATT
1 AAATAATATATT
10518133 AGTGTGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 12 0.39
24 5 0.16
25 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATAATATATTGTTACTAATTTC
Found at i:10520870 original size:125 final size:125
Alignment explanation
Indices: 10520648--10520935 Score: 479
Period size: 125 Copynumber: 2.3 Consensus size: 125
10520638 AATTTATAAG
* * * * *
10520648 GAAATCGCTGCCACGTGGGCGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
10520713 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATT-TCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGT-T
*
10520773 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAT
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
10520838 GTTTCTGAGCAAATAGTATAAACAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
* *
10520898 GAAATAGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
10520936 CATGTTTGGG
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
125 152 0.99
126 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
Found at i:10524245 original size:11 final size:11
Alignment explanation
Indices: 10524231--10524328 Score: 55
Period size: 11 Copynumber: 9.3 Consensus size: 11
10524221 GAGAAATTTA
10524231 AGAGGAAATTG
1 AGAGGAAATTG
*
10524242 AGAGCAAATTG
1 AGAGGAAATTG
*
10524253 AGAGCAAATTG
1 AGAGGAAATTG
**
10524264 AGATTAAA-T-
1 AGAGGAAATTG
* *
10524273 A-TGG-ATTTG
1 AGAGGAAATTG
10524282 AGA-GAAATTTG
1 AGAGGAAA-TTG
10524293 -GAAGGAAATTG
1 AG-AGGAAATTG
* * *
10524304 AGTGCAATTTG
1 AGAGGAAATTG
10524315 AGAGGAAATTG
1 AGAGGAAATTG
10524326 AGA
1 AGA
10524329 AAAGGATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 51 0.80
12 5 0.08
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:10524245 original size:22 final size:21
Alignment explanation
Indices: 10524220--10524328 Score: 73
Period size: 22 Copynumber: 5.1 Consensus size: 21
10524210 TAGGGATTTA
10524220 AGAGAAATTTAAGAGGAAATTG
1 AGAGAAATTT-AGAGGAAATTG
* *
10524242 AGAGCAAATTGAGAGCAAATTG
1 AGAG-AAATTTAGAGGAAATTG
* * *
10524264 AGATTAAA--TA-TGG-ATTTG
1 AGA-GAAATTTAGAGGAAATTG
*
10524282 AGAGAAATTTGGAAGGAAATTG
1 AGAGAAATTTAG-AGGAAATTG
* *
10524304 AGTGCAATTTGAGAGGAAATTG
1 AGAGAAATTT-AGAGGAAATTG
10524326 AGA
1 AGA
10524329 AAAGGATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
17 3 0.05
18 7 0.11
19 2 0.03
20 1 0.02
21 2 0.03
22 43 0.67
23 6 0.09
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.25
Consensus pattern (21 bp):
AGAGAAATTTAGAGGAAATTG
Found at i:10524273 original size:62 final size:62
Alignment explanation
Indices: 10524207--10524328 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 62
10524197 AAATAATTAA
10524207 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
* * * * * *
10524269 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGTGCAATTTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGA
10524329 AAAGGATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 52 0.98
63 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.25
Consensus pattern (62 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
Found at i:10524911 original size:19 final size:20
Alignment explanation
Indices: 10524875--10524912 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10524865 TTTAATTTTA
10524875 AATTTAATTATAAAATATAG
1 AATTTAATTATAAAATATAG
*
10524895 AATTTAA-TATAAGATATA
1 AATTTAATTATAAAATATA
10524913 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AATTTAATTATAAAATATAG
Found at i:10529595 original size:2 final size:2
Alignment explanation
Indices: 10529588--10529625 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10529578 NNNNNNNNNN
*
10529588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10529626 GGGATAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10531390 original size:66 final size:66
Alignment explanation
Indices: 10531196--10531392 Score: 322
Period size: 66 Copynumber: 3.0 Consensus size: 66
10531186 CAAACAAAGA
* * * * *
10531196 CTATTCAAGTGTCACGGTTGGTGACCAAGAATGGAGGTCCTTATTACAAGGAGCTGAAGGAAAGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
10531261 G
66 G
*
10531262 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTGCAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
10531327 G
66 G
* *
10531328 CTATTCAAGTTTCACAGTCGGTGACCAAGAATGGAGGTTCTTATTACAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
10531393 AACAAGACAT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (66 bp):
CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
G
Found at i:10533440 original size:88 final size:87
Alignment explanation
Indices: 10533316--10533567 Score: 375
Period size: 87 Copynumber: 2.9 Consensus size: 87
10533306 TTTAAATTCG
* *
10533316 GTGAATTCATCAAGTCCGTCTCACTAGGACCACCCAAACTCTGGAATATGAACTCAATTAAGACT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGG-ATATGAACTCAATTAAGAGT
10533381 AATAAACTCAACCTCACATGTCA
65 AATAAACTCAACCTCACATGTCA
* * * *
10533404 GTGAATTCATCAAGTCCATCGCAATAAGACCACCCAAACTCTAGGATATAAACTC-ATTAAGAGT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCT-GGATATGAACTCAATTAAGAGT
10533468 AATAAACTCAACCTCACATGTCA
65 AATAAACTCAACCTCACATGTCA
* *
10533491 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGCTATGAA-TTAATTAAGAGT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCT-GGATATGAACTCAATTAAGAGT
*
10533555 AA-GAACTCAACCT
65 AATAAACTCAACCT
10533568 TATGCATGTA
Statistics
Matches: 148, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
86 11 0.07
87 88 0.59
88 47 0.32
89 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (87 bp):
GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGATATGAACTCAATTAAGAGTA
ATAAACTCAACCTCACATGTCA
Found at i:10538084 original size:41 final size:41
Alignment explanation
Indices: 10537992--10538085 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
10537982 GCTAGACTTA
* * * *
10537992 AAGTCTGAATAATTTCACTGGCATTAAGCCTGTTAGACAAT
1 AAGTCTGAATTATTTAACTGGCATCAAGCCTGCTAGACAAT
*
10538033 GAGTCTGAATTATATTAAC-GGCATCAAGCCTGCTAGACAAT
1 AAGTCTGAATTAT-TTAACTGGCATCAAGCCTGCTAGACAAT
10538074 AAGTCTGAATTA
1 AAGTCTGAATTA
10538086 CATTCGATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 42 0.91
42 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (41 bp):
AAGTCTGAATTATTTAACTGGCATCAAGCCTGCTAGACAAT
Found at i:10543661 original size:21 final size:22
Alignment explanation
Indices: 10543629--10543675 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
10543619 TATAAAATCA
10543629 AATAAAATATATATAATT-ATAT
1 AATAAAATATATAT-ATTAATAT
10543651 AATAAAA-ATATATATTAATAT
1 AATAAAATATATATATTAATAT
10543672 AATA
1 AATA
10543676 TTTATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAAATATATATATTAATAT
Found at i:10544522 original size:20 final size:20
Alignment explanation
Indices: 10544493--10544536 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10544483 CTACATATTG
*
10544493 GTATCGATACTTAAGGAGAA
1 GTATCAATACTTAAGGAGAA
*
10544513 GTATCAATACTTAGGGAGAA
1 GTATCAATACTTAAGGAGAA
10544533 GTAT
1 GTAT
10544537 TGGTACCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCAATACTTAAGGAGAA
Found at i:10548775 original size:115 final size:115
Alignment explanation
Indices: 10548536--10548767 Score: 410
Period size: 115 Copynumber: 2.0 Consensus size: 115
10548526 AAAATTTATT
* * *
10548536 AAACTTAAATATCTATTATTTATAATGGTGAAGTAAGTCAAATATTTATAAAACAGAAATATGAA
1 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
*
10548601 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCTAAGTAAGATAA
66 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
*
10548651 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAACCAGAAATATAAA
1 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
*
10548716 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTGAAAGTAAGATAA
66 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
10548766 AA
1 AA
10548768 TTCTAAATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (115 bp):
AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
Found at i:10557571 original size:12 final size:13
Alignment explanation
Indices: 10557554--10557603 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
10557544 ATCTAAATTC
10557554 TATTTTTTATT-A
1 TATTTTTTATTAA
10557566 TA-TTTTTATTAA
1 TATTTTTTATTAA
* **
10557578 TATTTTCTAAAAA
1 TATTTTTTATTAA
*
10557591 TATTTTTTGTTAA
1 TATTTTTTATTAA
10557604 AAATTAATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
11 8 0.28
12 5 0.17
13 16 0.55
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTTTTTATTAA
Found at i:10559726 original size:33 final size:33
Alignment explanation
Indices: 10559656--10559732 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
10559646 TTTTAAAGGA
*
10559656 ATATTT-TTATCATTTTACAAAATTAAAGTTGC
1 ATATTTGTTATCATTTTACAAAATAAAAGTTGC
10559688 A-ATTTGTTATC-TTTTCACAAAATGAAAAGTTG-
1 ATATTTGTTATCATTTT-ACAAAAT-AAAAGTTGC
10559720 ATATTTGTTATCA
1 ATATTTGTTATCA
10559733 GTTAATAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 8 0.21
32 14 0.36
33 17 0.44
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (33 bp):
ATATTTGTTATCATTTTACAAAATAAAAGTTGC
Found at i:10560680 original size:18 final size:17
Alignment explanation
Indices: 10560659--10560692 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10560649 TGAATATAAA
10560659 AAACAAAAGGAATATTAC
1 AAACAAAA-GAATATTAC
*
10560677 AAACCAAAGAATATTA
1 AAACAAAAGAATATTA
10560693 GTGGCGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (17 bp):
AAACAAAAGAATATTAC
Found at i:10568489 original size:8 final size:8
Alignment explanation
Indices: 10568473--10568522 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
10568463 TTTATCAATT
10568473 TAAAA-CC
1 TAAAACCC
10568480 TAAAACCC
1 TAAAACCC
*
10568488 T-AAACCT
1 TAAAACCC
10568495 TAAAACCC
1 TAAAACCC
**
10568503 TAAAAAAC
1 TAAAACCC
10568511 TAAAAACCC
1 T-AAAACCC
10568520 TAA
1 TAA
10568523 TATAACAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 11 0.32
8 17 0.50
9 6 0.18
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:10568498 original size:15 final size:14
Alignment explanation
Indices: 10568475--10568506 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
10568465 TATCAATTTA
10568475 AAACCTAAAACCCT
1 AAACCTAAAACCCT
10568489 AAACCTTAAAACCCT
1 AAACC-TAAAACCCT
10568504 AAA
1 AAA
10568507 AAACTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCTAAAACCCT
Found at i:10570050 original size:3 final size:3
Alignment explanation
Indices: 10570042--10570098 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
10570032 TATCACCATT
* *
10570042 ATA ATA ATA A-A AT- ATA ATA ATA ACA ATA ACA ATA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10570086 ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA ATA
10570099 TTATAACTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:10577251 original size:89 final size:89
Alignment explanation
Indices: 10577143--10577395 Score: 310
Period size: 89 Copynumber: 2.8 Consensus size: 89
10577133 ATTTTAATCC
* *
10577143 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTGTGCTTCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
10577208 GATAAGACTCGCTATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * * * * * *
10577232 GCTCCTCTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCAGTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
10577297 GATAAGATTCGCCATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * * * ** * *
10577321 GCCCCACTACAACTTCAGGGGGATAAGACTT-GTTTTCTTCAGTCTGCTCCCCTGCAACTTTAGG
1 GCTCCACTGCAACTTCAGGGAGATAGGA-TTAG-TAGCTTCAGTCTGCTCCACTGCAACTTCAGG
10577385 GAGATAAGACT
64 GAGATAAGACT
10577396 TGATATGATC
Statistics
Matches: 136, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
89 101 0.74
90 35 0.26
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (89 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCCATCTTCAGTCT
Found at i:10577363 original size:134 final size:133
Alignment explanation
Indices: 10577135--10577390 Score: 350
Period size: 134 Copynumber: 1.9 Consensus size: 133
10577125 GATTCATCAT
* * * * ** *
10577135 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTGTGCTTCACTGCAAC
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAGCAGCTTCAGTCTGCCCCACTACAAC
*
10577200 TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCTCTGCAACTTCAGGGAGATAGGATTATT
66 TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATAGGATTATT
10577265 GGC
131 GGC
* * * *
10577268 TTTAATCTACTCCAGTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTACAA
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAG-CAGCTTCAGTCTGCCCCACTACAA
* * * * *
10577333 CTTCAGGGGGATAAGACTTGTTTTCTTCAGTCTGCTCCCCTGCAACTTTAGGGAGATA
65 CTTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATA
10577391 AGACTTGATA
Statistics
Matches: 105, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
133 35 0.33
134 70 0.67
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (133 bp):
TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAGCAGCTTCAGTCTGCCCCACTACAAC
TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATAGGATTATT
GGC
Found at i:10577396 original size:45 final size:44
Alignment explanation
Indices: 10577143--10577435 Score: 254
Period size: 45 Copynumber: 6.7 Consensus size: 44
10577133 ATTTTAATCC
* * *
10577143 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAGTGT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAGTCT
* *
10577187 GCTTCACTGCAACTTCAGGGAGATAAGACTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* * ** ** * *
10577232 GCTCCTCTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
* * *
10577276 ACTCCAGTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAGTCT
* * * * *
10577321 GCCCCACTACAACTTCAGGGGGATAAGACTTGTTTTCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* * * *
10577366 GCTCCCCTGCAACTTTAGGGAGATAAGACTTG--AT-ATGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* **
10577407 GCTCTACTGCAACTTCAAAGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
10577436 GGGTAATTTA
Statistics
Matches: 198, Mismatches: 47, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
40 1 0.01
41 26 0.13
42 2 0.01
43 1 0.01
44 62 0.31
45 104 0.53
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
Found at i:10577576 original size:50 final size:50
Alignment explanation
Indices: 10577520--10578117 Score: 439
Period size: 50 Copynumber: 11.9 Consensus size: 50
10577510 TACAATGTCG
* * * * * *
10577520 GGGAAGTAAGATTCGCTATTGTAGCTTCGATCTGTTCCACTACACTGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
10577570 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * *
10577620 GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCACTGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
10577670 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * **
10577720 GGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * * **
10577770 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTACAATGTTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * * *
10577820 GGGAAGCAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * ** *
10577870 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * **
10577920 GGGAAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCTGTTGTAG-CTTCAATCTTTTCAACTGCAATGCCA
* * * * * * *
10577969 GGAAAGCAAGATTTACCGTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGA-TT--CG-CTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
10578022 GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GCCA
* * * * * *
10578073 GGGAAGTAAGATTCACCGTTTTGGCTTCAATCTTTTTAATTGCAA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAA
10578118 CCTCAGGGGT
Statistics
Matches: 432, Mismatches: 105, Indels: 21
0.77 0.19 0.04
Matches are distributed among these distances:
49 13 0.03
50 369 0.85
51 5 0.01
52 2 0.00
53 34 0.08
54 9 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
Found at i:10577624 original size:100 final size:100
Alignment explanation
Indices: 10577505--10578111 Score: 619
Period size: 100 Copynumber: 6.0 Consensus size: 100
10577495 TTTAGTCTAA
* * * *
10577505 TTAACTACAATGTCGGGGAAGTAAGATTCGCTATTGTAGCTTCGATCTGTTCCACTACACTGCCA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * **
10577570 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * *
10577605 TTAACTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCACTGCTA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
10577670 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * *
10577705 TTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
*
10577770 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* ** * * * ** * * * *
10577805 TTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
10577870 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTAT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
** ** * * * ** * ** * *
10577905 TCCACTACACCG-CTAGGGAAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTGCAATG-
1 TTAACTACAATGTC-GGGGAAGCAAGATTCACTATTGTAG-CTTCAATCTGTTCCACTGCACTGC
** * *
10577967 TTGGAAAGCAAGATTTACCGTCCGTTGTGGCTTCAATCTTT
64 CAGGGAAGTAAGA-TT--CG-CCGTTGTGGCTTCAATCTTT
* * * **
10578008 TTAATTGCAATGTCGGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGCC
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACT-GCC
* *
10578072 AGGGAAGTAAGATTCACCGTTTTGGCTTCAATCTTT
65 AGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
10578108 TTAA
1 TTAA
10578112 TTGCAACCTC
Statistics
Matches: 426, Mismatches: 71, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
99 11 0.03
100 338 0.79
101 1 0.00
102 3 0.01
103 62 0.15
104 11 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
Found at i:10577749 original size:150 final size:149
Alignment explanation
Indices: 10577570--10578117 Score: 673
Period size: 150 Copynumber: 3.6 Consensus size: 149
10577560 TACACTGCCA
* * * * * ** * * * *
10577570 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * * ** * * *
10577635 CTGTTGTAGCTTCAATCTATTCCACTGCACTGCTAGGGAAGTAAGATTCGCCGTTGTGGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
10577700 TCTTTTTAACTGCAATGTCG
130 TCTTTTTAACTGCAATGTCG
** * *
10577720 GGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * * *
10577785 CCGTTGTGGCTTCAATATTTTTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
*
10577850 TCTTTTTAATTGCAATGTCG
130 TCTTTTTAACTGCAATGTCG
* * * * *
10577870 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCTAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * *
10577935 CCGTTGTGACTTCAATCTTTTTAATTGCAATGTTGGAAAGCAAGATTTACCGTCCGTTGTGGCTT
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTAGGGAAGCAAGA-TT--CG-CCGTTGTGGCTT
*
10578000 CAATCTTTTTAATTGCAATGTCG
127 CAATCTTTTTAACTGCAATGTCG
* * *
10578023 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
*
10578088 CCGTTTTGGCTTCAATCTTTTTAATTGCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAA
10578118 CCTCAGGGGT
Statistics
Matches: 346, Mismatches: 48, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
149 11 0.03
150 214 0.62
152 1 0.00
153 120 0.35
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (149 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTAGGGAAGCAAGATTCGCCGTTGTGGCTTCAAT
CTTTTTAACTGCAATGTCG
Found at i:10578125 original size:50 final size:50
Alignment explanation
Indices: 10577594--10578117 Score: 464
Period size: 50 Copynumber: 10.4 Consensus size: 50
10577584 GCTGTTGTAA
* * *
10577594 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** * * *
10577644 CTTCAATCTATTCCACTGCACTG-CTAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTGG
* * ** *
10577694 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** ** * * *
10577744 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* * * * *
10577794 CTTCAATATTTTTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* * * *
10577844 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** * ** * * *
10577894 CTTCAATCTATTCCACTACACCG-CTAGGGAAGTAAGATTCGCCGTTGTGA
1 CTTCAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTGG
* * * *
10577944 CTTCAATCTTTTTAATTGCAATGT-TGGAAAGCAAGATTTACCGTCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGA-TT--C-ACCGTTGTGG
* *
10577997 CTTCAATCTTTTTAATTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGG-AAGCAAGATTCACCGTTGTGG
* ** * * *
10578047 CTTCAATCTGTTCCACTGC-ATCGCCAGGGAAGTAAGATTCACCGTTTTGG
1 CTTCAATCTTTTTAACTGCAAT-GTCAGGGAAGCAAGATTCACCGTTGTGG
*
10578097 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAACTGCAA
10578118 CCTCAGGGGT
Statistics
Matches: 374, Mismatches: 87, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
49 13 0.03
50 310 0.83
51 6 0.02
52 1 0.00
53 36 0.10
54 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (50 bp):
CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
Found at i:10579016 original size:13 final size:13
Alignment explanation
Indices: 10578998--10579035 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10578988 CCTCTCCTTT
10578998 TTCTTTT-TTGTTC
1 TTCTTTTCTT-TTC
10579011 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
10579024 TT-TTTTCTTTTC
1 TTCTTTTCTTTTC
10579036 GTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 12 0.50
14 2 0.08
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:10579031 original size:17 final size:17
Alignment explanation
Indices: 10578996--10579046 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
10578986 GACCTCTCCT
10578996 TTTTCTTTT-TTGTTCTTC
1 TTTTCTTTTCTT-TT-TTC
10579014 TTTTCTTTTCTTTTTTC
1 TTTTCTTTTCTTTTTTC
*
10579031 TTTTCGTTTCTTTTTT
1 TTTTCTTTTCTTTTTT
10579047 TCAAGTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 18 0.58
18 11 0.35
19 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:10579499 original size:14 final size:14
Alignment explanation
Indices: 10579480--10579514 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10579470 CCGGTAGAGG
10579480 TTTTTTGTTTTTGT-
1 TTTTTTGTTTTT-TA
10579494 TTTTTTGTTTTTTA
1 TTTTTTGTTTTTTA
10579508 TTTTTTG
1 TTTTTTG
10579515 CCTCCACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (14 bp):
TTTTTTGTTTTTTA
Found at i:10582250 original size:24 final size:25
Alignment explanation
Indices: 10582223--10582275 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
10582213 GGCTCTTTCG
10582223 TGAAATTTAATACAAATG-ATGCAA
1 TGAAATTTAATACAAATGAATGCAA
* * *
10582247 TGAAATTTAATGCAGATGAATGGAA
1 TGAAATTTAATACAAATGAATGCAA
10582272 TGAA
1 TGAA
10582276 TGCAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (25 bp):
TGAAATTTAATACAAATGAATGCAA
Found at i:10592904 original size:42 final size:42
Alignment explanation
Indices: 10592857--10592939 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 42
10592847 ATTTTTGAGG
10592857 ATATACAATCTT-AGATATGATATATGCAATCTTAGATATGAT
1 ATATACAATCTTAAGATATGAT-TATGCAATCTTAGATATGAT
* *
10592899 ATATACAATCTTAGAAGATATGATTTTGTAATCTTAGATAT
1 ATATACAATCTT--AAGATATGATTATGCAATCTTAGATAT
10592940 TTAATTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 12 0.33
44 15 0.42
45 9 0.25
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (42 bp):
ATATACAATCTTAAGATATGATTATGCAATCTTAGATATGAT
Found at i:10592919 original size:19 final size:21
Alignment explanation
Indices: 10592857--10592913 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
10592847 ATTTTTGAGG
10592857 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
10592878 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
10592899 ATATACAATCTTAGA
1 ATATACAATCTTAGA
10592914 AGATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:10593458 original size:37 final size:37
Alignment explanation
Indices: 10593417--10593492 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
10593407 TTACAGTTCA
10593417 AATTAGTCTTTTT-TTCATTTTCTTTAT-TTT-TTTTATT
1 AATTAGT-TTTTTATTC-TTTT-TTTATATTTATTTTATT
*
10593454 AATTAGTTTTTTATTCTTTTTTTATATTTATTTTTTT
1 AATTAGTTTTTTATTCTTTTTTTATATTTATTTTATT
10593491 AA
1 AA
10593493 AAAAATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 5 0.14
36 12 0.34
37 18 0.51
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (37 bp):
AATTAGTTTTTTATTCTTTTTTTATATTTATTTTATT
Found at i:10593476 original size:13 final size:12
Alignment explanation
Indices: 10593433--10593491 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
10593423 TCTTTTTTTC
10593433 ATTTTCTTTATTT
1 ATTTT-TTTATTT
*
10593446 -TTTTTATTAATT
1 ATTTTT-TTATTT
*
10593458 AGTTTTTTATTCT
1 ATTTTTTTATT-T
10593471 -TTTTTTATATTT
1 ATTTTTT-TATTT
10593483 ATTTTTTTA
1 ATTTTTTTA
10593492 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
11 1 0.03
12 21 0.57
13 15 0.41
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:10593606 original size:20 final size:23
Alignment explanation
Indices: 10593548--10593616 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 23
10593538 TAGTATAATA
*
10593548 TAATTAATTAATTATTTATTTATATG
1 TAATT-ATT-ATT-TTTATATATATG
*
10593574 TAATTATTATTTTTATCTATATG
1 TAATTATTATTTTTATATATATG
10593597 T-A-TA-TATTTTTATATATATG
1 TAATTATTATTTTTATATATATG
10593617 AACATATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 15 0.37
21 2 0.05
22 1 0.02
23 12 0.29
24 3 0.07
25 3 0.07
26 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (23 bp):
TAATTATTATTTTTATATATATG
Found at i:10593623 original size:20 final size:20
Alignment explanation
Indices: 10593581--10593625 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10593571 ATGTAATTAT
* * *
10593581 TATTTTTATCTATATGTATA
1 TATTTTTATATATATGAACA
10593601 TATTTTTATATATATGAACA
1 TATTTTTATATATATGAACA
10593621 TATTT
1 TATTT
10593626 CTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTTTTATATATATGAACA
Found at i:10594537 original size:217 final size:218
Alignment explanation
Indices: 10594161--10594595 Score: 836
Period size: 217 Copynumber: 2.0 Consensus size: 218
10594151 ACTCATTATT
10594161 GGGAATTCAACACGTTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
1 GGGAATTCAACACGTTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
* *
10594226 TTTAAAAAAATAATAAAGGAAATATTCTGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTAT
66 TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTAT
*
10594291 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTAAATTTTTATTACACTAGTATT
131 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTAAATTTTAATTACACTAGTATT
10594356 TTGGCCTAATTCCTTTTTGGGGA
196 TTGGCCTAATTCCTTTTTGGGGA
10594379 GGGAATTCAACACGTTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATA-T
1 GGGAATTCAACACGTTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
10594443 TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTAT
66 TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTAT
10594508 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTAAATTTTAATTACACTAGTATT
131 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTAAATTTTAATTACACTAGTATT
10594573 TTGGCCTAATTCCTTTTTGGGGA
196 TTGGCCTAATTCCTTTTTGGGGA
10594596 AAATTAGAAT
Statistics
Matches: 214, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
217 151 0.71
218 63 0.29
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (218 bp):
GGGAATTCAACACGTTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTAT
TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTAAATTTTAATTACACTAGTATT
TTGGCCTAATTCCTTTTTGGGGA
Found at i:10595505 original size:608 final size:600
Alignment explanation
Indices: 10594351--10595561 Score: 1787
Period size: 608 Copynumber: 2.0 Consensus size: 600
10594341 TATTACACTA
10594351 GTATTTTGGCCTAATTCCTTTTTGGGGAGGGAATTCAACACGTTGTGTCCTAACGTATTGGATGT
1 GTATTTTGGCCTAATTCCTTTTTGGGGAGGGAATTCAACACGTTGTGTCCTAACGTATTGGATGT
10594416 GACGCATTGATTTCTCGAAATGAATATTTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGA
66 GACGCATTGATTTCTCGAAATGAATATTTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGA
10594481 TTCTAAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATT
131 TTCTAAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATT
* * * *
10594546 CTTTTAAATTTTAATTACACTAGTATTTTGGCCTAATTCCTTTTTGGGGAAAATTAGAATGTCGT
196 CTTTTAAATTTTAATTACACGAGTATTCTGACCTAATTCCATTTTGGGGAAAATTAGAATGTCGT
* ** * * *
10594611 GCCCTAACGTATTGGGTGTGGCATTTTCTTTCTCTGAAATGATAAAGGTTTTAATACGTAACGTT
261 GCCATAACACATTGGGTGTGGCATTTTCTTTCTCTGAAATGAGAAAGGTCTTAATACATAACGTT
* * *
10594676 TTTAAGTTTTTTCTAAGGATTATATTTCTTCAAATTTTCGACATTAAGACATTAATTAATTACTA
326 TTTAAG-TTTTTCTAAAGATTATATTTCTTAAAATTTTCGACATTAAGACACTAATTAATTACTA
**
10594741 GGTACCAATTTTGGGCGTACGAGGGTGCTAATCCTTCCTCGTACATAACCGACTCCCGGATTCGT
390 GGTACCAATTTTGGGCGTACGAGGGTGCTAATCCTTCCTCGTACATAACCGACTCCCGGACCCGT
* * **
10594806 TTTTCTAAAACTCGTAGACCAAAGCCGTTTTCTTAGGTGATCCAATCACACTTCAATAAAAGATT
455 TTTTCTAAAACTCGTAGACCAAAACCG-ATTCTTAGGTGATCCAATCACACCACAATAAAAGATT
10594871 GGTGGCGACTCCCAACTTTATTTTTTTTAAAAAAGGTCGACAACCTAAAATTTTTGTTTTTTTTT
519 GGTGGCGACTCCCAACTTTATTTTTTTT-AAAAA-GTCGACAACCTAAAA-TTTTG----TTTTT
10594936 C-AAAAAATGGTTTCGACAGCTTG
577 CAAAAAAATGGTTTCGACAGCTTG
10594959 GTATTTTGGCCTAATTCCTTTTTGGGGAGGGAATTCAACACGTTGTGTCCTAACGTATTGGATGT
1 GTATTTTGGCCTAATTCCTTTTTGGGGAGGGAATTCAACACGTTGTGTCCTAACGTATTGGATGT
10595024 GACGCATTGATTTCTCGAAATGAATATTTTTAAAAAAATAATAAAGGAAATATTCCGAGTTT-GA
66 GACGCATTGATTTCTCGAAATGAATA-TTTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAG-
* *
10595088 GATTCTAAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCTTGGATAAATGGATA
129 GATTCTAAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCTTGAATAAATGAATA
* * *
10595153 TTCTTTTAATTTTTTTTATTATACGAGTATTCTGACCTAATT-CATTTTGGAGG-AAATTAGAAT
194 TTCTTTTAA--ATTTTAATTACACGAGTATTCTGACCTAATTCCATTTTGG-GGAAAATTAGAAT
* * *
10595216 GTTGTGCCATAACACATTGGGTGTGGCATTTT-TGCTTCTCTGAATTGAGAAGGGTCTTAATACA
256 GTCGTGCCATAACACATTGGGTGTGGCATTTTCT--TTCTCTGAAATGAGAAAGGTCTTAATACA
* *
10595280 TAACG-TTTTAAG-TTTT-TAAAGATTGTATTT-TTAAAATTTTCGACCTTAAGACACTAATTAA
319 TAACGTTTTTAAGTTTTTCTAAAGATTATATTTCTTAAAATTTTCGACATTAAGACACTAATTAA
* * * * **
10595341 TTAATTAGGTACCAATTTTGGGTGTTATGAGGGTGCTAATCCTTCCTCGTACGTAATTGACTCCC
384 TT-ACTAGGTACCAATTTTGGGCG-TACGAGGGTGCTAATCCTTCCTCGTACATAACCGACTCCC
* * *
10595406 GGACCCATTTTTTCTAAAATTCGTAGACCAAAATC-ATT-TTAGGTGATCCAATCACACCACAAT
447 GGACCC-GTTTTTCTAAAACTCGTAGACCAAAACCGATTCTTAGGTGATCCAATCACACCACAAT
* *
10595469 AAAAGATTGGTGGTGACTCCCGAATTTTCATTTTTTTTAAAAAGTCGACAACCTAAAATTTTGTT
511 AAAAGATTGGTGGCGACTCCC-AACTTT-ATTTTTTTTAAAAAGTCGACAACCTAAAATTTTGTT
*
10595534 TTTCAAAAAAATGGTTTCGATAGCTTG
574 TTTCAAAAAAATGGTTTCGACAGCTTG
10595561 G
1 G
10595562 CGACTCCGCT
Statistics
Matches: 549, Mismatches: 41, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
601 6 0.01
602 22 0.04
605 5 0.01
606 88 0.16
607 43 0.08
608 145 0.26
609 132 0.24
610 52 0.09
611 56 0.10
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (600 bp):
GTATTTTGGCCTAATTCCTTTTTGGGGAGGGAATTCAACACGTTGTGTCCTAACGTATTGGATGT
GACGCATTGATTTCTCGAAATGAATATTTTAAAAAAATAATAAAGGAAATATTCCGAGTTTAGGA
TTCTAAAGGAATTGTGCCCTAACGTATTGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATT
CTTTTAAATTTTAATTACACGAGTATTCTGACCTAATTCCATTTTGGGGAAAATTAGAATGTCGT
GCCATAACACATTGGGTGTGGCATTTTCTTTCTCTGAAATGAGAAAGGTCTTAATACATAACGTT
TTTAAGTTTTTCTAAAGATTATATTTCTTAAAATTTTCGACATTAAGACACTAATTAATTACTAG
GTACCAATTTTGGGCGTACGAGGGTGCTAATCCTTCCTCGTACATAACCGACTCCCGGACCCGTT
TTTCTAAAACTCGTAGACCAAAACCGATTCTTAGGTGATCCAATCACACCACAATAAAAGATTGG
TGGCGACTCCCAACTTTATTTTTTTTAAAAAGTCGACAACCTAAAATTTTGTTTTTCAAAAAAAT
GGTTTCGACAGCTTG
Found at i:10598364 original size:16 final size:15
Alignment explanation
Indices: 10598343--10598393 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
10598333 TTGAGTTGAA
*
10598343 AAAAAATGACGAAATG
1 AAAAAATGA-AAAATG
10598359 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAA-TG
10598375 -AAAAATGAAAAATG
1 AAAAAATGAAAAATG
10598389 AAAAA
1 AAAAA
10598394 GTAAAATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.06
15 19 0.59
16 11 0.34
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:10598365 original size:8 final size:8
Alignment explanation
Indices: 10598343--10598393 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
10598333 TTGAGTTGAA
10598343 AAAAAATG
1 AAAAAATG
**
10598351 ACGAAATG
1 AAAAAATG
10598359 AAAAAATG
1 AAAAAATG
*
10598367 AAAAAGTG
1 AAAAAATG
10598375 -AAAAATG
1 AAAAAATG
10598382 -AAAAATG
1 AAAAAATG
10598389 AAAAA
1 AAAAA
10598394 GTAAAATGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
7 13 0.36
8 23 0.64
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:10598385 original size:22 final size:22
Alignment explanation
Indices: 10598354--10598399 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10598344 AAAAATGACG
10598354 AAATGAAAAAATGAAAAAGTGAA
1 AAATGAAAAAATGAAAAAGT-AA
10598377 AAATG-AAAAATGAAAAAGTAA
1 AAATGAAAAAATGAAAAAGTAA
10598398 AA
1 AA
10598400 TGGAGAGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (22 bp):
AAATGAAAAAATGAAAAAGTAA
Found at i:10598399 original size:7 final size:7
Alignment explanation
Indices: 10598344--10598393 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
10598334 TGAGTTGAAA
10598344 AAAAATG
1 AAAAATG
*
10598351 ACGAAATG
1 A-AAAATG
10598359 AAAAAATG
1 -AAAAATG
10598367 AAAAAGTG
1 AAAAA-TG
10598375 AAAAATG
1 AAAAATG
10598382 AAAAATG
1 AAAAATG
10598389 AAAAA
1 AAAAA
10598394 GTAAAATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 20 0.53
8 17 0.45
9 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:10599682 original size:44 final size:44
Alignment explanation
Indices: 10599632--10600341 Score: 165
Period size: 44 Copynumber: 16.1 Consensus size: 44
10599622 CGGAGTAGGC
10599632 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
** *** * * *
10599676 CAAAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAAT
1 TGAAGATTATAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* ** * * * * * *
10599720 TTAAGCCACCA-AG-CCTTGTCTCCCTGAGCAGTAGCGGAGTAGGT
1 TGAAG--ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
10599764 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* ** * * *
10599808 CGAAGACGACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT
1 TGAAGATTATAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* ** * * * * * *
10599852 TTAAGCCAACA-AG-CCTTGTCTCCCTAAGCAGCAGCGGAGTAGGT
1 TGAAG--ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
10599896 TGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
** *** * * *
10599940 CAAAGATGGCAAATCTTATCTTTCC-AAG-A-TAGTGAGAAGTAGAT
1 TGAAGATTATAGATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGAT
* ** * * * * * * *
10599984 TTAAGCCACCA-AG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
1 TGAAG--ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
10600028 TGAAGATTGTAGATATTATCTCCCTAAGCAGTAGTGGAGAAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *** * *
10600072 CGAAGACGGTAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT
1 TGAAGATTATAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* ** * * * * * * *
10600116 TTAAGCCACCA-AG-CCTTGTCTCCCTGAGCAGCAGCGGAGTAGAC
1 TGAAG--ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
10600160 TGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
** * *** * *
10600204 CAAAAACGGTAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT
1 TGAAGATTATAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGAT
* ** * * * * * * * *
10600248 TTAAGCCACCA-AG-CCTTGTCTCCCTGAGAAGCAGCGGAGAAGGT
1 TGAAG--ATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
10600292 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
*
10600336 CGAAGA
1 TGAAGA
10600342 CGGCAAATCT
Statistics
Matches: 456, Mismatches: 160, Indels: 100
0.64 0.22 0.14
Matches are distributed among these distances:
42 27 0.06
43 39 0.09
44 335 0.73
45 35 0.08
46 20 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
TGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
Found at i:10599826 original size:132 final size:132
Alignment explanation
Indices: 10599589--10600781 Score: 1976
Period size: 132 Copynumber: 9.0 Consensus size: 132
10599579 AACGAACCGG
* *
10599589 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTATAGATCTTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* * *
10599654 CCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10599719 TT
131 TT
*
10599721 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* *
10599786 CCTAAGCAGTAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10599851 TT
131 TT
* * *
10599853 TAAGCCAACAAGCCTTGTCTCCCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTT
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* * * *
10599918 CCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGAGAAGTAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10599983 TT
131 TT
*
10599985 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATATTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* *
10600050 CCTAAGCAGTAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10600115 TT
131 TT
** *
10600117 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGACTGAAGATTGTAGATCCTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* * *
10600182 CCTAAGCAGTAGTGGAGCAGATCAAAAACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10600247 TT
131 TT
* * *
10600249 TAAGCCACCAAGCCTTGTCTCCCTGAGAAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
*
10600314 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAACAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10600379 TT
131 TT
* *
10600381 TAAGCCACCAAGCCTTGTCTCCCTGAGCAAG-AGCGGAGTAGGTTGAGGATCGTAGATCTTATCT
1 TAAGCCACCAAGCCTTGTCTCCCTGAGC-AGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCT
* * *
10600445 CCCTAAGCAGTAGTGGAGTAGATCG-AGAACGGCAAATCTTATCTTCCCACGATAGTGGGAAGCA
65 CCCTAAGCAGTAGTGGAGCAGATCGAAG-ACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCA
10600509 GATT
129 GATT
*
10600513 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
* * ** *
10600578 CCTAAGCAGTAGTGGAGTAGATCAAAGATAGCAAATCCTATCTTTCCAAGATAGTGGGAAGCAGA
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
10600643 TT
131 TT
*
10600645 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTC
1 TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
*
10600710 CCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAAATCTTATCTTTCCAAGATAGTGGGAAGCAG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-AAATCTTATCTTTCCAAGATAGTGGGAAGCAG
10600775 ATT
130 ATT
10600778 TAAG
1 TAAG
10600782 ACAGTAAGTC
Statistics
Matches: 985, Mismatches: 71, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
131 4 0.00
132 939 0.95
133 42 0.04
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (132 bp):
TAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
TT
Found at i:10601061 original size:21 final size:21
Alignment explanation
Indices: 10601032--10601109 Score: 122
Period size: 21 Copynumber: 3.7 Consensus size: 21
10601022 ATTTTCGAGG
10601032 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
10601053 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
10601074 ATATGCAATCTTAGATATTG-T
1 ATATACAATCTTAGATA-TGAT
10601095 ATATACAATCTTAGA
1 ATATACAATCTTAGA
10601110 AGATATGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 52 0.96
22 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:10601771 original size:22 final size:21
Alignment explanation
Indices: 10601746--10601799 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
10601736 ATATAATTAT
*
10601746 TTATTTATTTATTTATATGTAA
1 TTATTTATTTATCTATATGT-A
*
10601768 TTATTTTTTTATCTATATGTA
1 TTATTTATTTATCTATATGTA
10601789 TATATTTATTT
1 T-TATTTATTT
10601800 TAGTATACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTATTTATCTATATGTA
Found at i:10602777 original size:218 final size:219
Alignment explanation
Indices: 10602399--10602835 Score: 799
Period size: 218 Copynumber: 2.0 Consensus size: 219
10602389 ACTCATTATT
10602399 GGGAATTCAACACATTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
1 GGGAATTCAACACATTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
*
10602464 TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTAT
66 TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATTGTGCCCTAACGTAT
10602529 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTC-TTTTAAATTTTTATTACACTAGTA-
131 TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTTAAATTTTTATTACACTAGTAT
10602592 TTTTGACCTAATTCCTTTTCGGGGA
196 TTTTG-CCTAATTCCTTTTCGGGGA
10602617 GGGAATTCAACACGA-TGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATAT
1 GGGAATTCAACAC-ATTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATAT
*
10602681 TTTTAAAAAAATAATAAAGGAAATATTTCGAGTTTGGGATTCTAAAAGAATTGTGCCCTAACGTA
65 TTTTAAAAAAATAATAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATTGTGCCCTAACGTA
*
10602746 TTGGGCCGCGATTTCTTAAATCTTGAATAAATGGATATTCTTTTTAAATTTTTATTACACTAGTA
130 TTGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTTAAATTTTTATTACACTAGTA
*
10602811 TTTTTGCCTAATTCCTTTTTGGGGA
195 TTTTTGCCTAATTCCTTTTCGGGGA
10602836 AAATTAGAAT
Statistics
Matches: 212, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
218 164 0.77
219 43 0.20
220 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (219 bp):
GGGAATTCAACACATTGTGTCCTAACGTATTGGATGTGACGCATTGATTTCTCGAAATGAATATT
TTTAAAAAAATAATAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATTGTGCCCTAACGTAT
TGGGCCGCGATTTCTTAAATCTTGAATAAATGAATATTCTTTTTAAATTTTTATTACACTAGTAT
TTTTGCCTAATTCCTTTTCGGGGA
Found at i:10603267 original size:21 final size:21
Alignment explanation
Indices: 10603238--10603315 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
10603228 ATTTTAGAGG
*
10603238 ATATACAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
10603259 ACATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
10603280 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
10603301 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
10603316 AGATATGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:10603871 original size:18 final size:19
Alignment explanation
Indices: 10603848--10603888 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10603838 TATTTTTTAA
10603848 TTTATTATTAATTAGTT-T
1 TTTATTATTAATTAGTTAT
* *
10603866 TTTATTCTTATTTAGTTAT
1 TTTATTATTAATTAGTTAT
10603885 TTTA
1 TTTA
10603889 AAAAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTATTATTAATTAGTTAT
Found at i:10604079 original size:24 final size:25
Alignment explanation
Indices: 10604052--10604111 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
10604042 TTTTTAACTA
10604052 ATTTTTATATATATG-AACATAT-TT
1 ATTTTTATATATATGCAA-ATATATT
* *
10604076 ATTTTTA-AAAAATGCAAATATATT
1 ATTTTTATATATATGCAAATATATT
10604100 ATTTTT-TATATA
1 ATTTTTATATATA
10604112 CTTTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (25 bp):
ATTTTTATATATATGCAAATATATT
Found at i:10605815 original size:21 final size:20
Alignment explanation
Indices: 10605770--10605815 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
10605760 ACTTTTGGAA
* *
10605770 ATTTTAGAAATTTTATGATT
1 ATTTTAAAAATTTTAAGATT
*
10605790 TTTTTAAAAATTATTAAGATT
1 ATTTTAAAAATT-TTAAGATT
10605811 ATTTT
1 ATTTT
10605816 CCATCTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTAAAAATTTTAAGATT
Found at i:10607584 original size:28 final size:28
Alignment explanation
Indices: 10607552--10607606 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
10607542 ATGTTAGAAA
*
10607552 AAACAGAGTTGAAAATGGAAAAATGTAC
1 AAACAGAGTTGAAAATAGAAAAATGTAC
10607580 AAACAGAGTTGAAAATAGAAAAATGTA
1 AAACAGAGTTGAAAATAGAAAAATGTA
10607607 TGTATAACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.18
Consensus pattern (28 bp):
AAACAGAGTTGAAAATAGAAAAATGTAC
Found at i:10613774 original size:234 final size:234
Alignment explanation
Indices: 10613340--10614015 Score: 1167
Period size: 234 Copynumber: 2.9 Consensus size: 234
10613330 TCGATGTAAA
* * * *
10613340 TTTAGTTTGACCATTGGATTTG-GGGAGCTCAATTATAAATAGAGAGCCTCCGCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
10613404 ATCATTCATTGTTTCTGTATTCTTTAAGAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
*
10613469 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGT
131 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
10613534 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
10613573 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
10613638 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
*
10613703 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
10613768 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
* *
10613807 TTTATTTTGATCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
*
10613872 ATCA-TCTATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTAATCAAACACC
66 ATCATTC-ATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACC
* * * * * *
10613936 TCTCATGCATAGTTTTTTATCGTTATTCTGTTCTTTAAGCATTCTTTTATCTTTGTGTTGCTTTC
130 TCTCGTGCATAG-TTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTC
10614001 GCTATATAAATTGGT
194 GCTATATAAATTGGT
10614016 GCCTTGGAGG
Statistics
Matches: 422, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
233 23 0.05
234 338 0.80
235 61 0.14
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (234 bp):
TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
Found at i:10619935 original size:23 final size:22
Alignment explanation
Indices: 10619904--10619951 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
10619894 TCCATGTAAT
10619904 TATAGTAATATCCATAATTAAAA
1 TATAGTAAT-TCCATAATTAAAA
* * *
10619927 TATATTAATTCTATAATTCAAA
1 TATAGTAATTCCATAATTAAAA
10619949 TAT
1 TAT
10619952 TACCACGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (22 bp):
TATAGTAATTCCATAATTAAAA
Found at i:10636285 original size:33 final size:33
Alignment explanation
Indices: 10636234--10636388 Score: 107
Period size: 33 Copynumber: 4.6 Consensus size: 33
10636224 ACATTCGTAG
* * *
10636234 TGCCATAACCTAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* *
10636267 TGCCATAGCCCAGCTATGGTCTTA-CATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTATCAT-CAGA-A
* * * * * *
10636301 CTGCCATTGTCCAACCATGGTCTTAT-ATTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTATCA-TCAGAA
* * ** * *
10636335 TGTCATAACCCAATTATGATCTTATCAACAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
10636368 TGCCATAGCCCAGCTATGGTC
1 TGCCATAGCCCAGCTATGGTC
10636389 CTACATATAA
Statistics
Matches: 89, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
32 3 0.03
33 60 0.67
34 2 0.02
35 23 0.26
36 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:10636414 original size:101 final size:101
Alignment explanation
Indices: 10636222--10636461 Score: 354
Period size: 101 Copynumber: 2.4 Consensus size: 101
10636212 AATTCATCCT
* * * *
10636222 TTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
* *
10636287 CTTACATATAAACACTGCCATTGTCCAACCATGGTC
66 CCTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
10636323 TTATATTCATAGTGTCATAACCCAATTATGATCTTATCAACAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
* * *
10636388 CCTACATATAAACAGTGCTATGGTCCAGCCATGGTC
66 CCTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
10636424 TTACGTTCATAGTGTCATAACACAGTTATGGTCTTATC
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATC
10636462 CGTCAATTCA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
CCTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:10641023 original size:13 final size:13
Alignment explanation
Indices: 10640988--10641025 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
10640978 GAGATATTTG
10640988 TAATTTGAAAACT
1 TAATTTGAAAACT
*
10641001 TAAGTTTGAAAGCT
1 TAA-TTTGAAAACT
10641015 TAATTTGAAAA
1 TAATTTGAAAA
10641026 TTTGGAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:10641103 original size:22 final size:22
Alignment explanation
Indices: 10641064--10641106 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10641054 AACTTAAAAA
*
10641064 TTTTGAGAAACTTTGAGAAACT
1 TTTTGAGAAAATTTGAGAAACT
10641086 TTTTG-GAAAATTTGGAGAAAC
1 TTTTGAGAAAATTT-GAGAAAC
10641107 AACTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
TTTTGAGAAAATTTGAGAAACT
Found at i:10641342 original size:34 final size:34
Alignment explanation
Indices: 10641304--10641380 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
10641294 TTTCTTATCT
*
10641304 TTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
* *
10641338 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCT
1 TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
10641372 TTTCTTGCA
1 TTTCTTGCA
10641381 TCATTTCTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
Found at i:10644222 original size:20 final size:22
Alignment explanation
Indices: 10644192--10644231 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
10644182 AATTGTTGGT
10644192 TCTATTTCTTTTTTG-ATTTGA
1 TCTATTTCTTTTTTGTATTTGA
10644213 TCTA-TTCTTTTTTGTATTT
1 TCTATTTCTTTTTTGTATTT
10644232 CTCTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (22 bp):
TCTATTTCTTTTTTGTATTTGA
Found at i:10644287 original size:21 final size:22
Alignment explanation
Indices: 10644263--10644303 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10644253 TTAATTTTTT
*
10644263 AAAACATATTT-CTTCTTTTAG
1 AAAACAGATTTGCTTCTTTTAG
*
10644284 AAAAGAGATTTGCTTCTTTT
1 AAAACAGATTTGCTTCTTTT
10644304 TATGATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (22 bp):
AAAACAGATTTGCTTCTTTTAG
Found at i:10652629 original size:21 final size:22
Alignment explanation
Indices: 10652589--10652629 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10652579 ATTAATCATA
*
10652589 AAAAGAAGCAAATCTCTTTTCT
1 AAAAGAAGCAAATATCTTTTCT
*
10652611 AAAAGAAG-AAATATGTTTT
1 AAAAGAAGCAAATATCTTTT
10652630 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAGAAGCAAATATCTTTTCT
Found at i:10652635 original size:21 final size:22
Alignment explanation
Indices: 10652588--10652635 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
10652578 AATTAATCAT
* *
10652588 AAAAAGAAGCAAATCTCTTTTC
1 AAAAAGAAGCAAATATCTTTTA
* *
10652610 TAAAAGAAG-AAATATGTTTTA
1 AAAAAGAAGCAAATATCTTTTA
10652631 AAAAA
1 AAAAA
10652636 TTAACTGAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAAGAAGCAAATATCTTTTA
Found at i:10652691 original size:20 final size:22
Alignment explanation
Indices: 10652661--10652700 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10652651 GGAAAAAGAG
10652661 AAATACAAAAAAG-AATAGATC
1 AAATACAAAAAAGAAATAGATC
10652682 AAAT-CAAAAAAGAAATAGA
1 AAATACAAAAAAGAAATAGA
10652701 ACCAACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (22 bp):
AAATACAAAAAAGAAATAGATC
Found at i:10660070 original size:44 final size:44
Alignment explanation
Indices: 10660018--10660301 Score: 184
Period size: 44 Copynumber: 6.5 Consensus size: 44
10660008 CACTCTACTG
* *
10660018 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* * * *
10660062 CAACTTCAGGGAGATAGGAT-TATTGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTATT-ACTTCAATCCGCTCCACTA
* * *** * ** * *
10660106 TAACTTCAGGGAGATAAGATTTGCCATCTTCGATCTACCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATCCGCTCCACTA
* * * * * * *
10660151 CAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTCAATCCGCTCCACTA
* * * * * * *
10660195 TAACTTCAGGGAGATAAGA-C-CTGA-TGCAATCCACTCTAATGA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACT-A
* * *
10660237 -AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
*
10660280 CAACTTCAGGGAGATAGGATCT
1 CAACTTCAGGGAGATAAGATCT
10660302 GTAATTTCCA
Statistics
Matches: 181, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
41 28 0.15
42 1 0.01
43 8 0.04
44 108 0.60
45 35 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
Found at i:10660219 original size:218 final size:217
Alignment explanation
Indices: 10659897--10660299 Score: 680
Period size: 218 Copynumber: 1.9 Consensus size: 217
10659887 TGCACCGCCT
* * * *
10659897 GGGAAATAAGATTCGCTATCTTTGATCTGCCCCACTGCAACTTCAGAGGGATAAGACCGTTTACT
1 GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACCGCTTACT
* * * *
10659962 CAGTCTGTTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAG
66 CAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCAG
*
10660027 AGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
131 AGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
10660092 AATCTGCTCCACTGTAACTTCA
196 AATCTGCTCCACTGTAACTTCA
* * *
10660114 GGGAGATAAGATTTGCCATCTTCGATCTACCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACC-GCTTAC
*
10660179 TCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCA
65 TCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCA
10660244 GAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
130 GAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
10660300 CTGTAATTTC
Statistics
Matches: 172, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
217 52 0.30
218 120 0.70
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (217 bp):
GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACCGCTTACT
CAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCAG
AGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
AATCTGCTCCACTGTAACTTCA
Found at i:10660476 original size:128 final size:127
Alignment explanation
Indices: 10660287--10660695 Score: 629
Period size: 128 Copynumber: 3.2 Consensus size: 127
10660277 CTACAACTTC
* * *
10660287 AGGGAGATAGGATCTGTAATTTCCAAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCC-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
** *
10660352 TTAAATCAACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCC-TCTTCGATCTGCTCCGCTATTGCTT
*
10660416 AGGGAGACAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
* * * *
10660481 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCACTTCGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCTCTTCGATCTGCTCCGCTATTGCTT
* * *
10660543 AGGGAGACAAGATCTATAATTTCCCAACCTATTTCACTGCTGACCAGGGATATAGGAATTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * *
10660608 TTAAATCTGCTTCTTTACACTTGAAGATAAGATTCGTCATCTTCGATCTGCTCCGATATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCG-CCTCTTCGATCTGCTCCGCTATTGCTT
10660672 AGGGAGACAAGATCTGTAATTTCC
1 AGGGAGACAAGATCTGTAATTTCC
10660696 CAGATCTGTT
Statistics
Matches: 255, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 42 0.16
128 148 0.58
129 65 0.25
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (127 bp):
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCTCTTCGATCTGCTCCGCTATTGCTT
Found at i:10662837 original size:15 final size:15
Alignment explanation
Indices: 10662817--10662848 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10662807 TTTCTTTTTC
10662817 TTTTTTATTTTCATT
1 TTTTTTATTTTCATT
*
10662832 TTTTTTATTTTGATT
1 TTTTTTATTTTCATT
10662847 TT
1 TT
10662849 GATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTATTTTCATT
Found at i:10662848 original size:12 final size:12
Alignment explanation
Indices: 10662833--10662880 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10662823 ATTTTCATTT
10662833 TTTTTATTTTGA
1 TTTTTATTTTGA
*
10662845 TTTTGATTTTGA
1 TTTTTATTTTGA
* *
10662857 TTGATTTTTTTTCA
1 TT--TTTATTTTGA
10662871 TTTTTATTTT
1 TTTTTATTTT
10662881 TTCGACTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:10662848 original size:27 final size:26
Alignment explanation
Indices: 10662811--10662880 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 26
10662801 TTTATTTTTC
* **
10662811 TTTTTCTTTTTTATTTTCATTTTTTT
1 TTTTTCATTTTTATTTTCATTGATTT
* * *
10662837 TATTTTGATTTTGATTTTGATTGATTT
1 T-TTTTCATTTTTATTTTCATTGATTT
10662864 TTTTTCATTTTTATTTT
1 TTTTTCATTTTTATTTT
10662881 TTCGACTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTTTCATTTTTATTTTCATTGATTT
Found at i:10662873 original size:41 final size:39
Alignment explanation
Indices: 10662819--10662917 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 39
10662809 TCTTTTTCTT
* *
10662819 TTTTATTTTCATTTTTTTTATTTTGATTTTGATTTTGATTGA
1 TTTT-TTTTCATTTTTTTT-TTTCGACTTTGATTTTGATT-A
* *
10662861 TTTTTTTTCATTTTTATTTTTTCGACTTTGATTTTGCTTT
1 TTTTTTTTCATTTTT-TTTTTTCGACTTTGATTTTGATTA
10662901 TTTCTTTTTC-TTTTTTT
1 TTT-TTTTTCATTTTTTT
10662918 GAATCAGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 2 0.04
40 8 0.16
41 34 0.67
42 7 0.14
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.75
Consensus pattern (39 bp):
TTTTTTTTCATTTTTTTTTTTCGACTTTGATTTTGATTA
Found at i:10662879 original size:16 final size:15
Alignment explanation
Indices: 10662817--10662882 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
10662807 TTTCTTTTTC
*
10662817 TTTTTTATTTTCATT
1 TTTTTTATTTTGATT
10662832 TTTTTTATTTTGATT
1 TTTTTTATTTTGATT
10662847 TTGATTTTGA--TTGATT
1 TT--TTTT-ATTTTGATT
*
10662863 TTTTTTCATTTTTATT
1 TTTTTT-ATTTTGATT
10662879 TTTT
1 TTTT
10662883 CGACTTTGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 5 0.12
15 16 0.37
16 17 0.40
17 4 0.09
18 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTGATT
Found at i:10667537 original size:12 final size:11
Alignment explanation
Indices: 10667501--10667545 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 11
10667491 AAAAGATTTA
10667501 AAATAATAAAAT
1 AAATAA-AAAAT
10667513 ATAATAACAAAAT
1 A-AATAA-AAAAT
10667526 AAATAAATAAAT
1 AAATAAA-AAAT
10667538 AAATAAAA
1 AAATAAAA
10667546 GGTGTAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.07
12 17 0.57
13 11 0.37
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AAATAAAAAAT
Done.