Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 38 of 325
Found at i:9371917 original size:16 final size:16
Alignment explanation
Indices: 9371896--9371929 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9371886 AAATGAATAT
* *
9371896 ATGTGTAAGTGTGATA
1 ATGTGTAAATATGATA
9371912 ATGTGTAAATATGATA
1 ATGTGTAAATATGATA
9371928 AT
1 AT
9371930 TGGATATTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (16 bp):
ATGTGTAAATATGATA
Found at i:9376630 original size:12 final size:12
Alignment explanation
Indices: 9376613--9376643 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
9376603 AGTCAGTTAC
9376613 CACACGGCCTAG
1 CACACGGCCTAG
9376625 CACACGGCCTAG
1 CACACGGCCTAG
9376637 CACACGG
1 CACACGG
9376644 GCGTTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.26, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:9379234 original size:40 final size:39
Alignment explanation
Indices: 9379190--9379278 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 39
9379180 TATTATACAT
*
9379190 TAGCGGCGTTTGCAAT-AAAACGCCGCAAAAAACTGAGCAA
1 TAGCGGCGTTTG--ATCAAAACGCCGCAAAAAACTGAACAA
* * *
9379230 TAGCGACGCTTTTGATCCAAACGCCGCTAAAAACTGAACAA
1 TAGCG--GCGTTTGATCAAAACGCCGCAAAAAACTGAACAA
9379271 TAGCGGCG
1 TAGCGGCG
9379279 CTTTTTGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
39 2 0.05
40 7 0.17
41 26 0.63
42 6 0.15
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (39 bp):
TAGCGGCGTTTGATCAAAACGCCGCAAAAAACTGAACAA
Found at i:9379363 original size:41 final size:41
Alignment explanation
Indices: 9379271--9379457 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
9379261 AACTGAACAA
* * * * *
9379271 TAGCGGCGCTTTTTGAAAAACGCTGCTATTGCTC-AGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
9379311 TAGCAGCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
9379352 TAGCGGCGCTTTTGGGAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
9379393 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCTAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
9379434 TAGCGGCGCTTTTGGGAAAACGCC
1 TAGCGGCGCTTTTGGAAAAACGCC
9379458 ACAAAAAATT
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 28 0.21
41 103 0.79
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:9379874 original size:21 final size:21
Alignment explanation
Indices: 9379828--9379879 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
9379818 TTAATTATCA
* *
9379828 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
9379849 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
9379870 TTATGAGTTA
1 TTATG-GTTA
9379880 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:9379917 original size:22 final size:22
Alignment explanation
Indices: 9379892--9379934 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9379882 ATTTTAAGCT
*
9379892 TTATAGATTATGGGTTTAGGGA
1 TTATAGATTATGGGTTAAGGGA
* *
9379914 TTATGGTTTATGGGTTAAGGG
1 TTATAGATTATGGGTTAAGGG
9379935 TTAGGGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (22 bp):
TTATAGATTATGGGTTAAGGGA
Found at i:9379964 original size:23 final size:23
Alignment explanation
Indices: 9379932--9379996 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
9379922 TATGGGTTAA
*
9379932 GGGTTAGGGTTTAAGTTTTAGAG
1 GGGTTAGGGTTTAAGGTTTAGAG
*
9379955 GGGTTGGGGTTTAAGGTTT--AG
1 GGGTTAGGGTTTAAGGTTTAGAG
9379976 GGGTTAAGGG-TTAAGGGTTTA
1 GGGTT-AGGGTTTAA-GGTTTA
9379997 TGTTTTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.31
22 8 0.22
23 17 0.47
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (23 bp):
GGGTTAGGGTTTAAGGTTTAGAG
Found at i:9379979 original size:21 final size:21
Alignment explanation
Indices: 9379904--9380022 Score: 87
Period size: 21 Copynumber: 5.5 Consensus size: 21
9379894 ATAGATTATG
* * *
9379904 GGTTTAGGGATTATGGTTTAT
1 GGTTTAGGGGTTAGGGTTTAA
* *
9379925 GGGTTAAGGGTTAGGGTTTAA
1 GGTTTAGGGGTTAGGGTTTAA
* *
9379946 GTTTTAGAGGGGTTGGGGTTTAA
1 GGTTT--AGGGGTTAGGGTTTAA
9379969 GGTTTAGGGGTTAAGGG-TTAA
1 GGTTTAGGGGTT-AGGGTTTAA
* ** * *
9379990 GGGTTTATGTTTTATGATTTAA
1 -GGTTTAGGGGTTAGGGTTTAA
9380012 GGTTTAGGGGT
1 GGTTTAGGGGT
9380023 CAGAGGTTAG
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
21 40 0.54
22 16 0.22
23 18 0.24
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGGTTTAA
Found at i:9380042 original size:8 final size:7
Alignment explanation
Indices: 9379903--9380047 Score: 69
Period size: 7 Copynumber: 20.1 Consensus size: 7
9379893 TATAGATTAT
9379903 GGGTTTA
1 GGGTTTA
*
9379910 GGGATTA
1 GGGTTTA
*
9379917 TGGTTTA
1 GGGTTTA
*
9379924 TGGGTTAA
1 -GGGTTTA
9379932 GGG-TTA
1 GGGTTTA
9379938 GGGTTTA
1 GGGTTTA
* *
9379945 AGTTTTAGA
1 GGGTTT--A
* *
9379954 GGGGTTG
1 GGGTTTA
9379961 GGGTTTA
1 GGGTTTA
*
9379968 AGGTTTA
1 GGGTTTA
*
9379975 GGGGTTAA
1 -GGGTTTA
*
9379983 GGGTTAA
1 GGGTTTA
9379990 GGGTTTA
1 GGGTTTA
* *
9379997 TGTTTTA
1 GGGTTTA
* *
9380004 TGATTTA
1 GGGTTTA
*
9380011 AGGTTTA
1 GGGTTTA
* *
9380018 GGGGTCA
1 GGGTTTA
9380025 GAGG-TTA
1 G-GGTTTA
9380032 GGGATTTA
1 GGG-TTTA
9380040 GGGTTTA
1 GGGTTTA
9380047 G
1 G
9380048 ATTAATTAGT
Statistics
Matches: 103, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
6 7 0.07
7 74 0.72
8 18 0.17
9 4 0.04
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:9382193 original size:23 final size:23
Alignment explanation
Indices: 9382166--9382211 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
9382156 ACTAAAGAAC
9382166 ATCTGTT-AAATCGGATTAGGTGG
1 ATCTGTTAAAAT-GGATTAGGTGG
9382189 ATCTGTTAAAATGGATTAGGTGG
1 ATCTGTTAAAATGGATTAGGTGG
9382212 CATTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (23 bp):
ATCTGTTAAAATGGATTAGGTGG
Found at i:9382953 original size:26 final size:26
Alignment explanation
Indices: 9382917--9383052 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
9382907 TGATACAAAT
9382917 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9382943 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9382969 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9382995 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
9383021 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
9383047 TGATAA
1 TGATAA
9383053 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:9385079 original size:137 final size:137
Alignment explanation
Indices: 9384833--9385119 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
9384823 GAGTAGTCTC
*
9384833 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCTTAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
9384898 TGTTATCTGAATAAGGGCCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGCCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
9384963 ACTGTTA
131 ACTGTTA
9384970 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
9385035 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTGATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGCCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
9385100 ACTGTTA
131 ACTGTTA
**
9385107 CCTGAATGGGCTT
1 CCCAAATGGGCTT
9385120 AGGCCAATAG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGCCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:9387533 original size:21 final size:21
Alignment explanation
Indices: 9387509--9387550 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9387499 ATAAATCCTC
9387509 TACAGAAAGTTTAAAGGTTAA
1 TACAGAAAGTTTAAAGGTTAA
9387530 TACAGAAAGTTTAAAGGTTAA
1 TACAGAAAGTTTAAAGGTTAA
9387551 CTTCCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
TACAGAAAGTTTAAAGGTTAA
Found at i:9388579 original size:22 final size:23
Alignment explanation
Indices: 9388537--9388579 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9388527 TTTCAAAAAT
*
9388537 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
9388560 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
9388580 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:9388691 original size:42 final size:43
Alignment explanation
Indices: 9388600--9388754 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
9388590 ATAATTTTTT
* * * * *
9388600 TAAAGTTCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
*
9388643 TAAAGGTCATGGTCTTTAGCGGCGTTTGT-AAAAAAGTGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
**
9388685 TAAAGGTCATGGTCTTTAGCAACGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
*
9388728 TAAAAGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGGTCTTTAGCGGCGTTT
9388755 TTTTAAATAA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 38 0.38
43 62 0.62
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
Found at i:9396858 original size:57 final size:57
Alignment explanation
Indices: 9396763--9396908 Score: 177
Period size: 57 Copynumber: 2.6 Consensus size: 57
9396753 GTTATATTGT
* * * * *
9396763 GTAAGATCATAGCTGAAAGATGCTATGG-ATTCAAAAGATAATATGACGGTATAGTGA
1 GTAAGACCATAGTTGAAAGACGCTATGGCA-TCAAAAGATAATATGACGATATAATGA
** * * *
9396820 GTACTACCATAGTTGAAAGACGCTATGGCATCAAAAGATGATTTGATGATATAATGA
1 GTAAGACCATAGTTGAAAGACGCTATGGCATCAAAAGATAATATGACGATATAATGA
*
9396877 GTAAGACCATAGTTGAAAGACACTATGGCATC
1 GTAAGACCATAGTTGAAAGACGCTATGGCATC
9396909 GTAGATAGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
57 74 0.99
58 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (57 bp):
GTAAGACCATAGTTGAAAGACGCTATGGCATCAAAAGATAATATGACGATATAATGA
Found at i:9399670 original size:9 final size:9
Alignment explanation
Indices: 9399658--9399700 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
9399648 AAACCTTGCA
9399658 AAATTTAGC
1 AAATTTAGC
9399667 AAATTTAGC
1 AAATTTAGC
*
9399676 AAATTGTTTGC
1 AAA-T-TTAGC
9399687 TAAATTTAGC
1 -AAATTTAGC
9399697 AAAT
1 AAAT
9399701 GTAATTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 16 0.55
10 5 0.17
11 5 0.17
12 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (9 bp):
AAATTTAGC
Found at i:9404676 original size:31 final size:31
Alignment explanation
Indices: 9404633--9404747 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
9404623 TTAGTCTTGA
*
9404633 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
9404663 CATATCACTGGGCCAAAGCATTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
9404694 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
9404725 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
9404748 ACTGTAAACA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:9404818 original size:42 final size:42
Alignment explanation
Indices: 9404771--9404862 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
9404761 TGGCCCTTAG
* *
9404771 GCCCATTTCAATGTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404813 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
9404855 GCCCATTT
1 GCCCATTT
9404863 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:9405044 original size:25 final size:24
Alignment explanation
Indices: 9404997--9405080 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
9404987 CTGGAGGCCT
*
9404997 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
9405021 AGCCCTTTCTAATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
9405046 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
9405071 AGCCCTTTTA
1 AGCCCTTTTA
9405081 GTACTTTCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 9 0.17
25 39 0.75
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:9405946 original size:27 final size:27
Alignment explanation
Indices: 9405885--9405971 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
9405875 GGCATATTCA
9405885 TCATTTTACCATACAGGGGTATTACAG
1 TCATTTTACCATACAGGGGTATTACAG
* * *
9405912 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACAG
* * **
9405939 TCTTTTTACC-TATTAGGGGTATTTTAG
1 TCATTTTACCATA-CAGGGGTATTACAG
9405966 TCATTT
1 TCATTT
9405972 CATCCTACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
26 3 0.06
27 43 0.91
28 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACAG
Found at i:9406032 original size:27 final size:27
Alignment explanation
Indices: 9405979--9406222 Score: 161
Period size: 27 Copynumber: 9.0 Consensus size: 27
9405969 TTTCATCCTA
* * * **
9405979 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* **
9406006 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
9406033 CAATGGTATTTCT-ATAATTTT-TAGAAAGT
1 CAAGGGTATTT-TGGTAATTTTGT--AAA-C
* *
9406062 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* ** *
9406089 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
** * ***
9406116 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
** *
9406143 C-AGTGGTATTTTGGTAATTTTACAAAA
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
* *
9406170 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
9406197 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTGGTAATTTTGTAAA
9406223 TCGAGGATAA
Statistics
Matches: 173, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 144 0.83
28 8 0.05
29 17 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:9406203 original size:81 final size:81
Alignment explanation
Indices: 9406010--9406216 Score: 204
Period size: 81 Copynumber: 2.5 Consensus size: 81
9406000 ACAAACCAAA
** * * *
9406010 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTT
1 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC-AGTAA-TTTCACAAAG-CAAGGGTATTTT
* **
9406074 TGTAATTTTGTAAATCAGG
63 GGTAATTTTCAAAATCAGG
** *** * *
9406093 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTTGG
1 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTCACAAAGCAAG-GGTATTTTGG
9406157 TAATTTTACAAAAT-AGG
65 TAATTTT-CAAAATCAGG
*
9406174 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTT
9406217 TGTAAATCGA
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
80 3 0.03
81 55 0.56
82 11 0.11
83 30 0.30
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTCACAAAGCAAGGGTATTTTGGT
AATTTTCAAAATCAGG
Found at i:9406241 original size:27 final size:27
Alignment explanation
Indices: 9406210--9406366 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
9406200 GGGTATTTTA
* *
9406210 GTAATTTTGTAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
9406237 ATAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
9406264 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
9406291 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
9406318 GTAATTTTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
9406345 GTAATTCTGTAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
9406367 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:9406258 original size:81 final size:81
Alignment explanation
Indices: 9406181--9406357 Score: 210
Period size: 81 Copynumber: 2.2 Consensus size: 81
9406171 AGGGGTATTT
* *** * * *
9406181 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGATAAAACGATAATTCTG
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTA
9406246 TAAATCAAGGGTAAAA
66 TAAATCAAGGGTAAAA
*** * * * *
9406262 TGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTA
9406327 TAAATCAAGGGTAAAA
66 TAAATCAAGGGTAAAA
**
9406343 CAGTAATTCTGTAAA
1 TGGTAATTCTGTAAA
9406358 TTGAGGGTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTA
TAAATCAAGGGTAAAA
Found at i:9406358 original size:81 final size:81
Alignment explanation
Indices: 9406210--9406366 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
9406200 GGGTATTTTA
* * * **
9406210 GTAATTTTGTAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTA
9406275 AATTGAGGGTAAAATG
66 AATTGAGGGTAAAATG
* * *
9406291 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTA
9406356 AATTGAGGGTA
66 AATTGAGGGTA
9406367 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTA
AATTGAGGGTAAAATG
Found at i:9406374 original size:81 final size:81
Alignment explanation
Indices: 9406199--9406377 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 81
9406189 TTGTAAACCA
* * * * * **
9406199 AGGGTATTTTAGTAATTTTGTAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAATG
1 AGGGTAATTTGGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACA
9406264 GTAATTCTGTAAATTG
66 GTAATTCTGTAAATTG
** * * *
9406280 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATCAAGGGTAAAACA
1 AGGGTAATTTGGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACA
9406345 GTAATTCTGTAAATTG
66 GTAATTCTGTAAATTG
*
9406361 AGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
9406378 TTACAAATTG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATCAAGGGTAAAACA
GTAATTCTGTAAATTG
Found at i:9406375 original size:54 final size:53
Alignment explanation
Indices: 9406210--9406385 Score: 190
Period size: 54 Copynumber: 3.3 Consensus size: 53
9406200 GGGTATTTTA
* * *
9406210 GTAATTTTGTAAATCGAGGATAAAACGATAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAATG
* * * * * *
9406264 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTGTAAATCGAGGGTAAAATG
* * ***
9406318 GTAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATTGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAATG
*
9406372 GTAATTTTACAAAT
1 GTAATTTTATAAAT
9406386 TGAGAACATT
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
54 100 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (53 bp):
GTAATTTTATAAATCGAGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:9411081 original size:46 final size:46
Alignment explanation
Indices: 9411028--9411203 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
9411018 TGGTTGAGCA
9411028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * * *
9411074 TCTGAACTCATTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
9411119 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9411167 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9411204 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.59
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9411184 original size:93 final size:93
Alignment explanation
Indices: 9411025--9411196 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
9411015 GGATGGTTGA
* *
9411025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
*
9411090 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
9411118 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
9411183 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
9411197 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:9416098 original size:22 final size:22
Alignment explanation
Indices: 9416072--9416122 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
9416062 CGCTTAGATT
9416072 CCATGATTTATAAAGAAAATCA
1 CCATGATTTATAAAGAAAATCA
9416094 CCATGATTTATAAAGAAAATCA
1 CCATGATTTATAAAGAAAATCA
*
9416116 CTATGAT
1 CCATGAT
9416123 GTAACCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (22 bp):
CCATGATTTATAAAGAAAATCA
Found at i:9417136 original size:30 final size:32
Alignment explanation
Indices: 9417068--9417146 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
9417058 TATGATTAAT
*
9417068 AAAACCTAGCCAAATACTGTTCTTTAAAGAAA
1 AAAACCTAGCCAAGTACTGTTCTTTAAAGAAA
*
9417100 AAAACCTAGCCAAGTACTGTTC-TTAAA-AAG
1 AAAACCTAGCCAAGTACTGTTCTTTAAAGAAA
9417130 AAAACCTAGCCAAGTAC
1 AAAACCTAGCCAAGTAC
9417147 AGAAAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 19 0.42
31 5 0.11
32 21 0.47
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (32 bp):
AAAACCTAGCCAAGTACTGTTCTTTAAAGAAA
Found at i:9424793 original size:16 final size:16
Alignment explanation
Indices: 9424774--9424806 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9424764 TCTCCCCTAA
9424774 TTCAAGCCTTAAAATT
1 TTCAAGCCTTAAAATT
*
9424790 TTCAAGCCTTAAGATT
1 TTCAAGCCTTAAAATT
9424806 T
1 T
9424807 GACATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (16 bp):
TTCAAGCCTTAAAATT
Found at i:9427371 original size:23 final size:23
Alignment explanation
Indices: 9427305--9427394 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
9427295 AGCATACTCG
* *
9427305 TGAATTTAGCACTCTGGTGCT-T
1 TGAATTTAGCACTTTTGTGCTCT
*
9427327 GTGAAGTTAGCA-TTTCCT-TGCTCT
1 -TGAATTTAGCACTTT--TGTGCTCT
*
9427351 TGAATTTAGCACTTTTGTGCTCC
1 TGAATTTAGCACTTTTGTGCTCT
*
9427374 TG-ATTTAGCACTTATGTGCTC
1 TGAATTTAGCACTTTTGTGCTC
9427395 ATGTATTTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 21 0.38
23 31 0.55
24 4 0.07
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (23 bp):
TGAATTTAGCACTTTTGTGCTCT
Found at i:9427382 original size:22 final size:23
Alignment explanation
Indices: 9427345--9427394 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9427335 AGCATTTCCT
* *
9427345 TGCTCTTGAATTTAGCACTTTTG
1 TGCTCCTGAATTTAGCACTTATG
9427368 TGCTCCTG-ATTTAGCACTTATG
1 TGCTCCTGAATTTAGCACTTATG
9427390 TGCTC
1 TGCTC
9427395 ATGTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (23 bp):
TGCTCCTGAATTTAGCACTTATG
Found at i:9428598 original size:22 final size:22
Alignment explanation
Indices: 9428568--9428638 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
9428558 GTCTCTGGTT
*
9428568 TTGCAACATCCGACCCTTAGTG
1 TTGCGACATCCGACCCTTAGTG
* *
9428590 TTGCGACAT-C-AACC--AATG
1 TTGCGACATCCGACCCTTAGTG
** *
9428608 TCACGACATCCGACCTTTAGTG
1 TTGCGACATCCGACCCTTAGTG
9428630 TTGCGACAT
1 TTGCGACAT
9428639 TAGCTAGCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 5 0.14
21 1 0.03
22 18 0.51
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (22 bp):
TTGCGACATCCGACCCTTAGTG
Found at i:9430418 original size:16 final size:16
Alignment explanation
Indices: 9430398--9430454 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
9430388 ATATATAACC
9430398 AATAATAGAAAATAAA
1 AATAATAGAAAATAAA
*
9430414 CATAA-AGAAAATTAAA
1 AATAATAGAAAA-TAAA
*
9430430 AATAAATAGAATATAAA
1 AAT-AATAGAAAATAAA
9430447 TAATAATA
1 -AATAATA
9430455 AACAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 6 0.18
16 10 0.29
17 10 0.29
18 8 0.24
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (16 bp):
AATAATAGAAAATAAA
Found at i:9430792 original size:28 final size:27
Alignment explanation
Indices: 9430759--9430820 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
9430749 AAAAAATCTA
9430759 AAATAAATAATATATATATAAA-ATTTT
1 AAATAAATAATATATATA-AAATATTTT
* *
9430786 AGAATAAATGATGTATATAAAATTATTTT
1 A-AATAAATAATATATATAAAA-TATTTT
9430815 AAATAA
1 AAATAA
9430821 CTAGTAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.13
28 20 0.67
29 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
AAATAAATAATATATATAAAATATTTT
Found at i:9432789 original size:44 final size:44
Alignment explanation
Indices: 9432739--9432825 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
9432729 GAGACAAAAT
* * *
9432739 CTACAATCTTTAGTCTGCTCCTTTACTACCTCAG-GAAGATAAGA
1 CTACAATCTTCAGCCTGCTCCCTTACTACCTCAGAG-AGATAAGA
*
9432783 CTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGAGAGATAAG
1 CTACAATCTTCAGCCTGCTCCCTTACTACCTCAGAGAGATAAG
9432826 GCTGATGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
CTACAATCTTCAGCCTGCTCCCTTACTACCTCAGAGAGATAAGA
Found at i:9432934 original size:178 final size:178
Alignment explanation
Indices: 9432618--9433048 Score: 623
Period size: 178 Copynumber: 2.4 Consensus size: 178
9432608 GTGATTTGAA
* * * * * **
9432618 CCTACTCCAC-TGCAACCTCAGAGAGATAAGGTTGATGAATTAAATCTGTTTGCCTGCTACCTCG
1 CCTACTCC-CTTGCTACCTCAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTCG
* *
9432682 AGT-AGATAAGATTCGCCACTTTCGATCTGCCCCACTGCTGTCTCGAGGAGACAAAATCTACAAT
65 A-TAAGATAAGAGTCGCCACTTTCGATCTGCCCCACTGCTATCTCGAGGAGACAAAATCTACAAT
* * * *
9432746 CTTTAGTCTGCTCCTTTACTACCTCAGGAAGATAAGACTACAATCTTCAG
129 CTTCAGTCTGCTCCCTTACTACCTCAAGAAGATAAGACTACAACCTTCAG
*
9432796 CCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTCGA
1 CCTACTCCCTTGCTACCTCAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTCGA
* *
9432861 TAAGATAAGAGTCGCCACTTTCGATTTGCCCTACTGCTATCTCGAGGAGACAAAATCTACAATCT
66 TAAGATAAGAGTCGCCACTTTCGATCTGCCCCACTGCTATCTCGAGGAGACAAAATCTACAATCT
9432926 TCAGTCTGCTCCCTTACTACCTCAAGAAGATAAGACTACAACCTTCAG
131 TCAGTCTGCTCCCTTACTACCTCAAGAAGATAAGACTACAACCTTCAG
* * * * * *
9432974 CCTACTCCTTTGCTACCTCAGAGAAATAAGGCTGGTGGCTAAAATCTGCTCTCCTGCTACCTCGG
1 CCTACTCCCTTGCTACCTCAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTCGA
*
9433039 GAAGATAAGA
66 TAAGATAAGA
9433049 TTCATTGTCT
Statistics
Matches: 227, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
177 2 0.01
178 225 0.99
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (178 bp):
CCTACTCCCTTGCTACCTCAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTCGA
TAAGATAAGAGTCGCCACTTTCGATCTGCCCCACTGCTATCTCGAGGAGACAAAATCTACAATCT
TCAGTCTGCTCCCTTACTACCTCAAGAAGATAAGACTACAACCTTCAG
Found at i:9432990 original size:44 final size:44
Alignment explanation
Indices: 9432917--9433003 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
9432907 GAGACAAAAT
* * *
9432917 CTACAATCTTCAGTCTGCTCCCTTACTACCTCA-AGAAGATAAGA
1 CTACAACCTTCAGCCTACTCCCTTACTACCTCAGAGAA-ATAAGA
* *
9432961 CTACAACCTTCAGCCTACTCCTTTGCTACCTCAGAGAAATAAG
1 CTACAACCTTCAGCCTACTCCCTTACTACCTCAGAGAAATAAG
9433004 GCTGGTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.89
45 4 0.11
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.26
Consensus pattern (44 bp):
CTACAACCTTCAGCCTACTCCCTTACTACCTCAGAGAAATAAGA
Found at i:9448446 original size:16 final size:16
Alignment explanation
Indices: 9448420--9448474 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
9448410 AACAATATAT
9448420 ATAAACAATAATAGAAA
1 ATAAAC-ATAATAGAAA
9448437 ATAAACATAA-AGAAA
1 ATAAACATAATAGAAA
* *
9448452 ATTAAAAATAAATAGAAT
1 A-TAAACAT-AATAGAAA
9448470 ATAAA
1 ATAAA
9448475 TAATAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 6 0.18
16 10 0.30
17 12 0.36
18 5 0.15
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (16 bp):
ATAAACATAATAGAAA
Found at i:9448467 original size:33 final size:34
Alignment explanation
Indices: 9448421--9448496 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
9448411 ACAATATATA
*
9448421 TAAACAAT-AATAGAAAATAAA-CATAAAGAAAAT
1 TAAA-AATAAATAGAAAATAAATAATAAAGAAAAT
* * *
9448454 TAAAAATAAATAGAATATAAATAATAAATAAATT
1 TAAAAATAAATAGAAAATAAATAATAAAGAAAAT
9448488 TAAAAATAA
1 TAAAAATAA
9448497 TGTAAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 3 0.08
33 16 0.43
34 18 0.49
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.24
Consensus pattern (34 bp):
TAAAAATAAATAGAAAATAAATAATAAAGAAAAT
Found at i:9448570 original size:2 final size:2
Alignment explanation
Indices: 9448565--9448599 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9448555 AAACATTTAA
9448565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9448600 AGTGCAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9448812 original size:2 final size:2
Alignment explanation
Indices: 9448807--9448835 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9448797 AAAATAAATA
9448807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9448836 AAAGTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9451977 original size:22 final size:22
Alignment explanation
Indices: 9451950--9451995 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
9451940 ATTTCATTTC
9451950 TATATACTTTCTAATACCTAAA
1 TATATACTTTCTAATACCTAAA
*
9451972 TATATACTTTCTAATTCCTAAA
1 TATATACTTTCTAATACCTAAA
9451994 TA
1 TA
9451996 ATGAATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATACTTTCTAATACCTAAA
Found at i:9452727 original size:34 final size:34
Alignment explanation
Indices: 9452684--9452750 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
9452674 TCTTGTTTTA
9452684 ACCATTCTTCGATTGCTCATTGATTATCTTTCTG
1 ACCATTCTTCGATTGCTCATTGATTATCTTTCTG
9452718 ACCATTCTTCGATTGCTCATTGATTATCTTTCT
1 ACCATTCTTCGATTGCTCATTGATTATCTTTCT
9452751 AAGTGCCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.48
Consensus pattern (34 bp):
ACCATTCTTCGATTGCTCATTGATTATCTTTCTG
Found at i:9471417 original size:34 final size:34
Alignment explanation
Indices: 9471379--9471446 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9471369 TGGTGGGATA
9471379 CTTAAATTTTAGTACTAGTGTTTATGGTTCCATT
1 CTTAAATTTTAGTACTAGTGTTTATGGTTCCATT
9471413 CTTAAATTTTAGTACTAGTGTTTATGGTTCCATT
1 CTTAAATTTTAGTACTAGTGTTTATGGTTCCATT
9471447 TCTCTCTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (34 bp):
CTTAAATTTTAGTACTAGTGTTTATGGTTCCATT
Found at i:9474199 original size:10 final size:10
Alignment explanation
Indices: 9474178--9474241 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
9474168 AAGTAGTTTT
9474178 TTAAATAATTA
1 TTAAA-AATTA
9474189 TTAAAAATTA
1 TTAAAAATTA
*
9474199 -TAGAAAAGCTA
1 TTA-AAAA-TTA
*
9474210 TCTAAAAATGA
1 T-TAAAAATTA
9474221 TTAAAAATTA
1 TTAAAAATTA
9474231 -TAAGAAATTA
1 TTAA-AAATTA
9474241 T
1 T
9474242 AAATATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 5 0.12
10 23 0.53
11 9 0.21
12 4 0.09
13 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:9475439 original size:127 final size:127
Alignment explanation
Indices: 9475300--9475537 Score: 395
Period size: 127 Copynumber: 1.9 Consensus size: 127
9475290 TTAGTGCATG
* * *
9475300 AATGAATATTAATTGCATGTATTTAATTAATTAAGTATGAATTTTGAAATTATGCATGCAAGATT
1 AATGAACATTAATTACAAGTATTTAATTAATTAAGTATGAATTTTGAAATTATGCATGCAAGATT
* *
9475365 AAATGTATTTATTTGGTCATTAATGTAATTATTAATCATGTACTTAATCTTTCAGTTACATA
66 AAATGCATGTATTTGGTCATTAATGTAATTATTAATCATGTACTTAATCTTTCAGTTACATA
* *
9475427 AATGAACATTAATTACAAGTATTTAATTAATTAAGTATGAATTTTGAAATTATGTATGTAAGATT
1 AATGAACATTAATTACAAGTATTTAATTAATTAAGTATGAATTTTGAAATTATGCATGCAAGATT
* *
9475492 AGATGCATGTATTTGGTTATTAATGTAATTATTAATCATGTACTTA
66 AAATGCATGTATTTGGTCATTAATGTAATTATTAATCATGTACTTA
9475538 GCCTTTGAGT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 102 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.44
Consensus pattern (127 bp):
AATGAACATTAATTACAAGTATTTAATTAATTAAGTATGAATTTTGAAATTATGCATGCAAGATT
AAATGCATGTATTTGGTCATTAATGTAATTATTAATCATGTACTTAATCTTTCAGTTACATA
Found at i:9477888 original size:7 final size:7
Alignment explanation
Indices: 9477876--9477907 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9477866 ATTATTTTGT
9477876 TTTATTA
1 TTTATTA
9477883 TTTATTA
1 TTTATTA
9477890 TTTATTA
1 TTTATTA
9477897 -TTATT-
1 TTTATTA
9477902 TTTATT
1 TTTATT
9477908 TTATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.42
7 14 0.58
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTATTA
Found at i:9477897 original size:17 final size:17
Alignment explanation
Indices: 9477877--9477913 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9477867 TTATTTTGTT
9477877 TTATTATTTATTA-TTTA
1 TTATTATTT-TTATTTTA
9477894 TTATTATTTTTATTTTA
1 TTATTATTTTTATTTTA
9477911 TTA
1 TTA
9477914 ATTTAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTTTTATTTTA
Found at i:9479838 original size:21 final size:21
Alignment explanation
Indices: 9479814--9479868 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9479804 TCTACTGCCA
*
9479814 TCGCTGCTGCCTCAGCCTCTC
1 TCGCTGCTGCCTCAGCCTCCC
* * *
9479835 TCGCTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCTCAGCCTCCC
*
9479856 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
9479869 CGCTCTAAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.49, G:0.18, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCTCAGCCTCCC
Found at i:9480304 original size:13 final size:14
Alignment explanation
Indices: 9480278--9480306 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9480268 ACTAACGACG
9480278 AATTAAACCATTAT
1 AATTAAACCATTAT
9480292 AATTAAA-CATTAT
1 AATTAAACCATTAT
9480305 AA
1 AA
9480307 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:9485450 original size:74 final size:74
Alignment explanation
Indices: 9485362--9485769 Score: 710
Period size: 74 Copynumber: 5.5 Consensus size: 74
9485352 TGTAAGTTAT
9485362 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
9485427 ATTATGTAC
66 ATTATGTAC
*
9485436 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCTGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
9485501 ATTATGTAC
66 ATTATGTAC
9485510 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
*
9485575 ATTATGTAT
66 ATTATGTAC
*
9485584 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGCTATCCGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
9485649 ATTATGTAC
66 ATTATGTAC
* * * ** *
9485658 GATATAATATATACTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTGT-TTATCTTATGTA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGA-ATTATGTA
*
9485722 AATTATGTAA
65 AATTATGTAC
9485732 GATATGATATATATTTATGTATTATGTAAGTTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAA
9485770 GTTGTTGATG
Statistics
Matches: 318, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
73 1 0.00
74 317 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.46
Consensus pattern (74 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
ATTATGTAC
Found at i:9486050 original size:106 final size:105
Alignment explanation
Indices: 9485875--9486311 Score: 672
Period size: 106 Copynumber: 4.2 Consensus size: 105
9485865 AAAATAAAAT
9485875 ATTTAAAAAATAAAATAAAAGTAGACAAAATATTTTAGTGATTAAATTAAAATCAAGTAAAATAT
1 ATTTAAAAAATAAAATAAAAGTAGACAAAATATTTTAGTGATTAAATTAAAATCAAGTAAAATAT
* *
9485940 TTAAAATAAAACTTTAAAGACATTTTAATTTAGTTAGGTA
66 TTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
* *
9485980 ATTTAAAAAATAAAACAAAAGTAGACAAAATATTTTTCGTGATTAAATTAAAATCCAA-TAAAAT
1 ATTTAAAAAATAAAATAAAAGTAGACAAAATA-TTTTAGTGATTAAATTAAAAT-CAAGTAAAAT
*
9486044 ATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
64 ATTTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
*
9486086 ATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATA
1 ATTTAAAAAATAAAATAAAAGTAGACAAAATA-TTTTAGTGATTAAATTAAAATCAAGTAAAATA
9486151 TTTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
65 TTTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
* * *
9486192 ATTT---AAA-AAAATAAAAGTAGACAAAATATTTTCTGTGATTAAATTAAAATAAAATAAAATA
1 ATTTAAAAAATAAAATAAAAGTAGACAAAATATTTT-AGTGATTAAATTAAAATCAAGTAAAATA
* * * *
9486253 TTCAAAA-AAAACTTTAAATACATTTTAATTTAATTCGGTA
65 TTTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
9486293 ATTT-AAAAATAAAATAAAA
1 ATTTAAAAAATAAAATAAAA
9486312 ATTTTAAAAT
Statistics
Matches: 308, Mismatches: 17, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
101 38 0.12
102 52 0.17
103 5 0.02
104 9 0.03
105 34 0.11
106 167 0.54
107 3 0.01
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (105 bp):
ATTTAAAAAATAAAATAAAAGTAGACAAAATATTTTAGTGATTAAATTAAAATCAAGTAAAATAT
TTAAAATAAAACTTTAAAGACAATTTAATTTAATTAGGTA
Found at i:9487465 original size:39 final size:39
Alignment explanation
Indices: 9487401--9487475 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
9487391 TGACAGAAGC
* * *
9487401 AGATCTCAAATAATCATGCAGAATAACAAATTTAAGAGT
1 AGATATCAAATAACCATGCAAAATAACAAATTTAAGAGT
9487440 AGATATCAAATAACCATGCAAAATAACAAATTTAAG
1 AGATATCAAATAACCATGCAAAATAACAAATTTAAG
9487476 TTTTCTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (39 bp):
AGATATCAAATAACCATGCAAAATAACAAATTTAAGAGT
Found at i:9489887 original size:37 final size:37
Alignment explanation
Indices: 9489840--9489920 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
9489830 TTGATATATA
*
9489840 TTATTTTAAAATAATAATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
9489877 TTATATTAAAATAATAATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
9489914 TTATATT
1 TTATATT
9489921 TATCTTCTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (37 bp):
TTATATTAAAATAATAATTTATATATATTTATCTTAT
Found at i:9489918 original size:15 final size:15
Alignment explanation
Indices: 9489895--9489926 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9489885 AAATAATAAT
9489895 TTATATATATTTATC
1 TTATATATATTTATC
*
9489910 TTATTTATATTTATC
1 TTATATATATTTATC
9489925 TT
1 TT
9489927 CTAAATTAAA
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:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:9491258 original size:46 final size:45
Alignment explanation
Indices: 9491191--9491282 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 45
9491181 AAAAAGTAAA
*
9491191 CTCTAATATTCAAATTTACTTTCAATCTTTGAGATGTGTCTTTAAT
1 CTCTAATATTCAAATTTACTTTCAATCTTTGAGATCTGTC-TTAAT
9491237 CTCTAATATTCTAAA-TTACTTTCAATCTTTGAGATCTGTCTTAAT
1 CTCTAATATTC-AAATTTACTTTCAATCTTTGAGATCTGTCTTAAT
9491282 C
1 C
9491283 ATTATCCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 6 0.14
46 35 0.80
47 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (45 bp):
CTCTAATATTCAAATTTACTTTCAATCTTTGAGATCTGTCTTAAT
Found at i:9500713 original size:49 final size:51
Alignment explanation
Indices: 9500660--9500781 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 51
9500650 TACACAATTA
9500660 ATAAATAATAATACATAATTTTTTTA-AAAAAATAATAT-ATATAA-AATAT
1 ATAAATAATAATACATAATTTTTTTAGAAAAAATAATATAATA-AATAATAT
* *
9500709 ATAAAT-A-AATAC--AA-TTTATAAGTAAAAAATAATATAATAAATAATAT
1 ATAAATAATAATACATAATTTTTTTAG-AAAAAATAATATAATAAATAATAT
* *
9500756 ATAAA-AATAATATATACTATTTTTTA
1 ATAAATAATAATACATAAT-TTTTTTA
9500782 TAATTAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
44 5 0.09
45 2 0.04
46 14 0.25
47 19 0.33
48 5 0.09
49 6 0.11
50 1 0.02
52 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (51 bp):
ATAAATAATAATACATAATTTTTTTAGAAAAAATAATATAATAAATAATAT
Found at i:9500770 original size:13 final size:13
Alignment explanation
Indices: 9500687--9500771 Score: 71
Period size: 13 Copynumber: 6.1 Consensus size: 13
9500677 ATTTTTTTAA
9500687 AAAAATAATATAT
1 AAAAATAATATAT
*
9500700 ATAAAATATATAAAT
1 A-AAAATA-ATATAT
* * *
9500715 AAATACAATTTAT
1 AAAAATAATATAT
*
9500728 AAGTAAAAAATAATAT
1 AA--AAATAAT-ATAT
9500744 AATAAATAATATAT
1 AA-AAATAATATAT
9500758 AAAAATAATATAT
1 AAAAATAATATAT
9500771 A
1 A
9500772 CTATTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
13 19 0.33
14 16 0.28
15 18 0.31
16 5 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (13 bp):
AAAAATAATATAT
Found at i:9500816 original size:18 final size:18
Alignment explanation
Indices: 9500789--9500823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9500779 TTATAATTAA
*
9500789 TATTTTATAGATATAAAG
1 TATTTAATAGATATAAAG
*
9500807 TATTTAATAGATTTAAA
1 TATTTAATAGATATAAA
9500824 AAAATATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (18 bp):
TATTTAATAGATATAAAG
Found at i:9504739 original size:26 final size:26
Alignment explanation
Indices: 9504710--9504782 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
9504700 CTCACCAAGC
* * *
9504710 CCACTAGCTACCATAGCTCGCTAAAT
1 CCACTAGCAATCATAGCTCGCAAAAT
* * *
9504736 CCACTGGCGATCATAGTTCGCAAAAT
1 CCACTAGCAATCATAGCTCGCAAAAT
* *
9504762 CTACTAGAAATCATAGCTCGC
1 CCACTAGCAATCATAGCTCGC
9504783 CAGGCTTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (26 bp):
CCACTAGCAATCATAGCTCGCAAAAT
Found at i:9506705 original size:40 final size:39
Alignment explanation
Indices: 9506626--9506732 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 39
9506616 ATGATGTCCG
* *
9506626 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAATCC
**
9506665 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAATCC
*
9506705 GGTTAAGTCCCGAAGGCATTTGTGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
9506733 CTATTATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.02
39 25 0.42
40 25 0.42
41 8 0.14
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCC
Found at i:9506722 original size:39 final size:40
Alignment explanation
Indices: 9506622--9506732 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
9506612 TCGAATGATG
* * *
9506622 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
**
9506662 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
9506702 TCCGG-TTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAG
9506733 CTATTATAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
38 1 0.02
39 23 0.37
40 30 0.48
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:9514724 original size:39 final size:40
Alignment explanation
Indices: 9514628--9514779 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
9514618 TCGAATGATG
* *
9514628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* *
9514668 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGT-TCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
9514707 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
9514748 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
9514780 CGCTATATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.35
40 50 0.53
41 10 0.11
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:9518084 original size:8 final size:8
Alignment explanation
Indices: 9518071--9518104 Score: 54
Period size: 7 Copynumber: 4.5 Consensus size: 8
9518061 CCTAACCCAA
9518071 AAAAAAAG
1 AAAAAAAG
9518079 -AAAAAA-
1 AAAAAAAG
9518085 AAAAAAAG
1 AAAAAAAG
9518093 AAAAAAAG
1 AAAAAAAG
9518101 AAAA
1 AAAA
9518105 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 12 0.50
8 12 0.50
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9518085 original size:11 final size:11
Alignment explanation
Indices: 9518069--9518115 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
9518059 AACCTAACCC
9518069 AAAAAAAAAGA
1 AAAAAAAAAGA
9518080 AAAAAAAAA-A
1 AAAAAAAAAGA
9518090 AAGAAAAAAAGA
1 AA-AAAAAAAGA
*
9518102 AAAGAAAAAGA
1 AAAAAAAAAGA
9518113 AAA
1 AAA
9518116 CCTACCCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 3 0.09
11 27 0.82
12 3 0.09
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:9518085 original size:13 final size:13
Alignment explanation
Indices: 9518069--9518115 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
9518059 AACCTAACCC
9518069 AAAAAAAAAGAAAA
1 AAAAAAAAAG-AAA
9518083 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
9518096 AAAAGAAAAGAAA
1 AAAAAAAAAGAAA
9518109 AAGAAAA
1 AA-AAAA
9518116 CCTACCCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:9518086 original size:14 final size:14
Alignment explanation
Indices: 9518069--9518115 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
9518059 AACCTAACCC
9518069 AAAAAAAAAGAAAA
1 AAAAAAAAAGAAAA
9518083 AAAAAAAAAG-AAA
1 AAAAAAAAAGAAAA
*
9518096 AAAAGAAAAGAAAA
1 AAAAAAAAAGAAAA
9518110 AGAAAA
1 A-AAAA
9518116 CCTACCCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 14 0.48
15 3 0.10
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAA
Found at i:9518131 original size:16 final size:18
Alignment explanation
Indices: 9518107--9518150 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9518097 AAAGAAAAGA
9518107 AAAAGAAAACCT-A-CCCC
1 AAAA-AAAACCTAACCCCC
9518124 AAAAAAAACCTAACCCCCC
1 AAAAAAAACCTAA-CCCCC
9518143 AAAAAAAA
1 AAAAAAAA
9518151 AGAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
19 12 0.50
ACGTcount: A:0.61, C:0.32, G:0.02, T:0.05
Consensus pattern (18 bp):
AAAAAAAACCTAACCCCC
Found at i:9519601 original size:194 final size:194
Alignment explanation
Indices: 9519271--9519658 Score: 742
Period size: 194 Copynumber: 2.0 Consensus size: 194
9519261 GCAATCCTGG
9519271 TATCACCAGACAGGAATCATTATCCGTTTACTGCAAGACTGAACTTCTTCTGTACCAATAATATC
1 TATCACCAGACAGGAATCATTATCCGTTTACTGCAAGACTGAACTTCTTCTGTACCAATAATATC
9519336 TCAGAATATGAGGCCTGTATCATCGGGCTTCGTGCAGCTATCGAACGAAACATCAAGATCTTGGA
66 TCAGAATATGAGGCCTGTATCATCGGGCTTCGTGCAGCTATCGAACGAAACATCAAGATCTTGGA
9519401 GTGTACGGGGACTCAGCCCTAGTGATTTACCAAATCCGTGGAGAATGAGAAGTGAGGGACTTAA
131 GTGTACGGGGACTCAGCCCTAGTGATTTACCAAATCCGTGGAGAATGAGAAGTGAGGGACTTAA
*
9519465 TATCACCAGACGGGAATCATTATCCGTTTACTGCAAGACTGAACTTCTTCTGTACCAATAATATC
1 TATCACCAGACAGGAATCATTATCCGTTTACTGCAAGACTGAACTTCTTCTGTACCAATAATATC
9519530 TCAGAATATGAGGCCTGTATCATCGGGCTTCGTGCAGCTATCGAACGAAACATCAAGATC-TGGA
66 TCAGAATATGAGGCCTGTATCATCGGGCTTCGTGCAGCTATCGAACGAAACATCAAGATCTTGGA
*
9519594 GGTGTACGGGGATTCAGCCCTAGTGATTTACCAAATCCGTGGAGAATGAGAAGTGAGGGACTTAA
131 -GTGTACGGGGACTCAGCCCTAGTGATTTACCAAATCCGTGGAGAATGAGAAGTGAGGGACTTAA
9519659 AATTGATTAA
Statistics
Matches: 191, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
193 4 0.02
194 187 0.98
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (194 bp):
TATCACCAGACAGGAATCATTATCCGTTTACTGCAAGACTGAACTTCTTCTGTACCAATAATATC
TCAGAATATGAGGCCTGTATCATCGGGCTTCGTGCAGCTATCGAACGAAACATCAAGATCTTGGA
GTGTACGGGGACTCAGCCCTAGTGATTTACCAAATCCGTGGAGAATGAGAAGTGAGGGACTTAA
Found at i:9522304 original size:70 final size:68
Alignment explanation
Indices: 9522187--9522447 Score: 303
Period size: 69 Copynumber: 3.8 Consensus size: 68
9522177 TGAGTTAAGC
*
9522187 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTC-GGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCT
9522250 GAGGTA
63 GAGGTA
* * * *
9522256 TTTTCAATTTTTGTGTTTTAATCAACTCAATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
1 TTTT-AATTTTTGT-TTTAAATCAACTC-ATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCT
9522321 GAGGTA
63 GAGGTA
* *
9522327 TTTTAATTTTTGTTTCAAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTT-TAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAGGGCACGCTG
9522391 AGGTA
64 AGGTA
* * ** * *
9522396 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 -TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
9522448 TTTAATTTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
68 10 0.06
69 80 0.48
70 59 0.36
71 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (68 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGCTGAG
GTA
Found at i:9522440 original size:138 final size:136
Alignment explanation
Indices: 9522187--9522860 Score: 485
Period size: 140 Copynumber: 4.9 Consensus size: 136
9522177 TGAGTTAAGC
9522187 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCAGAGGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTTAATTTTTG--TTTCAAAATCAACTCATATTGCAGAGGTGAGTTGAGCCTCGGGGCACGCTG
* * * *
9522251 AGGTATTTTCAATTTTTGTGTTTTAATCAACTCAATATTGCGAGAGATGAGTTGAGCCTCAAGAC
64 AGGTATTTTCAATTTATGT-TTTAAATTAACTC-ATATTGCGAGAGGTGAGTTGAGCCTCAAG-C
9522316 ACGTTGAGGTA
126 ACGTTGAGGTA
*
9522327 TTTTAATTTTTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTAATTTTTGTTTCAAAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGGCACGCTGA
* * * *
9522392 GGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAG-T-----T-AAGC-CTT
65 GGTATTTTCAATTTATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACGT
*
9522449 TTA---A
130 TGAGGTA
*
9522453 TTTT--TTGTT-TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTAATTTTTGTTTCAAAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGGCACGCTGA
* * * *
9522515 GGTATTTTCGATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
65 GGTATTTTC-A-ATTTATGTTTTAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-C
*
9522580 ACGCTGAGGTA
126 ACGTTGAGGTA
9522591 TTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGT-AGGTTG
1 TTTT-AA--------TT---TTT--G-T-TTCAA-AATCAACTCATATTGC-AGAGGTGA-GTTG
** * * * ** *
9522655 A----------AC-CT--TTTAATTTCTACTT-T-TTCAAAATCAACTCATATTGCGAGAGGTGA
47 AGCCTCGGGGCACGCTGAGGTATTTTCAATTTATGTTTTAAATTAACTCATATTGCGAGAGGTGA
* *
9522705 GTTGAGCCTCAGGACACGCTGAGGTAA
112 GTTGAGCCTCAAG-CACGTTGAGGT-A
* *
9522732 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTTTGTT-TC---AAAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCGGGGCACG
* * *
9522797 CTGAGGTA-TTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCA
61 CTGAGGTATTTTCAA--TTTATGTTTTAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCA
9522861 GGTCACACGC
Statistics
Matches: 424, Mismatches: 48, Indels: 119
0.72 0.08 0.20
Matches are distributed among these distances:
123 59 0.14
124 5 0.01
125 14 0.03
126 29 0.07
127 2 0.00
128 27 0.06
129 9 0.02
130 1 0.00
131 3 0.01
132 4 0.01
133 2 0.00
134 1 0.00
135 3 0.01
137 1 0.00
138 45 0.11
139 29 0.07
140 90 0.21
141 11 0.03
142 3 0.01
143 3 0.01
144 5 0.01
145 36 0.08
147 2 0.00
148 2 0.00
149 2 0.00
152 2 0.00
156 1 0.00
157 6 0.01
158 27 0.06
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (136 bp):
TTTTAATTTTTGTTTCAAAATCAACTCATATTGCAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
GTATTTTCAATTTATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACGTT
GAGGTA
Found at i:9522493 original size:123 final size:123
Alignment explanation
Indices: 9522336--9522573 Score: 361
Period size: 123 Copynumber: 1.9 Consensus size: 123
9522326 ATTTTAATTT
9522336 TTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
1 TTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
*
9522401 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTG
66 A-TTTATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTG
* *
9522460 TT-TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
1 TTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT-
* * * *
9522524 GATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 --TATTTATGTTTTAAATT-AACTCATATTGCGAGAGGTGAGTTAAGCCT
9522574 CAGGTCACGC
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
123 59 0.57
124 2 0.02
125 13 0.13
126 29 0.28
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (123 bp):
TTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTT
ATTTATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTG
Found at i:9522563 original size:72 final size:72
Alignment explanation
Indices: 9522470--9522887 Score: 291
Period size: 72 Copynumber: 5.8 Consensus size: 72
9522460 TTTTTCAAAA
* *
9522470 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCGATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
9522535 TTTAATT
66 TTTAATT
* * *
9522542 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT-T
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
*
9522606 TTCAATT
66 TTTAATT
* * * * ** * *** * * * ***
9522613 T--ACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTAGGTTGA-ACCTTTT-AATTTCT
1 TCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCACGCTGAGGTATTTTCAATTT-T
** **
9522670 ACT-TTTTCAAAA
61 TGTGTTTT-AATT
* * * *
9522682 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TG
*** **
9522747 TCAAAAAAA
65 T-TTTAATT
* *
9522756 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTCAATTTTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
9522820 TTTAATT
66 TTTAATT
* * ** *
9522827 TCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAATTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCACGCTGAGGTATTTTCAATTT
9522888 CCGTTTTTCA
Statistics
Matches: 256, Mismatches: 70, Indels: 38
0.70 0.19 0.10
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 12 0.05
69 11 0.04
70 2 0.01
71 48 0.19
72 70 0.27
73 33 0.13
74 65 0.25
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
TTTAATT
Found at i:9522859 original size:71 final size:74
Alignment explanation
Indices: 9522678--9522888 Score: 268
Period size: 74 Copynumber: 2.9 Consensus size: 74
9522668 CTACTTTTTC
*
9522678 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
9522743 GTTGTCAAA
66 GTTGTCAAA
* *
9522752 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
***
9522815 -TATGT-TTT
66 GT-TGTCAAA
** * * *
9522823 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTAATTTCAATTT
9522888 C
64 C
9522889 CGTTTTTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
71 33 0.28
72 6 0.05
73 21 0.18
74 59 0.50
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAA
Found at i:9522898 original size:14 final size:14
Alignment explanation
Indices: 9522879--9522912 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9522869 GCTGAGGTAA
*
9522879 TTTCAATTTCCGTT
1 TTTCAATTTCCGTC
*
9522893 TTTCAATTTCTGTC
1 TTTCAATTTCCGTC
9522907 TTTCAA
1 TTTCAA
9522913 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCCGTC
Found at i:9523017 original size:73 final size:76
Alignment explanation
Indices: 9522893--9523053 Score: 211
Period size: 73 Copynumber: 2.1 Consensus size: 76
9522883 AATTTCCGTT
* *
9522893 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTC-AAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCAC
*
9522957 ACGCTGAGGTAA
65 ACGCCGAGGTAA
* * * *
9522969 TTTCAATTTCTGT-TGTC-AAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAT
1 TTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG-CAC
*
9523032 ACGCCGAGGTAT
65 ACGCCGAGGTAA
9523044 TTTCAATTTC
1 TTTCAATTTC
9523054 CGTTTTTCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 38 0.51
75 24 0.32
76 13 0.17
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACA
CGCCGAGGTAA
Found at i:9523110 original size:164 final size:164
Alignment explanation
Indices: 9522732--9523385 Score: 807
Period size: 165 Copynumber: 4.0 Consensus size: 164
9522722 GCTGAGGTAA
* * * *
9522732 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*** **
9522795 CGCTGAGGT-ATTTCAATTTT-TATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTGT-TGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* *
9522858 TCAGGTCACACGCTGAGGTAATTTCAATTTCCGTT
130 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
9522893 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
9522958 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTT-TGTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCC
*
9523023 TCAGGTCATACGCCGAGGTATTTTCAATTTCCGTT
130 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
* *
9523058 TTTCAATTTTTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
9523122 CGCTGAGGTAATTTTCAATTTCTATTGTCAAAAAAAGTCAACTC-TATTACGAGAGGTGAGTTGA
66 CGCTGAGGTAA-TTTCAATTT-TGTTGTC-AAAAAA-TCAACTCGTATTGCGAGAGGCGAGTTGA
* * *
9523186 GCCTCAGATCACA-GTCGAGGTATTTTCAATTT-CATT
127 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
9523222 TTTCAATTTCTGTCTTTCAAAAAAAAAAATCAACTCATATTAG-GAGA-GTGAGTTGAGCCTTCG
1 TTTCAATTTCTGTCTTTC---AAAAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCC-TCA
* * * ***
9523285 GGACACGCTGAGGTAATTTCAA-TTTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTG
61 GGACACGCTGAGGTAATTTCAATTTTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTG
* ** *
9523348 AGCCTCAAG--ACACGTTGAGGTA-TTTCAATTTCTGTT
126 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
9523384 TT
1 TT
9523386 CAAAAAATCA
Statistics
Matches: 437, Mismatches: 39, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
161 25 0.06
162 22 0.05
163 78 0.18
164 85 0.19
165 123 0.28
166 37 0.08
167 25 0.06
168 41 0.09
169 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (164 bp):
TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
CAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:9523184 original size:75 final size:75
Alignment explanation
Indices: 9523074--9523218 Score: 217
Period size: 75 Copynumber: 1.9 Consensus size: 75
9523064 TTTTTGCCTT
*
9523074 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC-G-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCA-GATCACAGTC-GAGGT-ATTT
9523136 TCAATTTCTATTG
63 TCAATTTCTATTG
9523149 TCAAAAAAAGTCAACTC-TATTACGAGAGGTGAGTTGAGCCTCAGATCACAGTCGAGGTATTTTC
1 TCAAAAAAA-TCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACAGTCGAGGTATTTTC
9523213 AATTTC
65 AATTTC
9523219 ATTTTTCAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
74 2 0.03
75 49 0.75
76 13 0.20
77 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (75 bp):
TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACAGTCGAGGTATTTTCA
ATTTCTATTG
Found at i:9523360 original size:70 final size:73
Alignment explanation
Indices: 9523245--9523578 Score: 306
Period size: 75 Copynumber: 4.5 Consensus size: 73
9523235 CTTTCAAAAA
**
9523245 AAAAAATCAACTCATATTAG-GAG-AGTGAGTTGAGCCTTCGGGACACGCTGAGGTAATTTCAA-
1 AAAAAATCAACTCATATT-GCGAGAAGTGAGTTGAGCC-TCAAGACACGCTGAGGTAATTTCAAT
9523307 TT-TGTTTTC
64 TTCTGTTTTC
* * *
9523316 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
9523379 CTGTTTTC
66 CTGTTTTC
* * * ** * * *
9523387 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG-ACA--CGCTGAGGTAATTTCAA
*
9523451 -TTCTATCTTTC
63 TTTCTGT-TTTC
* * * * *
9523462 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA--ATTTCA
* *
9523527 ATTTATATTTTTC
62 ATTTCT-GTTTTC
* *
9523540 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
9523579 GGGTTACATG
Statistics
Matches: 215, Mismatches: 31, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
69 8 0.04
70 35 0.16
71 20 0.09
72 34 0.16
74 12 0.06
75 53 0.25
77 9 0.04
78 43 0.20
79 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
CTGTTTTC
Found at i:9523569 original size:78 final size:76
Alignment explanation
Indices: 9523245--9523944 Score: 368
Period size: 86 Copynumber: 9.0 Consensus size: 76
9523235 CTTTCAAAAA
** *
9523245 AAAAAATCAACTCATATTAG-GAGA-GTGAGTTGAGCCTTC-G-GGACACGCTGAGGTAATTTCA
1 AAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAG-CTTCAGATCACACGCTGAGGTATTTTCA
*
9523306 A-TT-T-GTTTTC
64 ATTTCTATTTTTC
* ** * * *
9523316 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTA-TTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCTGAGGTATTTTCAAT
*
9523377 TTCT-GTTTTC
66 TTCTATTTTTC
* * * * ** *
9523387 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTT-GGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-GCTTCAGATCACACGCTGAGGTATTTTCAA
*
9523451 -TTCTATCTTTC
65 TTTCTATTTTTC
*
9523462 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCTGAGGTA--TTTTCA
*
9523527 ATTTATATTTTTC
64 ATTTCTATTTTTC
* * * * * * *
9523540 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCT-GAGGTATTTTC-A
* *
9523604 ATCTGTTTTTCAATTCTGTTTT
64 A------TTTCTA-T-T-TTTC
* * * * ** *
9523626 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACGCTGAGGTATTTTCAA
*
9523690 TTTCTGTTTTTTTTC
65 TTTC---TATTTTTC
* * * * *
9523705 AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTA-ATTCTGCGAGAGTTGAGTTAGC
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-TTCAGA-TC-AC-A-CGCTGAGGTA--
*
9523769 TTTT-AATTTCT-GTTTTC
58 TTTTCAATTTCTATTTTTC
* * **
9523786 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATCACACGCT-GAGGTATTTTC-
* *
9523847 AATCTGCTTTCAAGTTAAGTTTT
63 AA-----TTTCTA-TT---TTTC
* * * *
9523870 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACGCTGAGGTATTTTCAA
*
9523934 TTTCTGTTTTT
65 TTTCTATTTTT
9523945 AATGTCTGTT
Statistics
Matches: 488, Mismatches: 80, Indels: 117
0.71 0.12 0.17
Matches are distributed among these distances:
69 7 0.01
70 38 0.08
71 16 0.03
72 33 0.07
73 3 0.01
74 23 0.05
75 56 0.11
76 9 0.02
77 12 0.02
78 85 0.17
79 25 0.05
80 35 0.07
81 9 0.02
82 2 0.00
83 4 0.01
84 11 0.02
85 13 0.03
86 103 0.21
87 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCTGAGGTATTTTCAAT
TTCTATTTTTC
Found at i:9523615 original size:153 final size:145
Alignment explanation
Indices: 9523245--9523616 Score: 380
Period size: 153 Copynumber: 2.5 Consensus size: 145
9523235 CTTTCAAAAA
* *
9523245 AAAAAATCAACTCATATTAG-GAGAGTGAGTTGAGCCTTCGGG-ACACGCTGAGGTAATTTC-AA
1 AAAAAATCAACTCATATT-GCGAGAGTGAGTTGAGCC-TCGGGTACATGCTGAGGTATTTTCAAA
* * * **
9523307 TTTG-TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
64 TCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTA
*
9523370 TTTCAATTTCTGTTTTC
129 TTTCAATTTATGTTTTC
* * * * *
9523387 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCT-CATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGGTACAT--GCTGAGGTATTTTCAA
* * * ** *
9523451 TTCTATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAG
63 ATCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTGAG
*
9523516 GTATTTTTTCAATTTATATTTTTC
126 GTA---TTTCAATTTAT-GTTTTC
*
9523540 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGG-TACATGCT-GAGGTATTTTCAA
9523604 ATCTGTTTTTCAA
63 ATCTGTTTTTCAA
9523617 TTCTGTTTTT
Statistics
Matches: 183, Mismatches: 30, Indels: 23
0.78 0.13 0.10
Matches are distributed among these distances:
141 1 0.01
142 26 0.14
143 11 0.06
144 12 0.07
145 3 0.02
146 4 0.02
147 35 0.19
148 1 0.01
149 11 0.06
152 11 0.06
153 64 0.35
154 1 0.01
155 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (145 bp):
AAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAAATC
TGTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATT
TCAATTTATGTTTTC
Found at i:9523625 original size:12 final size:13
Alignment explanation
Indices: 9523597--9523626 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9523587 TGTCGAGGTA
9523597 TTTTCAAATCTGT
1 TTTTCAAATCTGT
*
9523610 TTTTCAATTCTGT
1 TTTTCAAATCTGT
9523623 TTTT
1 TTTT
9523627 AAAAATCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.13, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTCAAATCTGT
Found at i:9523780 original size:28 final size:28
Alignment explanation
Indices: 9523723--9523776 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
9523713 CAACTCATAT
9523723 TGCGAGAGGTGAGTTGAGCTTTTAATTC
1 TGCGAGAGGTGAGTTGAGCTTTTAATTC
*
9523751 TGCGAGAGTTGAGTT-AGCTTTTAATT
1 TGCGAGAGGTGAGTTGAGCTTTTAATT
9523777 TCTGTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.22, C:0.09, G:0.30, T:0.39
Consensus pattern (28 bp):
TGCGAGAGGTGAGTTGAGCTTTTAATTC
Found at i:9523815 original size:244 final size:242
Alignment explanation
Indices: 9523370--9523944 Score: 754
Period size: 244 Copynumber: 2.4 Consensus size: 242
9523360 CGTTGAGGTA
* * * *
9523370 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGC
1 TTTCAAGTTCTGTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
* *
9523435 GCTGAGCTATTTTCAA-TTC---TATCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
9523496 GCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
130 GCTTCAGATCACACACTGAGGTAGCTTTTCAATTTATAGTTTTC-AAAAATCAACTCACATTGCG
* * ** * * *
9523561 AGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAATCTGTT
194 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAATCTG-C
* * *
9523611 TTTCAA-TTCTGTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG
1 TTTCAAGTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG
9523675 CTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGA
66 CTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGA
* * * * * * *
9523740 GCTTTTA-ATTCTGCGAGAGTTGAGTTAGCTTTT-AATTTCT-GTTTTC-AAAATCAACTCATAT
130 GC-TTCAGA-TC-AC-ACA-CTGAGGTAGCTTTTCAATTTATAGTTTTCAAAAATCAACTCACAT
9523801 TGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAATCTGC
190 TGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAATCTGC
**
9523854 TTTCAAGTTAAGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG
1 TTTCAAGTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG
9523919 CTGAGCTATTTTCAATTTCTGTTTTT
66 CTGAGCTATTTTCAATTTCTGTTTTT
9523945 AATGTCTGTT
Statistics
Matches: 293, Mismatches: 30, Indels: 19
0.86 0.09 0.06
Matches are distributed among these distances:
239 58 0.20
240 12 0.04
241 6 0.02
243 18 0.06
244 170 0.58
245 5 0.02
246 6 0.02
247 8 0.03
248 10 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (242 bp):
TTTCAAGTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG
CTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CTTCAGATCACACACTGAGGTAGCTTTTCAATTTATAGTTTTCAAAAATCAACTCACATTGCGAG
AGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAATCTGC
Found at i:9530371 original size:40 final size:40
Alignment explanation
Indices: 9530305--9530455 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
9530295 AAATTGAATG
* * *
9530305 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
9530344 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
9530384 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
9530424 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
9530456 ACGTTATTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:9532602 original size:39 final size:39
Alignment explanation
Indices: 9532543--9532786 Score: 272
Period size: 39 Copynumber: 6.2 Consensus size: 39
9532533 ATTAGAAATA
* * *
9532543 CGGTGATTATTCGAGATATGTGCATAGCAGGCTATGTGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
* * *
9532582 CGATGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
* ** * * * *
9532621 CAGTGATTATTCCTGCTATGTCCCTAGCAAGATATGTGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
* * * * *
9532660 CGGTAATTATTCGGGCTATATGCCTAGCAAGCTGTGCGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
* ** *
9532699 CGGTGATTATTCAAGCTATGTGCCTAATAGGCGGTGTGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
*
9532738 CGGTGATTATTCGAGCTTTGTGCCTAGCAGGCTGTGTGC
1 CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
9532777 CGGTGTATTA
1 CGGTG-ATTA
9532787 AAAATTTACA
Statistics
Matches: 166, Mismatches: 38, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
39 162 0.98
40 4 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (39 bp):
CGGTGATTATTCGAGCTATGTGCCTAGCAGGCTGTGTGC
Found at i:9535296 original size:26 final size:25
Alignment explanation
Indices: 9535242--9535298 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
9535232 TAGCTGATTG
* *
9535242 GTTTGGCATAGTAGCCAAAATATTA
1 GTTTTGCATAGTAGCCAAAATAGTA
*
9535267 GTTTTGCA-AGTAGCCAAACTAGGTA
1 GTTTTGCATAGTAGCCAAAATA-GTA
9535292 CGTTTTG
1 -GTTTTG
9535299 AGCCTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.44
25 9 0.33
26 6 0.22
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (25 bp):
GTTTTGCATAGTAGCCAAAATAGTA
Found at i:9540273 original size:20 final size:21
Alignment explanation
Indices: 9540250--9540289 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9540240 AACTAAGTAA
9540250 AATTAACCTAAT-TAAACATT
1 AATTAACCTAATATAAACATT
**
9540270 AATTAATTTAATATAAACAT
1 AATTAACCTAATATAAACAT
9540290 GATTAACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTAACCTAATATAAACATT
Found at i:9550970 original size:20 final size:20
Alignment explanation
Indices: 9550922--9550971 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
9550912 TGGAGTAGGA
*
9550922 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
* *
9550942 ATATTGATACCTTAAGATAT
1 ATATCGATACCTTAAGAAAT
*
9550962 GTATCGATAC
1 ATATCGATAC
9550972 TGGATCGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:9551339 original size:32 final size:33
Alignment explanation
Indices: 9551302--9551366 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
9551292 TAAATATATT
* * * *
9551302 GCTCCCCTTA-ATAAAATTCCTTTTGAATTTAA
1 GCTCCCCCTATATAAAAATCATTTTCAATTTAA
9551334 GCTCCCCCTATATAAAAATCATTTTCAATTTAA
1 GCTCCCCCTATATAAAAATCATTTTCAATTTAA
9551367 AGCATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (33 bp):
GCTCCCCCTATATAAAAATCATTTTCAATTTAA
Found at i:9553002 original size:51 final size:49
Alignment explanation
Indices: 9552882--9553025 Score: 173
Period size: 51 Copynumber: 2.9 Consensus size: 49
9552872 TATTGTGAGG
* * * * * *
9552882 TCACGTGTGTAGTACTAAGTACAGACTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
* * *
9552931 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GA
9552982 TCACGTGTGTAGTACTAAGTGCTA-GCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGC-AGGCTACTATGCGTACCAGATA
9553026 GCTTTGGCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
49 38 0.47
50 2 0.02
51 40 0.49
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGA
Found at i:9555022 original size:12 final size:12
Alignment explanation
Indices: 9555005--9555029 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9554995 TCATAGCAAA
9555005 TAATAGGATCTT
1 TAATAGGATCTT
9555017 TAATAGGATCTT
1 TAATAGGATCTT
9555029 T
1 T
9555030 CTCCTTGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TAATAGGATCTT
Found at i:9556278 original size:36 final size:38
Alignment explanation
Indices: 9556199--9556278 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 38
9556189 AGGTTTAACC
* *
9556199 TTACAATCTCTCTTAAGATTTATGCCTCAAATCTTAAG
1 TTACAATCTCTCTTAAGATTTATACCTCAAACCTTAAG
* * *
9556237 ATACAA-CTCTCTTAAGGTTTCTACC-CAAACCTTAAG
1 TTACAATCTCTCTTAAGATTTATACCTCAAACCTTAAG
9556273 TTACAA
1 TTACAA
9556279 ACCCTCTCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
36 15 0.42
37 16 0.44
38 5 0.14
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (38 bp):
TTACAATCTCTCTTAAGATTTATACCTCAAACCTTAAG
Found at i:9558448 original size:7 final size:7
Alignment explanation
Indices: 9558438--9558474 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
9558428 AATGATGAAT
9558438 GATGAGG
1 GATGAGG
9558445 GATGAGG
1 GATGAGG
9558452 GATGAGG
1 GATGAGG
*
9558459 GATGATG
1 GATGAGG
*
9558466 AATGAGG
1 GATGAGG
9558473 GA
1 GA
9558475 ATGAAGGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (7 bp):
GATGAGG
Found at i:9560139 original size:68 final size:68
Alignment explanation
Indices: 9560062--9560188 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
9560052 TTTTAATAGT
*
9560062 TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTT-ATTA-ATTTAATATTAAAAAGA
1 TTAATATTAAATTTAATTTAATACTTATC-T-ATAGTATTTTAATAAGATTTAATATTAAAAAGA
9560125 TTATC
64 TTATC
** *
9560130 TTAATATTAAATTTAATTTAATGTTTATCTATATTATTTTAATAAGATTTAATATTAAA
1 TTAATATTAAATTTAATTTAATACTTATCTATAGTATTTTAATAAGATTTAATATTAAA
9560189 TTTAATCTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
66 9 0.17
67 4 0.08
68 40 0.75
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATACTTATCTATAGTATTTTAATAAGATTTAATATTAAAAAGATT
ATC
Found at i:9560782 original size:21 final size:21
Alignment explanation
Indices: 9560756--9560798 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9560746 CATTCTCGAG
9560756 TTCGAAGGTACGTGGGAACGA
1 TTCGAAGGTACGTGGGAACGA
9560777 TTCGAAGGTACGTGGGAACGA
1 TTCGAAGGTACGTGGGAACGA
9560798 T
1 T
9560799 ACTTACCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.37, T:0.21
Consensus pattern (21 bp):
TTCGAAGGTACGTGGGAACGA
Found at i:9561086 original size:20 final size:20
Alignment explanation
Indices: 9561061--9561101 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9561051 GATCGGGGAA
*
9561061 AAAGTATTTTTGAAAGTCTC
1 AAAGTATTTTTAAAAGTCTC
9561081 AAAGTATTTTTAAAAGTCTC
1 AAAGTATTTTTAAAAGTCTC
9561101 A
1 A
9561102 CTGTGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAGTATTTTTAAAAGTCTC
Found at i:9562796 original size:45 final size:45
Alignment explanation
Indices: 9562732--9562898 Score: 226
Period size: 45 Copynumber: 3.7 Consensus size: 45
9562722 AGGATCATGT
* *
9562732 TATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATTGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGATA
* * * *
9562777 TATGTGTTTTCGTGTAAGACCACGTTTGGTACGTTGGTACTGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGATA
* *
9562822 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGATA
* * * *
9562867 TATGTGGTTACGAGTAAGACCATGTCTGGGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGAC
9562899 ATCGGCATCA
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 106 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATTGATA
Found at i:9562899 original size:45 final size:45
Alignment explanation
Indices: 9562732--9562953 Score: 222
Period size: 45 Copynumber: 5.0 Consensus size: 45
9562722 AGGATCATGT
** * * *
9562732 TATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATTGATA
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * * * *
9562777 TATGTGTTTTCGTGTAAGACCACGTTTGGTACGTTGGTA-CTGATA
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATC-GATA
*
9562822 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATA
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * * *
9562867 TATGTGGTTACGAGTAAGACCATGTCTGGGACATCGGCATC-ATA
1 TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * *
9562911 T-T-TGATTA-GTGTAAGTCC-CTGTCTGGGACAGTGGCATCGATA
1 TATGTGTTTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGATA
9562953 T
1 T
9562954 GAGATAGCAT
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
41 24 0.16
42 9 0.06
43 1 0.01
44 4 0.03
45 113 0.74
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (45 bp):
TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
Found at i:9571835 original size:68 final size:68
Alignment explanation
Indices: 9571755--9571900 Score: 283
Period size: 68 Copynumber: 2.1 Consensus size: 68
9571745 TCTTTCTATT
*
9571755 TATTTTACTTAGTTAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAAATATTTTTCTTCACCA
1 TATTTTAATTAGTTAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAAATATTTTTCTTCACCA
9571820 AAG
66 AAG
9571823 TATTTTAATTAGTTAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAAATATTTTTCTTCACCA
1 TATTTTAATTAGTTAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAAATATTTTTCTTCACCA
9571888 AAG
66 AAG
9571891 TATTTTAATT
1 TATTTTAATT
9571901 TGCATTCATA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (68 bp):
TATTTTAATTAGTTAAAATCTTAGTTTTTAATCACCTCCTCAAATCAAAATATTTTTCTTCACCA
AAG
Found at i:9575995 original size:8 final size:8
Alignment explanation
Indices: 9575982--9576050 Score: 60
Period size: 7 Copynumber: 9.4 Consensus size: 8
9575972 GTTAAAATAT
9575982 ATATTATA
1 ATATTATA
9575990 ATATTATA
1 ATATTATA
9575998 ATATTATA
1 ATATTATA
*
9576006 ATCTTA-A
1 ATATTATA
*
9576013 ATCTTA-A
1 ATATTATA
*
9576020 TTATTA-A
1 ATATTATA
*
9576027 GTA-TAT-
1 ATATTATA
9576033 ATATTAT-
1 ATATTATA
9576040 ATATTATA
1 ATATTATA
9576048 ATA
1 ATA
9576051 AGTAAATCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
6 4 0.08
7 25 0.47
8 24 0.45
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (8 bp):
ATATTATA
Found at i:9576003 original size:16 final size:15
Alignment explanation
Indices: 9575982--9576050 Score: 63
Period size: 16 Copynumber: 4.7 Consensus size: 15
9575972 GTTAAAATAT
9575982 ATATTATAATATTATA
1 ATATTATAATATTA-A
*
9575998 ATATTATAATCTTAA
1 ATATTATAATATTAA
* *
9576013 ATCTTA-ATTATTAA
1 ATATTATAATATTAA
* *
9576027 GTA-TAT-ATATTAT
1 ATATTATAATATTAA
9576040 ATATTATAATA
1 ATATTATAATA
9576051 AGTAAATCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
13 9 0.22
14 10 0.24
15 9 0.22
16 13 0.32
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (15 bp):
ATATTATAATATTAA
Found at i:9576083 original size:4 final size:4
Alignment explanation
Indices: 9576076--9576147 Score: 78
Period size: 4 Copynumber: 18.0 Consensus size: 4
9576066 TAATTAATAA
* *
9576076 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AGACG AAACAG AAAG -AAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A-AAG -AA-AG AAAG AAAG AAAG
9576126 AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG
9576148 GAGAAAGACA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
3 7 0.12
4 45 0.78
5 4 0.07
6 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.25, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:9578608 original size:16 final size:16
Alignment explanation
Indices: 9578584--9578615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9578574 CTCAACCAAA
*
9578584 TTTATATTTTAATTTT
1 TTTACATTTTAATTTT
9578600 TTTACATTTTAATTTT
1 TTTACATTTTAATTTT
9578616 ATTATTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTACATTTTAATTTT
Found at i:9582907 original size:17 final size:18
Alignment explanation
Indices: 9582865--9582911 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
9582855 TTTTAATTGA
*
9582865 ATAAATATAATTTTTATCT
1 ATAAATATGA-TTTTATCT
9582884 ATAAATATGATTTTAT-T
1 ATAAATATGATTTTATCT
*
9582901 TTAAATATGAT
1 ATAAATATGAT
9582912 AACATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
18 6 0.23
19 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
ATAAATATGATTTTATCT
Found at i:9590648 original size:16 final size:16
Alignment explanation
Indices: 9590629--9590661 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
9590619 TTTCATAGCC
9590629 TTTTCTTTCTTTTTCTT
1 TTTTCTTT-TTTTTCTT
9590646 TTTTCTTTTTTTTCTT
1 TTTTCTTTTTTTTCTT
9590662 CCTTTGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTTCTT
Found at i:9590666 original size:13 final size:13
Alignment explanation
Indices: 9590629--9590666 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
9590619 TTTCATAGCC
9590629 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
9590642 TCTTT-TTTCTTTT
1 T-TTTCTTTCTTTT
*
9590655 TTTTCTTCCTTT
1 TTTTCTTTCTTT
9590667 GCTTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:9590982 original size:15 final size:16
Alignment explanation
Indices: 9590962--9590993 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9590952 CTAAGGTATT
9590962 AAATA-TTTTTATACA
1 AAATATTTTTTATACA
9590977 AAATATTTTTTATACA
1 AAATATTTTTTATACA
9590993 A
1 A
9590994 TATTAGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATTTTTTATACA
Found at i:9594875 original size:2 final size:2
Alignment explanation
Indices: 9594868--9594909 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9594858 GCATGTATTT
9594868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9594910 CTTCTGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9595709 original size:13 final size:14
Alignment explanation
Indices: 9595667--9595711 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
9595657 TAATAATGAT
9595667 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
9595682 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
9595695 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
9595708 TAAA
1 TAAA
9595712 ATAAAAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:9595745 original size:12 final size:12
Alignment explanation
Indices: 9595728--9595760 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9595718 GACAGAAATA
9595728 AAAGAAAGAAA-G
1 AAAGAAA-AAAGG
9595740 AAAGAAAAAAGG
1 AAAGAAAAAAGG
9595752 AAAGAAAAA
1 AAAGAAAAA
9595761 GAAAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGG
Found at i:9595756 original size:16 final size:15
Alignment explanation
Indices: 9595721--9595770 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
9595711 AATAAAAGAC
*
9595721 AGAAATAAAAGAAAGAA
1 AGAAA-AAAA-AAGGAA
9595738 AGAAAGAAAAAAGGAA
1 AGAAA-AAAAAAGGAA
9595754 AGAAAAAGAAAAGGAA
1 AGAAAAA-AAAAGGAA
9595770 A
1 A
9595771 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 2 0.07
16 19 0.63
17 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AGAAAAAAAAAGGAA
Found at i:9597632 original size:20 final size:20
Alignment explanation
Indices: 9597607--9597660 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
9597597 GCCCCACGGG
*
9597607 CAGGCCACACGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
9597627 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
9597647 CAAGCCACATGGGC
1 CAGGCCACATGGGC
9597661 GTGTGCCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (20 bp):
CAGGCCACATGGGCATGTTC
Found at i:9602826 original size:20 final size:20
Alignment explanation
Indices: 9602779--9602826 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
9602769 CTAGTAGTGT
9602779 AGTTAATTAGACTTTGATTA
1 AGTTAATTAGACTTTGATTA
*
9602799 AGTGAATTAG-C-TTGAATTA
1 AGTTAATTAGACTTTG-ATTA
9602818 AGGTTAATT
1 A-GTTAATT
9602827 TAGTGAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 6 0.25
20 15 0.62
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (20 bp):
AGTTAATTAGACTTTGATTA
Found at i:9604999 original size:20 final size:20
Alignment explanation
Indices: 9604974--9605027 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
9604964 GCCCCACGGG
9604974 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
*
9604994 CAGGCCACATGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
9605014 CAGGCCACACGGGC
1 CAGGCCACACGGGC
9605028 GTGTGCCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.31, T:0.13
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:9607855 original size:20 final size:21
Alignment explanation
Indices: 9607832--9607871 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9607822 AAAAAATGTA
9607832 AAAAAAAATTT-AAAAAAAAG
1 AAAAAAAATTTGAAAAAAAAG
*
9607852 AAAAAATATTTGAAAAAAAA
1 AAAAAAAATTTGAAAAAAAA
9607872 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAAAATTTGAAAAAAAAG
Done.