Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 117 of 213
Found at i:33465592 original size:4 final size:4
Alignment explanation
Indices: 33465583--33465609 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33465573 TAATAATGAG
33465583 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
33465610 CTAAGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:33468093 original size:7 final size:7
Alignment explanation
Indices: 33468081--33468122 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
33468071 ATGTGAATTT
33468081 GATATTA
1 GATATTA
33468088 GATATTA
1 GATATTA
*
33468095 GATATTT
1 GATATTA
*
33468102 GGTATT-
1 GATATTA
33468108 GATATTA
1 GATATTA
33468115 GATATTA
1 GATATTA
33468122 G
1 G
33468123 GCTGTGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (7 bp):
GATATTA
Found at i:33468113 original size:20 final size:21
Alignment explanation
Indices: 33468077--33468120 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
33468067 TTTGATGTGA
33468077 ATTTGATATTAGATATTAGAT
1 ATTTGATATTAGATATTAGAT
*
33468098 ATTTGGTATT-GATATTAGAT
1 ATTTGATATTAGATATTAGAT
33468118 ATT
1 ATT
33468121 AGGCTGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
ATTTGATATTAGATATTAGAT
Found at i:33468477 original size:7 final size:7
Alignment explanation
Indices: 33468465--33468506 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
33468455 ATATGAATTT
33468465 GATATTA
1 GATATTA
33468472 GATATTA
1 GATATTA
*
33468479 GATATTT
1 GATATTA
*
33468486 GGTATT-
1 GATATTA
33468492 GATATTA
1 GATATTA
33468499 GATATTA
1 GATATTA
33468506 G
1 G
33468507 GGTTTAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (7 bp):
GATATTA
Found at i:33468497 original size:20 final size:21
Alignment explanation
Indices: 33468461--33468504 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
33468451 TTTGATATGA
33468461 ATTTGATATTAGATATTAGAT
1 ATTTGATATTAGATATTAGAT
*
33468482 ATTTGGTATT-GATATTAGAT
1 ATTTGATATTAGATATTAGAT
33468502 ATT
1 ATT
33468505 AGGGTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
ATTTGATATTAGATATTAGAT
Found at i:33468810 original size:9 final size:9
Alignment explanation
Indices: 33468780--33469167 Score: 248
Period size: 9 Copynumber: 46.2 Consensus size: 9
33468770 AACTTATTAA
*
33468780 TACATAACC
1 TACATAACT
33468789 TACATAA--
1 TACATAACT
*
33468796 GACATAACT
1 TACATAACT
*
33468805 TCCATAACT
1 TACATAACT
33468814 TACATAA--
1 TACATAACT
* *
33468821 TACAAAATT
1 TACATAACT
*
33468830 TATATAACT
1 TACATAACT
*
33468839 TATATAA--
1 TACATAACT
*
33468846 GAC--AACT
1 TACATAACT
*
33468853 TACATAATT
1 TACATAACT
*
33468862 TACTTAA--
1 TACATAACT
33468869 TACATAACT
1 TACATAACT
**
33468878 TACAT-GTT
1 TACATAACT
33468886 TACATAA--
1 TACATAACT
*
33468893 TATATAACT
1 TACATAACT
*
33468902 TACATAACC
1 TACATAACT
33468911 TACATAA--
1 TACATAACT
*
33468918 GACATAACT
1 TACATAACT
*
33468927 TCCATAACT
1 TACATAACT
*
33468936 TTCATAA--
1 TACATAACT
* *
33468943 TACACAATT
1 TACATAACT
33468952 TACATAACT
1 TACATAACT
*
33468961 TAAATAACT
1 TACATAACT
33468970 TACATAAC-
1 TACATAACT
*
33468978 T-CACAACT
1 TACATAACT
33468986 TACATAACT
1 TACATAACT
33468995 TACATAACT
1 TACATAACT
33469004 TACATAAC-
1 TACATAACT
*
33469012 T-CACAACT
1 TACATAACT
33469020 TACATAACT
1 TACATAACT
33469029 TA-ATTACACT
1 TACA-TA-ACT
*
33469039 ATACACAACT
1 -TACATAACT
* *
33469049 TACGTAACA
1 TACATAACT
33469058 TACATAA--
1 TACATAACT
33469065 TACATAACT
1 TACATAACT
33469074 TACATAACT
1 TACATAACT
33469083 TACATAA--
1 TACATAACT
33469090 TACATAACT
1 TACATAACT
33469099 TA-ATTTAA--
1 TACA--TAACT
*
33469107 TACACAACT
1 TACATAACT
*
33469116 TACATAGCT
1 TACATAACT
33469125 TACATAA--
1 TACATAACT
33469132 TACATAACT
1 TACATAACT
33469141 TACATAACT
1 TACATAACT
*
33469150 TATATAA--
1 TACATAACT
33469157 TACATAACT
1 TACATAACT
33469166 TA
1 TA
33469168 TATGATTTAC
Statistics
Matches: 296, Mismatches: 45, Indels: 76
0.71 0.11 0.18
Matches are distributed among these distances:
5 2 0.01
7 77 0.26
8 14 0.05
9 190 0.64
10 9 0.03
11 3 0.01
12 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:33468817 original size:25 final size:25
Alignment explanation
Indices: 33468780--33469188 Score: 334
Period size: 25 Copynumber: 16.9 Consensus size: 25
33468770 AACTTATTAA
* *
33468780 TACATAACCTACATAAGACATAACT
1 TACATAACTTACATAATACATAACT
* * *
33468805 TCCATAACTTACATAATACAAAATT
1 TACATAACTTACATAATACATAACT
* * *
33468830 TATATAACTTATATAAGAC--AACT
1 TACATAACTTACATAATACATAACT
* *
33468853 TACATAATTTACTTAATACATAACT
1 TACATAACTTACATAATACATAACT
** *
33468878 TACAT-GTTTACATAATATATAACT
1 TACATAACTTACATAATACATAACT
* *
33468902 TACATAACCTACATAAGACATAACT
1 TACATAACTTACATAATACATAACT
* * * *
33468927 TCCATAACTTTCATAATACACAATT
1 TACATAACTTACATAATACATAACT
*
33468952 TACATAACTTAAATAACTTACATAAC-
1 TACATAACTTACATAA--TACATAACT
*
33468978 T-CACAACTTACATAACTTACATAACT
1 TACATAACTTACATAA--TACATAACT
* *
33469004 TACATAACTCACA-ACTTACATAACT
1 TACATAACTTACATA-ATACATAACT
* *
33469029 TA-ATTAC--AC-T-ATACACAACT
1 TACATAACTTACATAATACATAACT
* *
33469049 TACGTAACATACATAATACATAACT
1 TACATAACTTACATAATACATAACT
33469074 TACATAACTTACATAATACATAAC-
1 TACATAACTTACATAATACATAACT
*
33469098 T---TAA-TT---TAATACACAACT
1 TACATAACTTACATAATACATAACT
*
33469116 TACATAGCTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
*
33469141 TACATAACTTATATAATACATAACT
1 TACATAACTTACATAATACATAACT
* * * *
33469166 TATATGATTTACTTAATACATAA
1 TACATAACTTACATAATACATAA
33469189 ATATATATCA
Statistics
Matches: 305, Mismatches: 57, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
17 10 0.03
18 1 0.00
20 12 0.04
21 8 0.03
22 4 0.01
23 19 0.06
24 27 0.09
25 206 0.68
26 3 0.01
27 15 0.05
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:33468957 original size:34 final size:34
Alignment explanation
Indices: 33468847--33469167 Score: 202
Period size: 34 Copynumber: 9.8 Consensus size: 34
33468837 CTTATATAAG
* * *
33468847 ACAACTTACATAATTTACTTAA--TACATAACTT
1 ACAACTTACATAACTTACATAACTTACATAACTC
** *
33468879 ACATGTTTACATAA--TATATAACTTACATAAC-C
1 ACA-ACTTACATAACTTACATAACTTACATAACTC
** * *
33468911 TACATA-AGACATAACTTCCATAACTTTCATAA-TAC
1 -ACA-ACTTACATAACTTACATAACTTACATAACT-C
* *
33468946 ACAATTTACATAACTTAAATAACTTACATAACTC
1 ACAACTTACATAACTTACATAACTTACATAACTC
33468980 ACAACTTACATAACTTACATAACTTACATAACTC
1 ACAACTTACATAACTTACATAACTTACATAACTC
*
33469014 ACAACTTACATAACTTA-ATTAC--AC-T-A-TAC
1 ACAACTTACATAACTTACATAACTTACATAACT-C
* *
33469043 ACAACTTACGTAACATACATAA--TACATAACTTAC
1 ACAACTTACATAACTTACATAACTTACATAAC-T-C
*
33469077 ATAACTTACATAA--TACATAACTTA-ATTTAA-TAC
1 ACAACTTACATAACTTACATAACTTACA--TAACT-C
*
33469110 ACAACTTACATAGCTTACATAA--TACATAACTTAC
1 ACAACTTACATAACTTACATAACTTACATAAC-T-C
* *
33469144 ATAACTTATATAA--TACATAACTTA
1 ACAACTTACATAACTTACATAACTTA
33469168 TATGATTTAC
Statistics
Matches: 232, Mismatches: 29, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
28 1 0.00
29 17 0.07
30 6 0.03
31 8 0.03
32 27 0.12
33 42 0.18
34 119 0.51
35 12 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (34 bp):
ACAACTTACATAACTTACATAACTTACATAACTC
Found at i:33469116 original size:42 final size:42
Alignment explanation
Indices: 33469062--33469142 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
33469052 GTAACATACA
*
33469062 TAATACATAACTTACATAACTTACATAATACATAACTTAATT
1 TAATACACAACTTACATAACTTACATAATACATAACTTAATT
*
33469104 TAATACACAACTTACATAGCTTACATAATACATAACTTA
1 TAATACACAACTTACATAACTTACATAATACATAACTTA
33469143 CATAACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (42 bp):
TAATACACAACTTACATAACTTACATAATACATAACTTAATT
Found at i:33469170 original size:16 final size:16
Alignment explanation
Indices: 33468762--33469167 Score: 170
Period size: 16 Copynumber: 24.9 Consensus size: 16
33468752 TTTAAATTTT
*
33468762 TAATACATAACTTA-T
1 TAATACATAACTTACA
*
33468777 TAATACATAACCTACA
1 TAATACATAACTTACA
* *
33468793 TAAGACATAACTTCCA
1 TAATACATAACTTACA
33468809 TAACTTACATAA--TACA
1 TAA--TACATAACTTACA
* * *
33468825 AAATTTATATAACTTATA
1 TAA--TACATAACTTACA
*
33468843 TAAGAC--AACTTACA
1 TAATACATAACTTACA
*
33468857 TAATTTACTTAA--TACA
1 TAA--TACATAACTTACA
**
33468873 TAACTTACAT-GTTTACA
1 TAA--TACATAACTTACA
*
33468890 TAATATATAACTTACA
1 TAATACATAACTTACA
*
33468906 TAACCTACATAA--GACA
1 TAA--TACATAACTTACA
* *
33468922 TAACTTCCATAACTTTCA
1 TAA--TACATAACTTACA
* *
33468940 TAATACACAATTTACA
1 TAATACATAACTTACA
*
33468956 TAACTTAAATAACTTACA
1 TAA--TACATAACTTACA
*
33468974 TAACT-CACAACTTACA
1 TAA-TACATAACTTACA
33468990 TAACTTACATAACTTACA
1 TAA--TACATAACTTACA
*
33469008 TAACT-CACAACTTACA
1 TAA-TACATAACTTACA
*
33469024 T-A-ACTTAA-TTACA
1 TAATACATAACTTACA
* *
33469037 CT-ATACACAACTTACG
1 -TAATACATAACTTACA
33469053 TAACATACATAA--TACA
1 T-A-ATACATAACTTACA
33469069 TAACTTACATAACTTACA
1 TAA--TACATAACTTACA
33469087 TAATACATAACTTA-A
1 TAATACATAACTTACA
*
33469102 TTTAATACACAACTTACA
1 --TAATACATAACTTACA
*
33469120 TAGCTTACATAA--TACA
1 TA--ATACATAACTTACA
*
33469136 TAACTTACATAACTTATA
1 TAA--TACATAACTTACA
33469154 TAATACATAACTTA
1 TAATACATAACTTA
33469168 TATGATTTAC
Statistics
Matches: 297, Mismatches: 54, Indels: 79
0.69 0.13 0.18
Matches are distributed among these distances:
13 5 0.02
14 16 0.05
15 25 0.08
16 151 0.51
17 23 0.08
18 77 0.26
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (16 bp):
TAATACATAACTTACA
Found at i:33470505 original size:21 final size:21
Alignment explanation
Indices: 33470480--33470560 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
33470470 AGAGGTGGCG
*
33470480 GCGAGGGAAGCAGAGGCGGCA
1 GCGAGGGAAGCAGAGGCAGCA
* **
33470501 ACGAGGGAAGCAGAGGCAATA
1 GCGAGGGAAGCAGAGGCAGCA
* * *
33470522 GCGAGAGAAGCAGACGCTGCA
1 GCGAGGGAAGCAGAGGCAGCA
33470543 GCGAGGGAAGCAG-GGCAG
1 GCGAGGGAAGCAGAGGCAG
33470561 AGCAAAAAGT
Statistics
Matches: 47, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.33, C:0.19, G:0.46, T:0.02
Consensus pattern (21 bp):
GCGAGGGAAGCAGAGGCAGCA
Found at i:33470532 original size:42 final size:41
Alignment explanation
Indices: 33470480--33470559 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
33470470 AGAGGTGGCG
* *
33470480 GCGAGGGAAGCAGAGGCGGCAACGAGGGAAGCAGAGGCAATA
1 GCGAGAGAAGCAGACGCGGCAACGAGGGAAGCAG-GGCAATA
* *
33470522 GCGAGAGAAGCAGACGCTGCAGCGAGGGAAGCAGGGCA
1 GCGAGAGAAGCAGACGCGGCAACGAGGGAAGCAGGGCA
33470560 GAGCAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.34, C:0.19, G:0.45, T:0.03
Consensus pattern (41 bp):
GCGAGAGAAGCAGACGCGGCAACGAGGGAAGCAGGGCAATA
Found at i:33470967 original size:43 final size:43
Alignment explanation
Indices: 33470904--33471071 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
33470894 TCATTACCTT
* * *** *
33470904 TAGCGGCATTTGTGGGAAAAGCGCTATTAAAGGTCATGATTTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATTTA
* * *
33470947 TAGCGGCGTTTATAGAAAAAGCGCCGCTAAAAGTCATG-TTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATT-TA
* *
33470990 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATTTA
* * *
33471033 TAGCAGCGTTTGTGGAAAAAGAGCCGCTAAAGGTCATGA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGA
33471072 CCTTTAGAGG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.02
43 102 0.97
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATTTA
Found at i:33470977 original size:86 final size:86
Alignment explanation
Indices: 33470865--33471086 Score: 257
Period size: 86 Copynumber: 2.6 Consensus size: 86
33470855 CAAAATTAGT
* * * * * *
33470865 GGCGTTTTTAAAAAAAACGCCACTAAAACTCATTACCTTTAGCGGCATTTGTGGGAAAAGCGCTA
1 GGCGTTTATAGAAAAAGCGCCGCTAAAAGTCATTACCTTTAGCGGCATTTGTGGGAAAAGCGCCA
* * *
33470930 TTAAAGGTCATGATTTATAGC
66 CTAAAAGTCATGATCTATAGC
* *
33470951 GGCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGT-TCTTTAGCGGCGTTTGTGGGAAAAGCGCC
1 GGCGTTTATAGAAAAAGCGCCGCTAAAAGTCAT-TACCTTTAGCGGCATTTGTGGGAAAAGCGCC
*
33471015 GCTAAAAGTCATGATCTATAGC
65 ACTAAAAGTCATGATCTATAGC
* * * * * * *
33471037 AGCGTTTGTGGAAAAAGAGCCGCTAAAGGTCATGACCTTTAGAGGCATTT
1 GGCGTTTATAGAAAAAGCGCCGCTAAAAGTCATTACCTTTAGCGGCATTT
33471087 ATTTTTAAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 112 0.99
87 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (86 bp):
GGCGTTTATAGAAAAAGCGCCGCTAAAAGTCATTACCTTTAGCGGCATTTGTGGGAAAAGCGCCA
CTAAAAGTCATGATCTATAGC
Found at i:33472964 original size:35 final size:35
Alignment explanation
Indices: 33472865--33472965 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
33472855 CTCTGTTTGA
* * *
33472865 TGTGTTTCGGAGGGATTAGCTCTTTTAAGCATTGG
1 TGTGTTTCGGAGGGATTAGCTCTTATGAGCAATGG
** *
33472900 TGTGTTTCGGTTGGACTAGCTCTTATGAGCAATGG
1 TGTGTTTCGGAGGGATTAGCTCTTATGAGCAATGG
* * * *
33472935 TGTGTTTTGGAGGGATTGGCTCATGTGAGCA
1 TGTGTTTCGGAGGGATTAGCTCTTATGAGCA
33472966 TCTAGTGTGT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.17, C:0.12, G:0.34, T:0.38
Consensus pattern (35 bp):
TGTGTTTCGGAGGGATTAGCTCTTATGAGCAATGG
Found at i:33489237 original size:44 final size:44
Alignment explanation
Indices: 33489166--33489640 Score: 626
Period size: 44 Copynumber: 10.8 Consensus size: 44
33489156 GATTAAGCCA
* * *
33489166 CAAGTCCTATCTCCCTGACCAGTAGCGGAATAGGTTGAAAATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * * *
33489210 TATGTCCTATTTCCCAGACCAGCAGCGGAATAGGTGGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* *
33489254 CAAGTCCTATGTCCCTGACCAACAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * * *
33489298 TAGGTCCTATGTCCCTAACCAGCAGTGGAATAGGTTCAAGATTA
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
33489342 CAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * *
33489386 TAGGTCTTATGTCCCTGACCAGCAGTGGAATAGGTTGAAGATTA
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
** *
33489430 CAAGTCCTATCTCCCTGACCAAAAATGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * *
33489474 TAGGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAGATTA
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* *
33489518 CAAGTCCTATCTCCCTAACCAACAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
33489562 TAGGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
33489606 CAAGTCCTATCTCCCTGACCAACAGTGGAATAGGT
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGT
33489641 GGAAAATTAG
Statistics
Matches: 368, Mismatches: 63, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 368 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:33489273 original size:88 final size:88
Alignment explanation
Indices: 33489165--33489640 Score: 790
Period size: 88 Copynumber: 5.4 Consensus size: 88
33489155 AGATTAAGCC
** * * * * *
33489165 ACAAGTCCTATCTCCCTGACCAGTAGCGGAATAGGTTGAAAATTGTATGTCCTATTTCCCAGACC
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
* *
33489230 AGCAGCGGAATAGGTGGAAGATT
66 AGCAGTGGAATAGGTTGAAGATT
* * *
33489253 GCAAGTCCTATGTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTAACC
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
*
33489318 AGCAGTGGAATAGGTTCAAGATT
66 AGCAGTGGAATAGGTTGAAGATT
*
33489341 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCTTATGTCCCTGACC
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
33489406 AGCAGTGGAATAGGTTGAAGATT
66 AGCAGTGGAATAGGTTGAAGATT
* *
33489429 ACAAGTCCTATCTCCCTGACCAAAAATGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
33489494 AGCAGTGGAATAGGTTGAAGATT
66 AGCAGTGGAATAGGTTGAAGATT
*
33489517 ACAAGTCCTATCTCCCTAACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
33489582 AGCAGTGGAATAGGTTGAAGATT
66 AGCAGTGGAATAGGTTGAAGATT
*
33489605 GCAAGTCCTATCTCCCTGACCAACAGTGGAATAGGT
1 ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGT
33489641 GGAAAATTAG
Statistics
Matches: 362, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 362 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (88 bp):
ACAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAGGTCCTATGTCCCTGACC
AGCAGTGGAATAGGTTGAAGATT
Found at i:33494307 original size:21 final size:21
Alignment explanation
Indices: 33494261--33494307 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
33494251 AATCTAAGTT
**
33494261 TTTCCTATAAAAACCCAGGTA
1 TTTCCTATAAAAACCCAGACA
*
33494282 ATTCCTAT-AAAACCTCAGACA
1 TTTCCTATAAAAACC-CAGACA
33494303 TTTCC
1 TTTCC
33494308 CTCTTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (21 bp):
TTTCCTATAAAAACCCAGACA
Found at i:33494340 original size:19 final size:19
Alignment explanation
Indices: 33494318--33494355 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33494308 CTCTTATTAA
33494318 GACAAACCTAAAATTAATT
1 GACAAACCTAAAATTAATT
33494337 GACAAACCTAAAATTAATT
1 GACAAACCTAAAATTAATT
33494356 CAGGGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
GACAAACCTAAAATTAATT
Found at i:33494437 original size:20 final size:20
Alignment explanation
Indices: 33494398--33494437 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33494388 ACATAAATTG
*
33494398 GTTTTTCTATAAAAATTCAA
1 GTTTTTCTATAAAAACTCAA
33494418 GTTTTTCGTAT-AAAACTCAA
1 GTTTTTC-TATAAAAACTCAA
33494438 CTAGTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (20 bp):
GTTTTTCTATAAAAACTCAA
Found at i:33495451 original size:9 final size:9
Alignment explanation
Indices: 33495437--33495467 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
33495427 CTCGACACAT
33495437 CAAAATAAA
1 CAAAATAAA
33495446 CAAAATAAA
1 CAAAATAAA
33495455 CAAAATAAA
1 CAAAATAAA
33495464 CAAA
1 CAAA
33495468 GGCCCGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (9 bp):
CAAAATAAA
Found at i:33501816 original size:19 final size:19
Alignment explanation
Indices: 33501767--33501815 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
33501757 TTTCTTTTCA
33501767 CTTTCTTTTTTCAAGTTTT
1 CTTTCTTTTTTCAAGTTTT
* *
33501786 CTTTCTTTTTTCCATTTTT
1 CTTTCTTTTTTCAAGTTTT
33501805 CTTTTCTTTTT
1 C-TTTCTTTTT
33501816 CTCTCATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.73
Consensus pattern (19 bp):
CTTTCTTTTTTCAAGTTTT
Found at i:33504323 original size:23 final size:23
Alignment explanation
Indices: 33504290--33504356 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
33504280 TTGGTTTGGG
* * *
33504290 TTTGGAACGAAATGCTAATGTAA
1 TTTGGTACGAAATGCAAATGGAA
* *
33504313 TTTGGTGCGAAATGGAAATGGAA
1 TTTGGTACGAAATGCAAATGGAA
*
33504336 TTTGGTACGAAATGGAAATGG
1 TTTGGTACGAAATGCAAATGG
33504357 TTCAAAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (23 bp):
TTTGGTACGAAATGCAAATGGAA
Found at i:33505134 original size:31 final size:31
Alignment explanation
Indices: 33505099--33505164 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
33505089 TCATGCATGC
** *
33505099 ACCTTGCTAAATGAATCTTCACATTCGGCTA
1 ACCTTGCTAAATGAATCCCCACATTCGGCCA
*
33505130 ACCTTGTTAAATGAATCCCCACATTCGGCCA
1 ACCTTGCTAAATGAATCCCCACATTCGGCCA
33505161 ACCT
1 ACCT
33505165 ACATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (31 bp):
ACCTTGCTAAATGAATCCCCACATTCGGCCA
Found at i:33505172 original size:31 final size:31
Alignment explanation
Indices: 33505106--33505172 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
33505096 TGCACCTTGC
** * ***
33505106 TAAATGAATCTTCACATTCGGCTAACCTTGT
1 TAAATGAATCCCCACATTCGGCCAACCTACA
33505137 TAAATGAATCCCCACATTCGGCCAACCTACA
1 TAAATGAATCCCCACATTCGGCCAACCTACA
33505168 TAAAT
1 TAAAT
33505173 AGGATGAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.28
Consensus pattern (31 bp):
TAAATGAATCCCCACATTCGGCCAACCTACA
Found at i:33505497 original size:30 final size:30
Alignment explanation
Indices: 33505439--33505497 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33505429 TTGTAAATGT
*
33505439 TTGAGCTGAAATTGAACTAGTTCAAGCTCA
1 TTGAGCTGAAATTGAACTAATTCAAGCTCA
*
33505469 TTGAGCTGAAATTGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATTGAA-CTAATTCAAGCTC
33505498 GTAATAGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (30 bp):
TTGAGCTGAAATTGAACTAATTCAAGCTCA
Found at i:33506183 original size:18 final size:18
Alignment explanation
Indices: 33506160--33506201 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
33506150 CTCATAAATA
33506160 TGAAATAATGAAATATAC-
1 TGAAATAATGAAATA-ACT
33506178 TGAAATAATGAAATAACT
1 TGAAATAATGAAATAACT
33506196 TGAAAT
1 TGAAAT
33506202 TCAATAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (18 bp):
TGAAATAATGAAATAACT
Found at i:33506201 original size:10 final size:8
Alignment explanation
Indices: 33506155--33506193 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
33506145 AACAACTCAT
33506155 AAAT-ATG
1 AAATAATG
33506162 AAATAATG
1 AAATAATG
33506170 AAATATACTG
1 AAATA-A-TG
33506180 AAATAATG
1 AAATAATG
33506188 AAATAA
1 AAATAA
33506194 CTTGAAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.14
8 16 0.55
9 2 0.07
10 7 0.24
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.26
Consensus pattern (8 bp):
AAATAATG
Found at i:33508984 original size:17 final size:17
Alignment explanation
Indices: 33508962--33508998 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33508952 AATCAATATT
33508962 CACTAAGACGATTGTAC
1 CACTAAGACGATTGTAC
33508979 CACTAAGACGATTGTAC
1 CACTAAGACGATTGTAC
33508996 CAC
1 CAC
33508999 ATCTGTCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (17 bp):
CACTAAGACGATTGTAC
Found at i:33509557 original size:35 final size:35
Alignment explanation
Indices: 33509530--33509654 Score: 187
Period size: 35 Copynumber: 3.6 Consensus size: 35
33509520 ATTGATATTC
*
33509530 TGATTCACATGTTAAGCATGCTATTATTCTGATTA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
*
33509565 TGATTTGCATGTTAAGCATGCTATTATTCTGATTA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* * *
33509600 TGATTTGCATGTTAAGCATGCCATTATTCTGATTC
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* *
33509635 TGATTCTCATGTTAAACATG
1 TGATTCGCATGTTAAGCATG
33509655 TCATTGTGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
Found at i:33511636 original size:21 final size:21
Alignment explanation
Indices: 33511607--33511655 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
33511597 GCCCGTGTGG
*
33511607 CCCACACGGCCTAGCTCAAAA
1 CCCACACGGCCTAGCCCAAAA
* *
33511628 CCCATACGGCCTGGCCCAAAA
1 CCCACACGGCCTAGCCCAAAA
33511649 CCCACAC
1 CCCACAC
33511656 ACCCGTGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.47, G:0.14, T:0.08
Consensus pattern (21 bp):
CCCACACGGCCTAGCCCAAAA
Found at i:33511840 original size:29 final size:29
Alignment explanation
Indices: 33511798--33511856 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33511788 GGCCACATGC
33511798 CCTTGTGGTGCAGACAGACACACCTGGTA
1 CCTTGTGGTGCAGACAGACACACCTGGTA
33511827 CCTTGTGGTGCAGACAGACACACCTGGTA
1 CCTTGTGGTGCAGACAGACACACCTGGTA
33511856 C
1 C
33511857 AGTTTTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (29 bp):
CCTTGTGGTGCAGACAGACACACCTGGTA
Found at i:33514356 original size:9 final size:9
Alignment explanation
Indices: 33514342--33514375 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
33514332 AAAATATAAA
33514342 CCAAAAAGT
1 CCAAAAAGT
33514351 CCAAAAAGT
1 CCAAAAAGT
* *
33514360 CCAGAGAGT
1 CCAAAAAGT
33514369 CCAAAAA
1 CCAAAAA
33514376 ATACAAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.53, C:0.24, G:0.15, T:0.09
Consensus pattern (9 bp):
CCAAAAAGT
Found at i:33520089 original size:20 final size:20
Alignment explanation
Indices: 33520064--33520101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33520054 CATTTAAGTG
*
33520064 AATATCTATGAAGCTTAGTA
1 AATATCTATGAAACTTAGTA
*
33520084 AATATCTTTGAAACTTAG
1 AATATCTATGAAACTTAG
33520102 ATGAAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
AATATCTATGAAACTTAGTA
Found at i:33522388 original size:29 final size:29
Alignment explanation
Indices: 33522351--33522406 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
33522341 TATATCAGCC
33522351 CATACA-TTTCACAATTTCTCATATTTAACA
1 CATACATTTTCA-AATTTCTCA-ATTTAACA
*
33522381 CATA-ATTTTCATATTTCTCAATTTAA
1 CATACATTTTCAAATTTCTCAATTTAA
33522407 TCCCTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 9 0.38
30 9 0.38
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.45
Consensus pattern (29 bp):
CATACATTTTCAAATTTCTCAATTTAACA
Found at i:33524651 original size:27 final size:28
Alignment explanation
Indices: 33524621--33524680 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
33524611 GACATCAAAA
*
33524621 ATAGTCT-GACGAGACATTAAACACGGG
1 ATAGTCTCAACGAGACATTAAACACGGG
*
33524648 ATAG-CTCAATGAGACATTAAACACGGG
1 ATAGTCTCAACGAGACATTAAACACGGG
*
33524675 GTAGTC
1 ATAGTC
33524681 CTAAAGGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 25 0.89
28 1 0.04
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (28 bp):
ATAGTCTCAACGAGACATTAAACACGGG
Found at i:33524722 original size:27 final size:27
Alignment explanation
Indices: 33524665--33524722 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
33524655 AATGAGACAT
* * *
33524665 TAAACACGGGGTAGTCCTAAAGGATGT
1 TAAACACGAGGTAGTCCTAAAGGACGA
*
33524692 TAAACACGAGGTAGT-CTGATAGGACGA
1 TAAACACGAGGTAGTCCT-AAAGGACGA
33524719 TAAA
1 TAAA
33524723 TACAAGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (27 bp):
TAAACACGAGGTAGTCCTAAAGGACGA
Found at i:33527902 original size:23 final size:23
Alignment explanation
Indices: 33527858--33527907 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
33527848 AGATAGATTG
* *
33527858 TAGTAACAACAAAGATAAGAGAA
1 TAGTAACAAAAAAAATAAGAGAA
*
33527881 TAGTAAGAAAAAAAATATGAGAGAA
1 TAGTAACAAAAAAAATA--AGAGAA
33527906 TA
1 TA
33527908 TAAGACAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (23 bp):
TAGTAACAAAAAAAATAAGAGAA
Found at i:33535485 original size:18 final size:18
Alignment explanation
Indices: 33535430--33535485 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
33535420 AAATTAAAAA
* *
33535430 TATATAAAATATAAATAT
1 TATAAAAAAAATAAATAT
* * *
33535448 TTTAAAATACATAAAT-T
1 TATAAAAAAAATAAATAT
33535465 TATAAAAAAAATAAATAT
1 TATAAAAAAAATAAATAT
33535483 TAT
1 TAT
33535486 TTCATGTTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAAAAAAATAAATAT
Found at i:33535685 original size:19 final size:18
Alignment explanation
Indices: 33535629--33535686 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
33535619 CTAAAAATTC
*
33535629 ATTAAAAATATAAAATATT
1 ATTAAAATTAT-AAATATT
*
33535648 -TTAAAATACATAAAT-TT
1 ATTAAAAT-TATAAATATT
33535665 ATATAAAATTATAAATATT
1 AT-TAAAATTATAAATATT
33535684 ATT
1 ATT
33535687 TCATGTTGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 2 0.06
18 18 0.56
19 12 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAAAATTATAAATATT
Found at i:33535726 original size:200 final size:204
Alignment explanation
Indices: 33535435--33535858 Score: 623
Period size: 200 Copynumber: 2.1 Consensus size: 204
33535425 AAAAATATAT
33535435 AAAATAT-AAATATTTTAAAATACATAAATTTATAAAAAAAATAAATATTATTTCATGTTGGAAT
1 AAAATATAAAATATTTTAAAATACATAAATTTATAAAAAAAATAAATATTATTTCATGTTGGAAT
* * *
33535499 GAACCTGGGCAACCATTTGTCTAGATTTATTCAAAGAATTTTTTAGTAGTTTTATAGATTATT-A
66 GAACCTGGGCAACCACTTATCTAGATTTATTCAAAGAATTTTTTAGTAGTTTTATAGATGATTAA
* *
33535563 -TTTTTTCATGAAATATTAT-TT-TATATTATTATTTTAAAATTTAAAAA-ATATATAATCT-AA
131 TTTTTTTCATGAAAAATTATGTTATATATTATTATTTTAAAA-TTAAAAATATATAAAATCTAAA
*
33535623 AAATTCATTA
195 AAAATCATTA
**
33535633 AAAATATAAAATATTTTAAAATACATAAATTTATATAAAATTATAAATATTATTTCATGTTGGAA
1 AAAATATAAAATATTTTAAAATACATAAATTTATA-AAAAAAATAAATATTATTTCATGTTGGAA
* * * * *
33535698 TGAATCTGGAG-AACTACTTATTTAGATTTATTCCAAGCATTTTTTAGTAGTTTTATAGATGATT
65 TGAACCTGG-GCAACCACTTATCTAGATTTATTCAAAGAATTTTTTAGTAGTTTTATAGATGATT
33535762 AATTTTTTTCATGAAAAATTATGTTATATATTATTATTTTAAAATTAAAAATATATAAAATCTAA
129 AATTTTTTTCATGAAAAATTATGTTATATATTATTATTTTAAAATTAAAAATATATAAAATCTAA
33535827 AAAAATCATTA
194 AAAAATCATTA
*
33535838 AAAATATATAAAT-TTATAAAA
1 AAAATATA-AAATATTTTAAAA
33535859 ACAATTATAA
Statistics
Matches: 202, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
198 7 0.03
199 27 0.13
200 81 0.40
201 2 0.01
202 18 0.09
203 9 0.04
204 28 0.14
205 26 0.13
206 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (204 bp):
AAAATATAAAATATTTTAAAATACATAAATTTATAAAAAAAATAAATATTATTTCATGTTGGAAT
GAACCTGGGCAACCACTTATCTAGATTTATTCAAAGAATTTTTTAGTAGTTTTATAGATGATTAA
TTTTTTTCATGAAAAATTATGTTATATATTATTATTTTAAAATTAAAAATATATAAAATCTAAAA
AAATCATTA
Found at i:33537285 original size:21 final size:20
Alignment explanation
Indices: 33537259--33537313 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
33537249 TTTTACACTA
33537259 TTGTGGATAAACCACTCATCG
1 TTGTGGATAAACCACTC-TCG
**
33537280 TTGTGGACGAACCA--CTCG
1 TTGTGGATAAACCACTCTCG
33537298 TTGTGGATAAACCACT
1 TTGTGGATAAACCACT
33537314 AGTAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 15 0.54
19 1 0.04
21 12 0.43
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
TTGTGGATAAACCACTCTCG
Found at i:33537472 original size:21 final size:22
Alignment explanation
Indices: 33537429--33537473 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
33537419 GCTAGTACGA
*
33537429 TGTGGTTAAACCACTCAAACGG
1 TGTGGATAAACCACTCAAACGG
33537451 TGTGGATAAACCACTC-AACGG
1 TGTGGATAAACCACTCAAACGG
33537472 TG
1 TG
33537474 CAAATAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
TGTGGATAAACCACTCAAACGG
Found at i:33537480 original size:21 final size:22
Alignment explanation
Indices: 33537435--33537482 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
33537425 ACGATGTGGT
***
33537435 TAAACCACTCAAACGGTGTGGA
1 TAAACCACTCAAACGGTGCAAA
33537457 TAAACCACTC-AACGGTGCAAA
1 TAAACCACTCAAACGGTGCAAA
33537478 TAAAC
1 TAAAC
33537483 TGCTCAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (22 bp):
TAAACCACTCAAACGGTGCAAA
Found at i:33537629 original size:34 final size:34
Alignment explanation
Indices: 33537591--33537655 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
33537581 CCCTATGGAA
* *
33537591 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCTTATAATAGATTCATTCAGTG
*
33537625 GCAATTATTATGCTTATAATAGATTCATTCA
1 GCAATCATTATGCTTATAATAGATTCATTCA
33537656 ATAACAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (34 bp):
GCAATCATTATGCTTATAATAGATTCATTCAGTG
Found at i:33539011 original size:19 final size:21
Alignment explanation
Indices: 33538973--33539011 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33538963 ATTATATATT
*
33538973 AAATATATATTATTTTTAATC
1 AAATATATATTATTTGTAATC
33538994 AAATATATA-TA-TTGTAAT
1 AAATATATATTATTTGTAAT
33539012 ATGCCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATATATATTATTTGTAATC
Found at i:33539845 original size:12 final size:12
Alignment explanation
Indices: 33539828--33539853 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33539818 GTTTTGCTAT
33539828 TAAGCATATATA
1 TAAGCATATATA
33539840 TAAGCATATATA
1 TAAGCATATATA
33539852 TA
1 TA
33539854 TAATAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
TAAGCATATATA
Found at i:33544836 original size:6 final size:6
Alignment explanation
Indices: 33544827--33544922 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
33544817 GAAAAAGAAA
* * * *
33544827 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATGAA AAAATC AAAAT-
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT--C AAAATC AAAATC
* * * * *
33544876 AAAA-- AAAATAA AAAATAA AAAATA AAAATC AAGATC AAAATG AAAAT
1 AAAATC AAAAT-C AAAAT-C AAAATC AAAATC AAAATC AAAATC AAAAT
33544923 AAGAAAAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.05
5 4 0.05
6 51 0.67
7 12 0.16
8 5 0.07
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:33544874 original size:7 final size:7
Alignment explanation
Indices: 33544857--33544903 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
33544847 AATGAAAATG
33544857 AAAATGAA
1 AAAAT-AA
33544865 AAAATCAA
1 AAAAT-AA
33544873 AATAA-AA
1 AA-AATAA
33544880 AAAATAA
1 AAAATAA
33544887 AAAATAA
1 AAAATAA
33544894 AAAATAA
1 AAAATAA
33544901 AAA
1 AAA
33544904 TCAAGATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
6 2 0.06
7 23 0.64
8 9 0.25
9 2 0.06
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:33544879 original size:12 final size:12
Alignment explanation
Indices: 33544826--33544924 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
33544816 AGAAAAAGAA
33544826 AAAAATCAAAAT
1 AAAAATCAAAAT
* *
33544838 CAAAGTCAAAAT
1 AAAAATCAAAAT
* *
33544850 GAAAATGAAAAT
1 AAAAATCAAAAT
33544862 GAAAAAATCAAAAT
1 --AAAAATCAAAAT
33544876 -AAAA--AAAAT
1 AAAAATCAAAAT
*
33544885 AAAAAATAAAAAAT
1 -AAAAAT-CAAAAT
*
33544899 AAAAATCAAGAT
1 AAAAATCAAAAT
* *
33544911 CAAAATGAAAAT
1 AAAAATCAAAAT
33544923 AA
1 AA
33544925 GAAAAAGAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
9 5 0.07
11 8 0.12
12 33 0.49
13 6 0.09
14 15 0.22
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:33544960 original size:44 final size:43
Alignment explanation
Indices: 33544887--33544990 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
33544877 AAAAAAATAA
* * *
33544887 AAAATAAAAAATAAAAATCAAGATCAAAATGAAAATAAGAAAAAG
1 AAAAGAAAAAAGAAAAATCAAGATCAAAATCAAAAT--GAAAAAG
* * * *
33544932 -AAAGAAAAAAGAGAAATCTAGATGAAAATCAGAATGAAAAAG
1 AAAAGAAAAAAGAAAAATCAAGATCAAAATCAAAATGAAAAAG
33544974 AAAAAGAAAAAAGAAAA
1 -AAAAGAAAAAAGAAAA
33544991 GGAGAGGCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 7 0.14
44 42 0.86
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (43 bp):
AAAAGAAAAAAGAAAAATCAAGATCAAAATCAAAATGAAAAAG
Found at i:33547138 original size:43 final size:43
Alignment explanation
Indices: 33547061--33547189 Score: 206
Period size: 43 Copynumber: 3.0 Consensus size: 43
33547051 TCAGTGAATA
* *
33547061 CGGCGGATCTTATCTT-CCCAGGAGTGGGGAAACAGATCTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
33547103 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
* * *
33547146 CGGTGAATCTTATTTTCCCCAGGAGTAGGGAAACAGATTTAAG
1 CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
33547189 C
1 C
33547190 CACAAGTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 15 0.19
43 66 0.81
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (43 bp):
CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAG
Found at i:33547463 original size:44 final size:43
Alignment explanation
Indices: 33547370--33547474 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
33547360 GAAGCAAATA
* * *
33547370 TTATCTCCCTGAAGTTACTGTGGAGCAGATTGAAGCCGATAATC
1 TTATCTCCCTGAAGTT-GTGTGGAGCAGATTAAAGCCAATAATC
* * *
33547414 CTATCTCCCTCAAGTTGTAGTGGAGCAGATTAAAG-TAATAGATC
1 TTATCTCCCTGAAGTTGT-GTGGAGCAGATTAAAGCCAATA-ATC
*
33547458 TTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
33547475 CAGTAGAGTG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGTGTGGAGCAGATTAAAGCCAATAATC
Found at i:33549199 original size:19 final size:17
Alignment explanation
Indices: 33549175--33549217 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
33549165 ATAGTCCTTG
*
33549175 TTATTATCATTATTTTTA
1 TTATTAT-ATTATTTATA
33549193 TTTATTAATATTATTTATA
1 -TTATT-ATATTATTTATA
33549212 TTATTA
1 TTATTA
33549218 CTCTAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 14 0.64
20 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATATTATTTATA
Found at i:33550612 original size:11 final size:11
Alignment explanation
Indices: 33550595--33550633 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
33550585 TTTTTAATCA
33550595 AATATATATTT
1 AATATATATTT
*
33550606 TATATATATTT
1 AATATATATTT
33550617 AATATATATTT
1 AATATATATTT
33550628 AATATA
1 AATATA
33550634 GGCCAGGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATATATATTT
Found at i:33552010 original size:21 final size:20
Alignment explanation
Indices: 33551974--33552040 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
33551964 TCTCTCTCAA
*
33551974 AAAATATTATAAAAAAAATTC
1 AAAATATT-TATAAAAAATTC
**
33551995 AAAATAACTTT-TAAAATTTTC
1 AAAAT-A-TTTATAAAAAATTC
*
33552016 AAAATATTTATAAAAAAATC
1 AAAATATTTATAAAAAATTC
33552036 AAAAT
1 AAAAT
33552041 TTAAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 17 0.46
22 2 0.05
23 2 0.05
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATTTATAAAAAATTC
Found at i:33566712 original size:20 final size:20
Alignment explanation
Indices: 33566687--33566752 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
33566677 ATAAATGAGT
33566687 AAATTTCTAGAATTTCAGCA
1 AAATTTCTAGAATTTCAGCA
*
33566707 AAATTTCTAGAATTTCAACA
1 AAATTTCTAGAATTTCAGCA
* *
33566727 TAATTTCTAAAATTTCAGCA
1 AAATTTCTAGAATTTCAGCA
*
33566747 TAATTT
1 AAATTT
33566753 TTCAATTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (20 bp):
AAATTTCTAGAATTTCAGCA
Found at i:33574301 original size:86 final size:85
Alignment explanation
Indices: 33574140--33574303 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 85
33574130 TTGCAATTTT
* * * *
33574140 TGCCACTTGTTGTGGGTACACAACATATTTGCAGATTAAACAAACTACCACTTGGTTCATGATCG
1 TGCCACTTGTTGTGAGTACACAACATATTTGCAGATTAAACAAACTACCACTTGATTCATAATCA
*
33574205 AACCATATATTTGCAGTTAC
66 AACCACATATTTGCAGTTAC
* * *
33574225 TGCCACTTGTTGTGAGTGCACAATATATTTGACGGATTAAACAAACTACCACTTGATTCATAATC
1 TGCCACTTGTTGTGAGTACACAACATATTTG-CAGATTAAACAAACTACCACTTGATTCATAATC
33574290 AAACCACATATTTG
65 AAACCACATATTTG
33574304 TGGATTAAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 28 0.40
86 42 0.60
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (85 bp):
TGCCACTTGTTGTGAGTACACAACATATTTGCAGATTAAACAAACTACCACTTGATTCATAATCA
AACCACATATTTGCAGTTAC
Found at i:33575912 original size:22 final size:22
Alignment explanation
Indices: 33575887--33575928 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
33575877 TATTTATAGG
33575887 TGAGTATAAAGCTAAAGGATAT
1 TGAGTATAAAGCTAAAGGATAT
33575909 TGAGTATAAAGCTAAAGGAT
1 TGAGTATAAAGCTAAAGGAT
33575929 GACTCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (22 bp):
TGAGTATAAAGCTAAAGGATAT
Found at i:33579630 original size:41 final size:39
Alignment explanation
Indices: 33579547--33579630 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
33579537 GCACAATATA
* ***
33579547 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAAAAAT
*
33579586 ATATAAAAAGCATATATAAATATATGTATGTCACAAAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAAAAA-T
33579627 ATAT
1 ATAT
33579631 TCATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 30 0.79
40 3 0.08
41 5 0.13
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAAAAAT
Found at i:33581750 original size:22 final size:22
Alignment explanation
Indices: 33581702--33581769 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
33581692 TCTTTCATAT
*
33581702 AAATTTTAAATAAATAATTATT
1 AAATTTTAAATAAATAATTATA
* *
33581724 AAATTTTAAGT-AATATTTATA
1 AAATTTTAAATAAATAATTATA
*
33581745 AGAA--TTAGAT-AA-AATTATA
1 A-AATTTTAAATAAATAATTATA
33581764 AAATTT
1 AAATTT
33581770 AGTTTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 2 0.05
19 7 0.19
20 7 0.19
21 9 0.24
22 12 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATTTTAAATAAATAATTATA
Found at i:33581786 original size:18 final size:19
Alignment explanation
Indices: 33581767--33581811 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33581757 AATTATAAAA
33581767 TTTAGTTTTT-TATTTCAAT
1 TTTA-TTTTTGTATTTCAAT
* *
33581786 TTTATTTTTGTATTTTATT
1 TTTATTTTTGTATTTCAAT
33581805 TTTATTT
1 TTTATTT
33581812 CTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTATTTTTGTATTTCAAT
Found at i:33582197 original size:7 final size:7
Alignment explanation
Indices: 33582180--33582283 Score: 59
Period size: 7 Copynumber: 14.6 Consensus size: 7
33582170 ACTCGACTCT
33582180 TAAATCCC
1 TAAA-CCC
33582188 TAAACCC
1 TAAACCC
33582195 TAAATCCC
1 TAAA-CCC
*
33582203 T-AACTC
1 TAAACCC
*
33582209 TTAACCC
1 TAAACCC
*
33582216 TTAACCCC
1 -TAAACCC
*
33582224 TAACCCC
1 TAAACCC
*
33582231 TAACCCC
1 TAAACCC
*
33582238 TAACCCC
1 TAAACCC
*
33582245 TAAACCT
1 TAAACCC
*
33582252 TAAA-TC
1 TAAACCC
*
33582258 TCAACCC
1 TAAACCC
*
33582265 TTAAACCA
1 -TAAACCC
*
33582273 TAATCCC
1 TAAACCC
33582280 TAAA
1 TAAA
33582284 TCCATACTTC
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
6 6 0.08
7 52 0.68
8 18 0.24
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:33582216 original size:21 final size:21
Alignment explanation
Indices: 33582185--33582247 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
33582175 ACTCTTAAAT
*
33582185 CCCTAAACCCTAAATCCCTAAC
1 CCCT-AACCCTAAACCCCTAAC
* * *
33582207 TCTTAACCCTTAACCCCTAAC
1 CCCTAACCCTAAACCCCTAAC
33582228 CCCTAACCCCT-AACCCCTAA
1 CCCTAA-CCCTAAACCCCTAA
33582248 ACCTTAAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 28 0.82
22 6 0.18
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCTAAACCCCTAAC
Found at i:33582227 original size:14 final size:14
Alignment explanation
Indices: 33582185--33582247 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
33582175 ACTCTTAAAT
* *
33582185 CCCTAAACCCTAAAT
1 CCCTAACCCCT-AAC
* *
33582200 CCCTAACTCTTAAC
1 CCCTAACCCCTAAC
*
33582214 CCTTAACCCCTAAC
1 CCCTAACCCCTAAC
33582228 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
33582242 CCCTAA
1 CCCTAA
33582248 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 32 0.80
15 8 0.20
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:33582911 original size:122 final size:123
Alignment explanation
Indices: 33582682--33582961 Score: 348
Period size: 122 Copynumber: 2.3 Consensus size: 123
33582672 AAATGTTTTT
* * * * * **
33582682 GCGGCGCTTTTTCAGAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTTTTAAAAAAGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACCTTTACAAAAAAGCCGC
* * * * * * *
33582747 TAAATCCCCTAGCAGTAGCGGCGCTTTTTCAAAAACGTCGCTAAATCCCTGAGCATTA
66 TAAAGCCCCGAGCAGTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
33582805 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCG-GCATTAGCGGCACCTTTACAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACCTTTACAAAAAAGCCGC
* * *
33582869 TAAAGCCTCGAGCATTAGCGACGC-TTTCCAAAAAATGCCGCTAAAGCCCCGAGCATTA
66 TAAAGCCCCGAGCAGTAGCGACGCTTTTCC-AAAAACGCCGCTAAAGCCCCGAGCATTA
* *
33582927 GGGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
33582962 AAGGTAAAAA
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
121 4 0.03
122 99 0.74
123 30 0.23
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (123 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACCTTTACAAAAAAGCCGC
TAAAGCCCCGAGCAGTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:33582955 original size:41 final size:41
Alignment explanation
Indices: 33582682--33582961 Score: 348
Period size: 41 Copynumber: 6.9 Consensus size: 41
33582672 AAATGTTTTT
* * *
33582682 GCGGCGCTTTTTCAGAAACGCCGCTAAATCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
33582723 GCGGCGCTTTTTTAAAAAAGCCGCTAAATCCCCTAGCAGTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
33582764 GCGGCGCTTTTTCAAAAACGTCGCTAAATCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
33582805 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCG-GCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
33582845 GCGGCACCTTTACAAAAACGCCGCTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
33582886 GCGACGC-TTTCCAAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCCGAGCATTA
* *
33582927 GGGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
33582962 AAGGTAAAAA
Statistics
Matches: 207, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
40 39 0.19
41 163 0.79
42 5 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:33583080 original size:40 final size:40
Alignment explanation
Indices: 33583005--33583080 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
33582995 TTTTTAGAGG
* *
33583005 AAAGCGCCGCTAATGCTCGATCTTTAGCTGCGTTTTACGT
1 AAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTACGT
* * *
33583045 AAAGTGCCACTAATGCTCGATTTTTAGCGGTGTTTT
1 AAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTT
33583081 TTGTCTAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
AAAGCGCCACTAATGCTCGATCTTTAGCGGCGTTTTACGT
Found at i:33584255 original size:7 final size:8
Alignment explanation
Indices: 33584210--33584260 Score: 66
Period size: 8 Copynumber: 6.0 Consensus size: 8
33584200 GATATTATAA
33584210 AAAATTAT
1 AAAATTAT
33584218 AAAATTAT
1 AAAATTAT
*
33584226 AAAACTAT
1 AAAATTAT
33584234 AAACATTATT
1 AAA-ATTA-T
33584244 AAAATTAT
1 AAAATTAT
33584252 AAATATTAT
1 AAA-ATTAT
33584261 TAATTGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
8 22 0.58
9 12 0.32
10 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:33584261 original size:18 final size:18
Alignment explanation
Indices: 33584187--33584263 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
33584177 TTTTAAAGCC
33584187 TAAACATTATTAAGATATTAT
1 TAAA-ATTA-TAA-ATATTAT
*
33584208 AAAAAATTATAAA-ATTA-
1 -TAAAATTATAAATATTAT
* *
33584225 TAAAACTATAAACATTAT
1 TAAAATTATAAATATTAT
33584243 TAAAATTATAAATATTAT
1 TAAAATTATAAATATTAT
33584261 TAA
1 TAA
33584264 TTGATTATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.21
17 4 0.08
18 23 0.48
19 1 0.02
20 3 0.06
21 4 0.08
22 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (18 bp):
TAAAATTATAAATATTAT
Found at i:33584351 original size:22 final size:21
Alignment explanation
Indices: 33584303--33584372 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
33584293 TAAATGTTAG
*
33584303 AAAAATTT-TAGAAATTATATAA
1 AAAAATTTATA-AAATT-TATTA
*
33584325 AAAAATGTTATAAAATTTATTTT
1 AAAAAT-TTATAAAATTTA-TTA
*
33584348 AAAAATTTATAAATTTTATTA
1 AAAAATTTATAAAATTTATTA
33584369 AAAA
1 AAAA
33584373 TATTAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.15
22 19 0.46
23 14 0.34
24 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
AAAAATTTATAAAATTTATTA
Found at i:33584363 original size:21 final size:21
Alignment explanation
Indices: 33584325--33584389 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
33584315 AATTATATAA
* *
33584325 AAAAATGTTATAAAATTTATTTT
1 AAAAATATTAT-AAATTT-TATT
33584348 AAAAAT-TTATAAATTTTATT
1 AAAAATATTATAAATTTTATT
*
33584368 AAAAATATTAAAAATTGTTATT
1 AAAAATATTATAAATT-TTATT
33584390 TTGAAGGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 9 0.24
21 14 0.37
22 9 0.24
23 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
AAAAATATTATAAATTTTATT
Found at i:33588230 original size:44 final size:44
Alignment explanation
Indices: 33588181--33588285 Score: 192
Period size: 44 Copynumber: 2.4 Consensus size: 44
33588171 AAGACTTATA
33588181 TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTGCTT
*
33588225 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTGCTT
*
33588269 TCTTCGATCTACTCCAC
1 TCTTTGATCTACTCCAC
33588286 CACCAGTATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (44 bp):
TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:33588546 original size:44 final size:44
Alignment explanation
Indices: 33588485--33588633 Score: 163
Period size: 44 Copynumber: 3.4 Consensus size: 44
33588475 AAGACAGAAC
* *
33588485 CTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGAT
1 CTACTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
* * * * *** *
33588529 CTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGAT
1 CTACTTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGAT
* * **
33588574 TTGCTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
1 CTACTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
33588618 CTACTTTCTTTGATCT
1 CTACTTTCTTTGATCT
33588634 GCTTTGCCAC
Statistics
Matches: 78, Mismatches: 26, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
44 47 0.60
45 31 0.40
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (44 bp):
CTACTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT
Found at i:33588611 original size:133 final size:132
Alignment explanation
Indices: 33588186--33588633 Score: 332
Period size: 133 Copynumber: 3.4 Consensus size: 132
33588176 TTATATCTTT
* * * *
33588186 GATCTACTCCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAGTACA
1 GATCTACTCCACGCCAGTACAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACA
* * * * **
33588251 TGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGATAGAATTACTGGCT
66 TGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGAAAGATTTGCTACCT
33588316 TC
131 TC
* * * * * * ** * * * * ** *
33588318 AATATACTCCACTGCAACTTCAGGGAGGTAAAATCC-ACCATCTTTGATCTGCTCCACTACTGCT
1 GATCTACTCCAC-GCCAGTACAGGAAGACAAGA-CCTACTATCTTTGATCTACTTCACGCCAG-T
* * * * ** * * * * *
33588382 -TAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCACCAGTATGGGAAGATAAGATATG-T
63 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGA-AAGATTTGCT
**
33588445 ATATTC
127 ACCTTC
* * * *
33588451 GATCCACTTTGCTAC-CGA-TATAGGAAGAC-AGAACCTACTATCTTTGATCTACTTCACGCCAG
1 GATCTAC--T-CCACGCCAGTACAGGAAGACAAG-ACCTACTATCTTTGATCTACTTCACGCCAG
* *
33588513 TACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGC
62 TACATGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGA-AAGATTTGC
*
33588578 TACCTTT
126 TACCTTC
* * * *
33588585 GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCT
1 GATCTACTCCACGCCAGTACAGGAAGACAAGACCTACTATCTTTGATCT
33588634 GCTTTGCCAC
Statistics
Matches: 223, Mismatches: 79, Indels: 27
0.68 0.24 0.08
Matches are distributed among these distances:
131 2 0.01
132 17 0.08
133 180 0.81
134 20 0.09
135 1 0.00
136 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
GATCTACTCCACGCCAGTACAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACA
TGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGAAAGATTTGCTACCT
TC
Found at i:33588644 original size:89 final size:89
Alignment explanation
Indices: 33588492--33588667 Score: 262
Period size: 89 Copynumber: 2.0 Consensus size: 89
33588482 AACCTACTAT
* *
33588492 CTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCA
* *
33588557 GTATGGGGAGACAAGATTTGCTAC
66 GTATGGGAAGACAAGATCTGCTAC
* * *** *
33588581 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTTGCCACCG
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCA
33588646 GTATGGGAAGACAAGATCTGCT
66 GTATGGGAAGACAAGATCTGCT
33588668 GCTTTTCAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCA
GTATGGGAAGACAAGATCTGCTAC
Found at i:33596759 original size:20 final size:20
Alignment explanation
Indices: 33596734--33596773 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33596724 TAAAGGTCTT
33596734 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
33596754 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
33596774 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:33601382 original size:10 final size:9
Alignment explanation
Indices: 33601367--33601409 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
33601357 TTGTTATCTT
33601367 AAATGAAATA
1 AAATGAAA-A
33601377 AAATGAAAA
1 AAATGAAAA
*
33601386 TAAAGGAAAA
1 -AAATGAAAA
*
33601396 AAATAAAAA
1 AAATGAAAA
33601405 AAATG
1 AAATG
33601410 TAAACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (9 bp):
AAATGAAAA
Found at i:33603193 original size:20 final size:18
Alignment explanation
Indices: 33603149--33603232 Score: 55
Period size: 20 Copynumber: 4.4 Consensus size: 18
33603139 TAATTATTTG
* *
33603149 TAAAATTTAATTTCAATA
1 TAAAATTAAATTTAAATA
33603167 TATAAATTAAATATTAAATA
1 TA-AAATTAAAT-TTAAATA
33603187 TTAAAATT--ATTTAAAATA
1 -TAAAATTAAATTT-AAATA
*
33603205 TAACCATTACAAATTTAAATA
1 TAA-AATT--AAATTTAAATA
*
33603226 TATAATT
1 TAAAATT
33603233 TTATATATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
17 5 0.10
18 12 0.23
19 8 0.15
20 14 0.27
21 9 0.17
22 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTAAATTTAAATA
Found at i:33603561 original size:41 final size:41
Alignment explanation
Indices: 33603469--33603579 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
33603459 CGTTTGGACA
* *
33603469 AAAAACGCCGCAAAATA-TCTAACAGTAGCAGCGTTTTTCTC
1 AAAAACGCCGCAAAA-AGTCTAACAGTAGCAGCGTTTATCAC
* * * * *
33603510 ATAAATGCCGCAAAAAGTCTAACAGTAGCGGCGTTTATGAG
1 AAAAACGCCGCAAAAAGTCTAACAGTAGCAGCGTTTATCAC
* *
33603551 AAAAACGCCGCAAAAAGTCAAACATTAGC
1 AAAAACGCCGCAAAAAGTCTAACAGTAGC
33603580 TCCTTGTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 1 0.02
41 57 0.98
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCAAAAAGTCTAACAGTAGCAGCGTTTATCAC
Found at i:33609190 original size:40 final size:40
Alignment explanation
Indices: 33609118--33609368 Score: 319
Period size: 40 Copynumber: 6.3 Consensus size: 40
33609108 ATTTGAATGA
* *
33609118 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
33609158 TATCTGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
33609198 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
33609238 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
33609278 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
33609318 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
33609358 TATCC-GGCTAA
1 TATCCGGGCTAA
33609369 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 182 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:33612681 original size:43 final size:43
Alignment explanation
Indices: 33612620--33612779 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
33612610 CCTTGGTCGA
*
33612620 GGAAAGCGCCGCTAAAGGTCATGTTTTATAGTGGCGTTTATGG
1 GGAAAGCACCGCTAAAGGTCATGTTTTATAGTGGCGTTTATGG
* * *
33612663 GGAAAGCACCGTTAAAGGTCATGTTCTT-TAGCGGCGTTTGTGG
1 GGAAAGCACCGCTAAAGGTCATGTT-TTATAGTGGCGTTTATGG
* * *** *
33612706 GAAAAGCGCCGCTAAAGGTCATGTTTTATAGTGATATTTTTGTG
1 GGAAAGCACCGCTAAAGGTCATGTTTTATAGTGGCGTTTATG-G
* *
33612750 AGAAA-CACCGCTAAAGGTCATGTTCTATAG
1 GGAAAGCACCGCTAAAGGTCATGTTTTATAG
33612780 CGGCATTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.02
43 90 0.92
44 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
GGAAAGCACCGCTAAAGGTCATGTTTTATAGTGGCGTTTATGG
Found at i:33612767 original size:86 final size:86
Alignment explanation
Indices: 33612622--33612783 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 86
33612612 TTGGTCGAGG
* * * *
33612622 AAAGCGCCGCTAAAGGTCATGTTTTATAGTGGCGTTTATGGGGAAAGCACCGTTAAAGGTCATGT
1 AAAGCGCCGCTAAAGGTCATGTTTTATAGTGACATTTATGGAGAAAGCACCGCTAAAGGTCATGT
*
33612687 TCTTTAGCGGCGTTTGTGGGA
66 TCTATAGCGGCGTTTGTGGGA
* *
33612708 AAAGCGCCGCTAAAGGTCATGTTTTATAGTGATATTTTTGTGAGAAA-CACCGCTAAAGGTCATG
1 AAAGCGCCGCTAAAGGTCATGTTTTATAGTGACATTTATG-GAGAAAGCACCGCTAAAGGTCATG
33612772 TTCTATAGCGGC
65 TTCTATAGCGGC
33612784 ATTTTTCCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 63 0.93
87 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCATGTTTTATAGTGACATTTATGGAGAAAGCACCGCTAAAGGTCATGT
TCTATAGCGGCGTTTGTGGGA
Found at i:33616822 original size:31 final size:31
Alignment explanation
Indices: 33616785--33616853 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
33616775 AAAAAAGAAA
*
33616785 TCATTTTAGGCACTGTGGTAAAAAACTATTT
1 TCATTTTACGCACTGTGGTAAAAAACTATTT
* * * * *
33616816 TCATTTTACGTATTGTTGTTAAAAATTATTT
1 TCATTTTACGCACTGTGGTAAAAAACTATTT
33616847 TCATTTT
1 TCATTTT
33616854 GATCACCCGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (31 bp):
TCATTTTACGCACTGTGGTAAAAAACTATTT
Found at i:33617511 original size:19 final size:20
Alignment explanation
Indices: 33617489--33617529 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
33617479 AAAAAAAACT
*
33617489 AAAATTAATTCAAAA-ATAA
1 AAAATAAATTCAAAAGATAA
33617508 AAAATAAATTCAAAAGATAA
1 AAAATAAATTCAAAAGATAA
33617528 AA
1 AA
33617530 TAAGTGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAAATTCAAAAGATAA
Found at i:33617530 original size:18 final size:17
Alignment explanation
Indices: 33617482--33617532 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
33617472 TTTTACTAAA
*
33617482 AAAAACTAAAATTAATTC
1 AAAAA-TAAAATAAATTC
33617500 AAAAATAAAAAATAAATTC
1 AAAAAT--AAAATAAATTC
33617519 AAAAGATAAAATAA
1 AAAA-ATAAAATAA
33617533 GTGACAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 14 0.48
20 2 0.07
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAATAAAATAAATTC
Found at i:33619955 original size:19 final size:18
Alignment explanation
Indices: 33619922--33619969 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
33619912 AGTTGAGAGA
**
33619922 TGAGAGAATGATGAACGAG
1 TGAG-GAATGATGAAAAAG
33619941 TGAGGAATGATTGAAAAAG
1 TGAGGAATGA-TGAAAAAG
*
33619960 TGAGAAATGA
1 TGAGGAATGA
33619970 ACTCTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.33, T:0.19
Consensus pattern (18 bp):
TGAGGAATGATGAAAAAG
Found at i:33635386 original size:4 final size:4
Alignment explanation
Indices: 33635377--33635404 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33635367 AAGTTTTATT
33635377 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33635405 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:33639364 original size:44 final size:43
Alignment explanation
Indices: 33639254--33639369 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 43
33639244 AGCTTGTACA
* * * *
33639254 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
* *
33639297 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGT-AATC-AAACATCG
**
33639341 ATGCCAATGTCTTAGACGTGGTCTT-CACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
33639370 ATAACTCATA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 30 0.50
44 28 0.47
45 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
Found at i:33645594 original size:28 final size:27
Alignment explanation
Indices: 33645537--33645688 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
33645527 TAAATTGTGC
* *
33645537 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
33645564 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
33645592 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33645619 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* * *
33645647 AGCAGTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33645674 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33645689 GACTTAATAA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:33645602 original size:55 final size:55
Alignment explanation
Indices: 33645537--33645688 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
33645527 TAAATTGTGC
* *
33645537 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
33645592 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
33645647 AGCAGTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
33645689 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:33667871 original size:40 final size:40
Alignment explanation
Indices: 33667827--33667974 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
33667817 GCAAACACAT
* * *
33667827 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33667867 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
33667907 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33667947 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
33667975 TCCAGTGCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:33671551 original size:26 final size:25
Alignment explanation
Indices: 33671522--33671570 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33671512 GCAAAATAGA
* *
33671522 GATAGTCTATTGGGGCAGTAAATAAG
1 GATA-TCTACTGGGACAGTAAATAAG
*
33671548 GATATCTGCTGGGACAGTAAATA
1 GATATCTACTGGGACAGTAAATA
33671571 CAGAACAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (25 bp):
GATATCTACTGGGACAGTAAATAAG
Found at i:33671594 original size:33 final size:32
Alignment explanation
Indices: 33671548--33671612 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
33671538 AGTAAATAAG
*
33671548 GATATCTGCTGGGACAGTAAATACAGAACAGA
1 GATATCTGCTGGGACAGTAAACACAGAACAGA
*
33671580 GATAGTCTGCTGGGACAGTAAACACATAACAGA
1 GATA-TCTGCTGGGACAGTAAACACAGAACAGA
33671613 TAGTCCATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (32 bp):
GATATCTGCTGGGACAGTAAACACAGAACAGA
Found at i:33676424 original size:6 final size:6
Alignment explanation
Indices: 33676413--33676442 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
33676403 ATCTTGTGGC
33676413 AAAAAG AAAAAG AAAAA- AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
33676443 TGGTAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33676433 original size:11 final size:12
Alignment explanation
Indices: 33676413--33676442 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
33676403 ATCTTGTGGC
33676413 AAAAAGAAAAAG
1 AAAAAGAAAAAG
33676425 AAAAA-AAAAAG
1 AAAAAGAAAAAG
33676436 AAAAAGA
1 AAAAAGA
33676443 TGGTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:33679502 original size:17 final size:17
Alignment explanation
Indices: 33679480--33679512 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33679470 TTTCGCAGAC
33679480 TTAGAGTTTGACACTTT
1 TTAGAGTTTGACACTTT
33679497 TTAGAGTTTGACACTT
1 TTAGAGTTTGACACTT
33679513 GCTTCAATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (17 bp):
TTAGAGTTTGACACTTT
Found at i:33685243 original size:27 final size:27
Alignment explanation
Indices: 33685213--33685390 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33685203 ATATTGAGCC
* * * *
33685213 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33685240 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33685267 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33685295 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33685322 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33685349 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33685376 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33685391 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33685352 original size:82 final size:81
Alignment explanation
Indices: 33685234--33685389 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33685224 TGCTATATAA
* *
33685234 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33685299 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33685316 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33685380 CACTTAGTGC
65 CACTTAGTGC
33685390 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33687270 original size:40 final size:40
Alignment explanation
Indices: 33687226--33687413 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
33687216 GCAAACACAT
* * *
33687226 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33687266 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33687306 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
33687346 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33687386 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
33687414 TCCAATGCTC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:33690775 original size:76 final size:78
Alignment explanation
Indices: 33690649--33690791 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 78
33690639 TTGGACTTGG
* * * *
33690649 TTAAAGGTATGAATGTTATATATATGTATATGTGAGTTGGAACATATATGTATATACATGAATAA
1 TTAAAGGTATGAATGATATATATATGTATATGTAAATTCGAACATATATGTATATACATGAATAA
33690714 GTCTTGAATATAT
66 GTCTTGAATATAT
* * * *
33690727 TTAAAGGTATGAAT-AT-TATGTATGTATATGTAAATTCGAATATGTATGTATATACATGTATAA
1 TTAAAGGTATGAATGATATATATATGTATATGTAAATTCGAACATATATGTATATACATGAATAA
33690790 GT
66 GT
33690792 TTTTGTATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 42 0.74
77 1 0.02
78 14 0.25
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.41
Consensus pattern (78 bp):
TTAAAGGTATGAATGATATATATATGTATATGTAAATTCGAACATATATGTATATACATGAATAA
GTCTTGAATATAT
Found at i:33691290 original size:41 final size:40
Alignment explanation
Indices: 33691216--33691336 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 40
33691206 TTAGTGAAAT
* *
33691216 AATTT-AGACTTTACGTCTAGCAGGCT-TGATGCCGGTGAA
1 AATTTCAGACTTTAAGTCTAGCAGGCTAAG-TGCCGGTGAA
* *
33691255 ACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGTGTACA
1 A-ATTTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTG-A-A
* * * *
33691298 AA-ATCAGGCTTTAAGCCTAGTAGGCTAAGTGCCGGTGAA
1 AATTTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAA
33691337 TCTGTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 56 0.82
42 3 0.04
43 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (40 bp):
AATTTCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAA
Found at i:33695668 original size:29 final size:29
Alignment explanation
Indices: 33695636--33695710 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
33695626 TGTTTCTATT
* *
33695636 AAAAA-GAGAGAATTTTCGTTTTCATCCC
1 AAAAAGGAGAGAATTTTCATTTTCACCCC
* *
33695664 AAAAAGGAGAGAATTTTTATTTTTACCCC
1 AAAAAGGAGAGAATTTTCATTTTCACCCC
33695693 AAAAAGGAGAGAACTTTT
1 AAAAAGGAGAGAA-TTTT
33695711 TTTTAATTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 32 0.78
30 4 0.10
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
AAAAAGGAGAGAATTTTCATTTTCACCCC
Found at i:33698297 original size:14 final size:14
Alignment explanation
Indices: 33698274--33698306 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33698264 TTCATTAAAC
33698274 TACAGAGGCCCAAA
1 TACAGAGGCCCAAA
*
33698288 TACAGTGGCCCAAA
1 TACAGAGGCCCAAA
33698302 -ACAGA
1 TACAGA
33698307 TGAAAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.42, C:0.27, G:0.21, T:0.09
Consensus pattern (14 bp):
TACAGAGGCCCAAA
Found at i:33701970 original size:30 final size:30
Alignment explanation
Indices: 33701936--33701992 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
33701926 TGACGTGCTT
*
33701936 TAATGATTCGGAATTATTTTTAAGATCTAA
1 TAATGATTCAGAATTATTTTTAAGATCTAA
*
33701966 TAATGATTCAGATTTATTTTTAAGATC
1 TAATGATTCAGAATTATTTTTAAGATC
33701993 CATTAGATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (30 bp):
TAATGATTCAGAATTATTTTTAAGATCTAA
Found at i:33706112 original size:29 final size:29
Alignment explanation
Indices: 33706071--33706126 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
33706061 ATACTATACC
* *
33706071 ATATATTATATTTTAAGGTATTAGATTGT
1 ATATATTATATTTCAAGATATTAGATTGT
*
33706100 ATATATTATATTTCAAGATTTTAGATT
1 ATATATTATATTTCAAGATATTAGATT
33706127 CCTAGTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (29 bp):
ATATATTATATTTCAAGATATTAGATTGT
Found at i:33707211 original size:5 final size:5
Alignment explanation
Indices: 33707160--33707196 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
33707150 CTACTACATT
* *
33707160 ATATA ATATT ATATC ATATC ATATC ATATC ATATC AT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC AT
33707197 GTAGTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:33707867 original size:124 final size:125
Alignment explanation
Indices: 33707551--33707867 Score: 512
Period size: 126 Copynumber: 2.5 Consensus size: 125
33707541 GATAAACTCA
* * *
33707551 AAGCAGGATGCTTTATCAGAAGAATTTCT-AAAGTCACGCCCACGTGGACGCGCTTTTGCTACAA
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAA-TCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
33707615 TAGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAATGTTTC
65 TAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAAACGCTTC
* *
33707677 AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
33707742 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
*
33707801 AAGCAAGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
33707866 AG
66 AG
33707868 CATGTTTGGG
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
124 73 0.41
126 102 0.57
127 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
Found at i:33709102 original size:11 final size:12
Alignment explanation
Indices: 33709083--33709123 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
33709073 TAAAAATAGG
*
33709083 AATTTAAGAG-A
1 AATTGAAGAGAA
33709094 AATTGAAGAGAA
1 AATTGAAGAGAA
*
33709106 AATTG-AGAGCA
1 AATTGAAGAGAA
33709117 AATTGAA
1 AATTGAA
33709124 ATTAAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (12 bp):
AATTGAAGAGAA
Found at i:33709131 original size:51 final size:51
Alignment explanation
Indices: 33709070--33709173 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 51
33709060 TTTTTTAAAT
*
33709070 AATTAAAAATAGGAATTTAAGAGAAA-TT-GAAGAGAAAATTGAGAGCAAATTGA
1 AATTAAATAT-GG-ATTTAAGAGAAATTTGGAAG-G-AAATTGAGAGCAAATTGA
*
33709123 AATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AATTAAATATGGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
33709174 GAAAATAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
51 29 0.62
52 5 0.11
53 13 0.28
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.25
Consensus pattern (51 bp):
AATTAAATATGGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
Found at i:33710753 original size:18 final size:19
Alignment explanation
Indices: 33710730--33710769 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
33710720 ACAATATCAT
*
33710730 ATAGTATATA-ATATATTA
1 ATAGTATATATATATATGA
33710748 ATAGTATATATATATATGA
1 ATAGTATATATATATATGA
33710767 ATA
1 ATA
33710770 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
ATAGTATATATATATATGA
Found at i:33710760 original size:234 final size:230
Alignment explanation
Indices: 33710378--33711081 Score: 740
Period size: 234 Copynumber: 2.9 Consensus size: 230
33710368 TAATATAATC
* * *
33710378 ATTATTATCATATATTATTATTTATGATTATAATGCTTGAAATATGCTTTAAGTCCCTATTTCCC
1 ATTATTATCATATATTATTATTTATTATTATAATGGTTGAAATATGCTTTAAGTCCC---TT-CA
* * *
33710443 TACATTTGAAAGTTAACCCTTCTACTTTATTATATAATTCTATATTATATCATATAGTATATAAT
62 TACATTTGAAAGTTAA-CCTCCTACTATATTATATAA-TCCATA--ATATCATATAGTATATAAT
*
33710508 ATATTAATAGTTTATATATATATGCATCAATGATTAAACATTATAATATAATGTAATATTACATC
123 ATATTAATAG-TTATATATATATGCATCAATGATTAAACATTATAATATAATGTAATATTATATC
* *
33710573 TTTTATTACATTCTATAATATAATAGTAGTACA-ATATATATTA-
187 TTTTATTATA-TCTATAATATAATAATAGTACATATATATATTAT
* * * * *
33710616 ATTATTATCATATATTTTTATTTATTATTATACTGGTTGAAATATGCTCTAAATCCCTTCATATA
1 ATTATTATCATATATTATTATTTATTATTATAATGGTTGAAATATGCTTTAAGTCCCTTCATACA
*
33710681 TTTGAAAGTTAGCCATCCTACTATATTATATAATACCATACAATATCATATAGTATATAATATAT
66 TTTGAAAGTTAACC-TCCTACTATATTATATAAT-CCAT--AATATCATATAGTATATAATATAT
* * *
33710746 TAATAGTATATATATATATGAAT-ATATTATTAAACATTATAATATAATGTAATACTATATCTTT
127 TAATAGT-TATATATATATGCATCA-ATGATTAAACATTATAATATAATGTAATATTATATCTTT
33710810 TATTATATCTATAATATAATAATAGTACATTATATATATTAGTT
190 TATTATATCTATAATATAATAATAGTACA-TATATATATTA--T
* * *
33710854 ATTATAAAAAAAATATTATATATTATTGTTTATTATTATATTGGTTGAAATATGCTTTAAGTCCC
1 ATTAT--------TATCATATATTATTATTTATTATTATAATGGTTGAAATATGCTTTAAGTCCC
* * * *
33710919 TATAATTTTTCTACATTTCAAAGTTAATCCTCCTATTATATTATATAATGC-T-ATATCATAT--
58 T-TCA------TACATTTGAAAGTTAA-CCTCCTACTATATTATATAATCCATAATATCATATAG
* * * * *
33710980 CATATAATATGTTAATAGTT-TATAAATATGCATCAATGATTAAACATTATAATATCATGTAATG
115 TATATAATATATTAATAGTTATATATATATGCATCAATGATTAAACATTATAATATAATGTAATA
*
33711044 TTATATTTTTTTATTATAATCTATAATATAATAATAGT
180 TTATA-TCTTTTATTAT-ATCTATAATATAATAATAGT
33711082 TATATAAATA
Statistics
Matches: 397, Mismatches: 39, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
233 26 0.07
234 119 0.30
235 12 0.03
236 1 0.00
238 56 0.14
244 41 0.10
245 12 0.03
246 84 0.21
247 2 0.01
248 9 0.02
251 1 0.00
252 1 0.00
253 31 0.08
254 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (230 bp):
ATTATTATCATATATTATTATTTATTATTATAATGGTTGAAATATGCTTTAAGTCCCTTCATACA
TTTGAAAGTTAACCTCCTACTATATTATATAATCCATAATATCATATAGTATATAATATATTAAT
AGTTATATATATATGCATCAATGATTAAACATTATAATATAATGTAATATTATATCTTTTATTAT
ATCTATAATATAATAATAGTACATATATATATTAT
Found at i:33711155 original size:248 final size:244
Alignment explanation
Indices: 33710680--33711264 Score: 620
Period size: 248 Copynumber: 2.3 Consensus size: 244
33710670 CCCTTCATAT
* ** * *
33710680 ATTTGAAAGTTAGCCATCCTACTATATTATATAATACCATACAATATCATATAGTATATAATATA
1 ATTTCAAAGTTAATCATCCTACTATATTATATAAT--GAT---ATATCATAT--CATATAATATA
* *
33710745 TTAATAGTATATATATATATGAAT-ATATTATTAAACATTATAATATAATGTAATACTATATCTT
59 TTAATAGT-T-TATATATATGCATCA-ATGATTAAACATTATAATATAATGTAATACTATATCTT
* * * *
33710809 TTATTATATCTATAATATAATAATAGTACATTATATATATTAGTTATTATAAAAAAAATATTATA
121 TTATTATATCTATAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAAAAATATTACA
* ** * * *
33710874 TATTATTGTTTATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATAATTTTTC-TAC
186 TATTATTGTTTATTATTATACTAATTGAAATATGCTCTAAGTCCCTAT-ACTTTTCGTAA
* * * *
33710933 ATTTCAAAGTTAATCCTCCTATTATATTATATAATGCTATATCATATCATATAATATGTTAATAG
1 ATTTCAAAGTTAATCATCCTACTATATTATATAATGATATATCATATCATATAATATATTAATAG
* * ** *
33710998 TTTATAAATATGCATCAATGATTAAACATTATAATATCATGTAATGTTATATTTTTTTATTATAA
66 TTTATATATATGCATCAATGATTAAACATTATAATATAATGTAATACTATA-TCTTTTATTAT-A
* * * * *
33711063 TCTATAATATAATAATAGT-TA-TATAAATAGTAGTGCATTATATATTACATATTTTTACATATT
129 TCTATAATATAATAATAGTACATTATAAATAGTAGT-CATTATA-A--AAAAAATATTACATATT
* * *
33711126 TTTGTTTATTATTCTACTAATTGAAATATGCTCTAAGTCCTTATACTTTTCGTAA
190 ATTGTTTATTATTATACTAATTGAAATATGCTCTAAGTCCCTATACTTTTCGTAA
* * * * *
33711181 ATTTGAAAGTTAGTCATCTTACTATATTATATAATGATATATCCTATCATATAATTTATTAATAG
1 ATTTCAAAGTTAATCATCCTACTATATTATATAATGATATATCATATCATATAATATATTAATAG
* *
33711246 TATATATACATGCATCAAT
66 TTTATATATATGCATCAAT
33711265 TATTTTTCTT
Statistics
Matches: 278, Mismatches: 46, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
244 52 0.19
245 19 0.07
246 38 0.14
247 6 0.02
248 132 0.47
251 1 0.00
253 30 0.11
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (244 bp):
ATTTCAAAGTTAATCATCCTACTATATTATATAATGATATATCATATCATATAATATATTAATAG
TTTATATATATGCATCAATGATTAAACATTATAATATAATGTAATACTATATCTTTTATTATATC
TATAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAAAAATATTACATATTATTGTT
TATTATTATACTAATTGAAATATGCTCTAAGTCCCTATACTTTTCGTAA
Found at i:33714867 original size:37 final size:37
Alignment explanation
Indices: 33714826--33714899 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
33714816 GAAGAGCATG
33714826 TACATCTTTTCTATTTTTCCTCAAACTTTGATCACCA
1 TACATCTTTTCTATTTTTCCTCAAACTTTGATCACCA
* *
33714863 TACATCTTTTGTATTTTTCCTTAAACTTTGATCACCA
1 TACATCTTTTCTATTTTTCCTCAAACTTTGATCACCA
33714900 AGACTAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.47
Consensus pattern (37 bp):
TACATCTTTTCTATTTTTCCTCAAACTTTGATCACCA
Found at i:33721745 original size:88 final size:84
Alignment explanation
Indices: 33721571--33721776 Score: 259
Period size: 84 Copynumber: 2.4 Consensus size: 84
33721561 ATGACGTATC
* * * * *
33721571 GACGACCGTTGAATATGAAAACGAATAGTTTCGACTATCGACTATGAAAAGGGATGGTAACCATC
1 GACGACCATCGAATATGAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGCAACCATC
33721636 AACTATGAAAAAGGATGGT
66 AACTATGAAAAAGGATGGT
* *
33721655 GACGACCATCGAATATGAAAAGGGATAGTTTCGACTATTGATTAATGAAAAGGGATTGTGACAAC
1 GACGACCATCGAATATGAAAAGGGATAGTTTCGACTATCGACT-ATGAAAAGGGA-TG-G-CAAC
*
33721720 CATCAACTATGAAAAGGGATGGT
62 CATCAACTATGAAAAAGGATGGT
* * * *
33721743 GACGACAATGGATTAATGAAAAGGGATGGTTTCG
1 GACGACCATCGAAT-ATGAAAAGGGATAGTTTCG
33721777 GCCATCGTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
84 37 0.35
85 11 0.10
86 2 0.02
87 1 0.01
88 36 0.34
89 18 0.17
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (84 bp):
GACGACCATCGAATATGAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGCAACCATC
AACTATGAAAAAGGATGGT
Found at i:33721764 original size:30 final size:29
Alignment explanation
Indices: 33721602--33721772 Score: 150
Period size: 29 Copynumber: 5.9 Consensus size: 29
33721592 CGAATAGTTT
* *
33721602 CGACTATCGACTATGAAAAGGGATGGT-A
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * *
33721630 --ACCATCAACTATGAAAAAGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * **
33721657 CGACCATCGAATATGAAAAGGGATAGTTT
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * *
33721686 CGACTATTGATTAATGAAAAGGGATTGTGA
1 CGACCATCGATT-ATGAAAAGGGATGGTGA
* * *
33721716 CAACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGA
* *
33721745 CGACAATGGATTAATGAAAAGGGATGGT
1 CGACCATCGATT-ATGAAAAGGGATGGT
33721773 TTCGGCCATC
Statistics
Matches: 112, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
26 22 0.20
27 1 0.01
29 53 0.47
30 36 0.32
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (29 bp):
CGACCATCGATTATGAAAAGGGATGGTGA
Found at i:33721782 original size:59 final size:59
Alignment explanation
Indices: 33721640--33721772 Score: 178
Period size: 59 Copynumber: 2.3 Consensus size: 59
33721630 ACCATCAACT
* ** * *
33721640 ATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGTTTCGACTATTGATTA
1 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGTGACGACAATGGATTA
* * *
33721699 ATGAAAAGGGATTGTGACAACCATC-AACTATGAAAAGGGATGGTGACGACAATGGATTA
1 ATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATAGTGACGACAATGGATTA
33721758 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
33721773 TTCGGCCATC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.03
59 62 0.97
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.23
Consensus pattern (59 bp):
ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGTGACGACAATGGATTA
Found at i:33726398 original size:16 final size:16
Alignment explanation
Indices: 33726377--33726423 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
33726367 TTTTAGTTGT
33726377 TAGCTTGAGTTCTACC
1 TAGCTTGAGTTCTACC
*
33726393 TAGCTTGAGTTGT---
1 TAGCTTGAGTTCTACC
33726406 TAGCTTGAGTTCTACC
1 TAGCTTGAGTTCTACC
33726422 TA
1 TA
33726424 ACTTTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 12 0.46
16 14 0.54
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (16 bp):
TAGCTTGAGTTCTACC
Found at i:33726411 original size:13 final size:13
Alignment explanation
Indices: 33726371--33726416 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
33726361 TGCATGTTTT
33726371 AGTTGTTAGCTTG
1 AGTTGTTAGCTTG
*
33726384 AGTTCTACCTAGCTTG
1 AGTTGT---TAGCTTG
33726400 AGTTGTTAGCTTG
1 AGTTGTTAGCTTG
33726413 AGTT
1 AGTT
33726417 CTACCTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 16 0.57
16 12 0.43
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (13 bp):
AGTTGTTAGCTTG
Found at i:33727066 original size:40 final size:40
Alignment explanation
Indices: 33726989--33727165 Score: 175
Period size: 40 Copynumber: 4.4 Consensus size: 40
33726979 CTGTCCGGGC
* * * *
33726989 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT-TCCGGAT
*
33727029 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
* * *
33727069 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGA-
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCC-GGAT
* * *
33727109 TAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATT-AATTCCGGAT
33727149 TAAGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
33727166 GTATGAGTTA
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
39 4 0.03
40 99 0.86
41 12 0.10
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
Done.