Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 27 of 187
Found at i:8885396 original size:16 final size:15
Alignment explanation
Indices: 8885371--8885409 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8885361 GTTGCGGTTG
8885371 AAAAATATTTTTATA
1 AAAAATATTTTTATA
*
8885386 AAAATATATTTTTCTA
1 AAAA-ATATTTTTATA
8885402 AAATAATA
1 AAA-AATA
8885410 AAAAAGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 16 0.76
17 1 0.05
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAAATATTTTTATA
Found at i:8886459 original size:166 final size:166
Alignment explanation
Indices: 8886054--8886443 Score: 611
Period size: 166 Copynumber: 2.3 Consensus size: 166
8886044 AAAAGTGCCA
*
8886054 CAAATAATTAAGCAGAACGCCATCGTTTAACTTTGACCTGTACTGGCACTAGCGGCGTTTATCTG
1 CAAATAATTAAGCAGAACGCCATCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTG
** * * * *
8886119 GAAATACCGGTAAAGATCTAGCATTTGCGGCGCTTATAAAACAACGCCGCTAATGATCGGTACAT
66 GAAACGCCGATAAAGATCAAGCAGTTGCGGCGCTTATAAAACAACGCCGCTAAAGATCGGTACAT
*
8886184 TAGCGGCGCTAGGACAAAAACGCCACTAAGGCTCCG
131 TAGCGGCGCTACGACAAAAACGCCACTAAGGCTCCG
* *
8886220 AAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTG
1 CAAATAATTAAGCAGAACGCCATCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTG
8886285 GAAACGCCGATAAAGATCAAGCAGTTGCGGCGCTTATATAAA-AACGCCGCTAAAGATCGGTACA
66 GAAACGCCGATAAAGATCAAGCAGTTGCGGCGCTTATA-AAACAACGCCGCTAAAGATCGGTACA
* * * *
8886349 TTAGCGGCGCTACTATAAAAACGCCACTAATGCTCTG
130 TTAGCGGCGCTACGACAAAAACGCCACTAAGGCTCCG
* * *
8886386 CAAATAACTAAGCAGAACGTCATCGTTTAACTTTGACCCGTAGTGGCACTAGCGGCGT
1 CAAATAATTAAGCAGAACGCCATCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGT
8886444 CTTTATACAA
Statistics
Matches: 204, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 201 0.99
167 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (166 bp):
CAAATAATTAAGCAGAACGCCATCGTTTAACTTTGACCTGTAGTGGCACTAGCGGCGTTTATCTG
GAAACGCCGATAAAGATCAAGCAGTTGCGGCGCTTATAAAACAACGCCGCTAAAGATCGGTACAT
TAGCGGCGCTACGACAAAAACGCCACTAAGGCTCCG
Found at i:8886967 original size:14 final size:14
Alignment explanation
Indices: 8886934--8886970 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8886924 TAGTGTTTAC
8886934 GGTTTAT-GTTGTA
1 GGTTTATGGTTGTA
8886947 GGTTTATGGTT-TA
1 GGTTTATGGTTGTA
8886960 GTGTTTATGGT
1 G-GTTTATGGT
8886971 GTACGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (14 bp):
GGTTTATGGTTGTA
Found at i:8887058 original size:22 final size:22
Alignment explanation
Indices: 8887000--8887059 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
8886990 GTTGAGTGTT
* *
8887000 TAGGGGTGAG-GGCTTAGGGTT
1 TAGGGGTTAGTGGCTTAGGGTC
*
8887021 TAGGGGTTA-TAAGCTTAGGGTC
1 TAGGGGTTAGT-GGCTTAGGGTC
8887043 TAGGGGTTAGTGGCTTA
1 TAGGGGTTAGTGGCTTA
8887060 AGGTTACGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.25
22 23 0.72
23 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.43, T:0.32
Consensus pattern (22 bp):
TAGGGGTTAGTGGCTTAGGGTC
Found at i:8887202 original size:28 final size:28
Alignment explanation
Indices: 8887171--8887233 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
8887161 TAGGGTGTGC
*
8887171 ATTTACGGTTTAA-AGATTAAGGTTTAGG
1 ATTTA-GGTTTAAGAGATTAAGGTTTACG
* * *
8887199 ATTTAGTTTTAAGAGTTTAGGGTTTACG
1 ATTTAGGTTTAAGAGATTAAGGTTTACG
8887227 ATTTAGG
1 ATTTAGG
8887234 GTGTATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.43
Consensus pattern (28 bp):
ATTTAGGTTTAAGAGATTAAGGTTTACG
Found at i:8887351 original size:21 final size:21
Alignment explanation
Indices: 8887304--8887352 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
8887294 AAGGGCTTAT
*
8887304 AGTTTAGGGTTTAAATTTTAT
1 AGTTTAGGGTTTAAATTTTAG
*
8887325 ATTTTAGGGTTT-AATGTTTAG
1 AGTTTAGGGTTTAAAT-TTTAG
*
8887346 GGTTTAG
1 AGTTTAG
8887353 CTAAAAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
AGTTTAGGGTTTAAATTTTAG
Found at i:8887914 original size:79 final size:83
Alignment explanation
Indices: 8887798--8887992 Score: 245
Period size: 79 Copynumber: 2.4 Consensus size: 83
8887788 GGAATAAAAA
* * *
8887798 TGATAGTGGCGTTTTTTAAGAAAACGCCGCAATGATTTATTAAACTTTCCCAACGCGGCG-CG-T
1 TGATAGTGGCGTTTTTTAGGAAAACGCCGCAAGGATTTATTAAAATTTCCCAACGCGGCGCCGTT
** *
8887861 CTGTAC-TGGGAAAAATT
66 CTGTACTTCAGAAAAATC
* * *
8887878 TGATAG-GGCATTTTTTAGGAAAACGCCGCAAGGATTTATTAAAATTTTCCAATGCGGCGCCGTT
1 TGATAGTGGCGTTTTTTAGGAAAACGCCGCAAGGATTTATTAAAATTTCCCAACGCGGCGCCG-T
* *
8887942 TTTGTACTTCATAAAAATC
65 TCTGTACTTCAGAAAAATC
*
8887961 TAATAGTGGCGTTTTTTAGGAAAACGCCGCAA
1 TGATAGTGGCGTTTTTTAGGAAAACGCCGCAA
8887993 AAATGAATTA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 47 0.48
80 8 0.08
82 6 0.06
83 12 0.12
84 24 0.25
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (83 bp):
TGATAGTGGCGTTTTTTAGGAAAACGCCGCAAGGATTTATTAAAATTTCCCAACGCGGCGCCGTT
CTGTACTTCAGAAAAATC
Found at i:8890823 original size:20 final size:20
Alignment explanation
Indices: 8890786--8890913 Score: 116
Period size: 19 Copynumber: 6.2 Consensus size: 20
8890776 ACATAACTTA
8890786 TTAATATATATATTTTAAAAT
1 TTAATATATAT-TTTTAAAAT
*
8890807 TTTATATATATTTTTAAAAT
1 TTAATATATATTTTTAAAAT
8890827 TTAATATATATTTTT-AAAT
1 TTAATATATATTTTTAAAAT
* * **
8890846 TTAATTTAGCGTATTAACTTAACGT
1 TTAATATA---TATT--TTTAAAAT
*
8890871 ATTAATATATATATTTAAAAT
1 -TTAATATATATTTTTAAAAT
*
8890892 TT-ATATATATTTTAAAAAT
1 TTAATATATATTTTTAAAAT
8890911 TTA
1 TTA
8890914 TCAATCATAT
Statistics
Matches: 86, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
19 28 0.33
20 25 0.29
21 15 0.17
22 4 0.05
23 3 0.03
24 2 0.02
25 2 0.02
26 7 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAATATATATTTTTAAAAT
Found at i:8890942 original size:13 final size:13
Alignment explanation
Indices: 8890919--8891000 Score: 64
Period size: 12 Copynumber: 6.3 Consensus size: 13
8890909 ATTTATCAAT
8890919 CATATCATAACTTA
1 CATA-CATAACTTA
8890933 CATACATAACTTA
1 CATACATAACTTA
* *
8890946 AATA-A-AATTTA
1 CATACATAACTTA
* *
8890957 TATATA-AACTTACA
1 CATACATAACTT--A
8890971 CAATACATAACTTA
1 C-ATACATAACTTA
8890985 CATA-ATAACTTA
1 CATACATAACTTA
8890997 CATA
1 CATA
8891001 ACTTATATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.14
12 18 0.32
13 15 0.26
14 7 0.12
15 4 0.07
16 5 0.09
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATACATAACTTA
Found at i:8890988 original size:9 final size:9
Alignment explanation
Indices: 8890974--8891246 Score: 170
Period size: 9 Copynumber: 31.4 Consensus size: 9
8890964 ACTTACACAA
8890974 TACATAACT
1 TACATAACT
8890983 TACATAATAACT
1 TAC---ATAACT
8890995 TACATAACTT
1 TACATAAC-T
*
8891005 ATATATAAACTT
1 -TACAT-AAC-T
*
8891017 ATATATAACT
1 -TACATAACT
*
8891027 TTCATAACT
1 TACATAACT
*
8891036 TAC-TTA--
1 TACATAACT
8891042 TA-ATAACT
1 TACATAACT
8891050 TACATAA--
1 TACATAACT
* *
8891057 TACATAGCC
1 TACATAACT
*
8891066 TACATGACT
1 TACATAACT
8891075 TACATAA--
1 TACATAACT
8891082 TACATAACT
1 TACATAACT
*
8891091 TAAATAACT
1 TACATAACT
8891100 TACATAACT
1 TACATAACT
8891109 TACATAACT
1 TACATAACT
*
8891118 TACATAGCT
1 TACATAACT
*
8891127 TACAT-TC-
1 TACATAACT
*
8891134 TACACAACT
1 TACATAACT
8891143 TACATAA-T
1 TACATAACT
8891151 ATACATAA--
1 -TACATAACT
*
8891159 TACACAACT
1 TACATAACT
*
8891168 TACATAACA
1 TACATAACT
8891177 TACATAA--
1 TACATAACT
8891184 TACATAACT
1 TACATAACT
*
8891193 TACATAGCT
1 TACATAACT
*
8891202 AACATAA--
1 TACATAACT
* *
8891209 AATATAACT
1 TACATAACT
8891218 TACATAACT
1 TACATAACT
*
8891227 TATATAA--
1 TACATAACT
8891234 TACATAACT
1 TACATAACT
8891243 TACA
1 TACA
8891247 CAATTTACTG
Statistics
Matches: 210, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
6 4 0.02
7 42 0.20
8 7 0.03
9 128 0.61
10 2 0.01
11 7 0.03
12 20 0.10
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:8891021 original size:10 final size:11
Alignment explanation
Indices: 8890977--8891027 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
8890967 TACACAATAC
*
8890977 ATAACTTACAT
1 ATAACTTATAT
*
8890988 AATAAC-T-TAC
1 -ATAACTTATAT
8890998 ATAACTTATAT
1 ATAACTTATAT
8891009 ATAAACTTATAT
1 AT-AACTTATAT
8891021 ATAACTT
1 ATAACTT
8891028 TCATAACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 5 0.15
10 2 0.06
11 10 0.30
12 16 0.48
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAACTTATAT
Found at i:8891044 original size:32 final size:33
Alignment explanation
Indices: 8890979--8891058 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
8890969 CACAATACAT
8890979 AACTTACATAATAACTTACATAACTTATATATA
1 AACTTACATAATAACTTACATAACTTATATATA
* *
8891012 AACTTATAT-ATAACTTTCATAACTTACT-TATAA
1 AACTTACATAATAACTTACATAACTTA-TATAT-A
8891045 TAACTTACATAATA
1 -AACTTACATAATA
8891059 CATAGCCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.47
33 10 0.25
34 8 0.20
35 3 0.08
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (33 bp):
AACTTACATAATAACTTACATAACTTATATATA
Found at i:8891076 original size:25 final size:24
Alignment explanation
Indices: 8891047--8891246 Score: 202
Period size: 25 Copynumber: 8.0 Consensus size: 24
8891037 ACTTATAATA
* *
8891047 ACTTACATAATACATAGCCTACAT
1 ACTTACATAATACATAACTTACAT
*
8891071 GACTTACATAATACATAACTTAAAT
1 -ACTTACATAATACATAACTTACAT
8891096 AACTTACATAACTTACATAACTTACAT
1 -ACTTACATAA--TACATAACTTACAT
** *
8891123 AGCTTACATTCTACACAACTTACAT
1 A-CTTACATAATACATAACTTACAT
* *
8891148 AATATACATAATACACAACTTACAT
1 ACT-TACATAATACATAACTTACAT
*
8891173 AACATACATAATACATAACTTACAT
1 -ACTTACATAATACATAACTTACAT
* * *
8891198 AGCTAACATAAAATATAACTTACAT
1 A-CTTACATAATACATAACTTACAT
*
8891223 AACTTATATAATACATAACTTACA
1 -ACTTACATAATACATAACTTACA
8891247 CAATTTACTG
Statistics
Matches: 146, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.01
25 121 0.83
26 3 0.02
27 20 0.14
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.30
Consensus pattern (24 bp):
ACTTACATAATACATAACTTACAT
Found at i:8893844 original size:21 final size:21
Alignment explanation
Indices: 8893818--8893862 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8893808 CTACAACTTA
*
8893818 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
8893839 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
8893860 AAG
1 AAG
8893863 TATAGGTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.47, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:8893911 original size:87 final size:87
Alignment explanation
Indices: 8893779--8893944 Score: 287
Period size: 87 Copynumber: 1.9 Consensus size: 87
8893769 ACCACAGTTG
* * *
8893779 AGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCA
1 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
8893844 GAGGCTGCAGCGAGAGAAGTAT
66 GAGGCTGCAGCGAGAGAAGTAT
* *
8893866 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGATGCGGCATCGAGAGAAGCA
1 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
8893931 GAGGCTGCAGCGAG
66 GAGGCTGCAGCGAG
8893945 GAAAGCAGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.13
Consensus pattern (87 bp):
AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGCA
GAGGCTGCAGCGAGAGAAGTAT
Found at i:8893944 original size:21 final size:21
Alignment explanation
Indices: 8893904--8893954 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8893894 ACTACAACTT
* *
8893904 AAAGCAGATGCGGCATCGA-G
1 AAAGCAGAGGCGGCAGCGAGG
*
8893924 AGAAGCAGAGGCTGCAGCGAGG
1 A-AAGCAGAGGCGGCAGCGAGG
8893946 AAAGCAGAG
1 AAAGCAGAG
8893955 CAGAGCAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.37, C:0.18, G:0.39, T:0.06
Consensus pattern (21 bp):
AAAGCAGAGGCGGCAGCGAGG
Found at i:8894361 original size:20 final size:20
Alignment explanation
Indices: 8894336--8894375 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8894326 AAGCGCCGCT
8894336 AAAAGTCAGGTTCTATAGCG
1 AAAAGTCAGGTTCTATAGCG
* *
8894356 AAAAGTCATGTTCTTTAGCG
1 AAAAGTCAGGTTCTATAGCG
8894376 CCGTTTGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
AAAAGTCAGGTTCTATAGCG
Found at i:8894417 original size:43 final size:43
Alignment explanation
Indices: 8894368--8894467 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
8894358 AAGTCATGTT
* *
8894368 CTTTAGCGCCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACATGAC
* *
8894411 CTTTAGCGGCGTTTGTAGTATAAGCGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACATGAC
8894454 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
8894468 TGTTTCTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGAACATGAC
Found at i:8894756 original size:9 final size:11
Alignment explanation
Indices: 8894732--8894758 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8894722 AAAATAAAAA
8894732 ATATATTTATT
1 ATATATTTATT
8894743 ATATATTTATT
1 ATATATTTATT
8894754 ATATA
1 ATATA
8894759 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATATTTATT
Found at i:8894845 original size:32 final size:32
Alignment explanation
Indices: 8894809--8894872 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
8894799 TATTTTAAAA
* *
8894809 ATAATTAAATAT-AAATATTTAAATAATTTAAT
1 ATAATTAAATATAAAATA-TAAAATAATCTAAT
*
8894841 ATAATTATATATAAAATATAAAATAATCTAAT
1 ATAATTAAATATAAAATATAAAATAATCTAAT
8894873 TTATTTACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAATTAAATATAAAATATAAAATAATCTAAT
Found at i:8896447 original size:17 final size:17
Alignment explanation
Indices: 8896421--8896453 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8896411 TAAAACGTAT
*
8896421 TTTTAGGATAAAAATAA
1 TTTTAAGATAAAAATAA
8896438 TTTTAAGATAAAAATA
1 TTTTAAGATAAAAATA
8896454 TTACTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
TTTTAAGATAAAAATAA
Found at i:8896766 original size:19 final size:20
Alignment explanation
Indices: 8896740--8896789 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8896730 TTTTATTAGT
*
8896740 TATATTTTA-ATATTTAAAA
1 TATATTTTATATATTCAAAA
*
8896759 TATATTTTATATATTCAAAT
1 TATATTTTATATATTCAAAA
*
8896779 TAAATTTTATA
1 TATATTTTATA
8896790 AATAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTTTATATATTCAAAA
Found at i:8899737 original size:29 final size:29
Alignment explanation
Indices: 8899695--8899757 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
8899685 GGAACCCAAC
*
8899695 TAATAATTGGATTT-AGTTGTAATTGCTTG
1 TAATAATTGGATTTGA-TTGTAATTACTTG
*
8899724 TAATAATTGGATTTGATTGTTATTACTTG
1 TAATAATTGGATTTGATTGTAATTACTTG
8899753 TAATA
1 TAATA
8899758 CTATTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.49
Consensus pattern (29 bp):
TAATAATTGGATTTGATTGTAATTACTTG
Found at i:8899876 original size:24 final size:25
Alignment explanation
Indices: 8899831--8899877 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8899821 ACTCAAATTT
* *
8899831 AATTTTAAAAAATTATTTTTATACA
1 AATTATAAAAAATTATTATTATACA
8899856 AATTATAAAAAATTA-TATTATA
1 AATTATAAAAAATTATTATTATA
8899878 AGCTTGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATAAAAAATTATTATTATACA
Found at i:8900033 original size:19 final size:19
Alignment explanation
Indices: 8899994--8900034 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8899984 TATATTATTT
* *
8899994 AAATTATAAAAAATTTCTA
1 AAATTATAAAAAATATATA
*
8900013 AAATTATGAAAAATATATA
1 AAATTATAAAAAATATATA
8900032 AAA
1 AAA
8900035 AATAATTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTATAAAAAATATATA
Found at i:8906747 original size:17 final size:17
Alignment explanation
Indices: 8906725--8906757 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8906715 AGAAACCCAT
*
8906725 AAAATAAAATTAAAAAC
1 AAAATAAAACTAAAAAC
8906742 AAAATAAAACTAAAAA
1 AAAATAAAACTAAAAA
8906758 TGGCCAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAACTAAAAAC
Found at i:8912191 original size:15 final size:15
Alignment explanation
Indices: 8912171--8912362 Score: 150
Period size: 15 Copynumber: 12.7 Consensus size: 15
8912161 AAATGTTGTT
* *
8912171 TACCAAATGTTGCAG
1 TACCAAATGCTGCGG
**
8912186 TACCAAATGCTGCTA
1 TACCAAATGCTGCGG
*
8912201 TACCAAATGCTACGG
1 TACCAAATGCTGCGG
*
8912216 TACCAAATGCTGCTG
1 TACCAAATGCTGCGG
* ***
8912231 TAACAAATGCTATTG
1 TACCAAATGCTGCGG
* *
8912246 TACCAAACGTTGCGG
1 TACCAAATGCTGCGG
*
8912261 TACCAAATGCTGCTG
1 TACCAAATGCTGCGG
* *
8912276 TACCAAACGTTGCGG
1 TACCAAATGCTGCGG
* **
8912291 TGCCAAATGCTGCTA
1 TACCAAATGCTGCGG
*
8912306 TACCGAAACGCTGCGG
1 TACC-AAATGCTGCGG
* * **
8912322 TGCCAAATGCTACTA
1 TACCAAATGCTGCGG
*
8912337 TACCAAAATGCTGCGA
1 TACC-AAATGCTGCGG
8912353 TACCAAATGC
1 TACCAAATGC
8912363 GAATGAGAAA
Statistics
Matches: 135, Mismatches: 40, Indels: 4
0.75 0.22 0.02
Matches are distributed among these distances:
15 111 0.82
16 24 0.18
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (15 bp):
TACCAAATGCTGCGG
Found at i:8912238 original size:45 final size:45
Alignment explanation
Indices: 8912171--8912362 Score: 177
Period size: 45 Copynumber: 4.2 Consensus size: 45
8912161 AAATGTTGTT
* * * * *
8912171 TACCAAATGTTGCAGTACCAAATGCTGCTATACCAAATGCTACGG
1 TACCAAATGCTGCTGTACCAAATGCTACTATACCAAATGCTGCGA
* * * * * *
8912216 TACCAAATGCTGCTGTAACAAATGCTATTGTACCAAACGTTGCGG
1 TACCAAATGCTGCTGTACCAAATGCTACTATACCAAATGCTGCGA
* * * ** * *
8912261 TACCAAATGCTGCTGTACCAAACGTTGCGGTGCCAAATGCTGCTA
1 TACCAAATGCTGCTGTACCAAATGCTACTATACCAAATGCTGCGA
* * *
8912306 TACCGAAACGCTGCGGTGCCAAATGCTACTATACCAAAATGCTGCGA
1 TACC-AAATGCTGCTGTACCAAATGCTACTATACC-AAATGCTGCGA
8912353 TACCAAATGC
1 TACCAAATGC
8912363 GAATGAGAAA
Statistics
Matches: 114, Mismatches: 31, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
45 74 0.65
46 26 0.23
47 14 0.12
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (45 bp):
TACCAAATGCTGCTGTACCAAATGCTACTATACCAAATGCTGCGA
Found at i:8912347 original size:16 final size:16
Alignment explanation
Indices: 8912326--8912359 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8912316 CTGCGGTGCC
*
8912326 AAATGCTACTATACCA
1 AAATGCTACGATACCA
*
8912342 AAATGCTGCGATACCA
1 AAATGCTACGATACCA
8912358 AA
1 AA
8912360 TGCGAATGAG
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:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (16 bp):
AAATGCTACGATACCA
Found at i:8914418 original size:30 final size:30
Alignment explanation
Indices: 8914391--8914471 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
8914381 TGGCACATGA
*
8914391 GCACGTGTCTAACCCATGTGGCTCACATAG
1 GCACGTGTCCAACCCATGTGGCTCACATAG
**
8914421 GCGTGTGTCCAACCCATGTGGCTCACATAG
1 GCACGTGTCCAACCCATGTGGCTCACATAG
* * * *
8914451 GCATGTGCCCAGCTCATGTGG
1 GCACGTGTCCAACCCATGTGG
8914472 AAATGCCCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.23
Consensus pattern (30 bp):
GCACGTGTCCAACCCATGTGGCTCACATAG
Found at i:8914457 original size:17 final size:17
Alignment explanation
Indices: 8914405--8914457 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
8914395 GTGTCTAACC
8914405 CATGTGGCTCACATAGG
1 CATGTGGCTCACATAGG
* **
8914422 CGTGT-G-TC-CA-ACC
1 CATGTGGCTCACATAGG
8914435 CATGTGGCTCACATAGG
1 CATGTGGCTCACATAGG
8914452 CATGTG
1 CATGTG
8914458 CCCAGCTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 5 0.19
14 3 0.12
15 4 0.15
16 3 0.12
17 11 0.42
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (17 bp):
CATGTGGCTCACATAGG
Found at i:8919869 original size:30 final size:30
Alignment explanation
Indices: 8919832--8919899 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
8919822 GGGGACACAT
8919832 GCCCGTGTGTCTCACACGGCCAAAAGACAC
1 GCCCGTGTGTCTCACACGGCCAAAAGACAC
* * *
8919862 GCTCGTGTGTCTTACATGGCCAAAAGACAC
1 GCCCGTGTGTCTCACACGGCCAAAAGACAC
8919892 GCCCGTGT
1 GCCCGTGT
8919900 CTCAGGCCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (30 bp):
GCCCGTGTGTCTCACACGGCCAAAAGACAC
Found at i:8922841 original size:18 final size:20
Alignment explanation
Indices: 8922820--8922860 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
8922810 GACATATTTA
*
8922820 TTTTGATGT-TTTTA-GTAT
1 TTTTGATGTATTATATGTAT
8922838 TTTTGATGTATTATATGTAT
1 TTTTGATGTATTATATGTAT
8922858 TTT
1 TTT
8922861 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATGTAT
Found at i:8924691 original size:3 final size:3
Alignment explanation
Indices: 8924685--8924721 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8924675 ATCGTCGTCG
8924685 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
8924722 ATATATATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:8924943 original size:15 final size:15
Alignment explanation
Indices: 8924923--8925143 Score: 176
Period size: 15 Copynumber: 14.7 Consensus size: 15
8924913 CTCTTCCATT
8924923 GTACCAAATGCTGCG
1 GTACCAAATGCTGCG
*
8924938 GTACCAAATGCAG-G
1 GTACCAAATGCTGCG
* * **
8924952 CTTACCAATTTTTGCG
1 -GTACCAAATGCTGCG
*
8924968 GTACCAAATGCTGCTA
1 GTACCAAATGCTGC-G
* * *
8924984 GT-CCAAATGTTTCT
1 GTACCAAATGCTGCG
* * *
8924998 GTACAAAACGTTGCG
1 GTACCAAATGCTGCG
* * * *
8925013 GTAGCAAATACTACT
1 GTACCAAATGCTGCG
8925028 GTACCAAATGCTGCG
1 GTACCAAATGCTGCG
* * *
8925043 ATACCAAATGTTGCT
1 GTACCAAATGCTGCG
*
8925058 GTACCAAATGTTGCG
1 GTACCAAATGCTGCG
* * * *
8925073 GTAGCAAGTGTTGCT
1 GTACCAAATGCTGCG
8925088 GTACCAAATGCTGCG
1 GTACCAAATGCTGCG
**
8925103 GTACCAAATGCTGTT
1 GTACCAAATGCTGCG
8925118 GTACCAAATGCTGCG
1 GTACCAAATGCTGCG
8925133 GTACCAAATGC
1 GTACCAAATGC
8925144 GGATGAGAAA
Statistics
Matches: 157, Mismatches: 45, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
14 3 0.02
15 151 0.96
16 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (15 bp):
GTACCAAATGCTGCG
Found at i:8925021 original size:30 final size:30
Alignment explanation
Indices: 8924923--8925142 Score: 210
Period size: 30 Copynumber: 7.3 Consensus size: 30
8924913 CTCTTCCATT
* * *
8924923 GTACCAAATGCTGCGGTACCAAATGCAG-G
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
* * * * *
8924952 CTTACCAATTTTTGCGGTACCAAATGCTGCTA
1 -GTACCAAATGTTGCTGTACCAAATGCTGC-G
* * * *
8924984 GT-CCAAATGTTTCTGTACAAAACGTTGCG
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
* ** *
8925013 GTAGCAAATACTACTGTACCAAATGCTGCG
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
* *
8925043 ATACCAAATGTTGCTGTACCAAATGTTGCG
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
* *
8925073 GTAGCAAGTGTTGCTGTACCAAATGCTGCG
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
* *
8925103 GTACCAAATGCTGTTGTACCAAATGCTGCG
1 GTACCAAATGTTGCTGTACCAAATGCTGCG
8925133 GTACCAAATG
1 GTACCAAATG
8925143 CGGATGAGAA
Statistics
Matches: 151, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
29 2 0.01
30 148 0.98
31 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (30 bp):
GTACCAAATGTTGCTGTACCAAATGCTGCG
Found at i:8927759 original size:46 final size:45
Alignment explanation
Indices: 8927688--8928076 Score: 611
Period size: 46 Copynumber: 8.6 Consensus size: 45
8927678 TTTGAGTACT
*
8927688 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
* * *
8927734 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCTTTATCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
8927780 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
**
8927825 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CCTAGCTACACTTA
*
8927871 TCTGATCAAGTGACAAAGTAATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
* *
8927916 TTTGATCAAGTGACAAAGTGAAAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
8927961 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
* *
8928007 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCGATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
*
8928052 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8928077 ATCATACGTA
Statistics
Matches: 321, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
43 12 0.04
44 5 0.02
45 143 0.45
46 161 0.50
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
Found at i:8927845 original size:91 final size:91
Alignment explanation
Indices: 8927688--8928076 Score: 615
Period size: 91 Copynumber: 4.3 Consensus size: 91
8927678 TTTGAGTACT
* *
8927688 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
8927753 GATAAGTGGTAGCTTTATCTACACTTA
66 GATAAGTGGTAGC-CTAGCTACACTTA
8927780 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAAGT
**
8927844 GATAAGTGGTAGTTTTAGCTACACTTA
66 GATAAGTGGTAG-CCTAGCTACACTTA
* *
8927871 TCTGATCAAGTGACAAAGTAATAAGTGGTAGC-CTAGCTACACTTATTTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAAGT
*
8927935 GAAAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAGCTACACTTA
*
8927961 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
8928026 GATAAGTGGTAGCCTAGCGATACTTA
66 GATAAGTGGTAGCCTAGCTACACTTA
*
8928052 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8928077 ATCATACGTA
Statistics
Matches: 279, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
89 12 0.04
90 48 0.17
91 187 0.67
92 32 0.11
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTA
Found at i:8927983 original size:136 final size:136
Alignment explanation
Indices: 8927688--8928076 Score: 665
Period size: 136 Copynumber: 2.9 Consensus size: 136
8927678 TTTGAGTACT
*
8927688 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
8927753 GATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCT
66 GATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCT
8927818 ACACTTA
130 ACACTTA
*
8927825 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* * *
8927890 AATAAGTGGTAGCCTAGCTACACTTATTTGATCAAGTGACAAAGTGAAAAGTGGTAGCCTAGCTA
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTA
8927955 CACTTA
131 CACTTA
8927961 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* * *
8928026 GATAAGTGGTAGCCTAGCGATACTTATCTGATC-AGGGAC-AAGTGATAAGTG
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
8928077 ATCATACGTA
Statistics
Matches: 238, Mismatches: 14, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
134 11 0.05
135 5 0.02
136 147 0.62
137 75 0.32
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (136 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTA
CACTTA
Found at i:8932369 original size:62 final size:61
Alignment explanation
Indices: 8932303--8932422 Score: 204
Period size: 62 Copynumber: 2.0 Consensus size: 61
8932293 TATGAGATAG
*
8932303 TAGTGGTTGTGACCACATGTTGGCACATAGTGTGCAAGATTCTCGGGTATTCGATATTATTC
1 TAGTGGTTGTGACCACATGTTGGCACATAGTGTGCAAGACTCTCGGGTATTCGA-ATTATTC
* *
8932365 TAGTGGTTTTGACCACATGTTGGCACATAGTGTGCGAGACTCTCGGGTATTCGAATTA
1 TAGTGGTTGTGACCACATGTTGGCACATAGTGTGCAAGACTCTCGGGTATTCGAATTA
8932423 GAAGAAGGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 4 0.07
62 51 0.93
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (61 bp):
TAGTGGTTGTGACCACATGTTGGCACATAGTGTGCAAGACTCTCGGGTATTCGAATTATTC
Found at i:8934648 original size:10 final size:9
Alignment explanation
Indices: 8934629--8934653 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8934619 AAATTATTTT
8934629 AAAAATAAA
1 AAAAATAAA
8934638 AAAAATAAA
1 AAAAATAAA
8934647 AAAAATA
1 AAAAATA
8934654 TTTTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:8934671 original size:40 final size:42
Alignment explanation
Indices: 8934618--8934700 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
8934608 TAAACATTAA
*
8934618 AAAATTATTTTAAAA-ATAAAAA-AAATAAAAAAAATAT-TTT
1 AAAAGTATTTTAAAATATAAAAATAAA-AAAAAAAATATATTT
* *
8934658 AAAAGTATTTTAAAATTTAAAAATAAAAATAAAAATATATTT
1 AAAAGTATTTTAAAATATAAAAATAAAAAAAAAAATATATTT
8934700 A
1 A
8934701 TTATATTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 14 0.38
41 16 0.43
42 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (42 bp):
AAAAGTATTTTAAAATATAAAAATAAAAAAAAAAATATATTT
Found at i:8939939 original size:22 final size:22
Alignment explanation
Indices: 8939914--8940037 Score: 108
Period size: 22 Copynumber: 5.6 Consensus size: 22
8939904 ACCATAATAG
*
8939914 AGAGCATAAAAGTGCTAATCAA
1 AGAGCACAAAAGTGCTAATCAA
** * *
8939936 AGAGCACCGAAGTGCTAAACAG
1 AGAGCACAAAAGTGCTAATCAA
* ** *
8939958 AGAGCACAGATTTACTAATCAA
1 AGAGCACAAAAGTGCTAATCAA
*
8939980 AGAGCATC-AAAGTGCTGAAT-AG
1 AGAGCA-CAAAAGTGCT-AATCAA
*
8940002 AGAGCACATAAGTGCTAATCAA
1 AGAGCACAAAAGTGCTAATCAA
*
8940024 AGAGCACCAAAGTG
1 AGAGCACAAAAGTG
8940038 TTGAACAGTT
Statistics
Matches: 78, Mismatches: 20, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
21 4 0.05
22 70 0.90
23 4 0.05
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (22 bp):
AGAGCACAAAAGTGCTAATCAA
Found at i:8939976 original size:44 final size:44
Alignment explanation
Indices: 8939912--8940037 Score: 153
Period size: 44 Copynumber: 2.9 Consensus size: 44
8939902 GCACCATAAT
* * * *
8939912 AGAGAGCATAAAAGTGCTAATCAAAGAGCACCGAAGTGCTAAAC
1 AGAGAGCACAGAAGTACTAATCAAAGAGCACCAAAGTGCTAAAC
** * * *
8939956 AGAGAGCACAGATTTACTAATCAAAGAGCATCAAAGTGCTGAAT
1 AGAGAGCACAGAAGTACTAATCAAAGAGCACCAAAGTGCTAAAC
* *
8940000 AGAGAGCACATAAGTGCTAATCAAAGAGCACCAAAGTG
1 AGAGAGCACAGAAGTACTAATCAAAGAGCACCAAAGTG
8940038 TTGAACAGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (44 bp):
AGAGAGCACAGAAGTACTAATCAAAGAGCACCAAAGTGCTAAAC
Found at i:8949114 original size:23 final size:22
Alignment explanation
Indices: 8949064--8949115 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
8949054 TAATTTGGAC
* *
8949064 TAAAAT-TTTAAAAATCTGAAT
1 TAAAATATTGAAAAATCTAAAT
8949085 TACAAATATTGAAAATATCTAAAT
1 TA-AAATATTGAAAA-ATCTAAAT
8949109 TAAAATA
1 TAAAATA
8949116 CATGTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 4 0.15
23 11 0.42
24 9 0.35
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAAATATTGAAAAATCTAAAT
Found at i:8952328 original size:26 final size:26
Alignment explanation
Indices: 8952294--8952353 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
8952284 TAAAACCTGA
8952294 ATTT-TTTATCAAATTAATTTTTGAT
1 ATTTCTTTATCAAATTAATTTTTGAT
8952319 ATTTCTTTATCAAATTAATTTTTGAT
1 ATTTCTTTATCAAATTAATTTTTGAT
8952345 ATTTCTTTA
1 ATTTCTTTA
8952354 AAACCCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTCTTTATCAAATTAATTTTTGAT
Found at i:8953594 original size:14 final size:15
Alignment explanation
Indices: 8953575--8953603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8953565 AACGGAAAAA
8953575 GAAAGT-TTTGATTG
1 GAAAGTCTTTGATTG
8953589 GAAAGTCTTTGATTG
1 GAAAGTCTTTGATTG
8953604 TGTATGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (15 bp):
GAAAGTCTTTGATTG
Found at i:8972774 original size:128 final size:128
Alignment explanation
Indices: 8972604--8972843 Score: 299
Period size: 128 Copynumber: 1.9 Consensus size: 128
8972594 ATCCGCTCCA
* * ** * *
8972604 CTGCAACTTCAGGGAGATAGGATTATTTTCTTCAATCTGCTCCACTACAACTTCAGAGAAATCA-
1 CTGCAACTTCAGAGAGATAAGATTATAGTCTTCAACCCGCTCCACTACAACTTCAGAGAAAT-AG
* * * *
8972668 GATTGCTTTATC-T-AGTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCCC
65 GATT-ATTT-TCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGTGATCTGCCC
8972731 T
128 T
* *
8972732 CTGCAACTTCAGAGAGATAAGATCTATAGTCTT-AACCCGCTCCACTGCAACTTCAGAGAGATAG
1 CTGCAACTTCAGAGAGATAAGAT-TATAGTCTTCAACCCGCTCCACTACAACTTCAGAGAAATAG
*
8972796 GATTATTTTCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGACT
65 GATTATTTTCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACT
8972844 TGCTATCTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
126 2 0.02
127 5 0.05
128 81 0.85
129 7 0.07
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (128 bp):
CTGCAACTTCAGAGAGATAAGATTATAGTCTTCAACCCGCTCCACTACAACTTCAGAGAAATAGG
ATTATTTTCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGTGATCTGCCCT
Found at i:8972872 original size:45 final size:45
Alignment explanation
Indices: 8972593--8973214 Score: 487
Period size: 45 Copynumber: 14.0 Consensus size: 45
8972583 ATCTGATTTT
* * * *
8972593 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTTTCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
** * * * *
8972637 AATCTGCTCCACTACAACTTCAGAGAAATCAGA-TTGCTTTATC-T-
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTG--TTATCTTC
* ** * * *
8972681 AGTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTAG--AT-GT-
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* ** * * *
8972722 GATCTGC-CCTCTGCAACTTCAGAGAGATAAGA-TCT-ATAGTCTT-
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACT-TGTTA-TCTTC
* * * * * *
8972765 AACCCGCTCCACTGCAACTTCAGAGAGATAGGA-TTATTTTCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
** * * * *
8972809 AATCTGCTCCACTGCAACTTTAGGAAGATAAGACTTGCTATCTTT
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * * *
8972854 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGCTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* ** *
8972899 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * * *
8972944 AATCCACTCCACTGCAACTTCAGGGAGATAGGATTTGCTATCTTT
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * * ** * *
8972989 AGTCTATTCTGCAGCAACCTCAGGGAGATAAGACTTGTTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* ** * * *
8973034 AGTTAACTCCGCTGCAACTTCAGAGAGATAAGACTTGTTATTTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * * *
8973079 AATCCACTCCACTGCAACTTCAAGGAGATAGGATTTGCTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * * *
8973124 AATCTACTCCGCTGTAACCTCAGGGAGATAAGACTTGTTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
* * *
8973169 AATCCACTCCACTGCAACTTCATGGAGATAGGATTTGTTATCTTC
1 AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
8973214 A
1 A
8973215 CCGATCTATT
Statistics
Matches: 464, Mismatches: 101, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.00
40 24 0.05
41 9 0.02
42 1 0.00
43 10 0.02
44 108 0.23
45 307 0.66
46 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCCACTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTC
Found at i:8972963 original size:135 final size:134
Alignment explanation
Indices: 8972562--8973214 Score: 566
Period size: 135 Copynumber: 4.9 Consensus size: 134
8972552 AATCTACTTT
* * *
8972562 CTGCAACATCAGAGAGATAAGA--T-CTGAT-TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATAAGACTTGCT-ATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * * *
8972623 GGATTAT-TT-TCTTCAATCTGCTCCACTACAACTTCAGAGAAATCAGATTGCTTTATC-T-AGT
65 AGATT-TGTTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTG--TTATCTTCAAT
** *
8972684 CTGCTCCT
127 CCACTCCA
* * * * *
8972692 CTGCAACTTCAGGGAGATAAGACTAG--A--TGTGATCTGC-CCTCTGCAACTTCAGAGAGATAA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * * * * **
8972752 GATCT-ATAGTCTT-AACCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTTTCTTCAATCTG
66 GATTTGTTA-TCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGTTATCTTCAATCCA
8972815 CTCCA
130 CTCCA
* * * *
8972820 CTGCAACTTTAGGAAGATAAGACTTGCTATCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
8972885 GATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAATCCA
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTTATCTTCAATCCA
8972950 CTCCA
130 CTCCA
* * * ** ** * *
8972955 CTGCAACTTCAGGGAGATAGGATTTGCTATCTTTAGTCTATTCTGCAGCAACCTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
8973020 GACTTGTTATCTTCAGT-TAACTCCGCTGCAACTTCAGAGAGATAAGACTTGTTATTTTCAATCC
66 GATTTGTTATCTTCAATCT-GCTCCACTGCAACTTCAGAGAGATAAGA-TTGTTATCTTCAATCC
8973084 ACTCCA
129 ACTCCA
* * * * * * * *
8973090 CTGCAACTTCAAGGAGATAGGATTTGCTATCTTCAATCTACTCCGCTGTAACCTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* ** *
8973155 GACTTGTTATCTTCAATCCACTCCACTGCAACTTCATG-GAGATAGGATTTGTTATCTTCA
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAGA-TTGTTATCTTCA
8973215 CCGATCTATT
Statistics
Matches: 432, Mismatches: 73, Indels: 31
0.81 0.14 0.06
Matches are distributed among these distances:
126 4 0.01
127 3 0.01
128 84 0.19
129 11 0.03
130 22 0.05
132 7 0.02
133 28 0.06
134 30 0.07
135 242 0.56
136 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (134 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGTTATCTTCAATCCAC
TCCA
Found at i:8985100 original size:15 final size:16
Alignment explanation
Indices: 8985077--8985109 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8985067 ATTTACAAAA
8985077 TATGTATATATATAAG
1 TATGTATATATATAAG
8985093 TATG-ATATATATAAG
1 TATGTATATATATAAG
8985108 TA
1 TA
8985110 AAATTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
TATGTATATATATAAG
Found at i:8985153 original size:16 final size:18
Alignment explanation
Indices: 8985139--8985172 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8985129 TGCATATATT
8985139 AAAA-TACGTATATATAA
1 AAAAGTACGTATATATAA
8985156 AAAAGTACGTATATATA
1 AAAAGTACGTATATATA
8985173 TTATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AAAAGTACGTATATATAA
Found at i:8986258 original size:18 final size:18
Alignment explanation
Indices: 8986216--8986258 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8986206 GGGCTACTGA
*
8986216 ACGTGGGCGGTTGTTGCG
1 ACGTGGGCGGTTGCTGCG
* *
8986234 CCATGGGCGGTTGCTGCG
1 ACGTGGGCGGTTGCTGCG
8986252 ACGTGGG
1 ACGTGGG
8986259 GCGTGCGACG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.21, G:0.49, T:0.23
Consensus pattern (18 bp):
ACGTGGGCGGTTGCTGCG
Found at i:8988951 original size:20 final size:20
Alignment explanation
Indices: 8988926--8988967 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
8988916 GAATCAAAAG
8988926 TTAAACTAAGCAACATAAGC
1 TTAAACTAAGCAACATAAGC
8988946 TTAAACTAAGCAACATAAGC
1 TTAAACTAAGCAACATAAGC
8988966 TT
1 TT
8988968 TAACAACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (20 bp):
TTAAACTAAGCAACATAAGC
Found at i:8989227 original size:9 final size:9
Alignment explanation
Indices: 8989213--8989288 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
8989203 TTTATTTAAA
8989213 AATTAACCG
1 AATTAACCG
8989222 AATTAACCG
1 AATTAACCG
*
8989231 AATTACCCG
1 AATTAACCG
*
8989240 AATTACCCG
1 AATTAACCG
8989249 AATTAACCG
1 AATTAACCG
* *
8989258 GATTACCCG
1 AATTAACCG
*
8989267 AATTAACTG
1 AATTAACCG
*
8989276 AATTAACTG
1 AATTAACCG
8989285 AATT
1 AATT
8989289 GAATCACTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8989251 original size:27 final size:27
Alignment explanation
Indices: 8989213--8989288 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
8989203 TTTATTTAAA
8989213 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
8989240 AATTACCCGAATTAACCGGATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
8989267 AATTAACTGAATTAACTGAATT
1 AATTAACCGAATTAACCGAATT
8989289 GAATCACTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:8989414 original size:18 final size:18
Alignment explanation
Indices: 8989391--8989434 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8989381 AATTTTTATG
*
8989391 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGAATA
8989409 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
8989427 CTTGGGTT
1 ATTGGGTT
8989435 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:8993474 original size:21 final size:22
Alignment explanation
Indices: 8993448--8993489 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8993438 CTATGATTTT
8993448 TATTTTAAATT-AAT-TTTAAAA
1 TATTTT-AATTGAATCTTTAAAA
8993469 TATTTTAATTGAATCTTTAAA
1 TATTTTAATTGAATCTTTAAA
8993490 CTATCCGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTAATTGAATCTTTAAAA
Found at i:8996062 original size:39 final size:40
Alignment explanation
Indices: 8995938--8996099 Score: 247
Period size: 40 Copynumber: 4.1 Consensus size: 40
8995928 GAAAACAGAC
* *
8995938 CAGATGCTCATAATAGCTAGTCCAACCGAAACGCACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
* * * *
8995978 CAGATGCTTATAAGAGCTAGTCCAACTGAAACACACCAAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
8996018 CAGATGCTCATAAGAGCTAGTCCAACCG-AACACACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
*
8996057 TAGATGCTCATAAGAGCTAGTCCAACCG-AACACACTAGA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
8996096 CAGA
1 CAGA
8996100 GAGTATAATA
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 50 0.45
40 60 0.55
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (40 bp):
CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGA
Found at i:8996080 original size:79 final size:79
Alignment explanation
Indices: 8995938--8996091 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 79
8995928 GAAAACAGAC
* * *
8995938 CAGATGCTCATAATAGCTAGTCCAACCGAAACGCACTAGACAGATGCTTATAAGAGCTAGTCCAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
*
8996003 CTGAAACACACCAAA
66 CCG-AACACACCAAA
*
8996018 CAGATGCTCATAAGAGCTAGTCCAACCG-AACACACTAGATAGATGCTCATAAGAGCTAGTCCAA
1 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
8996082 CCGAACACAC
66 CCGAACACAC
8996092 TAGACAGAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 7 0.10
79 35 0.51
80 27 0.39
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (79 bp):
CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACTAGACAGATGCTCATAAGAGCTAGTCCAA
CCGAACACACCAAA
Found at i:9004259 original size:19 final size:19
Alignment explanation
Indices: 9004237--9004289 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
9004227 ATTTATCAAG
9004237 TTTTTATAATTTTTTG-AA
1 TTTTTATAATTTTTTGAAA
**
9004255 TTTTTATTTTATTTTTGAATA
1 TTTTTATAAT-TTTTTGAA-A
9004276 TTTTTATAAATTTT
1 TTTTTAT-AATTTT
9004290 AAATTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 8 0.30
19 6 0.22
20 1 0.04
21 11 0.41
22 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTATAATTTTTTGAAA
Found at i:9013652 original size:2 final size:2
Alignment explanation
Indices: 9013645--9013677 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9013635 TATCACCTTA
9013645 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 A
9013678 ATAAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9018048 original size:17 final size:18
Alignment explanation
Indices: 9018026--9018060 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9018016 TAGTACTTTA
9018026 ATTTATAACAT-ATTATT
1 ATTTATAACATAATTATT
*
9018043 ATTTATCACATAATTATT
1 ATTTATAACATAATTATT
9018061 TGAAGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATAACATAATTATT
Found at i:9018303 original size:2 final size:2
Alignment explanation
Indices: 9018296--9018349 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9018286 TGAAACTCTC
9018296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9018338 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9018350 TATTANNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9025072 original size:128 final size:128
Alignment explanation
Indices: 9024844--9025585 Score: 1184
Period size: 128 Copynumber: 5.8 Consensus size: 128
9024834 TCGGTGAAAT
* *
9024844 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGTTTAGAAATTACAGATCTTATCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
**
9024909 CAGTAGCGGAGCAGATCGAAAGCGAAAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
*
9024972 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
*
9025037 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
*
9025100 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9025165 CAGTAGTGGAGTAGATCGAAAGCGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
* *
9025228 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATATGTTAGAAATTATAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * * *
9025293 TAGTAGCAGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTACGGAAGCAAATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
* *
9025356 CACAGGTTCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* * *
9025421 CAGTAGCGGAGCAGATCG-AAGACGGCGAAGCTTATCTTCAAGT-GTAAGGAAACAGATTTAAGC
66 CAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAA-TAGTAAGGAAGCAGATTTAAGC
* * * * *
9025484 TACAAGTCCTATCTCCTTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
* *
9025549 CAGTAGCGGAGCAGATCG-AAGATGACAAATCTTATCT
66 CAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCT
9025586 CCCTGAGGAT
Statistics
Matches: 572, Mismatches: 40, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
127 3 0.01
128 568 0.99
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (128 bp):
CACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAG
CAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAATAGTAAGGAAGCAGATTTAAGC
Found at i:9025889 original size:44 final size:44
Alignment explanation
Indices: 9025577--9025890 Score: 134
Period size: 44 Copynumber: 7.2 Consensus size: 44
9025567 AAGATGACAA
* * * * * **
9025577 ATCTTATCTCCCTGAGGATGTAATGGAGCAGATTGAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAATAG
* *
9025621 ATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
* * * * *
9025665 ATCTTATCTCTCC-GAAGTTGCAGTAGAGTGGA-T--CGT-ATCGG
1 ATCTTATCTC-CCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT-AG
* * * * * * *
9025706 GTCTTATCTCCTTGAGGTTGTAGTGGAGCAGACT-AAG-AAAACA
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATA-G
* *** * *
9025749 AGTCTTATCCCCCTGAAGTCACAGT-GA--GG--TAAAGAAGATGGCAA
1 A-TCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTA-AT---AG
* * * * **
9025793 ATCTTATCTCCCTGAGGATGTAGTGGAGCAGATTGAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-TAATAG
*
9025837 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
9025881 ATCTTATCTC
1 ATCTTATCTC
9025891 TTCGAAGTTG
Statistics
Matches: 194, Mismatches: 54, Indels: 44
0.66 0.18 0.15
Matches are distributed among these distances:
39 1 0.01
40 6 0.03
41 28 0.14
42 2 0.01
43 28 0.14
44 118 0.61
45 4 0.02
46 1 0.01
48 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
Found at i:9026097 original size:44 final size:44
Alignment explanation
Indices: 9026001--9026338 Score: 137
Period size: 44 Copynumber: 7.8 Consensus size: 44
9025991 GAAGAAGTAA
* * * * **
9026001 ATCTTATCTCCCT-AAGGTTGCAGTAGAGTAGATTGAAGCCGATA-
1 ATCTTATCTCCTTGAA-GTTGCAGTGGAGCAGATTAAAG-TAATAG
* * *
9026045 ATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
* * ** * *
9026089 ATCTTATCT-CTCCGAAGTTGCAGTAGAGTGGA-T--CGT-ATCGG
1 ATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGTAAT-AG
* * * * *
9026130 GTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAA--AACA-
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTA-AAGTAATAG
** * ** *
9026173 AGTCTTATC-CCTCTGAAGTCACAGTGGGGCAGACCAAA-TAAGTAA
1 A-TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGTAA-TAG
* * * *
9026218 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATA-
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGT-AATAG
* * * ** *
9026262 ATCCTATCTCCCTGAAGTTGTAGTGGAGTGGGTTAAAGTAATAG
1 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
* *
9026306 ATCTTTTCT-CTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGAT
9026339 CGCATCAAGT
Statistics
Matches: 212, Mismatches: 61, Indels: 42
0.67 0.19 0.13
Matches are distributed among these distances:
40 2 0.01
41 26 0.12
42 3 0.01
43 15 0.07
44 156 0.74
45 9 0.04
46 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTAATAG
Found at i:9026263 original size:217 final size:216
Alignment explanation
Indices: 9025575--9026333 Score: 1133
Period size: 217 Copynumber: 3.5 Consensus size: 216
9025565 CGAAGATGAC
* * *
9025575 AAATCTTATCTCCCTGAGGATGTAATGGAGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
9025640 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
* *
9025705 GGTCTTATCTCCTTGAGGTTGTAGTGGAGCAGACTAAGAAAACAAGTCTTATCCCCCTGAAGTCA
131 GGTCTTATCTCCCTGAGGTTG-AGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
* * ** * *
9025770 CAGTGAGGTA-AAGAAGAT-GGC
195 CAGTGGGGCAGACCAA-ATAAGT
*
9025791 AAATCTTATCTCCCTGAGGATGTAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* * * * *
9025856 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTTCGAAGTTGCAATAGAGTGGATTGCATCA
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
*
9025921 GGTCTTATCTCCC------T--GTGGAGCAGACTGAGAAAACAAGTTTTATCCCCCTGAAGTCAC
131 GGTCTTATCTCCCTGAGGTTGAGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCAC
* *
9025978 AGTGGGGCAGACCGAAGAAGT
196 AGTGGGGCAGACCAAATAAGT
* * * * *
9025999 AAATCTTATCTCCCTAAGGTTGCAGTAGAGTAGATTGAAGCCGATAATCCTATCTCCTTGAAGTT
1 AAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
9026064 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
*
9026129 GGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAAGTCTTATCCCTCTGAAGTCA
131 GGTCTTATCTCCCTGAGGTTG-AGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCA
9026194 CAGTGGGGCAGACCAAATAAGT
195 CAGTGGGGCAGACCAAATAAGT
* *
9026216 AAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
* * * *
9026281 GTAGTGGAGTGGGTTAAAGTAATAGATCTTTTCTCTCTGAAGTTGCAGTAGAG
66 GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAG
9026334 CAGATCGCAT
Statistics
Matches: 490, Mismatches: 42, Indels: 21
0.89 0.08 0.04
Matches are distributed among these distances:
207 49 0.10
208 135 0.28
210 1 0.00
214 1 0.00
216 135 0.28
217 169 0.34
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (216 bp):
AAATCTTATCTCCCTGAGGATGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT
GTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCCGAAGTTGCAGTAGAGTGGATCGTATCG
GGTCTTATCTCCCTGAGGTTGAGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCAC
AGTGGGGCAGACCAAATAAGT
Found at i:9026782 original size:2 final size:2
Alignment explanation
Indices: 9026775--9026822 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9026765 NNNNNNNNNN
9026775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9026817 AT AT AT
1 AT AT AT
9026823 TATTTGCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9028762 original size:17 final size:18
Alignment explanation
Indices: 9028740--9028773 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9028730 TTTGTACAAA
9028740 ATTTATAATAA-AATTTT
1 ATTTATAATAATAATTTT
*
9028757 ATTTATTATAATAATTT
1 ATTTATAATAATAATTT
9028774 AATATGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATAATAATAATTTT
Found at i:9029353 original size:17 final size:17
Alignment explanation
Indices: 9029319--9029351 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9029309 ATTATTATTC
*
9029319 TAAAAATATTAATTAAA
1 TAAAAATATTAATAAAA
9029336 TAAAAAT-TTAATAAAA
1 TAAAAATATTAATAAAA
9029352 ATGTAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAATATTAATAAAA
Found at i:9037616 original size:18 final size:18
Alignment explanation
Indices: 9037593--9037629 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9037583 ATAAAAATTA
* *
9037593 TATATATGATATTTATAT
1 TATATATAACATTTATAT
9037611 TATATATAACATTTATAT
1 TATATATAACATTTATAT
9037629 T
1 T
9037630 TGGATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATAACATTTATAT
Found at i:9038264 original size:97 final size:98
Alignment explanation
Indices: 9038088--9038375 Score: 453
Period size: 96 Copynumber: 3.0 Consensus size: 98
9038078 AAATAAGGGT
* * * * *
9038088 TTAGGGTTTAGGATTTCTTAATTAAATTAATTATAAATTTT-AAAAAATTAGATTAGAGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
*
9038152 GTTTATGGTTTTTAAGGAAAAAAAT-AAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAAATCAAATAAA
9038184 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
9038249 GTTTAGGGTTTTTAAGG--AAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAAATCAAATAAA
* *
9038280 TTAGGGTTTAGAGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTGGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
*
9038345 ATTTAGGGTTTTTAAGG--AAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAAATCAAATAAA
9038376 ACTAGTTGTT
Statistics
Matches: 181, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
95 6 0.03
96 137 0.76
97 38 0.21
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.40
Consensus pattern (98 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAAAATCAAATAAA
Found at i:9039318 original size:41 final size:40
Alignment explanation
Indices: 9039217--9039340 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 40
9039207 GAGGAAGCAC
*
9039217 TTTGTCCACGTGGACACAAAGCGCTCCCTCAAGGAAGCG-TTT
1 TTTGTCCACGTGG--ACAAAGCGCT-CCTTAAGGAAGCGTTTT
* * *
9039259 TCTGTCCATGTGGACAAAGCGCGTCCTTGAGGAAGCGTTTT
1 TTTGTCCACGTGGACAAAGCGC-TCCTTAAGGAAGCGTTTT
9039300 TTTGTCCACGTGGACAAAGCGCTTCCTTAAGGAAGCGTTTT
1 TTTGTCCACGTGGACAAAGCGC-TCCTTAAGGAAGCGTTTT
9039341 CCTGCTTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 20 0.28
41 41 0.57
42 11 0.15
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (40 bp):
TTTGTCCACGTGGACAAAGCGCTCCTTAAGGAAGCGTTTT
Found at i:9044466 original size:11 final size:11
Alignment explanation
Indices: 9044450--9044507 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 11
9044440 AAATATTAAA
9044450 ATTTTTAATAT
1 ATTTTTAATAT
9044461 ATTTTTAAT-T
1 ATTTTTAATAT
**
9044471 -TTTTTTGTA-
1 ATTTTTAATAT
* *
9044480 AATTTTAGTAT
1 ATTTTTAATAT
9044491 ATTTTTAA-AT
1 ATTTTTAATAT
9044501 ATTTTTA
1 ATTTTTA
9044508 TGATGCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 6 0.16
10 17 0.45
11 15 0.39
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:9044574 original size:47 final size:44
Alignment explanation
Indices: 9044450--9044576 Score: 115
Period size: 46 Copynumber: 2.9 Consensus size: 44
9044440 AAATATTAAA
9044450 ATTTTT-AATATATTTT-TAAT--TTTTTTTGTAAATTTTAGTAT
1 ATTTTTAAATAT-TTTTATAATGCTTTTTTTGTAAATTTTAGTAT
* * *
9044491 ATTTTTAAATATTTTTATGATGCTTTTTTT-TTAATTTATAGTTT
1 ATTTTTAAATATTTTTATAATGCTTTTTTTGTAAATTT-TAGTAT
*
9044535 AATGGTTTT-AA-ATTTTTATAATTTCTTTTTTTGTAAATTTTA
1 -AT--TTTTAAATATTTTTATAA-TGCTTTTTTTGTAAATTTTA
9044577 AAGATTTTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
41 10 0.14
42 8 0.11
43 6 0.09
44 12 0.17
45 11 0.16
46 13 0.19
47 10 0.14
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (44 bp):
ATTTTTAAATATTTTTATAATGCTTTTTTTGTAAATTTTAGTAT
Found at i:9055904 original size:21 final size:21
Alignment explanation
Indices: 9055861--9055913 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
9055851 GGGATAAAAG
* *
9055861 AAATAATAAGAATAATAAGAAT
1 AAAT-ATAAAAATAATAACAAT
*
9055883 AAATATAAAAATAATGACAAT
1 AAATATAAAAATAATAACAAT
9055904 -AATAGTAAAA
1 AAATA-TAAAA
9055914 TGGATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (21 bp):
AAATATAAAAATAATAACAAT
Found at i:9057692 original size:44 final size:44
Alignment explanation
Indices: 9057642--9057731 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
9057632 AGAATTTAGT
** *
9057642 TTCAATCTACTTTATTACAACTTCAATGAGATAAGACTTGTAAC
1 TTCAATCTACTCCATTACAACTTCAAGGAGATAAGACTTGTAAC
* * * * *
9057686 TTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTAAC
1 TTCAATCTACTCCATTACAACTTCAAGGAGATAAGACTTGTAAC
9057730 TT
1 TT
9057732 GTAGCTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (44 bp):
TTCAATCTACTCCATTACAACTTCAAGGAGATAAGACTTGTAAC
Found at i:9057744 original size:51 final size:51
Alignment explanation
Indices: 9057677--9057782 Score: 158
Period size: 51 Copynumber: 2.1 Consensus size: 51
9057667 ATGAGATAAG
* *
9057677 ACTTGTAACTTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTA
1 ACTTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGTA
* * * *
9057728 ACTTGTAGCTTTAATCTGTTCCACTGCAGCTTTAGGGAAATAAGATTTGTA
1 ACTTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGTA
9057779 ACTT
1 ACTT
9057783 CAATCTACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (51 bp):
ACTTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGTA
Found at i:9057798 original size:44 final size:44
Alignment explanation
Indices: 9057669--9057992 Score: 305
Period size: 44 Copynumber: 7.2 Consensus size: 44
9057659 CAACTTCAAT
* *
9057669 GAGATAAGACTTGTAACTTCAATCTGCTCCATTGCAACTTTAGG
1 GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
* *
9057713 GAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAGCTTTAGG
1 GAGATAAGATTTGTAAC-T-T--C---AATCTGCTCCACTGCAACTTTAGG
* * *
9057764 GAAATAAGATTTGTAACTTCAATCTACTCTACTGCAACTTTAGG
1 GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
* ** * *
9057808 GAGATAATATTCATAACTCCAA--T-CTCCACTACAACTTTAGG
1 GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
** * *
9057849 GAGATAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGG
1 GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
* * *
9057893 GAGATAAGATTCAT-TATCTTCAATCTGCTCCATTGTAACTTTAGG
1 GAGATAAGATT--TGTAACTTCAATCTGCTCCACTGCAACTTTAGG
* ** * * * *
9057938 GAGATAAGATCTGTAGTTTTAATTTGCTCTACTGCAACTTCAGG
1 GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
9057982 GAGATAAGATT
1 GAGATAAGATT
9057993 CACCACAGTG
Statistics
Matches: 226, Mismatches: 41, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
41 31 0.14
42 1 0.00
43 2 0.01
44 113 0.50
45 36 0.16
46 2 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 37 0.16
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (44 bp):
GAGATAAGATTTGTAACTTCAATCTGCTCCACTGCAACTTTAGG
Found at i:9057959 original size:89 final size:89
Alignment explanation
Indices: 9057669--9057994 Score: 327
Period size: 89 Copynumber: 3.6 Consensus size: 89
9057659 CAACTTCAAT
* * * * * *
9057669 GAGATAAGACTTGTAACTTCAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGTAACTTGT
1 GAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T--CAT-T
* * * *
9057734 AGCTTTAATCTGTTCCACTGCAGCTTTAGG
60 AACTTCAATCTGCTCCACTGCAACTTTAGG
* * * * * * * *
9057764 GAAATAAGATTTGTAACTTCAATCTACTCTACTGCAACTTTAGGGAGATAATATTCA-TAACTCC
1 GAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATTAACTTC
*
9057828 AA--T-CTCCACTACAACTTTAGG
66 AATCTGCTCCACTGCAACTTTAGG
* *
9057849 GAGATAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATTATCTTC
1 GAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATTAACTTC
* *
9057914 AATCTGCTCCATTGTAACTTTAGG
66 AATCTGCTCCACTGCAACTTTAGG
* * * *
9057938 GAGATAAGATCTGTAGTTTTAATTTGCTCTACTGCAACTTCAGGGAGATAAGATTCA
1 GAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCA
9057995 CCACAGTGAC
Statistics
Matches: 196, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
85 64 0.33
86 8 0.04
88 7 0.04
89 67 0.34
90 1 0.01
92 1 0.01
93 1 0.01
95 47 0.24
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (89 bp):
GAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATTAACTTC
AATCTGCTCCACTGCAACTTTAGG
Found at i:9062742 original size:83 final size:78
Alignment explanation
Indices: 9062642--9062796 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
9062632 TCAATATTTC
*
9062642 TTTCGCAGTTTCTTTTCTTGACA-TTCAGGATAAATGATTCCTACTTGACCTCTTCCCCACTTAG
1 TTTCGCAGTTTCTTTTCTTGACATTTC---AT---CGATTCCTACTTGACCTCTTCCCCACTTAG
*
9062706 TCACGTTCTTCTTGACATT
60 TCACGCTCTTCTTGACATT
* *
9062725 TTTCGCAGTTTCTTTTCTTTACATTTCATCGATTCCTACTTGACCTCTTCCCCACTTAGTCGCGC
1 TTTCGCAGTTTCTTTTCTTGACATTTCATCGATTCCTACTTGACCTCTTCCCCACTTAGTCACGC
9062790 TCTTCTT
66 TCTTCTT
9062797 CTTTCTTGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
78 40 0.60
81 2 0.03
83 22 0.33
84 3 0.04
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (78 bp):
TTTCGCAGTTTCTTTTCTTGACATTTCATCGATTCCTACTTGACCTCTTCCCCACTTAGTCACGC
TCTTCTTGACATT
Found at i:9064738 original size:20 final size:20
Alignment explanation
Indices: 9064713--9064757 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
9064703 AAGGCCTTGG
*
9064713 TGGCTGGTTGTCACAGTCCT
1 TGGCTGGCTGTCACAGTCCT
9064733 TGGCTGGCTGTCACAGTCCT
1 TGGCTGGCTGTCACAGTCCT
9064753 TGGCT
1 TGGCT
9064758 TGCATACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.27, G:0.31, T:0.33
Consensus pattern (20 bp):
TGGCTGGCTGTCACAGTCCT
Found at i:9067764 original size:48 final size:48
Alignment explanation
Indices: 9067694--9067879 Score: 142
Period size: 48 Copynumber: 3.8 Consensus size: 48
9067684 TCTGGCTATA
* * * *
9067694 TAACGGGAAGCTCATGCGAGCCATTAGCAGGTAGCTCCAAAGAGCCAT
1 TAACGGGAAGCTCAAGAGAGCCATTATCAGGAAGCTCCAAAGAGCCAT
** * * * *
9067742 TAACGGGAAGCTCCGGATAGCCATATATCAGGGAG-TTCAAGCGAGCCA-
1 TAACGGGAAGCTCAAGAGAGCCAT-TATCAGGAAGCTCCAA-AGAGCCAT
* * * *
9067790 TATCGGGAAGCTCTAGAGAGCCATTAATTAGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCAAGAGAGCCATT-ATCAGGAAGCTC-CAAAGAGCCAT
* * *
9067840 TAATCGGGAAGCTCACAAAGAGCCATATATCGGGACGCTC
1 TAA-CGGGAAGCTCA-AGAGAGCCAT-TATCAGGAAGCTC
9067880 ACAAGAGTTG
Statistics
Matches: 106, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
47 1 0.01
48 51 0.48
49 20 0.19
50 5 0.05
51 10 0.09
52 18 0.17
53 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.18
Consensus pattern (48 bp):
TAACGGGAAGCTCAAGAGAGCCATTATCAGGAAGCTCCAAAGAGCCAT
Found at i:9067842 original size:26 final size:26
Alignment explanation
Indices: 9067711--9067883 Score: 96
Period size: 26 Copynumber: 7.0 Consensus size: 26
9067701 AAGCTCATGC
* *
9067711 GAGCCATT-AGCAGGTAGCTC-CAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* **
9067735 GAGCCATTAA-CGGGAAGCTC-CGGA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * * **
9067759 TAGCCA-TATATCAGGGAGTTCA-AGC
1 GAGCCATTA-ATCAGGAAGCTCACAAA
* * *
9067784 GAGCCA-T-ATCGGGAAGCTC-TAGA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
9067807 GAGCCATTAATTAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* *
9067833 GAGCCTTTAATCGGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* *
9067859 GAGCCA-TATATCGGGACGCTCACAA
1 GAGCCATTA-ATCAGGAAGCTCACAA
9067884 GAGTTGTCGC
Statistics
Matches: 116, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
23 19 0.16
24 25 0.22
25 27 0.23
26 45 0.39
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:9070758 original size:101 final size:101
Alignment explanation
Indices: 9070570--9070815 Score: 393
Period size: 101 Copynumber: 2.4 Consensus size: 101
9070560 AATTTTTCCT
* * * * *
9070570 TTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATAGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATAGT
*
9070635 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
9070671 TTACGTTCATAGTGCTATAACCCAGTTATGGTTTTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATAGT
*
9070736 CTTACATATAAACACTGCCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
9070772 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCCATCAA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAA
9070816 TTCATCCTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 126 0.95
102 6 0.05
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATAGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:9070803 original size:33 final size:33
Alignment explanation
Indices: 9070665--9070807 Score: 90
Period size: 33 Copynumber: 4.3 Consensus size: 33
9070655 TGGTCCAACC
* *
9070665 ATGGTCTTACGTTCATAGTGCTATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
* * * * *
9070698 ATGGTTTTATC-ATCAAAATGCCATAGCCCAGCT
1 ATGGTCTTA-CGTTCATAGTGCCATAACCCAGCT
* * * * **** * *
9070731 ATGGTCTTACATATAAACACTGCCATGGTTCAACC
1 ATGGTCTTACGT-T-CATAGTGCCATAACCCAGCT
*
9070766 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
9070799 ATGGTCTTA
1 ATGGTCTTA
9070808 TCCATCAATT
Statistics
Matches: 78, Mismatches: 28, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
32 1 0.01
33 51 0.65
34 3 0.04
35 23 0.29
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
Found at i:9072802 original size:19 final size:19
Alignment explanation
Indices: 9072764--9072816 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
9072754 GGTCTTTTTT
9072764 ATGAAATTTAATGCATATG-
1 ATGAAA-TTAATGCATATGA
9072783 ATGAAATGTAATGC-TGATGA
1 ATGAAAT-TAATGCAT-ATGA
*
9072803 ATGGAATTAATGCA
1 ATGAAATTAATGCA
9072817 AAAAGATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.07
19 21 0.72
20 6 0.21
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (19 bp):
ATGAAATTAATGCATATGA
Found at i:9074587 original size:21 final size:21
Alignment explanation
Indices: 9074561--9074610 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
9074551 GGACGTTGGA
9074561 GGCTCTAGAATAAGCTTTATC
1 GGCTCTAGAATAAGCTTTATC
* *
9074582 GGCTCTAGAATAATCTTTGTC
1 GGCTCTAGAATAAGCTTTATC
9074603 GGCT-TAGA
1 GGCTCTAGA
9074611 TCCTCGGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (21 bp):
GGCTCTAGAATAAGCTTTATC
Found at i:9077027 original size:1 final size:1
Alignment explanation
Indices: 9077021--9077052 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
9077011 ACCAAATCTC
9077021 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9077053 CAACATGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9079038 original size:18 final size:18
Alignment explanation
Indices: 9079017--9079051 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9079007 TAATATTTAA
*
9079017 TATTTTTCTATTTTTATT
1 TATTTTTATATTTTTATT
*
9079035 TATTTTTATTTTTTTAT
1 TATTTTTATATTTTTAT
9079052 CATTTTTTGC
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:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TATTTTTATATTTTTATT
Found at i:9093982 original size:47 final size:47
Alignment explanation
Indices: 9093930--9094023 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
9093920 GGAAAAGGCT
*
9093930 ATATATGGACACAAAAATAGACACCTGTCGGTTATCAATCATTTCAC
1 ATATATGGACACAAAAATAGACACCTGTCGATTATCAATCATTTCAC
9093977 ATATATGGACACAAAAATAGACACCTGTCGATTATCAATCATTTCAC
1 ATATATGGACACAAAAATAGACACCTGTCGATTATCAATCATTTCAC
9094024 GCATTGCTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (47 bp):
ATATATGGACACAAAAATAGACACCTGTCGATTATCAATCATTTCAC
Found at i:9097310 original size:28 final size:27
Alignment explanation
Indices: 9097244--9097311 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
9097234 TTATAGCATG
*
9097244 TTTATT-TTTATTTTAAAAATAGGAATT
1 TTTATTATTT-TTTTAAAAATAGGAACT
*
9097271 TTTATAGTATTTTTTTAAACATAGGAAACT
1 TTTAT--TATTTTTTTAAAAATAGG-AACT
9097301 TTTATTATTTT
1 TTTATTATTTT
9097312 ATTAGTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 5 0.14
28 6 0.17
29 13 0.37
30 11 0.31
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTATTATTTTTTTAAAAATAGGAACT
Found at i:9101475 original size:44 final size:41
Alignment explanation
Indices: 9101427--9101535 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
9101417 AGTATTATAT
9101427 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
9101471 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
9101515 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
9101536 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:9101514 original size:26 final size:28
Alignment explanation
Indices: 9101460--9101523 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
9101450 TAAGAATAAG
* * *
9101460 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
9101488 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
9101514 AATTATATTT
1 AATTATATTT
9101524 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:9101803 original size:39 final size:41
Alignment explanation
Indices: 9101758--9101863 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
9101748 TTTCCTTATG
*
9101758 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
* *
9101798 C-ATTACGCATCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
9101843 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
9101864 ACGCCTCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 12 0.22
40 2 0.04
41 4 0.07
44 19 0.35
45 5 0.09
46 12 0.22
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.29
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:9101838 original size:44 final size:46
Alignment explanation
Indices: 9101775--9101865 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 46
9101765 ACCTCTATTC
* *
9101775 CATTCAACCAAACACAAGAA-TACC-ATTACGCATCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACACATCTATTCCATTA
*
9101819 CATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACACATCTATTCCATTA
9101865 C
1 C
9101866 GCCTCTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 19 0.45
45 4 0.10
46 19 0.45
ACGTcount: A:0.41, C:0.30, G:0.03, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACACATCTATTCCATTA
Found at i:9101870 original size:16 final size:16
Alignment explanation
Indices: 9101845--9101882 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9101835 AGAATTACCT
9101845 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
9101861 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
9101877 ATTACA
1 ATTACA
9101883 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:9103756 original size:23 final size:23
Alignment explanation
Indices: 9103730--9103775 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9103720 ATTTAGGGAG
*
9103730 ATGA-AATTAAATTATATATTTTT
1 ATGAGAATTAAAATATA-ATTTTT
*
9103753 ATGAGAGTTAAAATATAATTTTT
1 ATGAGAATTAAAATATAATTTTT
9103776 TTTAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
ATGAGAATTAAAATATAATTTTT
Found at i:9105490 original size:141 final size:142
Alignment explanation
Indices: 9105236--9105518 Score: 523
Period size: 141 Copynumber: 2.0 Consensus size: 142
9105226 GAACTTTTTG
*
9105236 AATAGCTCAATGACTATAATTGTTTGTAATTAAAAATTTAATAAAAGAAAAAGGCAAGGGACAAC
1 AATAGCTCAATGACTAAAATTGTTTGTAATTAAAAATTTAATAAAAGAAAAAGGCAAGGGACAAC
9105301 TTACATCGGTGTAAAATTTAAATGGTTTTACATCCTTTCGTAAC-TTTTTTATATGATTAATATT
66 TTACATCGGTGTAAAATTTAAATGGTTTTACATCCTTTCGTAACTTTTTTTATATGATTAATATT
9105365 TTAACAATCCAA
131 TTAACAATCCAA
* *
9105377 AATAGCTCAATGACTAAAATTGTTTGTAATTAAAATTTTAATAAAAGAAAAAGGCGAGGGACAAC
1 AATAGCTCAATGACTAAAATTGTTTGTAATTAAAAATTTAATAAAAGAAAAAGGCAAGGGACAAC
*
9105442 TTATATCGGTGTAAAATTTAAATGGTTTTACATCCTTTCGTAACTTTTTTTATATGATTAATATT
66 TTACATCGGTGTAAAATTTAAATGGTTTTACATCCTTTCGTAACTTTTTTTATATGATTAATATT
9105507 TTAACAATCCAA
131 TTAACAATCCAA
9105519 CCATTGAATT
Statistics
Matches: 137, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 105 0.77
142 32 0.23
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (142 bp):
AATAGCTCAATGACTAAAATTGTTTGTAATTAAAAATTTAATAAAAGAAAAAGGCAAGGGACAAC
TTACATCGGTGTAAAATTTAAATGGTTTTACATCCTTTCGTAACTTTTTTTATATGATTAATATT
TTAACAATCCAA
Found at i:9106202 original size:2 final size:2
Alignment explanation
Indices: 9106197--9106242 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9106187 TTAAAACTGT
9106197 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
9106239 TA TA
1 TA TA
9106243 AAAGAGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9106735 original size:15 final size:15
Alignment explanation
Indices: 9106695--9106726 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9106685 AATGGCCTAA
*
9106695 TTGCGCCTTTGGTCC
1 TTGCACCTTTGGTCC
9106710 TTGCACCTTTGGTCC
1 TTGCACCTTTGGTCC
9106725 TT
1 TT
9106727 TCGCTTTTGC
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:0.03, C:0.31, G:0.22, T:0.44
Consensus pattern (15 bp):
TTGCACCTTTGGTCC
Found at i:9111834 original size:4 final size:4
Alignment explanation
Indices: 9111825--9111857 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
9111815 TATGAAAGTT
*
9111825 TTTA TTTA TTTA TTTA TGTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
9111858 GATTCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:9111846 original size:16 final size:16
Alignment explanation
Indices: 9111827--9111858 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9111817 TGAAAGTTTT
9111827 TATTTATTTATTTATG
1 TATTTATTTATTTATG
9111843 TATTTATTTATTTATG
1 TATTTATTTATTTATG
9111859 ATTCTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TATTTATTTATTTATG
Found at i:9112521 original size:14 final size:16
Alignment explanation
Indices: 9112492--9112523 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9112482 CACCGCCACA
9112492 GCCACCAACTCCACTT
1 GCCACCAACTCCACTT
9112508 GCCACC-AC-CCACTT
1 GCCACCAACTCCACTT
9112522 GC
1 GC
9112524 ACTTGCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.22, C:0.53, G:0.09, T:0.16
Consensus pattern (16 bp):
GCCACCAACTCCACTT
Found at i:9113593 original size:3 final size:3
Alignment explanation
Indices: 9113585--9113668 Score: 123
Period size: 3 Copynumber: 28.0 Consensus size: 3
9113575 AAAACTTTAG
9113585 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
9113633 ATT ATC ATC ATC ATC ATT ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9113669 CTTAAATTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:9115589 original size:19 final size:19
Alignment explanation
Indices: 9115553--9115589 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9115543 AATAAGAGTA
*
9115553 GTGGAATGGGGTTGCAAGT
1 GTGGAATGGGCTTGCAAGT
*
9115572 GTGGAATGGGCTTTCAAG
1 GTGGAATGGGCTTGCAAG
9115590 ACTTGCAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.08, G:0.43, T:0.27
Consensus pattern (19 bp):
GTGGAATGGGCTTGCAAGT
Found at i:9116027 original size:230 final size:230
Alignment explanation
Indices: 9115624--9116038 Score: 769
Period size: 230 Copynumber: 1.8 Consensus size: 230
9115614 TCCTTCCGAT
* *
9115624 ACATACATACATACATGCAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTT
1 ACATACATACATACATACAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTA
*
9115689 AGTGAGAGAACCAAGGAACTACATGCACTAATAAAACAACTTTGACTAAGCCTAAATATGAAGTA
66 AGTGAGAGAACCAAGGAACTACATGCACTAATAAAACAACTTGGACTAAGCCTAAATATGAAGTA
9115754 ATAAACCCTAAGGAGAATAATCTATTTTGGCAAATCAATTTGGATTAAACCCAGACTTGCAAGCC
131 ATAAACCCTAAGGAGAATAATCTATTTTGGCAAATCAATTTGGATTAAACCCAGACTTGCAAGCC
9115819 TTTAATGCAACACTCCTTCCAAAGCAAGCATGGAC
196 TTTAATGCAACACTCCTTCCAAAGCAAGCATGGAC
*
9115854 ACATACATACATAGATACAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTA
1 ACATACATACATACATACAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTA
*
9115919 AGTG-GTAGAACCAAGGAACTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGT
66 AGTGAG-AGAACCAAGGAACTACATGCACTAATAAAACAACTTGGACTAAGCCTAAATATGAAGT
9115983 AATAAACCCTAAGGAGAATAATCTATTTTGGCAAATCAATTTGGATTAAACCCAGA
130 AATAAACCCTAAGGAGAATAATCTATTTTGGCAAATCAATTTGGATTAAACCCAGA
9116039 TATGAACCAT
Statistics
Matches: 179, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
229 1 0.01
230 178 0.99
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (230 bp):
ACATACATACATACATACAAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTA
AGTGAGAGAACCAAGGAACTACATGCACTAATAAAACAACTTGGACTAAGCCTAAATATGAAGTA
ATAAACCCTAAGGAGAATAATCTATTTTGGCAAATCAATTTGGATTAAACCCAGACTTGCAAGCC
TTTAATGCAACACTCCTTCCAAAGCAAGCATGGAC
Found at i:9118793 original size:31 final size:31
Alignment explanation
Indices: 9118758--9118831 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
9118748 ATTAATAAGT
* * *
9118758 GTATTTTAAGTGGTGTTAAAAACTAATAGGG
1 GTATTTTAAGTAGTATTAAAAACCAATAGGG
* *
9118789 GTATTTTAGGTAGTATTGAAAACCAATAGGG
1 GTATTTTAAGTAGTATTAAAAACCAATAGGG
* *
9118820 ATAATTTAAGTA
1 GTATTTTAAGTA
9118832 TTAGAACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (31 bp):
GTATTTTAAGTAGTATTAAAAACCAATAGGG
Found at i:9125485 original size:26 final size:27
Alignment explanation
Indices: 9125405--9125488 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 27
9125395 TGCGAGTCAT
**
9125405 ATCGGGAAGCTC-CGGGGAGCCAT-TA
1 ATCGGGAAGCTCACGAAGAGCCATATA
** * *
9125430 ATTAGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACGAAGAGCCATATA
9125456 ATCGGGAAGCTCACGAAGAGCCATAT-
1 ATCGGGAAGCTCACGAAGAGCCATATA
9125482 ATCGGGA
1 ATCGGGA
9125489 TGCTTATAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
25 11 0.23
26 34 0.72
27 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (27 bp):
ATCGGGAAGCTCACGAAGAGCCATATA
Found at i:9125993 original size:5 final size:5
Alignment explanation
Indices: 9125978--9126009 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
9125968 AATTTAATAT
9125978 AATTC ATATTC AATTC AATTC AATTC AATTC A
1 AATTC A-ATTC AATTC AATTC AATTC AATTC A
9126010 CATCTTAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTC
Found at i:9131112 original size:12 final size:12
Alignment explanation
Indices: 9131095--9131119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9131085 TGAACCAAAA
9131095 TTTTTTAATTTT
1 TTTTTTAATTTT
9131107 TTTTTTAATTTT
1 TTTTTTAATTTT
9131119 T
1 T
9131120 AATAATTTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTAATTTT
Found at i:9137092 original size:21 final size:21
Alignment explanation
Indices: 9137067--9137108 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9137057 GAGCAGTGAG
*
9137067 AGCGGTAGCGGTAGTGAAAGT
1 AGCGGAAGCGGTAGTGAAAGT
* *
9137088 AGCGGAAGTGGTAGTGGAAGT
1 AGCGGAAGCGGTAGTGAAAGT
9137109 GGAAGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.45, T:0.19
Consensus pattern (21 bp):
AGCGGAAGCGGTAGTGAAAGT
Found at i:9137109 original size:27 final size:27
Alignment explanation
Indices: 9137044--9137114 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
9137034 TCGAGTAGTA
* * *
9137044 GTAGTGGAAGTGAGAGCAGTGAGAGCG
1 GTAGTGGAAGTGAAAGTAGGGAGAGCG
* * *
9137071 GTAGCGGTAGTGAAAGTAGCGGA-AGTG
1 GTAGTGGAAGTGAAAGTAG-GGAGAGCG
*
9137098 GTAGTGGAAGTGGAAGT
1 GTAGTGGAAGTGAAAGT
9137115 GAAAGCAGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.18
Consensus pattern (27 bp):
GTAGTGGAAGTGAAAGTAGGGAGAGCG
Found at i:9152781 original size:21 final size:21
Alignment explanation
Indices: 9152748--9152907 Score: 88
Period size: 21 Copynumber: 7.7 Consensus size: 21
9152738 CACAGAAGCA
* *
9152748 CATAAGTGCTAAACGGAAACC
1 CATAAGAGTTAAACGGAAACC
* * * *
9152769 CGTAAGGGTTAAACGGAAGCT
1 CATAAGAGTTAAACGGAAACC
* *
9152790 CATAAGAGCTGAACGGAAACC
1 CATAAGAGTTAAACGGAAACC
* * * *
9152811 CATAAGAGTTAATCTGAAGCT
1 CATAAGAGTTAAACGGAAACC
* * **
9152832 CAGAAGAGCTAAACTAAAACC
1 CATAAGAGTTAAACGGAAACC
* * * *
9152853 CATTAGGGTTAAACTGAAACT
1 CATAAGAGTTAAACGGAAACC
* * * *
9152874 CATATGAGTT-AACTGAAGCT
1 CATAAGAGTTAAACGGAAACC
*
9152894 CATAAGAGCTAAAC
1 CATAAGAGTTAAAC
9152908 TAAAAGCAAA
Statistics
Matches: 103, Mismatches: 35, Indels: 2
0.74 0.25 0.01
Matches are distributed among these distances:
20 17 0.17
21 86 0.83
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (21 bp):
CATAAGAGTTAAACGGAAACC
Found at i:9152805 original size:42 final size:42
Alignment explanation
Indices: 9152742--9152877 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
9152732 AGGCTGCACA
* * * *
9152742 GAAGCACATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACG
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* * *
9152784 GAAGCTCATAAGAGCTGAACGGAAACCCATAAGAGTTAATCT
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* ** *
9152826 GAAGCTCAGAAGAGCTAAACTAAAACCCATTAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
*
9152868 GAAACTCATA
1 GAAGCTCATA
9152878 TGAGTTAACT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT
Found at i:9160463 original size:2 final size:2
Alignment explanation
Indices: 9160456--9160485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9160446 ATACCGAGTA
9160456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9160486 GATTTTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9160494 original size:66 final size:66
Alignment explanation
Indices: 9160421--9160545 Score: 250
Period size: 66 Copynumber: 1.9 Consensus size: 66
9160411 ACAATTTCCC
9160421 ATTTTTTGGTTGCTTATATGAGTCCATACCGAGTAATATATATATATATATATATATATATATAT
1 ATTTTTTGGTTGCTTATATGAGTCCATACCGAGTAATATATATATATATATATATATATATATAT
9160486 G
66 G
9160487 ATTTTTTGGTTGCTTATATGAGTCCATACCGAGTAATATATATATATATATATATATAT
1 ATTTTTTGGTTGCTTATATGAGTCCATACCGAGTAATATATATATATATATATATATAT
9160546 GAGAGGGATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (66 bp):
ATTTTTTGGTTGCTTATATGAGTCCATACCGAGTAATATATATATATATATATATATATATATAT
G
Found at i:9160916 original size:2 final size:2
Alignment explanation
Indices: 9160909--9160952 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9160899 TATCCAATGC
9160909 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
9160951 TA
1 TA
9160953 CTTTTACCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9165420 original size:44 final size:44
Alignment explanation
Indices: 9165333--9165423 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
9165323 GTGTTACAAA
* *
9165333 TAATATTAAAATAACCTACACTAATTAGAGCTTATCTGAGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGCTTAACTGAGAAAC
* * *
9165377 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGCTTAACTGAGAAAC
9165421 TAA
1 TAA
9165424 AAACAAAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGCTTAACTGAGAAAC
Done.