Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 187 of 240
Found at i:57477714 original size:21 final size:20
Alignment explanation
Indices: 57477688--57477745 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
57477678 TAACATAATA
*
57477688 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
*
57477709 CATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
*
57477730 CATAACCTATATATAA
1 CATAACTTATATATAA
57477746 TAACATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:57477755 original size:8 final size:7
Alignment explanation
Indices: 57477742--57477787 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
57477732 TAACCTATAT
57477742 ATAATAAC
1 ATAAT-AC
57477750 ATAATA-
1 ATAATAC
*
57477756 A-ATTAC
1 ATAATAC
57477762 ATAATAC
1 ATAATAC
57477769 ATAATAAC
1 ATAAT-AC
57477777 ATAATAC
1 ATAATAC
57477784 ATAA
1 ATAA
57477788 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:57477809 original size:21 final size:21
Alignment explanation
Indices: 57477783--57477859 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
57477773 TAACATAATA
* *
57477783 CATAACTTATAT-ATAAGCTTG
1 CATAACTTACATAATAA-CTTC
57477804 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
** *
57477825 CATAACTTA-ATACACCACTTA
1 CATAACTTACATA-ATAACTTC
*
57477846 AATAACTTACATAA
1 CATAACTTACATAA
57477860 CTTACATAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.06
21 37 0.79
22 7 0.15
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:57477859 original size:9 final size:9
Alignment explanation
Indices: 57477841--57478341 Score: 180
Period size: 9 Copynumber: 58.3 Consensus size: 9
57477831 TTAATACACC
*
57477841 ACTTAAATA
1 ACTTACATA
57477850 ACTTACATA
1 ACTTACATA
57477859 ACTTACATA
1 ACTTACATA
*
57477868 GCTTACATA
1 ACTTACATA
* *
57477877 A-AT-CATT
1 ACTTACATA
57477884 ACTTACATA
1 ACTTACATA
*
57477893 ACATACATA
1 ACTTACATA
57477902 A--TACATA
1 ACTTACATA
57477909 ACTTACATA
1 ACTTACATA
* * *
57477918 A--AATAGA
1 ACTTACATA
57477925 ACTTACATA
1 ACTTACATA
*
57477934 TCTTACATA
1 ACTTACATA
57477943 A--TACATA
1 ACTTACATA
*
57477950 ACTTATATA
1 ACTTACATA
57477959 A--TACA-A
1 ACTTACATA
*
57477965 CACTTACAGA
1 -ACTTACATA
* *
57477975 AATTAAATA
1 ACTTACATA
*
57477984 ACTTGCATA
1 ACTTACATA
*
57477993 A--AACATA
1 ACTTACATA
* *
57478000 GCCTACATA
1 ACTTACATA
*
57478009 ACTTATATA
1 ACTTACATA
*
57478018 ACTTTCATA
1 ACTTACATA
**
57478027 AAATAC--A
1 ACTTACATA
57478034 ACTTACATA
1 ACTTACATA
**
57478043 TTTTACATAAA
1 ACTTACAT--A
57478054 ACTTACATA
1 ACTTACATA
57478063 A--TACATA
1 ACTTACATA
*
57478070 ACTTAC-TT
1 ACTTACATA
57478078 ACATAATACA-A
1 AC-T--TACATA
*
57478089 CACTTACACA
1 -ACTTACATA
*
57478099 ACTTAAATA
1 ACTTACATA
*
57478108 ACTTGCATA
1 ACTTACATA
57478117 A--TACATA
1 ACTTACATA
57478124 GAC-TACATA
1 -ACTTACATA
*
57478133 ACTTA-ATTTG
1 ACTTACA--TA
*
57478143 TCTTACATA
1 ACTTACATA
57478152 A--TACA-A
1 ACTTACATA
*
57478158 CACTTACACA
1 -ACTTACATA
*
57478168 ACTTAAATA
1 ACTTACATA
*
57478177 ACTTGCATA
1 ACTTACATA
57478186 A--TACATA
1 ACTTACATA
* *
57478193 GCCTACATA
1 ACTTACATA
*
57478202 ACTTA-ATTTT
1 ACTTACA--TA
*
57478212 CCTTACATA
1 ACTTACATA
57478221 A--TACA-A
1 ACTTACATA
57478227 CACTTACATA
1 -ACTTACATA
57478237 ACTTACATA
1 ACTTACATA
**
57478246 GGTTACATA
1 ACTTACATA
57478255 A--TACATA
1 ACTTACATA
*
57478262 ACTTAAATA
1 ACTTACATA
*
57478271 ACTTATATA
1 ACTTACATA
57478280 A--TACATA
1 ACTTACATA
57478287 ACTTACATA
1 ACTTACATA
* *
57478296 ATTTACTTA
1 ACTTACATA
57478305 A--TACATA
1 ACTTACATA
* *
57478312 A-ATATATA
1 ACTTACATA
* *
57478320 TCATATCATA
1 ACTTA-CATA
57478330 ACTTACATA
1 ACTTACATA
57478339 ACT
1 ACT
57478342 CATTTAATTT
Statistics
Matches: 361, Mismatches: 79, Indels: 104
0.66 0.15 0.19
Matches are distributed among these distances:
6 3 0.01
7 81 0.22
8 15 0.04
9 227 0.63
10 20 0.06
11 13 0.04
12 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:57477892 original size:25 final size:25
Alignment explanation
Indices: 57477853--57477918 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
57477843 TTAAATAACT
* *
57477853 TACATAACTTACATAGCTTACATAA
1 TACATAACTTACATAACATACATAA
*
57477878 -ATCATTACTTACATAACATACATAA
1 TA-CATAACTTACATAACATACATAA
57477903 TACATAACTTACATAA
1 TACATAACTTACATAA
57477919 AATAGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAACATACATAA
Found at i:57477919 original size:41 final size:40
Alignment explanation
Indices: 57477841--57477959 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 40
57477831 TTAATACACC
* * **
57477841 ACTTAAATAACTTACATAACTTACATAGCTTACATAAATCATT
1 ACTTACATAACTTACATAA--TACATAACTTACATAAAT-AGA
*
57477884 ACTTACATAACATACATAATACATAACTTACATAAAATAGA
1 ACTTACATAACTTACATAATACATAACTTACAT-AAATAGA
* *
57477925 ACTTACATATCTTACATAATACATAACTTATATAA
1 ACTTACATAACTTACATAATACATAACTTACATAA
57477960 TACAACACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.03
41 44 0.66
42 4 0.06
43 17 0.25
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.33
Consensus pattern (40 bp):
ACTTACATAACTTACATAATACATAACTTACATAAATAGA
Found at i:57477942 original size:34 final size:34
Alignment explanation
Indices: 57477896--57478063 Score: 88
Period size: 34 Copynumber: 4.7 Consensus size: 34
57477886 TTACATAACA
*
57477896 TACATAA--TACATAACTTACATAAAATAGAACT
1 TACATAACTTACATAACTTACATAAAATAAAACT
* * *
57477928 TACATATCTTACATAATACATAACTTATATAATACAACACT
1 TACATAACTTACAT-A-AC-TTAC--ATAAAATA-AA-ACT
* * * * * * * *
57477969 TACAGAAATTAAATAACTTGCATAAAACATAGCC
1 TACATAACTTACATAACTTACATAAAATAAAACT
* * *
57478003 TACATAACTTATATAACTTTCATAAAATACAACT
1 TACATAACTTACATAACTTACATAAAATAAAACT
**
57478037 TACATATTTTACATAAAACTTACATAA
1 TACATAACTTACAT--AACTTACATAA
57478064 TACATAACTT
Statistics
Matches: 98, Mismatches: 27, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
32 6 0.06
34 43 0.44
35 2 0.02
36 18 0.18
37 3 0.03
38 2 0.02
39 9 0.09
40 2 0.02
41 13 0.13
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAAAATAAAACT
Found at i:57477947 original size:16 final size:16
Alignment explanation
Indices: 57477887--57478339 Score: 121
Period size: 16 Copynumber: 27.0 Consensus size: 16
57477877 AATCATTACT
*
57477887 TACATAACATACATAA
1 TACATAACTTACATAA
57477903 TACATAACTTACATAA
1 TACATAACTTACATAA
57477919 -A-ATAGA---AC-T--
1 TACATA-ACTTACATAA
*
57477928 TACATATCTTACATAA
1 TACATAACTTACATAA
*
57477944 TACATAACTTATATAA
1 TACATAACTTACATAA
*
57477960 TACA-ACACTTACAGAAA
1 TACATA-ACTTACA-TAA
* *
57477977 TTAAATAACTTGCATAA
1 -TACATAACTTACATAA
* * *
57477994 AACATAGCCTACATAA
1 TACATAACTTACATAA
* *
57478010 CTTATATAACTTTCATAA
1 --TACATAACTTACATAA
* * * *
57478028 AATACAACTTACATATTT
1 TACATAACTTACATA--A
57478046 TACATAAAACTTACATAA
1 TACAT--AACTTACATAA
57478064 TACATAACTTACTTACATAA
1 TACAT-A---ACTTACATAA
*
57478084 TACA-ACACTTACACAA
1 TACATA-ACTTACATAA
* *
57478100 CTTAAATAACTTGCATAA
1 --TACATAACTTACATAA
57478118 TACATAGAC-TACATAA
1 TACATA-ACTTACATAA
**
57478134 CTTA-ATTTGTCTTACATAA
1 --TACA--TAACTTACATAA
*
57478153 TACA-ACACTTACACAA
1 TACATA-ACTTACATAA
* *
57478169 CTTAAATAACTTGCATAA
1 --TACATAACTTACATAA
* *
57478187 TACATAGCCTACATAA
1 TACATAACTTACATAA
**
57478203 CTTA-ATTTTCCTTACATAA
1 --TACA--TAACTTACATAA
57478222 TACA-ACACTTACATAA
1 TACATA-ACTTACATAA
**
57478238 CTTACATAGGTTACATAA
1 --TACATAACTTACATAA
*
57478256 TACATAACTTAAATAA
1 TACATAACTTACATAA
*
57478272 CTTATATAA--TACATAA
1 --TACATAACTTACATAA
* *
57478288 CTTACATAATTTACTTAA
1 --TACATAACTTACATAA
* * *
57478306 TACATAAATATATATCA
1 TACATAACT-TACATAA
57478323 TATCATAACTTACATAA
1 TA-CATAACTTACATAA
57478340 CTCATTTAAT
Statistics
Matches: 319, Mismatches: 67, Indels: 101
0.66 0.14 0.21
Matches are distributed among these distances:
10 1 0.00
11 4 0.01
12 2 0.01
13 2 0.01
14 4 0.01
15 3 0.01
16 146 0.46
17 25 0.08
18 87 0.27
19 21 0.07
20 24 0.08
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:57478119 original size:34 final size:34
Alignment explanation
Indices: 57478074--57478287 Score: 188
Period size: 34 Copynumber: 6.3 Consensus size: 34
57478064 TACATAACTT
*
57478074 ACTTACATAATACAACACTTACACAACTTAAATA
1 ACTTACATAATACAACACTTACATAACTTAAATA
* * * *
57478108 ACTTGCATAATACATAGAC-TACATAACTTAATTTG
1 ACTTACATAATACA-ACACTTACATAACTTAA-ATA
* *
57478143 TCTTACATAATACAACACTTACACAACTTAAATA
1 ACTTACATAATACAACACTTACATAACTTAAATA
* * *
57478177 ACTTGCATAATACATAGC-C-TACATAACTTAATTTT
1 ACTTACATAATACA-A-CACTTACATAACTTAA-ATA
* *
57478212 CCTTACATAATACAACACTTACATAACTTACATA
1 ACTTACATAATACAACACTTACATAACTTAAATA
** * *
57478246 GGTTACATAATACATA-ACTTAAATAACTTATATA
1 ACTTACATAATACA-ACACTTACATAACTTAAATA
57478280 A--TACATAA
1 ACTTACATAA
57478288 CTTACATAAT
Statistics
Matches: 145, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
32 7 0.05
33 1 0.01
34 82 0.57
35 54 0.37
36 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (34 bp):
ACTTACATAATACAACACTTACATAACTTAAATA
Found at i:57478156 original size:69 final size:69
Alignment explanation
Indices: 57478075--57478275 Score: 307
Period size: 69 Copynumber: 2.9 Consensus size: 69
57478065 ACATAACTTA
57478075 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGACTACATAACTTAAT
1 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGACTACATAACTTAAT
57478140 TTGT-
66 TT-TC
*
57478144 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGCCTACATAACTTAAT
1 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGACTACATAACTTAAT
57478209 TTTC
66 TTTC
* * ** * *
57478213 CTTACATAATACAACACTTACATAACTTACATAGGTTACATAATACATA-ACTTAAATAACTTA
1 CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGAC-TACATAACTTA
57478276 TATAATACAT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
68 2 0.02
69 120 0.98
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (69 bp):
CTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGACTACATAACTTAAT
TTTC
Found at i:57478259 original size:25 final size:25
Alignment explanation
Indices: 57478231--57478312 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
57478221 ATACAACACT
**
57478231 TACATAACTTACATAGGTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
57478256 TACATAACTTAAATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
57478281 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
57478306 TACATAA
1 TACATAA
57478313 ATATATATCA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:57482230 original size:66 final size:66
Alignment explanation
Indices: 57482066--57482215 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
57482056 AGTAAATTAC
* * * *
57482066 ACAACTTAAAACGGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
57482131 T
66 T
* *
57482132 ACAATTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAGGAAAG-TATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
57482196 CT
65 CT
* *
57482198 GCAGCTTAAAGCAGATGC
1 ACAACTTAAAGCAGATGC
57482216 GACAGCAGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 70 0.95
67 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:57482242 original size:21 final size:21
Alignment explanation
Indices: 57482218--57482276 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
57482208 GCAGATGCGA
57482218 CAGC-AGGAGAAGCAGAGGCTG
1 CAGCGAGG-GAAGCAGAGGCTG
*
57482239 CAGCGAGGGAAGTAGAGGCTG
1 CAGCGAGGGAAGCAGAGGCTG
*
57482260 CAACGAGGGAAGCAGAG
1 CAGCGAGGGAAGCAGAG
57482277 CAGCGTAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.34, C:0.17, G:0.44, T:0.05
Consensus pattern (21 bp):
CAGCGAGGGAAGCAGAGGCTG
Found at i:57482694 original size:43 final size:42
Alignment explanation
Indices: 57482624--57482909 Score: 313
Period size: 43 Copynumber: 6.7 Consensus size: 42
57482614 AAAAACTCCA
* * *
57482624 CTAAAGGTCATGGTCATTT-GCGACGTTTGTGGGAAAGGCGCCA
1 CTAAAGGTCATGGTC-TTTAGCGGCGTTTGTCGGAAA-GCGCCG
* ** *
57482667 CTAAAGATCGGGGTCTTTAGCGGCGTTTGTTTGGAAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTG-TCGGAAAGCGCCG
*
57482710 CTAAAGGTCATTGTCTTTAGCGGCGTTTGTCGGATAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGA-AAGCGCCG
* *
57482753 CTAAAGGTCATGGTCTTTAGCGGCATTTGTCGGATATGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGA-AAGCGCCG
* *
57482796 CTATAGGTCATGGTCTTTAGTGGCGTTTGTCGGAAAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGG-AAAGCGCCG
** ** *
57482839 CTAAAGACCATGACCTTTAGCGGCGTTTGTGGTGAAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTCG-GAAAGCGCCG
* * * *
57482882 CTTAATGTCTTGGTCTTAAGCGGCGTTT
1 CTAAAGGTCATGGTCTTTAGCGGCGTTT
57482910 ATTTCTAAAA
Statistics
Matches: 205, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
42 7 0.03
43 190 0.93
44 8 0.04
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (42 bp):
CTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAAAGCGCCG
Found at i:57488527 original size:21 final size:21
Alignment explanation
Indices: 57488501--57488547 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57488491 AACTAAAAGT
*
57488501 AGAGGCGGCAGTGAGAGAAGA
1 AGAGGCGGCAGCGAGAGAAGA
* *
57488522 AGAGGCTGCAGCGAGAGAAGC
1 AGAGGCGGCAGCGAGAGAAGA
57488543 AGAGG
1 AGAGG
57488548 TTCAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.47, T:0.04
Consensus pattern (21 bp):
AGAGGCGGCAGCGAGAGAAGA
Found at i:57489825 original size:30 final size:30
Alignment explanation
Indices: 57489789--57489847 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
57489779 TTTTGGTAAC
*
57489789 ATCTCTTATCCGTACTAATCGACAGGATGG
1 ATCTCTTATCCGTACCAATCGACAGGATGG
*
57489819 ATCTCTTATCCGTACCAATCGATAGGATG
1 ATCTCTTATCCGTACCAATCGACAGGATG
57489848 AATAAGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (30 bp):
ATCTCTTATCCGTACCAATCGACAGGATGG
Found at i:57490652 original size:183 final size:182
Alignment explanation
Indices: 57490303--57490656 Score: 430
Period size: 182 Copynumber: 1.9 Consensus size: 182
57490293 AGCGCCGCAA
* * * * *
57490303 AAATCTTAACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCGCTTACAAAAA
1 AAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGCTTACAAAAA
**
57490368 AAGCCAGTAAAAGAAGTATTAGCGGCGTTTACTAAAAACGCCGCAAAATATGATAACCAAAACGC
66 AAGCCAGTAAAAGAAAAATTAGCGGCGTTTACTAAAAACGCCGCAAAATATGATAACCAAAACGC
*
57490433 AGAGTTTTGATCTTGATGTATATTAGAATTAGTGGCGCTTAATAGAAGTGCC
131 AGAGTTTTGATCTTGAGGTATATTAGAATTAGTGGCGCTTAATAGAAGTGCC
* * **
57490485 AAATGTTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTAGTTAAA
1 AAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGCTTA-CAAAA
* ** * * * *
57490549 AACGCC-GCT-AAAGTATAAAATTAGCGGCGATTTTTTAGAATCGCCGCAAGATATGCA-CACCA
65 AAAGCCAG-TAAAAG-A-AAAATTAGCGGCG-TTTACTAAAAACGCCGCAAAATATG-ATAACCA
* *
57490611 AAACGCAGAG-TTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTA
125 AAACGCAGAGTTTTGATCTTGAGGTATATTAGAATTAGTGGCGCTTA
57490657 CGGAAAAACG
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
181 8 0.06
182 58 0.40
183 44 0.30
184 34 0.23
185 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (182 bp):
AAATCTTAACCAAAACGCAGCGGTTTGGTATCGATGTATAATACAATTAGTGGCGCTTACAAAAA
AAGCCAGTAAAAGAAAAATTAGCGGCGTTTACTAAAAACGCCGCAAAATATGATAACCAAAACGC
AGAGTTTTGATCTTGAGGTATATTAGAATTAGTGGCGCTTAATAGAAGTGCC
Found at i:57490666 original size:114 final size:114
Alignment explanation
Indices: 57490493--57491055 Score: 431
Period size: 114 Copynumber: 4.9 Consensus size: 114
57490483 CCAAATGTTA
* * * * *
57490493 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-GTTAAAAACGCCG
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACG-GAAAAACGCCG
** * *
57490556 CTAAAGTATAAAATTAGCGGCGATTTTTTAGAATCGCCGCAAGATATGCAC
64 CTAAAGTATACTATTAGCGGCGATTTTTTAGAAGCGCCGCAAGATATACAC
* *
57490607 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
** ** * * *
57490672 AAAG-AGTACTATTAGCGGCGCGTTTGGAGAAGCGCCGCTATAT-TTCTTA-
66 AAAGTA-TACTATTAGCGGCGATTTTTTAGAAGCGCCGCAAGATATAC--AC
* * * *
57490721 ACCAAAACTCA-ACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTAC-AATAAAACGCC
1 ACCAAAACGCAGA-G-TTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGA-AAAACGCC
* * * *
57490784 GCTAAA-TATCAGTATTAGCGGCG--CTTTCAGTTAAGCGCCGCAAGGTATACAC
63 GCTAAAGTAT-ACTATTAGCGGCGATTTTTTAG--AAGCGCCGCAAGATATACAC
* * * * *
57490836 ACCAAAACGCAAAGTTTAGTATTGAGGTATATTAGAATTAGTGGCGCTTATTGG-AAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTA-CGGAAAAACGCCGC
* * *
57490900 TAAAGTATACTATTAACGGC-ACTTTCTTAGAAGCGCCGCAAGATATATTA-
65 TAAAGTATACTATTAGCGGCGA-TTTTTTAGAAGCGCCGCAAGATATA-CAC
* * * ** * * * *
57490950 ACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCG-TTCAC-GAGAAATCGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATAATAGAATTAGTGGCGCTT-ACGGA-AAAACGCC
* *
57491013 GCTAAA-TCATATTATTAGCGGC-ACTTTTTTATAAGCGCCGCAA
63 GCTAAAGT-ATACTATTAGCGGCGA-TTTTTTAGAAGCGCCGCAA
57491056 AAGACCTTTA
Statistics
Matches: 361, Mismatches: 61, Indels: 53
0.76 0.13 0.11
Matches are distributed among these distances:
113 37 0.10
114 160 0.44
115 157 0.43
116 7 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTACGGAAAAACGCCGCT
AAAGTATACTATTAGCGGCGATTTTTTAGAAGCGCCGCAAGATATACAC
Found at i:57490976 original size:229 final size:226
Alignment explanation
Indices: 57490490--57491055 Score: 586
Period size: 229 Copynumber: 2.5 Consensus size: 226
57490480 GTGCCAAATG
* ** * *
57490490 TTAACCAAAACGCAGCGGTTT-GGTCTCGATGTATAATACAATTAGTGGCGTTA-GTTAAAAACG
1 TTAACCAAAACGCAAC-GTTTAAATCTTGATGTATAATACAATTAGTGGCGTTACGAT-AAAACG
* * * * *
57490553 CCGCTAAAGTATAAAATTAGCGGCGATTTTTTAGAATCGCCGCAAGATATGCACACCAAAACGCA
64 CCGCTAAA-TATAATATTAGCGGCGCTTTGTTA-AAGCGCCGCAAGATATACACACCAAAACGCA
* * * *
57490618 GAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTACTA
127 AAGTTTAGTATTGAGGTATATTAGAATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTACTA
* * * * * *
57490683 TTAGCGGCGCGTTTGGAGAAGCGCCGCTATATTTC
192 TTAACGGCACGTTTGGAGAAGCGCCGCAAGATATA
* *** * *
57490718 TTAACCAAAACTCAACGTTTTGGTCTTGATGTATAATATAATTAGTGGCGCTTACAATAAAACGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATACAATTAGTGGCG-TTACGATAAAACGC
* *
57490783 CGCTAAATATCAGTATTAGCGGCGCTTTCAGTT-AAGCGCCGCAAGGTATACACACCAAAACGCA
65 CGCTAAATAT-AATATTAGCGGCGCTTT--GTTAAAGCGCCGCAAGATATACACACCAAAACGCA
*
57490847 AAGTTTAGTATTGAGGTATATTAGAATTAGTGGCGCTTATTGG-AAAACGCCGCTAAAGTA-TAC
127 AAGTTTAGTATTGAGGTATATTAGAATTAGTGGCGCTTA-CGGAAAAACGCCGCTAAAG-AGTAC
**
57490910 TATTAACGGCAC-TTTCTTAGAAGCGCCGCAAGATATA
190 TATTAACGGCACGTTT-GGAGAAGCGCCGCAAGATATA
* ** * ** * *
57490947 TTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATACAATTAGTGGCGTT-ACGATAAAACGC
* * *
57491012 CGCTAAATCATATTATTAGCGGCACTTTTTTATAAGCGCCGCAA
65 CGCTAAAT-ATAATATTAGCGGCGCTTTGTTA-AAGCGCCGCAA
57491056 AAGACCTTTA
Statistics
Matches: 283, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
227 6 0.02
228 49 0.17
229 220 0.78
230 6 0.02
231 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (226 bp):
TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATACAATTAGTGGCGTTACGATAAAACGCC
GCTAAATATAATATTAGCGGCGCTTTGTTAAAGCGCCGCAAGATATACACACCAAAACGCAAAGT
TTAGTATTGAGGTATATTAGAATTAGTGGCGCTTACGGAAAAACGCCGCTAAAGAGTACTATTAA
CGGCACGTTTGGAGAAGCGCCGCAAGATATA
Found at i:57491405 original size:22 final size:21
Alignment explanation
Indices: 57491380--57491445 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
57491370 TTTATGATGT
* *
57491380 GGGTTATGGTGTTTTGGGTTTA
1 GGGTT-TGGAGTTTGGGGTTTA
57491402 GGGTTTAGGAGTTTGGGGTTTA
1 GGGTTT-GGAGTTTGGGGTTTA
* * *
57491424 AGATTTGGGGTTTGGGGTTTA
1 GGGTTTGGAGTTTGGGGTTTA
57491445 G
1 G
57491446 ACTGCTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (21 bp):
GGGTTTGGAGTTTGGGGTTTA
Found at i:57491432 original size:14 final size:15
Alignment explanation
Indices: 57491397--57491436 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
57491387 GGTGTTTTGG
* *
57491397 GTTTAGGGTTTAGGA
1 GTTTGGGGTTTAAGA
57491412 GTTTGGGGTTTAAGA
1 GTTTGGGGTTTAAGA
57491427 -TTTGGGGTTT
1 GTTTGGGGTTT
57491437 GGGGTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (15 bp):
GTTTGGGGTTTAAGA
Found at i:57493026 original size:13 final size:14
Alignment explanation
Indices: 57493001--57493029 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57492991 TGACAAAATC
57493001 AAAATGTATTTAAA
1 AAAATGTATTTAAA
57493015 AAAATGTA-TTAAA
1 AAAATGTATTTAAA
57493028 AA
1 AA
57493030 TGTCAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
AAAATGTATTTAAA
Found at i:57493318 original size:22 final size:24
Alignment explanation
Indices: 57493292--57493336 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
57493282 ATAAAAATGT
*
57493292 ATGAACATATAAAT-TT-TAAAAC
1 ATGAAAATATAAATATTATAAAAC
57493314 ATGAAAATATAAATATTATAAAA
1 ATGAAAATATAAATATTATAAAA
57493337 ATATGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 2 0.10
24 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
ATGAAAATATAAATATTATAAAAC
Found at i:57493339 original size:17 final size:18
Alignment explanation
Indices: 57493317--57493360 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
57493307 TTAAAACATG
57493317 AAAATATAAATAT-TATA
1 AAAATATAAATATATATA
* *
57493334 AAAATATGAATGTATATA
1 AAAATATAAATATATATA
57493352 AAATATATA
1 AAA-ATATA
57493361 TAAACTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 7 0.32
19 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAATATAAATATATATA
Found at i:57494090 original size:15 final size:15
Alignment explanation
Indices: 57494070--57494105 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
57494060 AATCTATTTA
57494070 TTCTTTTCTT-GTATT
1 TTCTTTT-TTCGTATT
57494085 TTCTTTTTTCGTATT
1 TTCTTTTTTCGTATT
57494100 TTCTTT
1 TTCTTT
57494106 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCGTATT
Found at i:57494682 original size:44 final size:44
Alignment explanation
Indices: 57494599--57494683 Score: 104
Period size: 44 Copynumber: 1.9 Consensus size: 44
57494589 TTTTCTTCAA
* *
57494599 AGAGCTTCATTCCATCCTACTGCAACGTCAGAGGTATAGGAACT
1 AGAGCTTCATTCCATCCTACTACAACATCAGAGGTATAGGAACT
57494643 AGAGCTTCGA-TCCACTCC-ACTACAACATCA-AGGTGATAGGA
1 AGAGCTTC-ATTCCA-TCCTACTACAACATCAGAGGT-ATAGGA
57494684 TTTGGGTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
43 4 0.11
44 28 0.78
45 4 0.11
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (44 bp):
AGAGCTTCATTCCATCCTACTACAACATCAGAGGTATAGGAACT
Found at i:57495217 original size:45 final size:45
Alignment explanation
Indices: 57495159--57495430 Score: 186
Period size: 45 Copynumber: 6.1 Consensus size: 45
57495149 CCCAGGGAGA
*
57495159 CAAGG-CTGGTATCTTC-GATCTGCTTCGCTGTCAATACAGGAAGG
1 CAAGGTCTGCTATCTTCAG-TCTGCTTCGCTGTCAATACAGGAAGG
* * *
57495203 CAAGGTCCGCTATCTTCAGTCTGC-TCTGCTGTAAACT-CAGGGAGG
1 CAAGGTCTGCTATCTTCAGTCTGCTTC-GCTGTCAA-TACAGGAAGG
* * * * * *
57495248 CAAGG-CTGGTGTCTT-TGATCTGCTTCGTTGTCAGTACAAGAAGG
1 CAAGGTCTGCTATCTTCAG-TCTGCTTCGCTGTCAATACAGGAAGG
* * * ** *
57495292 CAAGATCTGCTATCTTCAGTCTGCTCCGCTGTAAACCCAGGGAGG
1 CAAGGTCTGCTATCTTCAGTCTGCTTCGCTGTCAATACAGGAAGG
* * * * * *
57495337 CAAGG-CTGGTGTCTT-TGATCTGCTTCGTTGTCAGTACAAGAAGG
1 CAAGGTCTGCTATCTTCAG-TCTGCTTCGCTGTCAATACAGGAAGG
* * *
57495381 CAAGATCTGCTATATTCAGTCTGCTCCGCTG-CAA-ACTCAGGAAGG
1 CAAGGTCTGCTATCTTCAGTCTGCTTCGCTGTCAATA--CAGGAAGG
57495426 CAAGG
1 CAAGG
57495431 CTGAAGTTAC
Statistics
Matches: 167, Mismatches: 47, Indels: 27
0.69 0.20 0.11
Matches are distributed among these distances:
43 4 0.02
44 66 0.40
45 93 0.56
46 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (45 bp):
CAAGGTCTGCTATCTTCAGTCTGCTTCGCTGTCAATACAGGAAGG
Found at i:57495280 original size:89 final size:89
Alignment explanation
Indices: 57495151--57495433 Score: 449
Period size: 89 Copynumber: 3.2 Consensus size: 89
57495141 AGCTGCTGCC
* * * * * * * *
57495151 CAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGGTCCGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
*
57495216 CTTCAGTCTGCTCTGCTGTAAACT
66 CTTCAGTCTGCTCCGCTGTAAACT
57495240 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
*
57495305 CTTCAGTCTGCTCCGCTGTAAACC
66 CTTCAGTCTGCTCCGCTGTAAACT
57495329 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
* *
57495394 ATTCAGTCTGCTCCGCTGCAAACT
66 CTTCAGTCTGCTCCGCTGTAAACT
*
57495418 CAGGAAGGCAAGGCTG
1 CAGGGAGGCAAGGCTG
57495434 AAGTTACACC
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 180 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (89 bp):
CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGATCTGCTAT
CTTCAGTCTGCTCCGCTGTAAACT
Found at i:57495293 original size:44 final size:44
Alignment explanation
Indices: 57495245--57495384 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 44
57495235 AAACTCAGGG
57495245 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGA
* * * * * * * *** * *
57495289 AGGCAAGATCTGCTATC-TTCAGTCTGCTCCGCTGTAAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTTGA-TCTGCTTCGTTGTCAGTACAAGA
57495334 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGA
1 AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGA
57495378 AGGCAAG
1 AGGCAAG
57495385 ATCTGCTATA
Statistics
Matches: 69, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
44 38 0.55
45 31 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCAGTACAAGA
Found at i:57497194 original size:10 final size:10
Alignment explanation
Indices: 57497181--57497217 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
57497171 TTTCTTTTTA
57497181 TTTTTTGTTC
1 TTTTTTGTTC
57497191 TTTTTTGTTC
1 TTTTTTGTTC
*
57497201 TCTTTTTTTTC
1 T-TTTTTGTTC
57497212 TTTTTT
1 TTTTTT
57497218 CTATATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (10 bp):
TTTTTTGTTC
Found at i:57497196 original size:17 final size:17
Alignment explanation
Indices: 57497164--57497195 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57497154 CGGTAGAGGT
57497164 TTTTTTGTTTCTTTTTA
1 TTTTTTGTTTCTTTTTA
57497181 TTTTTTG-TTCTTTTT
1 TTTTTTGTTTCTTTTT
57497196 TGTTCTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.84
Consensus pattern (17 bp):
TTTTTTGTTTCTTTTTA
Found at i:57499523 original size:19 final size:19
Alignment explanation
Indices: 57499499--57499535 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57499489 GCATGACCTC
57499499 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
57499518 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
57499536 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:57501579 original size:18 final size:17
Alignment explanation
Indices: 57501553--57501587 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57501543 AATATTAAGA
*
57501553 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
57501570 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
57501588 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:57501599 original size:120 final size:120
Alignment explanation
Indices: 57501446--57501729 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
57501436 TAATTGAAAA
* * *
57501446 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
57501510 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
57501565 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
57501630 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
57501685 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
57501730 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:57501701 original size:18 final size:17
Alignment explanation
Indices: 57501673--57501707 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57501663 ATTATTAAGA
*
57501673 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
57501690 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
57501708 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:57501707 original size:16 final size:16
Alignment explanation
Indices: 57501673--57501727 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
57501663 ATTATTAAGA
57501673 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
57501690 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
57501706 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
57501720 ATGTTTAA
1 AT-TTTAA
57501728 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:57501964 original size:16 final size:16
Alignment explanation
Indices: 57501943--57502010 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
57501933 GATTTGCTAT
57501943 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
57501959 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
57501975 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
57501991 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
57502007 TACA
1 TACA
57502011 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:57502274 original size:15 final size:15
Alignment explanation
Indices: 57502256--57502291 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
57502246 AATTTGTTTA
57502256 TTCTTTTCTT-GTATT
1 TTCTTTT-TTCGTATT
57502271 TTCTTTTTTCGTATT
1 TTCTTTTTTCGTATT
57502286 TTCTTT
1 TTCTTT
57502292 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCGTATT
Found at i:57502991 original size:44 final size:44
Alignment explanation
Indices: 57502928--57503018 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
57502918 TCTTGCGTCC
* *
57502928 TTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGCCTCA
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCA
* *
57502972 TTCTTGCCGAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCA
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCA
57503016 TTC
1 TTC
57503019 CTCCTTCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (44 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCA
Found at i:57504740 original size:35 final size:35
Alignment explanation
Indices: 57504653--57504733 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
57504643 TAAAGTTATA
* *
57504653 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
57504688 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
57504723 TTTTAAATATT
1 TTTTAAATATT
57504734 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTGAATCACGAATAT
Found at i:57504782 original size:18 final size:17
Alignment explanation
Indices: 57504751--57504806 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
57504741 TTTAAGTTCA
57504751 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
57504768 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
57504786 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
57504802 AATTT
1 AATTT
57504807 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:57504826 original size:29 final size:33
Alignment explanation
Indices: 57504756--57504828 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
57504746 GTTCAAATTT
*
57504756 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
57504790 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
57504819 CATAACTTAC
1 CATAACTTAC
57504829 ATAACTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 15 0.39
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:57504948 original size:23 final size:22
Alignment explanation
Indices: 57504898--57505098 Score: 65
Period size: 22 Copynumber: 9.3 Consensus size: 22
57504888 AAAAAAATTG
57504898 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
57504921 CTACATACATAAGCTTACAT---
1 ATACATACATAA-CTTACATAAC
*
57504941 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
* * * *
57504962 TTAAATTTAGCA-ATCATATCATAAC
1 ATACA--TA-CATAACTTA-CATAAC
* *
57504987 TTACATACATAA-TTA-GT-A-
1 ATACATACATAACTTACATAAC
*
57505005 AT-CATATCACAACTTACATAACC
1 ATACATA-CATAACTTACATAA-C
*
57505028 A-ACATA-ATGACTTACATAATAAC
1 ATACATACATAACTTAC---ATAAC
* * *
57505051 CTACATA-ATAACTTATATAATA
1 ATACATACATAACTTACATAA-C
57505073 ATACATA-ATAA--TACATAAC
1 ATACATACATAACTTACATAAC
57505092 ATACATA
1 ATACATA
57505099 AATTAAATAA
Statistics
Matches: 133, Mismatches: 23, Indels: 48
0.65 0.11 0.24
Matches are distributed among these distances:
17 4 0.03
18 11 0.08
19 19 0.14
20 10 0.08
21 14 0.11
22 22 0.17
23 20 0.15
24 22 0.17
25 11 0.08
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:57505046 original size:12 final size:12
Alignment explanation
Indices: 57505029--57505083 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
57505019 TACATAACCA
*
57505029 ACATAATGACTT
1 ACATAATAACTT
*
57505041 ACATAATAACCT
1 ACATAATAACTT
57505053 ACATAATAACTT
1 ACATAATAACTT
*
57505065 ATATAATAA--T
1 ACATAATAACTT
57505075 ACATAATAA
1 ACATAATAA
57505084 TACATAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
10 9 0.24
12 29 0.76
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:57505056 original size:24 final size:24
Alignment explanation
Indices: 57505022--57505090 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
57505012 CACAACTTAC
* *
57505022 ATAACCAACATAATGACTTACATA
1 ATAACCTACATAATAACTTACATA
*
57505046 ATAACCTACATAATAACTTATATA
1 ATAACCTACATAATAACTTACATA
57505070 ATAA--TACATAATAA--TACATA
1 ATAACCTACATAATAACTTACATA
57505090 A
1 A
57505091 CATACATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.15
22 10 0.24
24 25 0.61
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:57505184 original size:95 final size:95
Alignment explanation
Indices: 57505074--57505495 Score: 684
Period size: 95 Copynumber: 4.5 Consensus size: 95
57505064 TATATAATAA
* *
57505074 TACATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
57505139 ATAACTTACATAATATCCTACATCCCTACT
66 ATAACTTACATAATATCCTACATCCCTACT
57505169 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
57505234 ATAACTTACATAATATCCTACATCCCTACT
66 ATAACTTACATAATATCCTACATCCCTACT
57505264 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
57505329 ATAACTTACATAATATCCTACATCCCTACT
66 ATAACTTACATAATATCCTACATCCCTACT
*
57505359 TACATAATAATACATACCGTAC---------ATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
* * **
57505415 ATAACTTACATAATAACTTACAT-AATAACT
66 ATAACTTACATAATATCCTACATCCCT-ACT
* *
57505445 TACATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAA
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAA
57505496 TAAGGTTAAA
Statistics
Matches: 307, Mismatches: 10, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
85 1 0.00
86 77 0.25
95 229 0.75
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (95 bp):
TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
ATAACTTACATAATATCCTACATCCCTACT
Found at i:57505455 original size:15 final size:12
Alignment explanation
Indices: 57505415--57505454 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
57505405 AAAAACTTAC
57505415 ATAACTTACATA
1 ATAACTTACATA
57505427 ATAACTTACATA
1 ATAACTTACATA
57505439 ATAACTTACATA
1 ATAACTTACATA
57505451 ATAA
1 ATAA
57505455 TGCATACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:57505544 original size:19 final size:19
Alignment explanation
Indices: 57505515--57505580 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
57505505 AAACATAGTG
57505515 TAACTTACATAATAATACA
1 TAACTTACATAATAATACA
57505534 T-ACTCTACATAATAATACA
1 TAACT-TACATAATAATACA
*
57505553 TAACTTAC---ATAAGACA
1 TAACTTACATAATAATACA
57505569 TAACTTACATAA
1 TAACTTACATAA
57505581 GTTTCATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.37
18 3 0.07
19 20 0.49
20 3 0.07
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (19 bp):
TAACTTACATAATAATACA
Found at i:57505555 original size:190 final size:186
Alignment explanation
Indices: 57505046--57505580 Score: 601
Period size: 181 Copynumber: 2.9 Consensus size: 186
57505036 GACTTACATA
* * *
57505046 ATAACCTACATAATAACTTATATAATAA--TACATAATAATACATAACATACATAAATTAAATAA
1 ATAACTTACATAATAACTTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAA
* *
57505109 GTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCCTACATCCCTACTTACAT
66 GTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATA--ATACAT-ACT-C-TACAT
** * *
57505174 AATAATACAT-ACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
126 AATAATACATAACAATACATAAAGTAAATAAGTTACATAATAAACAAAAACAAAAACTTAC
* * ** *
57505234 ATAACTTACATAATATCCTACATCCCT-ACTTACATAATAATACATACCGTACATAAATTAAATA
1 ATAACTTACATAATAACTTACAT-AATAACTTACATAATAATACATACCATACATAAATTAAATA
* * *
57505298 AGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAAT-AT-CCTACATC--CCTACT
65 AGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAATACATAC-TCTACATAAT
* ** *
57505359 --TACATAATAATACATACCGTACATAAGTTACATAATAAACAAAAACAAAAACTTAC
129 AATACATAACAATACATAAAGTAAATAAGTTACATAATAAACAAAAACAAAAACTTAC
* *
57505415 ATAACTTACATAATAACTTACATAATAACTTACATAATAATGCATACCCTACATAAATTAAATAA
1 ATAACTTACATAATAACTTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAA
** * **
57505480 GTTACATAATACACAATAAGGTTAAAAACATAGTGTAACTTACATAATAATACATACTCTACATA
66 GTTACATAATACACAA-AA--ACAAAAACTTA-CATAACTTACATAATAATACATACTCTACATA
* * *
57505545 ATAATACATAAC-TTACAT-AAG-ACATAACTTACATAA
127 ATAATACATAACAATACATAAAGTAAATAAGTTACATAA
57505581 GTTTCATAAT
Statistics
Matches: 291, Mismatches: 40, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
180 6 0.02
181 115 0.40
182 6 0.02
184 8 0.03
185 15 0.05
186 7 0.02
187 19 0.07
188 25 0.09
189 6 0.02
190 84 0.29
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.28
Consensus pattern (186 bp):
ATAACTTACATAATAACTTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAA
GTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAATACATACTCTACATAATAA
TACATAACAATACATAAAGTAAATAAGTTACATAATAAACAAAAACAAAAACTTAC
Found at i:57505561 original size:9 final size:9
Alignment explanation
Indices: 57505515--57505652 Score: 114
Period size: 9 Copynumber: 15.8 Consensus size: 9
57505505 AAACATAGTG
57505515 TAACTTACA
1 TAACTTACA
57505524 TAA-TAATACA
1 TAACT--TACA
57505534 T-ACTCTACA
1 TAACT-TACA
57505543 TAA-TAATACA
1 TAACT--TACA
57505553 TAACTTACA
1 TAACTTACA
*
57505562 TAA--GACA
1 TAACTTACA
57505569 TAACTTACA
1 TAACTTACA
* *
57505578 TAAGTTTCA
1 TAACTTACA
57505587 TAA--TACA
1 TAACTTACA
*
57505594 CAACTTACA
1 TAACTTACA
*
57505603 CAACTTACA
1 TAACTTACA
*
57505612 CAACTTACA
1 TAACTTACA
57505621 TAACTTACA
1 TAACTTACA
57505630 TAACTTACA
1 TAACTTACA
57505639 TAA--TACA
1 TAACTTACA
57505646 TAACTTA
1 TAACTTA
57505653 TTCCTAAATC
Statistics
Matches: 108, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
7 18 0.17
8 1 0.01
9 74 0.69
10 14 0.13
11 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.30
Consensus pattern (9 bp):
TAACTTACA
Found at i:57505564 original size:16 final size:16
Alignment explanation
Indices: 57505545--57505652 Score: 86
Period size: 16 Copynumber: 6.9 Consensus size: 16
57505535 ACTCTACATA
57505545 ATAATACATAACTTAC
1 ATAATACATAACTTAC
*
57505561 ATAAGACATAACTTAC
1 ATAATACATAACTTAC
*
57505577 AT-A-A-GT---TT-C
1 ATAATACATAACTTAC
*
57505586 ATAATACACAACTTAC
1 ATAATACATAACTTAC
* *
57505602 ACAACTTACACAACTTAC
1 ATAA--TACATAACTTAC
57505620 ATAACTTACATAACTTAC
1 ATAA--TACATAACTTAC
57505638 ATAATACATAACTTA
1 ATAATACATAACTTA
57505653 TTCCTAAATC
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.04
10 3 0.04
11 1 0.01
13 1 0.01
14 1 0.01
15 3 0.04
16 32 0.42
18 32 0.42
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAATACATAACTTAC
Found at i:57505588 original size:25 final size:25
Alignment explanation
Indices: 57505549--57505652 Score: 136
Period size: 25 Copynumber: 4.1 Consensus size: 25
57505539 TACATAATAA
*
57505549 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAATACATAACT
* * *
57505574 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAATACATAACT
* *
57505599 TACACAACTTACACAACTTACATAACT
1 TACATAACTTACATAA--TACATAACT
57505626 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
57505651 TA
1 TA
57505653 TTCCTAAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 44 0.67
27 22 0.33
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:57507684 original size:12 final size:12
Alignment explanation
Indices: 57507667--57507692 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57507657 CAAAACAGGC
57507667 TTTTAGCGGCGT
1 TTTTAGCGGCGT
57507679 TTTTAGCGGCGT
1 TTTTAGCGGCGT
57507691 TT
1 TT
57507693 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:57507887 original size:41 final size:41
Alignment explanation
Indices: 57507830--57507946 Score: 164
Period size: 41 Copynumber: 2.8 Consensus size: 41
57507820 AGTTTTTGGG
* *
57507830 GCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGA
1 GCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATACTAGA
*
57507871 GCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATACTAGG
1 GCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATACTAGA
* *
57507912 GGCTTTAGCGGCGTTTTTGGGAA-AAGCGCCGCTAA
1 GCCTTTAGCGGCGTTTTT--AAAGAAGCGCCGCTAA
57507947 AAACATTTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 55 0.80
42 12 0.17
43 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
GCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATACTAGA
Found at i:57508331 original size:15 final size:15
Alignment explanation
Indices: 57508293--57508327 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57508283 ACTATTTTAA
57508293 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
57508308 GGTTTAGGGATTAT-
1 GGTTTAGGGAGTATG
57508322 GGTTTA
1 GGTTTA
57508328 AGGGTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:57508369 original size:23 final size:23
Alignment explanation
Indices: 57508338--57508401 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
57508328 AGGGTTGAGA
*
57508338 TTTAAGGTTTAGAGGTTAGAGGG
1 TTTAGGGTTTAGAGGTTAGAGGG
* *
57508361 TTTAGGGTTTAGGGGTAAGAGGG
1 TTTAGGGTTTAGAGGTTAGAGGG
57508384 -TTAGCGGTTTAGAGGTTA
1 TTTAG-GGTTTAGAGGTTA
57508402 AACGTTAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (23 bp):
TTTAGGGTTTAGAGGTTAGAGGG
Found at i:57508400 original size:8 final size:8
Alignment explanation
Indices: 57508338--57508400 Score: 53
Period size: 7 Copynumber: 8.2 Consensus size: 8
57508328 AGGGTTGAGA
57508338 TTTA-AGG
1 TTTAGAGG
57508345 TTTAGAGG
1 TTTAGAGG
57508353 -TTAGAGGG
1 TTTAGA-GG
57508361 TTTAG-GG
1 TTTAGAGG
57508368 TTTAG-GG
1 TTTAGAGG
* *
57508375 GTAAGAGG
1 TTTAGAGG
* *
57508383 GTTAGCGG
1 TTTAGAGG
57508391 TTTAGAGG
1 TTTAGAGG
57508399 TT
1 TT
57508401 AAACGTTAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 21 0.46
8 21 0.46
9 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.41, T:0.35
Consensus pattern (8 bp):
TTTAGAGG
Found at i:57508652 original size:14 final size:15
Alignment explanation
Indices: 57508626--57508663 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
57508616 GTTTAGAGAG
57508626 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
57508641 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
57508655 TAT-GATTTA
1 TATGGATTTA
57508664 AGGGTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:57508793 original size:298 final size:299
Alignment explanation
Indices: 57508406--57509143 Score: 988
Period size: 298 Copynumber: 2.4 Consensus size: 299
57508396 AGGTTAAACG
* * * ** *
57508406 TTAGGGGTTAAGAAAGTTAGGGATTTAAGGTTTAGGGATTCAAAGGTCGAGTTAGGATTTTGGGC
1 TTAGGGGTT-A-ACAGTTAGGGATTAAAAGTTTAGGGATTCAGGGGTCGAGTTAGGGTTTT-GG-
*
57508471 GTTTAGATTAA-T-TTTTTAAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
62 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
** * ***
57508534 TAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGTCAATTTA
127 TAATAAATTTGTTTAGGGTTTTAAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCAATTTA
* * *
57508599 AGAGTTCATATTTTAAGGTTTAGAGAGTATGGATTTAGGGATTATGGATTAGGGATTATGATTTA
192 AGAGCTCATATTTTAAGGATTAGAGAGTATGGATCTAGGGATTATGGATTAGGGATTATGATTTA
** *
57508664 AGGGTTGAGATTTAAGGTTTAAG-GGTT-AGATGGTTAGGGG-T-
257 AGGGTTGAGATTTAAACTTT-AGCGGTTAAG-GGGTTAGGGGTTA
*
57508705 TTAGGGGTTAGACATGTTATGGG-TTAAAAG-TTAGGGATTCAGGGGTCGGGTTAGGGTTTTGGG
1 TTAGGGGTTA-ACA-GTTA-GGGATTAAAAGTTTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGG
*
57508768 TTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATGATTGTAAAAGAGATAAT
63 TTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAAT
** *
57508833 AATAAATTTGTTTAGGGTTTTAAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCGGTTTAG
128 AATAAATTTGTTTAGGGTTTTAAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCAATTTAA
* *
57508898 GAGCTCATATTTTAAGGATTAGGGAGTATGGATCTAGGGATTATGGATTAGGGATTATGGTTTAA
193 GAGCTCATATTTTAAGGATTAGAGAGTATGGATCTAGGGATTATGGATTAGGGATTATGATTTAA
*
57508963 GGGTTGGGATTTAAACTTTAGCGGTTAAGGGGTTAGGGGTTAGA
258 GGGTTGAGATTTAAACTTTAGCGGTTAAGGGGTTAGGGGTT--A
* * * * * *
57509007 CGTTAGGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTCAGGGGCCGAGTTAAGGTTTTGAGT
1 --TTAGGGGTTAACAGTTAGGGATTAAAAGTTTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGGT
*
57509072 TTAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAATAGATAAT
64 TTAGATTAATTA-TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAAT
57509137 AATAAAT
128 AATAAAT
57509144 CAAATATATT
Statistics
Matches: 388, Mismatches: 36, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
296 11 0.03
297 5 0.01
298 225 0.58
299 21 0.05
300 3 0.01
301 3 0.01
302 9 0.02
303 44 0.11
304 67 0.17
ACGTcount: A:0.30, C:0.03, G:0.26, T:0.41
Consensus pattern (299 bp):
TTAGGGGTTAACAGTTAGGGATTAAAAGTTTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGGTTT
AGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAAT
AAATTTGTTTAGGGTTTTAAGTTTAGGGTATATGATTAATTTAAGATTTAAAACCAATTTAAGAG
CTCATATTTTAAGGATTAGAGAGTATGGATCTAGGGATTATGGATTAGGGATTATGATTTAAGGG
TTGAGATTTAAACTTTAGCGGTTAAGGGGTTAGGGGTTA
Found at i:57508949 original size:14 final size:14
Alignment explanation
Indices: 57508913--57508957 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
57508903 CATATTTTAA
*
57508913 GGATTAGGGAGTAT
1 GGATTAGGGATTAT
57508927 GGATCTAGGGATTAT
1 GGAT-TAGGGATTAT
57508942 GGATTAGGGATTAT
1 GGATTAGGGATTAT
57508956 GG
1 GG
57508958 TTTAAGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.27, C:0.02, G:0.40, T:0.31
Consensus pattern (14 bp):
GGATTAGGGATTAT
Found at i:57509013 original size:14 final size:14
Alignment explanation
Indices: 57508980--57509028 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
57508970 GATTTAAACT
* *
57508980 TTAGCGGTTAAGGGG
1 TTAGGGGTTAA-GAG
57508995 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGA-G
57509009 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
57509023 TTAGGG
1 TTAGGG
57509029 ATTTAAGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 1 0.03
14 18 0.60
15 11 0.37
ACGTcount: A:0.22, C:0.04, G:0.45, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:57512540 original size:2 final size:2
Alignment explanation
Indices: 57512533--57512573 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
57512523 TATTTTTCCC
57512533 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
57512574 AAGTTGTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:57513948 original size:43 final size:43
Alignment explanation
Indices: 57513901--57514237 Score: 388
Period size: 43 Copynumber: 7.8 Consensus size: 43
57513891 TTTCTACGAG
* * *
57513901 AAGCGTCGCTAAAGGTCTCGAGCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * * *
57513944 AAGCGTCGCTAAAGGCCTCGAGCTATAGCGGCATTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * * *
57513987 AATCTCCGCTAAAGGCCTTGAGCTATAGCGGCGTTTTTGGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGGAA
**
57514031 AA-CGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGCAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * * *
57514073 AAGCACTGCTAAAGCTCTTGATCTATAGCGGCGTTTTTGGGAG
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* **
57514116 AAGCGCCGCTAAAGGTCTTGATCTCTAGCGGCGTTTGTGCAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * **
57514159 AAGCGCCGTTAAAGCTCTTGATTTATAGCGATGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* *
57514202 AAGCGCCACTAAAGGTCATGATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
57514238 ATTCCTAAAA
Statistics
Matches: 248, Mismatches: 44, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
42 5 0.02
43 236 0.95
44 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
Found at i:57517848 original size:21 final size:21
Alignment explanation
Indices: 57517824--57517877 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
57517814 GCAAAGGCGG
* * *
57517824 CAGCGAGGGAAGCAGATGCTA
1 CAGCGAGAGAAGCAGAGGCCA
57517845 CAGCGAGAGAAGCAGAGGCCA
1 CAGCGAGAGAAGCAGAGGCCA
57517866 CAGCGAGAGAAG
1 CAGCGAGAGAAG
57517878 TAGTGAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.39, T:0.04
Consensus pattern (21 bp):
CAGCGAGAGAAGCAGAGGCCA
Found at i:57517900 original size:12 final size:12
Alignment explanation
Indices: 57517866--57517904 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57517856 GCAGAGGCCA
57517866 CAGCGAGAGAAG
1 CAGCGAGAGAAG
* *
57517878 TAGTGAGAGAAG
1 CAGCGAGAGAAG
*
57517890 CAGCGATAGAAG
1 CAGCGAGAGAAG
57517902 CAG
1 CAG
57517905 AGGTTCAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.38, T:0.08
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:57518444 original size:43 final size:42
Alignment explanation
Indices: 57518396--57518494 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
57518386 GAACATTACT
*
57518396 TTTAGCGGCGTTTTGGGAGAAAACGCCACTAAAGAACATGATA
1 TTTAGCGGCGTTTT-GGACAAAACGCCACTAAAGAACATGATA
*** * * * *
57518439 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTGGACAAAACGCCACTAAAGAACATGATA
57518481 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
57518495 TTTCTGTAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 34 0.71
43 14 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTTGGACAAAACGCCACTAAAGAACATGATA
Found at i:57521615 original size:19 final size:19
Alignment explanation
Indices: 57521564--57521618 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
57521554 CAAAATCTTG
57521564 AAAAATTAAAAATTCTTTTTA
1 AAAAATT-AAAATT-TTTTTA
** *
57521585 AAACTTTTAAATTTTTTTA
1 AAAAATTAAAATTTTTTTA
57521604 AAAAATTAAAATTTT
1 AAAAATTAAAATTTT
57521619 CTTTTTTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 18 0.64
20 5 0.18
21 5 0.18
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAAATTAAAATTTTTTTA
Found at i:57523276 original size:17 final size:17
Alignment explanation
Indices: 57523241--57523277 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
57523231 CTTGATTCTT
*
57523241 AAAAATTTAAAATTAAA
1 AAAAATTTAAAAATAAA
57523258 AAAAATTTAAACAATAAA
1 AAAAATTTAAA-AATAAA
57523276 AA
1 AA
57523278 TTATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTTAAAAATAAA
Found at i:57531843 original size:26 final size:27
Alignment explanation
Indices: 57531791--57531853 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
57531781 ATAAAAAATA
57531791 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
57531818 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
57531844 ACCAAAATAT
1 ACCAAAATAT
57531854 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:57532005 original size:27 final size:27
Alignment explanation
Indices: 57531913--57532012 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
57531903 CCCTGGTCAG
* *
57531913 GCCAAGGTGATTGGCGGCACCAAAGGT
1 GCCAAGCTGATTGGCGGCACCAATGGT
*
57531940 GCCAAAGC-CATTGGCGGCACCAATGGT
1 GCC-AAGCTGATTGGCGGCACCAATGGT
** *
57531967 GCCAAGGAGATTGGCTGCACCAATGGT
1 GCCAAGCTGATTGGCGGCACCAATGGT
57531994 GCCATA-CTGATTGGCGGCA
1 GCCA-AGCTGATTGGCGGCA
57532013 TTACTCGTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.05
27 54 0.89
28 4 0.07
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (27 bp):
GCCAAGCTGATTGGCGGCACCAATGGT
Found at i:57532112 original size:11 final size:11
Alignment explanation
Indices: 57532096--57532135 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
57532086 GGTGCTACGG
57532096 AAAAGAAGAGA
1 AAAAGAAGAGA
57532107 AAAAG-AGAGA
1 AAAAGAAGAGA
* *
57532117 AAGAGAAGACA
1 AAAAGAAGAGA
57532128 AAAAGAAG
1 AAAAGAAG
57532136 GTATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.70, C:0.03, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:57532125 original size:21 final size:20
Alignment explanation
Indices: 57532095--57532133 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57532085 AGGTGCTACG
*
57532095 GAAAAGAAGAGAAAAAGAGA
1 GAAAAGAAGACAAAAAGAGA
57532115 GAAAGAGAAGACAAAAAGA
1 GAAA-AGAAGACAAAAAGA
57532134 AGGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (20 bp):
GAAAAGAAGACAAAAAGAGA
Found at i:57532270 original size:3 final size:3
Alignment explanation
Indices: 57532264--57532304 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
57532254 ATTATTATTA
57532264 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
57532305 AGTATTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:57538133 original size:27 final size:27
Alignment explanation
Indices: 57538095--57538150 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
57538085 TTAGCCACAT
*
57538095 ATTGGTGCCGCCTTTTTATTCCTCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
57538122 ATTGGTGCCGCCTTTTTATTCCCCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
57538149 AT
1 AT
57538151 CACCCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.09, C:0.34, G:0.14, T:0.43
Consensus pattern (27 bp):
ATTGGTGCCGCCTTTTTATTCCCCTCC
Found at i:57538926 original size:42 final size:40
Alignment explanation
Indices: 57538861--57539023 Score: 126
Period size: 40 Copynumber: 4.1 Consensus size: 40
57538851 TAAAAATTAC
*
57538861 CTTTTTTTCTTTTTTTTCC-TTCCTTCCCTCTTCTTCTTCTT
1 CTTTTTTT-TTCTTTTTCCTTTCCTT-CCTCTTCTTCTTCTT
*
57538902 CTTTTTTTTTCTTTTCTCCTTTCC-T--T-TTCTT-TCCTT
1 CTTTTTTTTTCTTTT-TCCTTTCCTTCCTCTTCTTCTTCTT
* *
57538938 CTTTTTCTTTCTTTTTCCTCTCCTTTCCTCTTCTTCTTCTT
1 CTTTTTTTTTCTTTTTCCTTTCC-TTCCTCTTCTTCTTCTT
* * * * *
57538979 -TTTTTCTCTTCTCCTTTCCTTTTCTTTC-CTTCTTTTTCTTT
1 CTTTTT-TTTTCT-TTTTCCTTTCCTTCCTCTTCTTCTTC-TT
57539020 CTTT
1 CTTT
57539024 CCTCTCATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
35 7 0.07
36 18 0.18
37 6 0.06
38 1 0.01
39 1 0.01
40 25 0.26
41 25 0.26
42 15 0.15
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (40 bp):
CTTTTTTTTTCTTTTTCCTTTCCTTCCTCTTCTTCTTCTT
Found at i:57538971 original size:32 final size:32
Alignment explanation
Indices: 57538898--57539059 Score: 111
Period size: 32 Copynumber: 4.9 Consensus size: 32
57538888 CTCTTCTTCT
* * *
57538898 TCTTCTTTTTTTTTCTTTTCTCCTTTCCTTTTCTT
1 TCTTCTTTTTCTTTCTTTT-TCCTCTCC-TTTC-C
57538933 TCCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCC
1 T-CTTCTTTTTCTTTCTTTTTCCTCTCCTTTCC
* *
57538966 TCTTCTTCTTCTTT-TTTTCTCTTCTCCTTTCC
1 TCTTCTTTTTCTTTCTTTT-TCCTCTCCTTTCC
* *
57538998 TTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT-CATTCC
1 TCTTCTTT--TTC--TTTC-TT-TTTCCTCTCCTTTCC
*
57539035 T-TTC--TTTCTTTC-TTTCCCTCTCCTT
1 TCTTCTTTTTCTTTCTTTTTCCTCTCCTT
57539060 CTCCCCCCCA
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
27 7 0.07
28 3 0.03
30 4 0.04
31 4 0.04
32 33 0.31
33 1 0.01
34 8 0.08
35 8 0.08
36 23 0.22
37 6 0.06
38 7 0.07
39 2 0.02
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (32 bp):
TCTTCTTTTTCTTTCTTTTTCCTCTCCTTTCC
Found at i:57538997 original size:72 final size:73
Alignment explanation
Indices: 57538860--57539023 Score: 246
Period size: 72 Copynumber: 2.2 Consensus size: 73
57538850 ATAAAAATTA
* *
57538860 CCTT-TTTTTCTTT-TTTTTCCTTCCTTCCCTCTTCTTCTTCTTCTTTTTTTTTCTTTTCTCCTT
1 CCTTCTTTTTCTTTCTTTTTCCTTCCTT--CTCCTCTTCTTCTTC-TTTTTTTTCTCTTCTCCTT
57538923 TCCTTTTCTTT
63 TCCTTTTCTTT
57538934 CCTTCTTTTTCTTTCTTTTTCCTCTCCTT-TCCTCTTCTTCTTC-TTTTTTTCTCTTCTCCTTTC
1 CCTTCTTTTTCTTTCTTTTTCCT-TCCTTCTCCTCTTCTTCTTCTTTTTTTTCTCTTCTCCTTTC
57538997 CTTTTCTTT
65 CTTTTCTTT
57539006 CCTTCTTTTTCTTTCTTT
1 CCTTCTTTTTCTTTCTTT
57539024 CCTCTCATTC
Statistics
Matches: 85, Mismatches: 2, Indels: 8
0.89 0.02 0.08
Matches are distributed among these distances:
72 46 0.54
74 17 0.20
75 9 0.11
76 8 0.09
77 5 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (73 bp):
CCTTCTTTTTCTTTCTTTTTCCTTCCTTCTCCTCTTCTTCTTCTTTTTTTTCTCTTCTCCTTTCC
TTTTCTTT
Found at i:57539005 original size:10 final size:10
Alignment explanation
Indices: 57538920--57539051 Score: 68
Period size: 10 Copynumber: 13.6 Consensus size: 10
57538910 TTCTTTTCTC
57538920 CTTTCCTTTT
1 CTTTCCTTTT
57538930 CTTTCCTTCTT
1 CTTTCCTT-TT
57538941 -TTT-CTTTCT
1 CTTTCCTTT-T
* * *
57538950 TTTTCCTCTC
1 CTTTCCTTTT
*
57538960 CTTTCCTCTT
1 CTTTCCTTTT
*
57538970 CTTCTTCTTTT
1 CTT-TCCTTTT
*
57538981 -TTTCTCTTCTC
1 CTTTC-CTT-TT
57538992 CTTTCCTTTT
1 CTTTCCTTTT
57539002 CTTTCCTTCTT
1 CTTTCCTT-TT
57539013 -TTT-C-TTT
1 CTTTCCTTTT
*
57539020 CTTTCC-TCT
1 CTTTCCTTTT
*
57539029 CATTCC-TTT
1 CTTTCCTTTT
57539038 CTTT-C-TTT
1 CTTTCCTTTT
57539046 CTTTCC
1 CTTTCC
57539052 CTCTCCTTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
7 2 0.02
8 13 0.13
9 20 0.21
10 42 0.43
11 16 0.16
12 4 0.04
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:57539034 original size:27 final size:27
Alignment explanation
Indices: 57539004--57539056 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
57538994 TTCCTTTTCT
*
57539004 TTCCTTCTTTTTCTTTCTTT-CCTCTCA
1 TTCCTT-TCTTTCTTTCTTTCCCTCTCA
57539031 TTCCTTTCTTTCTTTCTTTCCCTCTC
1 TTCCTTTCTTTCTTTCTTTCCCTCTC
57539057 CTTCTCCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (27 bp):
TTCCTTTCTTTCTTTCTTTCCCTCTCA
Found at i:57539171 original size:27 final size:27
Alignment explanation
Indices: 57539095--57539162 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
57539085 TATTATAAGC
*
57539095 TTGGTGCTGCCAATGAGTTTGGCACCA
1 TTGGTGCCGCCAATGAGTTTGGCACCA
57539122 TTGGTGCCGCCAATGAGTTTGGCACCA
1 TTGGTGCCGCCAATGAGTTTGGCACCA
57539149 TTGGTGCCGCCAAT
1 TTGGTGCCGCCAAT
57539163 CACCTTGGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (27 bp):
TTGGTGCCGCCAATGAGTTTGGCACCA
Found at i:57539262 original size:25 final size:27
Alignment explanation
Indices: 57539232--57539294 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 27
57539222 TTTTTTTGGT
57539232 ATATTTTGGTAAAT-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
57539257 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
57539285 ATATTTTGGT
1 ATATTTTGGT
57539295 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.40
27 6 0.17
28 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:57547628 original size:24 final size:24
Alignment explanation
Indices: 57547600--57547651 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57547590 TTAGTAGGTC
* *
57547600 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
57547624 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
57547648 AAAT
1 AAAT
57547652 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:57552605 original size:26 final size:24
Alignment explanation
Indices: 57552576--57552627 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
57552566 TCTTTACAAA
*
57552576 ATCAATGTAATTAAATCAATGATATT
1 ATCAATGT-ATTAAAT-AATAATATT
57552602 ATCAATGTATTAAATAATAATATT
1 ATCAATGTATTAAATAATAATATT
57552626 AT
1 AT
57552628 TTTCAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.40
25 7 0.28
26 8 0.32
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
ATCAATGTATTAAATAATAATATT
Found at i:57553854 original size:103 final size:101
Alignment explanation
Indices: 57553671--57553931 Score: 242
Period size: 103 Copynumber: 2.6 Consensus size: 101
57553661 GTTCTTTTTG
* * * * * * ** * *
57553671 TGCCATAGTCCAACTATGGTCTTACATGTG--CATTGCCATGGCCCTGCCATGGTCTTACATT-T
1 TGCCATAGCCCAAATATGGTCTTACATTTGAACACTACCATGGTCCAACCATGGTCTTACGTTCA
* * * *
57553733 GTAGTGCCATAACTCAGTTATGGTCTTATCATCAGAA
66 AT-GTGTCATAACCCAGTTATGGTCTTATCATCAAAA
* ** *
57553770 TGGCATAGCCCAGCTATGGTCTTACATATAT-ATATACTACCATGGTCCAACCATGGTCTTACGT
1 TGCCATAGCCCAAATATGGTCTTACAT-T-TGA-ACACTACCATGGTCCAACCATGGTCTTACGT
* * *
57553834 TCAATGTGTCATAACCCAGTTATGGTTTTTTCATTAAAA
63 TCAATGTGTCATAACCCAGTTATGGTCTTATCATCAAAA
* * *
57553873 TGCCATAGCCTAAATATGGTCTTACATTTGAACATTGCCATGGTCCAACCATGGTCTTA
1 TGCCATAGCCCAAATATGGTCTTACATTTGAACACTACCATGGTCCAACCATGGTCTTA
57553932 TCTGTCAATT
Statistics
Matches: 129, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
99 24 0.19
101 27 0.21
102 2 0.02
103 75 0.58
104 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (101 bp):
TGCCATAGCCCAAATATGGTCTTACATTTGAACACTACCATGGTCCAACCATGGTCTTACGTTCA
ATGTGTCATAACCCAGTTATGGTCTTATCATCAAAA
Found at i:57555049 original size:10 final size:10
Alignment explanation
Indices: 57555034--57555067 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
57555024 TGACACTCTG
57555034 TAAATATTTA
1 TAAATATTTA
57555044 TAAATATTTA
1 TAAATATTTA
**
57555054 TAGCTATTTA
1 TAAATATTTA
57555064 TAAA
1 TAAA
57555068 AATTGTCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (10 bp):
TAAATATTTA
Found at i:57555626 original size:21 final size:21
Alignment explanation
Indices: 57555588--57555627 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57555578 ATTTTTACCG
*
57555588 ATTTTTAATTTTGAAAATCGA
1 ATTTTTAATTTGGAAAATCGA
* *
57555609 ATTTTTAGTTTGGTAAATC
1 ATTTTTAATTTGGAAAATC
57555628 ATACTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
ATTTTTAATTTGGAAAATCGA
Found at i:57560680 original size:23 final size:24
Alignment explanation
Indices: 57560639--57560683 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57560629 AGTAAGATAC
57560639 TTTTTACTTTAGTTCCTTTAGTTA
1 TTTTTACTTTAGTTCCTTTAGTTA
*
57560663 TTTTTACTTTAG-TGCTTTAGT
1 TTTTTACTTTAGTTCCTTTAGT
57560684 AAAATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTTTACTTTAGTTCCTTTAGTTA
Found at i:57565114 original size:24 final size:26
Alignment explanation
Indices: 57565078--57565125 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
57565068 TGTTTATGCC
57565078 AATGCAG-TATTTTTC-AGAAAACGT
1 AATGCAGTTATTTTTCTAGAAAACGT
57565102 AATGCAGGTT-TTTTTCTAGAAAAC
1 AATGCA-GTTATTTTTCTAGAAAAC
57565126 ATCCTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 7 0.33
26 8 0.38
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (26 bp):
AATGCAGTTATTTTTCTAGAAAACGT
Found at i:57565123 original size:26 final size:24
Alignment explanation
Indices: 57565078--57565125 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
57565068 TGTTTATGCC
57565078 AATGCAGTATTTTTCAGAAAACGT
1 AATGCAGTATTTTTCAGAAAACGT
*
57565102 AATGCAGGTTTTTTTCTAGAAAAC
1 AATGCA-GTATTTTTC-AGAAAAC
57565126 ATCCTATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (24 bp):
AATGCAGTATTTTTCAGAAAACGT
Found at i:57575031 original size:163 final size:157
Alignment explanation
Indices: 57574755--57575055 Score: 345
Period size: 163 Copynumber: 1.9 Consensus size: 157
57574745 GGACATCATA
57574755 ACCTAAACTATATTATTTTTCTCATCTCGGTACTTAAACTGTTTTTCGTCACAAGTGATACATAA
1 ACCTAAACTATATTATTTTTCTCATCTCGGTACTTAAACTGTTTTTCGTCACAAGTGATACATAA
** * * ** ** * *
57574820 ATTACTTTTTTTCTCAAGTTGATACCTCCGTTTGTCTAACTGTTAGTCAAATTGTTAAGTTTATT
66 ACAACTTTTTTCCCCAAGTTGATACCT-C-TTTGTCTAACCATTAGTCAAATTGAGAAGTCTATA
57574885 TTTAAAAAAGGCTTAACCTACGAATTGGT
129 TTTAAAAAAGGCTTAACCTACGAATTGGT
* * * * * *
57574914 ACCTAAATTATATTATTTATTTCTCATTTTGGTACTTAAACATTTATTTTGGTCACAAGTGGTAC
1 ACCTAAACTATATTA-TT-TTTCTCATCTCGGTACTTAAAC-TGT-TTTTCGTCACAAGTGATAC
*
57574979 ATAAACAACTTTTATTCCCCAAGTTGGTACCT-TTATAG-CTTAACCATTAGTCAAATTGAGAAG
62 ATAAACAACTTTT-TTCCCCAAGTTGATACCTCTT-T-GTC-TAACCATTAGTCAAATTGAGAAG
57575042 TCTATATTTAAAAA
123 TCTATATTTAAAAA
57575056 GATATTACTT
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
159 14 0.12
160 2 0.02
161 22 0.19
162 4 0.03
163 60 0.51
164 15 0.13
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (157 bp):
ACCTAAACTATATTATTTTTCTCATCTCGGTACTTAAACTGTTTTTCGTCACAAGTGATACATAA
ACAACTTTTTTCCCCAAGTTGATACCTCTTTGTCTAACCATTAGTCAAATTGAGAAGTCTATATT
TAAAAAAGGCTTAACCTACGAATTGGT
Found at i:57588186 original size:18 final size:18
Alignment explanation
Indices: 57588152--57588186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57588142 ACATTTGTAA
* *
57588152 TATATATTATTTTATTTT
1 TATATATTATGTAATTTT
57588170 TATATATTATGTAATTT
1 TATATATTATGTAATTT
57588187 ACTTTACTTA
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:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:57588666 original size:24 final size:24
Alignment explanation
Indices: 57588639--57588688 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
57588629 AGTTAAAGTC
* *
57588639 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
57588663 AAATATGTTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
57588687 AA
1 AA
57588689 TTCTTCTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:57593686 original size:24 final size:24
Alignment explanation
Indices: 57593659--57593715 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
57593649 AAACCTAATT
57593659 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
57593683 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
57593707 CTCATAAAT
1 CTAATAAAT
57593716 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:57593721 original size:24 final size:24
Alignment explanation
Indices: 57593671--57593722 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
57593661 AATCAAAGTC
* **
57593671 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
57593695 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
57593719 AAAT
1 AAAT
57593723 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:57602208 original size:10 final size:11
Alignment explanation
Indices: 57602146--57602207 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 11
57602136 CAAAAAAATT
57602146 AAGAAAAAAAA
1 AAGAAAAAAAA
57602157 AAGGAAACAGGAAAA
1 AA-GAAA-A--AAAA
57602172 ACA-AAACAACAAA
1 A-AGAAA-AA-AAA
57602185 AAGAAAAAAAA
1 AAGAAAAAAAA
57602196 AAGAAAAAAAA
1 AAGAAAAAAAA
57602207 A
1 A
57602208 GGAACATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
11 17 0.39
12 8 0.18
13 8 0.18
14 5 0.11
15 5 0.11
16 1 0.02
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:57606554 original size:25 final size:25
Alignment explanation
Indices: 57606495--57606582 Score: 83
Period size: 27 Copynumber: 3.5 Consensus size: 25
57606485 TAAGAGTTGA
*
57606495 AATCGGGAAG-TTC-AAGCGAGCCAAT
1 AATCGGGAAGCTTCGAA--GAGCCATT
*
57606520 -ATCAGGAAGCTTCGAAGAGCCATT
1 AATCGGGAAGCTTCGAAGAGCCATT
* *
57606544 AATCGGGAAGCTTATGAAAGAGCCTTT
1 AATCGGGAAGCTT-CG-AAGAGCCATT
57606571 AATCGGGAAGCT
1 AATCGGGAAGCT
57606583 CTAAAGAGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 15 0.28
25 14 0.26
26 3 0.06
27 21 0.40
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (25 bp):
AATCGGGAAGCTTCGAAGAGCCATT
Found at i:57606594 original size:25 final size:27
Alignment explanation
Indices: 57606534--57606594 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
57606524 GGAAGCTTCG
*
57606534 AAGAGCCATTAATCGGGAAGCTTATGA
1 AAGAGCCTTTAATCGGGAAGCTTATGA
*
57606561 AAGAGCCTTTAATCGGGAAGC-TCT-A
1 AAGAGCCTTTAATCGGGAAGCTTATGA
57606586 AAGAGCCTT
1 AAGAGCCTT
57606595 ATATCGGCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 10 0.31
26 2 0.06
27 20 0.62
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (27 bp):
AAGAGCCTTTAATCGGGAAGCTTATGA
Found at i:57606600 original size:25 final size:27
Alignment explanation
Indices: 57606518--57606601 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 27
57606508 AAGCGAGCCA
* *
57606518 ATATCAGGAAGCTT-CG-AAGAGCCATT
1 ATATCGGGAAGCTTATGAAAGAGCC-TT
57606544 A-ATCGGGAAGCTTATGAAAGAGCCTT
1 ATATCGGGAAGCTTATGAAAGAGCCTT
*
57606570 -TAATCGGGAAGC-TCT-AAAGAGCCTT
1 AT-ATCGGGAAGCTTATGAAAGAGCCTT
57606595 ATATCGG
1 ATATCGG
57606602 CACACTCATA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 26 0.52
26 7 0.14
27 17 0.34
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (27 bp):
ATATCGGGAAGCTTATGAAAGAGCCTT
Found at i:57618438 original size:6 final size:6
Alignment explanation
Indices: 57618427--57618473 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
57618417 ATTAGGAACA
* *
57618427 CCCCCT CCCCCT CGCCTCCT TCCCCT TCCCCT CCCCCT CCCCC- CCCC
1 CCCCCT CCCCCT C-CC-CCT CCCCCT CCCCCT CCCCCT CCCCCT CCCC
57618474 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.11
6 26 0.70
7 4 0.11
8 3 0.08
ACGTcount: A:0.00, C:0.79, G:0.02, T:0.19
Consensus pattern (6 bp):
CCCCCT
Found at i:57629600 original size:23 final size:22
Alignment explanation
Indices: 57629568--57629615 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
57629558 TTAGGATTTG
*
57629568 TTTTTATTATTTTATTTTTATCT
1 TTTTTATTATTTTATTATT-TCT
*
57629591 TTTTTGTTATTTTATTATTTCT
1 TTTTTATTATTTTATTATTTCT
57629613 TTT
1 TTT
57629616 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTATTATTTTATTATTTCT
Found at i:57629698 original size:21 final size:22
Alignment explanation
Indices: 57629665--57629707 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
57629655 TCCCCTTTTA
*
57629665 CACGTTCATTTTTGTTTTTCCC
1 CACGTTCATTTTTCTTTTTCCC
57629687 CACGTT-ATTTTTCTTTTTCCC
1 CACGTTCATTTTTCTTTTTCCC
57629708 ATAATATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.09, C:0.28, G:0.07, T:0.56
Consensus pattern (22 bp):
CACGTTCATTTTTCTTTTTCCC
Found at i:57631514 original size:11 final size:10
Alignment explanation
Indices: 57631490--57631514 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57631480 CTTAATATCT
57631490 AAAAATTATG
1 AAAAATTATG
57631500 AAAAATTATG
1 AAAAATTATG
57631510 AAAAA
1 AAAAA
57631515 GACATTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAAATTATG
Found at i:57635963 original size:42 final size:42
Alignment explanation
Indices: 57635898--57636014 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
57635888 AGTTCATACA
** *
57635898 ATGCCACCATCCCAGAC-GTGGTCTTACATATAATCAAATATC
1 ATGCCACTGTCCCAGACAG-GGTCTTACACATAATCAAATATC
* * *
57635940 ATGCCACTGTCCCAGACAGGGTCTTACACGA-AGTCATATATG
1 ATGCCACTGTCCCAGACAGGGTCTTACAC-ATAATCAAATATC
* * *
57635982 ATGCCAATGTCCTAGACATGGTCTTACACATAA
1 ATGCCACTGTCCCAGACAGGGTCTTACACATAA
57636015 ATCTCAAGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.02
42 59 0.95
43 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACATAATCAAATATC
Found at i:57636048 original size:44 final size:43
Alignment explanation
Indices: 57635898--57636104 Score: 192
Period size: 44 Copynumber: 4.8 Consensus size: 43
57635888 AGTTCATACA
* * * * *
57635898 ATGCCACCATCCCAGACGTGGTCTTACATATAATC-AAATATC-
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCTCAA-ATCG
* * *
57635940 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAGTCAT-ATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATC-TCAAATCG
* * * *
57635982 ATGCCAATGTCCTAGACATGGTCTTACACATAAATCTCAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACA-AAATCTCAAATCG
*
57636026 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACA-CAAAATCTCAAATCG
*
57636070 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATC
57636105 ACATACTGGA
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 51 0.38
43 14 0.11
44 66 0.50
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCTCAAATCG
Found at i:57638228 original size:41 final size:43
Alignment explanation
Indices: 57638174--57638256 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
57638164 AGCGCGACTG
* * *
57638174 TAGATCAAGACCTTTAGTGGCGCTT-TTATC-AAAACGCCACTT
1 TAGAACAAGACCTTTAGTGACGCTTCTT-GCAAAAACGCCACTT
57638216 TAGAACAA-ACCTTTAGTGACGCTTCTTGCAAAAACGCCACT
1 TAGAACAAGACCTTTAGTGACGCTTCTTGCAAAAACGCCACT
57638257 AAAAACATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 16 0.44
42 20 0.56
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TAGAACAAGACCTTTAGTGACGCTTCTTGCAAAAACGCCACTT
Found at i:57641621 original size:21 final size:23
Alignment explanation
Indices: 57641595--57641641 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
57641585 TCTTGGATGT
*
57641595 GGGAAA-TTAGGGATTTTAG-GG
1 GGGAAAGTTAGGGATTTCAGAGG
*
57641616 GGGAAAGTTGGGGATTTCAGAGG
1 GGGAAAGTTAGGGATTTCAGAGG
57641639 GGG
1 GGG
57641642 GGGGAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (23 bp):
GGGAAAGTTAGGGATTTCAGAGG
Found at i:57642194 original size:106 final size:106
Alignment explanation
Indices: 57641971--57642285 Score: 535
Period size: 106 Copynumber: 3.0 Consensus size: 106
57641961 ATATATTTTT
*
57641971 ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAAGTTTTTA-TTT-TTTTTTATAAATTGA
1 ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
*
57642034 TTTATTTTTTGCGACGTTTTTATAAAAAAACGCCGCTATTTC
66 TTTATTTTTTGCGGCGTTTTTAT-AAAAAACGCCGCTATTTC
*
57642076 ATTTTGAACAAAAGGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
1 ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
*
57642141 TTTATTTTTTGCGGCATTTTTATAAAAAACGCCGCTATTTC
66 TTTATTTTTTGCGGCGTTTTTATAAAAAACGCCGCTATTTC
* * *
57642182 ATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
1 ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
*
57642247 TTTATTTTTTGCTGCGTTTTTATAAAAAACGCCGCTATT
66 TTTATTTTTTGCGGCGTTTTTATAAAAAACGCCGCTATT
57642286 ACTTACCTTT
Statistics
Matches: 199, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
105 43 0.22
106 120 0.60
107 36 0.18
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (106 bp):
ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGA
TTTATTTTTTGCGGCGTTTTTATAAAAAACGCCGCTATTTC
Found at i:57642348 original size:250 final size:251
Alignment explanation
Indices: 57642072--57642616 Score: 889
Period size: 251 Copynumber: 2.1 Consensus size: 251
57642062 AACGCCGCTA
*
57642072 TTTCATTTTGAACAAAAGGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
*
57642137 TTGATTTATTTTTTGCGGCATTTTTAT-AAAAAACGCCG-CTATTTCATTTTGAACAAAATGACA
66 TTGATTTATTTTTTGCAGCATTTTTATAAAAAAACG-CGACTATTTCATTTTGAACAAAATGACA
*
57642200 CCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCTGCGTT
130 CCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTT
57642265 TTTATAAAAAACGCCGCTATTACTTACCTTTAGCGGCGTTTTTTAT-TGCAAAATTTT
195 TTTATAAAAAACGCCGCTATTACTTACCTTTAGCGGC-TTTTTTATATGCAAAATTTT
* *
57642322 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
*
57642387 TTGATTTATTTTTTGCAGCGTTTTTATAAAAAAACGCGACTATTTCATTTTGAACAAAATGACAC
66 TTGATTTATTTTTTGCAGCATTTTTATAAAAAAACGCGACTATTTCATTTTGAACAAAATGACAC
57642452 CGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTT
131 CGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTT
* *
57642517 TTATAAAAACCGCCGCTATTGCTTACCTTTAGCGGCTTTTTTATAAAAAAACGCTGCAAAATTTT
196 TTATAAAAAACGCCGCTATTACTTACCTTTAGCGGCTTTTTTAT------A---TGCAAAATTTT
*
57642582 TTTCATTTTGAACAAAACGACGCCGTTATGCTATT
1 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATT
57642617 TTGGTTTTTA
Statistics
Matches: 274, Mismatches: 9, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
250 97 0.35
251 132 0.48
260 45 0.16
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (251 bp):
TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTTATTTTTTGCAGCATTTTTATAAAAAAACGCGACTATTTCATTTTGAACAAAATGACAC
CGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTT
TTATAAAAAACGCCGCTATTACTTACCTTTAGCGGCTTTTTTATATGCAAAATTTT
Found at i:57642443 original size:107 final size:107
Alignment explanation
Indices: 57642322--57642525 Score: 354
Period size: 107 Copynumber: 1.9 Consensus size: 107
57642312 GCAAAATTTT
* * * *
57642322 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
57642387 TTGATTTATTTTTTGCAGCGTTTTTATAAAAAAACGCGACTA
66 TTGATTTATTTTTTGCAGCGTTTTTATAAAAAAACGCGACTA
*
57642429 TTTCATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
*
57642494 TTGATTTATTTTTTGCGGCGTTTTTATAAAAA
66 TTGATTTATTTTTTGCAGCGTTTTTATAAAAA
57642526 CCGCCGCTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 91 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (107 bp):
TTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTTATTTTTTGCAGCGTTTTTATAAAAAAACGCGACTA
Found at i:57642746 original size:14 final size:15
Alignment explanation
Indices: 57642719--57642757 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
57642709 CTATGCTAAA
*
57642719 ATTTTTT-TATTTTG
1 ATTTTTTATAATTTG
57642733 -TTTTTTATAATTTG
1 ATTTTTTATAATTTG
57642747 ATTTTTTATAA
1 ATTTTTTATAA
57642758 AATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
ATTTTTTATAATTTG
Found at i:57643343 original size:7 final size:7
Alignment explanation
Indices: 57643323--57643379 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
57643313 AACCTTAAAT
57643323 CCCTAAC
1 CCCTAAC
* *
57643330 TCTTAAC
1 CCCTAAC
57643337 CCCTAAC
1 CCCTAAC
**
57643344 ATCTAAC
1 CCCTAAC
57643351 CCCTAAAC
1 CCCT-AAC
57643359 CCCTAAAC
1 CCCT-AAC
*
57643367 CACTAAC
1 CCCTAAC
57643374 CCCTAA
1 CCCTAA
57643380 ACCTTAAATC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 25 0.64
8 14 0.36
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:57643361 original size:8 final size:8
Alignment explanation
Indices: 57643348--57643382 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
57643338 CCTAACATCT
57643348 AACCCCTA
1 AACCCCTA
57643356 AACCCCTA
1 AACCCCTA
*
57643364 AACCACT-
1 AACCCCTA
57643371 AACCCCTA
1 AACCCCTA
57643379 AACC
1 AACC
57643383 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (8 bp):
AACCCCTA
Found at i:57643376 original size:23 final size:22
Alignment explanation
Indices: 57643334--57643382 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
57643324 CCTAACTCTT
57643334 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACATCTAACCCCTA
57643356 AACCCCTAAACCA-CTAACCCCTA
1 AACCCCT-AA-CATCTAACCCCTA
57643379 AACC
1 AACC
57643383 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 2 0.08
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCCTAACATCTAACCCCTA
Found at i:57643420 original size:14 final size:14
Alignment explanation
Indices: 57643402--57643443 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
57643392 AACCCTTAAA
57643402 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
57643416 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
57643431 CCATACTCCCTAA
1 CCATAATCCCTAA
57643444 ACATTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:57643440 original size:15 final size:15
Alignment explanation
Indices: 57643398--57643444 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
57643388 TCCCAACCCT
57643398 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
57643412 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
57643426 TAAATCCATACTCCC
1 TAAATCCATAATCCC
57643441 TAAA
1 TAAA
57643445 CATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:57643700 original size:15 final size:15
Alignment explanation
Indices: 57643676--57643706 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57643666 AACCCCTAAT
57643676 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
57643691 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
57643706 C
1 C
57643707 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:57644154 original size:114 final size:114
Alignment explanation
Indices: 57643954--57644171 Score: 375
Period size: 114 Copynumber: 1.9 Consensus size: 114
57643944 TAAAATATTT
* * *
57643954 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAACGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTTCCAAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
57644019 TAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
*
57644068 TTAGCGGCGCTTTCTTC-AAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTT-TCCAAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
*
57644132 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
65 TTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
57644172 TCCCCGAAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 96 0.98
115 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (114 bp):
TTAGCGGCGCTTTTCCAAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:57644239 original size:114 final size:114
Alignment explanation
Indices: 57644144--57644358 Score: 351
Period size: 114 Copynumber: 1.9 Consensus size: 114
57644134 AGGTTTTTTT
* *
57644144 GCGGCGCTTTC-CCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTA
1 GCGGCGCTTTCTCC-AAAACGCCACCAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTA
57644208 GGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
65 GGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
* * **
57644258 GCGGCGCTTTCTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
*
57644323 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAA
57644359 TCCCCGAAAG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 92 0.99
115 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (114 bp):
GCGGCGCTTTCTCCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
Found at i:57644242 original size:73 final size:73
Alignment explanation
Indices: 57644071--57644244 Score: 269
Period size: 73 Copynumber: 2.4 Consensus size: 73
57644061 CTGAGCATTA
* * * * **
57644071 GCGGCGCTTTCTTC-AAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTA
57644135 GGTTTTTTT
65 GGTTTTTTT
57644144 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
57644209 GTTTTTTT
66 GTTTTTTT
*
57644217 GCGGCGCTTTCCCAAAAACGTCGCTAAA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAA
57644245 GCCCTGAGCA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.01
73 92 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (73 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
GTTTTTTT
Found at i:57644272 original size:187 final size:187
Alignment explanation
Indices: 57643951--57644545 Score: 1048
Period size: 187 Copynumber: 3.2 Consensus size: 187
57643941 AGATAAAATA
* * * * **
57643951 TTTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAACGCTCAGAAAACGGCGTCGTTGG
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
* *
57644016 GCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
66 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
57644081 CTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
131 CTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
57644138 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
57644203 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
66 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
57644268 CTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
131 CTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
57644325 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
57644390 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
66 GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
* * * *
57644455 CTT-ATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
131 CTTCA-AAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* *
57644512 TTTTTTGGGGCGCTTTCCGAAAAACGCCGCTAAA
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
57644546 ACCCTGAGCA
Statistics
Matches: 393, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
186 1 0.00
187 392 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (187 bp):
TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGG
GCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTAGCGGCGCTTT
CTTCAAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
Done.