Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 139 of 770
Found at i:40884362 original size:40 final size:39
Alignment explanation
Indices: 40884262--40884400 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 39
40884252 AGACTAGGAT
* * * *
40884262 CCGAAGGTATTCGTGCGAGTTAATAAATCCGGGCTAA-AC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* * *
40884301 CTGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
40884341 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGCTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGG-TTAAGTC
* *
40884381 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
40884401 CGTTATATCC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 30 0.36
40 49 0.59
41 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:40887675 original size:31 final size:32
Alignment explanation
Indices: 40887630--40887689 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
40887620 TGAATTTCTG
*
40887630 TGCATACCTGTACCATATTGTTCCAATTTCCA
1 TGCATACCTGTACCATATTGTACCAATTTCCA
40887662 TGCATA-CTGTACCATATTGTACCAATTT
1 TGCATACCTGTACCATATTGTACCAATTT
40887690 TCGTAGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (32 bp):
TGCATACCTGTACCATATTGTACCAATTTCCA
Found at i:40887828 original size:28 final size:28
Alignment explanation
Indices: 40887797--40887896 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 28
40887787 CCGATACATT
* *
40887797 GCACACTAAGTGTCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
40887825 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
40887853 GCACACTAAGTGCCATTCTGGATGTATT-
1 GCACACTAAGTGCCATTCTGGATGT-TTC
*
40887881 GCACATTAAGTGCCAT
1 GCACACTAAGTGCCAT
40887897 CCCCGATACT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 56 0.97
29 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:40887859 original size:56 final size:56
Alignment explanation
Indices: 40887762--40887923 Score: 186
Period size: 56 Copynumber: 2.9 Consensus size: 56
40887752 TGAATATTCA
* * * * *
40887762 ATGTATCGCACACT-AGATTCCATACCCGATACATT-GCACACTAAGTGTCGTTCTGG
1 ATGTATTGCACACTAAG-TGCCATCCCCGATAC-TTCGCACACTAAGTGCCATTCTGG
* *
40887818 ATGT-TTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAAGTGCCATTCTGG
1 ATGTATT-GCACACTAAGTGCCATCCCCGATACTTCGCACACTAAGTGCCATTCTGG
* **
40887874 ATGTATTGCACATTAAGTGCCATCCCCGATACTTCGCACGTTAAGTGCCA
1 ATGTATTGCACACTAAGTGCCATCCCCGATACTTCGCACACTAAGTGCCA
40887924 CATATAATTA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
55 3 0.03
56 83 0.92
57 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (56 bp):
ATGTATTGCACACTAAGTGCCATCCCCGATACTTCGCACACTAAGTGCCATTCTGG
Found at i:40887912 original size:28 final size:28
Alignment explanation
Indices: 40887822--40887923 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 28
40887812 TTCTGGATGT
*
40887822 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* *
40887850 TTCGCACACTAAGTGCCATTCTGGATGTA-
1 TTCGCACACTAAGTGCCATCCTCGA--TAC
* *
40887879 TT-GCACATTAAGTGCCATCCCCGATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
**
40887906 TTCGCACGTTAAGTGCCA
1 TTCGCACACTAAGTGCCA
40887924 CATATAATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 54 0.87
29 2 0.03
30 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:40893199 original size:17 final size:19
Alignment explanation
Indices: 40893157--40893200 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40893147 ATGAAATTTT
* *
40893157 AATTAGTATTATGAGATAA
1 AATTATTATTATCAGATAA
40893176 AATTATTATTATCAGA-AA
1 AATTATTATTATCAGATAA
40893194 AA-TATTA
1 AATTATTA
40893201 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (19 bp):
AATTATTATTATCAGATAA
Found at i:40893231 original size:12 final size:12
Alignment explanation
Indices: 40893214--40893238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40893204 TATGTATGTT
40893214 TGAAAATTTTTA
1 TGAAAATTTTTA
40893226 TGAAAATTTTTA
1 TGAAAATTTTTA
40893238 T
1 T
40893239 TATTTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:40897485 original size:17 final size:19
Alignment explanation
Indices: 40897443--40897486 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40897433 ATGAAATTTT
* *
40897443 AATTAGTATTATGAGATAA
1 AATTATTATTATCAGATAA
40897462 AATTATTATTATCAGA-AA
1 AATTATTATTATCAGATAA
40897480 AA-TATTA
1 AATTATTA
40897487 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (19 bp):
AATTATTATTATCAGATAA
Found at i:40898807 original size:16 final size:16
Alignment explanation
Indices: 40898786--40898817 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40898776 GCGTGAATCA
40898786 CTGGAGCAATCGGATT
1 CTGGAGCAATCGGATT
40898802 CTGGAGCAATCGGATT
1 CTGGAGCAATCGGATT
40898818 GGGAGCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (16 bp):
CTGGAGCAATCGGATT
Found at i:40902305 original size:28 final size:28
Alignment explanation
Indices: 40902274--40902391 Score: 107
Period size: 28 Copynumber: 4.2 Consensus size: 28
40902264 GTGAGCATGA
*
40902274 ATATAATATGATTTGGGCCTAATGGGCC
1 ATATAATATGAATTGGGCCTAATGGGCC
*
40902302 ATATGAAT-TGGAATTGGGCCTAGTGGGCC
1 ATAT-AATAT-GAATTGGGCCTAATGGGCC
* * *
40902331 AAAGAATATGAATTGGGCC-AGATAGGCC
1 ATATAATATGAATTGGGCCTA-ATGGGCC
* * *
40902359 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATAT-AATATGAATTGGGCCTAATGGGCC
40902387 ATATA
1 ATATA
40902392 CATGTATGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 40 0.56
29 29 0.41
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATAATATGAATTGGGCCTAATGGGCC
Found at i:40902339 original size:57 final size:56
Alignment explanation
Indices: 40902278--40902387 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 56
40902268 GCATGAATAT
* * **
40902278 AATATGATTTGGGCCTA-ATGGGCCATATGAATTGGAATTGGGCCTAGTGGGCCAAAG
1 AATATGAATTGGGCC-AGATAGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCAAAG
*
40902335 AATATGAATTGGGCCAGATAGGCCATTTGAATAAGATTGGGCCTAGTGGGCCA
1 AATATGAATTGGGCCAGATAGGCCATATGAATAAGATTGGGCCTAGTGGGCCA
40902388 TATACATGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 19 0.40
57 28 0.60
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (56 bp):
AATATGAATTGGGCCAGATAGGCCATATGAATAAGATTGGGCCTAGTGGGCCAAAG
Found at i:40906855 original size:2 final size:2
Alignment explanation
Indices: 40906848--40906880 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
40906838 TTCAATATTA
40906848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40906881 ACTAAACACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40912200 original size:28 final size:28
Alignment explanation
Indices: 40912168--40912232 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
40912158 ATTTACTAGA
*
40912168 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* **
40912196 ATACCCCTATGTATGCTAAATGACTTTT
1 ATACCCCTATGTATGCAAAATGACCATT
40912224 ATACCCCTA
1 ATACCCCTA
40912233 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:40912379 original size:28 final size:28
Alignment explanation
Indices: 40912338--40912428 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
40912328 AGGAAGCGTC
*
40912338 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
40912366 TTGGTGGCCCTGCCACAAAATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
*
40912394 CTGGTAGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
40912423 CTGGTG
1 CTGGTG
40912429 ACTCTATCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 48 0.89
29 6 0.11
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:40913782 original size:25 final size:25
Alignment explanation
Indices: 40913753--40913800 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40913743 TTATAATATG
* *
40913753 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
40913778 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
40913801 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:40913862 original size:11 final size:10
Alignment explanation
Indices: 40913830--40913883 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
40913820 GCATGAGATT
40913830 TGATAT-ACA
1 TGATATGACA
*
40913839 TGATTTGACA
1 TGATATGACA
40913849 TGATATGCACA
1 TGATATG-ACA
*
40913860 TGATATG-TA
1 TGATATGACA
40913869 TGATATGCACA
1 TGATATG-ACA
40913880 TGAT
1 TGAT
40913884 GTATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:40914003 original size:25 final size:26
Alignment explanation
Indices: 40913929--40914001 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
40913919 GGAGGAAGTG
* *
40913929 AAAAAGGGC-TATGCCCCAGTTTACC
1 AAAAAGGGCTTTTGCCCCAGTTTATC
*
40913954 GAAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTTGCCCCAGTTTATC
40913980 AAAAAGGGCTTTTGCCCCAGTT
1 AAAAAGGGCTTTTGCCCCAGTT
40914002 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 8 0.19
26 35 0.81
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAAGGGCTTTTGCCCCAGTTTATC
Found at i:40914014 original size:25 final size:26
Alignment explanation
Indices: 40913940--40914014 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
40913930 AAAAGGGCTA
*
40913940 TGCCCCAGTTTACCGAAAAG-GGCTTT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
40913966 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
*
40913992 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
40914015 AGGCCTCCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 16 0.36
26 28 0.64
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:40914242 original size:31 final size:31
Alignment explanation
Indices: 40914186--40914268 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
40914176 TTGCATGTAT
40914186 TATGGATAATGAAAAGGC-TCGGCCCAGTGA
1 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
*
40914216 TATGGACAATGAAAAGGCTTCGGCCCAGTGA
1 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
* **
40914247 TATGAATAATGTGAAGGCTTCG
1 TATGGATAATGAAAAGGCTTCG
40914269 ACCGAGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 17 0.36
31 30 0.64
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (31 bp):
TATGGATAATGAAAAGGCTTCGGCCCAGTGA
Found at i:40919241 original size:49 final size:49
Alignment explanation
Indices: 40919182--40919378 Score: 243
Period size: 50 Copynumber: 4.0 Consensus size: 49
40919172 GTAGACAATG
* * *
40919182 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
40919231 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTATACATGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AA
** * * *
40919281 CCATCTGATACACGA-AGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACAC-ATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
* *
40919331 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
40919379 TCACAATAGA
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
49 42 0.34
50 44 0.35
51 38 0.31
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:40919364 original size:101 final size:99
Alignment explanation
Indices: 40919197--40919379 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 99
40919187 TGGTACGCAT
* * *
40919197 AGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTAG
1 AGTAGCCTGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTAG
*
40919262 TACTATACATGTGACCTAACCATCTGATACACGA
66 TACTACACATGTGACCTAACCATCTGATACACGA
* * * *
40919296 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTT
1 AGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACTT
40919361 AGTACTACACATGTGACCT
64 AGTACTACACATGTGACCT
40919380 CACAATAGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 27 0.36
100 3 0.04
101 44 0.59
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
AGTAGCCTGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTAG
TACTACACATGTGACCTAACCATCTGATACACGA
Found at i:40922630 original size:29 final size:28
Alignment explanation
Indices: 40922598--40922698 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
40922588 ATAGTGAATC
* * *
40922598 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATAGA--ATCAAACT
40922627 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATAGAATCAAACT
* * * *
40922655 CGCACACTTAGTGCTGTACAAATTTAAACC
1 CGCACACTTAGTGCTATA-GAA-TCAAACT
40922685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40922699 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 20 0.32
29 21 0.34
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGAATCAAACT
Found at i:40922665 original size:28 final size:28
Alignment explanation
Indices: 40922598--40922698 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
40922588 ATAGTGAATC
** *
40922598 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATA-A-AATCAAACT
*
40922627 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
40922655 CGCACACTTAGTGCTGTACAAATTTAAACC
1 CGCACACTTAGTGCTATA-AAA-TCAAACT
40922685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40922699 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 20 0.33
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:40922691 original size:30 final size:28
Alignment explanation
Indices: 40922627--40922698 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
40922617 ATTTTCAGCT
* *
40922627 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACC
* *
40922655 CGCACACTTAGTGCTGTACAAATTTAAACC
1 CGCACACTTAGTGCTATA-AAA-TCAAACC
40922685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40922699 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 17 0.45
29 2 0.05
30 19 0.50
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACC
Found at i:40924625 original size:15 final size:14
Alignment explanation
Indices: 40924569--40924638 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
40924559 TAAAGATAAC
*
40924569 AAGAAAACCAAATA
1 AAGAAATCCAAATA
40924583 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
*
40924598 GAA-AAACCCAGAATA
1 -AAGAAATCCA-AATA
40924613 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
40924628 AAGAAACCCAA
1 AAGAAATCCAA
40924639 GATACGATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.27
15 32 0.67
16 3 0.06
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:40924635 original size:30 final size:30
Alignment explanation
Indices: 40924569--40924638 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
40924559 TAAAGATAAC
*
40924569 AAGAAAACCAAATAAAGAAATCCAAGATAG
1 AAGAAACCCAAATAAAGAAATCCAAGATAG
40924599 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCA-AATAAAGAAATCCAAG-ATAG
40924628 AAGAAACCCAA
1 AAGAAACCCAA
40924639 GATACGATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAAATAAAGAAATCCAAGATAG
Found at i:40927715 original size:50 final size:49
Alignment explanation
Indices: 40927591--40927780 Score: 218
Period size: 50 Copynumber: 3.8 Consensus size: 49
40927581 GTAGACAAGG
* * * * * *
40927591 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
40927640 TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * *
40927690 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * *
40927740 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
40927781 TGCGACCTCA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.34
50 44 0.37
51 35 0.29
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:40927788 original size:101 final size:99
Alignment explanation
Indices: 40927605--40927788 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
40927595 CTGGTACGCA
* **
40927605 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
40927670 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
40927704 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
40927769 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
40927789 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.38
100 3 0.04
101 42 0.58
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:40933230 original size:25 final size:25
Alignment explanation
Indices: 40933200--40933247 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40933190 TTATAATATT
* *
40933200 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
40933225 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
40933248 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:40933450 original size:25 final size:26
Alignment explanation
Indices: 40933377--40933448 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
40933367 GAGGAAGTGC
* * *
40933377 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
*
40933402 AAAAGGGCTCTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
40933428 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
40933449 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:40933461 original size:25 final size:26
Alignment explanation
Indices: 40933387--40933461 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
40933377 AAAAGGGCTA
*
40933387 TGCCCCAGTTTACCGAAAAG-GGCTCT
1 TGCCCCAGTTTATC-AAAAGAGGCTCT
*
40933413 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTCT
*
40933439 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
40933462 AGGCCTCCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 16 0.37
26 27 0.63
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTCT
Found at i:40933671 original size:31 final size:31
Alignment explanation
Indices: 40933633--40933728 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
40933623 TTGCATGTAT
*
40933633 TATGGATAATGAAAAGGCTTCGGCCTAGTGA
1 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
40933664 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
1 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
* **
40933695 TATGAATAATGTGAAGGCTTCGGCCCAGT-A
1 TATGGATAATGAAAAGGCTTCGGCCCAGTGA
40933725 TATG
1 TATG
40933729 CTGAGATTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.08
31 56 0.92
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (31 bp):
TATGGATAATGAAAAGGCTTCGGCCCAGTGA
Found at i:40934972 original size:22 final size:22
Alignment explanation
Indices: 40934944--40934986 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
40934934 TGAGATTAGC
40934944 AATGGAGGAAGATAAAATGGTT
1 AATGGAGGAAGATAAAATGGTT
40934966 AATGGAGGAAGATAAAATGGT
1 AATGGAGGAAGATAAAATGGT
40934987 CAAAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.21
Consensus pattern (22 bp):
AATGGAGGAAGATAAAATGGTT
Found at i:40952363 original size:40 final size:40
Alignment explanation
Indices: 40952301--40952545 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
40952291 AAACCAAGTA
* * *
40952301 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
40952340 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
40952380 CCTTCGGGACTTAGCCGGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
40952420 CCTTCGGGACTTAGCCCGGGTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
40952460 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
40952500 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
40952540 CCTTCG
1 CCTTCG
40952546 TTATCATCCG
Statistics
Matches: 186, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 172 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:40972784 original size:30 final size:30
Alignment explanation
Indices: 40972748--40972807 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
40972738 CTTACACAAA
40972748 ATCAAATAGGATGCTGATGTCCCAGACATG
1 ATCAAATAGGATGCTGATGTCCCAGACATG
40972778 ATCAAATAGGATGCTGATGTCCCAGACATG
1 ATCAAATAGGATGCTGATGTCCCAGACATG
40972808 GTCTTACACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (30 bp):
ATCAAATAGGATGCTGATGTCCCAGACATG
Found at i:40973585 original size:49 final size:49
Alignment explanation
Indices: 40973513--40973610 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
40973503 AAACTCACAT
40973513 TATCAACAATAGCACAACTCAAAATCATAATCAAATTCAGAAATTGAGG
1 TATCAACAATAGCACAACTCAAAATCATAATCAAATTCAGAAATTGAGG
*
40973562 TATCAACAATAGCACAACTCAAAATCATAATCAAATTTAGAAATTGAGG
1 TATCAACAATAGCACAACTCAAAATCATAATCAAATTCAGAAATTGAGG
40973611 CATGAGTTGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.23
Consensus pattern (49 bp):
TATCAACAATAGCACAACTCAAAATCATAATCAAATTCAGAAATTGAGG
Found at i:40981862 original size:17 final size:17
Alignment explanation
Indices: 40981840--40981875 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
40981830 AGAGTGAGTT
40981840 TATGTAAACTCAGTGTG
1 TATGTAAACTCAGTGTG
40981857 TATGTAAACTCAGTGTG
1 TATGTAAACTCAGTGTG
40981874 TA
1 TA
40981876 ATCCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (17 bp):
TATGTAAACTCAGTGTG
Found at i:40990681 original size:30 final size:30
Alignment explanation
Indices: 40990626--40990785 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
40990616 ATAGTGAATC
40990626 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40990655 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40990685 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
40990714 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
40990742 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40990772 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40990786 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:40990718 original size:59 final size:57
Alignment explanation
Indices: 40990626--40990785 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
40990616 ATAGTGAATC
*
40990626 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
40990685 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
40990742 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
40990786 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:40997222 original size:30 final size:30
Alignment explanation
Indices: 40997167--40997385 Score: 324
Period size: 29 Copynumber: 7.5 Consensus size: 30
40997157 ATAGTGAATC
40997167 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40997196 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40997226 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40997255 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
40997285 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
40997314 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
40997342 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
40997372 CGCATACTTAGTGC
1 CGCACACTTAGTGC
40997386 CAATCTTGTC
Statistics
Matches: 177, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.01
28 22 0.12
29 77 0.44
30 75 0.42
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:40997259 original size:59 final size:59
Alignment explanation
Indices: 40997167--40997356 Score: 341
Period size: 59 Copynumber: 3.3 Consensus size: 59
40997157 ATAGTGAATC
40997167 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
40997226 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
40997285 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
40997342 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40997357 GTACAATTTT
Statistics
Matches: 129, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
56 2 0.02
57 18 0.14
59 109 0.84
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:41004885 original size:28 final size:28
Alignment explanation
Indices: 41004841--41004922 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
41004831 GGAGGAACCG
*
41004841 TTCTAGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTACGCCACAAATATCTGT
* *
41004869 TTCTGGTGGCTACGCCACAAAAATCTG-
1 TTCTAGTGGCTACGCCACAAATATCTGT
41004896 TTCTAGTGGCT-CAGCCAC-AATATCTGT
1 TTCTAGTGGCTAC-GCCACAAATATCTGT
41004923 ATCTGGTGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.17
27 15 0.32
28 24 0.51
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (28 bp):
TTCTAGTGGCTACGCCACAAATATCTGT
Found at i:41010823 original size:49 final size:49
Alignment explanation
Indices: 41010756--41010957 Score: 350
Period size: 49 Copynumber: 4.1 Consensus size: 49
41010746 TTTACCACAT
* * *
41010756 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
41010805 ATATATATACATTTTCACATTCATCACATCAGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
41010854 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* *
41010903 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
41010952 ATATAT
1 ATATAT
41010958 TATTATGTAC
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 145 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:41013232 original size:40 final size:40
Alignment explanation
Indices: 41013177--41013272 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
41013167 TTATAGTGAT
*
41013177 TCGCACAATTGCCTTCAGGAATT-AGCCCGCATTTAGTAAC
1 TCGCACAAATGCCTTCAGGAATTGA-CCCGCATTTAGTAAC
* * *
41013217 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTATTAAC
1 TCGCACAAATGCCTTCAGGAATTGACCCGCATTTAGTAAC
*
41013257 TCGCACGAATGCCTTC
1 TCGCACAAATGCCTTC
41013273 GGATCCTAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (40 bp):
TCGCACAAATGCCTTCAGGAATTGACCCGCATTTAGTAAC
Found at i:41013327 original size:40 final size:39
Alignment explanation
Indices: 41013149--41013327 Score: 128
Period size: 40 Copynumber: 4.5 Consensus size: 39
41013139 GCTTGATTGT
* * * * * *
41013149 CTTCGGGACATAGCTCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA-AGC
* * * *
41013189 CTTCAGGAATTAGCCCGCATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA-GC
* * * *
41013229 CTTCGGGAATT-GACCCGGATTTATTAACTCGCACGAATGC
1 CTTCGGGACTTAG-CCCGGATATAGTAACTCGCAC-AAAGC
* * * *
41013269 CTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAAGC
41013309 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
41013328 CATCATTCGA
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
39 4 0.04
40 93 0.86
41 11 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAGC
Found at i:41014090 original size:40 final size:40
Alignment explanation
Indices: 41014028--41014419 Score: 667
Period size: 40 Copynumber: 9.8 Consensus size: 40
41014018 CCAGCATGAT
* * * *
41014028 TGCTCTTTGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41014068 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
41014108 TGCTCTTCGGAACTTAGTCCGGATGCGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41014148 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* ***
41014188 TGCTCTTCGAAACTTAGTCCGGATGTGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41014228 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41014268 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
41014308 TGCTCTTCGGAACTTAGTCCGGATGCGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
41014348 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
41014388 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
41014420 CTCAATTCTC
Statistics
Matches: 331, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:41016420 original size:49 final size:49
Alignment explanation
Indices: 41016353--41016554 Score: 350
Period size: 49 Copynumber: 4.1 Consensus size: 49
41016343 TACCACATAT
* * *
41016353 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
41016402 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
41016451 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
* * *
41016500 ATATGTATACATTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
41016549 ATATAT
1 ATATAT
41016555 TATTATGTAC
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 146 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:41025637 original size:32 final size:32
Alignment explanation
Indices: 41025591--41025675 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
41025581 TGAAATTGAA
* *
41025591 ATGGGCTAGCCCCAACTGATATT-AGTTCTGAT
1 ATGGGCTAGACCCAACTGATATTGA-TTCTGAG
41025623 ATGGGCTAGACCCAACTGATATTGATTCTGAG
1 ATGGGCTAGACCCAACTGATATTGATTCTGAG
* * *
41025655 ATGGGTTAGGCCCAATTGATA
1 ATGGGCTAGACCCAACTGATA
41025676 CTGTGTTGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 46 0.98
33 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGGGCTAGACCCAACTGATATTGATTCTGAG
Found at i:41037846 original size:37 final size:37
Alignment explanation
Indices: 41037796--41037972 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
41037786 TCGAATAGTC
*
41037796 CCACACGTAGTCATCGGGTCTTACTCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
41037833 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
41037870 CCGCACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
41037907 CCACACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
41037944 CCACACGTAGTCATCAGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
41037973 ATATATTTCC
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:41038171 original size:48 final size:48
Alignment explanation
Indices: 41038113--41038580 Score: 829
Period size: 48 Copynumber: 9.9 Consensus size: 48
41038103 ATATACACAC
*
41038113 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
41038161 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
41038209 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
41038257 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
41038305 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
41038353 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
41038401 ATCTCATACATATTTCACATTAG-C---C-GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
41038444 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
41038492 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
41038540 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
41038581 CACATATATA
Statistics
Matches: 403, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
43 40 0.10
44 2 0.00
47 2 0.00
48 359 0.89
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:41042255 original size:40 final size:40
Alignment explanation
Indices: 41042159--41042349 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
41042149 CGAATGGTGT
* * * * * * *
41042159 CCGGGCTAAGTTCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
41042200 CCGGGTCT-ATTCCCGAAGGCATTTGTGCTAGTTACCAAAA
1 CCGGGT-TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
41042240 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
41042280 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
41042320 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
41042350 ATCACTATAA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.82
41 22 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:41042362 original size:80 final size:79
Alignment explanation
Indices: 41042158--41042391 Score: 220
Period size: 80 Copynumber: 2.9 Consensus size: 79
41042148 TCGAATGGTG
* * * *
41042158 TCCGGGCTAAGTT-CCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCT-ATTCCCGAAGGCA
1 TCCGGGCTAA-TTCCCGAAGGCATTTGTGCGAA-TCACTAAA-CCGGGT-TAAGTCCCGAAGGCA
* *
41042221 TTTGTGCTAGTTACCAAA
62 TTCGTGCGAGTTACCAAA
* * * * * *
41042239 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAATTCCCGAAGGCATTTGTGCGAATCA-CTAAACCGGGTTAAGTCCCGAAGGCATTC
*
41042304 GTGCGAGTTACTAAA
65 GTGCGAGTTACCAAA
* * * * * *
41042319 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCAAAGACAATC
1 TCCGGGCTAATTCCCGAAGGCATTTGTGCGAATCACTA-AACCGGGTTAAGTCCCGAAGGCATTC
*
41042384 GAGCGAGT
65 GTGCGAGT
41042392 CGCTATATCC
Statistics
Matches: 124, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
79 3 0.02
80 93 0.75
81 28 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATTCCCGAAGGCATTTGTGCGAATCACTAAACCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACCAAA
Found at i:41042390 original size:120 final size:121
Alignment explanation
Indices: 41042159--41042391 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 121
41042149 CGAATGGTGT
* * * *
41042159 CCGGGCTAAGTTCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCTATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCTATTCCCGAAGGCAATT
* * * * * * * * *
41042224 GTGCTAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
* * *
41042280 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCT-ATTCCCGAAGGCAAT
* * *
41042343 TGTGCGAATCACTATAACCGGGCTATGTCCCAAAGACAATCGAGCGAGT
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGT
41042392 CGCTATATCC
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
119 2 0.02
120 66 0.72
121 24 0.26
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCTATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
Found at i:41050255 original size:40 final size:40
Alignment explanation
Indices: 41050154--41050345 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
41050144 TCGAATGGTG
* * * * *
41050154 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAA
* * *
41050195 TCCGGGTCAATTCCCGAAGGCATTTGTGCTAGTTACCAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAAA
*
41050236 T-CGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CAAAA
* *
41050276 -CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
* * *
41050315 TCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
41050346 ATCACTATAA
Statistics
Matches: 130, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 96 0.74
41 30 0.23
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
Found at i:41050309 original size:80 final size:80
Alignment explanation
Indices: 41050154--41050387 Score: 245
Period size: 80 Copynumber: 2.9 Consensus size: 80
41050144 TCGAATGGTG
* * * * * *
41050154 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATT
* *
41050219 TGTGCTAGTTACCAAAA
65 CGTGCGAGTTA-CAAAA
* * * *
41050236 T-CGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTC
*
41050300 GTGCGAGTTACTAAA
66 GTGCGAGTTACAAAA
* * * * * * * *
41050315 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTC
*
41050380 GAGCGAGT
66 GTGCGAGT
41050388 CGCTATATCC
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 5 0.04
80 96 0.76
81 24 0.19
82 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACAAAA
Found at i:41050360 original size:40 final size:39
Alignment explanation
Indices: 41050155--41050387 Score: 191
Period size: 40 Copynumber: 5.8 Consensus size: 39
41050145 CGAATGGTGT
** * *
41050155 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * * *
41050195 TCCGGG-TCAATTCCCGAAGGCATTTGTGCTAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* * * * *
41050236 TCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
*
41050276 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
41050315 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * * *
41050356 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
41050388 CGCTATATCC
Statistics
Matches: 162, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 6 0.04
40 122 0.75
41 34 0.21
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:41050386 original size:120 final size:121
Alignment explanation
Indices: 41050155--41050387 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 121
41050145 CGAATGGTGT
* * *
41050155 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * * * * * * * *
41050220 GTGCTAGTTACCAAAATCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
* * *
41050276 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * * *
41050339 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGT
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGT
41050388 CGCTATATCC
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
119 1 0.01
120 66 0.72
121 25 0.27
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
Found at i:41051408 original size:38 final size:38
Alignment explanation
Indices: 41051349--41051509 Score: 223
Period size: 38 Copynumber: 4.4 Consensus size: 38
41051339 TCAATCATGC
*
41051349 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
41051388 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
41051426 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
41051457 ACTGGGCCGAAGCCTTTTCA-GTTTCATATTTCATAA-
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
41051493 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41051510 ACTGTAAACG
Statistics
Matches: 111, Mismatches: 4, Indels: 17
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.04
31 21 0.19
32 1 0.01
33 2 0.02
34 2 0.02
35 2 0.02
36 18 0.16
38 50 0.45
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:41051414 original size:31 final size:31
Alignment explanation
Indices: 41051372--41051509 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
41051362 CCTTTTCATA
41051372 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
41051409 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
41051441 TTTCATATTTCATATTACTGGGCCGAAGCCTTTT
1 TTTCATATTTCATAATACTGGGCCGAAGCC---T
41051475 CAGTTTCATATTTCATAA-ACTGGGCCGAAGCCT
1 ---TTTCATATTTCATAATACTGGGCCGAAGCCT
41051508 TT
1 TT
41051510 ACTGTAAACG
Statistics
Matches: 92, Mismatches: 2, Indels: 20
0.81 0.02 0.18
Matches are distributed among these distances:
30 2 0.02
31 29 0.32
32 1 0.01
33 2 0.02
34 1 0.01
36 14 0.15
37 15 0.16
38 28 0.30
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:41051747 original size:24 final size:24
Alignment explanation
Indices: 41051701--41051795 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
41051691 GCTTTATCAT
*
41051701 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
41051726 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
41051750 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
41051773 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41051796 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41051780 original size:47 final size:49
Alignment explanation
Indices: 41051701--41051794 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
41051691 GCTTTATCAT
*
41051701 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
41051750 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
41051795 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:41051871 original size:20 final size:20
Alignment explanation
Indices: 41051846--41051905 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
41051836 TATGATTACC
41051846 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
41051866 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
41051886 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
41051906 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:41051980 original size:25 final size:25
Alignment explanation
Indices: 41051948--41051995 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41051938 ATACATAAAC
* * *
41051948 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41051973 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41051996 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41059934 original size:40 final size:40
Alignment explanation
Indices: 41059889--41060055 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
41059879 CGGAATATAA
41059889 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41059929 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
41059969 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
41060009 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
41060048 CCGGATAT
1 CCGGATAT
41060056 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41067919 original size:40 final size:40
Alignment explanation
Indices: 41067874--41068040 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
41067864 CGGAATATAA
41067874 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41067914 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
41067954 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
41067994 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
41068033 CCGGATAT
1 CCGGATAT
41068041 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41069773 original size:33 final size:34
Alignment explanation
Indices: 41069729--41069795 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
41069719 TTGCATATCT
* *
41069729 ATACTGTTACTGACACTGAAATGTG-TAAGGCCC
1 ATACTGATACTGACACTGAAATGGGCTAAGGCCC
* *
41069762 ATACTGATACTGATACTGTAATGGGCTAAGGCCC
1 ATACTGATACTGACACTGAAATGGGCTAAGGCCC
41069796 TAACTGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (34 bp):
ATACTGATACTGACACTGAAATGGGCTAAGGCCC
Found at i:41078243 original size:40 final size:40
Alignment explanation
Indices: 41078198--41078364 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
41078188 CGGAATATAA
41078198 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41078238 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
41078277 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
41078317 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
41078357 CCGGATAT
1 CCGGATAT
41078365 CATTCAATTT
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
39 30 0.30
40 68 0.69
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41094689 original size:49 final size:49
Alignment explanation
Indices: 41094625--41094791 Score: 217
Period size: 49 Copynumber: 3.4 Consensus size: 49
41094615 CTGGTACGCA
*
41094625 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * * * *
41094674 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTTTCAAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
* *
41094725 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*
41094774 TAGTAGCCTACACTTAGT
1 TAGTAGCCTGCACTTAGT
41094792 GTGACAGCCC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 55 0.56
50 6 0.06
51 37 0.38
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:41097181 original size:48 final size:48
Alignment explanation
Indices: 41097121--41097252 Score: 219
Period size: 48 Copynumber: 2.8 Consensus size: 48
41097111 ATGTATGTGT
* *
41097121 TAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATATCTGG
1 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATCTGG
* *
41097169 TAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGG
1 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATCTGG
*
41097217 TAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
41097253 GTGTGTATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATCTGG
Found at i:41097443 original size:37 final size:37
Alignment explanation
Indices: 41097393--41097495 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
41097383 GGAAATATAT
*
41097393 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41097430 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41097467 TCCGGGTAAGACCCAATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
41097496 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41098826 original size:40 final size:40
Alignment explanation
Indices: 41098773--41099131 Score: 619
Period size: 40 Copynumber: 9.0 Consensus size: 40
41098763 TTTAGAGTTA
*
41098773 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
41098813 TATGTTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
41098853 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
41098893 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
41098933 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
41098973 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
41099013 TATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
41099053 TATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
41099093 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
41099132 ATGTGCATTC
Statistics
Matches: 303, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 303 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:41099345 original size:25 final size:25
Alignment explanation
Indices: 41099295--41099345 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
41099285 TGTGTAACAA
* *
41099295 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
41099320 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
41099345 C
1 C
41099346 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:41102849 original size:37 final size:37
Alignment explanation
Indices: 41102799--41102898 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
41102789 AATATATTCT
41102799 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
41102836 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
41102873 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
41102899 GGACTATTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:41105985 original size:2 final size:2
Alignment explanation
Indices: 41105978--41106025 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
41105968 TTAATGTTAC
*
41105978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
*
41106021 TT AT A
1 AT AT A
41106026 CAATTCACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:41107470 original size:2 final size:2
Alignment explanation
Indices: 41107463--41107490 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41107453 GAAATTTAGG
41107463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41107491 GTAGAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41111131 original size:46 final size:47
Alignment explanation
Indices: 41111076--41111210 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 47
41111066 TAGGATGGTT
41111076 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-C
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAC
* * *
41111122 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--AC
*
41111168 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41111211 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 35 0.47
47 31 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAC
Found at i:41116264 original size:8 final size:8
Alignment explanation
Indices: 41116251--41116275 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41116241 TTAGAGTAGG
41116251 CCCATGAT
1 CCCATGAT
41116259 CCCATGAT
1 CCCATGAT
41116267 CCCATGAT
1 CCCATGAT
41116275 C
1 C
41116276 TTTTCCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:41122977 original size:19 final size:19
Alignment explanation
Indices: 41122962--41122998 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41122952 GACACGGGTG
41122962 TGTCAAGGGCACACGGGCA
1 TGTCAAGGGCACACGGGCA
*
41122981 TGTCGAGGGCACACGGGC
1 TGTCAAGGGCACACGGGC
41122999 CTATTTCCTA
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:0.22, C:0.27, G:0.41, T:0.11
Consensus pattern (19 bp):
TGTCAAGGGCACACGGGCA
Found at i:41129086 original size:39 final size:40
Alignment explanation
Indices: 41128965--41129146 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
41128955 TCGAATGATG
* * *
41128965 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
41129005 TCCGGACTAAGAT-CCGAAGGCATTTGT--GAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41129043 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41129082 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41129122 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41129147 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 13 0.11
38 17 0.14
39 50 0.41
40 36 0.30
41 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41129099 original size:77 final size:80
Alignment explanation
Indices: 41128965--41129144 Score: 219
Period size: 77 Copynumber: 2.3 Consensus size: 80
41128955 TCGAATGATG
* *
41128965 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
41129029 TGTG-AGTTACTA-A
66 TGTGCAGTTACTATA
* * **
41129042 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
41129104 TTTGTGCAGTTACTATA
64 TTTGTGCAGTTACTATA
* * *
41129121 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41129145 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 1 0.01
77 41 0.47
78 34 0.39
79 12 0.14
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAGTTACTATA
Found at i:41129168 original size:77 final size:76
Alignment explanation
Indices: 41129018--41129178 Score: 175
Period size: 77 Copynumber: 2.1 Consensus size: 76
41129008 GGACTAAGAT
* * **
41129018 CCGAAGGCATTTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGAAGGCATTTGTGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAAT
*
41129083 CCGGGTTAAGTC
66 CC-GGTTAAATC
* *
41129095 CCGAAGGCATTTGTGCAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTG-AGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CT
* *
41129158 ATATCC-GTTAAATT
62 AAATCCGGTTAAATC
41129172 CCGAAGG
1 CCGAAGG
41129179 TACGTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
77 30 0.42
78 18 0.25
79 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (76 bp):
CCGAAGGCATTTGTGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAAT
CCGGTTAAATC
Found at i:41137082 original size:40 final size:40
Alignment explanation
Indices: 41136998--41137181 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
41136988 TCGAATGATG
* *
41136998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
41137037 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
41137078 TCC-GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
41137116 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
41137155 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
41137182 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 28 0.22
39 13 0.10
40 74 0.59
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:41137133 original size:78 final size:81
Alignment explanation
Indices: 41136999--41137179 Score: 230
Period size: 78 Copynumber: 2.3 Consensus size: 81
41136989 CGAATGATGT
* *
41136999 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
41137063 GTGCGAGTTACTA-ATT
66 GTGCGAGTTACTATA-A
* * **
41137079 CC-GGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
41137140 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
41137157 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
41137180 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 53 0.60
79 20 0.23
80 14 0.16
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:41140794 original size:40 final size:39
Alignment explanation
Indices: 41140711--41140902 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
41140701 TTGAATGATG
* * * * *
41140711 TCCGGGCTAAGTCCCGAAGGCCTT-GTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
*
41140751 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
41140791 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
41140830 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
41140871 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
41140903 CGTTATATCC
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.26
40 88 0.68
41 7 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:41140850 original size:79 final size:81
Alignment explanation
Indices: 41140711--41140902 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 81
41140701 TTGAATGATG
* * * *
41140711 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
41140775 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
41140791 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
41140854 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
** *
41140871 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41140903 CGTTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.59
80 39 0.40
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:41140917 original size:79 final size:77
Alignment explanation
Indices: 41140711--41140928 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
41140701 TTGAATGATG
* * * * *
41140711 TCCGGGCTAAGTCCCGAAGGC-CTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTATATCCGG-TTAAG-TCCGAAGGCATT
41140775 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* * * *
41140791 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCG
*
41140856 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** ** *
41140871 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTT-AAGTCCGAAGG
41140929 TACGTGATTC
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 66 0.57
80 49 0.42
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:41148681 original size:39 final size:40
Alignment explanation
Indices: 41148573--41148764 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
41148563 TTGAATGATG
* * * *
41148573 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
41148613 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGCGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
41148653 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41148692 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-AA
** * *
41148733 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
41148765 CGTTATATCC
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
39 32 0.25
40 85 0.67
41 9 0.07
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:41148710 original size:79 final size:81
Alignment explanation
Indices: 41148573--41148764 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 81
41148563 TTGAATGATG
* * *
41148573 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
41148637 CGTGCGCGTTAATA-AA
65 CGTGCGAGTTAATATAA
* * **
41148653 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
41148716 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
** *
41148733 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41148765 CGTTATATCC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.58
80 39 0.41
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:41148779 original size:79 final size:77
Alignment explanation
Indices: 41148573--41148790 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 77
41148563 TTGAATGATG
* * * * *
41148573 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTATATCCGG-TTAAG-TCCGAAGGCATT
*
41148637 CGTGCGCGTTAATAAA
62 CGTGCGAGTTAATAAA
* * * *
41148653 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCG
*
41148718 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** ** *
41148733 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTT-AAGTCCGAAGG
41148791 TACGTGATTC
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.56
80 50 0.43
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:41151246 original size:56 final size:58
Alignment explanation
Indices: 41151101--41151284 Score: 324
Period size: 55 Copynumber: 3.3 Consensus size: 58
41151091 AAAATTGTAC
*
41151101 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTG--AA-ATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
41151156 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
41151214 AGCACTAAGTGTGCGAGCTG-AAA-ATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
41151270 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41151285 GATTCACTAT
Statistics
Matches: 125, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
55 48 0.38
56 48 0.38
57 5 0.04
58 24 0.19
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:41151260 original size:85 final size:84
Alignment explanation
Indices: 41151101--41151284 Score: 350
Period size: 85 Copynumber: 2.2 Consensus size: 84
41151091 AAAATTGTAC
41151101 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAATATAGCACTAAGT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAATATAGCACTAAGT
41151166 GTGCGAGCTGAAAATATAT
66 GTGCGAGCTGAAAATATAT
*
41151185 AGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAGCACTAAG
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTG-AAATATAGCACTAAG
41151250 TGTGCGAGCTGAAAATATAT
65 TGTGCGAGCTGAAAATATAT
41151270 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41151285 GATTCACTAT
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 48 0.49
85 50 0.51
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (84 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAATATAGCACTAAGT
GTGCGAGCTGAAAATATAT
Found at i:41151296 original size:29 final size:29
Alignment explanation
Indices: 41151101--41151284 Score: 324
Period size: 29 Copynumber: 6.5 Consensus size: 29
41151091 AAAATTGTAC
*
41151101 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151130 AGCACTAAGTGTGCGAGCTG--AA-ATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151156 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151185 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151214 AGCACTAAGTGTGCGAGCTG-AAA-ATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151241 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41151270 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41151285 GATTCACTAT
Statistics
Matches: 149, Mismatches: 1, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
26 24 0.16
27 26 0.17
28 8 0.05
29 91 0.61
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:41158744 original size:29 final size:29
Alignment explanation
Indices: 41158702--41158862 Score: 295
Period size: 29 Copynumber: 5.5 Consensus size: 29
41158692 AAAATTGTAC
*
41158702 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41158731 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41158760 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
41158789 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
41158819 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
41158848 AGCACTAAGTATGCG
1 AGCACTAAGTGTGCG
41158863 GATTCACTAT
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
29 100 0.78
30 29 0.22
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:41158773 original size:58 final size:59
Alignment explanation
Indices: 41158672--41158862 Score: 303
Period size: 58 Copynumber: 3.2 Consensus size: 59
41158662 GACAAGATTG
* * * * * *
41158672 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
41158732 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
41158790 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
*
41158849 GCACTAAGTATGCG
1 GCACTAAGTGTGCG
41158863 GATTCACTAT
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
58 55 0.45
59 53 0.43
60 15 0.12
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:41158832 original size:88 final size:87
Alignment explanation
Indices: 41158702--41158862 Score: 295
Period size: 88 Copynumber: 1.8 Consensus size: 87
41158692 AAAATTGTAC
41158702 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
*
41158767 AGTGTGCGAGCTGAAAATATAT
66 AGTATGCGAGCTGAAAATATAT
*
41158789 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
41158854 AAGTATGCG
65 AAGTATGCG
41158863 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 23 0.32
88 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (87 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
AGTATGCGAGCTGAAAATATAT
Found at i:41164266 original size:16 final size:16
Alignment explanation
Indices: 41164245--41164276 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
41164235 TGAGTAAGTG
41164245 GTAATCATGAGATTTA
1 GTAATCATGAGATTTA
41164261 GTAATCATGAGATTTA
1 GTAATCATGAGATTTA
41164277 ATGCAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GTAATCATGAGATTTA
Found at i:41165671 original size:27 final size:27
Alignment explanation
Indices: 41165596--41165729 Score: 90
Period size: 27 Copynumber: 5.0 Consensus size: 27
41165586 ATGCCCTCAA
* * * *
41165596 TTTATAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCCTGG
* **** *
41165623 TTTACAGAATTACCGTTTTACCCTTGG
1 TTTACAAAATTACCAAAATACCCCTGG
*
41165650 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTACAAAATTACCAAAATACCCCTGG
* * * *
41165676 ATCAGGAAAATTACCAAAATACCCCTAG
1 TTTA-CAAAATTACCAAAATACCCCTGG
** *
41165704 TTTGTAAAACTACCAAAATACCCCTG
1 TTTACAAAATTACCAAAATACCCCTG
41165730 TAGGGTAGAA
Statistics
Matches: 79, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
26 6 0.08
27 67 0.85
28 6 0.08
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCTGG
Found at i:41165742 original size:81 final size:82
Alignment explanation
Indices: 41165657--41166069 Score: 418
Period size: 81 Copynumber: 5.1 Consensus size: 82
41165647 TGGTTTACAA
* **
41165657 AATTACCAAAATACCCTCGATCA-GG-A-AAATTACCAAAATACCCCTAGT-TTGTA-AAACTAC
1 AATTACCGAAATACCCTCG-T-AGGGTAGAAA-TACCAAAATACCCCTAGTAGGGTAGAAA-TAC
*
41165717 CAAAATACCCCTGTAGGGTAG
62 CGAAATACCCCTGTAGGGTAG
* * * * *
41165738 AATTACTGAAATGCCCCTTGTAGGGTAGAAATACCAAAATACCCCT-GTAGGGTAGAATTATCGA
1 AATTACCGAAAT-ACCCTCGTAGGGTAGAAATACCAAAATACCCCTAGTAGGGTAGAAATACCGA
* *
41165802 AATACCCTTATAGGGTAG
65 AATACCCCTGTAGGGTAG
* * * * *
41165820 AATTACTGAAATACTCCT-GTAGGGTAGAACTACCGAAATA-CCCTTGTAGGTTAGAAATACCGA
1 AATTACCGAAATAC-CCTCGTAGGGTAGAAATACCAAAATACCCCTAGTAGGGTAGAAATACCGA
41165883 AATACCCCTGTAGGGTAG
65 AATACCCCTGTAGGGTAG
* * *
41165901 AAATACCGAAATACCC-CTATAGGGTAGAAATACCGAAATACCCCTA-TAGGGTAGAAATACCGA
1 AATTACCGAAATACCCTC-GTAGGGTAGAAATACCAAAATACCCCTAGTAGGGTAGAAATACCGA
*
41165964 AATGCCCCTGTAGGGTAG
65 AATACCCCTGTAGGGTAG
* * * *
41165982 AATTACCGAAATA-CCTCTGTTGGGTAGAATTACCGAAATACCCCT-GTAGGGTAGAATTACCGA
1 AATTACCGAAATACCCTC-GTAGGGTAGAAATACCAAAATACCCCTAGTAGGGTAGAAATACCGA
* * * *
41166045 GATACCCTTGTGGGGTAA
65 AATACCCCTGTAGGGTAG
41166063 AATTACC
1 AATTACC
41166070 ATTTTGCCCC
Statistics
Matches: 283, Mismatches: 36, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
80 9 0.03
81 206 0.73
82 63 0.22
83 5 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (82 bp):
AATTACCGAAATACCCTCGTAGGGTAGAAATACCAAAATACCCCTAGTAGGGTAGAAATACCGAA
ATACCCCTGTAGGGTAG
Found at i:41165749 original size:27 final size:27
Alignment explanation
Indices: 41165714--41166069 Score: 469
Period size: 27 Copynumber: 13.1 Consensus size: 27
41165704 TTTGTAAAAC
*
41165714 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
41165741 TACTGAAATGCCCCTTGTAGGGTAGAAA
1 TACCGAAATACCCC-TGTAGGGTAGAAT
*
41165769 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
41165796 TATCGAAATACCCTTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
41165823 TACTGAAATACTCCTGTAGGGTAGAAC
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
41165850 TACCGAAATACCCTTGTAGGTTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
41165877 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
41165904 TACCGAAATACCCCTATAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
41165931 TACCGAAATACCCCTATAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
41165958 TACCGAAATGCCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
41165985 TACCGAAATACCTCTGTTGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
41166012 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
41166039 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
41166066 TACC
1 TACC
41166070 ATTTTGCCCC
Statistics
Matches: 290, Mismatches: 38, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
27 267 0.92
28 23 0.08
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:41166310 original size:25 final size:25
Alignment explanation
Indices: 41166272--41166341 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
41166262 AGGAAGTGTT
* *
41166272 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
41166297 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
41166322 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
41166342 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:41166354 original size:24 final size:24
Alignment explanation
Indices: 41166297--41166368 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
41166287 TAGTTTACCG
*
41166297 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
41166321 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
41166345 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
41166369 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:41181966 original size:24 final size:25
Alignment explanation
Indices: 41181939--41182039 Score: 66
Period size: 25 Copynumber: 4.1 Consensus size: 25
41181929 TCATTAGGGA
41181939 TTACCAATTGT-AGCTCATGA-GAGC
1 TTACCAATTGTCAGCTCAT-ACGAGC
* * **
41181963 TTACCGATTCTCAAATCATACGAGC
1 TTACCAATTGTCAGCTCATACGAGC
* * *
41181988 TTACTAATTG-CAGGTCGTGA-GAGC
1 TTACCAATTGTCAGCTCAT-ACGAGC
* * *
41182012 TTACCGATTATCAGCTCATATGAGC
1 TTACCAATTGTCAGCTCATACGAGC
41182037 TTA
1 TTA
41182040 TCGATTTACA
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
24 27 0.47
25 30 0.53
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
TTACCAATTGTCAGCTCATACGAGC
Found at i:41182051 original size:25 final size:25
Alignment explanation
Indices: 41182008--41182086 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
41181998 CAGGTCGTGA
41182008 GAGCTTACCGA-TTATCAGCTCATAT
1 GAGCTTACCGATTTA-CAGCTCATAT
* *
41182033 GAGCTTATCGATTTACAGCT--TGT
1 GAGCTTACCGATTTACAGCTCATAT
* *
41182056 GAAAGCATACCGATTCACAGCTCATAT
1 G--AGCTTACCGATTTACAGCTCATAT
41182083 GAGC
1 GAGC
41182087 ATACATGTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.07
25 34 0.79
26 3 0.07
27 3 0.07
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATAT
Found at i:41182960 original size:24 final size:24
Alignment explanation
Indices: 41182928--41182976 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
41182918 GATTGATATG
41182928 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
41182952 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
41182976 A
1 A
41182977 GCATTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
AATAAAGTTTATACAAGCTTACTA
Found at i:41183244 original size:15 final size:16
Alignment explanation
Indices: 41183224--41183253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41183214 TGGTGCCTTG
41183224 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
41183239 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
41183254 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:41187637 original size:40 final size:39
Alignment explanation
Indices: 41187593--41187718 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
41187583 GGGACTCAAC
*
41187593 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
41187633 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
41187673 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
41187713 CCGGAT
1 CCGGAT
41187719 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:41187677 original size:80 final size:80
Alignment explanation
Indices: 41187532--41187718 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
41187522 GCTACACATT
* * *
41187532 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
41187596 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
41187612 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
41187675 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
41187693 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
41187719 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:41195712 original size:40 final size:39
Alignment explanation
Indices: 41195668--41195793 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
41195658 GGGACTCAAC
*
41195668 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
41195708 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
41195748 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
41195788 CCGGAT
1 CCGGAT
41195794 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:41195752 original size:80 final size:80
Alignment explanation
Indices: 41195607--41195793 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
41195597 GCTACACATT
* * *
41195607 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
41195671 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
41195687 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
41195750 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
41195768 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
41195794 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:41199573 original size:44 final size:44
Alignment explanation
Indices: 41199484--41199603 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
41199474 GTGAATAGAA
** *
41199484 ATAGCTTCGATTGTATGTG--A-CACTAAGTGTGCGATACCGAG
1 ATAGCTTCGATTAAATGTGATAGCACTAAGTGTGCAATACCGAG
* * **
41199525 ATAGCTTCGATTCAATGTGATAGCACTAAGTGTGCAATATCGTT
1 ATAGCTTCGATTAAATGTGATAGCACTAAGTGTGCAATACCGAG
**
41199569 ATAGCTTCGATTAAACAT-ATATGCACTAAGTGTGC
1 ATAGCTTCGATTAAATGTGATA-GCACTAAGTGTGC
41199604 GAGTTCTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
41 17 0.26
43 4 0.06
44 45 0.68
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
ATAGCTTCGATTAAATGTGATAGCACTAAGTGTGCAATACCGAG
Found at i:41200503 original size:30 final size:30
Alignment explanation
Indices: 41200469--41200564 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
41200459 GTGTCTCAGC
41200469 CGTGTGCGACACATGGTCATGTTACAC-AGT
1 CGTGTGCGACACATGGTCATGTTACACGA-T
* * **
41200499 CGTGTGC-ACCACACGGGCATGTTACACGCC
1 CGTGTGCGA-CACATGGTCATGTTACACGAT
* *
41200529 CTTATGCGACACATGGTCATGTTACACGAT
1 CGTGTGCGACACATGGTCATGTTACACGAT
41200559 CGTGTG
1 CGTGTG
41200565 ACCCCTAGAG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 49 0.96
31 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (30 bp):
CGTGTGCGACACATGGTCATGTTACACGAT
Found at i:41206823 original size:50 final size:50
Alignment explanation
Indices: 41206756--41207089 Score: 328
Period size: 50 Copynumber: 6.6 Consensus size: 50
41206746 ACAGTTTTAC
* * *
41206756 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
41206806 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAAATAGTTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-ATAG
* ** * * *
41206857 ATCATGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATTGATAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
41206907 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
41206958 ATCACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
41207008 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** *
41207058 GTTGCATGTGTAGTACTAAGTGCAGGATACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
41207090 TGCCTACCAG
Statistics
Matches: 224, Mismatches: 56, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
49 3 0.01
50 145 0.65
51 74 0.33
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:41206893 original size:101 final size:101
Alignment explanation
Indices: 41206757--41207048 Score: 397
Period size: 101 Copynumber: 2.9 Consensus size: 101
41206747 CAGTTTTACG
* * *
41206757 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
* **
41206822 TAAGTGCAAGCTACTATGTGTACCAAATAGTTTCGA
66 TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
* * *
41206858 TCATGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATTGATAAGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
* ***
41206923 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
* * * * *
41206959 TCACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
*
41207024 TAAGTGTAGGCTACTACT-TGTACCA
66 TAAGTGCAGGCTACTA-TGTGTACCA
41207049 GATTGATAGG
Statistics
Matches: 166, Mismatches: 24, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
101 165 0.99
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGTGTACCAAATAACTTCGA
Found at i:41207017 original size:151 final size:152
Alignment explanation
Indices: 41206814--41207097 Score: 408
Period size: 151 Copynumber: 1.9 Consensus size: 152
41206804 AGGTCGCATG
* * ** * *
41206814 TGTAGTACTAAGTGCAAGCTACTATGTGTACCAAATAGTTTCGATCATGTGTGTAGTACTAATTG
1 TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
* * *
41206879 CAGGCTACTACGTGTACCGGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
66 CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCCT
41206944 ACCCGTTAACTTCGATCACGTT
131 ACCCGTTAACTTCGATCACGTT
* * * *
41206966 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAG-TCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
* * * *
41207030 TAGGCTACTACTTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGATACTATGCCT
66 CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCCT
41207095 ACC
131 ACC
41207098 AGAGAGCTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
151 80 0.70
152 35 0.30
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (152 bp):
TGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGATAAGATCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCCT
ACCCGTTAACTTCGATCACGTT
Found at i:41212117 original size:40 final size:39
Alignment explanation
Indices: 41212073--41212265 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
41212063 GTTCAAAACA
* * ** * *
41212073 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
41212113 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
41212153 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41212192 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41212231 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
41212266 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:41212184 original size:39 final size:39
Alignment explanation
Indices: 41212103--41212265 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
41212093 TATGGTAACC
* *
41212103 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
41212143 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41212182 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41212221 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
41212260 CGCACA
1 CGCACA
41212266 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:41219647 original size:40 final size:39
Alignment explanation
Indices: 41219603--41219795 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
41219593 GTTCAAAACA
* * ** * *
41219603 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
41219643 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
41219683 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41219722 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41219761 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
41219796 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:41219714 original size:39 final size:39
Alignment explanation
Indices: 41219633--41219795 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
41219623 TATGGTAACC
* *
41219633 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
41219673 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41219712 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41219751 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
41219790 CGCACA
1 CGCACA
41219796 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:41222650 original size:44 final size:43
Alignment explanation
Indices: 41222582--41222669 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
41222572 CCCAGTTTCC
* *
41222582 ATACTTTGATAACTTCTCCGATTAATCCCCAAAATAGATAGATT
1 ATACTTTAATAACTTCTCAGATTAATCCCC-AAATAGATAGATT
*
41222626 ATACTTTAATAACTTCTCATATTAATCCCCAAATAGATAGATT
1 ATACTTTAATAACTTCTCAGATTAATCCCCAAATAGATAGATT
41222669 A
1 A
41222670 AGTTATCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 14 0.34
44 27 0.66
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (43 bp):
ATACTTTAATAACTTCTCAGATTAATCCCCAAATAGATAGATT
Found at i:41228339 original size:40 final size:39
Alignment explanation
Indices: 41228149--41228332 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
41228139 TGAATGATGT
* * * *
41228149 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
41228189 CCGGACTAAGAT-CCAAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
41228229 CCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41228267 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41228308 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41228333 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 33 0.27
40 81 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.