Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 56 of 172
Found at i:15120629 original size:48 final size:49
Alignment explanation
Indices: 15120549--15120644 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 49
15120539 CCGGCACCAC
* *
15120549 CAGTATGAAAAAAAAAAAATTTGGGTGCTGGCCTGTC-AATGGTCGGCAG
1 CAGTATGAAAAAAAAAAAATTTAGGTGCTGGCCT-TCTAATGGCCGGCAG
* *
15120598 CAGTAT-ACAAAAAAAAAATTTAGGTGTTGGCCTTCTAATGGCCGGCA
1 CAGTATGAAAAAAAAAAAATTTAGGTGCTGGCCTTCTAATGGCCGGCA
15120645 TCAAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 2 0.05
48 34 0.81
49 6 0.14
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (49 bp):
CAGTATGAAAAAAAAAAAATTTAGGTGCTGGCCTTCTAATGGCCGGCAG
Found at i:15124739 original size:47 final size:46
Alignment explanation
Indices: 15124621--15124740 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 46
15124611 GACCATTAAG
15124621 AAGCCAGCACCCAAAAAAAATTTTCGTACTAGTGGGCCGGCCATTGAC
1 AAGCCAGCACCC-AAAAAAATTTT-GTACTAGTGGGCCGGCCATTGAC
* *** *
15124669 AAGCCAGTA-CCAAAATTTTTTTTGTACTGGTGGTGCCGGCCATTGAC
1 AAGCCAGCACCCAAAA-AAATTTTGTACTAGTGG-GCCGGCCATTGAC
* *
15124716 AGGCTAGCACCCAAAAAAATTTTGT
1 AAGCCAGCACCCAAAAAAATTTTGT
15124741 TTTTGTATAC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
46 13 0.22
47 31 0.53
48 14 0.24
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (46 bp):
AAGCCAGCACCCAAAAAAATTTTGTACTAGTGGGCCGGCCATTGAC
Found at i:15125238 original size:14 final size:14
Alignment explanation
Indices: 15125219--15125278 Score: 77
Period size: 14 Copynumber: 4.3 Consensus size: 14
15125209 TCAATTCTGA
15125219 ATTTTAATTTTAAT
1 ATTTTAATTTTAAT
15125233 ATTTTAATTTTAAT
1 ATTTTAATTTTAAT
* * *
15125247 ATCTAAATTTAAAT
1 ATTTTAATTTTAAT
15125261 -TTATTAATTTTAAT
1 ATT-TTAATTTTAAT
15125275 ATTT
1 ATTT
15125279 AGTTTAAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
13 1 0.03
14 35 0.92
15 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTTAAT
Found at i:15125466 original size:28 final size:30
Alignment explanation
Indices: 15125427--15125486 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
15125417 CATTTATCAT
15125427 AAAAATAAATA-TT-ATTATCATAAAAATA
1 AAAAATAAATATTTAATTATCATAAAAATA
* *
15125455 AAAAATATATATTTAATTATCATAAATATA
1 AAAAATAAATATTTAATTATCATAAAAATA
15125485 AA
1 AA
15125487 TATTATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.36
29 2 0.07
30 16 0.57
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAAATAAATATTTAATTATCATAAAAATA
Found at i:15133291 original size:16 final size:16
Alignment explanation
Indices: 15133270--15133301 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15133260 ATTAAAGACA
*
15133270 GAATTTTGGTCTTCTT
1 GAATTTTGATCTTCTT
15133286 GAATTTTGATCTTCTT
1 GAATTTTGATCTTCTT
15133302 ACAAGTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (16 bp):
GAATTTTGATCTTCTT
Found at i:15137306 original size:3 final size:3
Alignment explanation
Indices: 15137298--15137324 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15137288 TTTTGGGATT
15137298 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
15137325 AGACCATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15142757 original size:21 final size:19
Alignment explanation
Indices: 15142735--15142789 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
15142725 TAAAAATATA
15142735 TATAAAT-TTTTGTAATTTT
1 TATAAATATTTTG-AATTTT
15142754 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
15142772 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
15142790 CTTTGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 18 0.56
20 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:15146314 original size:26 final size:25
Alignment explanation
Indices: 15146285--15146333 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
15146275 TGAATGTTCT
*
15146285 TTAAGCACCAAATTGAGACAAAAAAA
1 TTAAGCACCAAAGTGAGA-AAAAAAA
*
15146311 TTAAGTACCAAAGTGAGAAAAAA
1 TTAAGCACCAAAGTGAGAAAAAA
15146334 GATATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.16
Consensus pattern (25 bp):
TTAAGCACCAAAGTGAGAAAAAAAA
Found at i:15146822 original size:21 final size:21
Alignment explanation
Indices: 15146787--15146841 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
15146777 TTTACATCAG
*
15146787 AATT-AGATTATACTTA-TCA
1 AATTCAGATCATACTTATTCA
*
15146806 TAATTCCGATCATACTTATTCA
1 -AATTCAGATCATACTTATTCA
*
15146828 AATTCAGATTATAC
1 AATTCAGATCATAC
15146842 AGAGCATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (21 bp):
AATTCAGATCATACTTATTCA
Found at i:15147759 original size:3 final size:3
Alignment explanation
Indices: 15147753--15147790 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15147743 AACAAATCAA
15147753 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15147791 AAGGTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15156620 original size:5 final size:5
Alignment explanation
Indices: 15156599--15156634 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
15156589 TAAAAGAAAG
*
15156599 AAGAA CAAGAA AGGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
15156635 TAAAGGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:15166033 original size:39 final size:39
Alignment explanation
Indices: 15165947--15166033 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
15165937 TCTTGAGCGT
* * *
15165947 CCTGCTGCACACGCACCAACCCCGTATCTTGCCTTGCTC
1 CCTGCTGCTCACGCACCAACCCCGCATCCTGCCTTGCTC
*
15165986 CCTGCTGCTCACGCACCAACCCTGCATCCTGCCTTGC-C
1 CCTGCTGCTCACGCACCAACCCCGCATCCTGCCTTGCTC
15166024 CACTGCTGCT
1 C-CTGCTGCT
15166034 ACTACTTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.05
39 41 0.95
ACGTcount: A:0.14, C:0.47, G:0.16, T:0.23
Consensus pattern (39 bp):
CCTGCTGCTCACGCACCAACCCCGCATCCTGCCTTGCTC
Found at i:15166306 original size:16 final size:17
Alignment explanation
Indices: 15166277--15166315 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
15166267 CAAATCAAAT
15166277 AAATAAACAAAATATAA
1 AAATAAACAAAATATAA
*
15166294 AAATAAA-AAAATATAT
1 AAATAAACAAAATATAA
15166310 AAATAA
1 AAATAA
15166316 TGAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAACAAAATATAA
Found at i:15166311 original size:18 final size:17
Alignment explanation
Indices: 15166277--15166331 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
15166267 CAAATCAAAT
*
15166277 AAATAAACAAAATATAA
1 AAATAAAAAAAATATAA
15166294 AAATAAAAAAATATATAA
1 AAATAAAAAAA-ATATAA
*
15166312 ATAATGAAAACAAAAAATAA
1 A-AAT-AAAA-AAAATATAA
15166332 TTAAATGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 10 0.31
18 7 0.22
19 3 0.09
20 9 0.28
21 3 0.09
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAAATATAA
Found at i:15171383 original size:27 final size:28
Alignment explanation
Indices: 15171353--15171405 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
15171343 TGAAATTCAT
*
15171353 ACTTTAATTA-TAAAATAATTAATTTGC
1 ACTTAAATTATTAAAATAATTAATTTGC
* *
15171380 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
15171406 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTGC
Found at i:15174989 original size:50 final size:51
Alignment explanation
Indices: 15174920--15175024 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 51
15174910 GACCACTTAT
* * * *
15174920 CACTTGTCCCTGATTAGATAAGTGTAG-CTAAGCTACCATTTATCACTTGC
1 CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
*
15174970 CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
15175021 CACT
1 CACT
15175025 AATCAGAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 25 0.51
51 24 0.49
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (51 bp):
CACTTGTCACTGATCAGATAAGTGTAGCCGAAGCTACCACTTATCACTTGC
Found at i:15178906 original size:49 final size:49
Alignment explanation
Indices: 15178850--15179043 Score: 223
Period size: 49 Copynumber: 4.0 Consensus size: 49
15178840 TTCATTTTCT
* *
15178850 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
* * *
15178899 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
* * *
15178948 CGATGCCATAACCCAGCTATGGTCTTACACGGAATCACATATCAC--AC
1 CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
* * * **
15178995 TGATGTCATATCCCAGA-TATGGTCTTACACAAAAATCACATAATCACAT
1 CGATGCCATAGCCCA-ACTATGGTCTTACAC-GGAATCACA-AATCACAT
15179044 TTCCACATGT
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
47 27 0.21
48 7 0.06
49 93 0.73
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:15179041 original size:98 final size:97
Alignment explanation
Indices: 15178850--15179041 Score: 251
Period size: 98 Copynumber: 2.0 Consensus size: 97
15178840 TTCATTTTCT
** *
15178850 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATGCCATAGCCCAG
1 CGATGCCATAACCCAACTATGGTCTTACACGGAATCACAAATCACA-ACCGATGCCATAGCCCAG
* **
15178915 CTATGGTCTTACACGGAATCACATATCACTTAC
65 ATATGGTCTTACACAAAATCACATATCACTTAC
* * * * *
15178948 CGATGCCATAACCCAGCTATGGTCTTACACGGAATCACATATCAC-ACTGATGTCATATCCCAGA
1 CGATGCCATAACCCAACTATGGTCTTACACGGAATCACAAATCACAACCGATGCCATAGCCCAGA
15179012 TATGGTCTTACACAAAAATCACATAATCAC
66 TATGGTCTTACAC-AAAATCACAT-ATCAC
15179042 ATTTCCACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
96 28 0.35
97 8 0.10
98 45 0.56
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (97 bp):
CGATGCCATAACCCAACTATGGTCTTACACGGAATCACAAATCACAACCGATGCCATAGCCCAGA
TATGGTCTTACACAAAATCACATATCACTTAC
Found at i:15181157 original size:43 final size:43
Alignment explanation
Indices: 15181008--15181265 Score: 296
Period size: 42 Copynumber: 6.1 Consensus size: 43
15180998 TAACCGTTAC
**
15181008 ACGGTGGAATCAGCACTTAGCAACCACC-TCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATC-AAGGAT
* * * *
15181051 CCCGGTGAAATCAGCACTTAGTAACCACCTT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
* * * *
15181094 ACGG-GGAATCAGCACATAGCAACCTCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
*
15181136 ACGGTGGAATCAGCACTTAGCAACCACCTT-ATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
* * *
15181178 ACGG-AGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TTCATAATCAAGGAT
* *
15181220 ACGGTGGAATCAACACTTAGCAACCACCTT-ATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
15181262 ACGG
1 ACGG
15181266 GTTCACATAG
Statistics
Matches: 179, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.01
41 40 0.22
42 59 0.33
43 46 0.26
44 31 0.17
45 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
Found at i:15181163 original size:84 final size:84
Alignment explanation
Indices: 15181053--15181266 Score: 383
Period size: 84 Copynumber: 2.5 Consensus size: 84
15181043 CAAAGGATCC
* *
15181053 CGGTGAAATCAGCACTTAGTAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
15181118 TCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
15181137 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGAGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
15181202 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
15181221 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
15181267 TTCACATAGT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 124 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:15181349 original size:51 final size:51
Alignment explanation
Indices: 15181273--15181459 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
15181263 CGGGTTCACA
* * * *
15181273 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCTGGTACACG
* * *
15181324 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCTGGTACACG
* * * *
15181375 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCTGGTACACG
*
15181425 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
15181460 CACTTTCACT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
50 44 0.38
51 69 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCTGGTACACG
Found at i:15181478 original size:101 final size:101
Alignment explanation
Indices: 15181266--15181487 Score: 261
Period size: 101 Copynumber: 2.2 Consensus size: 101
15181256 AATGATACGG
*
15181266 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
* * **
15181331 CTGCACATAGTACTACACACGTGATCGAAGCTATCTG
65 CTGCACATAGTACTACACACATGATCCAAGCTATCAC
* * * * * *
15181368 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGC
*
15181432 CTGCACATAGTACTACACACATGA-CCATCA-CTTTCAC
65 CTGCACATAGTACTACACACATGATCCA--AGCTATCAC
* *
15181469 TTTCACATAGTGGCCTACA
1 GTTCACATAGTAGCCTACA
15181488 TACAGTCCGT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
100 3 0.03
101 60 0.60
102 37 0.37
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACATGATCCAAGCTATCAC
Found at i:15183854 original size:51 final size:51
Alignment explanation
Indices: 15183747--15184013 Score: 385
Period size: 51 Copynumber: 5.3 Consensus size: 51
15183737 CATACGTATG
* * *
15183747 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* * * * *
15183797 ATCACTTGTCATTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* *
15183848 ATCACTTATCACTTGTTACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* *
15183899 ATCACTTGCCACTTGTCACTGATCAGATAATTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
* *
15183950 ATCACTTG-CTACTTTTCATTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTC-ACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
15184001 ATCACTTGTCACT
1 ATCACTTGTCACT
15184014 AATCAGAAGT
Statistics
Matches: 195, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
50 34 0.17
51 160 0.82
52 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
Found at i:15187026 original size:13 final size:13
Alignment explanation
Indices: 15187008--15187034 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15186998 TATTTTAATA
15187008 TTTATTAAATTTT
1 TTTATTAAATTTT
15187021 TTTATTAAATTTT
1 TTTATTAAATTTT
15187034 T
1 T
15187035 ATTTCAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:15187146 original size:15 final size:15
Alignment explanation
Indices: 15187123--15187160 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15187113 ATATATATAC
*
15187123 ATAATATTA-TTTCAA
1 ATAAAATTAGTTTC-A
15187138 ATAAAATTAGTTTCA
1 ATAAAATTAGTTTCA
15187153 ATAAAATT
1 ATAAAATT
15187161 TAATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAAATTAGTTTCA
Found at i:15190668 original size:5 final size:5
Alignment explanation
Indices: 15190658--15190692 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
15190648 TACTCGATTA
* *
15190658 TCTTT TCTTT TCTTT TCTTT TCTTT CCTTT CCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
15190693 ACTGCCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TCTTT
Found at i:15193108 original size:25 final size:25
Alignment explanation
Indices: 15193080--15193134 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
15193070 AACTGTCCTT
* *
15193080 GATAGTATATCCTAAAACTTCTATA
1 GATAGTATATACTAAAACTACTATA
* *
15193105 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTAAAACTACTATA
15193130 GATAG
1 GATAG
15193135 ACCATACTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (25 bp):
GATAGTATATACTAAAACTACTATA
Found at i:15198922 original size:18 final size:19
Alignment explanation
Indices: 15198882--15198925 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
15198872 AAATAAAACG
15198882 TTTTGAAATTGAATAATGA
1 TTTTGAAATTGAATAATGA
15198901 -TTTGTAAA-TGAATAAT-A
1 TTTTG-AAATTGAATAATGA
15198918 TTTTGAAA
1 TTTTGAAA
15198926 ACGAACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TTTTGAAATTGAATAATGA
Found at i:15206243 original size:19 final size:20
Alignment explanation
Indices: 15206212--15206253 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15206202 TGATTATTAT
*
15206212 TTTTATAATTG-AATTTTGA
1 TTTTATAATTGAAATTTTAA
15206231 TTTTAT-ATATGAAATTTTAA
1 TTTTATAAT-TGAAATTTTAA
15206251 TTT
1 TTT
15206254 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 8 0.40
20 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTATAATTGAAATTTTAA
Found at i:15215629 original size:27 final size:27
Alignment explanation
Indices: 15215598--15215649 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
15215588 CCAATGAACC
*
15215598 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
15215625 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
15215650 TTTCACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:15215654 original size:104 final size:104
Alignment explanation
Indices: 15215460--15215830 Score: 602
Period size: 104 Copynumber: 3.6 Consensus size: 104
15215450 TAATCGTTAT
* * **
15215460 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
15215525 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
* * *
15215564 TGGTAGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
15215628 GAATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
*
15215668 TGGTGGATCACGAACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
15215732 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCTTTTCACATTTCAAAGATA
**
15215772 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
15215831 TTATATACAA
Statistics
Matches: 250, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
103 20 0.08
104 229 0.92
105 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
Found at i:15215730 original size:26 final size:26
Alignment explanation
Indices: 15215700--15215751 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15215690 CACCAATGAA
*
15215700 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
15215726 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
15215752 CTTTTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:15216190 original size:29 final size:29
Alignment explanation
Indices: 15216157--15216220 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
15216147 TAATCCACCA
15216157 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
15216186 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
15216216 CCCAA
1 CCCAA
15216221 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:15216194 original size:30 final size:30
Alignment explanation
Indices: 15216164--15216220 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15216154 CCACCCAACT
15216164 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
15216193 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
15216221 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:15218595 original size:21 final size:20
Alignment explanation
Indices: 15218548--15218603 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
15218538 TTTTTAATAT
*
15218548 TATATATAATATATTATTTAAA
1 TATATA-AATA-ATTATATAAA
*
15218570 AATATAAATAATTATATACAA
1 TATATAAATAATTATATA-AA
15218591 TATATAAATAATT
1 TATATAAATAATT
15218604 CAAAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 18 0.60
22 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATAAATAATTATATAAA
Found at i:15218745 original size:29 final size:29
Alignment explanation
Indices: 15218674--15218746 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
15218664 ATAAAAATAA
*
15218674 AATTTTTCATAAAAAATTTAAAAAAAGTATTT
1 AATTTTTC--AAAAAATTTAAAAAAAG-ACTT
*
15218706 AACTTTT-AAAAAATTATAAAAAAA-ACTT
1 AATTTTTCAAAAAATT-TAAAAAAAGACTT
15218734 AATTTTTCAAAAA
1 AATTTTTCAAAAA
15218747 TATATATTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 9 0.25
29 13 0.36
30 8 0.22
32 6 0.17
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (29 bp):
AATTTTTCAAAAAATTTAAAAAAAGACTT
Found at i:15218752 original size:29 final size:30
Alignment explanation
Indices: 15218674--15218752 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 30
15218664 ATAAAAATAA
* * *
15218674 AATTTTTCATAAAAAATTTAAAAAAAGTATTT
1 AATTTTTCA-AAAATATATAAAAAAAG-ACTT
* *
15218706 AACTTTTAAAAAAT-TATAAAAAAA-ACTT
1 AATTTTTCAAAAATATATAAAAAAAGACTT
15218734 AATTTTTCAAAAATATATA
1 AATTTTTCAAAAATATATA
15218753 TTCTAGAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 15 0.38
29 4 0.10
30 9 0.23
31 4 0.10
32 7 0.18
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTTTTCAAAAATATATAAAAAAAGACTT
Found at i:15221173 original size:4 final size:4
Alignment explanation
Indices: 15221164--15221193 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
15221154 CCATCTGGCC
15221164 AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
15221194 CCCATGACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15224078 original size:28 final size:31
Alignment explanation
Indices: 15224038--15224102 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 31
15224028 GCTAGAAAAG
*
15224038 GGAA-GTCCGCCAAGGACTATCTT-A-TA-T
1 GGAATGTCCGCCAAGCACTATCTTGACTACT
*
15224065 GGAATGTCTGCCAAGCACTATCTTGACTACT
1 GGAATGTCCGCCAAGCACTATCTTGACTACT
15224096 GGAATGT
1 GGAATGT
15224103 TCATAAGGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.12
28 17 0.53
29 1 0.03
30 2 0.06
31 8 0.25
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (31 bp):
GGAATGTCCGCCAAGCACTATCTTGACTACT
Found at i:15230040 original size:16 final size:16
Alignment explanation
Indices: 15230019--15230052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15230009 CACAATCATT
* *
15230019 TAAATATTATTAAAAC
1 TAAATAATAGTAAAAC
15230035 TAAATAATAGTAAAAC
1 TAAATAATAGTAAAAC
15230051 TA
1 TA
15230053 CCAAATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAATAATAGTAAAAC
Found at i:15232374 original size:42 final size:42
Alignment explanation
Indices: 15232298--15232377 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
15232288 AACTATGGGG
* *
15232298 ACTTCTACCCAGACATCTTGTGTGATATATCGATACAATTCC
1 ACTTCTACCCAGACATCTTGTGAGATATACCGATACAATTCC
* * *
15232340 ACTTCTACCCATACATCTTGTGAGTTGTACCGATACAA
1 ACTTCTACCCAGACATCTTGTGAGATATACCGATACAA
15232378 GTCTGTCTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (42 bp):
ACTTCTACCCAGACATCTTGTGAGATATACCGATACAATTCC
Found at i:15235178 original size:24 final size:23
Alignment explanation
Indices: 15235132--15235200 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
15235122 TTAATAAACG
* *
15235132 AGAAAAATAAAAATAAAAATAAA
1 AGAAAATTAAAATTAAAAATAAA
**
15235155 AGAAGTTTAAAATTAAAAACTAAA
1 AGAAAATTAAAATTAAAAA-TAAA
**
15235179 TTAAAATTAAAATT-AAAATAAA
1 AGAAAATTAAAATTAAAAATAAA
15235201 CTAAAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 4 0.11
23 19 0.51
24 14 0.38
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (23 bp):
AGAAAATTAAAATTAAAAATAAA
Found at i:15244184 original size:25 final size:26
Alignment explanation
Indices: 15244155--15244215 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
15244145 TATACTTTGC
*
15244155 TAAACTCCAT-ATCAAA-TTAATCATA
1 TAAACACCATCAT-AAATTTAATCATA
15244180 TAAACACCATGCATAAATTTAATCATA
1 TAAACACCAT-CATAAATTTAATCATA
15244207 TAAACACCA
1 TAAACACCA
15244216 ACCATTAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.28
26 3 0.09
27 20 0.62
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (26 bp):
TAAACACCATCATAAATTTAATCATA
Found at i:15253083 original size:26 final size:26
Alignment explanation
Indices: 15253054--15253113 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
15253044 TGAAATCATT
*
15253054 TGGAAATGAATTTAGGTTTCCAAAAA
1 TGGAAATGAATGTAGGTTTCCAAAAA
**
15253080 TGGAAATGAATGTAGGTTTCCAAGTA
1 TGGAAATGAATGTAGGTTTCCAAAAA
15253106 TGGAAATG
1 TGGAAATG
15253114 GAAATGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (26 bp):
TGGAAATGAATGTAGGTTTCCAAAAA
Found at i:15254222 original size:5 final size:5
Alignment explanation
Indices: 15254212--15254255 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
15254202 GGAGTTAATA
15254212 AATTG AATTG AATTG AATTG AATTG AATTG AATTG AATTG AATT
1 AATTG AATTG AATTG AATTG AATTG AATTG AATTG AATTG AATT
15254256 ATCGTTTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
AATTG
Found at i:15257268 original size:52 final size:52
Alignment explanation
Indices: 15257206--15257307 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
15257196 AAAAGTAAAG
15257206 GATTTTGGTGTTTTGCTCATTCATAGAGAGGTAAGTTCTCAAGGAACCATAA
1 GATTTTGGTGTTTTGCTCATTCATAGAGAGGTAAGTTCTCAAGGAACCATAA
15257258 GATTTTGGTGTTTTGCTCATTCATAGAGAGGTAAGTTCTCAAGGAACCAT
1 GATTTTGGTGTTTTGCTCATTCATAGAGAGGTAAGTTCTCAAGGAACCAT
15257308 TCTTACCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
GATTTTGGTGTTTTGCTCATTCATAGAGAGGTAAGTTCTCAAGGAACCATAA
Found at i:15271459 original size:17 final size:18
Alignment explanation
Indices: 15271432--15271465 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15271422 TAGTGTGATA
15271432 TAACTCCGAACAAGCTTC
1 TAACTCCGAACAAGCTTC
*
15271450 TAAC-CCGAACGAGCTT
1 TAACTCCGAACAAGCTT
15271466 TTAATGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (18 bp):
TAACTCCGAACAAGCTTC
Found at i:15280604 original size:50 final size:50
Alignment explanation
Indices: 15280547--15280721 Score: 233
Period size: 50 Copynumber: 3.5 Consensus size: 50
15280537 TATTCCTGAT
** * * *
15280547 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
** *
15280597 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * *
15280647 ATGGTCTTACATAGGACCTCTTATCTTGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
*
15280697 ATGGTCTTACATGGGAGCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
15280722 ATCTCAATGA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:15280744 original size:56 final size:50
Alignment explanation
Indices: 15280585--15280768 Score: 206
Period size: 50 Copynumber: 3.6 Consensus size: 50
15280575 GTGCCCATGT
** * * *
15280585 CATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTTGATGCCAACGC
* * *
15280635 CATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTTGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTTGATGCCAACGC
**
15280685 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATAATCTCAATGATGCCATTGC
1 CATGTCCCAGACATGGTCTTACATGGGA-C-CTC-TAATCT---TGATGCCAACGC
* *
15280741 CATGTCCTAGATATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACATGGGA
15280769 TCTCATTCCC
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 72 0.62
51 1 0.01
52 3 0.03
53 5 0.04
56 35 0.30
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTTGATGCCAACGC
Found at i:15281142 original size:30 final size:30
Alignment explanation
Indices: 15281108--15281166 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15281098 TCCATAACTC
15281108 AAACTTTGGA-AAAATTACAATTTTGCCCCT
1 AAACTTT-GACAAAATTACAATTTTGCCCCT
* * *
15281138 AAACTTTTACATAATTACACTTTTGCCCC
1 AAACTTTGACAAAATTACAATTTTGCCCC
15281167 AAAGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTGACAAAATTACAATTTTGCCCCT
Found at i:15285548 original size:73 final size:73
Alignment explanation
Indices: 15285429--15285574 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
15285419 TAAATATGAA
15285429 ATGCCTAGTTATGTACTCCAAAATCAACATTTGTATTATATTTTCTCAAGGGTCTTCTTTTAATT
1 ATGCCTAGTTATGTACTCCAAAATCAACATTTGTATTATATTTTCTCAAGGGTCTTCTTTTAATT
15285494 TAGGGAGT
66 TAGGGAGT
15285502 ATGCCTAGTTATGTACTCCAAAATCAACATTTGTATTATATTTTCTCAAGGGTCTTCTTTTAATT
1 ATGCCTAGTTATGTACTCCAAAATCAACATTTGTATTATATTTTCTCAAGGGTCTTCTTTTAATT
15285567 TAGGGAGT
66 TAGGGAGT
15285575 CTTGTAACAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (73 bp):
ATGCCTAGTTATGTACTCCAAAATCAACATTTGTATTATATTTTCTCAAGGGTCTTCTTTTAATT
TAGGGAGT
Found at i:15285667 original size:12 final size:12
Alignment explanation
Indices: 15285650--15285679 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15285640 TAAGTTCGTA
15285650 AATATTATATTT
1 AATATTATATTT
15285662 AATATTATATTT
1 AATATTATATTT
15285674 AATATT
1 AATATT
15285680 TTTGCGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTATATTT
Found at i:15287129 original size:28 final size:29
Alignment explanation
Indices: 15287068--15287136 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
15287058 ACCTTAGATA
15287068 ATGAAAAGGGATAGCTTCGACTATCTAAT
1 ATGAAAAGGGATAGCTTCGACTATCTAAT
*
15287097 GTGAAAAGGGATAGCTTCG-CTATC-AATT
1 ATGAAAAGGGATAGCTTCGACTATCTAA-T
*
15287125 ATGAAAACGGAT
1 ATGAAAAGGGAT
15287137 GGTGACGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.06
28 16 0.44
29 18 0.50
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCTAAT
Found at i:15288028 original size:50 final size:50
Alignment explanation
Indices: 15287944--15288220 Score: 394
Period size: 50 Copynumber: 5.5 Consensus size: 50
15287934 ATTTGGGTAA
* * * * *
15287944 AGAGATCCAATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* *
15287994 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
15288044 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCG-AGATG
*
15288095 AGAGGTCCCATGTAAGACCATGTTTGGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* * * *
15288145 AGAGGTCTCC-CGTAAGACCATGTTTGGGACATGGCATAGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
** *
15288195 AGAGGTCCCCCGTTAGACCATGTTTG
1 AGAGGTCCCATGTAAGACCATGTTTG
15288221 TAACATCCCG
Statistics
Matches: 210, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
49 2 0.01
50 157 0.75
51 51 0.24
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
Found at i:15288131 original size:101 final size:100
Alignment explanation
Indices: 15287944--15288220 Score: 403
Period size: 101 Copynumber: 2.8 Consensus size: 100
15287934 ATTTGGGTAA
* * * * *
15287944 AGAGATCCAATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCTCATGTAA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
*
15288009 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATGTTTGGGACATGGCGTTGGCACCGAGATG
*
15288044 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAAGATGAGAGGTCCCATGTA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCATGTA
*
15288109 AGACCATGTTTGGGATATGGCGTTGGCACCGAGATG
65 AGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
* * * ** *
15288145 AGAGGTCTCC-CGTAAGACCATGTTTGGGACATGGCATAGGCACCGATATGAGAGGTCCCCCGTT
1 AGAGGTC-CCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTA
15288209 AGACCATGTTTG
65 AGACCATGTTTG
15288221 TAACATCCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
100 68 0.43
101 90 0.56
102 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTTTGGGACATGGCGTTGGCACCGAGATG
Found at i:15289044 original size:50 final size:50
Alignment explanation
Indices: 15288962--15289181 Score: 282
Period size: 50 Copynumber: 4.4 Consensus size: 50
15288952 TTTTGGGTAA
* * * *
15288962 AGAGATCCCATGTAAGATCATGTCTGGTACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
15289012 AGAGGTCCCATGTGAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
15289062 AGAGGTCCCATTTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
15289112 ATAGGTCCC-TCGTAACACCATGTCTGGGACATGGC-ATGGACACTGATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAGATG
**
15289162 AGAACTCCCATGTAAGACCA
1 AGAGGTCCCATGTAAGACCA
15289182 CATCTAGGAT
Statistics
Matches: 148, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 4 0.03
50 143 0.97
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:15289100 original size:100 final size:99
Alignment explanation
Indices: 15288962--15289252 Score: 293
Period size: 100 Copynumber: 2.9 Consensus size: 99
15288952 TTTTGGGTAA
* * *
15288962 AGAGATCCCATGTAAGATCATGTCT-GGTACATGGCGTTGGCACTGAGATGAGAGGTCCCATGTG
1 AGAGATCCCATGTAAGACCATGTCTAGG-ACATGGCGTTGGCACTGAGATGAAAGGTCCCATGTA
15289026 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
65 AGACCATGTCTGGGACATGGC-TTGGCACCGAGATG
* * * *
15289062 AGAGGTCCCATTTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGATAGGTCCC-TCGTA
1 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAAAGGTCCCAT-GTA
* * * *
15289126 ACACCATGTCTGGGACATGGCATGGACACTGATATG
65 AGACCATGTCTGGGACATGGCTTGG-CACCGAGATG
** * * * * * * **
15289162 AGA-ACTCCCATGTAAGACCACATCTAGGATATGACATTGGCAGT-AAAGGAAACATCCCATGTA
1 AGAGA-TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAAAGGTCCCATGTA
* *
15289225 AGACTATGTCTGGGACATAGCTTTGGCA
65 AGACCATGTCTGGGACATGGC-TTGGCA
15289253 TGTTATTATC
Statistics
Matches: 157, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
99 36 0.23
100 119 0.76
101 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (99 bp):
AGAGATCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAAAGGTCCCATGTAA
GACCATGTCTGGGACATGGCTTGGCACCGAGATG
Found at i:15295009 original size:50 final size:50
Alignment explanation
Indices: 15294946--15295166 Score: 316
Period size: 50 Copynumber: 4.4 Consensus size: 50
15294936 ATTTGGGTAA
* * *
15294946 AGAGATCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
15294996 AGAGGTCTTATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
15295046 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
15295096 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
15295146 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
15295167 ATCTAGGATA
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 152 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:15299343 original size:50 final size:50
Alignment explanation
Indices: 15299232--15299480 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
15299222 ATTTGGGTGA
* *
15299232 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* * * *
15299288 AGAGGTTCCATGTAAAACCATGTCTGGGACGTGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
15299338 AGAGGTCCCATGTAAGACCATGCCTGGGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATG
* * * *
15299388 AGATGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
15299438 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15299481 TGTTATGATC
Statistics
Matches: 169, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
50 92 0.54
51 36 0.21
53 3 0.02
55 2 0.01
56 36 0.21
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15316080 original size:22 final size:23
Alignment explanation
Indices: 15316055--15316111 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
15316045 TGTGAAGCAT
*
15316055 TTGTGGCGTATTATGTGATGC-C
1 TTGTGGTGTATTATGTGATGCTC
* * *
15316077 TTGTGATGTATTTTGTGATGCTT
1 TTGTGGTGTATTATGTGATGCTC
15316100 TTGTGGTGTATT
1 TTGTGGTGTATT
15316112 TTATAACACC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.12, C:0.07, G:0.30, T:0.51
Consensus pattern (23 bp):
TTGTGGTGTATTATGTGATGCTC
Found at i:15316109 original size:23 final size:22
Alignment explanation
Indices: 15316043--15316113 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
15316033 AGGAAAGTTA
* *
15316043 TTTGTGAAGCATTTGTGGCGTAT
1 TTTGTGATGC-TTTGTGGTGTAT
* * *
15316066 TATGTGATGCCTTGTGATGTAT
1 TTTGTGATGCTTTGTGGTGTAT
15316088 TTTGTGATGCTTTTGTGGTGTAT
1 TTTGTGATGC-TTTGTGGTGTAT
15316111 TTT
1 TTT
15316114 ATAACACCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 18 0.46
23 21 0.54
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.51
Consensus pattern (22 bp):
TTTGTGATGCTTTGTGGTGTAT
Found at i:15318009 original size:67 final size:67
Alignment explanation
Indices: 15317900--15318069 Score: 225
Period size: 67 Copynumber: 2.5 Consensus size: 67
15317890 CTTTATGCTA
* * *
15317900 TCATAGTCCAGCTATGGTCTTACACATCATGCCCCATGTTTAATGTCATGGCAGACTCTCTATGT
1 TCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCATGGCAGACTCTCTATGT
15317965 T-
66 TG
* * * * *
15317966 TCCATAGTCGAGCTACGGTCTTACACATTATTCCCCATGTTTAATTTCTTGGCGGACTCTCTATG
1 T-CATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCATGGCAGACTCTCTATG
15318031 TTG
65 TTG
* * *
15318034 TCATATTTGAGCTATGGTCTTACAAATTATACCCCA
1 TCATAGTCGAGCTATGGTCTTACACATTATACCCCA
15318070 CCAGACTCTT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
66 1 0.01
67 88 0.98
68 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (67 bp):
TCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCATGGCAGACTCTCTATGT
TG
Found at i:15318166 original size:120 final size:120
Alignment explanation
Indices: 15317951--15318189 Score: 370
Period size: 120 Copynumber: 2.0 Consensus size: 120
15317941 AATGTCATGG
* * *
15317951 CAGACTCTCTATGTTTCCATAGTCGAGCTACGGTCTTACACATTATTCCCCATGTTTAATTTCTT
1 CAGACTCTCTATATTTCCATAGTCGAGCTACGGTCTTACACATTATTCCCCATGTTTAATGTCCT
* * * *
15318016 GGCGGACTCTCTATGTTGTCATATTTGAGCTATGGTCTTACAAATTATACCCCAC
66 AGCGGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACAAATTATACCCCAC
* *
15318071 CAGACTCTTTATATTTCCATAGTCGAGCTATGGTCTTACACATTATTCCCCATGTTTAATGTCCT
1 CAGACTCTCTATATTTCCATAGTCGAGCTACGGTCTTACACATTATTCCCCATGTTTAATGTCCT
* * *
15318136 AGCGGACTTTCTATGTTGCCATAGTCGAGCTATGGTCTTACACATTATTCCCCA
66 AGCGGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACAAATTATACCCCA
15318190 TTACAGCCCA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (120 bp):
CAGACTCTCTATATTTCCATAGTCGAGCTACGGTCTTACACATTATTCCCCATGTTTAATGTCCT
AGCGGACTCTCTATGTTGCCATAGTCGAGCTATGGTCTTACAAATTATACCCCAC
Found at i:15319849 original size:18 final size:18
Alignment explanation
Indices: 15319826--15319860 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15319816 GGCTAAGGTT
15319826 AAAAGAAGGGGAAGGAAG
1 AAAAGAAGGGGAAGGAAG
*
15319844 AAAAGAAGGGGGAGGAA
1 AAAAGAAGGGGAAGGAA
15319861 AGGAGAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (18 bp):
AAAAGAAGGGGAAGGAAG
Found at i:15322871 original size:27 final size:27
Alignment explanation
Indices: 15322833--15323176 Score: 285
Period size: 27 Copynumber: 12.8 Consensus size: 27
15322823 GCGTTTCGTG
15322833 GGTAAAATGACCGAAATACCCTCGAAA
1 GGTAAAATGACCGAAATACCCTCGAAA
15322860 GGTAAAATGACCGAAATACCCTC-AAA
1 GGTAAAATGACCGAAATACCCTCGAAA
*
15322886 GGGTAAAATGACCAAAATACCCTC-AAA
1 -GGTAAAATGACCGAAATACCCTCGAAA
* * * *
15322913 GAGTAAAATAATCAAAATACCCTC-AAG
1 G-GTAAAATGACCGAAATACCCTCGAAA
* *
15322940 GGTAAAATGACCAAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAA
** *
15322967 GGTAAAATGAATGAAATATCCC-CG-AT
1 GGTAAAATGACCGAAATA-CCCTCGAAA
*
15322993 GAGTAAAATGATCGAAATACCCTCG-AA
1 G-GTAAAATGACCGAAATACCCTCGAAA
* * *
15323020 GAGTAAAATGACTGAAATGCCCTC-AATG
1 G-GTAAAATGACCGAAATACCCTCGAA-A
** *
15323048 GGTAAAATGATTGAAATAACCTC-AAA
1 GGTAAAATGACCGAAATACCCTCGAAA
* **
15323074 GGGTAAAATGACCGCAATA-CCTCTGACG
1 -GGTAAAATGACCGAAATACCCTC-GAAA
* *
15323102 GGTAAAATGACCAAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAA
* ** * *
15323129 GGTAAAATAACTAAAATATCCT-AAAA
1 GGTAAAATGACCGAAATACCCTCGAAA
*
15323155 GGGTAATATGACCGAAATACCC
1 -GGTAAAATGACCGAAATACCC
15323177 CCATAGAGTA
Statistics
Matches: 265, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
26 35 0.13
27 221 0.83
28 9 0.03
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCGAAA
Found at i:15322895 original size:54 final size:54
Alignment explanation
Indices: 15322832--15323176 Score: 342
Period size: 54 Copynumber: 6.4 Consensus size: 54
15322822 TGCGTTTCGT
15322832 GGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCAAA
1 GGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCAAA
* * * *
15322886 GGGTAAAATGACCAAAATACCCTC-AAAGAGTAAAATAATCAAAATACCCTC-AA
1 GGGTAAAATGACCGAAATACCCTCGAAAG-GTAAAATGACCGAAATACCCTCAAA
* * ** * *
15322939 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAATGAAATATCCC-CGAT
1 GGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATA-CCCTCAAA
* * * * *
15322993 GAGTAAAATGATCGAAATACCCTCG-AAGAGTAAAATGACTGAAATGCCCTCAAT
1 GGGTAAAATGACCGAAATACCCTCGAAAG-GTAAAATGACCGAAATACCCTCAAA
** * * * *
15323047 GGGTAAAATGATTGAAATAACCTC-AAAGGGTAAAATGACCGCAATA-CCTCTGAC
1 GGGTAAAATGACCGAAATACCCTCGAAA-GGTAAAATGACCGAAATACCCTC-AAA
* * * ** * *
15323101 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAACTAAAATATCCTAAAA
1 GGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCAAA
*
15323155 GGGTAATATGACCGAAATACCC
1 GGGTAAAATGACCGAAATACCC
15323177 CCATAGAGTA
Statistics
Matches: 241, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
53 53 0.22
54 182 0.76
55 6 0.02
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCAAA
Found at i:15323056 original size:81 final size:81
Alignment explanation
Indices: 15322834--15323192 Score: 356
Period size: 81 Copynumber: 4.5 Consensus size: 81
15322824 CGTTTCGTGG
* * *
15322834 GTAAAATGACCGAAATACCCTCGAA-AGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGAC
1 GTAAAATGACCGAAATACCCTCGAAGA-GTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAA
*
15322898 CAAAATA-CCCTCAAAGA
65 TAAAATATCCC-CAAAGA
* * * *
15322915 GTAAAATAATCAAAATACCCTC-AAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAAT
1 GTAAAATGACCGAAATACCCTCGAAGAGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAAT
* * *
15322979 GAAATATCCCCGATGA
66 AAAATATCCCCAAAGA
* ** * *
15322995 GTAAAATGATCGAAATACCCTCGAAGAGTAAAATGACTGAAATGCCCTC-AATGGGTAAAATGAT
1 GTAAAATGACCGAAATACCCTCGAAGAGTAAAATGACCAAAATACCCTCGAA-GGGTAAAATGAA
* * * *
15323059 TGAAATAACCTCAAAGG
65 TAAAATATCCCCAAAGA
* * *
15323076 GTAAAATGACCGCAATA-CCTCTGACGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAAT-AA
1 GTAAAATGACCGAAATACCCTC-GAAGAGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAA
** *
15323139 CTAAAATATCCTAAAAGG
65 -TAAAATATCCCCAAAGA
* *
15323157 GTAATATGACCGAAATACCC-CCATAGAGT-AAATGAC
1 GTAAAATGACCGAAATACCCTCGA-AGAGTAAAATGAC
15323193 TATTATATAT
Statistics
Matches: 230, Mismatches: 39, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
80 80 0.35
81 146 0.63
82 4 0.02
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.18
Consensus pattern (81 bp):
GTAAAATGACCGAAATACCCTCGAAGAGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGAAT
AAAATATCCCCAAAGA
Found at i:15323530 original size:28 final size:28
Alignment explanation
Indices: 15323476--15323533 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
15323466 ACTACATTGT
*
15323476 ACTGATTACTGTATTGGACTAAGCCCAC
1 ACTGATTACTGTAATGGACTAAGCCCAC
*
15323504 ACTG-TTACTGTAATGGGCTAAGGCCCAC
1 ACTGATTACTGTAATGGACTAA-GCCCAC
15323532 AC
1 AC
15323534 CATACCGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (28 bp):
ACTGATTACTGTAATGGACTAAGCCCAC
Found at i:15330072 original size:27 final size:27
Alignment explanation
Indices: 15330034--15330314 Score: 325
Period size: 27 Copynumber: 10.4 Consensus size: 27
15330024 TGCAATTCGT
*
15330034 GGGTAAAATGACCGAAATACCGTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
15330061 GGGTAAAATGACCGAACTACCGTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
15330088 GGGTAAAATGATCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
** *
15330115 GGGTAAAATGATTGAAATACCCTAGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
15330142 GGGTAAAATGACCGAAATACCC-CTAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
15330168 TGGGTAAAATGACTGAAATACCCTCAAA
1 -GGGTAAAATGACCGAAATACCCTCGAA
* * *
15330196 AGGTAAAATGAACAAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
15330223 GGGTAAAATGACCGAAATACCCCCGAT
1 GGGTAAAATGACCGAAATACCCTCGAA
* * * *
15330250 GGTTAAAATGACCAAAATATCGTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
15330277 GGGTAAAATAACCAAAATACCC-CCATA
1 GGGTAAAATGACCGAAATACCCTCGA-A
15330304 GGGT-AAATGAC
1 GGGTAAAATGAC
15330315 TGTTATACCC
Statistics
Matches: 217, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.05
27 204 0.94
28 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:15330525 original size:26 final size:26
Alignment explanation
Indices: 15330483--15330555 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
15330473 CACATATAAT
* * *
15330483 GTTACTGGCAACCTTGCTGCGTTAGC
1 GTTACTGGCAGCTTTGCTGCGTCAGC
* **
15330509 GTTACTGGCAGCTTTGCTACGTCATT
1 GTTACTGGCAGCTTTGCTGCGTCAGC
* *
15330535 ATTACTGACAGCTTTGCTGCG
1 GTTACTGGCAGCTTTGCTGCG
15330556 ATATTGGTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTGCGTCAGC
Found at i:15333220 original size:21 final size:21
Alignment explanation
Indices: 15333196--15333237 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15333186 TTCATTCAAT
15333196 TTATTAATTTAGATAGTAAAA
1 TTATTAATTTAGATAGTAAAA
15333217 TTATTAATTTAGATAGTAAAA
1 TTATTAATTTAGATAGTAAAA
15333238 AAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TTATTAATTTAGATAGTAAAA
Found at i:15333249 original size:22 final size:21
Alignment explanation
Indices: 15333198--15333247 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
15333188 CATTCAATTT
**
15333198 ATTAATTTAGATAGTAAAATT
1 ATTAATTTAGATAGTAAAAAA
15333219 ATTAATTTAGATAGTAAAAAA
1 ATTAATTTAGATAGTAAAAAA
*
15333240 ATTTATTT
1 ATTAATTT
15333248 TAAGCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
ATTAATTTAGATAGTAAAAAA
Found at i:15334575 original size:21 final size:21
Alignment explanation
Indices: 15334546--15334585 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15334536 CAATCGATTT
*
15334546 AAATTAGTTACAATCAATTCA
1 AAATCAGTTACAATCAATTCA
15334567 AAATCAGTTACAATCAATT
1 AAATCAGTTACAATCAATT
15334586 TAAGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATCAGTTACAATCAATTCA
Found at i:15334618 original size:20 final size:21
Alignment explanation
Indices: 15334534--15334613 Score: 76
Period size: 20 Copynumber: 3.9 Consensus size: 21
15334524 TCAAATGTGC
*
15334534 TACAATCGATTTAAAT-TAGT
1 TACAATCAATTTAAATCTAGT
*
15334554 TACAATCAATTCAAAATC-AGT
1 TACAATCAATT-TAAATCTAGT
* *
15334575 TACAATCAATTTAAGTTTA-T
1 TACAATCAATTTAAATCTAGT
* *
15334595 TTCAATCGATTTAAATCTA
1 TACAATCAATTTAAATCTA
15334614 TTTCATATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 29 0.60
21 19 0.40
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (21 bp):
TACAATCAATTTAAATCTAGT
Found at i:15349735 original size:74 final size:69
Alignment explanation
Indices: 15349606--15349772 Score: 160
Period size: 74 Copynumber: 2.3 Consensus size: 69
15349596 GTGGTGGATG
** * * * *
15349606 AATATAACTTTTTGTATGCCATAG-AGGGTTGTCACTTTTTGCATGTCTTAATGGGT-TGGGTCC
1 AATATAACTTTTTGTATGTAATTGCA-AGTTGTCACTTTTTGCATATCGTAATGGGTGT-GGT--
15349669 AGTGGTGAACT
62 --T-GTGAACT
* *
15349680 AATATCACTTTTTGTATGTAATTGCAAGTTGTCACTTTTTGTATAT-GTAATTGGGTGTGGTTGT
1 AATATAACTTTTTGTATGTAATTGCAAGTTGTCACTTTTTGCATATCGTAA-TGGGTGTGGTTGT
*
15349744 GAAGT
65 GAACT
15349749 AATATAACTTTTTGTATGTAATTG
1 AATATAACTTTTTGTATGTAATTG
15349773 TAGGTTGATA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
69 29 0.36
70 1 0.01
73 3 0.04
74 45 0.56
75 2 0.03
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.44
Consensus pattern (69 bp):
AATATAACTTTTTGTATGTAATTGCAAGTTGTCACTTTTTGCATATCGTAATGGGTGTGGTTGTG
AACT
Found at i:15361183 original size:25 final size:25
Alignment explanation
Indices: 15361155--15361227 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
15361145 ATAAACTCGA
15361155 GAATTCTCTAGAAAGCCTTTGTGGT
1 GAATTCTCTAGAAAGCCTTTGTGGT
* * * *
15361180 GAATTTTTTGGAAAGCCATTGTGGT
1 GAATTCTCTAGAAAGCCTTTGTGGT
* *
15361205 GACTTCTCTAGAAAACCTTTGTG
1 GAATTCTCTAGAAAGCCTTTGTG
15361228 AGGAATTATC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (25 bp):
GAATTCTCTAGAAAGCCTTTGTGGT
Found at i:15375426 original size:27 final size:27
Alignment explanation
Indices: 15375396--15375447 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
15375386 TCAACATGTA
*
15375396 ACCATGTACTCAATTTGGCCAAATAAT
1 ACCATGTACTCAATTTAGCCAAATAAT
15375423 ACCATGTACTCAATTTAGCCAAATA
1 ACCATGTACTCAATTTAGCCAAATA
15375448 CTAATCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
ACCATGTACTCAATTTAGCCAAATAAT
Found at i:15376145 original size:39 final size:39
Alignment explanation
Indices: 15376091--15376270 Score: 200
Period size: 39 Copynumber: 4.6 Consensus size: 39
15376081 ATGTAACCAT
* * * *
15376091 GGCACGAAAGTGCTATCAAGAGTACCGAAGTACAATAGG
1 GGCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGG
* * *
15376130 GGCACGTAAGTGCTATCAGGGGTACCAAAGTATAACATG
1 GGCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGG
*** * * *
15376169 AAAACGTAAGTGCGATCAGGGGTACCGAAGTACGATAGG
1 GGCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGG
* *
15376208 GGCACGTAAGTG-TGATCAGGGGTACCGAAGTACGACAAG
1 GGCACGTAAGTGCT-ATCAGGGGTACCGAAGTACAACAGG
*
15376247 GGCACGTAAGTGCAATCAGGGGTA
1 GGCACGTAAGTGCTATCAGGGGTA
15376271 TAATTATACA
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (39 bp):
GGCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGG
Found at i:15376218 original size:19 final size:20
Alignment explanation
Indices: 15376172--15376268 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
15376162 TAACATGAAA
* *
15376172 ACGTAAGTGCGATCAGGGGT
1 ACGTAAGTACGATCAGGGGC
15376192 ACCG-AAGTACGAT-AGGGGC
1 A-CGTAAGTACGATCAGGGGC
** *
15376211 ACGTAAGTGTGATCAGGGGT
1 ACGTAAGTACGATCAGGGGC
*
15376231 ACCG-AAGTACGA-CAAGGGC
1 A-CGTAAGTACGATCAGGGGC
* *
15376250 ACGTAAGTGCAATCAGGGG
1 ACGTAAGTACGATCAGGGG
15376269 TATAATTATA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
18 4 0.07
19 25 0.42
20 26 0.44
21 4 0.07
ACGTcount: A:0.30, C:0.18, G:0.37, T:0.15
Consensus pattern (20 bp):
ACGTAAGTACGATCAGGGGC
Found at i:15376248 original size:20 final size:19
Alignment explanation
Indices: 15376185--15376244 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
15376175 TAAGTGCGAT
15376185 CAGGGGTACCGAAGTACGA
1 CAGGGGTACCGAAGTACGA
* * **
15376204 TAGGGGCA-CGTAAGTGTGA
1 CAGGGGTACCG-AAGTACGA
15376223 TCAGGGGTACCGAAGTACGA
1 -CAGGGGTACCGAAGTACGA
15376243 CA
1 CA
15376245 AGGGCACGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 12 0.40
21 2 0.07
ACGTcount: A:0.30, C:0.18, G:0.37, T:0.15
Consensus pattern (19 bp):
CAGGGGTACCGAAGTACGA
Found at i:15376254 original size:78 final size:78
Alignment explanation
Indices: 15376091--15376270 Score: 227
Period size: 78 Copynumber: 2.3 Consensus size: 78
15376081 ATGTAACCAT
* * * *
15376091 GGCACGAAAGTGCTATCAAGAGTACCGAAGTACAATAGGGGCACGTAAGTGCTATCAGGGGTACC
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCTATCAGGGGTACC
* *
15376156 AAAGTATAACATG
66 AAAGTACAACAAG
*** * *
15376169 AAAACGTAAGTGCGATCAGGGGTACCGAAGTACGATAGGGGCACGTAAGTG-TGATCAGGGGTAC
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCT-ATCAGGGGTAC
* *
15376233 CGAAGTACGACAAG
65 CAAAGTACAACAAG
15376247 GGCACGTAAGTGCAATCAGGGGTA
1 GGCACGTAAGTGCAATCAGGGGTA
15376271 TAATTATACA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 84 0.99
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (78 bp):
GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCTATCAGGGGTACC
AAAGTACAACAAG
Found at i:15388124 original size:29 final size:29
Alignment explanation
Indices: 15388092--15388147 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
15388082 TGGTTATCTC
15388092 TAAAAGGAAGCCTTTGCGGCGATCTCTTT
1 TAAAAGGAAGCCTTTGCGGCGATCTCTTT
* *
15388121 TAAAAGGAAGCCTTTGTGGTGATCTCT
1 TAAAAGGAAGCCTTTGCGGCGATCTCT
15388148 GTTATATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGCGGCGATCTCTTT
Found at i:15388159 original size:29 final size:28
Alignment explanation
Indices: 15388098--15388200 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
15388088 TCTCTAAAAG
* * * *
15388098 GAAGCCTTTGCGGCGATCTCTTTTAAAA
1 GAAGCCTTTGTGGTGATCTCTGTTATAA
15388126 GGAAGCCTTTGTGGTGATCTCTGTTATATA
1 -GAAGCCTTTGTGGTGATCTCTGTTATA-A
* * * *
15388156 GAAGCCCTTGTGATGATCTTTGTTATGAG
1 GAAGCCTTTGTGGTGATCTCTGTTAT-AA
*
15388185 GAAGCCATTGTGGTGA
1 GAAGCCTTTGTGGTGA
15388201 CCTGATCAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 60 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (28 bp):
GAAGCCTTTGTGGTGATCTCTGTTATAA
Found at i:15389295 original size:66 final size:66
Alignment explanation
Indices: 15389175--15389300 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
15389165 TTATTATCCG
*
15389175 GACAGCTGTCAGGTGCAGCGACAATTCTGAACGCAATCTAAAATTAACCTATGCAGCGACGTTGC
1 GACAGCTGTCAGGTGCAGCGACAATTCTGAACGCAATCTAAAATTAACCTATGCAACGACGTTGC
15389240 A
66 A
* * * * * * **
15389241 GACATCTGTCATGTGCTGTGACAATTCTGAACGTAATTTGGAATTAA-CTCATGCAACGAC
1 GACAGCTGTCAGGTGCAGCGACAATTCTGAACGCAATCTAAAATTAACCT-ATGCAACGAC
15389301 ATTAATGCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 2 0.04
66 48 0.96
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (66 bp):
GACAGCTGTCAGGTGCAGCGACAATTCTGAACGCAATCTAAAATTAACCTATGCAACGACGTTGC
A
Found at i:15390786 original size:18 final size:18
Alignment explanation
Indices: 15390765--15390813 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15390755 TCATTTTTAG
15390765 CAACTTTTTCTTCAGCAA
1 CAACTTTTTCTTCAGCAA
* * *
15390783 CAACTTTCTCTCCTGCAA
1 CAACTTTTTCTTCAGCAA
*
15390801 CAACTTCTTCTTC
1 CAACTTTTTCTTC
15390814 TACAGCATCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (18 bp):
CAACTTTTTCTTCAGCAA
Found at i:15404011 original size:46 final size:46
Alignment explanation
Indices: 15403895--15404063 Score: 232
Period size: 46 Copynumber: 3.7 Consensus size: 46
15403885 GATCGGAGGG
* * * *
15403895 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTTTCCA-CTTGC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGT
15403940 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGT
** * *
15403986 TGCCATAGTGTCTTTCAACTGTGGTCTTATCCATTTTCCGTCATGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGT
* * *
15404032 TGCCATAGCGTCTTTCAACTATGGTATTATTC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTC
15404064 GTTTGATTTG
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
45 38 0.34
46 73 0.66
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGT
Found at i:15404084 original size:91 final size:91
Alignment explanation
Indices: 15403895--15404067 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 91
15403885 GATCGGAGGG
* * ** * *
15403895 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTTTCCACTTGCTGCCATAGTGTCTTTCAACC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATCCATTTTCCACATGCTGCCATAGCGTCTTTCAACC
* *
15403960 ATGGTCTTATTCATTTTCCATCATGT
66 ATGGTATTATTCAGTTTCCATCATGT
* * *
15403986 TGCCATAGTGTCTTTCAACTGTGGTCTTATCCATTTTCCGTCATGTTGCCATAGCGTCTTTCAAC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATCCATTTTCC-ACATGCTGCCATAGCGTCTTTCAAC
*
15404051 TATGGTATTATTC-GTTT
65 CATGGTATTATTCAGTTT
15404068 GATTTGTGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 37 0.54
92 32 0.46
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (91 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATCCATTTTCCACATGCTGCCATAGCGTCTTTCAACC
ATGGTATTATTCAGTTTCCATCATGT
Found at i:15404120 original size:45 final size:45
Alignment explanation
Indices: 15404032--15404199 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 45
15404022 TCCGTCATGT
* * * * * * *
15404032 TGCCATAGCGTCTTTCAACTATGGTATTATTCGTTTGATTTGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGA
* * *
15404077 TGCCATAGCCTCTTTCAGCTATGGTCTTACTCGATAAAATTGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGA
* * *
15404122 TTCCATAACGTCTTTCAGTTATGGTCTTACTCGATAGAATCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGA
* * *
15404167 TGCAATAACGTCTTTCAGTTATGGCCTTACTCG
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCG
15404200 TTTCTAGACT
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 106 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGA
Found at i:15405684 original size:56 final size:56
Alignment explanation
Indices: 15405624--15405901 Score: 244
Period size: 56 Copynumber: 4.9 Consensus size: 56
15405614 TTTAAGGATG
* * * *
15405624 CCTTTGTGGCAAAACTGTAGAAAGGTAAGCC-TTGTGGAAAACCTATTAACATACAA
1 CCTTTGTGGCAAAAATATGGAAAGGTAAGCCTTTGTGGAAAACCTATTAA-AGACAA
*
15405680 CCTTTGTGG-AAAAATAATGGAAAGGTAAGCC-TTGTGGAAAACCTATTAACATACAA
1 CCTTTGTGGCAAAAAT-ATGGAAAGGTAAGCCTTTGTGGAAAACCTATTAA-AGACAA
** * * *
15405736 CCTTTGTGG-AAAAATAATGGAAAGGTAAGCCTTTGTGGCGAACTTTGTTAAAGGC-A
1 CCTTTGTGGCAAAAAT-ATGGAAAGGTAAGCCTTTGTGGAAAAC-CTATTAAAGACAA
* * * * * *
15405792 CCTTTTGTGGCAAAACTTTGGAAACGG-AAACCTTTGTGGTAAACCTGTTAAAGGAAAA
1 CC-TTTGTGGCAAAAATATGGAAA-GGTAAGCCTTTGTGGAAAACCTATTAAA-GACAA
* * * ** *
15405850 CCTTTGTGGCAAAAATCTAGAATGGTAAGCCTTTGTGGCGAACCTTTTAAAG
1 CCTTTGTGGCAAAAATATGGAAAGGTAAGCCTTTGTGGAAAACCTATTAAAG
15405902 GATGCCTTTG
Statistics
Matches: 188, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.03
56 91 0.48
57 77 0.41
58 15 0.08
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (56 bp):
CCTTTGTGGCAAAAATATGGAAAGGTAAGCCTTTGTGGAAAACCTATTAAAGACAA
Found at i:15405686 original size:28 final size:28
Alignment explanation
Indices: 15405655--15405748 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
15405645 AAGGTAAGCC
15405655 TTGTGGAAAACCTATTAACATACAACCT
1 TTGTGGAAAACCTATTAACATACAACCT
* * *
15405683 TTGTGGAAAA-ATAATGGAA-AGGTA-AGCC-
1 TTGTGGAAAACCT-AT-TAACA--TACAACCT
15405711 TTGTGGAAAACCTATTAACATACAACCT
1 TTGTGGAAAACCTATTAACATACAACCT
15405739 TTGTGGAAAA
1 TTGTGGAAAA
15405749 ATAATGGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
26 2 0.04
27 6 0.12
28 36 0.69
29 6 0.12
30 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (28 bp):
TTGTGGAAAACCTATTAACATACAACCT
Found at i:15405769 original size:29 final size:29
Alignment explanation
Indices: 15405680--15405773 Score: 99
Period size: 28 Copynumber: 3.3 Consensus size: 29
15405670 TAACATACAA
15405680 CCTTTGTGGAAAAATAATGGAAAGGTAAG
1 CCTTTGTGGAAAAATAATGGAAAGGTAAG
* * *
15405709 CC-TTGTGGAAAACCT-AT-TAACA--TACAA
1 CCTTTGTGGAAAA-ATAATGGAA-AGGTA-AG
15405736 CCTTTGTGGAAAAATAATGGAAAGGTAAG
1 CCTTTGTGGAAAAATAATGGAAAGGTAAG
15405765 CCTTTGTGG
1 CCTTTGTGG
15405774 CGAACTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
26 2 0.04
27 6 0.12
28 26 0.51
29 15 0.29
30 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (29 bp):
CCTTTGTGGAAAAATAATGGAAAGGTAAG
Found at i:15405788 original size:29 final size:28
Alignment explanation
Indices: 15405756--15405940 Score: 87
Period size: 27 Copynumber: 6.6 Consensus size: 28
15405746 AAAATAATGG
*
15405756 AAAGGTAAGCCTTTGTGGCGAACTTTGTT
1 AAAGG-AAGCCTTTGTGGCAAACTTTGTT
* *
15405785 AAAGGCA-CCTTTTGTGGCAAAACTTTG-G
1 AAAGGAAGCC-TTTGTGGC-AAACTTTGTT
* * *
15405813 AAACGGAAACCTTTGTGGTAAAC-CTGTT
1 AAA-GGAAGCCTTTGTGGCAAACTTTGTT
* * *
15405841 AAAGGAAAACCTTTGTGGCAAAAATCTAG--
1 AAAGG-AAGCCTTTGTGGC-AAACT-TTGTT
* * *
15405870 AATGGTAAGCCTTTGTGGCGAACCTT-TT
1 AAAGG-AAGCCTTTGTGGCAAACTTTGTT
* ** * *
15405898 AAAGGATGCCTTTGTGGTGAACCTT-CT
1 AAAGGAAGCCTTTGTGGCAAACTTTGTT
*
15405925 AAAGGACGCCTTTGTG
1 AAAGGAAGCCTTTGTG
15405941 CCGAGACGCT
Statistics
Matches: 122, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
27 41 0.34
28 37 0.30
29 41 0.34
30 2 0.02
31 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCAAACTTTGTT
Found at i:15405814 original size:57 final size:56
Alignment explanation
Indices: 15405596--15405914 Score: 190
Period size: 56 Copynumber: 5.6 Consensus size: 56
15405586 AGAGGAAAGT
* ** * * *
15405596 CCTTTGTGG-GAATCTCTGTTTAAGGATGCCTTTGTGGCAAAACTGTAGAAAGGTAAG
1 CCTTTGTGGCGAA-CT-TGTTAAAGGAAACCTTTGTGGCAAAAATCTGGAAAGGTAAG
** * * * *
15405653 CC-TTGTGGAAAACCTATTAACA-TACAACCTTTGTGG-AAAAATAATGGAAAGGTAAG
1 CCTTTGTGGCGAACTTGTTAA-AGGA-AACCTTTGTGGCAAAAAT-CTGGAAAGGTAAG
** * * * *
15405709 CC-TTGTGGAAAACCTATTAACA-TACAACCTTTGTGG-AAAAATAATGGAAAGGTAAG
1 CCTTTGTGGCGAACTTGTTAA-AGGA-AACCTTTGTGGCAAAAAT-CTGGAAAGGTAAG
* * * *
15405765 CCTTTGTGGCGAACTTTGTTAAAGG-CACCTTTTGTGGCAAAACTTTGGAAACGG-AAA
1 CCTTTGTGGCGAAC-TTGTTAAAGGAAACC-TTTGTGGCAAAAATCTGGAAA-GGTAAG
** * * *
15405822 CCTTTGTGGTAAACCTGTTAAAGGAAAACCTTTGTGGCAAAAATCTAGAATGGTAAG
1 CCTTTGTGGCGAACTTGTTAAAGG-AAACCTTTGTGGCAAAAATCTGGAAAGGTAAG
**
15405879 CCTTTGTGGCGAACCTT-TTAAAGGATGCCTTTGTGG
1 CCTTTGTGGCGAA-CTTGTTAAAGGAAACCTTTGTGG
15405915 TGAACCTTCT
Statistics
Matches: 215, Mismatches: 33, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
55 10 0.05
56 110 0.51
57 78 0.36
58 17 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (56 bp):
CCTTTGTGGCGAACTTGTTAAAGGAAACCTTTGTGGCAAAAATCTGGAAAGGTAAG
Found at i:15405914 original size:27 final size:27
Alignment explanation
Indices: 15405878--15405940 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
15405868 AGAATGGTAA
* *
15405878 GCCTTTGTGGCGAACCTTTTAAAGGAT
1 GCCTTTGTGGCGAACCTTCTAAAGGAC
*
15405905 GCCTTTGTGGTGAACCTTCTAAAGGAC
1 GCCTTTGTGGCGAACCTTCTAAAGGAC
15405932 GCCTTTGTG
1 GCCTTTGTG
15405941 CCGAGACGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCGAACCTTCTAAAGGAC
Found at i:15406835 original size:36 final size:36
Alignment explanation
Indices: 15406788--15406858 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
15406778 ACACACGGCC
15406788 GTGTCGCAGCCCGCGCCCCAGGCCGTGTGATAGCCT
1 GTGTCGCAGCCCGCGCCCCAGGCCGTGTGATAGCCT
*
15406824 GTGTCGCAGCCCGTGCCCCAGGCCGTGTGATAGCC
1 GTGTCGCAGCCCGCGCCCCAGGCCGTGTGATAGCC
15406859 CGTGCCCTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.11, C:0.38, G:0.34, T:0.17
Consensus pattern (36 bp):
GTGTCGCAGCCCGCGCCCCAGGCCGTGTGATAGCCT
Found at i:15406876 original size:24 final size:24
Alignment explanation
Indices: 15406831--15406876 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15406821 CCTGTGTCGC
*
15406831 AGCCCGTGCCCCAGGCCGTGTGAT
1 AGCCCGTGCCCCAGGCAGTGTGAT
* *
15406855 AGCCCGTGCCCTAGGCATTGTG
1 AGCCCGTGCCCCAGGCAGTGTG
15406877 CTCCATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.35, G:0.33, T:0.20
Consensus pattern (24 bp):
AGCCCGTGCCCCAGGCAGTGTGAT
Found at i:15410978 original size:39 final size:38
Alignment explanation
Indices: 15410935--15411053 Score: 104
Period size: 39 Copynumber: 3.1 Consensus size: 38
15410925 ACATGCCAAT
15410935 ATAACCTTGAAAACAAGCACATCAAGTAACCAAAATCAC
1 ATAACCTTGAAAA-AAGCACATCAAGTAACCAAAATCAC
** * * * *
15410974 ATAA-CTTG-GTAAGGCATCA-AAATGT-ACC-AAACCAAT
1 ATAACCTTGAAAAAAGCA-CATCAA-GTAACCAAAATC-AC
15411010 ATAACCTTGAAAATAAGCACATCAAGTAACCAAAATCAC
1 ATAACCTTGAAAA-AAGCACATCAAGTAACCAAAATCAC
15411049 ATAAC
1 ATAAC
15411054 TTGGTAAGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 18
0.66 0.13 0.20
Matches are distributed among these distances:
35 4 0.07
36 14 0.24
37 9 0.15
38 9 0.15
39 19 0.32
40 4 0.07
ACGTcount: A:0.50, C:0.23, G:0.09, T:0.18
Consensus pattern (38 bp):
ATAACCTTGAAAAAAGCACATCAAGTAACCAAAATCAC
Found at i:15410992 original size:34 final size:34
Alignment explanation
Indices: 15410954--15411068 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 34
15410944 AAAACAAGCA
15410954 CATCAAGTAACCAAAATCACATAACTTGGTAAGG
1 CATCAAGTAACCAAAATCACATAACTTGGTAAGG
* * * *
15410988 CATCAAAATGT-ACC-AAACCAATATAACCTTGAAAATAAGCA
1 CATC--AA-GTAACCAAAATC-ACATAA-CTTG---GTAAG-G
15411029 CATCAAGTAACCAAAATCACATAACTTGGTAAGG
1 CATCAAGTAACCAAAATCACATAACTTGGTAAGG
15411063 CATCAA
1 CATCAA
15411069 AATGTACCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
34 10 0.16
35 8 0.13
36 10 0.16
37 6 0.10
38 6 0.10
39 10 0.16
40 8 0.13
41 4 0.06
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (34 bp):
CATCAAGTAACCAAAATCACATAACTTGGTAAGG
Found at i:15411004 original size:36 final size:36
Alignment explanation
Indices: 15410963--15411079 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 36
15410953 ACATCAAGTA
15410963 ACCAAAATCACATAACTTGGTAAGGCATCAAAATGT
1 ACCAAAATCACATAACTTGGTAAGGCATCAAAATGT
* * * *
15410999 ACC-AAACCAATATAACCTTGAAAATAA-GCA-CATCAA-GT
1 ACCAAAATC-ACATAA-CTTG---GTAAGGCATCA-AAATGT
15411037 AACCAAAATCACATAACTTGGTAAGGCATCAAAATGT
1 -ACCAAAATCACATAACTTGGTAAGGCATCAAAATGT
15411074 ACCAAA
1 ACCAAA
15411080 CCAATCTAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
35 7 0.11
36 19 0.31
37 8 0.13
38 8 0.13
39 13 0.21
40 7 0.11
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (36 bp):
ACCAAAATCACATAACTTGGTAAGGCATCAAAATGT
Found at i:15411019 original size:75 final size:75
Alignment explanation
Indices: 15410930--15411084 Score: 301
Period size: 75 Copynumber: 2.1 Consensus size: 75
15410920 TATCAACATG
15410930 CCAATATAACCTTGAAAACAAGCACATCAAGTAACCAAAATCACATAACTTGGTAAGGCATCAAA
1 CCAATATAACCTTGAAAACAAGCACATCAAGTAACCAAAATCACATAACTTGGTAAGGCATCAAA
15410995 ATGTACCAAA
66 ATGTACCAAA
*
15411005 CCAATATAACCTTGAAAATAAGCACATCAAGTAACCAAAATCACATAACTTGGTAAGGCATCAAA
1 CCAATATAACCTTGAAAACAAGCACATCAAGTAACCAAAATCACATAACTTGGTAAGGCATCAAA
15411070 ATGTACCAAA
66 ATGTACCAAA
15411080 CCAAT
1 CCAAT
15411085 CTAGCTTTCC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (75 bp):
CCAATATAACCTTGAAAACAAGCACATCAAGTAACCAAAATCACATAACTTGGTAAGGCATCAAA
ATGTACCAAA
Found at i:15418013 original size:61 final size:60
Alignment explanation
Indices: 15417870--15418046 Score: 183
Period size: 61 Copynumber: 2.9 Consensus size: 60
15417860 GTGTGAGTCT
* * * * **
15417870 AGGAAAGCCTTTGTGCATAGTCATGGATGTAAAGGAAAACCTTCATGGAAAAAATCTAGAC
1 AGGAAAGCCTTTGTGC-GAGTAATGGATGTAAAGGAAAACCTTTATGGCAAATCTCTAGAC
* * * * *
15417931 AGGAAAGCCTTTGTGGTGAGTAATGGATGTAAAGCACAACCTTTGTGGCAAATCTCTGGAC
1 AGGAAAGCCTTTGT-GCGAGTAATGGATGTAAAGGAAAACCTTTATGGCAAATCTCTAGAC
* * * * *
15417992 AGGAAAGCCTATGTAGCGAGTACTAGATGTAAAGGATAGCCTTTATGGCAAATCT
1 AGGAAAGCCTTTGT-GCGAGTAATGGATGTAAAGGAAAACCTTTATGGCAAATCT
15418047 TTAAAATGAA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 94 0.99
62 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (60 bp):
AGGAAAGCCTTTGTGCGAGTAATGGATGTAAAGGAAAACCTTTATGGCAAATCTCTAGAC
Found at i:15434090 original size:47 final size:47
Alignment explanation
Indices: 15434024--15434180 Score: 233
Period size: 47 Copynumber: 3.3 Consensus size: 47
15434014 ATAATAATGT
* *
15434024 AGATAAACTGCCACGTAATAATATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* *
15434071 ATATAAACTACCACTTAATAAAATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* * **
15434118 AGATAAACTACCACTTTATAATATTGTGGACAAGCCAACACTTTTAT
1 AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
*
15434165 AGATAAACTATCACTT
1 AGATAAACTACCACTT
15434181 CTTCCTCCTT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (47 bp):
AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
Found at i:15435271 original size:17 final size:17
Alignment explanation
Indices: 15435234--15435275 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15435224 TCACTCACTT
15435234 AAAAGAGAATAAATAAG
1 AAAAGAGAATAAATAAG
*
15435251 AAAAGGGAA-AAATAAG
1 AAAAGAGAATAAATAAG
15435267 AAAAAGAGA
1 -AAAAGAGA
15435276 GGAGTTGCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (17 bp):
AAAAGAGAATAAATAAG
Found at i:15442170 original size:15 final size:15
Alignment explanation
Indices: 15442152--15442203 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
15442142 TACTAAAAAC
15442152 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
15442167 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
15442186 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
15442201 ATT
1 ATT
15442204 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:15442262 original size:15 final size:16
Alignment explanation
Indices: 15442242--15442272 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15442232 AGAATATTTA
15442242 TTTAAAATTT-TTATT
1 TTTAAAATTTATTATT
15442257 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
15442273 AAAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:15447630 original size:12 final size:12
Alignment explanation
Indices: 15447613--15447637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15447603 ATCGTAAAGA
15447613 ATTGATAAATTG
1 ATTGATAAATTG
15447625 ATTGATAAATTG
1 ATTGATAAATTG
15447637 A
1 A
15447638 ATATGATGAA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTGATAAATTG
Found at i:15452306 original size:21 final size:19
Alignment explanation
Indices: 15452280--15452327 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
15452270 AGTTGCTTCC
15452280 TTTGAATCAATTGTCTTTTT
1 TTTGAATCAATTGT-TTTTT
*
15452300 GTTTGAATCGATTGTTTTTT
1 -TTTGAATCAATTGTTTTTT
15452320 TTTAGAAT
1 TTT-GAAT
15452328 TGATTCCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 9 0.36
21 13 0.52
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (19 bp):
TTTGAATCAATTGTTTTTT
Found at i:15452327 original size:20 final size:21
Alignment explanation
Indices: 15452280--15452332 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
15452270 AGTTGCTTCC
*
15452280 TTTGAATCAATTGTCTTTTTG
1 TTTGAATCGATTGTCTTTTTG
15452301 TTTGAATCGATTGT-TTTTT-
1 TTTGAATCGATTGTCTTTTTG
*
15452320 TTTAGAATTGATT
1 TTT-GAATCGATT
15452333 CCTTATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 13 0.45
21 13 0.45
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (21 bp):
TTTGAATCGATTGTCTTTTTG
Found at i:15452368 original size:101 final size:102
Alignment explanation
Indices: 15452181--15452422 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 102
15452171 AATGATGGTA
* * *
15452181 GAATCAATTGTGTTTATATTTAAA-CAGATCGTTTTTCTATTAGAATCGATTCATTATTGTTATT
1 GAATCAATTGTCTTTCTATTTAAATC-GATTGTTTTTCTATTAGAATCGATTCATTATTGTTATT
* *
15452245 GATGTATTTGTGGAAAATGTTGGAAAGTTGCTTCCTTT
65 GATGTATTTGTAGAAAATGTTGGAAAATTGCTTCCTTT
* * * * * *
15452283 GAATCAATTGTCTTTTTGTTTGAATCGATTGTTTTT-TTTTAGAATTGATTCCTTATTGTTATTG
1 GAATCAATTGTCTTTCTATTTAAATCGATTGTTTTTCTATTAGAATCGATTCATTATTGTTATTG
* *
15452347 ATGTATTTGTAG-AAATGGTTGGAAAATTGTTTCTTTT
66 ATGTATTTGTAGAAAAT-GTTGGAAAATTGCTTCCTTT
** *
15452384 GAATTGATTGTCTTTCTATTTAAATCGATTGTCTTTCTA
1 GAATCAATTGTCTTTCTATTTAAATCGATTGTTTTTCTA
15452423 GTTGAATTGA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 4 0.03
101 83 0.70
102 30 0.25
103 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (102 bp):
GAATCAATTGTCTTTCTATTTAAATCGATTGTTTTTCTATTAGAATCGATTCATTATTGTTATTG
ATGTATTTGTAGAAAATGTTGGAAAATTGCTTCCTTT
Found at i:15452414 original size:21 final size:21
Alignment explanation
Indices: 15452376--15452422 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
15452366 TGGAAAATTG
* *
15452376 TTTCT-TTTGAATTGATTGTC
1 TTTCTATTTAAATCGATTGTC
15452396 TTTCTATTTAAATCGATTGTC
1 TTTCTATTTAAATCGATTGTC
15452417 TTTCTA
1 TTTCTA
15452423 GTTGAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTCTATTTAAATCGATTGTC
Found at i:15453283 original size:26 final size:25
Alignment explanation
Indices: 15453255--15453328 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
15453245 CAAATCCCTA
*
15453255 TTTAGCCCTTAGTAAAATTTTGATGAT
1 TTTA-CCC-TAGTAAAATTTTGATAAT
*
15453282 TTTACCCTCGATAAAATTTTGATAAT
1 TTTACCCTAG-TAAAATTTTGATAAT
*
15453308 TTTACCCTGGTAAAATTTTGA
1 TTTACCCTAGTAAAATTTTGA
15453329 GAAAATATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 13 0.30
26 26 0.60
27 4 0.09
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
TTTACCCTAGTAAAATTTTGATAAT
Found at i:15453327 original size:25 final size:26
Alignment explanation
Indices: 15453266--15453328 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
15453256 TTAGCCCTTA
*
15453266 GTAAAATTTTGATGATTTTACCCTCG
1 GTAAAATTTTGATAATTTTACCCTCG
*
15453292 ATAAAATTTTGATAATTTTACCCT-G
1 GTAAAATTTTGATAATTTTACCCTCG
15453317 GTAAAATTTTGA
1 GTAAAATTTTGA
15453329 GAAAATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 12 0.35
26 22 0.65
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
GTAAAATTTTGATAATTTTACCCTCG
Found at i:15464389 original size:6 final size:6
Alignment explanation
Indices: 15464380--15464428 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
15464370 ATGAGCTCAA
** *
15464380 AAAATC AAAAATC AAAAATC AAAATC AAAATC AAGGTC AAAATG AAAAT
1 AAAATC -AAAATC -AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
15464429 GAGAGAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 24 0.65
7 13 0.35
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:15464391 original size:7 final size:7
Alignment explanation
Indices: 15464379--15464413 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
15464369 TATGAGCTCA
15464379 AAAAATC
1 AAAAATC
15464386 AAAAATC
1 AAAAATC
15464393 AAAAATC
1 AAAAATC
15464400 -AAAATC
1 AAAAATC
15464406 -AAAATC
1 AAAAATC
15464412 AA
1 AA
15464414 GGTCAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATC
Found at i:15464398 original size:14 final size:14
Alignment explanation
Indices: 15464379--15464413 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
15464369 TATGAGCTCA
15464379 AAAAATCAAAAATC
1 AAAAATCAAAAATC
15464393 AAAAATC-AAAATC
1 AAAAATCAAAAATC
15464406 -AAAATCAA
1 AAAAATCAA
15464414 GGTCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 7 0.35
14 7 0.35
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAATCAAAAATC
Found at i:15465353 original size:13 final size:13
Alignment explanation
Indices: 15465335--15465370 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15465325 AGAAAAAGAT
15465335 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15465348 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15465361 A-GTAAAAATG
1 ATG-AAAAATG
15465371 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 1 0.05
13 21 0.95
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:15467061 original size:132 final size:132
Alignment explanation
Indices: 15466627--15467126 Score: 690
Period size: 131 Copynumber: 3.8 Consensus size: 132
15466617 TCGGTGAAAT
*
15466627 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAAATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * ** *
15466692 CAGTAGCGGAGTAGATCGAAGACGGAAAATCTTATCTTCCCT-AGGAGTAGGGAAACAAATTTAA
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTCAGGAGTAGGGAAACAGATTTAA
15466756 G-
131 GC
* * * *
15466757 C-CAAGTTTCTTATGTCCCTGGTCAGCAATGGAGTAGGTTGAAAATTATAGATCTTGTCTCCCTA
1 CACAAG--TCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTA
* * *
15466821 AGCAGTAGCGGAGCAAATCGAAGACGGCGAATCTTATCTTCCC-CAAGAGTAGGGAAACAGATTT
64 AGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTCAGGAGTAGGGAAACAGATTT
15466885 AAGC
129 AAGC
* * *
15466889 CACAAGTCCTATGTCCCTAGTCAGCAGTGGAGTAGATTGGAAATTACAGATCTTGTCTCCCTAAT
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
15466954 CAATAGTGGAGCAGATCGAAGACGGCGGATCTTATCTTCCCTCAGGAGTATGGAAACAGATTTAA
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTCAGGAGTAGGGAAACAGATTTAA
15467019 GC
131 GC
* *
15467021 CACAAGTCCTATGTCCCTGGTCAACAGTGGAGTAGGTTGGAAATTACAGATCTTAT-TCCCCTAA
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCT-CCCTAA
* * * *
15467085 GCAATAGTGGAGCTA-ATCGAAAATGGTGAATCTTATC-TCCCT
65 GCAATAGCGGAGC-AGATCGAAGACGGCGAATCTTATCTTCCCT
15467127 GAGATTACAG
Statistics
Matches: 329, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
129 4 0.01
130 1 0.00
131 207 0.63
132 112 0.34
133 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCTCAGGAGTAGGGAAACAGATTTAA
GC
Found at i:15467161 original size:44 final size:42
Alignment explanation
Indices: 15467112--15467497 Score: 203
Period size: 44 Copynumber: 9.0 Consensus size: 42
15467102 CGAAAATGGT
*
15467112 GAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTA
1 GAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGC-A
* * **
15467155 GTAATCTTATCTCCTTGAGATTACAGTAGAGC-GAATTAAAATAAA
1 G-AATCTTATCTCCCTGAGATTACAGTAGAGCAG-ATT-GAA-GCA
* * * * * * *
15467200 GGATCTTATCTCTCTGA-AGTTACAATAGAGTAGATCGCATCA
1 GAATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGCA
* **
15467242 -ACTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCA
1 GAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCA
** * * * * * **
15467283 CTATCCTATCTCCCTGA-AGTTATAGTGGAGTAGATTAAAATAA
1 GAATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATT-GAAGCA
* * * * * *
15467326 AAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCA
1 GA-ATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATTGAAGCA
** * * * *
15467369 G-GCCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTTCA
1 GAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG-----CA
*
15467415 G-ATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCA
1 GAATCTTATCTCCCTGA-GATTACAGTAGAGCAGATTGAAG-CA
* *
15467457 GAGATCTTATCTCCCTGAAATTACAGCAGAGCAGATTGAAG
1 GA-ATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG
15467498 ACACTAACCT
Statistics
Matches: 262, Mismatches: 60, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
41 60 0.23
42 32 0.12
43 10 0.04
44 119 0.45
45 5 0.02
46 35 0.13
47 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (42 bp):
GAATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCA
Found at i:15467356 original size:127 final size:130
Alignment explanation
Indices: 15467115--15467407 Score: 400
Period size: 127 Copynumber: 2.3 Consensus size: 130
15467105 AAATGGTGAA
* * * *
15467115 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAGATTACA
* *
15467180 GTAGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCA-AC
66 GTAGAGAGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGAC
*
15467244 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-ACT-ATCCTATCTCCCTGA-AGTTAT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAGA-TTAC
* *
15467306 AGTGGAGTAG-ATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
65 AGTAGAG-AGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAG
*
15467370 GC
129 AC
* * * *
15467372 -CTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
15467408 AATTTCAGAT
Statistics
Matches: 147, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
126 1 0.01
127 105 0.71
128 4 0.03
129 37 0.25
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (130 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAGATTACA
GTAGAGAGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGAC
Found at i:15467481 original size:131 final size:127
Alignment explanation
Indices: 15467115--15467492 Score: 377
Period size: 127 Copynumber: 2.9 Consensus size: 127
15467105 AAATGGTGAA
* * * * *
15467115 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTA-GTAATCTTATCTCCTTG-AGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-AACG--ATCCTATCTCCCTGAAG-TTA
* * * *
15467178 CAGTAGAGC-GAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCA
62 CAGTGGAGCAG-ATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
15467242 AC
126 AC
* * * *
15467244 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCACTATCCTATCTCCCTGAAGTTATAGT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAACGATCCTATCTCCCTGAAGTTACAGT
* * *
15467309 GGAGTAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGC
66 GGAGCAGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA-AC
* * * * *
15467372 -CTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTTCAGATCTTATCTCCCTGATGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAA---C-GATCCTATCTCCCTGAAGTTA
* * * * * * * *
15467436 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAAATTACAGCAGAGCAGAT
62 CAGTGGAGCAGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
15467493 TGAAGACACT
Statistics
Matches: 211, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
127 105 0.50
128 5 0.02
129 36 0.17
130 1 0.00
131 64 0.30
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (127 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAACGATCCTATCTCCCTGAAGTTACAGT
GGAGCAGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAC
Done.