Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 220 of 235
Found at i:74640536 original size:21 final size:21
Alignment explanation
Indices: 74640476--74640536 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
74640466 AAAACAAATT
*
74640476 AAAGAAAAAGAAATAGAAAAAG
1 AAAGAAAAAGGAA-AGAAAAAG
*
74640498 -AA-AAAAAGTGAAACGAAACAG
1 AAAGAAAAAG-GAAA-GAAAAAG
74640519 AAAGAAAAAGGAAAGAAA
1 AAAGAAAAAGGAAAGAAA
74640537 GAAGGAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 7 0.21
21 14 0.42
22 6 0.18
23 6 0.18
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGGAAAGAAAAAG
Found at i:74640915 original size:20 final size:20
Alignment explanation
Indices: 74640879--74640916 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
74640869 GTGAAATTTG
*
74640879 TGTGAAAATATAGAATTAAT
1 TGTGAAAATATAAAATTAAT
74640899 TGTGAAGAA-ATAAAATTA
1 TGTGAA-AATATAAAATTA
74640917 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAT
Found at i:74641459 original size:41 final size:38
Alignment explanation
Indices: 74641412--74641522 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 38
74641402 TTCGACTTCG
74641412 AGTCGATGAGACATTGGGTGTCAATTTACTACTTTGGATTA
1 AGTCGATGAGACATT-GGTGTCAATTTA-TACTTTGG-TTA
* * * * * *
74641453 ATTCGATGAGGCACTGGTG-CCACTT-TACTTTGGTTT
1 AGTCGATGAGACATTGGTGTCAATTTATACTTTGGTTA
*
74641489 AGCCGATGAGACATTAGGTGTCAATTTATTACTT
1 AGTCGATGAGACATT-GGTGTCAATTTA-TACTT
74641523 CAAATTATCC
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
36 13 0.24
37 12 0.22
38 4 0.07
39 4 0.07
40 9 0.17
41 12 0.22
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (38 bp):
AGTCGATGAGACATTGGTGTCAATTTATACTTTGGTTA
Found at i:74643045 original size:32 final size:32
Alignment explanation
Indices: 74642880--74643048 Score: 158
Period size: 32 Copynumber: 5.3 Consensus size: 32
74642870 TGCTGCGATA
* * * * *
74642880 CTACTGATGGCTTTGTGCCAATCATATTACCG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * * *
74642912 TTACCGATGGTTGTGTGCCGATCATTTCACTG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * * *
74642944 TTACTGTTGGTTGTGTACCGATCATAACACTA
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * *
74642976 CTACTGATGGCTTTGTACGGATCATATTACCG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
*
74643008 TTACTGATGGCTGTGTACCGATCATATCACTG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
74643040 CTACTGATG
1 CTACTGATG
74643049 AATTTGTGCC
Statistics
Matches: 108, Mismatches: 29, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 108 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (32 bp):
CTACTGATGGCTGTGTACCGATCATATCACTG
Found at i:74643069 original size:64 final size:64
Alignment explanation
Indices: 74642943--74643062 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
74642933 TCATTTCACT
* * ** **
74642943 GTTACTGTTGGTTGTGTACCGATCATAACACTACTACTGATGGCTTTGTACGGATCATATTACC
1 GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATCATATTACC
* * *
74643007 GTTACTGATGGCTGTGTACCGATCATATCACTGCTACTGATGAATTTGTGCCAATC
1 GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATC
74643063 TCATTACTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (64 bp):
GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATCATATTACC
Found at i:74659719 original size:44 final size:43
Alignment explanation
Indices: 74659656--74659757 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 43
74659646 NNNNNNNNNN
74659656 ACCAGGGAGATAGGATTCACAACCTTCAACCTATTCCACTGCT
1 ACCAGGGAGATAGGATTCACAACCTTCAACCTATTCCACTGCT
* *
74659699 GACCAGGGAGATAGGATTCACAATCTTCAACCTATTCTACTGCT
1 -ACCAGGGAGATAGGATTCACAACCTTCAACCTATTCCACTGCT
*
74659743 ATACAGGGAGATAGG
1 A-CCAGGGAGATAGG
74659758 GCTGGGGTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ACCAGGGAGATAGGATTCACAACCTTCAACCTATTCCACTGCT
Found at i:74664813 original size:24 final size:24
Alignment explanation
Indices: 74664768--74664816 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
74664758 ATATTAGTTA
**
74664768 AAAAATATAAATATGTACATATAT
1 AAAAATATAAATACATACATATAT
* *
74664792 AAAAATATATATACATATATATAT
1 AAAAATATAAATACATACATATAT
74664816 A
1 A
74664817 GATTTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATATAAATACATACATATAT
Found at i:74667319 original size:169 final size:169
Alignment explanation
Indices: 74666832--74667292 Score: 771
Period size: 169 Copynumber: 2.7 Consensus size: 169
74666822 AGCTTCAAGA
* * *
74666832 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTTCCCACATCTTTAATCCACTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
*
74666897 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCA
66 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
*
74666962 ATGCTAGGGAAACAAGATTCACTACCTTTAGCTTTAATC
131 ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
* * *
74667001 TATTCCACTATAATTCCAAAGGGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
* * * * *
74667066 TATTTCAAGTCTGAACACCAGAGAGATAAGATTGGCCGCCCTCAACTTTAATCTGCTCCGCTGCA
66 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
*
74667131 ATGCTAGGGAAACAAGATTCGCTACCTCTAGCTTTAATC
131 ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
*
74667170 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
74667235 TATTTCAAGTCTTAACATCC-GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
66 TATTTCAAGTCTTAACA-CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
74667293 TGCTATAACG
Statistics
Matches: 268, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
169 266 0.99
170 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (169 bp):
TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
Found at i:74667361 original size:44 final size:44
Alignment explanation
Indices: 74667312--74667489 Score: 268
Period size: 44 Copynumber: 4.0 Consensus size: 44
74667302 GTCAGGAAAG
* *
74667312 TAAGATTCACGATCTTCAACCTATTCCACTGCTAACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
*
74667356 TAAGATTCACAACCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* *
74667400 TAGGATTCACAACCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* * *
74667444 TAGGATTCACAATCTTCAACCTATTCTACTGCTATA-CAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTA-ACCAGGGAGA
74667488 TA
1 TA
74667490 GGGCTGGGGT
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
44 125 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
Found at i:74677799 original size:21 final size:19
Alignment explanation
Indices: 74677762--74677836 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
74677752 AATCATATCT
74677762 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
74677781 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
74677802 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
74677821 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
74677837 CTTGAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:74679338 original size:28 final size:28
Alignment explanation
Indices: 74679298--74679369 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
74679288 AAACCAAAAG
* * *
74679298 TGCAAGCTAAAGTGGCGGACAGTCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
74679326 TGCAAGCCAAAGTGGCAGACAATCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
74679354 TGCAAGCCAAAAGTGG
1 TGCAAGCC-AAAGTGG
74679370 GTGCAAGCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.82
29 7 0.17
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.15
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAA
Found at i:74679375 original size:45 final size:45
Alignment explanation
Indices: 74679326--74679497 Score: 186
Period size: 45 Copynumber: 3.9 Consensus size: 45
74679316 ACAGTCTAAA
* *
74679326 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
* * * * * * *
74679371 TGCAAGCCCAATTGG-TGACAGTTTAAGTGAAAGCC-AAAGTTGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
* *
74679414 TGCAAGCCACAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTAGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
** * * *
74679459 TGCAAGCCAAAGTGGTGGATAGTCTAAGTGCGAGCCAAA
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAA
74679498 GAGGCAGACA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
43 19 0.18
44 30 0.29
45 54 0.52
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (45 bp):
TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
Found at i:74679461 original size:88 final size:89
Alignment explanation
Indices: 74679326--74679498 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 89
74679316 ACAGTCTAAA
* * *
74679326 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCCAATTGGT-GAC
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
*
74679390 AGTTTAAGTGAAAGCCAAAGTTGG
66 AGTCTAAGTGAAAGCCAAAGTTGG
* * * *
74679414 TGCAAGCCACAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAT
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
**
74679479 AGTCTAAGTGCGAGCCAAAG
66 AGTCTAAGTGAAAGCCAAAG
74679499 AGGCAGACAG
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 55 0.74
89 19 0.26
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (89 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
AGTCTAAGTGAAAGCCAAAGTTGG
Found at i:74679498 original size:28 final size:28
Alignment explanation
Indices: 74679458--74679585 Score: 150
Period size: 28 Copynumber: 4.6 Consensus size: 28
74679448 CCAAAAGTAG
74679458 GTGCAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* * ** *
74679486 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* *
74679514 GTGCAAACCAAAGTGGCGGGA-AGTCTAA
1 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
* * *
74679542 ATACAATCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
74679570 GTGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGG
74679586 CAGGCAGTCT
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 3 0.04
28 76 0.94
29 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGTGGATAGTCTAA
Found at i:74679525 original size:56 final size:56
Alignment explanation
Indices: 74679458--74679609 Score: 162
Period size: 56 Copynumber: 2.7 Consensus size: 56
74679448 CCAAAAGTAG
* * * *
74679458 GTGCAAGCCAAAGTGG-TGGATAGTCTAAGTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGA-AGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * * ** *
74679514 GTGCAAACCAAAGTGGCGGGAAGTCTAAATACAATCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * * *
74679570 GTGCAAGCCAAAGTGGCAGGCAGTCTAAATGCAAGTCAAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAA
74679610 AGTAGCGGTA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 76 0.96
57 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (56 bp):
GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
Found at i:74679594 original size:28 final size:28
Alignment explanation
Indices: 74679458--74679609 Score: 137
Period size: 28 Copynumber: 5.4 Consensus size: 28
74679448 CCAAAAGTAG
* *
74679458 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
* * *
74679486 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * *
74679514 GTGCAAACCAAAGTGGCGGGAAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * * * *
74679542 ATACAATCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
74679570 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* *
74679598 ATGCAAGTCAAA
1 GTGCAAGCCAAA
74679610 AGTAGCGGTA
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
27 2 0.02
28 93 0.95
29 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCAGGCAGTCTAA
Found at i:74681075 original size:23 final size:22
Alignment explanation
Indices: 74681040--74681132 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 22
74681030 CTCTAAAAAA
* *
74681040 CCTTTGTGACATATTTTATGATG
1 CCTTTGAG-CATATTTTGTGATG
*
74681063 CCTTTGCAGCATATTCTGTGATG
1 CCTTTG-AGCATATTTTGTGATG
74681086 CCTTT-ATGACATATTTTGTGATG
1 CCTTTGA-G-CATATTTTGTGATG
*
74681109 CCCTTGTAG-ATTATTTTGTGATG
1 CCTTTG-AGCA-TATTTTGTGATG
74681132 C
1 C
74681133 ATTTATTGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
21 1 0.02
22 2 0.03
23 53 0.90
24 2 0.03
25 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (22 bp):
CCTTTGAGCATATTTTGTGATG
Found at i:74681096 original size:46 final size:46
Alignment explanation
Indices: 74681040--74681138 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
74681030 CTCTAAAAAA
* *
74681040 CCTTTGTGACATATTTTATGATGCCTTTGCAGCA-TATTCTGTGATG
1 CCTTTATGACATATTTTATGATGCCCTTGCAG-ATTATTCTGTGATG
* * *
74681086 CCTTTATGACATATTTTGTGATGCCCTTGTAGATTATTTTGTGATG
1 CCTTTATGACATATTTTATGATGCCCTTGCAGATTATTCTGTGATG
*
74681132 CATTTAT
1 CCTTTAT
74681139 TGAGAATCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (46 bp):
CCTTTATGACATATTTTATGATGCCCTTGCAGATTATTCTGTGATG
Found at i:74683216 original size:49 final size:49
Alignment explanation
Indices: 74683139--74683271 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
74683129 CCAGATATGT
* * * * * * *
74683139 CGGGCCATTGGTAGGTCGTGATAGTTGCTAACCATATTAGTGTATG-TGT
1 CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGA-GATGA
* * *
74683188 TGGGCCATAGGTAGGGCATGTTAATTGCTAACCAGATTGGTGGAGATGA
1 CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGAGATGA
*
74683237 CGGGCCACTA-GTAGAGCATGTTAGTTGCTAACCAG
1 CGGGCCA-TAGGTAGGGCATGTTAGTTGCTAACCAG
74683272 CCTAGCATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 66 0.96
50 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (49 bp):
CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGAGATGA
Found at i:74688060 original size:28 final size:28
Alignment explanation
Indices: 74688016--74688108 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
74688006 AAGTGGGGGC
** *
74688016 AAGCCAAAGTGATAGACAATCTAAGTGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
**
74688044 AAGCCAAAGTGGCAGACAATCTAAATAC
1 AAGCCAAAGTGGCAGACAATCTAAATGT
*
74688072 AAGCCAAAGTGGCAGACAATCTAAACGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
74688100 AAGCCAAAG
1 AAGCCAAAG
74688109 ATGGTGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.15
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGT
Found at i:74688122 original size:72 final size:72
Alignment explanation
Indices: 74688044--74688219 Score: 183
Period size: 72 Copynumber: 2.4 Consensus size: 72
74688034 ATCTAAGTGT
* * * * *
74688044 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAGTGGCAGACAATCTAAACGTAAGCCAAAG
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
74688109 ATGGTGC
66 ATGGTGC
* * * * * * ** *
74688116 AAGCCAAAGTGAC-GAAAAATTTAAATGCAAGCCAAAGTTGCGGATAGTCTAAGTGCAAGTAAAA
1 AAGCCAAAGTGGCAG-AAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAA
*
74688180 CTTGGTGC
65 CATGGTGC
* *
74688188 AAGACAAAGTGGCAGAGAATCTAAATGCAAGC
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGC
74688220 AAAAATGGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
71 1 0.01
72 81 0.98
73 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (72 bp):
AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
ATGGTGC
Found at i:74688476 original size:29 final size:29
Alignment explanation
Indices: 74688443--74688500 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
74688433 TAAGACATAT
74688443 TACATCAGTCTCGTTAAATTTGATTTCAA
1 TACATCAGTCTCGTTAAATTTGATTTCAA
74688472 TACATCAGTCTCGTTAAATTTGATTTCAA
1 TACATCAGTCTCGTTAAATTTGATTTCAA
74688501 CACAGAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
TACATCAGTCTCGTTAAATTTGATTTCAA
Found at i:74690712 original size:15 final size:15
Alignment explanation
Indices: 74690692--74690720 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
74690682 GACTACTCGG
74690692 TTTTGGAAAATTTTA
1 TTTTGGAAAATTTTA
74690707 TTTTGGAAAATTTT
1 TTTTGGAAAATTTT
74690721 TAAAGCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTGGAAAATTTTA
Found at i:74697652 original size:24 final size:26
Alignment explanation
Indices: 74697603--74697652 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
74697593 AGTTGTAGAG
*
74697603 AGAAATTTCTCTGAAGATATTATTCT
1 AGAAATTTCTCAGAAGATATTATTCT
*
74697629 AGAAATTTCT-AG-AGATATTTTTCT
1 AGAAATTTCTCAGAAGATATTATTCT
74697653 GATTTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (26 bp):
AGAAATTTCTCAGAAGATATTATTCT
Found at i:74699466 original size:16 final size:17
Alignment explanation
Indices: 74699436--74699467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
74699426 ACAATCTAAA
74699436 TGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAAGTGGG
74699453 TGCAAGCC-AAAGTGG
1 TGCAAGCCAAAAGTGG
74699468 TGGACGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (17 bp):
TGCAAGCCAAAAGTGGG
Found at i:74699481 original size:45 final size:44
Alignment explanation
Indices: 74699319--74699496 Score: 194
Period size: 44 Copynumber: 4.0 Consensus size: 44
74699309 GACGGTCTAA
* ** * * *
74699319 GTGCAAGCCAATGTGGTGGGCAATCTAAGTGCAAGCCAAAGTTG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
74699363 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
**** *
74699407 GTGCAAGCCAAAACAACAAACAATCTAAATGCAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGG
** ** *
74699452 GTGCAAGCCAAAGTGGTGGACGGTTTAAATGCAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGG
74699497 TGGATAGTCT
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
44 70 0.62
45 42 0.38
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.16
Consensus pattern (44 bp):
GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
Found at i:74699541 original size:28 final size:28
Alignment explanation
Indices: 74699453--74699589 Score: 139
Period size: 28 Copynumber: 4.9 Consensus size: 28
74699443 CAAAAGTGGG
* *
74699453 TGCAAGCCAAAGTGGTGGACGGTTTAAA
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
* *
74699481 TGCAAGCCAAAAGTGGTGGATAGTCTAAG
1 TGCAAGCC-AAAGTGGTGGACAGTCTAAA
* * *
74699510 TGCAAGCCAAAGTGGTGGGCAATCAAAA
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
* * * * *
74699538 TGCAAGCCAAAGTGGCGAATAGTCCAAG
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
**
74699566 TGCAAGCCAAAGTGGCAGACAGTC
1 TGCAAGCCAAAGTGGTGGACAGTC
74699590 CAAGTGGAAG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 65 0.73
29 24 0.27
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGTGGACAGTCTAAA
Found at i:74699576 original size:56 final size:57
Alignment explanation
Indices: 74699452--74699580 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 57
74699442 CCAAAAGTGG
** ** * * *
74699452 GTGCAAGCCAAAGTGGTGGACGGTTTAAATGCAAGCCAAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
*
74699509 GTGCAAGCCAAAGTGGTGGGCAATCAAAATGCAAGCC-AAAGTGGCGAATAGTCCAA
1 GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
74699565 GTGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGG
74699581 CAGACAGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 32 0.50
57 32 0.50
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (57 bp):
GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
Found at i:74699590 original size:28 final size:28
Alignment explanation
Indices: 74699452--74699623 Score: 137
Period size: 28 Copynumber: 6.1 Consensus size: 28
74699442 CCAAAAGTGG
* * **
74699452 GTGCAAGCCAAAGTGGTGGACGGTTTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * * *
74699480 ATGCAAGCCAAAAGTGGTGGATAGTCTAA
1 GTGCAAGCC-AAAGTGGCGGACAGTCCAA
* * * *
74699509 GTGCAAGCCAAAGTGGTGGGCAATCAAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * *
74699537 ATGCAAGCCAAAGTGGCGAATAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
*
74699565 GTGCAAGCCAAAGTGGCAGACAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * * * * *
74699593 GTGGAAGACAAAATGACAGACAATCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
74699621 GTG
1 GTG
74699624 TAAGACACTC
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
28 94 0.80
29 24 0.20
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCGGACAGTCCAA
Found at i:74700594 original size:31 final size:31
Alignment explanation
Indices: 74700559--74700617 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
74700549 GTTATCAGAG
* *
74700559 AAACTACAATGTAAAATTTTATTTTTTATAT
1 AAACTACAATGTAAAATTCTATATTTTATAT
** *
74700590 AAACTTTAGTGTAAAATTCTATATTTTA
1 AAACTACAATGTAAAATTCTATATTTTA
74700618 AATTTATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AAACTACAATGTAAAATTCTATATTTTATAT
Found at i:74706564 original size:13 final size:13
Alignment explanation
Indices: 74706548--74706572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74706538 TTATTTAAAC
74706548 TTTTTATTTGATT
1 TTTTTATTTGATT
74706561 TTTTTATTTGAT
1 TTTTTATTTGAT
74706573 AAATTAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TTTTTATTTGATT
Found at i:74709582 original size:20 final size:20
Alignment explanation
Indices: 74709557--74709608 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
74709547 AACAATGAAT
74709557 TTGTTCATCAAGAGATACAA
1 TTGTTCATCAAGAGATACAA
*
74709577 TTGTTCA--AA-AAATACAA
1 TTGTTCATCAAGAGATACAA
* *
74709594 CTGTTTATCAAGAGA
1 TTGTTCATCAAGAGA
74709609 CAGAACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 12 0.48
18 2 0.08
19 2 0.08
20 9 0.36
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTTCATCAAGAGATACAA
Found at i:74710157 original size:28 final size:28
Alignment explanation
Indices: 74710126--74710264 Score: 188
Period size: 28 Copynumber: 4.9 Consensus size: 28
74710116 CAGTCCGCCT
*
74710126 TTTTGGCTTGCATTTGGACTGTCTATCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* * *
74710154 TTTTGGCTTGCATTTGGACTATCCGCCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* *
74710182 CTTTGGATTGCACTTTGGACTGTCTGTCA
1 TTTTGGCTTGCA-TTTGGACTGTCTGTCA
*
74710211 TTTTGGCTTGCACTTGGACTGTCTGTCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
*
74710239 TTTTGGCTTGCACTTTGGACTATCTG
1 TTTTGGCTTGCA-TTTGGACTGTCTG
74710265 CATGATCTTC
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 61 0.64
29 34 0.36
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (28 bp):
TTTTGGCTTGCATTTGGACTGTCTGTCA
Found at i:74710217 original size:57 final size:57
Alignment explanation
Indices: 74710127--74710264 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
74710117 AGTCCGCCTT
* *
74710127 TTTGGCTTGCA-TTTGGACTGTCTATCATTTTGGCTTGCATTTGGACTATCCGCCAC
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
* * * * *
74710183 TTTGGATTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCTGTCAT
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
*
74710240 TTTGGCTTGCACTTTGGACTATCTG
1 TTTGGCTTGCACTTTGGACTGTCTG
74710265 CATGATCTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 10 0.14
57 62 0.86
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (57 bp):
TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
Found at i:74714758 original size:51 final size:51
Alignment explanation
Indices: 74714700--74714803 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
74714690 AACCATCACA
* *
74714700 AATTTTGTTCTTTC-AAATATTGATATATTAGCTCTTCTGGAGCTTTTAACT
1 AATTTTGTTC-TACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
* *
74714751 AATTTTGTTCTACGAAATATTGATATATTTGCTCTTTTGGAGCTTTCAACT
1 AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
74714802 AA
1 AA
74714804 GTTTCATATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (51 bp):
AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
Found at i:74715533 original size:21 final size:21
Alignment explanation
Indices: 74715507--74715552 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
74715497 TTAATAAAAA
* *
74715507 TAATT-ATAACTAATAATGAAT
1 TAATTAATAA-TAAAAATAAAT
74715528 TAATTAATAATAAAAATAAAT
1 TAATTAATAATAAAAATAAAT
74715549 TAAT
1 TAAT
74715553 CAAATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTAATAATAAAAATAAAT
Found at i:74724223 original size:416 final size:416
Alignment explanation
Indices: 74723452--74724284 Score: 1657
Period size: 416 Copynumber: 2.0 Consensus size: 416
74723442 GATGAGATTG
74723452 AGTACATGCCACATGTTCCCTACTCTAGCGCAGTGGGATCTCTCATGTATGCCATGGTTTGTTCA
1 AGTACATGCCACATGTTCCCTACTCTAGCGCAGTGGGATCTCTCATGTATGCCATGGTTTGTTCA
*
74723517 CGTCCAGATTTATCATATGCAGTTAATACAGTTAGTAGATACATGGCGAATCTCGGTAAAGAACA
66 CGTCCAGATTTATCATATGCAGTTAATACAGTTAGTAGATACATGGCGAATCCCGGTAAAGAACA
74723582 TTGGAAAGCAGTTCAGTGGGTTTTAAGATACTTACGAGGTACTACCGATGTTTGCTTACAGTTTG
131 TTGGAAAGCAGTTCAGTGGGTTTTAAGATACTTACGAGGTACTACCGATGTTTGCTTACAGTTTG
74723647 GAAGAACTAAAGATGGAGTCATTGGGTATGTTGATGCTGATTTTGCTGGAGACCTCGATAGAATA
196 GAAGAACTAAAGATGGAGTCATTGGGTATGTTGATGCTGATTTTGCTGGAGACCTCGATAGAATA
74723712 CGATCTCTCACAGGTTATCTCTTTACAATCAGAGGTTGTGCAATTAGTTGGAAAGCCACTTTGCA
261 CGATCTCTCACAGGTTATCTCTTTACAATCAGAGGTTGTGCAATTAGTTGGAAAGCCACTTTGCA
74723777 AACTATAGTCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGCTTGTAAAGAAG
326 AACTATAGTCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGCTTGTAAAGAAG
74723842 CTATTTGGTTGAAGTGAATCTTTAGT
391 CTATTTGGTTGAAGTGAATCTTTAGT
74723868 AGTACATGCCACATGTTCCCTACTCTAGCGCAGTGGGATCTCTCATGTATGCCATGGTTTGTTCA
1 AGTACATGCCACATGTTCCCTACTCTAGCGCAGTGGGATCTCTCATGTATGCCATGGTTTGTTCA
74723933 CGTCCAGATTTATCATATGCAGTTAATACAGTTAGTAGATACATGGCGAATCCCGGTAAAGAACA
66 CGTCCAGATTTATCATATGCAGTTAATACAGTTAGTAGATACATGGCGAATCCCGGTAAAGAACA
74723998 TTGGAAAGCAGTTCAGTGGGTTTTAAGATACTTACGAGGTACTACCGATGTTTGCTTACAGTTTG
131 TTGGAAAGCAGTTCAGTGGGTTTTAAGATACTTACGAGGTACTACCGATGTTTGCTTACAGTTTG
74724063 GAAGAACTAAAGATGGAGTCATTGGGTATGTTGATGCTGATTTTGCTGGAGACCTCGATAGAATA
196 GAAGAACTAAAGATGGAGTCATTGGGTATGTTGATGCTGATTTTGCTGGAGACCTCGATAGAATA
74724128 CGATCTCTCACAGGTTATCTCTTTACAATCAGAGGTTGTGCAATTAGTTGGAAAGCCACTTTGCA
261 CGATCTCTCACAGGTTATCTCTTTACAATCAGAGGTTGTGCAATTAGTTGGAAAGCCACTTTGCA
74724193 AACTATAGTCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGCTTGTAAAGAAG
326 AACTATAGTCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGCTTGTAAAGAAG
74724258 CTATTTGGTTGAAGTGAATCTTTAGT
391 CTATTTGGTTGAAGTGAATCTTTAGT
74724284 A
1 A
74724285 AACTCAATGA
Statistics
Matches: 416, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
416 416 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (416 bp):
AGTACATGCCACATGTTCCCTACTCTAGCGCAGTGGGATCTCTCATGTATGCCATGGTTTGTTCA
CGTCCAGATTTATCATATGCAGTTAATACAGTTAGTAGATACATGGCGAATCCCGGTAAAGAACA
TTGGAAAGCAGTTCAGTGGGTTTTAAGATACTTACGAGGTACTACCGATGTTTGCTTACAGTTTG
GAAGAACTAAAGATGGAGTCATTGGGTATGTTGATGCTGATTTTGCTGGAGACCTCGATAGAATA
CGATCTCTCACAGGTTATCTCTTTACAATCAGAGGTTGTGCAATTAGTTGGAAAGCCACTTTGCA
AACTATAGTCGCTTTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGCTTGTAAAGAAG
CTATTTGGTTGAAGTGAATCTTTAGT
Found at i:74725593 original size:24 final size:24
Alignment explanation
Indices: 74725555--74725642 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
74725545 GAGTCCTGGT
** *
74725555 GATTTGTTCAAATATTTTTCTAGC
1 GATTTGTTCGCATATTATTCTAGC
* *
74725579 GATTTTTTCGCATATTATTCTGGC
1 GATTTGTTCGCATATTATTCTAGC
* * *
74725603 GATCTGTTCACATATTATTCTCGC
1 GATTTGTTCGCATATTATTCTAGC
* *
74725627 GACTTGTTCGTATATT
1 GATTTGTTCGCATATT
74725643 GTGCTGATGA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (24 bp):
GATTTGTTCGCATATTATTCTAGC
Found at i:74725642 original size:48 final size:48
Alignment explanation
Indices: 74725550--74725671 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
74725540 TTTTGGAGTC
* * * * *
74725550 CTGGTGATTTGTTCAAATATTTTTCTAGCGATTTTTTCGCATATTATT
1 CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* * * * *
74725598 CTGGCGATCTGTTCACATATTATTCTCGCGACTTGTTCGTATATTGTG
1 CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* *
74725646 CTGATGATTTGTTCACATATTGTTCT
1 CTGGTGATTTGTTCACATATTATTCT
74725672 GGTGGTTTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
Found at i:74725657 original size:24 final size:24
Alignment explanation
Indices: 74725630--74725686 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
74725620 TTCTCGCGAC
74725630 TTGTTCGTATATTGTGCTGATGAT
1 TTGTTCGTATATTGTGCTGATGAT
** * * *
74725654 TTGTTCACATATTGTTCTGGTGGT
1 TTGTTCGTATATTGTGCTGATGAT
*
74725678 TTGTCCGTA
1 TTGTTCGTA
74725687 ACACTGTTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.49
Consensus pattern (24 bp):
TTGTTCGTATATTGTGCTGATGAT
Found at i:74727819 original size:42 final size:42
Alignment explanation
Indices: 74727756--74727840 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
74727746 AATTTATTAG
74727756 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
* * *
74727798 AACCCTAAATATGAAATTAATTATGAACACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
74727840 A
1 A
74727841 TCTTCTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.27
Consensus pattern (42 bp):
AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
Found at i:74729250 original size:19 final size:20
Alignment explanation
Indices: 74729218--74729257 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
74729208 ATTTAGGCTT
74729218 TATATATCATCCATCACACA
1 TATATATCATCCATCACACA
*
74729238 TATATAT-ATCCATTACACA
1 TATATATCATCCATCACACA
74729257 T
1 T
74729258 TCTTCTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATATCATCCATCACACA
Found at i:74733389 original size:91 final size:88
Alignment explanation
Indices: 74733208--74733389 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
74733198 TTCACCGTTA
* * *
74733208 AAAATTAGTGGTGGAGGAGGTGTAAAGCTGACTGAAGACATTTTTACAAAAAACAACAAGGAAAC
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
**
74733273 ATATGTTTTTTCTTTTAGGAAAC
66 ATATGTTTTTTCTTTTAAAAAAC
* * *
74733296 AAAATTGGTGGTGGAAGAGATGTAAAGCTGGCTGAAGACGTTTTTACAAAAAAAAACTATAAGGA
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAAC---AAGGA
74733361 AACATATGTTTTTTCTTTTAAAAAAC
63 AACATATGTTTTTTCTTTTAAAAAAC
74733387 AAA
1 AAA
74733390 GGCCCTCAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 51 0.61
91 32 0.39
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (88 bp):
AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
ATATGTTTTTTCTTTTAAAAAAC
Found at i:74733913 original size:29 final size:29
Alignment explanation
Indices: 74733869--74733936 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
74733859 CGCCTTTTTG
*
74733869 GCTTGCA-TTTGAACTG-TCTGTCACTTTA
1 GCTTGCACTTTGAACTGTTC-ATCACTTTA
* *
74733897 GCTTGCACTTTGGACTGTTCATCACTTTG
1 GCTTGCACTTTGAACTGTTCATCACTTTA
*
74733926 GCTTGTACTTT
1 GCTTGCACTTT
74733937 AGACAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 25 0.74
30 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (29 bp):
GCTTGCACTTTGAACTGTTCATCACTTTA
Found at i:74737733 original size:7 final size:7
Alignment explanation
Indices: 74737721--74737746 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
74737711 TAGTCTCATC
74737721 TTTATAT
1 TTTATAT
74737728 TTTATAT
1 TTTATAT
74737735 TTTATAT
1 TTTATAT
74737742 TTTAT
1 TTTAT
74737747 GCTGCCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:74741087 original size:35 final size:35
Alignment explanation
Indices: 74741047--74741114 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
74741037 AGCTGGTTTC
**
74741047 GGTTGGATTAGCTCTTTTGAGCATTGGCGTGTTGT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
*
74741082 GGTTGGATTAAATCTTTTGAGTATTGGCGTGTT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTT
74741115 TAGGGTGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (35 bp):
GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
Found at i:74741138 original size:35 final size:34
Alignment explanation
Indices: 74741058--74741151 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
74741048 GTTGGATTAG
* * *
74741058 CTCTTTTGAGCATTGGCGTGTTGTGGTTGGATTAA
1 CTCTTTTGAGTATTGGCGTGTT-TGGGTGGACTAA
*
74741093 ATCTTTTGAGTATTGGCGTGTTTAGGGTGGACTAA
1 CTCTTTTGAGTATTGGCGTGTTT-GGGTGGACTAA
* *
74741128 CTCTTGTGAGTATTTGGTGTGTTT
1 CTCTTTTGAGTA-TTGGCGTGTTT
74741152 TGGAGGGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 39 0.78
36 10 0.20
ACGTcount: A:0.15, C:0.10, G:0.31, T:0.45
Consensus pattern (34 bp):
CTCTTTTGAGTATTGGCGTGTTTGGGTGGACTAA
Found at i:74743087 original size:16 final size:16
Alignment explanation
Indices: 74743066--74743098 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
74743056 TGAATGATTT
74743066 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
74743082 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
74743098 A
1 A
74743099 TAATACTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (16 bp):
AAGTTACATTTTTATG
Found at i:74749567 original size:12 final size:12
Alignment explanation
Indices: 74749550--74749575 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74749540 TGCCTATTGA
74749550 ACCATTTAGAAT
1 ACCATTTAGAAT
74749562 ACCATTTAGAAT
1 ACCATTTAGAAT
74749574 AC
1 AC
74749576 TGTCGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (12 bp):
ACCATTTAGAAT
Found at i:74751059 original size:20 final size:21
Alignment explanation
Indices: 74751019--74751059 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
74751009 TATAATTTGA
*
74751019 TTTAATAAAAAGTTTGATTTT
1 TTTAATAAAAAGGTTGATTTT
74751040 TTTAATAAAAAGGTTG-TTTT
1 TTTAATAAAAAGGTTGATTTT
74751060 AAATTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TTTAATAAAAAGGTTGATTTT
Found at i:74751248 original size:11 final size:12
Alignment explanation
Indices: 74751228--74751264 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
74751218 TTTATTATCT
74751228 TTTATA-AAAAA
1 TTTATAGAAAAA
74751239 TTTA-AGAAAAA
1 TTTATAGAAAAA
*
74751250 ATTATAGAAAAA
1 TTTATAGAAAAA
74751262 TTT
1 TTT
74751265 CCCAAACGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 1 0.05
11 12 0.55
12 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
TTTATAGAAAAA
Found at i:74754442 original size:33 final size:33
Alignment explanation
Indices: 74754400--74754466 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
74754390 ATACAAGTAC
74754400 CTTCATATTGTTTTTACCGATTTTACATTCTTG
1 CTTCATATTGTTTTTACCGATTTTACATTCTTG
74754433 CTTCATATTGTTTTTACCGATTTTACATTCTTG
1 CTTCATATTGTTTTTACCGATTTTACATTCTTG
74754466 C
1 C
74754467 GACAATGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (33 bp):
CTTCATATTGTTTTTACCGATTTTACATTCTTG
Found at i:74760618 original size:17 final size:17
Alignment explanation
Indices: 74760596--74760630 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
74760586 AGATTTAACA
74760596 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
74760613 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
74760630 A
1 A
74760631 CCTTATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCAAACAAGCTTACAT
Found at i:74763793 original size:17 final size:18
Alignment explanation
Indices: 74763771--74763813 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
74763761 AAGATGATGT
*
74763771 TTTTTTTATGTTTTAA-G
1 TTTTTTTATATTTTAACG
*
74763788 TTTTTTTTTATTTTAACG
1 TTTTTTTATATTTTAACG
*
74763806 TTATTTTA
1 TTTTTTTA
74763814 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTTATATTTTAACG
Found at i:74768615 original size:79 final size:81
Alignment explanation
Indices: 74768479--74768663 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
74768469 TTGAATGATG
*
74768479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
74768543 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
74768558 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
74768620 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
74768638 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74768664 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:74768677 original size:40 final size:40
Alignment explanation
Indices: 74768480--74768663 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
74768470 TGAATGATGT
* * * *
74768480 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
74768520 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
74768560 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74768598 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
74768639 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
74768664 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:74768685 original size:79 final size:79
Alignment explanation
Indices: 74768532--74768696 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
74768522 GGACTAAGAT
* **
74768532 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
74768597 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
74768611 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
74768674 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
74768690 CCGAAGG
1 CCGAAGG
74768697 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:74786189 original size:6 final size:6
Alignment explanation
Indices: 74786180--74786207 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
74786170 ATTTTTTCAT
74786180 CATCAC CATCAC CATCAC CATCAC CATC
1 CATCAC CATCAC CATCAC CATCAC CATC
74786208 CGTGACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
CATCAC
Found at i:74789200 original size:28 final size:28
Alignment explanation
Indices: 74789162--74789218 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
74789152 TATTCATCAC
74789162 AAATACAATAAAATTTC-ACATT-TTCA
1 AAATACAATAAAATTTCAACATTATTCA
**
74789188 AAATCACATATAACTTTTCAACATTATTCA
1 AAAT-ACA-ATAAAATTTCAACATTATTCA
74789218 A
1 A
74789219 TTTAGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 8 0.32
29 5 0.20
30 5 0.20
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATACAATAAAATTTCAACATTATTCA
Found at i:74810058 original size:23 final size:21
Alignment explanation
Indices: 74810028--74810070 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74810018 GAATAAATGA
74810028 TTTTAAAACCATTAAAATTATTT
1 TTTTAAAA-CA-TAAAATTATTT
*
74810051 TTTTAAAATATAAAATTATT
1 TTTTAAAACATAAAATTATT
74810071 AAAATTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAACATAAAATTATTT
Found at i:74812088 original size:20 final size:21
Alignment explanation
Indices: 74812050--74812088 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
74812040 TATTGGCATT
*
74812050 TAGTTGAGTAGTTGGATTGTA
1 TAGTTGAGTAGTTGAATTGTA
*
74812071 TAGTTGA-TAGTTTAATTG
1 TAGTTGAGTAGTTGAATTG
74812089 GTAGCTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TAGTTGAGTAGTTGAATTGTA
Found at i:74813798 original size:86 final size:86
Alignment explanation
Indices: 74813692--74813962 Score: 283
Period size: 86 Copynumber: 3.2 Consensus size: 86
74813682 TTCGGTTTAT
* ** * ** *
74813692 TCCAATGATGCACTGTGTGTGCCAATGGATTTACTTCGGTTTATCCAATGATGCGCTGTGTGTGA
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
*
74813757 TAGTATAGTTGCTTCAGCT-TA
66 TAGTATAATTGCTTC-GCTATA
* * * * *
74813778 TCCAATGATGCACTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGT
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* *
74813843 TAGAATAATTGCTTCGGTATA
66 TAGTATAATTGCTTCGCTATA
* * * * * * * *
74813864 TTCGATGATGCACCGTGTGTGCCAGTATAGTTACTTCTGTATATCCAATGATACATTGTGGGTGC
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* * *
74813929 TAGTATATTTGCTTTGGTATA
66 TAGTATAATTGCTTCGCTATA
*
74813950 TCCGATGATGCAC
1 TCCAATGATGCAC
74813963 AATTGGTTCC
Statistics
Matches: 153, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
85 2 0.01
86 151 0.99
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (86 bp):
TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
TAGTATAATTGCTTCGCTATA
Found at i:74813934 original size:43 final size:43
Alignment explanation
Indices: 74813682--74813962 Score: 215
Period size: 43 Copynumber: 6.5 Consensus size: 43
74813672 TAGGTGACTT
* * * ** *
74813682 TTCGGTTTATTCCAATGATGCACTGTGTGTGCCAATGGATTTAC
1 TTCGGTATA-TCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
74813726 TTCGGTTTATCCAATGATGCGCTGTGTGTGATAGTATAGTTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * *
74813769 TTCAGCT-TATCCAATGATGCACTGTGTGTG-TCGGTATACTTAC
1 TTC-GGTATATCCAATGATGCACTGTGTGTGCT-AGTATAGTTAC
* * * * * * * * *
74813812 TTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
74813855 TTCGGTATATTCGATGATGCACCGTGTGTGCCAGTATAGTTAC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * * * *
74813898 TTCTGTATATCCAATGATACATTGTGGGTGCTAGTATATTTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* *
74813941 TTTGGTATATCCGATGATGCAC
1 TTCGGTATATCCAATGATGCAC
74813963 AATTGGTTCC
Statistics
Matches: 186, Mismatches: 47, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
42 3 0.02
43 171 0.92
44 12 0.06
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (43 bp):
TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
Found at i:74813935 original size:129 final size:129
Alignment explanation
Indices: 74813725--74813961 Score: 280
Period size: 129 Copynumber: 1.8 Consensus size: 129
74813715 AATGGATTTA
* * * * * *
74813725 CTTCGGTTTATCCAATGATGCGCTGTGTGTGATAGTATAGTTGCTTCAGCTTATCCAATGATGCA
1 CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
* * *
74813790 CTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTG
66 CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
* * * *
74813854 CTTCGGTATATTCGATGATGCACCGTGTGTGCCAGTATAGTTACTTCTG-TATATCCAATGATAC
1 CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCT-TATCCAATGATAC
* * * * *
74813918 ATTGTGGGTG-CTAGTATATTTGCTTTGGTATATCCGATGATGCA
65 ACTGTGGGTGTC-AGTATACTTACTTCGGTATATACGATGATGCA
74813962 CAATTGGTTC
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
128 2 0.02
129 86 0.98
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (129 bp):
CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
Found at i:74816057 original size:41 final size:41
Alignment explanation
Indices: 74816006--74816089 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
74815996 GGCCAAATGG
*
74816006 ACCGGAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
1 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
74816047 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
1 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
74816088 AC
1 AC
74816090 TCGAGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (41 bp):
ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
Found at i:74816312 original size:27 final size:27
Alignment explanation
Indices: 74816276--74816464 Score: 181
Period size: 27 Copynumber: 7.0 Consensus size: 27
74816266 AAAGGTTGTT
* *
74816276 AAATGACCAAAATACCCCCATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
* * *
74816303 AAATAACCAAAATTCCCTCGAT-GGTTA
1 AAATTACCAAAATACCC-CGATAGGGTA
* *
74816330 AAATTATCGAAATACCCCTGAT-GGGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
* * *
74816357 AAAGTATCGAAATACCCCTGATA-GGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
74816384 AAATTACCAAAATACCCTCGAT-GGGTA
1 AAATTACCAAAATACCC-CGATAGGGTA
*
74816411 AAATTACCAAAATACCCCCA-ATGGGTA
1 AAATTACCAAAATACCCCGATA-GGGTA
**
74816438 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
74816465 GAATGACCGT
Statistics
Matches: 138, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.02
27 130 0.94
28 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (27 bp):
AAATTACCAAAATACCCCGATAGGGTA
Found at i:74816455 original size:54 final size:53
Alignment explanation
Indices: 74816276--74816454 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 53
74816266 AAAGGTTGTT
* * * * * *
74816276 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATTCCCTCGATGGTTA
1 AAATTACCAAAATACCCCGAT-GGGTAAAATTACCAAAATACCCCCGATGGGTA
* * * * * * *
74816330 AAATTATCGAAATACCCCTGATGGGTAAAAGTATCGAAATACCCCTGATAGGTA
1 AAATTACCAAAATACCCC-GATGGGTAAAATTACCAAAATACCCCCGATGGGTA
*
74816384 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCCAATGGGTA
1 AAATTACCAAAATACCC-CGATGGGTAAAATTACCAAAATACCCCCGATGGGTA
74816438 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
74816455 TAATAGGGTA
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
54 99 0.97
55 3 0.03
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.21
Consensus pattern (53 bp):
AAATTACCAAAATACCCCGATGGGTAAAATTACCAAAATACCCCCGATGGGTA
Found at i:74816481 original size:81 final size:81
Alignment explanation
Indices: 74816276--74816464 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 81
74816266 AAAGGTTGTT
* ** * * * *
74816276 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATTCCCTCGATGGTTAAAATTATCGAA
1 AAATTACCAAAATACCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
**
74816341 ATACCCCTGATGGGTA
66 ATACCCCCAATGGGTA
* * * * *
74816357 AAAGTATCGAAATACCCCTGATA-GGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAA
1 AAATTACCAAAATA-CCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAA
74816421 AATACCCCCAATGGGTA
65 AATACCCCCAATGGGTA
74816438 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCTAATAGGGTA
74816465 GAATGACCGT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.08
81 76 0.85
82 6 0.07
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (81 bp):
AAATTACCAAAATACCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
ATACCCCCAATGGGTA
Found at i:74832901 original size:24 final size:24
Alignment explanation
Indices: 74832849--74832901 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
74832839 ACCATATGTC
*
74832849 AACCACATCCAAACATACCACAAT
1 AACCACATCCAAACATACCAAAAT
* * *
74832873 GACCACATTCAAACATATCAAAAT
1 AACCACATCCAAACATACCAAAAT
74832897 AACCA
1 AACCA
74832902 TTAATAGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (24 bp):
AACCACATCCAAACATACCAAAAT
Found at i:74836824 original size:27 final size:27
Alignment explanation
Indices: 74836785--74837571 Score: 864
Period size: 27 Copynumber: 29.3 Consensus size: 27
74836775 AGAGGTCAAT
* *
74836785 AAATGACCGAAATACCCTCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * *
74836812 AAATAACCAAAATACCCTCAAACGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
74836839 AAATAACCAAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74836866 GAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74836893 AAATGATCGAAATA-TCCCATCA-GGTA
1 AAATGACCGAAATACCCCCAT-AGGGTA
* * *
74836919 AAATGACCGAAATAACGCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
74836946 AAATAACTGAAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74836973 AAATAACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
74837000 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
74837027 GAATGACTGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
74837054 GAATGACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
74837081 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
74837108 ATATGACCGAAATACCCCCATCA-GGTA
1 AAATGACCGAAATACCCCCAT-AGGGTA
* *
74837135 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837162 AAATGACTGAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837189 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** * *
74837216 AACTGACTAAAATACTCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837243 AAATGAACGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
74837270 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
74837297 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837324 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * ***
74837351 AAATGATCAAAATACCTTGATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837378 AAATGACCAAAATAACCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
74837405 AAATGATTGAAATACCCTGATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
74837432 AAATGACCGATATA-CCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
74837458 AAATGACTGAAATGCCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
74837485 AAATAATCGAAATAACCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
74837512 AAATGACCG-AATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
74837538 AAATGAATGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
74837565 AAATGAC
1 AAATGAC
74837572 TGTTATACCG
Statistics
Matches: 646, Mismatches: 107, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
26 66 0.10
27 579 0.90
28 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:74838127 original size:84 final size:84
Alignment explanation
Indices: 74837996--74838158 Score: 308
Period size: 84 Copynumber: 1.9 Consensus size: 84
74837986 ACACTGTTAC
*
74837996 TGTATTGGGCTAAGGCCCACAGTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
1 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
74838061 CTAAGGCCCACACTAATTT
66 CTAAGGCCCACACTAATTT
*
74838080 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTGTTACTGTATTGGG
1 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
74838145 CTAAGGCCCACACT
66 CTAAGGCCCACACT
74838159 GTACTGTCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (84 bp):
TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
CTAAGGCCCACACTAATTT
Found at i:74838160 original size:28 final size:28
Alignment explanation
Indices: 74837986--74838165 Score: 269
Period size: 28 Copynumber: 6.5 Consensus size: 28
74837976 TTAATGCACT
74837986 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
74838014 ACAGTGATT-CTGTATTGGGATAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
74838042 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
74838070 ACACTAATT-TTGTATTGGGCTAAGGCCC
1 ACACT-GTTACTGTATTGGGCTAAGGCCC
74838098 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
74838126 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
74838154 ACACTG-TACTGT
1 ACACTGTTACTGT
74838166 CAATGAATAG
Statistics
Matches: 139, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
27 10 0.07
28 125 0.90
29 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:74838179 original size:33 final size:30
Alignment explanation
Indices: 74837986--74838193 Score: 128
Period size: 28 Copynumber: 7.2 Consensus size: 30
74837976 TTAATGCACT
74837986 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
* * *
74838014 ACAGTGATTCTGT-AT--TGGGATAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
74838042 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
* **
74838070 ACACTAATTTTGT-AT--TGGGCTAAGGCCC
1 ACACT-GTACTGTCATGATGGGCTAAGGCCC
*
74838098 ACACTGATTCTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
74838126 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
*
74838154 ACACTGTACTGTCAATGAATAGGGCTCAGGCCC
1 ACACTGTACTGTC-ATG-AT-GGGCTAAGGCCC
*
74838187 AGACTGT
1 ACACTGT
74838194 TACTACATGT
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.04
28 129 0.83
29 2 0.01
32 1 0.01
33 17 0.11
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (30 bp):
ACACTGTACTGTCATGATGGGCTAAGGCCC
Found at i:74847163 original size:21 final size:21
Alignment explanation
Indices: 74847138--74847178 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
74847128 TGATAACAAC
74847138 TAATATATAATTAATT-TTATA
1 TAATATAT-ATTAATTGTTATA
74847159 TAATATATATTAATTGTTAT
1 TAATATATATTAATTGTTAT
74847179 TAACCTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATATATATTAATTGTTATA
Found at i:74847982 original size:25 final size:25
Alignment explanation
Indices: 74847925--74847983 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
74847915 AAATTTCTCC
*
74847925 TAAATTTTAATTTCATTTAATTATT
1 TAAATTTTAATTTCATTGAATTATT
*
74847950 TAACTTTTCAATTT-ATTGAATT-TT
1 TAAATTTT-AATTTCATTGAATTATT
74847974 TAATATTTTA
1 TAA-ATTTTA
74847984 TGCTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 6 0.21
25 18 0.62
26 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (25 bp):
TAAATTTTAATTTCATTGAATTATT
Found at i:74865854 original size:16 final size:19
Alignment explanation
Indices: 74865833--74865878 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 19
74865823 TTATCAAAAT
74865833 AAATCAAAA-AAAT-T-AA
1 AAATCAAAATAAATATGAA
74865849 AAATCAAAATAAATATGAA
1 AAATCAAAATAAATATGAA
74865868 AAATCGAAAAT
1 AAATC-AAAAT
74865879 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
17 4 0.15
18 1 0.04
19 7 0.27
20 5 0.19
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATCAAAATAAATATGAA
Found at i:74866270 original size:27 final size:27
Alignment explanation
Indices: 74866227--74866287 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
74866217 GGTGTCTATC
* *
74866227 TGGTAGGTGCTATTAGTAACTCATATT
1 TGGTAGGTGCCACTAGTAACTCATATT
* *
74866254 TGGTAGGTGCCACTAGTGACTCCTATT
1 TGGTAGGTGCCACTAGTAACTCATATT
*
74866281 TGATAGG
1 TGGTAGG
74866288 CGCTCTAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (27 bp):
TGGTAGGTGCCACTAGTAACTCATATT
Found at i:74872386 original size:27 final size:27
Alignment explanation
Indices: 74872348--74872400 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
74872338 CTGATACCGG
74872348 CTAAACTGTTAGAATTTAAGGCTGTGA
1 CTAAACTGTTAGAATTTAAGGCTGTGA
74872375 CTAAACTGTTAGAATTTAAGGCTGTG
1 CTAAACTGTTAGAATTTAAGGCTGTG
74872401 CTGTTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (27 bp):
CTAAACTGTTAGAATTTAAGGCTGTGA
Found at i:74872406 original size:21 final size:22
Alignment explanation
Indices: 74872352--74872406 Score: 58
Period size: 27 Copynumber: 2.3 Consensus size: 22
74872342 TACCGGCTAA
74872352 ACTGTTAGAATTTAAGGCTGTG
1 ACTGTTAGAATTTAAGGCTGTG
74872374 ACTAAACTGTTAGAATTTAAGGCTGTG
1 -----ACTGTTAGAATTTAAGGCTGTG
74872401 -CTGTTA
1 ACTGTTA
74872407 ATATTGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.21
27 22 0.79
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (22 bp):
ACTGTTAGAATTTAAGGCTGTG
Found at i:74874495 original size:16 final size:17
Alignment explanation
Indices: 74874471--74874510 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
74874461 AAATAAAAAT
74874471 TAAATAAAATTACATT-A
1 TAAA-AAAATTACATTAA
*
74874488 TAAAAAAATTGCATTAA
1 TAAAAAAATTACATTAA
74874505 TAAAAA
1 TAAAAA
74874511 TTCACAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTACATTAA
Found at i:74874595 original size:103 final size:100
Alignment explanation
Indices: 74874488--74874828 Score: 524
Period size: 103 Copynumber: 3.4 Consensus size: 100
74874478 AATTACATTA
* * * *
74874488 TAAAAAAATTGCATTAATAAAAATTCACAAAACACTAAACTAAACACTAATAATTTATAACCTAA
1 TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
74874553 TCATAAATTATTAACAAAATAACTATAAAATTATTTTT
66 TCATAAATTATTAACAAAATAACTAT--AATT-TTTTT
* *
74874591 TAAAAAAATTATATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAA
1 TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
*
74874656 TCATAAATTACTAACAAAATAACTATAATTTTTTT
66 TCATAAATTATTAACAAAATAACTATAATTTTTTT
* *
74874691 T--AAAATTTACATTACTAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTA
1 TAAAAAAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
* *
74874754 ATTATAAATTATTAACAAAATAACCATAATTTTTTT
65 ATCATAAATTATTAACAAAATAACTATAATTTTTTT
74874790 TAAAAAAAATTACATTACTAAAAAATCACAAAACACTAA
1 T-AAAAAAATTACATTACTAAAAAATCACAAAACACTAA
74874829 CAATTTATAA
Statistics
Matches: 219, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
98 13 0.06
99 78 0.36
100 6 0.03
101 24 0.11
102 14 0.06
103 84 0.38
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (100 bp):
TAAAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
TCATAAATTATTAACAAAATAACTATAATTTTTTT
Found at i:74874871 original size:88 final size:85
Alignment explanation
Indices: 74874735--74874912 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 85
74874725 TAAACTAAAT
* *
74874735 ACTAACAATTTATAACCTAATTATAAATTATTAACAAAATAACCATAATTTTTTTTAAAAAAAAT
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTT-----AAAT
74874800 TACATTACT-AAAAAATCACAAAAC
61 TACATTACTAAAAAAATCACAAAAC
*
74874824 ACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTTAAATTACAT
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTTAAATTACAT
*
74874888 TACTAAAAAAATTACAAAAC
66 TACTAAAAAAATCACAAAAC
74874908 ACTAA
1 ACTAA
74874913 ACTAAACACT
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
83 13 0.15
84 19 0.23
88 29 0.35
89 23 0.27
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (85 bp):
ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACCATAATTTTTTTTAAATTACAT
TACTAAAAAAATCACAAAAC
Found at i:74874948 original size:185 final size:197
Alignment explanation
Indices: 74874506--74875053 Score: 692
Period size: 185 Copynumber: 2.8 Consensus size: 197
74874496 TTGCATTAAT
*
74874506 AAAAATTCACAAAACACTAAACTAAACACTAATAATTTATAACCTAATCATAAATTATTAACAAA
1 AAAAATT-ACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAA
* *
74874571 ATAACTATAAAATTATTTTTTAAAAAAATTATATTACTAAAAAATCACAAAACACTAAACTAAAC
65 ATAACCAT-AAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACAC--AACT-AAC
74874636 ACTAACAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTAC
126 AC-AACAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTAC
74874701 ATTACTAA
190 ATTACTAA
* * *
74874709 AAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAACAAAA
1 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
74874774 TAACCAT-AATT-TTTTTTAAAAAAAATTACATTACTAAAAAATCAC-AAA-AC-ACT-A-AC-A
66 TAACCATAAATTATTTTTT-AAAAAAATTACATTACTAAAAAATCACAAAACACAACTAACACAA
74874831 -A-TTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTT-AAA-TTACATTAC
130 CAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTACATTAC
74874891 TAA
195 TAA
* *
74874894 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAA
1 AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
* * * ** *
74874959 TAA--TTAAA--A----ATAATAATTTTACATTAATAAAAAATCACAAAACACTAAACTAAACAC
66 TAACCATAAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACAC--AACT-AACAC
* *
74875016 ATA-A-TTTATAACATAATCCTAAATTACTAACAAAATAA
128 A-ACAGTTTATAACCTAATCATAAATTACTAACAAAATAA
74875054 TTTTAAAATA
Statistics
Matches: 312, Mismatches: 19, Indels: 42
0.84 0.05 0.11
Matches are distributed among these distances:
178 23 0.07
179 4 0.01
180 2 0.01
183 4 0.01
184 2 0.01
185 76 0.24
186 5 0.02
187 31 0.10
188 32 0.10
189 18 0.06
190 1 0.00
192 2 0.01
193 1 0.00
195 3 0.01
198 2 0.01
199 9 0.03
200 30 0.10
202 61 0.20
203 6 0.02
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (197 bp):
AAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAA
TAACCATAAATTATTTTTTAAAAAAATTACATTACTAAAAAATCACAAAACACAACTAACACAAC
AGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTAAAATTTACATTACT
AA
Found at i:74875047 original size:92 final size:95
Alignment explanation
Indices: 74874820--74875065 Score: 295
Period size: 92 Copynumber: 2.6 Consensus size: 95
74874810 AAAAATCACA
* * *** ** *
74874820 AAACACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTTAA-AT
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAA-TTTAA-AAATAATAATTT
* *
74874883 TACATTACTAAAAAAATTACAAAACACTAAACT
63 TACATTAATAAAAAAATCACAAAACACTAAACT
*
74874916 AAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAATAA-TTAAAAATAATAATTTTA
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTA
74874980 CATTAAT-AAAAAATCACAAAACACTAAACT
65 CATTAATAAAAAAATCACAAAACACTAAACT
* * *
74875010 AAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAAATAATTTTAAAATAAT
1 AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAAT
74875066 TATAAACAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
92 35 0.26
93 10 0.08
94 32 0.24
95 12 0.09
96 27 0.20
97 17 0.13
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (95 bp):
AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTAC
ATTAATAAAAAAATCACAAAACACTAAACT
Found at i:74875100 original size:92 final size:93
Alignment explanation
Indices: 74874608--74875077 Score: 264
Period size: 99 Copynumber: 5.0 Consensus size: 93
74874598 ATTATATTAC
* * *
74874608 TAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAATCATAAATTACTAACAA
1 TAAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACAA
*** * * *
74874673 AATAACTATAATTTTTTTTAA-AATT-TACATTAC
65 AATAA-T-TAA----AAATAATAATTAAACATAAA
* * * * *
74874706 TAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAACA
1 T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
** * ** ** *
74874771 AAATAA-CCATAATTTTTTTTAAA-AAAAA
64 AAATAATTAAAAATAATAATTAAACATAAA
* * * * * * *
74874799 T-TACATTACTAAAAA-A-T-CACAAAACACTAACAATTTATAACCTAATCAT-AATTACTAACA
1 TAAAAAAT-CAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
* * ** ** * *
74874859 AAATAACT-ATAATTTTTTTTAAATTACATTAC
64 AAATAATTAAAAATAATAATT-AA--ACATAAA
* * *
74874891 TAAAAAAATTACAAAACACTAAACTAAACACTAACAATTTATAACGTAATCATAAATTACTAACA
1 T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
** *
74874956 AAATAATTAAAAATAATAATTTTACATTAA
64 AAATAATTAAAAATAATAATTAAACATAAA
* * *
74874986 TAAAAAATCACAAAACACTAAACTAAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAA
1 TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
* *
74875050 ATAATTTTAAAATAATTA-TAAACA-AAA
66 ATAA-TTAAAAATAATAATTAAACATAAA
74875077 T
1 T
74875078 TACATTCATA
Statistics
Matches: 298, Mismatches: 57, Indels: 41
0.75 0.14 0.10
Matches are distributed among these distances:
88 28 0.09
89 30 0.10
90 1 0.00
91 8 0.03
92 49 0.16
93 20 0.07
94 33 0.11
95 8 0.03
96 30 0.10
97 18 0.06
98 8 0.03
99 65 0.22
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (93 bp):
TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
ATAATTAAAAATAATAATTAAACATAAA
Found at i:74875221 original size:12 final size:11
Alignment explanation
Indices: 74875204--74875249 Score: 55
Period size: 9 Copynumber: 4.5 Consensus size: 11
74875194 TACATACCTT
74875204 TTCTTTCTTTCC
1 TTCTTTCTTT-C
74875216 TTCTTTCTTTC
1 TTCTTTCTTTC
74875227 TTC-TTC-TTC
1 TTCTTTCTTTC
74875236 TTC-TTC-TTC
1 TTCTTTCTTTC
74875245 TTCTT
1 TTCTT
74875250 CTTAGCGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 15 0.45
10 4 0.12
11 4 0.12
12 10 0.30
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:74875232 original size:3 final size:3
Alignment explanation
Indices: 74875224--74875252 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
74875214 CCTTCTTTCT
74875224 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
74875253 AGCGTCACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:74875337 original size:24 final size:25
Alignment explanation
Indices: 74875310--74875356 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
74875300 TATATATTTA
* *
74875310 AAAATAATATTT-TTTTAAAAAAAT
1 AAAATAAAATTTATTATAAAAAAAT
74875334 AAAATAAAATTTATTATAAAAAA
1 AAAATAAAATTTATTATAAAAAA
74875357 TAGGTAGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATAAAATTTATTATAAAAAAAT
Found at i:74877719 original size:44 final size:44
Alignment explanation
Indices: 74877671--74877758 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
74877661 TCTTGAACAA
* *
74877671 ATTAAAATCTAATTATTTTTAAATGTGTAACAATCACAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
* ** *
74877715 ATTAAATTATAATTATTTTTAAATGTATAATTATCTCAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
74877759 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
Found at i:74880666 original size:13 final size:13
Alignment explanation
Indices: 74880648--74880672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74880638 AATGTGTGAT
74880648 AAATGCGTTTATC
1 AAATGCGTTTATC
74880661 AAATGCGTTTAT
1 AAATGCGTTTAT
74880673 TTGATAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
AAATGCGTTTATC
Found at i:74885643 original size:89 final size:89
Alignment explanation
Indices: 74885489--74885758 Score: 477
Period size: 89 Copynumber: 3.0 Consensus size: 89
74885479 ATTCATACCA
* * * * * *
74885489 AATTAAGCCCCTGTTGTTAATTAAAATAATCGATTAAGTCCTTCCGTTAATAGTTTCTGTTATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
74885554 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
74885578 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
74885643 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
*
74885667 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTAGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
74885732 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
74885756 AAT
1 AAT
74885759 CAAATGATGA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 174 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (89 bp):
AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
ACTGTTAAAATAAATTGACAGACC
Found at i:74885901 original size:29 final size:29
Alignment explanation
Indices: 74885863--74885954 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
74885853 TTAAATTGAT
*
74885863 ATAAACTTATAAAAAAATATAAAAACTTATA
1 ATAAA-TTATAAAAAAATATAAAAAATT-TA
* * *
74885894 A-ATATTATCAAAAAGTA-AAAAAATTTA
1 ATAAATTATAAAAAAATATAAAAAATTTA
* * *
74885921 ATAAAGTATAAAAAATTATAAAAAAATTA
1 ATAAATTATAAAAAAATATAAAAAATTTA
74885950 ATAAA
1 ATAAA
74885955 ACTTAATTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.06
28 19 0.38
29 25 0.50
30 2 0.04
31 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (29 bp):
ATAAATTATAAAAAAATATAAAAAATTTA
Found at i:74885944 original size:37 final size:37
Alignment explanation
Indices: 74885872--74885945 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
74885862 TATAAACTTA
*
74885872 TAAAAAAATATAAAAACTTATAAATATTATCAAAAAG
1 TAAAAAAATATAAAAACTTATAAAAATTATCAAAAAG
* * *
74885909 TAAAAAAATTTAATAAA-GTATAAAAAATTATAAAAAA
1 TAAAAAAATATAA-AAACTTAT-AAAAATTATCAAAAA
74885946 ATTAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (37 bp):
TAAAAAAATATAAAAACTTATAAAAATTATCAAAAAG
Found at i:74886583 original size:21 final size:21
Alignment explanation
Indices: 74886547--74886591 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
74886537 TTTTAAAGAA
*
74886547 TTAAATACATTTTTATAAAATT
1 TTAAATACAGTTTTAT-AAATT
*
74886569 TTAAATA-AGTTTTATTAATT
1 TTAAATACAGTTTTATAAATT
74886589 TTA
1 TTA
74886592 CAATTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATACAGTTTTATAAATT
Found at i:74887208 original size:11 final size:11
Alignment explanation
Indices: 74887185--74887229 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
74887175 AACAAATCCT
74887185 CTCTCATATTTC
1 CTCTCA-ATTTC
74887197 CTCTCAATTT-
1 CTCTCAATTTC
*
74887207 C-CTCAATTTT
1 CTCTCAATTTC
74887217 CTCTCAATTTC
1 CTCTCAATTTC
74887228 CT
1 CT
74887230 TCCAAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 2 0.07
11 14 0.47
12 6 0.20
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:74887220 original size:20 final size:21
Alignment explanation
Indices: 74887187--74887229 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
74887177 CAAATCCTCT
74887187 CTCATATTTCCTCTCAATTTC
1 CTCATATTTCCTCTCAATTTC
*
74887208 CTCA-ATTTTCTCTCAATTTC
1 CTCATATTTCCTCTCAATTTC
74887228 CT
1 CT
74887230 TCCAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.49
Consensus pattern (21 bp):
CTCATATTTCCTCTCAATTTC
Found at i:74887284 original size:51 final size:51
Alignment explanation
Indices: 74887209--74887317 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
74887199 CTCAATTTCC
* * * * * *
74887209 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTAAT-AAATCCATATTTAATT
1 TCAATTTCCTATCAAATTCATTCCAAAAATCT-ATCAAACCCATATTTAATT
*
74887260 TCAATTTCCTATCAAATTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTATCAAATTCATTCCAAAAATCTATCAAACCCATATTTAATT
74887311 TCAATTT
1 TCAATTT
74887318 GCTCTCAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTATCAAATTCATTCCAAAAATCTATCAAACCCATATTTAATT
Found at i:74888461 original size:7 final size:7
Alignment explanation
Indices: 74888445--74888476 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
74888435 TGCAAATAGA
*
74888445 TATTTTG
1 TATTTAG
74888452 TATTTAG
1 TATTTAG
74888459 TATTTAG
1 TATTTAG
74888466 TATTTAG
1 TATTTAG
74888473 TATT
1 TATT
74888477 ATGTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:74888482 original size:14 final size:13
Alignment explanation
Indices: 74888448--74888482 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
74888438 AAATAGATAT
74888448 TTTGTATTTAGTA
1 TTTGTATTTAGTA
74888461 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
74888475 TTATGTAT
1 TT-TGTAT
74888483 ATAACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:74889127 original size:18 final size:18
Alignment explanation
Indices: 74889101--74889135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74889091 AGGTGCGTTT
* *
74889101 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
74889119 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
74889136 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:74889566 original size:25 final size:25
Alignment explanation
Indices: 74889537--74889650 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
74889527 TTTAAATTTA
*
74889537 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
**
74889562 TTATTTGATGTAATACGCATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
* ** *
74889589 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
74889607 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
74889633 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
74889651 ACCCTAACCT
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 4 0.06
21 4 0.06
23 2 0.03
24 3 0.04
25 36 0.54
26 9 0.13
27 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:74889673 original size:22 final size:23
Alignment explanation
Indices: 74889643--74889685 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74889633 TTATTTGATG
74889643 TAAT-AAAAACCCTAACCTAATT
1 TAATAAAAAACCCTAACCTAATT
*
74889665 TAATTAAAAACCCTAACCTAA
1 TAATAAAAAACCCTAACCTAA
74889686 ACCCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (23 bp):
TAATAAAAAACCCTAACCTAATT
Found at i:74889688 original size:29 final size:29
Alignment explanation
Indices: 74889650--74890125 Score: 717
Period size: 29 Copynumber: 16.5 Consensus size: 29
74889640 ATGTAATAAA
* **
74889650 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
74889679 AA-CCT-A-A-ACCCTAATTAAAAATCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
74889704 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
74889733 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
74889762 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
74889791 AACCCTAACCTAACCTAATTAAAAACCAT
1 AACCCTAACATAACCTAATTAAAAACCCT
74889820 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
74889849 AACCCTAACATAACTTAATTAAGAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
74889878 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
74889907 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
74889936 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* * *
74889965 AACTCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
74889994 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
**
74890023 AACCCTAACATAATTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
74890052 AACCCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
74890081 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
74890110 AAACCCTAACAATAAC
1 -AACCCTAAC-ATAAC
74890126 ATGAGCGCAT
Statistics
Matches: 407, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
25 16 0.04
26 3 0.01
27 2 0.00
28 3 0.01
29 369 0.91
30 9 0.02
31 5 0.01
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
AACCCTAACATAACCTAATTAAAAACCCT
Found at i:74894333 original size:124 final size:124
Alignment explanation
Indices: 74894105--74894454 Score: 567
Period size: 124 Copynumber: 2.8 Consensus size: 124
74894095 CCCAAACTTG
*
74894105 CTACTGTAGCAAAATCGTGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
74894170 AAGAAGCAATTTTATACTTTTTGCTCAGAAACGTGAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * *
74894229 CTGCTGTAGAAAAATAGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
74894294 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * * *
74894353 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATTGCATCCTCG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
74894418 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
74894455 CTCGAAATAA
Statistics
Matches: 208, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 207 1.00
125 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:74897678 original size:12 final size:13
Alignment explanation
Indices: 74897661--74897689 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
74897651 TTTAGATAAA
74897661 TTAATTCAT-ATT
1 TTAATTCATCATT
74897673 TTAATTCATCATT
1 TTAATTCATCATT
74897686 TTAA
1 TTAA
74897690 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:74901456 original size:19 final size:18
Alignment explanation
Indices: 74901432--74901477 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
74901422 CGCTCCTTTT
* *
74901432 TGCATTCATTTCATGCATC
1 TGCATTCATGTCAT-CATA
74901451 TGCATTGCATGTCATCATA
1 TGCATT-CATGTCATCATA
74901470 TGCATTCA
1 TGCATTCA
74901478 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:74910765 original size:12 final size:13
Alignment explanation
Indices: 74910748--74910776 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
74910738 TTTAGATAAA
74910748 TTAATTCAT-ATT
1 TTAATTCATCATT
74910760 TTAATTCATCATT
1 TTAATTCATCATT
74910773 TTAA
1 TTAA
74910777 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:74916059 original size:37 final size:37
Alignment explanation
Indices: 74916009--74916119 Score: 152
Period size: 37 Copynumber: 3.0 Consensus size: 37
74915999 ATACTCCCTG
*
74916009 ATTTAGCGTGTTATAGGGTGGATTAACTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
*
74916046 ATTTAGCGTGTTATATGGTGGATTAGCTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
* * * *
74916083 ATTT-GACGCGTTATCGGGTAGATTAGCTCTTACGAGC
1 ATTTAG-CGTGTTATAGGGTGGATTAGCTCTTATGAGC
74916120 GATTGGCGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (37 bp):
ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
Found at i:74917208 original size:48 final size:49
Alignment explanation
Indices: 74917141--74917245 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 49
74917131 GACACGGTTG
74917141 TGTGTCCCTATTTCAAAAGTTACACAACTT-GGGCATTCCACACGGCCA
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
* ** * *
74917189 TGTGTCCTTATTTTGAAAGTTACACGACTTGGGGCATTCCACACGGCCG
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
74917238 TGTGTCCC
1 TGTGTCCC
74917246 CTGTTTTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 26 0.52
49 24 0.48
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
Found at i:74934066 original size:42 final size:42
Alignment explanation
Indices: 74934002--74934101 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
74933992 ATCCAACACA
*
74934002 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
** *
74934044 TCGCACACTTAGTGCCCATTATTCAACATTGTCATTTTATTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
74934086 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
74934102 GTTCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:74935965 original size:29 final size:29
Alignment explanation
Indices: 74935923--74936009 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
74935913 CCATCAATGG
*
74935923 TACATAGTACCTGATAAATATAACACCGA
1 TACAGAGTACCTGATAAATATAACACCGA
* * *
74935952 TACAGAGTGCCTGATAACTATAACACCGG
1 TACAGAGTACCTGATAAATATAACACCGA
* * * *
74935981 TAGAAAGTACCTAATAAATGTAATCACCG
1 TACAGAGTACCTGATAAATATAA-CACCG
74936010 GCACATAGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 42 0.89
30 5 0.11
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (29 bp):
TACAGAGTACCTGATAAATATAACACCGA
Found at i:74936937 original size:7 final size:7
Alignment explanation
Indices: 74936927--74936962 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 7
74936917 AAAATTTACA
74936927 AAAAAAG
1 AAAAAAG
74936934 AAAAAAG
1 AAAAAAG
74936941 AAAAGAAG
1 AAAA-AAG
74936949 AAAAGAAG
1 AAAA-AAG
74936957 AAAAAA
1 AAAAAA
74936963 AACAGATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 13 0.46
8 15 0.54
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:74936959 original size:16 final size:15
Alignment explanation
Indices: 74936926--74936963 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
74936916 TAAAATTTAC
74936926 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
74936941 AAAAGAAGAAAAGAAG
1 AAAAAAAGAAAA-AAG
74936957 AAAAAAA
1 AAAAAAA
74936964 ACAGATAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:74937355 original size:19 final size:20
Alignment explanation
Indices: 74937320--74937359 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
74937310 AACGATTTCT
*
74937320 GAAAAATTATTACTTTCCTG
1 GAAAAATTAATACTTTCCTG
74937340 GAAAAATTAATA-TTTCCTG
1 GAAAAATTAATACTTTCCTG
74937359 G
1 G
74937360 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
GAAAAATTAATACTTTCCTG
Found at i:74937938 original size:16 final size:19
Alignment explanation
Indices: 74937913--74937968 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
74937903 TAAAATTGAA
74937913 ATATTAAATAATTTATTAA-
1 ATATT-AATAATTTATTAAT
74937932 A-A-TAATAAATTATATTAATT
1 ATATTAAT-AATT-TATTAA-T
74937952 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
74937969 TATGACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 5 0.16
18 7 0.23
19 1 0.03
20 6 0.19
21 5 0.16
22 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTAATAATTTATTAAT
Found at i:74938330 original size:13 final size:13
Alignment explanation
Indices: 74938312--74938338 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74938302 TCAACACTAA
74938312 TATTGAATCAGAT
1 TATTGAATCAGAT
74938325 TATTGAATCAGAT
1 TATTGAATCAGAT
74938338 T
1 T
74938339 TTAATCCACT
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:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TATTGAATCAGAT
Found at i:74941261 original size:15 final size:16
Alignment explanation
Indices: 74941241--74941275 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
74941231 TTCAATTTTT
*
74941241 TAATAATTTTAAA-AA
1 TAATAATCTTAAATAA
74941256 TAATAATCTTAAATAA
1 TAATAATCTTAAATAA
74941272 TAAT
1 TAAT
74941276 CTTTCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATCTTAAATAA
Found at i:74941271 original size:13 final size:13
Alignment explanation
Indices: 74941253--74941278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74941243 ATAATTTTAA
74941253 AAATAATAATCTT
1 AAATAATAATCTT
74941266 AAATAATAATCTT
1 AAATAATAATCTT
74941279 TCAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATAATCTT
Found at i:74941317 original size:16 final size:15
Alignment explanation
Indices: 74941287--74941343 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
74941277 TTTCAATATT
74941287 AATATTTTAATAATA
1 AATATTTTAATAATA
74941302 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
**
74941321 AATACATTAATAATA
1 AATATTTTAATAATA
*
74941336 AATGTTTT
1 AATATTTT
74941344 GCAGTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 1 0.03
18 2 0.06
19 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:74950501 original size:20 final size:20
Alignment explanation
Indices: 74950478--74950527 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
74950468 GTTCTGCCAA
* * *
74950478 CTTGACTGCGAATCTGGTGG
1 CTTGACTACAAATCTAGTGG
74950498 CTTGACTACAAATCTAGTGG
1 CTTGACTACAAATCTAGTGG
74950518 CTTGACTACA
1 CTTGACTACA
74950528 TATATCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
CTTGACTACAAATCTAGTGG
Done.