Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 142 of 182
Found at i:44048099 original size:29 final size:29
Alignment explanation
Indices: 44048014--44048405 Score: 249
Period size: 29 Copynumber: 13.4 Consensus size: 29
44048004 GAAGTCGAAC
** * *
44048014 TTTTGGAAAATTGAGGGT-AAAATGGTAAT
1 TTTTGGAAGTTTGGGGGTAAAAAT-GTGAT
* *
44048043 TTTTGGATGCTTGGGGGT--AAATGGTGAT
1 TTTTGGAAGTTTGGGGGTAAAAAT-GTGAT
*
44048071 TTTTGGAAGTTTGGGGGTAAAAATATGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
** * *
44048100 TTTTGGAAGTACGAGGTTAAAAATGTGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
* *
44048129 TTTTGGAAGTTCGGGGGCAAAAATGTGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
* **
44048158 TTTTGGAAGTTCGGGGACAAAAATGTGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
* * * * *
44048187 TTTTGAAAGTTCGAGGGTAAAAATATAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
*
44048216 TTTTAAGAAGTTTAGGGGGTAAAAATGT-ACT
1 TTTT-GGAAGTTT-GGGGGTAAAAATGTGA-T
* ** * *
44048247 TTTTGGAAAATTT-AAGGTTAAAATGTAAT
1 TTTTGG-AAGTTTGGGGGTAAAAATGTGAT
* * * * *
44048276 TTTT--TAGTTCTTGGAGCTCAAAATGTAAT
1 TTTTGGAAG-T-TTGGGGGTAAAAATGTGAT
* * * * *
44048305 TTTTGGAAGTGTAGGGGTTAAAATATAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
* * *
44048334 TTTTGGAAAGTTTGGAGGTTAAAATGTAAT
1 TTTTGG-AAGTTTGGGGGTAAAAATGTGAT
* * * *
44048364 TTTAGAAAGTTTAGGGGTCAAAATGTGAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTGAT
44048393 TTTTGGATAGTTT
1 TTTTGGA-AGTTT
44048406 AGGGTTTTGG
Statistics
Matches: 291, Mismatches: 58, Indels: 27
0.77 0.15 0.07
Matches are distributed among these distances:
26 1 0.00
27 1 0.00
28 27 0.09
29 197 0.68
30 41 0.14
31 24 0.08
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (29 bp):
TTTTGGAAGTTTGGGGGTAAAAATGTGAT
Found at i:44048135 original size:58 final size:57
Alignment explanation
Indices: 44048069--44048739 Score: 320
Period size: 58 Copynumber: 11.6 Consensus size: 57
44048059 GTAAATGGTG
* * * *
44048069 ATTTTTGGAAGTTTGGGGGTAAAAATATGATTTTTGGAAGTACGAGGTTAAAAATGTG
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGT-TGAGGTTAAAAATGTA
* * * * ** *
44048127 ATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGGGGACAAAAATGTG
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTT-GAGGTTAAAAATGTA
* * * * * * *
44048185 ATTTTTGAAAGTTCGAGGGTAAAAATATAATTTTTAAGAAGTTTAGGGGGTAAAAATGTA
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTT-GGAAG-TT-GAGGTTAAAAATGTA
* * ** * * *** * *
44048245 CTTTTTGGAAAATTT-AAGGTTAAAATGTAATTTTTTAGTTCTTG-GAGCTCAAAATGTA
1 ATTTTTGG-AAGTTTGGGGGTAAAAATGTAA-TTTTTGGAAGTTGAG-GTTAAAAATGTA
* * * *
44048303 ATTTTTGGAAGTGTAGGGGTTAAAATATAATTTTTGGAAAGTTTGGAGGTT-AAAATGTA
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGG-AAG-TT-GAGGTTAAAAATGTA
* * * * * *
44048362 ATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTTTGGATAGTTTAGG--------G--
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGA-AGTTGAGGTTAAAAATGTA
* * ** *
44048410 --TTTTGGAAGTTCGGGGGTAAAAATGTGATTTTTGGAAGTTTGAGGACAAAAATGTG
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAG-TTGAGGTTAAAAATGTA
* * * * * * * *
44048466 ATGTTTAGAAGTTCGAGGGCAAAAATGTAATTTTTAGAAAGTTCAAGG-CAAAAATGTA
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTT-GGAAGTT-GAGGTTAAAAATGTA
** * * * * *
44048524 ATTTTTAAAAGTTTGAGGGTAAAACTGTAATTTTTGAGAAGTTTAGGGGGT-AAAATGTT
1 ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTG-GAAG-TT-GAGGTTAAAAATGTA
* *
44048583 ATTTTTGGATAGTTT-GGGGTTAAAATGTAATTTTTGAGAAGCTTGGAGG-TCAAAATGTA
1 ATTTTTGGA-AGTTTGGGGGTAAAAATGTAATTTTTG-GAAG-TT-GAGGTTAAAAATGTA
* * * * *
44048642 ATTTTTGGAAAGTGTAGGGGTTAAAATATAATTTTTGGAAAGTTTAGAGGTT-AAAATATA
1 ATTTTTGG-AAGTTTGGGGGTAAAAATGTAATTTTTGG-AAG-TT-GAGGTTAAAAATGTA
* * * * *
44048702 ATTTTTAGAAAGTTTAGGGGTCAAAACGTGATTTTTGG
1 ATTTTT-GGAAGTTTGGGGGTAAAAATGTAATTTTTGG
44048740 GTAGTCTAGG
Statistics
Matches: 484, Mismatches: 92, Indels: 72
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.00
46 36 0.07
50 1 0.00
54 1 0.00
57 15 0.03
58 186 0.38
59 122 0.25
60 109 0.23
61 12 0.02
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (57 bp):
ATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTGAGGTTAAAAATGTA
Found at i:44048385 original size:88 final size:86
Alignment explanation
Indices: 44048177--44048739 Score: 259
Period size: 88 Copynumber: 6.5 Consensus size: 86
44048167 TTCGGGGACA
* * * * *
44048177 AAAATGTGATTTTTGAAAG-TTCGAGGGTAAAAATATAATTTTTAAGAAGTTTAGGGGGTAAAAA
1 AAAATGT-AATTTTGAAAGTTTAG-GGGTCAAAATGTAATTTTT-GGAAGTTTA-GGGGTAAAAA
* *
44048241 TGTACTTTTTGGAAAATTTAAGGTT
62 TATAATTTTTGGAAAATTTAAGGTT
** * * * *
44048266 AAAATGTAATTTT-TTAGTTCTTGGAGCTCAAAATGTAATTTTTGGAAGTGTAGGGGTTAAAATA
1 AAAATGTAATTTTGAAAGTT-TAGG-GGTCAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATA
* *
44048330 TAATTTTTGGAAAGTTTGGAGGTT
64 TAATTTTTGGAAAATTT-AAGGTT
* ** *
44048354 AAAATGTAATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTTTGGATAGTTTA-GGGT---TTTG
1 AAAATGTAATTTT-GAAAGTTTAGGGGTCAAAATGTAATTTTTGGA-AGTTTAGGGGTAAAAATA
* * * ***
44048415 GAA-GTTCGG---GGGTAA----
64 TAATTTTTGGAAAATTTAAGGTT
* * * *** * * * * *
44048430 AAATGTG-ATTTTTGGAAGTTTGA-GGACAAAAATGTGATGTTTAGAAG-TTCGAGGGCAAAAAT
1 AAA-ATGTAATTTTGAAAGTTT-AGGGGTCAAAATGTAATTTTTGGAAGTTTAG-GGGTAAAAAT
* * * * **
44048492 GTAATTTTTAGAAAGTTCAAGGCA
63 ATAATTTTTGGAAAATTTAAGGTT
*
44048516 AAAATGTAATTTTTAAAAGTTT-GAGGGT-AAAACTGTAATTTTTGAGAAGTTTAGGGGGT-AAA
1 AAAATGTAA-TTTTGAAAGTTTAG-GGGTCAAAA-TGTAATTTTTG-GAAGTTTA-GGGGTAAAA
* * * * **
44048578 ATGTTATTTTTGGATAGTTTGGGGTT
61 ATATAATTTTTGGAAAATTTAAGGTT
* * *
44048604 AAAATGTAATTTTTGAGAAGCTT-GGAGGTCAAAATGTAATTTTTGGAAAGTGTAGGGGTTAAAA
1 AAAATGTAA-TTTTGA-AAGTTTAGG-GGTCAAAATGTAATTTTTGG-AAGTTTAGGGGTAAAAA
*
44048668 TATAATTTTTGGAAAGTTTAGAGGTT
62 TATAATTTTTGGAAAATTTA-AGGTT
* * *
44048694 AAAATATAATTTTTAGAAAGTTTAGGGGTCAAAACGTGATTTTTGG
1 AAAATGTAA-TTTT-GAAAGTTTAGGGGTCAAAATGTAATTTTTGG
44048740 GTAGTCTAGG
Statistics
Matches: 357, Mismatches: 79, Indels: 75
0.70 0.15 0.15
Matches are distributed among these distances:
73 2 0.01
74 2 0.01
75 27 0.08
76 9 0.03
77 2 0.01
78 4 0.01
79 3 0.01
80 1 0.00
81 2 0.01
82 3 0.01
84 4 0.01
85 5 0.01
86 8 0.02
87 47 0.13
88 102 0.29
89 83 0.23
90 49 0.14
91 4 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.37
Consensus pattern (86 bp):
AAAATGTAATTTTGAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAGTTTAGGGGTAAAAATATA
ATTTTTGGAAAATTTAAGGTT
Found at i:44048460 original size:29 final size:29
Alignment explanation
Indices: 44048410--44048691 Score: 196
Period size: 29 Copynumber: 9.6 Consensus size: 29
44048400 TAGTTTAGGG
* * * *
44048410 TTTTGGAAGTTCGGGGGTAAAAATGTGAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAAT
* *
44048439 TTTTGGAAGTTTGAGGACAAAAATGTGAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAAT
* * *
44048468 GTTTAGAAGTTCGAGGGCAAAAATGTAAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAAT
* * *
44048497 TTTTAGAAAG-TTCAAGGCAAAAATGTAAT
1 TTTT-GGAAGTTTGAGGGCAAAAATGTAAT
** * *
44048526 TTTTAAAAGTTTGAGGGTAAAACTGTAAT
1 TTTTGGAAGTTTGAGGGCAAAAATGTAAT
** *
44048555 TTTTGAGAAGTTT-AGGGGGTAAAATGTTAT
1 TTTTG-GAAGTTTGA-GGGCAAAAATGTAAT
**
44048585 TTTTGGATAGTTTG-GGGTTAAAATGTAAT
1 TTTTGGA-AGTTTGAGGGCAAAAATGTAAT
* *
44048614 TTTTGAGAAGCTTGGAGGTC-AAAATGTAAT
1 TTTTG-GAAG-TTTGAGGGCAAAAATGTAAT
* ** *
44048644 TTTTGGAAAGTGT-AGGGGTTAAAATATAAT
1 TTTTGG-AAGTTTGA-GGGCAAAAATGTAAT
44048674 TTTTGGAAAGTTTAGAGG
1 TTTTGG-AAGTTT-GAGG
44048692 TTAAAATATA
Statistics
Matches: 202, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
28 5 0.02
29 118 0.58
30 74 0.37
31 4 0.02
32 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
TTTTGGAAGTTTGAGGGCAAAAATGTAAT
Found at i:44048587 original size:30 final size:30
Alignment explanation
Indices: 44048516--44048738 Score: 194
Period size: 30 Copynumber: 7.5 Consensus size: 30
44048506 GTTCAAGGCA
* *
44048516 AAAATGTAATTTTT-AAAAGTTT-GAGGGT
1 AAAATGTAATTTTTGAGAAGTTTAGGGGGT
44048544 AAAACTGTAATTTTTGAGAAGTTTAGGGGGT
1 AAAA-TGTAATTTTTGAGAAGTTTAGGGGGT
* *
44048575 AAAATGTTATTTTTG-GATAGTTT-GGGGTT
1 AAAATGTAATTTTTGAGA-AGTTTAGGGGGT
* *
44048604 AAAATGTAATTTTTGAGAAGCTT-GGAGGT
1 AAAATGTAATTTTTGAGAAGTTTAGGGGGT
* *
44048633 CAAAATGTAATTTTTG-GAAAGTGTAGGGGTT
1 -AAAATGTAATTTTTGAG-AAGTTTAGGGGGT
* * *
44048664 AAAATATAATTTTTG-GAAAGTTTAGAGGTT
1 AAAATGTAATTTTTGAG-AAGTTTAGGGGGT
*
44048694 AAAATATAATTTTT-AGAAAGTTTA-GGGGT
1 AAAATGTAATTTTTGAG-AAGTTTAGGGGGT
* *
44048723 CAAAACGTGATTTTTG
1 -AAAATGTAATTTTTG
44048739 GGTAGTCTAG
Statistics
Matches: 164, Mismatches: 20, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
28 4 0.02
29 43 0.26
30 104 0.63
31 13 0.08
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTAGGGGGT
Found at i:44048692 original size:60 final size:59
Alignment explanation
Indices: 44048410--44048738 Score: 248
Period size: 60 Copynumber: 5.6 Consensus size: 59
44048400 TAGTTTAGGG
* * * * *
44048410 TTTTGG-AAGTTCGGGGGTAAAAATGTGATTTTTG-GAAGTTT-GAGGACAAAAATGTGAT
1 TTTTGGAAAGTT-AGGGGTTAAAATGTAATTTTTGAGAAGTTTAGAGGTC-AAAATGTAAT
* * * ** *
44048468 GTTTAG-AAGTTCGAGGGCAAAAATGTAATTTTT-AGAAAGTTCA-AGG-CAAAAATGTAAT
1 TTTTGGAAAGTTAG-GGGTTAAAATGTAATTTTTGAG-AAGTTTAGAGGTC-AAAATGTAAT
* * * *
44048526 TTTT-AAAAGTTTGAGGG-TAAAACTGTAATTTTTGAGAAGTTTAGGGGGT-AAAATGTTAT
1 TTTTGGAAAGTTAG-GGGTTAAAA-TGTAATTTTTGAGAAGTTTA-GAGGTCAAAATGTAAT
* * * *
44048585 TTTTGGATAGTTTGGGGTTAAAATGTAATTTTTGAGAAGCTTGGAGGTCAAAATGTAAT
1 TTTTGGAAAGTTAGGGGTTAAAATGTAATTTTTGAGAAGTTTAGAGGTCAAAATGTAAT
* * *
44048644 TTTTGGAAAGTGTAGGGGTTAAAATATAATTTTTG-GAAAGTTTAGAGGTTAAAATATAAT
1 TTTTGGAAAGT-TAGGGGTTAAAATGTAATTTTTGAG-AAGTTTAGAGGTCAAAATGTAAT
* * * *
44048704 TTTTAGAAAGTTTAGGGGTCAAAACGTGATTTTTG
1 TTTTGGAAAG-TTAGGGGTTAAAATGTAATTTTTG
44048739 GGTAGTCTAG
Statistics
Matches: 223, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
57 5 0.02
58 71 0.32
59 64 0.29
60 82 0.37
61 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (59 bp):
TTTTGGAAAGTTAGGGGTTAAAATGTAATTTTTGAGAAGTTTAGAGGTCAAAATGTAAT
Found at i:44055394 original size:22 final size:22
Alignment explanation
Indices: 44055345--44055394 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
44055335 TAAGAGGTAA
* **
44055345 ATTAAATTATAATTTTTATGAT
1 ATTAAAATATAATTTTTAAAAT
*
44055367 AGTAAAATATAATTTTTAAAAT
1 ATTAAAATATAATTTTTAAAAT
44055389 ATTAAA
1 ATTAAA
44055395 TTAAGATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAAAATATAATTTTTAAAAT
Found at i:44058344 original size:23 final size:22
Alignment explanation
Indices: 44058318--44058387 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 22
44058308 TTTATTTAAC
44058318 TTAATCGAACATATTCACGAACA
1 TTAAT-GAACATATTCACGAACA
* ** *
44058341 TTAAATGAACATTTTCATAAATA
1 TT-AATGAACATATTCACGAACA
*
44058364 TATAATTGAACATGTTCACGAACA
1 T-TAA-TGAACATATTCACGAACA
44058388 ATGTTAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (22 bp):
TTAATGAACATATTCACGAACA
Found at i:44060378 original size:5 final size:5
Alignment explanation
Indices: 44060369--44060398 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
44060359 TATAATAAAT
*
44060369 TTTAA ATTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
44060399 AATGTCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:44062729 original size:50 final size:50
Alignment explanation
Indices: 44062656--44062760 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 50
44062646 AGGTGCAAAT
* *
44062656 TGAAACCGTAATGGCAAATCTCATACACCTAAAGATGTAGAGGGGCAGAA
1 TGAAGCCGCAATGGCAAATCTCATACACCTAAAGATGTAGAGGGGCAGAA
* * * *
44062706 TGAAGCCGCAATGTCAAATCTCATTCACCTAAAGCTGTAGAGGGGCAGAT
1 TGAAGCCGCAATGGCAAATCTCATACACCTAAAGATGTAGAGGGGCAGAA
44062756 TGAAG
1 TGAAG
44062761 TCACAAGGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (50 bp):
TGAAGCCGCAATGGCAAATCTCATACACCTAAAGATGTAGAGGGGCAGAA
Found at i:44062791 original size:50 final size:50
Alignment explanation
Indices: 44062670--44062792 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 50
44062660 ACCGTAATGG
* * * *
44062670 CAAATCTCATACACCTAAAGATGTAGAGGGGCAGAATGAAGCCGCAATGT
1 CAAATCTCATACACCTAAAGCTGTAGAGGGGCAGAATGAAGCCACAAGGA
* * *
44062720 CAAATCTCATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTCACAAGGA
1 CAAATCTCATACACCTAAAGCTGTAGAGGGGCAGAATGAAGCCACAAGGA
* * * *
44062770 CGAATCTTATACTCCTGAAGCTG
1 CAAATCTCATACACCTAAAGCTG
44062793 AAATGAAGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (50 bp):
CAAATCTCATACACCTAAAGCTGTAGAGGGGCAGAATGAAGCCACAAGGA
Found at i:44062861 original size:40 final size:40
Alignment explanation
Indices: 44062817--44063226 Score: 300
Period size: 40 Copynumber: 10.3 Consensus size: 40
44062807 TACAACCTCT
* *
44062817 GATCTTTTACCCTAACCAAAGGACAGATTGAAGACCATCC
1 GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* ** * * * *
44062857 GATCTCTTACCCCGATCATG-GGGCATATTGAAAACCATCT
1 GATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACCATCC
* *
44062897 AATCTTTTACCCTAACCAGA-GGCAGATTGAAGACCATTC
1 GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * * *
44062936 GATCTCTTATCCC-GATCATGA-GGCAGATTGAAAACCATCC
1 GATCTTTTA-CCCTAACCA-GAGGGCAGATTGAAGACCATCC
*
44062976 GATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCATCC
1 GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* ** * * * *
44063016 GATCTCTTACCCCGATCATG-GGGTAGATTGAAAACCATTC
1 GATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACCATCC
* * * *
44063056 GATCTCTTACCCTATCTAGAGGGCAGATTGAAGACCATTC
1 GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * * * **
44063096 GATCTTTTACCCCTGATCA-TGGGCAGATTGAAGA-AATTT
1 GATCTTTTA-CCCTAACCAGAGGGCAGATTGAAGACCATCC
* * *
44063135 AATCTTTTACCCTAACTAGAGGGCAGATTGAAGACTA-CC
1 GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * ** * *
44063174 AGATCTCTTA-CCTCGACCATTGGACAGATTGAA-ACAATCC
1 -GATCTTTTACCCT-AACCAGAGGGCAGATTGAAGACCATCC
*
44063214 AATCTTTTACCCT
1 GATCTTTTACCCT
44063227 TAAAGTTATA
Statistics
Matches: 285, Mismatches: 70, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
38 6 0.02
39 70 0.25
40 203 0.71
41 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (40 bp):
GATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
Found at i:44062950 original size:79 final size:80
Alignment explanation
Indices: 44062810--44063226 Score: 508
Period size: 79 Copynumber: 5.3 Consensus size: 80
44062800 GTGAAGTTAC
* * *
44062810 AACC-TCTGATCTTTTACCCTAACCAAAGGACAGATTGAAGACCATCCGATCTCTTACCCCGATC
1 AACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATC
*
44062874 ATGGGGCATATTGAA
66 ATGGGGCAGATTGAA
* *
44062889 AACCATCTAATCTTTTACCCTAACCAGA-GGCAGATTGAAGACCATTCGATCTCTTATCCCGATC
1 AACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATC
*
44062953 ATGAGGCAGATTGAA
66 ATGGGGCAGATTGAA
** *
44062968 AACCATCCGATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCATCCGATCTCTTACCCCGATC
1 AACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATC
*
44063033 ATGGGGTAGATTGAA
66 ATGGGGCAGATTGAA
* * * * * *
44063048 AACCAT-TCGATCTCTTACCCTATCTAGAGGGCAGATTGAAGACCATTCGATCTTTTACCCCTGA
1 AACCATCT-AATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCC-GA
44063112 TCAT-GGGCAGATTGAA
64 TCATGGGGCAGATTGAA
* * * *
44063128 GAA--ATTTAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACTA-CCAGATCTCTTACCTCGA
1 -AACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC-GATCTCTTACCCCGA
* * *
44063190 CCATTGGACAGATTG-A
64 TCATGGGGCAGATTGAA
* *
44063206 AACAATCCAATCTTTTACCCT
1 AACCATCTAATCTTTTACCCT
44063227 TAAAGTTATA
Statistics
Matches: 295, Mismatches: 33, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
77 2 0.01
78 7 0.02
79 146 0.49
80 132 0.45
81 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (80 bp):
AACCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATC
ATGGGGCAGATTGAA
Found at i:44063140 original size:159 final size:158
Alignment explanation
Indices: 44062818--44063226 Score: 522
Period size: 159 Copynumber: 2.6 Consensus size: 158
44062808 ACAACCTCTG
* * *
44062818 ATCTTTTACCCTAACCAAAGGACAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAT
1 ATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAG
* *
44062883 ATTGAAAACCATCTAATCTTTTACCCTAACCAGAGGCAGATTGAAGACCATTCGATCTCTTATCC
66 ATTGAAAACCATCTAATCTCTTACCCTAACCAGAGGCAGATTGAAGACCATTCGATCTCTTACCC
*
44062948 CGATCATGAGGCAGATTGAAAACCATCCG
131 CGATCATGAGGCAGATTGAAAA-CATCCA
* *
44062977 ATCTTTTACCCTAACCAGAGGGCAGATTAAAGACCATCCGATCTCTTACCCCGATCATGGGGTAG
1 ATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAG
* * * *
44063042 ATTGAAAACCAT-TCGATCTCTTACCCTATCTAGAGGGCAGATTGAAGACCATTCGATCTTTTAC
66 ATTGAAAACCATCT-AATCTCTTACCCTAACCAGA-GGCAGATTGAAGACCATTCGATCTCTTAC
**
44063106 CCCTGATCATG-GGCAGATTGAAGAA-ATTTA
129 CCC-GATCATGAGGCAGATTGAA-AACATCCA
* * * * * *
44063136 ATCTTTTACCCTAACTAGAGGGCAGATTGAAGACTA-CCAGATCTCTTACCTCGACCATTGGACA
1 ATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC-GATCTCTTACCCCGATCATGGGGCA
* * *
44063200 GATTG-AAACAATCCAATCTTTTACCCT
65 GATTGAAAACCATCTAATCTCTTACCCT
44063227 TAAAGTTATA
Statistics
Matches: 218, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
158 20 0.09
159 148 0.68
160 41 0.19
161 9 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (158 bp):
ATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTACCCCGATCATGGGGCAG
ATTGAAAACCATCTAATCTCTTACCCTAACCAGAGGCAGATTGAAGACCATTCGATCTCTTACCC
CGATCATGAGGCAGATTGAAAACATCCA
Found at i:44063694 original size:5 final size:5
Alignment explanation
Indices: 44063684--44063708 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44063674 ATAATAAATT
44063684 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
44063709 ATGTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:44065012 original size:10 final size:11
Alignment explanation
Indices: 44064992--44065030 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
44064982 TTATATATGC
44064992 ATATGTATATT
1 ATATGTATATT
44065003 ATAT-TATATT
1 ATATGTATATT
44065013 AT-TGTAT-TT
1 ATATGTATATT
44065022 -TATGTATAT
1 ATATGTATAT
44065031 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.04
9 8 0.32
10 12 0.48
11 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (11 bp):
ATATGTATATT
Found at i:44065033 original size:21 final size:21
Alignment explanation
Indices: 44064999--44065050 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44064989 TGCATATGTA
*
44064999 TATTATAT-TATATTATTGTAT
1 TATTATGTATATATTATT-TAT
*
44065020 T-TTATGTATATATTATTTTT
1 TATTATGTATATATTATTTAT
44065040 TATTATGTATA
1 TATTATGTATA
44065051 CTTGTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (21 bp):
TATTATGTATATATTATTTAT
Found at i:44078201 original size:19 final size:19
Alignment explanation
Indices: 44078179--44078221 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
44078169 AAACGTAAAT
44078179 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
44078198 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
44078217 TAAAT
1 TAAAT
44078222 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:44079701 original size:22 final size:22
Alignment explanation
Indices: 44079679--44079720 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44079669 TTCCTGGACA
44079679 AAAAT-AAATA-AATAAATAAAC
1 AAAATAAAATAGAA-AAATAAAC
44079700 AAAATAAAATAGAAAAATAAA
1 AAAATAAAATAGAAAAATAAA
44079721 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAATAAAATAGAAAAATAAAC
Found at i:44079706 original size:13 final size:12
Alignment explanation
Indices: 44079680--44079731 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
44079670 TCCTGGACAA
*
44079680 AAATAAATAAAT
1 AAATAAAAAAAT
44079692 AAATAAACAAAAT
1 AAATAAA-AAAAT
*
44079705 AAAATAGAAAAAT
1 -AAATAAAAAAAT
44079718 AAA-AATAAAAAT
1 AAATAA-AAAAAT
44079730 AA
1 AA
44079732 TTCGGTTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.03
12 18 0.53
13 9 0.26
14 6 0.18
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:44080690 original size:21 final size:20
Alignment explanation
Indices: 44080658--44080696 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44080648 TGCCTTAGTC
44080658 ATTCAGGAAATGGAGGTTGA
1 ATTCAGGAAATGGAGGTTGA
*
44080678 ATTCTAGGTAATGGAGGTT
1 ATTC-AGGAAATGGAGGTT
44080697 TCGATCGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTCAGGAAATGGAGGTTGA
Found at i:44082520 original size:21 final size:22
Alignment explanation
Indices: 44082474--44082534 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
44082464 TGATCTAAGG
* *
44082474 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
44082495 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
44082517 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
44082535 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:44082525 original size:15 final size:16
Alignment explanation
Indices: 44082500--44082529 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44082490 GAATTAAAAA
44082500 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
44082516 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
44082530 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:44083351 original size:19 final size:19
Alignment explanation
Indices: 44083329--44083371 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
44083319 AAACATAAAT
44083329 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
44083348 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
44083367 TAAAT
1 TAAAT
44083372 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:44101542 original size:14 final size:14
Alignment explanation
Indices: 44101523--44101552 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44101513 AAAAACAAAA
44101523 TATATAAATTTATT
1 TATATAAATTTATT
44101537 TATATAAATTTATT
1 TATATAAATTTATT
44101551 TA
1 TA
44101553 AAATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATAAATTTATT
Found at i:44101560 original size:14 final size:14
Alignment explanation
Indices: 44101526--44101578 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
44101516 AACAAAATAT
*
44101526 ATAAATTTATTTAT
1 ATAAATTTATTTAA
44101540 ATAAATTTATTTAA
1 ATAAATTTATTTAA
44101554 A-ATAA-TTA--TAA
1 ATA-AATTTATTTAA
44101565 GATAAATTTATTTA
1 -ATAAATTTATTTA
44101579 TAATTAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
11 3 0.09
12 3 0.09
13 8 0.25
14 16 0.50
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATAAATTTATTTAA
Found at i:44101874 original size:717 final size:718
Alignment explanation
Indices: 44100516--44102271 Score: 2505
Period size: 717 Copynumber: 2.4 Consensus size: 718
44100506 TCAATTATTG
44100516 TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAACCGGTCGAATTGATCTAATTCGATTAATC
1 TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAACCGGTCGAATTGATCTAATTCGATTAATC
* * *
44100581 AGTCGATTAACTGATCTAGTTTGGTCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTTAGTTAACG
66 AGTCGATTAACTGATCTAGTTCGATCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTCAGTTAACG
* * *
44100646 ATTAATTCGGTTCAAAATCAGGTTATTAACTGAATTAACCGAACTTAAAAAATAATATTATATAT
131 GTTAATTCGGTTCGAAATCAGGTTATTAACTGAATTAACCGAACTTAATAAATAATATTATATAT
* *
44100711 TATATGTATTAAGCTATTATTAATTCGGTTAATTTGGATAATTCGGTCAAATGAACATTATCAAT
196 TATATGTATTAGGCTATTACTAATTCGGTTAATTTGGATAATTCGGTCAAATGAACATTATCAAT
**
44100776 TTATTTATTTTGACATGTTTTATACTTG-TTT-----ATATATATATATATATATTTATTTATTT
261 TTATTTATTTTGACATGTTTTATACTTGTTTTACAAAATATATATATATATATATAAATTTATTT
*
44100835 AAAATAATTATAAGATAAATTTATTTATAATTAATGGTTGACATTCTTAGTGGTGTTCAAATTTC
326 AAAATAATTATAAGATAAATTTATTTATAATTAATGGTTGACATTCTTAGGGGTGTTCAAATTTC
** *
44100900 GGTTAAAAACGAATTAATTGGTCGAATTGATCTAATTCGATTAATCGGTCGATTAACTGATCTAG
391 GGTTAAAAACGAATTAACCGGTCGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAG
* * *
44100965 TTCGATCGGAGGTCAGTTAAAAGTTTTTTTGGAATTTTAGTTAACGGTTAATTCGGTTCGAAATC
456 TTCGATCGGAGGTCAGTTAAAAGTTTTTTTGGAATTTCAGCTAACAGTTAATTCGGTTCGAAATC
*
44101030 AGGTTATTAACCGAATTAACCGAACTTAATAAATAATATTATATATTATATGTATTAAGCTATTA
521 AGGTTATTAACCGAATAAACCGAACTTAATAAATAATATTATATATTATATGTATTAAGCTATTA
* *
44101095 TTAATTCGGTTAATTTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTT
586 CTAATTCAGTTAATTTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTT
44101160 TTATACTTG-T-T-TAT-A-TA-T-AT-A-TATAT-ATAAA-TTATTTATAATTAATGGTTGACA
651 TTATACTTGTTATATATAATTATTAATAATTATATGATAAATTTATTTATAATTAATGGTTGACA
44101214 TTC
716 TTC
**
44101217 TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAATTGGTCGAATTGATCTAATTCGATTAATC
1 TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAACCGGTCGAATTGATCTAATTCGATTAATC
* *
44101282 GGTTGATTAACTGATCTAGTTCGATCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTCAGTTAACG
66 AGTCGATTAACTGATCTAGTTCGATCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTCAGTTAACG
* *
44101347 GTTAATTCGGTTCGAAATCGGGTTA-TAACCGAATTAACCGAACTTAATAAATAATATTATATAT
131 GTTAATTCGGTTCGAAATCAGGTTATTAACTGAATTAACCGAACTTAATAAATAATATTATATAT
* *
44101411 TATATGTATTAGGCTATTACTAATTCGGCTAATTTGGATAATTCGGTCAAATGAACATTATTAAT
196 TATATGTATTAGGCTATTACTAATTCGGTTAATTTGGATAATTCGGTCAAATGAACATTATCAAT
* *
44101476 TTATTTATTTTGACATGTTTTATACTTGCTTTTACAAAAAAACAAAATATATAAATTTATTTATA
261 TTATTTATTTTGACATGTTTTATACTTG-TTTT--------ACAAAATATAT--ATATATATATA
* *
44101541 TAAATTTATTTAAAATAATTATAAGATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGT
315 TAAATTTATTTAAAATAATTATAAGATAAATTTATTTATAATTAATGGTTGACATTCTTAGGGGT
* *
44101606 GTTCAAATTAT-GGTTAAAATCGAATTAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGAT
380 GTTCAAATT-TCGGTTAAAAACGAATTAACCGGTCGAATTGATCTAATTCGATTAATCAGTCGAT
*** *
44101670 TAACTGATCTAGTTCGATCGGAGGTC-GATTAATTTTTTTTTTTGAATTTCAGCTAACAGTTAAT
444 TAACTGATCTAGTTCGATCGGAGGTCAG-TTAAAAGTTTTTTTGGAATTTCAGCTAACAGTTAAT
* * * *
44101734 TTGGTTCGAAATCGGGTTATTAACTGAATAAATCGAACTTAATAAATAATATTATATATTATATG
508 TCGGTTCGAAATCAGGTTATTAACCGAATAAACCGAACTTAATAAATAATATTATATATTATATG
44101799 TATT-AGACTATTACTAATTCAGTTAATTTGGATAATTCGATCAAATGAACATTATCAATTTATT
573 TATTAAG-CTATTACTAATTCAGTTAATTTGGATAATTCGATCAAATGAACATTATCAATTTATT
44101863 TATTTTGACATGTTTTATACTTGCTTTTACAAAAAAACAAATATATAAATTTATTTAAAATAATT
637 TATTTTGACATGTTTTATACTTG---TT------------ATATAT-AA-TTA-TT--AATAATT
* *
44101928 ATATGATAAATTTATTTATAATTAATGGTTTACATTG
682 ATATGATAAATTTATTTATAATTAATGGTTGACATTC
* *
44101965 TTAGGGGTGTTCAAATTACGGTTAAAATCGAATTAACCGGTTGAATTGATCTAATTCGATTAATC
1 TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAACCGGTCGAATTGATCTAATTCGATTAATC
* * * * * *
44102030 AGTCGATTAACTGATCTAGTTCGATCGGAGGTTGATT-AAATTTTTTTTTGAATTTCAGCTAACA
66 AGTCGATTAACTGATCTAGTTCGATCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTCAGTTAACG
* *
44102094 GTTAATTTGGTTCGAAATCAGGTTATTAACTGAATTAATCGAACTTAATAAATAATATTATATAT
131 GTTAATTCGGTTCGAAATCAGGTTATTAACTGAATTAACCGAACTTAATAAATAATATTATATAT
* * * *
44102159 TATATGTATTAGACTATTACTAATTCAGTTAATTTGGATAATTCGATCGAATGAACATTATCAAT
196 TATATGTATTAGGCTATTACTAATTCGGTTAATTTGGATAATTCGGTCAAATGAACATTATCAAT
*
44102224 TTATTTATTTTAACATGTTTTATACTTGTTTTTAC-AAATATATATATA
261 TTATTTATTTTGACATGTTTTATACTTG-TTTTACAAAATATATATATA
44102272 AATTTCGATT
Statistics
Matches: 934, Mismatches: 69, Indels: 68
0.87 0.06 0.06
Matches are distributed among these distances:
700 126 0.13
701 145 0.16
702 3 0.00
715 6 0.01
716 3 0.00
717 323 0.35
718 1 0.00
721 1 0.00
734 1 0.00
735 3 0.00
737 5 0.01
739 10 0.01
740 2 0.00
741 1 0.00
744 2 0.00
745 1 0.00
746 5 0.01
747 51 0.05
748 245 0.26
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (718 bp):
TTAGGGGTGTTCAAATTTCGGTTAAAATCGAATTAACCGGTCGAATTGATCTAATTCGATTAATC
AGTCGATTAACTGATCTAGTTCGATCGGAGGTCGGTTAAAAGTTTTTTTGGAATTTCAGTTAACG
GTTAATTCGGTTCGAAATCAGGTTATTAACTGAATTAACCGAACTTAATAAATAATATTATATAT
TATATGTATTAGGCTATTACTAATTCGGTTAATTTGGATAATTCGGTCAAATGAACATTATCAAT
TTATTTATTTTGACATGTTTTATACTTGTTTTACAAAATATATATATATATATATAAATTTATTT
AAAATAATTATAAGATAAATTTATTTATAATTAATGGTTGACATTCTTAGGGGTGTTCAAATTTC
GGTTAAAAACGAATTAACCGGTCGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAG
TTCGATCGGAGGTCAGTTAAAAGTTTTTTTGGAATTTCAGCTAACAGTTAATTCGGTTCGAAATC
AGGTTATTAACCGAATAAACCGAACTTAATAAATAATATTATATATTATATGTATTAAGCTATTA
CTAATTCAGTTAATTTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTT
TTATACTTGTTATATATAATTATTAATAATTATATGATAAATTTATTTATAATTAATGGTTGACA
TTC
Found at i:44101922 original size:23 final size:25
Alignment explanation
Indices: 44101896--44101945 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
44101886 CTTTTACAAA
44101896 AAAACAA-ATAT-ATAAATTTATTT
1 AAAACAATATATGATAAATTTATTT
*
44101919 AAAATAATTATATGATAAATTTATTT
1 AAAACAA-TATATGATAAATTTATTT
44101945 A
1 A
44101946 TAATTAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
25 4 0.17
26 13 0.57
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAACAATATATGATAAATTTATTT
Found at i:44101948 original size:23 final size:23
Alignment explanation
Indices: 44101903--44101951 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
44101893 AAAAAAACAA
44101903 ATATATAAATTTATTTAAAATAATT
1 ATATATAAATTTATTT--AATAATT
44101928 ATATGATAAATTTATTT-ATAATT
1 ATAT-ATAAATTTATTTAATAATT
44101951 A
1 A
44101952 ATGGTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
25 4 0.17
26 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATATAAATTTATTTAATAATT
Found at i:44102242 original size:366 final size:370
Alignment explanation
Indices: 44101186--44102261 Score: 1705
Period size: 366 Copynumber: 2.9 Consensus size: 370
44101176 ATATATATAT
* * *
44101186 ATAAA-TTATTTATAATTAATGGTTGACATTCTTAGGGGTGTTCAAATTTCGGTTAAAATCGAAT
1 ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTACGGTTAAAATCGAAT
** * * *
44101250 TAATTGGTCGAATTGATCTAATTCGATTAATCGGTTGATTAACTGATCTAGTTCGATCGGAGGTC
66 TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTC
* * * * * * * * *
44101315 GGTTAAAAGTTTTTTTGGAATTTCAGTTAACGGTTAATTCGGTTCGAAATCGGGTTA-TAACCGA
131 GATTAATATTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCAGGTTATTAACTGA
* * * * *
44101379 ATTAACCGAACTTAATAAATAATATTATATATTATATGTATTAGGCTATTACTAATTCGGCTAAT
196 ATAAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
* *
44101444 TTGGATAATTCGGTCAAATGAACATTATTAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
261 TTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
44101509 ACAAAAAAACAAAATATATAAATTTATTTATATAAATTTATTTAAAATAATTATAAG
326 ACAAAAAAAC---------AAA--TA-TTATATAAATTTATTTAAAATAATTATAAG
*
44101566 ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTATGGTTAAAATCGAAT
1 ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTACGGTTAAAATCGAAT
44101631 TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTC
66 TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTC
* *
44101696 GATTAATTTTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCGGGTTATTAACTGA
131 GATTAATATTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCAGGTTATTAACTGA
44101761 ATAAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
196 ATAAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
44101826 TTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
261 TTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
*
44101891 ACAAAAAAAC-AA-A-TATATAAATTTATTTAAAATAATTATATG
326 ACAAAAAAACAAATATTATATAAATTTATTTAAAATAATTATAAG
44101933 ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTACGGTTAAAATCGAAT
1 ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTACGGTTAAAATCGAAT
*
44101998 TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTT
66 TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTC
44102063 GATTAA-ATTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCAGGTTATTAACTGA
131 GATTAATATTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCAGGTTATTAACTGA
*
44102127 ATTAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
196 ATAAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
* * *
44102192 TTGGATAATTCGATCGAATGAACATTATCAATTTATTTATTTTAACATGTTTTATACTTGTTTTT
261 TTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
44102257 ACAAA
326 ACAAA
44102262 TATATATATA
Statistics
Matches: 660, Mismatches: 34, Indels: 18
0.93 0.05 0.03
Matches are distributed among these distances:
366 187 0.28
367 162 0.25
369 1 0.00
372 2 0.00
380 5 0.01
381 164 0.25
382 139 0.21
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.41
Consensus pattern (370 bp):
ATAAATTTATTTATAATTAATGGTTTACATTGTTAGGGGTGTTCAAATTACGGTTAAAATCGAAT
TAACCGGTTGAATTGATCTAATTCGATTAATCAGTCGATTAACTGATCTAGTTCGATCGGAGGTC
GATTAATATTTTTTTTTGAATTTCAGCTAACAGTTAATTTGGTTCGAAATCAGGTTATTAACTGA
ATAAATCGAACTTAATAAATAATATTATATATTATATGTATTAGACTATTACTAATTCAGTTAAT
TTGGATAATTCGATCAAATGAACATTATCAATTTATTTATTTTGACATGTTTTATACTTGCTTTT
ACAAAAAAACAAATATTATATAAATTTATTTAAAATAATTATAAG
Found at i:44102550 original size:12 final size:12
Alignment explanation
Indices: 44102525--44102558 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44102515 TTCTATTATT
*
44102525 ATAAATACATAA
1 ATAAATAGATAA
*
44102537 ATAGATAGATAA
1 ATAAATAGATAA
44102549 ATAAATAGAT
1 ATAAATAGAT
44102559 TGTGTTGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (12 bp):
ATAAATAGATAA
Found at i:44102649 original size:2 final size:2
Alignment explanation
Indices: 44102638--44102694 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
44102628 TAAAACCTTC
44102638 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44102679 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
44102695 ATTACTCATG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:44104437 original size:6 final size:6
Alignment explanation
Indices: 44104424--44104466 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
44104414 CACAGGCAAC
* * *
44104424 GGCTGT GTCTGT GTCTGT GTCTGT GGCTGT GGCTGT GGCTGT G
1 GGCTGT GGCTGT GGCTGT GGCTGT GGCTGT GGCTGT GGCTGT G
44104467 ATGATAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.16, G:0.44, T:0.40
Consensus pattern (6 bp):
GGCTGT
Found at i:44104443 original size:12 final size:12
Alignment explanation
Indices: 44104424--44104466 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
44104414 CACAGGCAAC
44104424 GGCTGTGTCTGT
1 GGCTGTGTCTGT
*
44104436 GTCTGTGTCTGT
1 GGCTGTGTCTGT
*
44104448 GGCTGTGGCTGT
1 GGCTGTGTCTGT
44104460 GGCTGTG
1 GGCTGTG
44104467 ATGATAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.16, G:0.44, T:0.40
Consensus pattern (12 bp):
GGCTGTGTCTGT
Found at i:44107376 original size:34 final size:34
Alignment explanation
Indices: 44107338--44107423 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
44107328 TTACAGTGTT
*
44107338 ATTTGGTGTGCTGGATGGATTAGCTCATACG-AGC
1 ATTTGGTGTACTGGATGGATTAGCTCATA-GAAGC
*
44107372 ATTTGGTCTACTGGATGGATTAGCTCATAGAAGC
1 ATTTGGTGTACTGGATGGATTAGCTCATAGAAGC
* * *
44107406 ATCTAGTGTTCTGGATGG
1 ATTTGGTGTACTGGATGG
44107424 TTAACCGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (34 bp):
ATTTGGTGTACTGGATGGATTAGCTCATAGAAGC
Found at i:44109831 original size:13 final size:13
Alignment explanation
Indices: 44109809--44109871 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
44109799 TTTAGCATTA
44109809 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
44109822 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
*
44109835 CTTTGGAAAAGTG
1 CTTTTGAAAAGTG
* *
44109848 ATTTTGAAAAGTA
1 CTTTTGAAAAGTG
*
44109861 CTTTTAAAAAG
1 CTTTTGAAAAG
44109872 CTTGGTTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:44112022 original size:17 final size:17
Alignment explanation
Indices: 44112000--44112035 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
44111990 TGGTAGAATA
*
44112000 TTTCTAAGTATTGGTAG
1 TTTCTAAGTATCGGTAG
44112017 TTTCTAAGTATCGGTAG
1 TTTCTAAGTATCGGTAG
44112034 TT
1 TT
44112036 GTTTGAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.47
Consensus pattern (17 bp):
TTTCTAAGTATCGGTAG
Found at i:44114569 original size:27 final size:25
Alignment explanation
Indices: 44114530--44114581 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
44114520 TTATTTGCAT
44114530 AAATATTAAAATATAATAATTATTTA
1 AAATATTAAAATATAA-AATTATTTA
* *
44114556 AAATAATTATAATATAAATTTATTTA
1 AAAT-ATTAAAATATAAAATTATTTA
44114582 TAATTAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATTAAAATATAAAATTATTTA
Found at i:44114576 original size:22 final size:21
Alignment explanation
Indices: 44114528--44114577 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
44114518 ATTTATTTGC
44114528 ATAAATATTAAAATATAATAAT
1 ATAAAT-TTAAAATATAATAAT
*
44114550 -T--ATTTAAAATAATTATAAT
1 ATAAATTTAAAAT-ATAATAAT
44114569 ATAAATTTA
1 ATAAATTTA
44114578 TTTATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 1 0.04
21 1 0.04
22 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAATTTAAAATATAATAAT
Found at i:44114589 original size:27 final size:27
Alignment explanation
Indices: 44114515--44114589 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
44114505 AATATATTTC
44114515 TAAATTTATTTGCATAAAT-ATTAAAATA
1 TAAATTTATTT--ATAAATAATTAAAATA
* *
44114543 TAATAATTATTTA-AAATAATTATAATA
1 TAA-ATTTATTTATAAATAATTAAAATA
*
44114570 TAAATTTATTTATAATTAAT
1 TAAATTTATTTATAAATAAT
44114590 GGTTGACGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 12 0.30
27 18 0.45
28 3 0.08
29 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TAAATTTATTTATAAATAATTAAAATA
Found at i:44114674 original size:2 final size:2
Alignment explanation
Indices: 44114667--44114695 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44114657 ATTAATTTAA
44114667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44114696 AAAAGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44124179 original size:27 final size:27
Alignment explanation
Indices: 44124140--44124202 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
44124130 AAAAGTTTAA
*
44124140 AATTTT-AAGTTTTTGA-AAAAAATATG
1 AATTTTAAAATTTTT-ATAAAAAATATG
* * *
44124166 AATTTTAAAATTTTTATAAATATTTTG
1 AATTTTAAAATTTTTATAAAAAATATG
44124193 AATTTTAAAA
1 AATTTTAAAA
44124203 ATTATTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
AATTTTAAAATTTTTATAAAAAATATG
Found at i:44124198 original size:19 final size:21
Alignment explanation
Indices: 44124174--44124219 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
44124164 TGAATTTTAA
*
44124174 AATTTTTATAAA-TATTTTG-
1 AATTTTTAAAAATTATTTTGT
44124193 AA-TTTTAAAAATTATTTTGT
1 AATTTTTAAAAATTATTTTGT
44124213 AATTTTT
1 AATTTTT
44124220 GTTGAGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTTTTAAAAATTATTTTGT
Found at i:44124204 original size:18 final size:20
Alignment explanation
Indices: 44124177--44124218 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
44124167 ATTTTAAAAT
*
44124177 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
44124195 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
44124215 TTTT
1 TTTT
44124219 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:44126284 original size:18 final size:18
Alignment explanation
Indices: 44126262--44126317 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
44126252 AAATTACAAA
* *
44126262 AAAAATCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
44126281 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
44126299 AAAAATTCCAAA-ATTTAT
1 -AAAATTCAAAATATTTAT
44126317 A
1 A
44126318 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 11 0.33
19 21 0.64
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:44126284 original size:19 final size:18
Alignment explanation
Indices: 44126262--44126317 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
44126252 AAATTACAAA
*
44126262 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
44126281 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
*
44126299 AAAAATTCCAAA-ATTTAT
1 AAAAA-TCAAAATATTTAT
44126317 A
1 A
44126318 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:44144548 original size:26 final size:25
Alignment explanation
Indices: 44144518--44144580 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
44144508 TTAATTTTAA
44144518 ATTAATGATACATTTCATTAATGATT
1 ATTAATGATACATTTCA-TAATGATT
* * * * *
44144544 ATTAATTTATATATTTTATACTTATT
1 ATTAA-TGATACATTTCATAATGATT
44144570 ATTAATGATAC
1 ATTAATGATAC
44144581 TTATCCTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
25 4 0.14
26 16 0.55
27 9 0.31
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (25 bp):
ATTAATGATACATTTCATAATGATT
Found at i:44150635 original size:64 final size:67
Alignment explanation
Indices: 44150496--44150652 Score: 212
Period size: 64 Copynumber: 2.4 Consensus size: 67
44150486 CTTCGCTTGC
* * * *
44150496 CTCGCTGCTGCCTCCACTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTTTGAGAATCTACTT
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTTGAGAATCTACTT
44150561 CT
66 CT
* ** * *
44150563 CTCACTGCAGCCTCCTCTTTAAGTT-TAGATGGAGTT-ATCATA-TTTTTTTTGAGCCTTTGCTT
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTTGAGAATCTACTT
44150625 CT
66 CT
44150627 CTCGCTGCAGCCTCCTCTTTAAGTTG
1 CTCGCTGCAGCCTCCTCTTTAAGTTG
44150653 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 42 0.53
65 5 0.06
66 10 0.13
67 22 0.28
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (67 bp):
CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTTGAGAATCTACTT
CT
Found at i:44156560 original size:68 final size:66
Alignment explanation
Indices: 44156461--44156649 Score: 217
Period size: 68 Copynumber: 2.8 Consensus size: 66
44156451 TAAACTAAAT
*
44156461 AATTAAATATTTGAATTGTTCTTAACAATTAAATATTAAATTAAATATAATTAAATAATTAA-AT
1 AATTAAATATTTG-ATTGTT-TTAATAATTAAATATT-AATTAAATAT-ATTAAATAA-TAACAT
44156525 ATTTTG
61 ATTTTG
*
44156531 AATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATT
1 AATTAAATATTTGATTGTTTTAATAATTAAATA-TTAATTAAATATA-TTAAATAATAACATATT
*
44156596 TTT
64 TTG
* *
44156599 TATTAAATATTTCGGTTGTTTT--TAA-TAAATAATTAATTAAATAT-TTAAATA
1 AATTAAATATTT-GATTGTTTTAATAATTAAAT-ATTAATTAAATATATTAAATA
44156650 TTTGGATTGT
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
64 7 0.06
66 16 0.15
67 8 0.07
68 48 0.44
69 16 0.15
70 13 0.12
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (66 bp):
AATTAAATATTTGATTGTTTTAATAATTAAATATTAATTAAATATATTAAATAATAACATATTTT
G
Found at i:44156609 original size:112 final size:112
Alignment explanation
Indices: 44156379--44156841 Score: 303
Period size: 112 Copynumber: 4.0 Consensus size: 112
44156369 ATTTTTTAAT
* ** * * * *
44156379 AATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAAT
1 AATTAAATATAA-TAAATAATTAAATA-AAT-AATTAAATATTTGGATTGTTTTTAATAATTAAA
* * * *
44156444 TAATT-ATTAAACTAAATAATTAAATATTTGAAT-TGTTCTTAACAATTAAATA-TTA
63 TATTTAATTAAA-T--ATAATTAAATAATTAAATAT-TT-TT---TATTAAATATTTA
**
44156499 AATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTT-GATTG-TTTTAATAATTAAA
1 AATTAAATATAA-TAAATAATTAAATA-AAT-AATTAAATATTTGGATTGTTTTTAATAATTAAA
* * *
44156562 TATTTAATTAAATGTATTTAAATAA-TAACATATTTTTTATTAAATATTTC
63 TATTTAATTAAATATAATTAAATAATTAA-ATATTTTTTATTAAATATTTA
** *** * * * *
44156612 GGTTGTTTTTAATAAATAATTAATTAAATATTTAAATATTTGGATTGTTTTTAATTATTAAATAT
1 AATTAAATATAATAAATAATTAAATAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATAT
* ** * *
44156677 TTAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTT
66 TTAATTAAATATAATTAAATAATTAAATATTTTTTATTAAATA-TT---TA
** * * *
44156728 GTTGTTAATA-AATAACTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTT-ATAATTA
1 AAT-TAAATATAAT-A--AATAATTAAA-TAAATAATTAAATATTTGGATTGTTTTTAATAATTA
* * **
44156791 AATATTAAATTAAATATAATTAAATAATTATATATTTTGAATTAAATATTT
61 AATATTTAATTAAATATAATTAAATAATTAAATATTTTTTATTAAATATTT
44156842 GGATTGTTTT
Statistics
Matches: 283, Mismatches: 44, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
110 11 0.04
111 6 0.02
112 70 0.25
113 13 0.05
115 5 0.02
116 19 0.07
117 4 0.01
118 19 0.07
119 68 0.24
120 68 0.24
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (112 bp):
AATTAAATATAATAAATAATTAAATAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATAT
TTAATTAAATATAATTAAATAATTAAATATTTTTTATTAAATATTTA
Found at i:44156685 original size:180 final size:181
Alignment explanation
Indices: 44156378--44156950 Score: 558
Period size: 188 Copynumber: 3.1 Consensus size: 181
44156368 TATTTTTTAA
* ** * *
44156378 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAATAA-TAAATATTTTTTATTAAATATTTAGGTTGTTTTTAATAAATAA
* * * *
44156443 TTAATTATTAAACTAAATAATTAAATATTTGAATTGTTCTTAACAATTAAATATTAAATTAAATA
65 TT-A--ATTAAA-T-AAT--TTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATA
* * *
44156508 TAATTAAATAATTAAATATTTTGAATTAAATATTT-GATTGTTTTAATAATTAAATATT
123 TAATTAAATAATTAAATATTTTGAATTAAATATTTCGGTTGTTTTAATAAATAAATAAT
* * *
44156566 TAATTAAATGTATTTAAATAATAACATATTTTTTATTAAATATTTCGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAATAATAA-ATATTTTTTATTAAATATTTAGGTTGTTTTTAATAAATAA
*
44156631 TTAATTAAAT-ATTTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAA
65 TTAATTAAATAATTTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAA
* * * *
44156695 GTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAAT
130 ATAATTAAATATTTTGAATTAAATATTTCGGTTGTT-TTAATAAATAAATAAT
* * * ** *** *
44156748 T-ATTAAACTAAATAATTAAATATTTGAATTGTTTTTATAATTAAATA-TTAAATTAAATATAAT
1 TAATTAAA-T--ATAATTAAATA-AT-AAATATTTTT-T-ATTAAATATTTAGGTTGTTTTTAA-
**
44156811 TAAATAATT-ATATATTTTGAA-TTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAA
58 TAAATAATTAAT-TA-AAT-AATTTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAA
* * *
44156873 ATGTATTTAAATAA-TAACATATTTTTAATTAAATATTTCGGTTGTTTT--TAAATAAATAAT
120 ATATAATTAAATAATTAA-ATATTTTGAATTAAATATTTCGGTTGTTTTAATAAATAAATAAT
44156933 TAATTAAATAT--TTAAATA
1 TAATTAAATATAATTAAATA
44156951 TTTGGATTTT
Statistics
Matches: 328, Mismatches: 40, Indels: 41
0.80 0.10 0.10
Matches are distributed among these distances:
180 73 0.22
181 19 0.06
182 17 0.05
183 2 0.01
184 10 0.03
185 26 0.08
186 19 0.06
187 28 0.09
188 117 0.36
189 16 0.05
190 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (181 bp):
TAATTAAATATAATTAAATAATAAATATTTTTTATTAAATATTTAGGTTGTTTTTAATAAATAAT
TAATTAAATAATTTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAA
TAATTAAATATTTTGAATTAAATATTTCGGTTGTTTTAATAAATAAATAAT
Found at i:44156789 original size:25 final size:23
Alignment explanation
Indices: 44156759--44156870 Score: 77
Period size: 22 Copynumber: 4.8 Consensus size: 23
44156749 ATTAAACTAA
44156759 ATAATTAAATATTTGAATTGTTTTT
1 ATAATTAAATATTT-AATT-TTTTT
* ***
44156784 ATAATTAAATA-TTAAATTAAAT
1 ATAATTAAATATTTAATTTTTTT
* *
44156806 ATAATTAAATAATT-ATATATTTT
1 ATAATTAAATATTTAAT-TTTTTT
* * *
44156829 -GAATTAAATATTTGGATTGTTTTA
1 ATAATTAAATATTT-AATT-TTTTT
44156853 ATAATTAAATATTTAATT
1 ATAATTAAATATTTAATT
44156871 AAATGTATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
22 25 0.38
23 8 0.12
24 10 0.15
25 23 0.35
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
ATAATTAAATATTTAATTTTTTT
Found at i:44156803 original size:37 final size:37
Alignment explanation
Indices: 44156761--44156874 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 37
44156751 TAAACTAAAT
*
44156761 AATTAAATATTTGAATTGTTTTTATAATTAAATATTA
1 AATTAAATATTTGAATTGTTTTAATAATTAAATATTA
* * *
44156798 AATTAAATA--T-AA----TTAAATAATTATATATTTTG
1 AATTAAATATTTGAATTGTTTTAATAATTA-A-ATATTA
* *
44156830 AATTAAATATTTGGATTGTTTTAATAATTAAATATTT
1 AATTAAATATTTGAATTGTTTTAATAATTAAATATTA
44156867 AATTAAAT
1 AATTAAAT
44156875 GTATTTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
30 9 0.15
31 1 0.02
32 13 0.22
34 3 0.05
35 2 0.03
37 21 0.35
38 1 0.02
39 10 0.17
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (37 bp):
AATTAAATATTTGAATTGTTTTAATAATTAAATATTA
Found at i:44156813 original size:10 final size:10
Alignment explanation
Indices: 44156783--44156816 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
44156773 GAATTGTTTT
44156783 TATAATTAAA
1 TATAATTAAA
44156793 TATTAAATTAAA
1 TA-T-AATTAAA
44156805 TATAATTAAA
1 TATAATTAAA
44156815 TA
1 TA
44156817 ATTATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.50
11 2 0.09
12 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATAATTAAA
Found at i:44156826 original size:119 final size:111
Alignment explanation
Indices: 44156531--44156856 Score: 406
Period size: 112 Copynumber: 2.9 Consensus size: 111
44156521 AAATATTTTG
* * *
44156531 AATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAA-TAACATAT
1 AATTAAATATTTGATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAA-ATAT
** *
44156595 TTTTTATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAATAT
65 TTTGAATTAAATATTTGGGTTG-TTTTAATAAATAATTAATTAAATAT
* *
44156643 --TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAAATA
1 AATTAAATATTT-GATTGTTTTT-ATAATTAAATATTTAATTAAATATAATTAAATAATTAAATA
* *
44156706 TTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAATTATTAAACTAAAT
64 TTTTGAATTAAATATTTGGGTTGTT-TTAATAAATAA-T--TAATTAAA-T--AT
* *
44156761 AATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATATAATTAAATAATTATATAT
1 AATTAAATATTTG-ATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAAATAT
*
44156826 TTTGAATTAAATATTTGGATTGTTTTAATAA
65 TTTGAATTAAATATTTGGGTTGTTTTAATAA
44156857 TTAAATATTT
Statistics
Matches: 185, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
110 10 0.05
111 11 0.06
112 63 0.34
113 4 0.02
115 7 0.04
116 1 0.01
118 9 0.05
119 61 0.33
120 19 0.10
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (111 bp):
AATTAAATATTTGATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATT
TTGAATTAAATATTTGGGTTGTTTTAATAAATAATTAATTAAATAT
Found at i:44156842 original size:69 final size:66
Alignment explanation
Indices: 44156761--44156950 Score: 233
Period size: 69 Copynumber: 2.8 Consensus size: 66
44156751 TAAACTAAAT
* *
44156761 AATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATATAATTAAATAATTATATAT
1 AATTAAATATTTG-ATTGTTTTTATAATTAAATATT-AATTAAATAT-ATTAAATAATAACATAT
44156826 TTTG
63 TTTG
* *
44156830 AATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATAT
1 AATTAAATATTT-GATTGTTTTTATAATTAAATA-TTAATTAAATATA-TTAAATAATAACATAT
*
44156895 TTTT
63 TTTG
*
44156899 AATTAAATATTTCGGTTGTTTTTA-AA-TAAATAATTAATTAAATAT-TTAAATA
1 AATTAAATATTT-GATTGTTTTTATAATTAAAT-ATTAATTAAATATATTAAATA
44156951 TTTGGATTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
65 7 0.06
67 16 0.15
68 4 0.04
69 78 0.72
70 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (66 bp):
AATTAAATATTTGATTGTTTTTATAATTAAATATTAATTAAATATATTAAATAATAACATATTTT
G
Found at i:44156872 original size:119 final size:113
Alignment explanation
Indices: 44156531--44156885 Score: 425
Period size: 119 Copynumber: 3.1 Consensus size: 113
44156521 AAATATTTTG
* * *
44156531 AATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAA-TAACATAT
1 AATTAAATATTTGATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAA-ATAT
**
44156595 TTTTTATTAAATATTTCGGTTGTTTT--TAATAAATAATTAATTAAATAT
65 TTTGAATTAAATATTT-GGTTGTTTTAATAATAAATAATTAATTAAATAT
* *
44156643 --TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAAATA
1 AATTAAATATTT-GATTGTTTTT-ATAATTAAATATTTAATTAAATATAATTAAATAATTAAATA
* *
44156706 TTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAATT-ATTAAACTAAAT
64 TTTTGAATTAAATATTT-GGTTGTT-TTAAT-AATAAATAATTAATTAAA-T--AT
* *
44156761 AATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATATAATTAAATAATTATATAT
1 AATTAAATATTTG-ATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAAATAT
* *
44156826 TTTGAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGT
65 TTTGAATTAAATATTTGG-TTGTTTTAATAA-TAAATAATTAATTAAATAT
*
44156877 ATTTAAATA
1 AATTAAATA
44156886 ATAACATATT
Statistics
Matches: 208, Mismatches: 19, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
110 10 0.05
111 9 0.04
112 54 0.26
113 5 0.02
115 7 0.03
116 20 0.10
117 2 0.01
118 17 0.08
119 65 0.31
120 19 0.09
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (113 bp):
AATTAAATATTTGATTGTTTTTATAATTAAATATTTAATTAAATATAATTAAATAATTAAATATT
TTGAATTAAATATTTGGTTGTTTTAATAATAAATAATTAATTAAATAT
Found at i:44157016 original size:180 final size:179
Alignment explanation
Indices: 44156460--44157023 Score: 568
Period size: 180 Copynumber: 3.1 Consensus size: 179
44156450 TTAAACTAAA
* * *
44156460 TAATTAAATATTTGAATTGTTCTTAACAATTAAATATTAAATTAAATATAATTAAATAATTAAAT
1 TAATTAAATATTTGGATTGTT-TTAATAATTAAATATTTAATTAAATATAATTAAATAATTAAAT
* * * * * *
44156525 ATTTTGAATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATA-ATA
65 ATTTTGAATTAAATATTTGGTTGTTTT-ATAAATAAATAATTAATTAAA-CTATTTAAATATTTG
* *** *** * * ***
44156589 ACATATTTT-TTATTAAATATTTCGGTTGTTTTTAA-TAAATAATTAAT-TAAA
128 A-ATTTTTTATTATTAAAT-TTTAAATTAAATATAATTAAATAATAAATATTTT
* * *
44156640 TATTTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAAAT
1 TAATTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAAATATAATTAAATAATTAAAT
* *
44156705 ATTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAATT-ATTAAACTAAATAATTAAAT
65 ATTTTGAATTAAATATTT-GGTTGTT-TT-ATAAATAAATAATTAATTAAACT--AT--TTAAAT
* * *
44156769 ATTTGAATTGTTTTTATAATTAAATATTAAATTAAATATAATTAAATAATTATATATTTT
123 ATTTGAA-T-TTTTTATTATTAAATTTTAAATTAAATATAATTAAATAA-TAAATATTTT
* * *
44156829 GAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAA-TAACAT
1 TAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATTAA-AT
* *
44156893 ATTTTTAATTAAATATTTCGGTTGTTTT-TAAATAAATAATTAATTAAA-TATTTAAATATTTGG
65 ATTTTGAATTAAATATTT-GGTTGTTTTATAAATAAATAATTAATTAAACTATTTAAATATTTGA
* *
44156956 ATTTTTTAATTATTAAATTTTTAATTAAATATAATTAACTAATAAAATATTTT
129 ATTTTTT-ATTATTAAATTTTAAATTAAATATAATTAAATAAT-AAATATTTT
44157009 TAATTAAATATTTGG
1 TAATTAAATATTTGG
44157024 GTTATTTTTA
Statistics
Matches: 320, Mismatches: 46, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
179 6 0.02
180 127 0.40
181 26 0.08
182 16 0.05
183 2 0.01
184 8 0.03
185 16 0.05
186 18 0.06
187 20 0.06
188 63 0.20
189 18 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (179 bp):
TAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATTAAATA
TTTTGAATTAAATATTTGGTTGTTTTATAAATAAATAATTAATTAAACTATTTAAATATTTGAAT
TTTTTATTATTAAATTTTAAATTAAATATAATTAAATAATAAATATTTT
Found at i:44157025 original size:299 final size:298
Alignment explanation
Indices: 44156378--44157122 Score: 1178
Period size: 300 Copynumber: 2.5 Consensus size: 298
44156368 TATTTTTTAA
44156378 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTG-TTTTAATAAATAA
* *
44156443 TTAATTATTAAACTAAATAATTAAATATTTGAATTGTTCTTAACAATTAAATATTAAATTAAATA
65 TTAATTATTAAACTAAATAATTAAATATTTGAATTGTT-TTTATAATTAAATATTAAATTAAATA
44156508 TAATTAAATAATTAAATATTTTGAATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAA
129 TAATTAAATAATTAAATATTTTGAATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAA
*
44156573 ATGTATTTAAATAATAACATATTTTTTATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTA
194 ATGTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTA
44156638 AATATTTAAATATTTGGATTGTTTTTAATTATTAAATATT
259 AATATTTAAATATTTGGATTGTTTTTAATTATTAAATATT
44156678 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAA
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTT-TTAATAAATAA
*
44156743 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATAT
65 TTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATAT
*
44156808 AATTAAATAATTATATATTTTGAATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAA
130 AATTAAATAATTAAATATTTTGAATTAAATATTT-GATTGTTTTAATAATTAAATATTTAATTAA
44156873 ATGTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTTAAATAAATAATTAATT
194 ATGTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTT-AATAAATAATTAATT
*
44156938 AAATATTTAAATATTTGGA-T-TTTTTAATTATTAAATTTT
258 AAATATTTAAATATTTGGATTGTTTTTAATTATTAAATATT
* * * * * *
44156977 TAATTAAATATAATTAACTAATAAAATATTTTTAATTAAATATTTGGGTTATTTT--T-AATATT
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTAATAAATAAT
* * ** ** * * * *
44157039 TATTTATTTATTTATTTATTTAAATATTTGAATTGTTTTTAATTATTAAATATTTAATTATATAT
66 TAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTT-ATAATTAAATATTAAATTAAATAT
* *
44157104 AACT-AATAATAAAATATTT
130 AATTAAATAATTAAATATTT
44157123 AATTATTAAA
Statistics
Matches: 415, Mismatches: 26, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
295 50 0.12
296 25 0.06
298 2 0.00
299 126 0.30
300 178 0.43
301 34 0.08
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (298 bp):
TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTAATAAATAAT
TAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTATAATTAAATATTAAATTAAATATA
ATTAAATAATTAAATATTTTGAATTAAATATTTGATTGTTTTAATAATTAAATATTTAATTAAAT
GTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAA
TATTTAAATATTTGGATTGTTTTTAATTATTAAATATT
Found at i:44157044 original size:4 final size:4
Alignment explanation
Indices: 44157035--44157060 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
44157025 TTATTTTTAA
44157035 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
44157061 AATATTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:44157083 original size:180 final size:181
Alignment explanation
Indices: 44156643--44157023 Score: 496
Period size: 188 Copynumber: 2.1 Consensus size: 181
44156633 AATTAAATAT
* * * *
44156643 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAA-ATAT
1 TTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAAATGTATTTAAATAA-TAACATAT
* * * * *
44156707 TTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAATTATTAAACTAAATAATTAAATATT
64 TTTTAATTAAATATTTCGGTTGTT-TT--TAAAT-A--AATAATT-AATTAAATAATTAAATATT
* * *
44156772 TGAATTGTTTTTATAATTAAATATTAAATTAAATATAATTAAATAATTATATATTTTGAA
122 TGAATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
44156832 TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTT
1 TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTT
* *
44156897 TTAATTAAATATTTCGGTTGTTTTTAAATAAATAATTAATTAAATATTTAAATATTTGGATT-TT
66 TTAATTAAATATTTCGGTTGTTTTTAAATAAATAATTAATTAAATAATTAAATATTTGAATTGTT
* * * * *
44156961 TTAATTATTAAATTTTTAATTAAATATAATTAACTAATAAAATATTTTTAA
131 TTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
44157012 TTAAATATTTGG
1 TTAAATATTTGG
44157024 GTTATTTTTA
Statistics
Matches: 172, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
180 57 0.33
181 22 0.13
182 6 0.03
184 1 0.01
185 5 0.03
187 5 0.03
188 60 0.35
189 16 0.09
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (181 bp):
TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTT
TTAATTAAATATTTCGGTTGTTTTTAAATAAATAATTAATTAAATAATTAAATATTTGAATTGTT
TTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
Found at i:44157093 original size:46 final size:46
Alignment explanation
Indices: 44157007--44157245 Score: 127
Period size: 46 Copynumber: 5.1 Consensus size: 46
44156997 ATAAAATATT
** ** *
44157007 TTTAATTAAATATTTGGGTTATTTTTAATATTTATTTATTTATTTA
1 TTTAATTAAATATTTGAATTATTTTTAATATTTAAATATTTAATTA
* *
44157053 TTTATTTAAATATTTGAATTGTTTTTAAT-TATTAAATATTTAATTA
1 TTTAATTAAATATTTGAATTATTTTTAATAT-TTAAATATTTAATTA
* * * *
44157099 TATATAACT-AATA-AT-AA-AATATTTAAT-TATTAAATATTTAATTA
1 T-T-TAATTAAATATTTGAATTATTTTTAATAT-TTAAATATTTAATTA
* ** *
44157143 TATATAACTAAATATTTGGGTTA-TTTTAATAATTAAATATAATTAAACAATTA
1 T-T-TAATTAAATATTTGAATTATTTTTAATATTTAAATAT--TT----AATTA
** * *
44157196 ACTAATTAAATATTTGAATT-TTTTTAATAATTAAAT-TATTAAATA
1 TTTAATTAAATATTTGAATTATTTTTAATATTTAAATAT-TTAATTA
44157241 TTTAA
1 TTTAA
44157246 ATATTTAATT
Statistics
Matches: 151, Mismatches: 27, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
44 33 0.22
45 14 0.09
46 40 0.26
47 19 0.13
48 4 0.03
49 5 0.03
50 1 0.01
51 30 0.20
53 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (46 bp):
TTTAATTAAATATTTGAATTATTTTTAATATTTAAATATTTAATTA
Found at i:44157096 original size:15 final size:15
Alignment explanation
Indices: 44157076--44157143 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44157066 TTGAATTGTT
44157076 TTTAATTATTAAATA
1 TTTAATTATTAAATA
*
44157091 TTTAATTA-TATATA
1 TTTAATTATTAAATA
** * *
44157105 ACTAATAATAAAATA
1 TTTAATTATTAAATA
44157120 TTTAATTATTAAATA
1 TTTAATTATTAAATA
44157135 TTTAATTAT
1 TTTAATTAT
44157144 ATATAACTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
14 10 0.24
15 32 0.76
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAATTATTAAATA
Found at i:44157131 original size:116 final size:112
Alignment explanation
Indices: 44156832--44157137 Score: 377
Period size: 111 Copynumber: 2.7 Consensus size: 112
44156822 ATATTTTGAA
* * * *
44156832 TTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATT
1 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATT-AATAATAAAATATT
*
44156896 TTTAATTAAATATTTCGGTTGTTTTTAAATAAATAATTAATTAAATAT
65 TTTAATTAAATATTTCGGTTATTTTTAAATAAATAATTAATTAAATAT
*
44156944 TTAAATATTTGGA-T-TTTTTAATTATTAAATTTTTAATTAAATATAATTAACTAATAAAATATT
1 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAA-TAATAAAATATT
* ** * * **
44157007 TTTAATTAAATATTTGGGTTATTTTTAATATTTATTTATTTATTTATTTAT
65 TTTAATTAAATATTTCGGTTATTTTTAA-A--TAAATAATTAATTAAATAT
* * *
44157058 TTAAATATTTGAATTGTTTTTAATTATTAAATATTTAATTATATATAACTAATAATAAAATATTT
1 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAATAATAAAATATTT
44157123 AATT-ATTAAATATTT
66 --TTAATTAAATATTT
44157138 AATTATATAT
Statistics
Matches: 168, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
110 2 0.01
111 67 0.40
112 14 0.08
114 25 0.15
115 14 0.08
116 44 0.26
117 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (112 bp):
TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAATAATAAAATATTT
TTAATTAAATATTTCGGTTATTTTTAAATAAATAATTAATTAAATAT
Found at i:44157250 original size:15 final size:16
Alignment explanation
Indices: 44157170--44157247 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
44157160 GGGTTATTTT
44157170 AATAATTAAATATAATTA
1 AATAATTAAAT-T-ATTA
* * *
44157188 AACAATTAACTAATTA
1 AATAATTAAATTATTA
* * * *
44157204 AATATTTGAATTTTTTT
1 AATAATT-AAATTATTA
44157221 AATAATTAAATTATTA
1 AATAATTAAATTATTA
*
44157237 AATATTTAAAT
1 AATAATTAAAT
44157248 ATTTAATTAG
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
16 25 0.56
17 11 0.24
18 9 0.20
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (16 bp):
AATAATTAAATTATTA
Found at i:44160199 original size:40 final size:40
Alignment explanation
Indices: 44160155--44160231 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
44160145 ATTTATTATT
44160155 TGACTTTTAGCGCGCT-TTTACATAAGCGCCGCTAATGATC
1 TGACTTTTAGCG-GCTCTTTACATAAGCGCCGCTAATGATC
*
44160195 TGACTTTTAGCGGCTCTTTTCATAAGCGCCGCTAATG
1 TGACTTTTAGCGGCTCTTTACATAAGCGCCGCTAATG
44160232 CTCTTTTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (40 bp):
TGACTTTTAGCGGCTCTTTACATAAGCGCCGCTAATGATC
Found at i:44160915 original size:15 final size:15
Alignment explanation
Indices: 44160858--44160916 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
44160848 ATTAACTAAT
44160858 TATGGTAAA-ATATA
1 TATGGTAAATATATA
* *
44160872 TTATGATAAATATGTA
1 -TATGGTAAATATATA
* *
44160888 AAT--TAAATTTATA
1 TATGGTAAATATATA
44160901 TATGGTAAATATATA
1 TATGGTAAATATATA
44160916 T
1 T
44160917 GATTTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 10 0.29
15 20 0.59
16 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (15 bp):
TATGGTAAATATATA
Found at i:44161678 original size:41 final size:40
Alignment explanation
Indices: 44161633--44161995 Score: 408
Period size: 41 Copynumber: 8.9 Consensus size: 40
44161623 TCTTATGAGA
* * *
44161633 AAGCGCTGCTATTGCTCCGACCTTTAGCGGCACTTTCCTAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* * *
44161674 AAGCGCCGTTATTGCTCCGACCTTTAGCGGCGCTTCCCGAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* *
44161715 AAGTGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTACACAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTC-CAT
* **
44161756 AAGCGCCG-TGTTGCCCCGACCTTTAGCGGCGCCTGCCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCG-CTTTCCAT
* **
44161796 AAGCGCCGCTGTTGCTCCGACCTTTAGCAGCGCTTATGGGA-
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTT-T-CCAT
* *
44161837 AAGCGCCGCTGTTGCTCCGACATTTAGCGGCGCTTTACCGT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTT-CCAT
* *
44161878 AAGCGCCGCTGTTGCTCCGACATTTAGCGGCGCTTTACCGT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTT-CCAT
* *
44161919 AAGCGCCGCTATTGCTCCGACCTTTAGCGACGCTTTTCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGC-TTTCCAT
* * * *
44161960 AAGCGCCGCTATTGCT-CTACCTTTTGCGGCGTTTTC
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTC
44161996 TTTCCAAACG
Statistics
Matches: 282, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.01
40 48 0.17
41 225 0.80
42 5 0.02
ACGTcount: A:0.15, C:0.33, G:0.25, T:0.28
Consensus pattern (40 bp):
AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCCAT
Found at i:44161870 original size:24 final size:24
Alignment explanation
Indices: 44161838--44161911 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
44161828 CTTATGGGAA
44161838 AGCGCCGCTGTTGCTCCGACATTT
1 AGCGCCGCTGTTGCTCCGACATTT
* * *
44161862 AGCGGCGCT-TT--ACCG----TA
1 AGCGCCGCTGTTGCTCCGACATTT
44161879 AGCGCCGCTGTTGCTCCGACATTT
1 AGCGCCGCTGTTGCTCCGACATTT
*
44161903 AGCGGCGCT
1 AGCGCCGCT
44161912 TTACCGTAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
17 9 0.25
18 2 0.06
20 3 0.08
21 3 0.08
23 2 0.06
24 17 0.47
ACGTcount: A:0.14, C:0.32, G:0.28, T:0.26
Consensus pattern (24 bp):
AGCGCCGCTGTTGCTCCGACATTT
Found at i:44164464 original size:68 final size:68
Alignment explanation
Indices: 44164355--44164491 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
44164345 CTATGTGATG
*
44164355 AAAGTAGAAAATGATTACCCTATTAACTGTTTGGGTAGAGTCGGATTTAGTTGACATGCCATAAG
1 AAAGTAGAAAATGATTACCCTATTAACTGTTCGGGTAGAGTCGGATTTAGTTGACATGCCATAAG
44164420 ATT
66 ATT
44164423 AAAGTAGAAAATGATTACCCTATTAACTGTTCGGGTAGAGTCGGATTTAGTTGACATGCCATAAG
1 AAAGTAGAAAATGATTACCCTATTAACTGTTCGGGTAGAGTCGGATTTAGTTGACATGCCATAAG
44164488 ATT
66 ATT
44164491 A
1 A
44164492 GATTGTGTAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (68 bp):
AAAGTAGAAAATGATTACCCTATTAACTGTTCGGGTAGAGTCGGATTTAGTTGACATGCCATAAG
ATT
Found at i:44164597 original size:43 final size:43
Alignment explanation
Indices: 44164523--44164788 Score: 200
Period size: 43 Copynumber: 6.2 Consensus size: 43
44164513 ACGGTATAGG
* * *
44164523 CGATGATGCACT-TATGTGC-AAGTATATTTGCTTCAGTTCACC
1 CGATGATGCACTATATGTGCTAA-TATAATTGCTTCGGTTCATC
* *
44164565 CGATGATGCACTACATGTGCTAATATAATTGCTTTGGTTCATC
1 CGATGATGCACTATATGTGCTAATATAATTGCTTCGGTTCATC
* * * * ** *
44164608 CGATGATGCATTATGTGTGCTAGTATAATTGATTCGGTTTGTT
1 CGATGATGCACTATATGTGCTAATATAATTGCTTCGGTTCATC
* * *
44164651 CGATGATGCACTATGTGTGCCAATATAATTGCTTCGGCTT-GTC
1 CGATGATGCACTATATGTGCTAATATAATTGCTTCGG-TTCATC
* * * * ** *
44164694 CAATGATTCACTATGTGTG-TCAATATGATTTTTTCGGTTTATC
1 CGATGATGCACTATATGTGCT-AATATAATTGCTTCGGTTCATC
* * * * ** * *
44164737 CAATGATGCATTATGTGTGCCAATAT-ATTTTTTTGGTTTATC
1 CGATGATGCACTATATGTGCTAATATAATTGCTTCGGTTCATC
44164779 CGATGATGCA
1 CGATGATGCA
44164789 TTGTGGTGCT
Statistics
Matches: 187, Mismatches: 31, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
42 38 0.20
43 145 0.78
44 4 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (43 bp):
CGATGATGCACTATATGTGCTAATATAATTGCTTCGGTTCATC
Found at i:44164670 original size:86 final size:85
Alignment explanation
Indices: 44164523--44164800 Score: 251
Period size: 86 Copynumber: 3.3 Consensus size: 85
44164513 ACGGTATAGG
* * * * * * ** *
44164523 CGATGATGCACTTA--TGTGCAAGTATATTTGCTTCAGTTCACCCGATGATGCACTACATGTGCT
1 CGATGATGCA-TTATGTGTGCTAGTATAATTGATTCGGTTTATCCGATGATGCACTATGTGTGCC
44164586 AATATAATTGCTTTGGTTCATC
65 AATATAATTGCTTTGGTT-ATC
* *
44164608 CGATGATGCATTATGTGTGCTAGTATAATTGATTCGGTTTGTTCGATGATGCACTATGTGTGCCA
1 CGATGATGCATTATGTGTGCTAGTATAATTGATTCGGTTTATCCGATGATGCACTATGTGTGCCA
* *
44164673 ATATAATTGCTTCGGCTTGTC
66 ATATAATTGCTTTGG-TTATC
* * * * * ** * *
44164694 CAATGATTCACTATGTGTG-TCAATATGATTTTTTCGGTTTATCCAATGATGCATTATGTGTGCC
1 CGATGATGCATTATGTGTGCT-AGTATAATTGATTCGGTTTATCCGATGATGCACTATGTGTGCC
**
44164758 AATAT-ATTTTTTTGGTTTATC
65 AATATAATTGCTTTGG-TTATC
*
44164779 CGATGATGCATTGTG-GTGCTAG
1 CGATGATGCATTATGTGTGCTAG
44164801 GTTGGTGTGT
Statistics
Matches: 154, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
84 7 0.05
85 34 0.22
86 111 0.72
87 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (85 bp):
CGATGATGCATTATGTGTGCTAGTATAATTGATTCGGTTTATCCGATGATGCACTATGTGTGCCA
ATATAATTGCTTTGGTTATC
Found at i:44164981 original size:36 final size:36
Alignment explanation
Indices: 44164932--44165003 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
44164922 TAAAAGAAAA
44164932 TGGATTGGCTATATGGC-AATTCATATGAATTGTGAT
1 TGGATTGGCTATAT-GCAAATTCATATGAATTGTGAT
* * *
44164968 TGGATTTGTTATATTCAAATTCATATGAATTGTGAT
1 TGGATTGGCTATATGCAAATTCATATGAATTGTGAT
44165004 ATGCGACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (36 bp):
TGGATTGGCTATATGCAAATTCATATGAATTGTGAT
Found at i:44167025 original size:13 final size:14
Alignment explanation
Indices: 44167000--44167028 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44166990 TTTATATATA
44167000 ATAAATATAGATAG
1 ATAAATATAGATAG
44167014 ATAAATAT-GATAG
1 ATAAATATAGATAG
44167027 AT
1 AT
44167029 TTCACAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
ATAAATATAGATAG
Found at i:44173074 original size:35 final size:35
Alignment explanation
Indices: 44173032--44173118 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 35
44173022 GTGACGGATC
* *
44173032 CACATTGCGAGCTCAATTCTCCTGCAAGCTCTCCA
1 CACATTGCGAGCTCAACTCACCTGCAAGCTCTCCA
*
44173067 CACATTGCGAGCTCAACTCACCTGCGAGCTCTCCA
1 CACATTGCGAGCTCAACTCACCTGCAAGCTCTCCA
* * *
44173102 CATAGTGCGATCTCAAC
1 CACATTGCGAGCTCAAC
44173119 AAATCTGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.23
Consensus pattern (35 bp):
CACATTGCGAGCTCAACTCACCTGCAAGCTCTCCA
Found at i:44173131 original size:35 final size:35
Alignment explanation
Indices: 44173052--44173132 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
44173042 GCTCAATTCT
* * **
44173052 CCTGCAAGCTCTCCACACATTGCGAGCTCAACTCA
1 CCTGCGAGCTCTCCACACAGTGCGAGCTCAACAAA
* *
44173087 CCTGCGAGCTCTCCACATAGTGCGATCTCAACAAA
1 CCTGCGAGCTCTCCACACAGTGCGAGCTCAACAAA
* *
44173122 TCTGTGAGCTC
1 CCTGCGAGCTC
44173133 ATCAAAAGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (35 bp):
CCTGCGAGCTCTCCACACAGTGCGAGCTCAACAAA
Found at i:44173148 original size:17 final size:18
Alignment explanation
Indices: 44173128--44173179 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
44173118 CAAATCTGTG
44173128 AGCTCATCAAAAGTGC-A
1 AGCTCATCAAAAGTGCGA
*
44173145 AGCTCA-CTAAAGCTGCGA
1 AGCTCATCAAAAG-TGCGA
*
44173163 AG-TCATCAAAGGTGCGA
1 AGCTCATCAAAAGTGCGA
44173180 GTTCTATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.17
17 17 0.59
18 7 0.24
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (18 bp):
AGCTCATCAAAAGTGCGA
Found at i:44174846 original size:21 final size:20
Alignment explanation
Indices: 44174822--44174861 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44174812 AAATTAAGTG
44174822 AAAAAAATATAATTTATTTTC
1 AAAAAAAT-TAATTTATTTTC
* *
44174843 AAAAAGATTAATTTGTTTT
1 AAAAAAATTAATTTATTTT
44174862 TATAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAAAAATTAATTTATTTTC
Found at i:44175844 original size:22 final size:22
Alignment explanation
Indices: 44175809--44175859 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
44175799 AAGTGCTGGG
*
44175809 AAACAGTAGGCACACACAGTGCT
1 AAACAG-AAGCACACACAGTGCT
* *
44175832 GAACAGAAGCACACATAGTGCT
1 AAACAGAAGCACACACAGTGCT
44175854 AAACAG
1 AAACAG
44175860 TAGGCGCGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.43, C:0.24, G:0.22, T:0.12
Consensus pattern (22 bp):
AAACAGAAGCACACACAGTGCT
Found at i:44179690 original size:35 final size:35
Alignment explanation
Indices: 44179644--44179715 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
44179634 CCCAAATCAG
44179644 TAAACAACCTCTCTCCTACCCTGTACTTATACCGA
1 TAAACAACCTCTCTCCTACCCTGTACTTATACCGA
44179679 TAAACAACCTCTCTCCTACCCTGTACTTATACCGA
1 TAAACAACCTCTCTCCTACCCTGTACTTATACCGA
44179714 TA
1 TA
44179716 CAAGCAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.36, G:0.06, T:0.29
Consensus pattern (35 bp):
TAAACAACCTCTCTCCTACCCTGTACTTATACCGA
Found at i:44180292 original size:40 final size:40
Alignment explanation
Indices: 44180206--44180341 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
44180196 TTATGCTCTA
* * * *
44180206 TCGAGTCATAAGTCTTCTTTTAACCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTC-TTTAACCA-AATCTCATTCTCATT
*
44180248 TCGAGACATGAGTCTTCTTTAAGCAAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCTTTAACCAAATCTCATTCTCATT
* *
44180288 TCGAGACATGAGTCTTCCTTAATCAAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCTTTAACCAAATCTCATTCTCATT
44180328 TCGAGACATGAGTC
1 TCGAGACATGAGTC
44180342 ATCCATTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 65 0.75
41 7 0.08
42 15 0.17
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (40 bp):
TCGAGACATGAGTCTTCTTTAACCAAATCTCATTCTCATT
Found at i:44180325 original size:46 final size:41
Alignment explanation
Indices: 44180206--44180390 Score: 169
Period size: 40 Copynumber: 4.5 Consensus size: 41
44180196 TTATGCTCTA
* * * * *
44180206 TCGAGTCATAAGTCTTCTTTTAACCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTC-CTTAAGCAAATTCTCATTCTCATC
* *
44180248 TCGAGACATGAGTCTTCTTTAAGCAAA-TCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAAGCAAATTCTCATTCTCATC
* *
44180288 TCGAGACATGAGTCTTCCTTAATCAAA-TCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTAAGCAAATTCTCATTCTCATC
* * * * * *
44180328 TCGAGACATGAGTCATCCATTTTTA-CGATTTCTCATGCTCAAC
1 TCGAGACATGAGTCTTCC---TTAAGCAAATTCTCATTCTCATC
*
44180371 CCGAGACATGAGTCTTCCTT
1 TCGAGACATGAGTCTTCCTT
44180391 TTTATACACC
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
40 69 0.56
41 8 0.07
42 17 0.14
43 29 0.24
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (41 bp):
TCGAGACATGAGTCTTCCTTAAGCAAATTCTCATTCTCATC
Found at i:44181237 original size:22 final size:21
Alignment explanation
Indices: 44181190--44181237 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
44181180 GACTTTTATA
*
44181190 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* *
44181211 TTTAACCTTAATTAATCCTATT
1 ATTAA-CTTAATTAATCATATT
44181233 ATTAA
1 ATTAA
44181238 TCAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:44185097 original size:6 final size:6
Alignment explanation
Indices: 44185086--44185118 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
44185076 TGATCAAAAT
44185086 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
44185119 TATGAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (6 bp):
TGAAAG
Found at i:44185269 original size:41 final size:41
Alignment explanation
Indices: 44185222--44185320 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 41
44185212 GACCTTGAGC
** * *
44185222 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGACT
** * *
44185263 CGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGGCT
1 CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGACT
44185301 -GATGAGACACTGGGTGTCAC
1 CGATGAGACACTGGGTGTCAC
44185321 TTTATTTCTT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 9 0.20
38 18 0.40
39 4 0.09
40 4 0.09
41 10 0.22
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGACT
Found at i:44186527 original size:30 final size:30
Alignment explanation
Indices: 44186491--44186547 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
44186481 GAGCTCCTGA
44186491 GATAGTGTGATTTCTTAGAGGTGATCCAAT
1 GATAGTGTGATTTCTTAGAGGTGATCCAAT
*
44186521 GATAGTGTGATTTCTTCGAGGTGATCC
1 GATAGTGTGATTTCTTAGAGGTGATCC
44186548 GATCTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (30 bp):
GATAGTGTGATTTCTTAGAGGTGATCCAAT
Found at i:44186772 original size:36 final size:36
Alignment explanation
Indices: 44186716--44186888 Score: 276
Period size: 36 Copynumber: 4.8 Consensus size: 36
44186706 TCGATATCCG
44186716 ATTT-ACTCCCTGTTGACCCAAAGGTCATGATACTC
1 ATTTCACTCCCTGTTGACCCAAAGGTCATGATACTC
* *
44186751 ATTTCACTCTCTGTTGACCCAAAGGTCATGATGCTC
1 ATTTCACTCCCTGTTGACCCAAAGGTCATGATACTC
*
44186787 ATTTTACTCCCTGTTGACCCAAAGGTCATGATACTC
1 ATTTCACTCCCTGTTGACCCAAAGGTCATGATACTC
* * *
44186823 ATTTCACTCTCTATTGACCCAAAGGTCATGATGCTC
1 ATTTCACTCCCTGTTGACCCAAAGGTCATGATACTC
*
44186859 ATTTTACTCCCTGTTGACCCAAAGGTCATG
1 ATTTCACTCCCTGTTGACCCAAAGGTCATG
44186889 CATGTTACCA
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
35 4 0.03
36 121 0.97
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (36 bp):
ATTTCACTCCCTGTTGACCCAAAGGTCATGATACTC
Found at i:44186834 original size:72 final size:72
Alignment explanation
Indices: 44186717--44186888 Score: 335
Period size: 72 Copynumber: 2.4 Consensus size: 72
44186707 CGATATCCGA
*
44186717 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCATTTCACTCTCTGTTGACCCAAAGGTCATGA
1 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCATTTCACTCTCTATTGACCCAAAGGTCATGA
44186782 TGCTCAT
66 TGCTCAT
44186789 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCATTTCACTCTCTATTGACCCAAAGGTCATGA
1 TTTACTCCCTGTTGACCCAAAGGTCATGATACTCATTTCACTCTCTATTGACCCAAAGGTCATGA
44186854 TGCTCAT
66 TGCTCAT
44186861 TTTACTCCCTGTTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
44186889 CATGTTACCA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 99 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (72 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATACTCATTTCACTCTCTATTGACCCAAAGGTCATGA
TGCTCAT
Found at i:44189732 original size:84 final size:82
Alignment explanation
Indices: 44189636--44189789 Score: 229
Period size: 84 Copynumber: 1.9 Consensus size: 82
44189626 TCCCTAAATA
* *
44189636 TTTATAAATTCTTGCGGCATAAATATCAATGTTTTGAATAAAACA-AGAAAAAAAGATGACCTAT
1 TTTATAAATTCTTGCCGCATAAATATCAATGTTTTGAA-AAAA-AGAGAAAAAAAGATAACCTAT
44189700 GGGGTGACGTATTATCAAAG
64 -GGGTGACGTATTATCAAAG
* * *
44189720 TTTATAAATTCTTGCCGCATAAATATCAATGTTTTTAAAAAAAGAGAGAAAAAGGTAACCTATGG
1 TTTATAAATTCTTGCCGCATAAATATCAATGTTTTGAAAAAAAGAGAAAAAAAGATAACCTATGG
44189785 GTGAC
66 GTGAC
44189790 ATGCTCGGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
82 8 0.12
83 20 0.31
84 36 0.56
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (82 bp):
TTTATAAATTCTTGCCGCATAAATATCAATGTTTTGAAAAAAAGAGAAAAAAAGATAACCTATGG
GTGACGTATTATCAAAG
Found at i:44193782 original size:14 final size:14
Alignment explanation
Indices: 44193763--44193793 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44193753 TTGGTTTAAA
44193763 AAATTTAATTAATT
1 AAATTTAATTAATT
*
44193777 AAATTTATTTAATT
1 AAATTTAATTAATT
44193791 AAA
1 AAA
44193794 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:44199124 original size:17 final size:17
Alignment explanation
Indices: 44199102--44199136 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44199092 ATGCCAAAAT
44199102 AAAATATTAATT-ATTAA
1 AAAATATT-ATTAATTAA
44199119 AAAATATTATTAATTAA
1 AAAATATTATTAATTAA
44199136 A
1 A
44199137 TTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTATTAATTAA
Found at i:44201440 original size:24 final size:23
Alignment explanation
Indices: 44201399--44201445 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
44201389 AGTACTTAAC
*
44201399 AGAAGCGCATAAAAGCTAAGGAAA
1 AGAAGCACATAAAAGCT-AGGAAA
**
44201423 AGAAGCACATAAGTGCTAGGAAA
1 AGAAGCACATAAAAGCTAGGAAA
44201446 CAGCAGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.51, C:0.13, G:0.26, T:0.11
Consensus pattern (23 bp):
AGAAGCACATAAAAGCTAGGAAA
Found at i:44201465 original size:26 final size:23
Alignment explanation
Indices: 44201423--44201538 Score: 116
Period size: 22 Copynumber: 5.1 Consensus size: 23
44201413 GCTAAGGAAA
*
44201423 AGAAGCACATA-AGTGCTAGGAAAC
1 AGAAGCACACACAGTGCTA-G-AAC
* *
44201447 AGCAGGTACACACAGTGCT-GAAC
1 AG-AAGCACACACAGTGCTAGAAC
44201470 AGAAGCACACACAGTGCTA-AAC
1 AGAAGCACACACAGTGCTAGAAC
*
44201492 AGAAGCACACATAGTGCT-GAAC
1 AGAAGCACACACAGTGCTAGAAC
* *
44201514 AGAGGCACATACAGTGCTA-AAC
1 AGAAGCACACACAGTGCTAGAAC
44201536 AGA
1 AGA
44201539 GGGCACGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
22 58 0.74
23 5 0.06
24 3 0.04
25 6 0.08
26 6 0.08
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
AGAAGCACACACAGTGCTAGAAC
Found at i:44201481 original size:22 final size:22
Alignment explanation
Indices: 44201454--44201538 Score: 125
Period size: 22 Copynumber: 3.9 Consensus size: 22
44201444 AACAGCAGGT
*
44201454 ACACACAGTGCTGAACAGAAGC
1 ACACACAGTGCTAAACAGAAGC
44201476 ACACACAGTGCTAAACAGAAGC
1 ACACACAGTGCTAAACAGAAGC
* * *
44201498 ACACATAGTGCTGAACAGAGGC
1 ACACACAGTGCTAAACAGAAGC
*
44201520 ACATACAGTGCTAAACAGA
1 ACACACAGTGCTAAACAGA
44201539 GGGCACGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (22 bp):
ACACACAGTGCTAAACAGAAGC
Found at i:44201508 original size:44 final size:44
Alignment explanation
Indices: 44201454--44201538 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
44201444 AACAGCAGGT
44201454 ACACACAGTGCTGAACAGAAGCACACACAGTGCTAAACAGAAGC
1 ACACACAGTGCTGAACAGAAGCACACACAGTGCTAAACAGAAGC
* * *
44201498 ACACATAGTGCTGAACAGAGGCACATACAGTGCTAAACAGA
1 ACACACAGTGCTGAACAGAAGCACACACAGTGCTAAACAGA
44201539 GGGCACGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (44 bp):
ACACACAGTGCTGAACAGAAGCACACACAGTGCTAAACAGAAGC
Found at i:44201539 original size:22 final size:22
Alignment explanation
Indices: 44201443--44201540 Score: 124
Period size: 22 Copynumber: 4.4 Consensus size: 22
44201433 AAGTGCTAGG
*
44201443 AAACAGCAGGTACACACAGTGCT
1 AAACAG-AGGCACACACAGTGCT
* *
44201466 GAACAGAAGCACACACAGTGCT
1 AAACAGAGGCACACACAGTGCT
* *
44201488 AAACAGAAGCACACATAGTGCT
1 AAACAGAGGCACACACAGTGCT
* *
44201510 GAACAGAGGCACATACAGTGCT
1 AAACAGAGGCACACACAGTGCT
44201532 AAACAGAGG
1 AAACAGAGG
44201541 GCACGAAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
22 60 0.92
23 5 0.08
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.11
Consensus pattern (22 bp):
AAACAGAGGCACACACAGTGCT
Found at i:44206797 original size:31 final size:30
Alignment explanation
Indices: 44206752--44206818 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
44206742 ATCTTTATAA
44206752 TTTT-AAAAGATT-AAATCA-AATTTTTATTT
1 TTTTAAAAAGATTAAAAT-ATAA-TTTTATTT
44206781 TTTTAAAAGAGATTAAAATATAATTTTATTT
1 TTTTAAAA-AGATTAAAATATAATTTTATTT
44206812 TTATTAA
1 TT-TTAA
44206819 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
29 4 0.12
30 3 0.09
31 16 0.48
32 10 0.30
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTAAAAAGATTAAAATATAATTTTATTT
Found at i:44208658 original size:7 final size:7
Alignment explanation
Indices: 44208642--44208676 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
44208632 CGGTGGCCTT
44208642 GTACCAA
1 GTACCAA
*
44208649 GTACCGA
1 GTACCAA
44208656 GTACCAA
1 GTACCAA
44208663 GTACCAA
1 GTACCAA
44208670 GTACCAA
1 GTACCAA
44208677 TGCATGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (7 bp):
GTACCAA
Found at i:44212998 original size:18 final size:18
Alignment explanation
Indices: 44212951--44212990 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
44212941 GACTTTTTTA
* *
44212951 TTTTTGTAATTCATATAT
1 TTTTTATAATTTATATAT
44212969 TTTTTATAATTTATATAT
1 TTTTTATAATTTATATAT
44212987 TTTT
1 TTTT
44212991 CTTTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTATAATTTATATAT
Found at i:44215341 original size:26 final size:27
Alignment explanation
Indices: 44215309--44215363 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 27
44215299 AAATTTTTTA
44215309 TTTATAA-TGTTAAAACGCTT-AAATTT
1 TTTATAAGTGTTAAAA-GCTTCAAATTT
44215335 TTTATAAGTGTTAAAAGCTTCCAAATTT
1 TTTATAAGTGTTAAAAGCTT-CAAATTT
44215363 T
1 T
44215364 CTTTAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 11 0.42
27 8 0.31
28 7 0.27
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (27 bp):
TTTATAAGTGTTAAAAGCTTCAAATTT
Found at i:44217263 original size:6 final size:6
Alignment explanation
Indices: 44217238--44217276 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
44217228 ACAATTCATA
* * *
44217238 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
44217277 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:44224442 original size:20 final size:21
Alignment explanation
Indices: 44224406--44224445 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
44224396 ATATTGTTGT
44224406 TTTGGTGCTGCTTTTTTACTA
1 TTTGGTGCTGCTTTTTTACTA
*
44224427 TTTGGTGTTG-TTTTTTACT
1 TTTGGTGCTGCTTTTTTACT
44224446 GTTATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.62
Consensus pattern (21 bp):
TTTGGTGCTGCTTTTTTACTA
Found at i:44224473 original size:22 final size:22
Alignment explanation
Indices: 44224448--44224510 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
44224438 TTTTTACTGT
*
44224448 TATTTTGTTGCTATTTTGTTAC
1 TATTTTGTTGCTATTTTATTAC
* * *
44224470 TATTTTTTTGTTATTTTTATTGC
1 TATTTTGTTGCTA-TTTTATTAC
*
44224493 TGCTTTTGTTGCTATTTT
1 T-ATTTTGTTGCTATTTT
44224511 TGTTGTTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 11 0.34
23 12 0.38
24 9 0.28
ACGTcount: A:0.11, C:0.08, G:0.13, T:0.68
Consensus pattern (22 bp):
TATTTTGTTGCTATTTTATTAC
Found at i:44224522 original size:12 final size:12
Alignment explanation
Indices: 44224450--44224515 Score: 73
Period size: 12 Copynumber: 5.7 Consensus size: 12
44224440 TTTACTGTTA
44224450 TTTTGTTGCTA-
1 TTTTGTTGCTAT
*
44224461 TTTTGTTACTAT
1 TTTTGTTGCTAT
*
44224473 TTTT-TTGTTAT
1 TTTTGTTGCTAT
* **
44224484 TTTTATTGCTGC
1 TTTTGTTGCTAT
44224496 TTTTGTTGCTAT
1 TTTTGTTGCTAT
44224508 TTTTGTTG
1 TTTTGTTG
44224516 TTGTTTTGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
11 19 0.43
12 25 0.57
ACGTcount: A:0.09, C:0.08, G:0.15, T:0.68
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:44224644 original size:43 final size:42
Alignment explanation
Indices: 44224595--44224692 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 42
44224585 TTGTTTCGCT
44224595 GTGTAACATCCGCATTATTGAACTGGAGTTGGAATAATAATA
1 GTGTAACATCCGCATTATTGAACTGGAGTTGGAATAATAATA
*
44224637 GTTGTAACATCCACATTATTGAACTGGAGTTGGAATAATAATA
1 G-TGTAACATCCGCATTATTGAACTGGAGTTGGAATAATAATA
44224680 GTGTAACATCCGC
1 GTGTAACATCCGC
44224693 GTGCTTGAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
42 12 0.23
43 41 0.77
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (42 bp):
GTGTAACATCCGCATTATTGAACTGGAGTTGGAATAATAATA
Found at i:44226599 original size:41 final size:40
Alignment explanation
Indices: 44226551--44226651 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
44226541 TCGACCTTGA
** *
44226551 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
44226591 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
44226629 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
44226652 TTTATTGTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:44228713 original size:15 final size:15
Alignment explanation
Indices: 44228693--44228738 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
44228683 AAAAAGTCGA
* *
44228693 TTCTTTCTTTTCTTC
1 TTCTTTCTTTCCATC
44228708 TTCTTTCTTTCCATC
1 TTCTTTCTTTCCATC
44228723 TTCTTCTTCTTTCCAT
1 TTC-T-TTCTTTCCAT
44228739 ATTCAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCTTTCTTTCCATC
Found at i:44228726 original size:18 final size:17
Alignment explanation
Indices: 44228703--44228738 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
44228693 TTCTTTCTTT
44228703 TCTTCTTCTTTCTTTCCA
1 TCTTCTTC-TTCTTTCCA
44228721 TCTTCTTCTTCTTTCCA
1 TCTTCTTCTTCTTTCCA
44228738 T
1 T
44228739 ATTCAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (17 bp):
TCTTCTTCTTCTTTCCA
Found at i:44231598 original size:30 final size:30
Alignment explanation
Indices: 44231571--44231756 Score: 243
Period size: 30 Copynumber: 6.2 Consensus size: 30
44231561 TTAAAAATCT
*
44231571 CATTTTGACCCCTAAACTT-TCTTAAAATTA
1 CATTTTAACCCCTAAACTTCTC-TAAAATTA
* * *
44231601 CATTTTGACCTCTAAACTTCTC-CAAATTA
1 CATTTTAACCCCTAAACTTCTCTAAAATTA
*
44231630 CATTTTTAACCCTTAAACTTCTCTAAAATTA
1 CA-TTTTAACCCCTAAACTTCTCTAAAATTA
*
44231661 CATTTTAACCCTTAAACTTCTCTAAAATTA
1 CATTTTAACCCCTAAACTTCTCTAAAATTA
* *
44231691 CATTTTAACCCTTAAACTTCTCCAAAATTA
1 CATTTTAACCCCTAAACTTCTCTAAAATTA
*
44231721 CATTTTAACCCCTAAACTT-TCTAAAAATCA
1 CATTTTAACCCCTAAACTTCTCT-AAAATTA
44231751 CATTTT
1 CATTTT
44231757 CAATCTTAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
29 10 0.07
30 122 0.86
31 10 0.07
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTCTCTAAAATTA
Found at i:44231689 original size:90 final size:90
Alignment explanation
Indices: 44231562--44231756 Score: 272
Period size: 90 Copynumber: 2.2 Consensus size: 90
44231552 CTGTTTTCTT
* * *
44231562 TAAAAATCTCATTTTGACCCCTAAACTTTCTTAAAATTACATTTTGA-CCTCTAAACTTCTCC-A
1 TAAAAATCACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTAACCCT-TAAACTTCTCCAA
*
44231625 AATTACATTTTTAACCCTTAAACTTCTC
65 AATTACA-TTTTAACCCCTAAACTT-TC
* *
44231653 T-AAAATTACATTTTAACCCTTAAAC-TTCTCTAAAATTACATTTTAACCCTTAAACTTCTCCAA
1 TAAAAATCACATTTTAACCCCTAAACTTTCT-TAAAATTACATTTTAACCCTTAAACTTCTCCAA
44231716 AATTACATTTTAACCCCTAAACTTTC
65 AATTACATTTTAACCCCTAAACTTTC
44231742 TAAAAATCACATTTT
1 TAAAAATCACATTTT
44231757 CAATCTTAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
89 7 0.08
90 74 0.80
91 12 0.13
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (90 bp):
TAAAAATCACATTTTAACCCCTAAACTTTCTTAAAATTACATTTTAACCCTTAAACTTCTCCAAA
ATTACATTTTAACCCCTAAACTTTC
Found at i:44239055 original size:43 final size:42
Alignment explanation
Indices: 44239007--44239091 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
44238997 ACAAATTTTT
* *
44239007 TAAACCCAAATATAATTTTCATTCTTCAAA-AATACTCATAAAC
1 TAAACCCAAATATAATTTT-ATTCCT-AAATAACACTCATAAAC
44239050 TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAAC
44239092 AACTAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
41 3 0.08
42 17 0.44
43 19 0.49
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (42 bp):
TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAAC
Found at i:44239483 original size:51 final size:52
Alignment explanation
Indices: 44239388--44239489 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
44239378 TGTATTTTGG
* * **
44239388 ACTTTTGCTTATGTTTTTTTATAATCTTGTTGTGTTATTGTTG-TTACTTAA
1 ACTTTTGCTTATGTTTTTTTATAATCTTGTTATATTATCATTGTTTACTTAA
*
44239439 ACTTTTGCTTAT-TTTTTATTATAATCTTGTTATATTGTCATTGTTTACTTA
1 ACTTTTGCTTATGTTTTT-TTATAATCTTGTTATATTATCATTGTTTACTTA
44239490 GATTTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
50 5 0.11
51 32 0.73
52 7 0.16
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.61
Consensus pattern (52 bp):
ACTTTTGCTTATGTTTTTTTATAATCTTGTTATATTATCATTGTTTACTTAA
Found at i:44243731 original size:78 final size:77
Alignment explanation
Indices: 44243648--44244084 Score: 401
Period size: 78 Copynumber: 5.6 Consensus size: 77
44243638 AAAGATTCCG
* ** * * * * *
44243648 ATCTCTTACCCCGATCACGAGGCAGATCACAATCATTCGATCTTTTACCCCAAGCTTGAGGCAGA
1 ATCTCTTACCCCGAGC-CGAGGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGCAGA
*
44243713 TCACCATTAGCCA
65 TCACCATCAGCCA
** * * * * *
44243726 ATCTCTTA-CCCGAGCTTAGGGCAGATTGCAGCCGTCCAATCTCTTACCCCGAGCCTGTGGTAGA
1 ATCTCTTACCCCGAGCCGA-GGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGCAGA
* *
44243790 TCATCATCATCCA
65 TCACCATCAGCCA
* * * * * *
44243803 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAGCCATCCAATCTCTTACCCCAAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCCGA-GGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGCAGA
44243868 TCACCATCAGCCA
65 TCACCATCAGCCA
* ** * * *
44243881 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACTGTCCGATCTCTTACCCTGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCC-GAGGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGCAGA
44243946 TCACCATCAGCCA
65 TCACCATCAGCCA
* * * *** * * *
44243959 ATCTCTTACCCCAAGCCTGGGGCAGATTACAATTGTCCAATCTTTTACCCCGAGCCT-AGGGCAA
1 ATCTCTTACCCCGAGCC-GAGGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGA-GGCAG
*
44244023 ATCATCATCAGCCA
64 ATCACCATCAGCCA
* * * *
44244037 ATCTCTTATCCCGAGCCTAGGATAGATTGCAACCATCCAATATCTTAC
1 ATCTCTTACCCCGAGCCGAGG-CAGATTGCAACCATCCAATCTCTTAC
44244085 TAAAAAAAAT
Statistics
Matches: 297, Mismatches: 57, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
76 1 0.00
77 59 0.20
78 237 0.80
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (77 bp):
ATCTCTTACCCCGAGCCGAGGCAGATTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGCAGAT
CACCATCAGCCA
Found at i:44243735 original size:39 final size:39
Alignment explanation
Indices: 44243648--44244054 Score: 246
Period size: 39 Copynumber: 10.5 Consensus size: 39
44243638 AAAGATTCCG
* * * ** *
44243648 ATCTCTTACCCCGATCAC-GAGGCAGATCACAATCATTCG
1 ATCTCTTACCCCGAGC-CTGAGGCAGATCACCATTAGCCA
* * *
44243687 ATCTTTTACCCCAAGCTTGAGGCAGATCACCATTAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* *
44243726 ATCTCTTA-CCCGAG-CTTAGGGCAGATTGCAGCC-GT--CCA
1 ATCTCTTACCCCGAGCCTGA-GGCAGA-T-CA-CCATTAGCCA
* * * * *
44243764 ATCTCTTACCCCGAGCCTGTGGTAGATCATCATCATCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
*
44243803 ATCTCTTACCCCGAGCCT-AGGGCAGATTGTAGCCA-T--CCA
1 ATCTCTTACCCCGAGCCTGA-GGCAGA-T-CA-CCATTAGCCA
* * * * *
44243842 ATCTCTTACCCCAAGCTTGGGGTAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* ** * * *
44243881 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAACT-GTCCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAG-CCA
* * * *
44243920 ATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * *
44243959 ATCTCTTACCCCAAGCCTGGGGCAGATTACAATT-GTCCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAG-CCA
* * * *
44243998 ATCTTTTACCCCGAGCCT-AGGGCAAATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGA-GGCAGATCACCATTAGCCA
*
44244037 ATCTCTTATCCCGAGCCT
1 ATCTCTTACCCCGAGCCT
44244055 AGGATAGATT
Statistics
Matches: 281, Mismatches: 64, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
36 4 0.01
37 5 0.02
38 26 0.09
39 233 0.83
40 8 0.03
41 3 0.01
42 2 0.01
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATCACCATTAGCCA
Found at i:44243924 original size:117 final size:115
Alignment explanation
Indices: 44243759--44244084 Score: 320
Period size: 117 Copynumber: 2.8 Consensus size: 115
44243749 GATTGCAGCC
* * *
44243759 GTCCAATCTCTTACCCCGAGCCTGTGGTAGA-TCATCATCATCCAATCTCTTACCCCGAGCCTAG
1 GTCCAATCTCTTACCCCGAGCCTGGGGCAGATTCATC-T-GTCCAATCTCTTACCCCGAGCCTAG
* * * *
44243823 GGCAGATTGTAGCCATCCAATCTCTTACCCCAAGCTTGGGGTAGATCACCATCA
64 GGCAGATTGCA-CCATCCAATCTCTTACCCCAAGCCTGGGGCAGATCACAAT-A
* * * * *
44243877 G-CCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACTGTCCGATCTCTTACCCTGAGCTTGGG
1 GTCCAATCTCTTACCCCGAGCCTGGGGCAGATT-CATCTGTCCAATCTCTTACCCCGAGCCTAGG
* *
44243941 GCAGA-T-CACCATCAGCCAATCTCTTACCCCAAGCCTGGGGCAGATTACAATT
65 GCAGATTGCACCAT---CCAATCTCTTACCCCAAGCCTGGGGCAGATCACAATA
* * * * *
44243993 GTCCAATCTTTTACCCCGAGCCTAGGGCAAATCATCATCAG-CCAATCTCTTATCCCGAGCCTAG
1 GTCCAATCTCTTACCCCGAGCCTGGGGCAGAT--TCATCTGTCCAATCTCTTACCCCGAGCCTAG
** *
44244057 GATAGATTGCAACCATCCAATATCTTAC
64 GGCAGATTGC-ACCATCCAATCTCTTAC
44244085 TAAAAAAAAT
Statistics
Matches: 170, Mismatches: 27, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
114 4 0.02
115 1 0.01
116 2 0.01
117 145 0.85
118 8 0.05
119 5 0.03
120 5 0.03
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (115 bp):
GTCCAATCTCTTACCCCGAGCCTGGGGCAGATTCATCTGTCCAATCTCTTACCCCGAGCCTAGGG
CAGATTGCACCATCCAATCTCTTACCCCAAGCCTGGGGCAGATCACAATA
Found at i:44243976 original size:156 final size:155
Alignment explanation
Indices: 44243668--44244084 Score: 492
Period size: 156 Copynumber: 2.7 Consensus size: 155
44243658 CCGATCACGA
* * * * * *
44243668 GGCAGATCACAATCATTCGATCTTTTACCCCAAGCTTGAGGCAGATCACCATTAGCCAATCTCTT
1 GGCAGATTACAACCATCCAATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCAATCTCTT
* * * * *
44243733 ACCCGAGCTTAGGGCAGATTGCAGCCGTCCAATCTCTTACCCCGAGCCTGTGGTAGATCATCATC
66 ACCCGAGCCTAGGGCAGATTGCAACCGTCCAATCTCTTACCCCGAGCCTGGGGCAGATCACCATC
* *
44243798 ATCCAATCTCTTACCCCGAGCCTAG
131 AGCCAATCTCTTACCCCAAGCCTAG
** * * *
44243823 GGCAGATTGTAGCCATCCAATCTCTTACCCCAAGCTTGGGGTAGATCACCATCAGCCAATCTCTT
1 GGCAGATTACAACCATCCAATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCAATCTCTT
* * * * *
44243888 ACCCCGAGCCTGGGGCAGATTGCAACTGTCCGATCTCTTACCCTGAGCTTGGGGCAGATCACCAT
66 A-CCCGAGCCTAGGGCAGATTGCAACCGTCCAATCTCTTACCCCGAGCCTGGGGCAGATCACCAT
*
44243953 CAGCCAATCTCTTACCCCAAGCCTGG
130 CAGCCAATCTCTTACCCCAAGCCTAG
*** * * * * *
44243979 GGCAGATTACAATTGTCCAATCTTTTACCCCGAGCCTAGGGCAAATCATCATCAGCCAATCTCTT
1 GGCAGATTACAACCATCCAATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCAATCTCTT
** * *
44244044 ATCCCGAGCCTAGGATAGATTGCAACCATCCAATATCTTAC
66 A-CCCGAGCCTAGGGCAGATTGCAACCGTCCAATCTCTTAC
44244085 TAAAAAAAAT
Statistics
Matches: 216, Mismatches: 45, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
155 55 0.25
156 161 0.75
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (155 bp):
GGCAGATTACAACCATCCAATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAGCCAATCTCTT
ACCCGAGCCTAGGGCAGATTGCAACCGTCCAATCTCTTACCCCGAGCCTGGGGCAGATCACCATC
AGCCAATCTCTTACCCCAAGCCTAG
Found at i:44244055 original size:39 final size:39
Alignment explanation
Indices: 44243707--44244057 Score: 288
Period size: 39 Copynumber: 9.0 Consensus size: 39
44243697 CCAAGCTTGA
* * *
44243707 GGCAGATCACCATTAGCCAATCTCTTA-CCCGAGCTTAG
1 GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
* *
44243745 GGCAGAT--TGCAGCCGTCCAATCTCTTACCCCGAGCCT-G
1 GGCAGATCAT-CATCAG-CCAATCTCTTACCCCGAGCCTAG
* *
44243783 TGGTAGATCATCATCATCCAATCTCTTACCCCGAGCCTAG
1 -GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
** * * * * *
44243823 GGCAGATTGT-AGCCATCCAATCTCTTACCCCAAGCTTGG
1 GGCAGATCATCA-TCAGCCAATCTCTTACCCCGAGCCTAG
* * *
44243862 GGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGG
1 GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
* * * * * *
44243901 GGCAGAT--TGCAACTGTCCGATCTCTTACCCTGAGCTTGG
1 GGCAGATCAT-CATCAG-CCAATCTCTTACCCCGAGCCTAG
* * *
44243940 GGCAGATCACCATCAGCCAATCTCTTACCCCAAGCCTGG
1 GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
* * *
44243979 GGCAGATTA-CAAT-TGTCCAATCTTTTACCCCGAGCCTAG
1 GGCAGATCATC-ATCAG-CCAATCTCTTACCCCGAGCCTAG
* *
44244018 GGCAAATCATCATCAGCCAATCTCTTATCCCGAGCCTAG
1 GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
44244057 G
1 G
44244058 ATAGATTGCA
Statistics
Matches: 248, Mismatches: 48, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
37 3 0.01
38 26 0.10
39 207 0.83
40 11 0.04
41 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
GGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAG
Found at i:44245192 original size:11 final size:11
Alignment explanation
Indices: 44245178--44245211 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
44245168 ATTAATATTC
44245178 AATAAATAATA
1 AATAAATAATA
*
44245189 AATATATAATA
1 AATAAATAATA
44245200 AAT-AATAATA
1 AATAAATAATA
44245210 AA
1 AA
44245212 AAAGAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATAATA
Found at i:44246209 original size:30 final size:30
Alignment explanation
Indices: 44246175--44246287 Score: 117
Period size: 30 Copynumber: 3.8 Consensus size: 30
44246165 TATTTTCTTT
* *
44246175 AAAATCCTATTTTGA-CCCTCAAACTTCTCC
1 AAAATACTATTTTAACCCCT-AAACTTCTCC
*
44246205 AAAATTAC-ATTTTAACCCCTAAACTTCTCT
1 AAAA-TACTATTTTAACCCCTAAACTTCTCC
* *
44246235 AAAATTA-TATTTTAACCCCTAAACTTCACT
1 AAAA-TACTATTTTAACCCCTAAACTTCTCC
44246265 AAAATTAC-ATTTTAACCCCTAAA
1 AAAA-TACTATTTTAACCCCTAAA
44246288 TTTTCTAAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
30 69 0.92
31 6 0.08
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.35
Consensus pattern (30 bp):
AAAATACTATTTTAACCCCTAAACTTCTCC
Found at i:44246299 original size:30 final size:30
Alignment explanation
Indices: 44246190--44246307 Score: 166
Period size: 30 Copynumber: 3.9 Consensus size: 30
44246180 CCTATTTTGA
*
44246190 CCCTCAAACTTCTCCAAAATTACATTTTAAC
1 CCCT-AAACTTCTCTAAAATTACATTTTAAC
*
44246221 CCCTAAACTTCTCTAAAATTATATTTTAAC
1 CCCTAAACTTCTCTAAAATTACATTTTAAC
*
44246251 CCCTAAACTTCACTAAAATTACATTTTAAC
1 CCCTAAACTTCTCTAAAATTACATTTTAAC
* *
44246281 CCCTAAA-TTTTCTAAAAATCACATTTT
1 CCCTAAACTTCTCT-AAAATTACATTTT
44246308 CGATCTCAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
29 4 0.05
30 71 0.90
31 4 0.05
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTCTCTAAAATTACATTTTAAC
Done.