Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 13 of 37
Found at i:2338368 original size:52 final size:51
Alignment explanation
Indices: 2338227--2338375 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
2338217 CGAAATATGA
*
2338227 AAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCAATACA-TTAATAGTGTATCGATACATCTAGGC
* * *
2338279 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCAATACA-TTAATAGTGTATCGATACATCTAGGC
* *
2338331 AAATTTGCCTGCATGTATCCATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCAATACATTA-AT-AGTGTATCGATACA
2338376 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCAATACATTAATAGTGTATCGATACATCTAGGC
Found at i:2338382 original size:13 final size:13
Alignment explanation
Indices: 2338364--2338388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2338354 CAAAGATCAG
2338364 TGTATCGATACAA
1 TGTATCGATACAA
2338377 TGTATCGATACA
1 TGTATCGATACA
2338389 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2339386 original size:58 final size:55
Alignment explanation
Indices: 2339277--2339571 Score: 208
Period size: 52 Copynumber: 5.7 Consensus size: 55
2339267 TGAAGAAAAA
* ** * * **
2339277 TGCCAATGTGCTGAGGCAAGGCCAGCGACATCGGGCTTAGGAATGTTA-AAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATG--ACAA-A-GAAGG
* *
2339335 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGACAAAG-A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGAAGG
* *
2339387 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC--A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGAAGG
* *
2339439 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-----A-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGAAGG
* * * *
2339482 TGCCAATGTGCTGATTCAAAGCCAGTGACATTGGGCTT--AAA-G---AAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGAAGG
* *
2339531 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
2339572 GGTGCCAATG
Statistics
Matches: 200, Mismatches: 24, Indels: 33
0.78 0.09 0.13
Matches are distributed among these distances:
43 35 0.17
44 1 0.00
46 1 0.00
48 1 0.00
49 36 0.18
50 2 0.01
51 2 0.01
52 78 0.39
54 1 0.00
55 1 0.00
56 2 0.01
57 2 0.01
58 38 0.19
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (55 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGAAGG
Found at i:2339399 original size:52 final size:50
Alignment explanation
Indices: 2339331--2339706 Score: 307
Period size: 43 Copynumber: 7.9 Consensus size: 50
2339321 GTTAAAGATG
* * *
2339331 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAA-GA-A
* *
2339383 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AAGA-A
*
2339435 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
* * * * *
2339478 AAGGTGCCAATGTGCTGATTCAAAGCCAGTGACATTGGGCTT--AAAGAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
*
2339526 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-------A
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
* * ** *
2339570 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTT--AAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGA-A
* * * *
2339619 AAGGTGCCAATACGCTGATTTAAGGCCAGCGATTTTGGAATT-------A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
* * *
2339662 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
2339707 GATGATGAGG
Statistics
Matches: 270, Mismatches: 38, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
43 111 0.41
44 1 0.00
48 1 0.00
49 71 0.26
52 85 0.31
53 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
Found at i:2339709 original size:92 final size:92
Alignment explanation
Indices: 2339382--2339711 Score: 491
Period size: 92 Copynumber: 3.6 Consensus size: 92
2339372 TAAAAATGAC
* * * * *
2339382 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATA
2339447 TGCTGATTCAAGGCCAGCGATATTGGACTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
2339477 AAAGGTGCCAATGTGCTGATTCAAAGCCAG-TGACATTGGGCTTAAAGAAGAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCCAATATG
*
2339541 CTGATTCAAGGCCAGCTATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
* *
2339569 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATACGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
2339634 TGATTTAAGGCCAGCGATTTTGGAATT
66 TGATTCAAGGCCAGCGATATTGGACTT
2339661 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
2339712 TGAGGATGAA
Statistics
Matches: 214, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
92 171 0.80
93 1 0.00
95 42 0.20
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2340054 original size:55 final size:52
Alignment explanation
Indices: 2339954--2340380 Score: 359
Period size: 49 Copynumber: 8.8 Consensus size: 52
2339944 GAAAAGTGAT
* * * * * *
2339954 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGTGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-A
* * *
2340008 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
2340061 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2340104 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
2340154 -ATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2340196 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
2340245 AAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TGG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
2340290 --AGGTGCCAATGTGCTAATTCAAGGCCTGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
2340338 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2340381 GAAGGGTTGC
Statistics
Matches: 308, Mismatches: 41, Indels: 53
0.77 0.10 0.13
Matches are distributed among these distances:
43 108 0.35
44 3 0.01
46 1 0.00
48 3 0.01
49 111 0.36
51 1 0.00
52 33 0.11
53 6 0.02
54 5 0.02
55 37 0.12
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:2340122 original size:43 final size:43
Alignment explanation
Indices: 2340061--2340385 Score: 335
Period size: 43 Copynumber: 7.1 Consensus size: 43
2340051 TAAAGATGGA
2340061 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2340104 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2340147 AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2340196 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
2340245 AAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * * *
2340288 GGAGGTGCCAATGTGCTAATTCAAGGCCTGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
2340331 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2340380 AGAAGG
1 A-AAGG
2340386 GTTGCCACCG
Statistics
Matches: 233, Mismatches: 31, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
43 110 0.47
44 7 0.03
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 109 0.47
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2340197 original size:92 final size:92
Alignment explanation
Indices: 2340008--2340385 Score: 612
Period size: 92 Copynumber: 4.1 Consensus size: 92
2339998 AAGATGTGAA
*
2340008 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
2340073 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
2340104 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAGATGATGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2340169 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
2340196 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTACCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2340261 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** * *
2340288 GGAGGTGCCAATGTGCTAATTCAAGGCCTGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
2340353 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
2340380 AGAAGG
1 A-AAGG
2340386 GTTGCCACCG
Statistics
Matches: 263, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
92 212 0.81
93 3 0.01
94 1 0.00
95 42 0.16
96 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:2340244 original size:627 final size:610
Alignment explanation
Indices: 2339055--2340338 Score: 1784
Period size: 627 Copynumber: 2.1 Consensus size: 610
2339045 TCATTGCAAT
* * * *
2339055 GTGCCACTGTGCAGATTCAAGGCCTGCCACATTGGACTTAAAGATGATGAGGATGGAGAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCTGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
* * *
2339120 AAAGGACCAATACTTTGATTCACGACCAACGAGATTGGGTTCAAAGATAAGAAAAAGGATAAAAG
66 AAAGGACCAATACGTTGATTCACGACCAACAAGATTGGGTCCAAAGATAAGAAAAAGGATAAAAG
2339185 AGCCAATATGCGGCTAGCGATATTAGGCTTAAAGATGCAAAAAAAGACAATGTGCTGATTCATGG
131 AGCCAATATGCGGCTAGCGATATTAGGCTTAAAGATGCAAAAAAAGACAATGTGCTGATTCATGG
* * * * *
2339250 CCAGCGACATTTAAACTTGAAGAAAAATGCCAATGTGCTGAGGCAAGGCCAGCGACATCGGGCTT
196 CCAGCGACATTTAAACATGAAGAAAAATGCCAATATACTGAGGCAAGGCCAGCAACATCGGACTT
* ** * * *
2339315 AGGAATGTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAATG
261 AGAAATGGAAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAATG
* *
2339380 ACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAA
326 AAAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAA
*
2339445 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGTGA
391 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCAAGTGA
* *
2339510 CATTGGGCTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT
456 CATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * *
2339575 GCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATACGCTGATTT
521 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTACCAATACGCTGATTC
*
2339640 AAGGCCAGCGATTTTGGAATTAAAG
586 AAGGCCAGCGATATTGGAATTAAAG
*
2339665 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCTGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
* * * * * *
2339730 AAAGGACTAATACGTTGATTCATGGCCAACAATATTGGGTCCAAAGATGAGAAAAAGGATAAAAT
66 AAAGGACCAATACGTTGATTCACGACCAACAAGATTGGGTCCAAAGATAAGAAAAAGGATAAAAG
* *
2339795 AGCCAATATGCGGCTAGCGATATTGGGCTTGAAA-ATGCAAAAAATGACAATGTGCTGATTCATG
131 AGCCAATATGCGGCTAGCGATATTAGGCTT-AAAGATGCAAAAAAAGACAATGTGCTGATTCATG
* * ** **
2339859 GCCAGCGACATTAGGTTTTAAAGATGATG-AAGGTGCCAATATACTGATTCAAGGCCAGCAACAT
195 GCCAGCGAC---A---TTTAAACATGAAGAAAAATGCCAATATACTGAGGCAAGGCCAGCAACAT
* * * *
2339923 TGGACTTAAAAATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGAT
254 CGGACTT----A-GAA-ATG-GAAAA--GATAAAGATGCCAATATGCTGATTCAAGGCCAACGAC
* * * * *
2339988 ATTGGGCTTAAAGATGTGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
310 ATTGGACTTAAA-A-ATGAAAAA-GATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
* *
2340053 AAGATGGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATG
372 AAGAT-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
* * *
2340117 TGCTGATTCAAGGCAAGCT-ACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCC
436 TGCTGATTCAAAGCAAG-TGACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCC
*
2340181 AGCGATATTGGACTTAAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
500 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * **
2340246 AAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAG
565 AAGGTACCAATACGCTGATTCAAGGCCAGCGATATTGGAATTAAAG
*
2340292 GTGCCAATGTGCTAATTCAAGGCCTGCTACATTGGACTTAAAGATGA
1 GTGCCAATGTGCTGATTCAAGGCCTGCTACATTGGACTTAAAGATGA
2340339 AGGTGCCAAT
Statistics
Matches: 589, Mismatches: 64, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
610 183 0.31
611 3 0.01
613 1 0.00
615 33 0.06
616 10 0.02
619 1 0.00
620 2 0.00
621 3 0.01
622 3 0.01
624 42 0.07
625 1 0.00
626 6 0.01
627 298 0.51
628 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (610 bp):
GTGCCAATGTGCTGATTCAAGGCCTGCTACATTGGACTTAAAGATGATGAGGATGAAGAGTGATA
AAAGGACCAATACGTTGATTCACGACCAACAAGATTGGGTCCAAAGATAAGAAAAAGGATAAAAG
AGCCAATATGCGGCTAGCGATATTAGGCTTAAAGATGCAAAAAAAGACAATGTGCTGATTCATGG
CCAGCGACATTTAAACATGAAGAAAAATGCCAATATACTGAGGCAAGGCCAGCAACATCGGACTT
AGAAATGGAAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAAATG
AAAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAA
TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCAAGTGA
CATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTACCAATACGCTGATTC
AAGGCCAGCGATATTGGAATTAAAG
Found at i:2340422 original size:33 final size:33
Alignment explanation
Indices: 2340380--2340549 Score: 251
Period size: 32 Copynumber: 5.2 Consensus size: 33
2340370 TATTGGACTT
2340380 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2340413 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2340446 A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2340478 AG--GGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
2340510 AAGAA-GGTTGCCACTGACTTGTGTGGGCTTTA-
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2340542 AAAAGGGT
1 AGAAGGGT
2340550 AGAAAGATGC
Statistics
Matches: 125, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
31 6 0.05
32 59 0.47
33 58 0.46
34 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2340457 original size:65 final size:64
Alignment explanation
Indices: 2340378--2340541 Score: 251
Period size: 65 Copynumber: 2.5 Consensus size: 64
2340368 GATATTGGAC
* *
2340378 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCGACTTGTGTGGGC
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG--GGGATTGCCACCAACTTGTGTGGGC
2340441 T
64 T
2340442 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCT
* *
2340506 TTAGAAGAAGGTTGCCACTGACTTGTGTGGGCTTTA
1 TTAGAA-AGGGTTGCCACCGACTTGTGTGGGCTTTA
2340542 AAAAGGGTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
63 2 0.02
64 31 0.33
65 60 0.65
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.30
Consensus pattern (64 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGGGGATTGCCACCAACTTGTGTGGGCT
Found at i:2341710 original size:28 final size:29
Alignment explanation
Indices: 2341678--2341746 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
2341668 GGGTTTTTCC
2341678 TTTCTCTTTTTTTTTT-TTTGTTTG-TTTG
1 TTTCTCTTTTTTTTTTCTTT-TTTGTTTTG
2341706 TTTCTTCTTTTTTTTTTCCTTTTTTGTTTTG
1 TTTC-TCTTTTTTTTTT-CTTTTTTGTTTTG
2341737 TTTCT-TTTTT
1 TTTCTCTTTTT
2341747 GGAAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.11
29 17 0.46
30 5 0.14
31 11 0.30
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (29 bp):
TTTCTCTTTTTTTTTTCTTTTTTGTTTTG
Found at i:2341722 original size:31 final size:31
Alignment explanation
Indices: 2341678--2341746 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
2341668 GGGTTTTTCC
2341678 TTTC-TCTTTTTTTTTT--TTTGTTTG-TTTG
1 TTTCTTCTTTTTTTTTTCCTTT-TTTGTTTTG
2341706 TTTCTTCTTTTTTTTTTCCTTTTTTGTTTTG
1 TTTCTTCTTTTTTTTTTCCTTTTTTGTTTTG
2341737 TTTCTT-TTTT
1 TTTCTTCTTTT
2341747 GGAAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.11
29 12 0.32
30 8 0.22
31 13 0.35
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (31 bp):
TTTCTTCTTTTTTTTTTCCTTTTTTGTTTTG
Found at i:2341731 original size:26 final size:26
Alignment explanation
Indices: 2341682--2341734 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2341672 TTTTCCTTTC
**
2341682 TCTTTTTTTTTTTTTGTTTGTTTGTT
1 TCTTTTTTTTTTTTCCTTTGTTTGTT
2341708 TCTTCTTTTTTTTTTCCTTT-TTTGTT
1 TCTT-TTTTTTTTTTCCTTTGTTTGTT
2341734 T
1 T
2341735 TGTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.83
Consensus pattern (26 bp):
TCTTTTTTTTTTTTCCTTTGTTTGTT
Found at i:2346861 original size:52 final size:52
Alignment explanation
Indices: 2346794--2346911 Score: 200
Period size: 52 Copynumber: 2.3 Consensus size: 52
2346784 AATTTCACTA
*
2346794 CATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCCTG
* * *
2346846 CATGTATCAATACATTTTATAATGTATCGATACATTTAGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCCTG
2346898 CATGTATCGATACA
1 CATGTATCGATACA
2346912 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGCCTG
Found at i:2346924 original size:52 final size:52
Alignment explanation
Indices: 2346794--2346931 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 52
2346784 AATTTCACTA
* *
2346794 CATGTATCGATACATTTA-ATAGTGTATCGATACATCTAGGCAAATTTGCCTG
1 CATGTATCAATACA-TAAGATAGTGTATCGATACATCTAGGCAAATTTGCCTG
*** * *
2346846 CATGTATCAATACATTTTATAATGTATCGATACATTTAGGCAAATTTGCCTG
1 CATGTATCAATACATAAGATAGTGTATCGATACATCTAGGCAAATTTGCCTG
*
2346898 CATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CATGTATCAATACATAAGAT-AGTGTATCGATACA
2346932 ATGTATCGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 4 0.05
52 71 0.95
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
CATGTATCAATACATAAGATAGTGTATCGATACATCTAGGCAAATTTGCCTG
Found at i:2346938 original size:13 final size:13
Alignment explanation
Indices: 2346920--2346944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2346910 CAAAGATCAG
2346920 TGTATCGATACAA
1 TGTATCGATACAA
2346933 TGTATCGATACA
1 TGTATCGATACA
2346945 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2347024 original size:13 final size:13
Alignment explanation
Indices: 2347006--2347030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2346996 ACAAAACTTA
2347006 TGTATCGATACAT
1 TGTATCGATACAT
2347019 TGTATCGATACA
1 TGTATCGATACA
2347031 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2347028 original size:32 final size:33
Alignment explanation
Indices: 2346987--2347050 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2346977 TAGCTTAAAC
2346987 TGTATCGATACAAAAC-TTATGTATCGATACAT
1 TGTATCGATACAAAACTTTATGTATCGATACAT
*
2347019 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAAAACTTTATGTATCGATACA
2347051 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAT
Found at i:2353865 original size:20 final size:20
Alignment explanation
Indices: 2353840--2353893 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2353830 ATTTGCCTGC
2353840 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAGTA
2353860 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAGTA
2353880 ATGTATCGATACAT
1 ATGTATCGATACAT
2353894 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAGTA
Found at i:2354050 original size:32 final size:32
Alignment explanation
Indices: 2354000--2354096 Score: 131
Period size: 32 Copynumber: 3.0 Consensus size: 32
2353990 AGCTTCGTAG
* *
2354000 CGATATATTGTATTGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* * *
2354032 CGATACATGGTATCGATACAACACTTATGTCT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
2354064 CGATACATTGTATCAATACAATACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2354096 C
1 C
2354097 AATATAGTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2354455 original size:42 final size:41
Alignment explanation
Indices: 2354253--2354448 Score: 205
Period size: 42 Copynumber: 4.7 Consensus size: 41
2354243 CGACTAAGGT
* * *
2354253 CCTTAGTCTACCTATCGGCTTTGACCTTGGAGACTTTTCTTC
1 CCTTAGTCTACCTATCGGCTTTGACCCTAGAGACTTTTC-TA
* * * * * *
2354295 CCTCAGTCTTCCTGTTGGCTTTGACCCTAGAGACTTTCCTT
1 CCTTAGTCTACCTATCGGCTTTGACCCTAGAGACTTTTCTA
* *
2354336 CGCGTAGTCTACCTGTCGGCTTTGACCCTAGAGACTTTTCTA
1 C-CTTAGTCTACCTATCGGCTTTGACCCTAGAGACTTTTCTA
* *
2354378 CCTTTAGCCTGCCTATCGG-TCTTGACCCTAGAGACTTTTCTA
1 CC-TTAGTCTACCTATCGGCT-TTGACCCTAGAGACTTTTCTA
* *
2354420 CCTTCAGTCTGCCTATCAGCTTTGACCCT
1 CCTT-AGTCTACCTATCGGCTTTGACCCT
2354449 GAAGACTACC
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.05
42 122 0.95
43 1 0.01
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (41 bp):
CCTTAGTCTACCTATCGGCTTTGACCCTAGAGACTTTTCTA
Found at i:2357470 original size:33 final size:32
Alignment explanation
Indices: 2357427--2357489 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 32
2357417 TGCATAGCAT
2357427 ATCCAAATACCCATTACATGAGCCATATATTC
1 ATCCAAATACCCATTACATGAGCCATATATTC
2357459 ATCCAAAATACCCATTACATGAGCCATATAT
1 ATCC-AAATACCCATTACATGAGCCATATAT
2357490 GGTTGGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (32 bp):
ATCCAAATACCCATTACATGAGCCATATATTC
Found at i:2357535 original size:11 final size:11
Alignment explanation
Indices: 2357521--2357547 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2357511 TTTTTTAATT
2357521 AAAAAATATAA
1 AAAAAATATAA
2357532 AAAAAATATAA
1 AAAAAATATAA
2357543 AAAAA
1 AAAAA
2357548 GTTATCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATATAA
Found at i:2362201 original size:3 final size:3
Alignment explanation
Indices: 2362186--2362226 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
2362176 AACCATTAAA
* *
2362186 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2362227 AGTTGACTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2365185 original size:19 final size:19
Alignment explanation
Indices: 2365161--2365224 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
2365151 TTTCAACAAT
2365161 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2365180 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2365194 -TGTATCGATCCATAAGTG
1 TTGTATCGATACATAAGTG
*
2365212 TTGTATCAATACA
1 TTGTATCGATACA
2365225 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2365199 original size:32 final size:32
Alignment explanation
Indices: 2365162--2365232 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2365152 TTCAACAATT
*
2365162 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
2365194 TGTATCGATCCATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
2365226 TGTATCG
1 TGTATCG
2365233 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:2365295 original size:13 final size:13
Alignment explanation
Indices: 2365277--2365301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2365267 ATTACTCAAA
2365277 TGTATCGATACAC
1 TGTATCGATACAC
2365290 TGTATCGATACA
1 TGTATCGATACA
2365302 TTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2368973 original size:34 final size:35
Alignment explanation
Indices: 2368935--2369001 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2368925 CCTTACAACA
2368935 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2368969 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2369002 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2369469 original size:13 final size:12
Alignment explanation
Indices: 2369451--2369491 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
2369441 ATGAACAGTG
2369451 ATGTATCGATAC
1 ATGTATCGATAC
2369463 TATGTATCGATAC
1 -ATGTATCGATAC
2369476 ACTGTATCGATAC
1 A-TGTATCGATAC
2369489 ATG
1 ATG
2369492 AATAGTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 3 0.11
13 24 0.89
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2369581 original size:21 final size:23
Alignment explanation
Indices: 2369551--2369628 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 23
2369541 ACAGTAACCT
2369551 ATGAACAGTGATGTATCGATA-A
1 ATGAACAGTGATGTATCGATACA
2369573 ATGAA-AGTGATGTATCGATACA
1 ATGAACAGTGATGTATCGATACA
* *
2369595 A-GAACAGTGATGAATAG-TGAC-
1 ATGAACAGTGATGTATCGAT-ACA
2369616 ATGAACAGTGATG
1 ATGAACAGTGATG
2369629 AATAGTGATG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
21 20 0.40
22 30 0.60
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (23 bp):
ATGAACAGTGATGTATCGATACA
Found at i:2369629 original size:10 final size:10
Alignment explanation
Indices: 2369596--2369646 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
2369586 ATCGATACAA
2369596 GAACAGTGAT
1 GAACAGTGAT
*
2369606 GAATAGTGACAT
1 GAACAGTG--AT
2369618 GAACAGTGAT
1 GAACAGTGAT
*
2369628 GAATAGTGAT
1 GAACAGTGAT
2369638 GAACAGTGA
1 GAACAGTGA
2369647 AAATGAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 26 0.74
12 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (10 bp):
GAACAGTGAT
Found at i:2369629 original size:22 final size:20
Alignment explanation
Indices: 2369596--2369646 Score: 84
Period size: 22 Copynumber: 2.5 Consensus size: 20
2369586 ATCGATACAA
2369596 GAACAGTGATGAATAGTGACAT
1 GAACAGTGATGAATAGTG--AT
2369618 GAACAGTGATGAATAGTGAT
1 GAACAGTGATGAATAGTGAT
2369638 GAACAGTGA
1 GAACAGTGA
2369647 AAATGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (20 bp):
GAACAGTGATGAATAGTGAT
Found at i:2369786 original size:20 final size:20
Alignment explanation
Indices: 2369723--2369793 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
2369713 GCCAATGTCC
**
2369723 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
2369743 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
2369763 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
2369783 TGTATCGATAC
1 TGTATCGATAC
2369794 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:2369859 original size:21 final size:21
Alignment explanation
Indices: 2369833--2369873 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2369823 GTCAACCTTG
2369833 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2369854 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2369874 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2375040 original size:61 final size:61
Alignment explanation
Indices: 2374945--2375121 Score: 184
Period size: 61 Copynumber: 2.9 Consensus size: 61
2374935 ATACCTTCTT
* * * * **
2374945 AAAGTCC-ACGACTCAGTGGCAATCTCTTC-TCAAAG-CGCACGACTTAGTGGCATTTTGTCCC
1 AAAGTCCGA-GACTCAGTGGC-ATCTTTTCTTCAAAGTC-CACAACTCAGTGGCATCTCCTCCC
* * *
2375006 AAAGTCC-ATACCTCCGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTCC
1 AAAGTCCGAGA-CTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCCC
*
2375067 AAAGTCCGCGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCCA-TGGCATCT
1 AAAGTCCGAGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACT-CAGTGGCATCT
2375122 TTTTCCTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
60 8 0.08
61 87 0.88
62 4 0.04
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (61 bp):
AAAGTCCGAGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCCC
Found at i:2375042 original size:31 final size:31
Alignment explanation
Indices: 2374940--2375274 Score: 195
Period size: 31 Copynumber: 11.1 Consensus size: 31
2374930 TTCAAATACC
* *
2374940 TTCTT-AAAGTCCACGACTCAGTGGCAATCTC
1 TTCTTCAAAGTCCACAACTCAGTGGC-ATCTT
* *
2374971 TTC-TCAAAG-CGCACGACTTAGTGGCAT-TT
1 TTCTTCAAAGTC-CACAACTCAGTGGCATCTT
* * * *
2375000 TGTC-CCAAAGTCCATACCTCCGTGGCATCTT
1 T-TCTTCAAAGTCCACAACTCAGTGGCATCTT
2375031 TTCTTCAAAGTCCACAACTCAGTGGCATC--
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
2375060 TCCTTCCAAAGTCCGCGACTCAGTGGCATCTT
1 TTCTT-CAAAGTCCACAACTCAGTGGCATCTT
2375092 TTCTTCAAAGTCCACAACTCCA-TGGCATCTTT
1 TTCTTCAAAGTCCACAACT-CAGTGGCATC-TT
** * *
2375124 TTCCTTTTAAGTCCACGACTCAGTGGCACCATT
1 TT-CTTCAAAGTCCACAACTCAGTGGCATC-TT
* * * * *
2375157 TCCCCTTATAAAGCCCACAACTCCGTGGCATC-C
1 T--TCTT-CAAAGTCCACAACTCAGTGGCATCTT
2375190 TT-TT--AAGTCCACAACTCA-TGGCA-C-T
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * * * *
2375215 CT-TTCAAAGCCCACAACCCCGTGGCA-CTC
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* *
2375244 TT-TT-AAAGCCCACAACTCAGTGGCACCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
2375273 TT
1 TT
2375275 TCTTTTTAAA
Statistics
Matches: 240, Mismatches: 43, Indels: 44
0.73 0.13 0.13
Matches are distributed among these distances:
25 4 0.02
26 5 0.02
27 23 0.10
28 25 0.10
29 13 0.05
30 48 0.20
31 64 0.27
32 12 0.05
33 24 0.10
34 3 0.01
35 19 0.08
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (31 bp):
TTCTTCAAAGTCCACAACTCAGTGGCATCTT
Found at i:2375104 original size:92 final size:91
Alignment explanation
Indices: 2374940--2375151 Score: 252
Period size: 92 Copynumber: 2.3 Consensus size: 91
2374930 TTCAAATACC
*
2374940 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCGCACGACTTAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGCGCACGACTCAGTGGCATTTTGTCC
* * *
2375005 CAAAGTCCATACCTCCGTGGCATC-TT
65 CAAAGTCCACAACTCCATGGCATCTTT
* *
2375031 TTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTC-CAAAGTC-CGCGACTCAGTGGCATCTTT-
1 TTCTT-AAAGTCCACGACTCAGTGGCATCT-CTTCTCAAAG-CGCACGACTCAGTGGCAT-TTTG
*
2375093 TCTTCAAAGTCCACAACTCCATGGCATCTTT
62 TC-CCAAAGTCCACAACTCCATGGCATCTTT
*
2375124 TTCCTTTTAAGTCCACGACTCAGTGGCA
1 TT-C-TTAAAGTCCACGACTCAGTGGCA
2375152 CCATTTCCCC
Statistics
Matches: 104, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
91 30 0.29
92 48 0.46
93 4 0.04
94 20 0.19
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (91 bp):
TTCTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGCGCACGACTCAGTGGCATTTTGTCCC
AAAGTCCACAACTCCATGGCATCTTT
Found at i:2375201 original size:62 final size:58
Alignment explanation
Indices: 2375007--2375302 Score: 172
Period size: 61 Copynumber: 4.9 Consensus size: 58
2374997 TTTTGTCCCA
* * * * * * * * **
2375007 AAGTCCATACCTCCGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTCCA
1 AAGTCCACAACTCAGTGGCACCTTTCCTTTAAAGCCCACAACTCCGTGGCA--TCCTT-TT
* * * * * * *
2375068 AAGTCCGCGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCAGTGGCACCTTTCCTTTAAAGCCCACAACTCCGTGGCA------TCCTTTT
*
2375132 AAGTCCACGACTCAGTGGCACCATTTCCCCTTATAAAGCCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCAGTGGCACC-TTT--CCTT-TAAAGCCCACAACTCCGTGGCATCCTTTT
*
2375194 AAGTCCACAACTCA-TGGCA-C--T-CTTTCAAAGCCCACAACCCCGTGGCA-CTCTTTT
1 AAGTCCACAACTCAGTGGCACCTTTCCTTT-AAAGCCCACAACTCCGTGGCATC-CTTTT
* * * *
2375248 AAAGCCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCCCAACTTCGTGGCA
1 -AAGTCCACAACTCAGTGGCACC--TTTC-CTTTAAAGCCCACAACTCCGTGGCA
2375303 CTTTTTTTTT
Statistics
Matches: 193, Mismatches: 23, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
53 2 0.01
54 28 0.15
55 13 0.07
56 5 0.03
57 2 0.01
60 1 0.01
61 50 0.26
62 38 0.20
63 3 0.02
64 20 0.10
65 9 0.05
67 3 0.02
68 19 0.10
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (58 bp):
AAGTCCACAACTCAGTGGCACCTTTCCTTTAAAGCCCACAACTCCGTGGCATCCTTTT
Found at i:2375248 original size:54 final size:55
Alignment explanation
Indices: 2375166--2375273 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 55
2375156 TTCCCCTTAT
* *
2375166 AAAGCCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCA-TGGCACTCTTTC
1 AAAGCCCACAACCCCGTGGCATCCTTTTAAAGCCCACAACTCAGTGGCAC-CTTTC
2375220 AAAGCCCACAACCCCGTGGCA-CTCTTTTAAAGCCCACAACTCAGTGGCACCTTT
1 AAAGCCCACAACCCCGTGGCATC-CTTTTAAAGCCCACAACTCAGTGGCACCTTT
2375274 TTCTTTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
53 1 0.02
54 25 0.51
55 17 0.35
56 6 0.12
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (55 bp):
AAAGCCCACAACCCCGTGGCATCCTTTTAAAGCCCACAACTCAGTGGCACCTTTC
Found at i:2375275 original size:28 final size:28
Alignment explanation
Indices: 2375165--2375274 Score: 138
Period size: 28 Copynumber: 4.0 Consensus size: 28
2375155 TTTCCCCTTA
*
2375165 TAAAGCCCACAACTCCGTGGCA-TCCTTT
1 TAAAGCCCACAACTCAGTGGCACT-CTTT
*
2375193 T-AAGTCCACAACTCA-TGGCACTCTTT
1 TAAAGCCCACAACTCAGTGGCACTCTTT
* * *
2375219 CAAAGCCCACAACCCCGTGGCACTCTTT
1 TAAAGCCCACAACTCAGTGGCACTCTTT
2375247 TAAAGCCCACAACTCAGTGGCAC-CTTT
1 TAAAGCCCACAACTCAGTGGCACTCTTT
2375274 T
1 T
2375275 TCTTTTTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 9 0.13
27 29 0.41
28 32 0.46
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (28 bp):
TAAAGCCCACAACTCAGTGGCACTCTTT
Found at i:2375307 original size:33 final size:33
Alignment explanation
Indices: 2375244--2375312 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
2375234 CGTGGCACTC
2375244 TTTTAAAGCCCACAACTCAGTGGCACCTTTTTCT
1 TTTTAAAGCCCACAACTCAGTGGCACCTTTTT-T
*
2375278 TTTTAAAGCCCCCAACTTC-GTGGCA-CTTTTTT
1 TTTTAAAGCCCACAAC-TCAGTGGCACCTTTTTT
2375310 TTT
1 TTT
2375313 CTTTTCCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 4 0.12
33 6 0.18
34 21 0.64
35 2 0.06
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCAGTGGCACCTTTTTT
Found at i:2375357 original size:27 final size:27
Alignment explanation
Indices: 2375318--2375370 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
2375308 TTTTTCTTTT
* * *
2375318 CCTTTTAAGTCCACAACTCTATGGCAC
1 CCTTTTAAATCCACAACCCCATGGCAC
2375345 CCTTTTAAATCCACAACCCCATGGCA
1 CCTTTTAAATCCACAACCCCATGGCA
2375371 TCTTCTCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.26
Consensus pattern (27 bp):
CCTTTTAAATCCACAACCCCATGGCAC
Found at i:2375452 original size:31 final size:27
Alignment explanation
Indices: 2375379--2375458 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 27
2375369 CATCTTCTCC
* **
2375379 TCAAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCACACAAGTTGGT-GCAACCT
2375407 TCAAAAGCACACAAGTTGGTGCAACCCT
1 TCAAAAGCACACAAGTTGGTGCAA-CCT
2375435 TACAAAAGCCCACACAAGTTGGTG
1 T-CAAAAG--CACACAAGTTGGTG
2375459 GCGTCTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 21 0.47
29 6 0.13
31 14 0.31
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (27 bp):
TCAAAAGCACACAAGTTGGTGCAACCT
Found at i:2375648 original size:95 final size:95
Alignment explanation
Indices: 2375470--2377480 Score: 1761
Period size: 95 Copynumber: 21.0 Consensus size: 95
2375460 CGTCTTTTTC
* *
2375470 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
2375531 GCTGGCCTTGAATCAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2375561 TAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGGCGTCTTTTTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
** *
2375626 ATTGGCCTTGAATTAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2375656 TAAGTCCAATATCACTGGCCTTGAATCGGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2375717 GCTGGCCTTGAATCAGCACATTGGCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
2375747 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2375812 GCTGGCCTTGAATCAGCATATTGGCACCATTGTCATCTT
66 GCTGGCCTTGAATCAGCACATTGG---CA----C--CTT
* * * * * *
2375851 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2375907 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTT
* * * * *
2375946 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A----T--GTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2376002 AG-TGGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 -GCTGGCCTTGAATCAGCACATTGGCA-C----CTT
* * * *
2376037 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
2376093 CCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* *
2376132 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
2376197 ACTGGCCTTGAATCAGCAAATTGGCACATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
** * * *
2376227 TAAGTCCAATATCATTGGCCTTAAATCAACATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2376292 GCTAGCCTTGAATCAGCACATTAGCACCTTTGTCT
66 GCTGGCCTTGAATCAGCACATTGGCACC----T-T
* * * * *
2376327 TTAGTACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATGT
1 TAAGT-CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
* * *
2376389 CACTGGCCTTGAATTAGCACATTAGCACCTTCAACT
65 CGCTGGCCTTGAATCAGCACATTGGCACC-T----T
2376425 TGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
*
2376490 CGCTAGCCTTGAATCAGCACATTGGCACCTT
65 CGCTGGCCTTGAATCAGCACATTGGCACCTT
** *
2376521 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2376586 GCTGGCCTTGAATTAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
2376616 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2376677 GCTGGCCTTGAATCAGCACATTGGCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2376707 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2376772 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTT
* * * * * *
2376811 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2376867 GCTGGCCTTGAA-CTAGCATATTGGCGACTTTGTCATCTT
66 GCTGGCCTTGAATC-AGCACATTGGC-A------C--CTT
* * * * *
2376906 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A----T--GTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2376962 ACTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-C----CTT
* * * *
2376997 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
2377053 CCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* * *
2377092 TAAGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
2377157 GCTGGCCTTGAATCAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2377187 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2377252 GCTAGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
2377288 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2377353 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* * * ** *
2377389 TAAGTCCAGTATCGCTGGCCTTGAATCTGCATATTGGCGCCTTCGTCATCTTTAAAACCCGATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTCCAATGT
*
2377454 CGTTGGCCTTGAATCAGCACATTGGCA
65 CGCTGGCCTTGAATCAGCACATTGGCA
2377481 TTCTTCTCAT
Statistics
Matches: 1652, Mismatches: 142, Indels: 241
0.81 0.07 0.12
Matches are distributed among these distances:
85 2 0.00
89 4 0.00
91 341 0.21
92 10 0.01
94 9 0.01
95 765 0.46
96 11 0.01
97 4 0.00
98 84 0.05
99 8 0.00
100 11 0.01
101 225 0.14
102 35 0.02
103 3 0.00
104 140 0.08
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (95 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:2375927 original size:333 final size:327
Alignment explanation
Indices: 2375470--2377426 Score: 1828
Period size: 333 Copynumber: 5.8 Consensus size: 327
2375460 CGTCTTTTTC
*
2375470 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG-TCTTTAAGACCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTGCTCTTTAAGACCAATGTCGC
* *
2375533 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGG
66 TGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
* ** *
2375598 CGTCTTTTTCATCTTTAAGACCAATGTCATTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCC
131 -G-C-TTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCC
* * * * *
2375663 AATATCACTGGCCTTGAATCGGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
193 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGTCCAATGTCGCTGGCCTTGA
* *
2375728 ATCAGCACATTGGCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGACGCCTTTGT
257 ATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT
2375793 CATCTT
322 CATCTT
*
2375799 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTG-C-TCTTTAAGACCAATGTC
*
2375864 GTTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
64 GCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* * *
2375929 GGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATGT
129 GG--GCTTT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * *
2375994 CCAATATCAG-TGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCT
191 CCAATGTC-GCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGTCCAATGTCGCTGGCCT
*
2376058 TGAATCAGCACATTGGCATCTTTAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGGCGCCTT
254 TGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
2376123 TGTCATCTT
319 TGTCATCTT
* *
2376132 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTG-C-TCTTTAAGACCAATGTC
* * * ** * *
2376197 ACTGGCCTTGAATCAGCAAATTGGCACATTTAAGTCCAATATCATTGGCCTTAAATCAACATATT
64 GCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
2376262 GGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTTGTCT
129 GG-G-CTTT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC----T-T
* * *
2376327 TTAGTACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCAC
186 TAAGT-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TCTTTAAGTCCAATGTCGC
* * *
2376392 TGGCCTTGAATTAGCACATTAGCACCTTCAACTTGAAGTCCAATATCGCTGGCCTTGAATCAGCA
248 TGGCCTTGAATCAGCACATTGGCA---T---CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
2376457 TATTGGCGCCTTTGTCATCTT
307 TATTGGCGCCTTTGTCATCTT
* * * *
2376478 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGG---CA---C-CTTTAAGTCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTGCTCTTTAAGACCAATGTCGC
* * * *
2376536 TGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTA
66 TGGCCTTGAATCAGCACATTGGCA-------C-T-TTTAAGTCCAATATCGCTGGCCTTGAATCA
* * * * *
2376601 GCACATT-GG-----CACCTTTAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTG
122 GCATATTGGGCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---
* *
2376660 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TCTTTAAGTCCAATATCG
183 -CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTCG
* *
2376721 CTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
247 CTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
2376786 AGCATATTGGCACCTTTGTCATCTT
303 AGCATATTGGCGCCTTTGTCATCTT
* * * * *
2376811 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG---CA---CT-TTTAAGTCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTGCTCTTTAAGACCAATGTCGC
* * *
2376869 TGGCCTTGAA-CTAGCATATTGGCGACTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATC
66 TGGCCTTGAATC-AGCACATTGGC-A------C-T-TTTAAGTCCAATATCGCTGGCCTTGAATC
* * * * * *
2376933 AGCACATT-GG-----CACCTTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT
121 AGCATATTGGGCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--
* *
2376992 GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TCTTTAAGTCCAATATC
183 --CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTC
* *
2377053 CCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
246 GCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* *
2377118 CATCATATTGGCACCTTTGTCATCTT
302 CAGCATATTGGCGCCTTTGTCATCTT
* * * * *
2377144 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---CA---C-CTTTAAGTCCAATATCAC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTGCTCTTTAAGACCAATGTCGC
* * * *
2377202 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCA
66 TGGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATCGCTGGCCTTGAATCA
* ** * *
2377267 GCACATT-GGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
122 GCATATTGGGC-TTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT---G----
* *
2377331 TGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
179 -G-CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TCTTTAAGTCC
* * * *
2377396 AGTATCGCTGGCCTTGAATCTGCATATTGGC
240 AATGTCGCTGGCCTTGAATCAGCACATTGGC
2377427 GCCTTCGTCA
Statistics
Matches: 1454, Mismatches: 97, Indels: 143
0.86 0.06 0.08
Matches are distributed among these distances:
329 41 0.03
330 37 0.03
332 4 0.00
333 924 0.64
334 3 0.00
335 1 0.00
336 35 0.02
337 82 0.06
338 8 0.01
339 75 0.05
340 40 0.03
341 1 0.00
342 2 0.00
343 42 0.03
344 2 0.00
345 1 0.00
346 117 0.08
347 1 0.00
348 2 0.00
349 36 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (327 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCATTGCTCTTTAAGACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
GCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
GCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
TT
Found at i:2378471 original size:32 final size:32
Alignment explanation
Indices: 2378425--2378494 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
2378415 ACATAACTAT
* *
2378425 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCCATACATAAGTGTTGTATCGATACAA
2378457 TGTATCCATACATAAGTGTTGTATCGATACAA
1 TGTATCCATACATAAGTGTTGTATCGATACAA
2378489 TGTATC
1 TGTATC
2378495 GCTACGAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCCATACATAAGTGTTGTATCGATACAA
Found at i:2378481 original size:19 final size:19
Alignment explanation
Indices: 2378384--2378487 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
2378374 TTTCTACAAT
* *
2378384 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
* * *
2378405 TTGTATTGATACATAACTA
1 TTGTATCGATACATAAGTG
*
2378424 TTGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
2378443 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2378457 -TGTATCCATACATAAGTG
1 TTGTATCGATACATAAGTG
2378475 TTGTATCGATACA
1 TTGTATCGATACA
2378488 ATGTATCGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
13 10 0.15
15 2 0.03
17 2 0.03
19 38 0.57
20 2 0.03
21 13 0.19
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2378558 original size:13 final size:13
Alignment explanation
Indices: 2378540--2378567 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2378530 ATTACTCAAA
2378540 TGTATCGATACAT
1 TGTATCGATACAT
2378553 TGTATCGATACAT
1 TGTATCGATACAT
2378566 TG
1 TG
2378568 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2382747 original size:20 final size:20
Alignment explanation
Indices: 2382722--2382774 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2382712 CTAAGTGAAA
*
2382722 TGTATCAATACATG-GGACAT
1 TGTATCAATACATGAAGA-AT
*
2382742 TGTATCGATACATGAAGAAT
1 TGTATCAATACATGAAGAAT
2382762 TGTATCAATACAT
1 TGTATCAATACAT
2382775 TATGCCCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCAATACATGAAGAAT
Found at i:2383356 original size:249 final size:249
Alignment explanation
Indices: 2382917--2383419 Score: 961
Period size: 249 Copynumber: 2.0 Consensus size: 249
2382907 GAGAGATGTG
2382917 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
1 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
*
2382982 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAGGTTGTTTATCCAAGCTAAC
66 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
2383047 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
131 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
* *
2383112 TGCCATTCTAATGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
196 TGCCATTCTAAAGGAGAAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
2383166 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
1 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
*
2383231 CATACTTAAACGGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
66 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
*
2383296 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGGGAAAGCGACGT
131 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
2383361 TGCCATTCTAAAGGAGAAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
196 TGCCATTCTAAAGGAGAAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
2383415 ACTTA
1 ACTTA
2383420 ATGCCAAAGC
Statistics
Matches: 249, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 249 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (249 bp):
ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
TGCCATTCTAAAGGAGAAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
Found at i:2388568 original size:21 final size:20
Alignment explanation
Indices: 2388544--2388591 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
2388534 CAAATCCTTT
2388544 TCAAAATTCATC-ATTTTCACA
1 TCAAAATT-ATCTATTTT-ACA
* *
2388565 TCAAAACTATCTATTTTTCA
1 TCAAAATTATCTATTTTACA
2388585 TCAAAAT
1 TCAAAAT
2388592 CTTCATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
TCAAAATTATCTATTTTACA
Found at i:2388599 original size:32 final size:31
Alignment explanation
Indices: 2388563--2388639 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
2388553 ATCATTTTCA
* *
2388563 CATCAAAACTATCTATTTTTCATCAAAATCTT
1 CATCAAAACTATCT-TCTTCCATCAAAATCTT
* *
2388595 CATCAAAAACATATCTTCTTCCATCAAATTTTT
1 CATC-AAAAC-TATCTTCTTCCATCAAAATCTT
2388628 CATTCAAAACTA
1 CA-TCAAAACTA
2388640 CCCACAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 6 0.16
33 25 0.66
34 7 0.18
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (31 bp):
CATCAAAACTATCTTCTTCCATCAAAATCTT
Found at i:2390997 original size:19 final size:20
Alignment explanation
Indices: 2390975--2391012 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2390965 ATGTATTGAT
*
2390975 ACATACTC-CTTGTATCGAC
1 ACATACTCAATTGTATCGAC
2390994 ACATACTCAATTGTATCGA
1 ACATACTCAATTGTATCGA
2391013 TATATGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
ACATACTCAATTGTATCGAC
Found at i:2391081 original size:13 final size:13
Alignment explanation
Indices: 2391063--2391092 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2391053 AATACATGGG
2391063 ACATTGTATCAAT
1 ACATTGTATCAAT
*
2391076 ACATTGTATCGAT
1 ACATTGTATCAAT
2391089 ACAT
1 ACAT
2391093 AAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:2393273 original size:9 final size:9
Alignment explanation
Indices: 2393259--2393298 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
2393249 TAACAAATCT
2393259 TTCTTCAAA
1 TTCTTCAAA
2393268 TTCTTCAATTA
1 TTCTTCAA--A
2393279 TTCTTCAAA
1 TTCTTCAAA
2393288 TTTCTTCAAA
1 -TTCTTCAAA
2393298 T
1 T
2393299 ACTCTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 10 0.36
10 9 0.32
11 9 0.32
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (9 bp):
TTCTTCAAA
Found at i:2394312 original size:19 final size:19
Alignment explanation
Indices: 2394288--2394388 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2394278 AAACAGTAAC
2394288 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
2394307 TGTATCGATACAAAAGTGT
1 TGTATCGATACATAAGTGT
2394326 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2394345 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2394358 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2394377 TGTATCGATACA
1 TGTATCGATACA
2394389 ATGTATCGAT
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
13 11 0.15
15 2 0.03
17 2 0.03
19 59 0.80
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2394339 original size:38 final size:36
Alignment explanation
Indices: 2394266--2394389 Score: 166
Period size: 32 Copynumber: 3.4 Consensus size: 36
2394256 TTTCAACAAT
2394266 TTGTATCGATACAAACAGTAACTGTATCGATACATAAGTG
1 TTGTATCGATACAAA-AGT---TGTATCGATACATAAGTG
2394306 TTGTATCGATACAAAAGTGTTGTATCGATACATAAGTG
1 TTGTATCGATACAAAA--GTTGTATCGATACATAAGTG
2394344 TTGTATCGATAC--AA--TGTATCGATACATAAGTG
1 TTGTATCGATACAAAAGTTGTATCGATACATAAGTG
2394376 TTGTATCGATACAA
1 TTGTATCGATACAA
2394390 TGTATCGATA
Statistics
Matches: 80, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
32 30 0.38
36 2 0.03
38 30 0.38
39 1 0.01
40 15 0.19
41 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (36 bp):
TTGTATCGATACAAAAGTTGTATCGATACATAAGTG
Found at i:2394363 original size:13 final size:13
Alignment explanation
Indices: 2394345--2394399 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
2394335 ACATAAGTGT
2394345 TGTATCGATACAA
1 TGTATCGATACAA
2394358 TGTATCGATACATAA
1 TGTATCGATAC--AA
2394373 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2394390 TGTATCGATA
1 TGTATCGATA
2394400 TAGTTACTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2394367 original size:32 final size:32
Alignment explanation
Indices: 2394288--2394435 Score: 188
Period size: 32 Copynumber: 4.4 Consensus size: 32
2394278 AAACAGTAAC
2394288 TGTATCGATACATAAGTGTTGTATCGATACAAAA
1 TGTATCGATACATAAGTGTTGTATCGATAC--AA
2394322 GTGTTGTATCGATACATAAGTGTTGTATCGATACAA
1 ----TGTATCGATACATAAGTGTTGTATCGATACAA
2394358 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
2394390 TGTATCGATATAGTTACTGTTTGTATCGATACAA
1 TGTATCGATACA-TAAGTG-TTGTATCGATACAA
*
2394424 TGTATCGCTACA
1 TGTATCGATACA
2394436 AAGCTACTAC
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
32 43 0.42
33 4 0.04
34 24 0.23
36 2 0.02
38 30 0.29
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2394477 original size:20 final size:20
Alignment explanation
Indices: 2394452--2394507 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2394442 CTACCAAGGA
2394452 AATGTATCGATACATT-ACTC
1 AATGTATCGATACATTGA-TC
2394472 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
2394492 TTTGTATCGATACATT
1 AATGTATCGATACATT
2394508 TGGGAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:2398642 original size:19 final size:20
Alignment explanation
Indices: 2398618--2398670 Score: 99
Period size: 19 Copynumber: 2.7 Consensus size: 20
2398608 ATTTGCCTAC
2398618 ATGTATCGATACATTGAGT-
1 ATGTATCGATACATTGAGTA
2398637 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAGTA
2398657 ATGTATCGATACAT
1 ATGTATCGATACAT
2398671 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAGTA
Found at i:2398827 original size:32 final size:32
Alignment explanation
Indices: 2398777--2398873 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
2398767 AGCTTCGTAG
*
2398777 CGATACATTGTATTGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* * *
2398809 CGATACATGGTATCGATACAACACTTATGTCT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2398841 CGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2398873 C
1 C
2398874 AATATAGTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2398873 original size:19 final size:19
Alignment explanation
Indices: 2398818--2398901 Score: 54
Period size: 19 Copynumber: 4.6 Consensus size: 19
2398808 TCGATACATG
*
2398818 GTATCGATACAACACTTAT
1 GTATCGATACAATACTTAT
*
2398837 GTCTCGATAC---A--T-T
1 GTATCGATACAATACTTAT
2398850 GTATCGATACAATACTTAT
1 GTATCGATACAATACTTAT
* * * *
2398869 GTATCAATATAGTTACTGTTT
1 GTATCGATACA-ATACT-TAT
2398890 GTATCGATACAA
1 GTATCGATACAA
2398902 ATTGTTGAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
13 10 0.21
14 1 0.02
16 2 0.04
18 1 0.02
19 19 0.40
20 4 0.08
21 11 0.23
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
GTATCGATACAATACTTAT
Found at i:2399060 original size:42 final size:42
Alignment explanation
Indices: 2399006--2399205 Score: 206
Period size: 42 Copynumber: 4.8 Consensus size: 42
2398996 TCCTTTTTGC
* * *
2399006 CTTCCCTTAGTCTACCTATCGGCTTTGACCTTGGAGACTTTT
1 CTTCCCTCAGTCTACCTATCGGCTTTGACCCTAGAGACTTTT
* * * *
2399048 CTTCCCTCAGTCTTCCTGTTGGCTTTGACCCTAGAGACTTTC
1 CTTCCCTCAGTCTACCTATCGGCTTTGACCCTAGAGACTTTT
* *
2399090 CTTCGCGT-AGTCTACCTGTCGGCTTTGACCCTAGAGACTTTT
1 CTTC-CCTCAGTCTACCTATCGGCTTTGACCCTAGAGACTTTT
* * * * *
2399132 CTACCTTTAGCCTGCCTATCGG-TCTTGACCCTAGAGACTTTT
1 CTTCCCTCAGTCTACCTATCGGCT-TTGACCCTAGAGACTTTT
* * * *
2399174 CTACCTTCAGTCTGCCTATCAGCTTTGACCCT
1 CTTCCCTCAGTCTACCTATCGGCTTTGACCCT
2399206 GAAGACTACC
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.02
42 129 0.96
43 3 0.02
ACGTcount: A:0.14, C:0.32, G:0.17, T:0.37
Consensus pattern (42 bp):
CTTCCCTCAGTCTACCTATCGGCTTTGACCCTAGAGACTTTT
Found at i:2399781 original size:31 final size:32
Alignment explanation
Indices: 2399722--2399781 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
2399712 CCAACAGCAG
* *
2399722 CAACAACTCCCAGCCTTTGAGCACTCCAATAA
1 CAACAACTCCCAGCCTTTAAACACTCCAATAA
*
2399754 CAACAACTCCCATCC-TTAAACACTCCAA
1 CAACAACTCCCAGCCTTTAAACACTCCAA
2399782 CAGTTTCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.37, C:0.40, G:0.05, T:0.18
Consensus pattern (32 bp):
CAACAACTCCCAGCCTTTAAACACTCCAATAA
Found at i:2402213 original size:32 final size:32
Alignment explanation
Indices: 2402177--2402238 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
2402167 TGCATAGCAT
2402177 ATCCAAATACCCATTACATGAGCCATATATTC
1 ATCCAAATACCCATTACATGAGCCATATATTC
2402209 ATCCAAATACCCATTACATGAGCCATATAT
1 ATCCAAATACCCATTACATGAGCCATATAT
2402239 GGTTGGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (32 bp):
ATCCAAATACCCATTACATGAGCCATATATTC
Found at i:2402284 original size:11 final size:11
Alignment explanation
Indices: 2402270--2402296 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2402260 TTTTTTAATT
2402270 AAAAAATATAA
1 AAAAAATATAA
2402281 AAAAAATATAA
1 AAAAAATATAA
2402292 AAAAA
1 AAAAA
2402297 GTTATCCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATATAA
Found at i:2406950 original size:3 final size:3
Alignment explanation
Indices: 2406934--2406974 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2406924 AACCATTAAA
* * *
2406934 GAT GAT GAA AAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2406975 AGTTGACTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2406951 original size:12 final size:12
Alignment explanation
Indices: 2406934--2406974 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
2406924 AACCATTAAA
*
2406934 GATGATGAAAAT
1 GATGATGATAAT
*
2406946 GATGATGATGAT
1 GATGATGATAAT
2406958 GATGATGATAAT
1 GATGATGATAAT
2406970 GATGA
1 GATGA
2406975 AGTTGACTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (12 bp):
GATGATGATAAT
Found at i:2409931 original size:19 final size:19
Alignment explanation
Indices: 2409907--2409970 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
2409897 TTTCAACAAT
2409907 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2409926 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2409940 -TGTATCGATCCATAAGTG
1 TTGTATCGATACATAAGTG
*
2409958 TTGTATCAATACA
1 TTGTATCGATACA
2409971 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2409945 original size:32 final size:32
Alignment explanation
Indices: 2409908--2409978 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2409898 TTCAACAATT
*
2409908 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
2409940 TGTATCGATCCATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
2409972 TGTATCG
1 TGTATCG
2409979 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:2410041 original size:13 final size:13
Alignment explanation
Indices: 2410023--2410047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2410013 ATTACTCAAA
2410023 TGTATCGATACAC
1 TGTATCGATACAC
2410036 TGTATCGATACA
1 TGTATCGATACA
2410048 TTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2413047 original size:34 final size:35
Alignment explanation
Indices: 2413009--2413075 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2412999 CCTTACAACA
2413009 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2413043 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2413076 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2413624 original size:10 final size:10
Alignment explanation
Indices: 2413609--2413638 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2413599 ATCGATACAA
2413609 GAACAGTGAT
1 GAACAGTGAT
2413619 GAACAGTGAT
1 GAACAGTGAT
*
2413629 GAATAGTGAT
1 GAACAGTGAT
2413639 ACATGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (10 bp):
GAACAGTGAT
Found at i:2413640 original size:70 final size:71
Alignment explanation
Indices: 2413515--2413714 Score: 201
Period size: 70 Copynumber: 2.7 Consensus size: 71
2413505 ATTAAATGGT
* * * ***
2413515 GTGAACAGTGATGTATCGATACATGAATAGTGATGTACAGTGATTTTTA-TCGATACATGAATAG
1 GTGAACAGTGATGAATCGATACATGAACAGTGATGAACAGTGATGAATAGT-GATACATGAA-AG
2413579 TGA-TA-C
64 TGAGTATC
*
2413585 GTGAACAGTGATGAATCGATACAAGAACAGTGATGAACAGTGATGAATAGTGATACATGAAAGTG
1 GTGAACAGTGATGAATCGATACATGAACAGTGATGAACAGTGATGAATAGTGATACATGAAAGTG
2413650 ATGTATC
66 A-GTATC
* * *
2413657 GATACAAGAACAGTGATGAATAG-TGACATGAACAGTGATGAATAGTGATGAACAGTGA
1 G-T----GAACAGTGATGAATCGAT-ACATGAACAGTGATGAACAGTGATGAATAGTGA
2413715 AAATGAGATT
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
69 5 0.05
70 52 0.48
71 3 0.03
72 2 0.02
73 1 0.01
76 1 0.01
77 45 0.41
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (71 bp):
GTGAACAGTGATGAATCGATACATGAACAGTGATGAACAGTGATGAATAGTGATACATGAAAGTG
AGTATC
Found at i:2413660 original size:55 final size:56
Alignment explanation
Indices: 2413571--2413682 Score: 190
Period size: 55 Copynumber: 2.0 Consensus size: 56
2413561 TTATCGATAC
*
2413571 ATGAATAGTGATACGTGAACAGTGATGAATCGATACAAGAACAGTGATGAACAGTG
1 ATGAATAGTGATACATGAACAGTGATGAATCGATACAAGAACAGTGATGAACAGTG
* *
2413627 ATGAATAGTGATACATGAA-AGTGATGTATCGATACAAGAACAGTGATGAATAGTG
1 ATGAATAGTGATACATGAACAGTGATGAATCGATACAAGAACAGTGATGAACAGTG
2413682 A
1 A
2413683 CATGAACAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 35 0.66
56 18 0.34
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (56 bp):
ATGAATAGTGATACATGAACAGTGATGAATCGATACAAGAACAGTGATGAACAGTG
Found at i:2413697 original size:10 final size:10
Alignment explanation
Indices: 2413664--2413714 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
2413654 ATCGATACAA
2413664 GAACAGTGAT
1 GAACAGTGAT
*
2413674 GAATAGTGACAT
1 GAACAGTG--AT
2413686 GAACAGTGAT
1 GAACAGTGAT
*
2413696 GAATAGTGAT
1 GAACAGTGAT
2413706 GAACAGTGA
1 GAACAGTGA
2413715 AAATGAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 26 0.74
12 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (10 bp):
GAACAGTGAT
Found at i:2413697 original size:22 final size:22
Alignment explanation
Indices: 2413617--2413714 Score: 114
Period size: 22 Copynumber: 4.5 Consensus size: 22
2413607 AAGAACAGTG
2413617 ATGAACAGTGATGAATAGTGATAC
1 ATGAACAGTGATGAATAGTG--AC
* *
2413641 ATGAA-AGTGATGTATCGAT-AC
1 ATGAACAGTGATGAATAG-TGAC
*
2413662 AAGAACAGTGATGAATAGTGAC
1 ATGAACAGTGATGAATAGTGAC
2413684 ATGAACAGTGATGAATAGTG--
1 ATGAACAGTGATGAATAGTGAC
2413704 ATGAACAGTGA
1 ATGAACAGTGA
2413715 AAATGAGATT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
20 11 0.17
21 7 0.11
22 31 0.48
23 10 0.15
24 6 0.09
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (22 bp):
ATGAACAGTGATGAATAGTGAC
Found at i:2413927 original size:21 final size:21
Alignment explanation
Indices: 2413901--2413941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2413891 GTCAACCTTG
2413901 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2413922 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2413942 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2419083 original size:30 final size:30
Alignment explanation
Indices: 2419012--2419223 Score: 198
Period size: 31 Copynumber: 6.9 Consensus size: 30
2419002 TTCAAATACC
* *
2419012 TTCTTAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
*
2419043 TTCTCAAAGTCCACGACTTAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * *
2419072 TGTCCCAAAGTCCA-TACCTCCGTGGCATCTT
1 T-TCTCAAAGTCCACGA-CTCAGTGGCATCTT
* *
2419103 TTCTTCAAAGTCCACAACTCAGTGGCATCTCC
1 TTC-TCAAAGTCCACGACTCAGTGGCATCT-T
*
2419135 TTC-CAAAGTCCGCGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
*
2419164 TTCTTCAAAGTCCACAACTCCA-TGGCATCTTT
1 TTC-TCAAAGTCCACGACT-CAGTGGCATC-TT
**
2419196 TTCCTTTTAAGTCCACGACTCAGTGGCA
1 TT-C-TCAAAGTCCACGACTCAGTGGCA
2419224 CCATTTCCCC
Statistics
Matches: 150, Mismatches: 19, Indels: 22
0.79 0.10 0.12
Matches are distributed among these distances:
29 6 0.04
30 47 0.31
31 66 0.44
32 12 0.08
33 19 0.13
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:2419112 original size:61 final size:61
Alignment explanation
Indices: 2419017--2419193 Score: 200
Period size: 61 Copynumber: 2.9 Consensus size: 61
2419007 ATACCTTCTT
* * * * **
2419017 AAAGTCC-ACGACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTTAGTGGCATTTTGTCCC
1 AAAGTCCGA-GACTCAGTGGC-ATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCCC
* * *
2419078 AAAGTCC-ATACCTCCGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTCC
1 AAAGTCCGAGA-CTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCCC
*
2419139 AAAGTCCGCGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCCA-TGGCATCT
1 AAAGTCCGAGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACT-CAGTGGCATCT
2419194 TTTTCCTTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
60 8 0.08
61 89 0.89
62 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (61 bp):
AAAGTCCGAGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCCC
Found at i:2419190 original size:92 final size:91
Alignment explanation
Indices: 2419012--2419223 Score: 268
Period size: 92 Copynumber: 2.3 Consensus size: 91
2419002 TTCAAATACC
*
2419012 TTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCATTTTGTCC
1 TTCTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCC
* * *
2419077 CAAAGTCCATACCTCCGTGGCATC-TT
65 CAAAGTCCACAACTCCATGGCATCTTT
* *
2419103 TTCTTCAAAGTCCACAACTCAGTGGCATCTCCTTC-CAAAGTCCGCGACTCAGTGGCATCTTT-T
1 TTCTT-AAAGTCCACGACTCAGTGGCATCT-CTTCTCAAAGTCCACGACTCAGTGGCAT-TTTGT
*
2419166 CTTCAAAGTCCACAACTCCATGGCATCTTT
63 C-CCAAAGTCCACAACTCCATGGCATCTTT
*
2419196 TTCCTTTTAAGTCCACGACTCAGTGGCA
1 TT-C-TTAAAGTCCACGACTCAGTGGCA
2419224 CCATTTCCCC
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
91 32 0.30
92 47 0.45
93 4 0.04
94 20 0.19
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (91 bp):
TTCTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCCC
AAAGTCCACAACTCCATGGCATCTTT
Found at i:2419273 original size:62 final size:59
Alignment explanation
Indices: 2419197--2419374 Score: 188
Period size: 62 Copynumber: 3.0 Consensus size: 59
2419187 GGCATCTTTT
*
2419197 TCCTTTTAAGTCCACGACTCAGTGGCACCATTTCCCCTTTTAAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCAGTGGCACC-TTT--CCTTTTAAAGCCCACAACTCCGTGGCA
* *
2419259 TCCTTTTAAGTCCACAACTC-GTGGCA-C--T-CTTTCAAAGCCCACAACCCCGTGGCA
1 TCCTTTTAAGTCCACAACTCAGTGGCACCTTTCCTTTTAAAGCCCACAACTCCGTGGCA
* * * *
2419313 -CTCTTTTAAAGCCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCCCAACTTCGTGGCA
1 TC-CTTTT-AAGTCCACAACTCAGTGGCACC--TTTCCTTTTAAAGCCCACAACTCCGTGGCA
2419375 CTTTTTTTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
53 1 0.01
54 29 0.30
55 12 0.12
56 6 0.06
57 2 0.02
60 1 0.01
61 7 0.07
62 40 0.41
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (59 bp):
TCCTTTTAAGTCCACAACTCAGTGGCACCTTTCCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:2419320 original size:54 final size:55
Alignment explanation
Indices: 2419232--2419345 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 55
2419222 CACCATTTCC
* * *
2419232 CCTTTTAAAGCCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTC-GTGGCA
1 CCTTTCAAAGCCCACAACCCCGTGGCATCCTTTTAAAGCCCACAACTCAGTGGCA
2419285 CTCTTTCAAAGCCCACAACCCCGTGGCA-CTCTTTTAAAGCCCACAACTCAGTGGCA
1 C-CTTTCAAAGCCCACAACCCCGTGGCATC-CTTTTAAAGCCCACAACTCAGTGGCA
2419341 CCTTT
1 CCTTT
2419346 TTCTTTTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
53 2 0.04
54 29 0.54
55 16 0.30
56 7 0.13
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (55 bp):
CCTTTCAAAGCCCACAACCCCGTGGCATCCTTTTAAAGCCCACAACTCAGTGGCA
Found at i:2419347 original size:28 final size:28
Alignment explanation
Indices: 2419233--2419346 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
2419223 ACCATTTCCC
2419233 CTTTTAAAGCCCACAACTCCGTGGCA-T
1 CTTTTAAAGCCCACAACTCCGTGGCACT
*
2419260 CCTTTT-AAGTCCACAACT-CGTGGCACT
1 -CTTTTAAAGCCCACAACTCCGTGGCACT
* *
2419287 CTTTCAAAGCCCACAACCCCGTGGCACT
1 CTTTTAAAGCCCACAACTCCGTGGCACT
*
2419315 CTTTTAAAGCCCACAACTCAGTGGCAC-
1 CTTTTAAAGCCCACAACTCCGTGGCACT
2419342 CTTTT
1 CTTTT
2419347 TCTTTTTAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.14
27 27 0.36
28 38 0.50
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (28 bp):
CTTTTAAAGCCCACAACTCCGTGGCACT
Found at i:2419379 original size:33 final size:33
Alignment explanation
Indices: 2419316--2419384 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
2419306 CGTGGCACTC
2419316 TTTTAAAGCCCACAACTCAGTGGCACCTTTTTCT
1 TTTTAAAGCCCACAACTCAGTGGCACCTTTTT-T
*
2419350 TTTTAAAGCCCCCAACTTC-GTGGCA-CTTTTTT
1 TTTTAAAGCCCACAAC-TCAGTGGCACCTTTTTT
2419382 TTT
1 TTT
2419385 CTTTTCCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 4 0.12
33 6 0.18
34 21 0.64
35 2 0.06
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCAGTGGCACCTTTTTT
Found at i:2419429 original size:27 final size:27
Alignment explanation
Indices: 2419390--2419442 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
2419380 TTTTTCTTTT
* * *
2419390 CCTTTTAAGTCCACAACTCTATGGCAC
1 CCTTTTAAATCCACAACCCCATGGCAC
2419417 CCTTTTAAATCCACAACCCCATGGCA
1 CCTTTTAAATCCACAACCCCATGGCA
2419443 TCTTCTCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.26
Consensus pattern (27 bp):
CCTTTTAAATCCACAACCCCATGGCAC
Found at i:2419524 original size:31 final size:27
Alignment explanation
Indices: 2419451--2419530 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 27
2419441 CATCTTCTCC
* **
2419451 TCAAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCACACAAGTTGGT-GCAACCT
2419479 TCAAAAGCACACAAGTTGGTGCAACCCT
1 TCAAAAGCACACAAGTTGGTGCAA-CCT
2419507 TACAAAAGCCCACACAAGTTGGTG
1 T-CAAAAG--CACACAAGTTGGTG
2419531 GCGTCTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 21 0.47
29 6 0.13
31 14 0.31
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (27 bp):
TCAAAAGCACACAAGTTGGTGCAACCT
Found at i:2419719 original size:95 final size:95
Alignment explanation
Indices: 2419542--2421552 Score: 1795
Period size: 95 Copynumber: 21.0 Consensus size: 95
2419532 CGTCTTTTTC
* *
2419542 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
2419603 GCTGGCCTTGAATCAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
2419633 TAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGGCGTCTTTTTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2419698 GTTGGCCTTGAATTAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
** * * *
2419728 TAAGTCCAATATCATTGGCCTTGAATCGGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2419789 GCTGGCCTTGAATCAGCACATTGGCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2419819 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2419884 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTT
* * * * * *
2419923 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2419979 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* * * * *
2420018 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A----T--GTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2420074 ACTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-C----CTT
* * * *
2420109 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
2420165 CCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* *
2420204 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2420269 ACTGGCCTTGAATCAGCACATTGGCACATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
2420299 TAAGTCCAATATCACTGGCCTTGAATCAACATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2420364 GCTAGCCTTGAATCAGCACATTAGCACCTTTGTCT
66 GCTGGCCTTGAATCAGCACATTGGCACC----T-T
* * * * * *
2420399 TTAGTACCAATGTTGCTAGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATGT
1 TAAGT-CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
* * *
2420461 CACTGGCCTTGAATTAGCACATTAGCACCTTCAACT
65 CGCTGGCCTTGAATCAGCACATTGGCACC-T----T
*
2420497 TGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGT
2420562 CGCTGGCCTTGAATCAGCACATTGGCACCTT
65 CGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2420593 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2420658 GCTGGCCTTGAATTAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
2420688 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACC-TTG---TCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2420749 GCTGGCCTTGAATCAGCACGTTGGCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
*
2420779 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2420844 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-------C--CTT
* * * * * *
2420883 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2420939 GCTGGCCTTGAA-CTAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATC-AGCACATT---G-----G-CACCTT
* * * * *
2420978 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A----T--GTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* *
2421034 ACTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 GCTGGCCTTGAATCAGCACATTGGCA-C----CTT
* * * *
2421069 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
* * *
2421125 CCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCACATT---G-----G-CACCTT
* *
2421164 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
2421229 GCTGGCCTTGAATCAGCACATTGGCACCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTT
* *
2421259 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2421324 GCTAGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
2421360 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
*
2421425 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* * * ** *
2421461 TAAGTCCAGTATCGCTGGCCTTGAATCTGCATATTGGCGCCTTCGTCATCTTTAAAACCCGATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTCCAATGT
*
2421526 CGTTGGCCTTGAATCAGCACATTGGCA
65 CGCTGGCCTTGAATCAGCACATTGGCA
2421553 TTCTTCTCAT
Statistics
Matches: 1640, Mismatches: 136, Indels: 277
0.80 0.07 0.13
Matches are distributed among these distances:
85 2 0.00
86 4 0.00
87 2 0.00
89 2 0.00
91 341 0.21
92 10 0.01
94 8 0.00
95 744 0.45
96 9 0.01
97 4 0.00
98 82 0.05
99 8 0.00
100 11 0.01
101 227 0.14
102 35 0.02
103 6 0.00
104 145 0.09
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (95 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:2419999 original size:333 final size:326
Alignment explanation
Indices: 2419542--2421498 Score: 1881
Period size: 333 Copynumber: 5.8 Consensus size: 326
2419532 CGTCTTTTTC
*
2419542 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG-TCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGCTCTTTAAGACCAATGTCGCT
* *
2419606 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-
* * *
2419671 GTCTTTTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCA
130 G-C-TTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCA
* ** * * *
2419736 ATATCATTGGCCTTGAATCGGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAA
193 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGTCCAATGTCGCTGGCCTTGAA
*
2419801 TCAGCACATTGGCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
257 TCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
2419866 ATCTT
322 ATCTT
*
2419871 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C-TCTTTAAGACCAATGTC
*
2419936 GTTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
63 GCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
2420001 GGCGCCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATGT
128 GG-G-CTTT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * *
2420066 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
190 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGTCCAATGTCGCTGGCCTT
*
2420131 GAATCAGCACATTGGCATCTTTAAGTCCAATATCCCTGGCCTTGAATCAGCATATTGGCGCCTTT
254 GAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT
2420196 GTCATCTT
319 GTCATCTT
*
2420204 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C-TCTTTAAGACCAATGTC
* * * *
2420269 ACTGGCCTTGAATCAGCACATTGGCACATTTAAGTCCAATATCACTGGCCTTGAATCAACATATT
63 GCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* *
2420334 GGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACCTTTGTCT
128 GG-G-CTTT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC----T-T
* * * *
2420399 TTAGTACCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCAC
185 TAAGT-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TCTTTAAGTCCAATGTCGC
* * *
2420464 TGGCCTTGAATTAGCACATTAGCACCTTCAACTTGAAGTCCAATATCGCTGGCCTTGAATCAGCA
247 TGGCCTTGAATCAGCACATTGGCA---T---CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
*
2420529 TATTGGTGCCTTTGTCATCTT
306 TATTGGCGCCTTTGTCATCTT
* * *
2420550 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C-CTTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGCTCTTTAAGACCAATGTCGCT
* * * * *
2420609 GGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTAG
66 GGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * *
2420674 CACATT-GG-----CACCTTTAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCACCTTGT
122 CATATTGGGCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
* * *
2420733 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACGTTGGCA----TCTTTAAGTCCAATATCGC
182 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTCGC
*
2420794 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
247 TGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
*
2420859 GCATATTGGCACCTTTGTCATCTT
303 GCATATTGGCGCCTTTGTCATCTT
* * * * *
2420883 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-----CT-TTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGCTCTTTAAGACCAATGTCGCT
* * * *
2420942 GGCCTTGAA-CTAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
66 GGCCTTGAATC-AGCACATT-G-G-C----AC-T-TTTAAGTCCAATATCGCTGGCCTTGAATCA
* * * * * *
2421006 GCACATT-GG-----CACCTTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTG
121 GCATATTGGGCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---
* * *
2421065 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TCTTTAAGTCCAATATCC
182 -CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTCG
*
2421126 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
246 CTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
2421191 AGCATATTGGCACCTTTGTCATCTT
302 AGCATATTGGCGCCTTTGTCATCTT
* * * * *
2421216 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C-CTTTAAGTCCAATATCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGCTCTTTAAGACCAATGTCGCT
* * * *
2421275 GGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAG
66 GGCCTTGAATCAGCACATT-G-G-C----AC-T-TTTAAGTCCAATATCGCTGGCCTTGAATCAG
* ** * *
2421340 CACATT-GGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT
122 CATATTGGGC-TTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT---G-----
* *
2421404 GTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
178 G-CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TCTTTAAGTCCA
* * * *
2421469 GTATCGCTGGCCTTGAATCTGCATATTGGC
240 ATGTCGCTGGCCTTGAATCAGCACATTGGC
2421499 GCCTTCGTCA
Statistics
Matches: 1472, Mismatches: 90, Indels: 121
0.87 0.05 0.07
Matches are distributed among these distances:
329 41 0.03
330 38 0.03
332 4 0.00
333 947 0.64
334 1 0.00
336 32 0.02
337 78 0.05
338 8 0.01
339 75 0.05
340 41 0.03
341 1 0.00
342 2 0.00
343 41 0.03
344 2 0.00
345 1 0.00
346 121 0.08
347 1 0.00
348 2 0.00
349 36 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (326 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTGCTCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGG
CTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
CACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
T
Found at i:2422543 original size:32 final size:32
Alignment explanation
Indices: 2422497--2422566 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
2422487 ACATAACTAT
* *
2422497 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCCATACATAAGTGTTGTATCGATACAA
2422529 TGTATCCATACATAAGTGTTGTATCGATACAA
1 TGTATCCATACATAAGTGTTGTATCGATACAA
2422561 TGTATC
1 TGTATC
2422567 GCTACGAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCCATACATAAGTGTTGTATCGATACAA
Found at i:2422553 original size:19 final size:19
Alignment explanation
Indices: 2422456--2422559 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
2422446 TTTCAACAAT
* *
2422456 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
* *
2422477 TTGTATCGATACATAACTA
1 TTGTATCGATACATAAGTG
*
2422496 TTGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
2422515 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2422529 -TGTATCCATACATAAGTG
1 TTGTATCGATACATAAGTG
2422547 TTGTATCGATACA
1 TTGTATCGATACA
2422560 ATGTATCGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
13 10 0.14
15 2 0.03
17 2 0.03
19 39 0.57
20 2 0.03
21 14 0.20
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2422630 original size:13 final size:13
Alignment explanation
Indices: 2422612--2422639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2422602 ATTACTCAAA
2422612 TGTATCGATACAT
1 TGTATCGATACAT
2422625 TGTATCGATACAT
1 TGTATCGATACAT
2422638 TG
1 TG
2422640 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2426795 original size:20 final size:20
Alignment explanation
Indices: 2426770--2426822 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2426760 CTAAGTGAAA
*
2426770 TGTATCAATACATG-GGACAT
1 TGTATCAATACATGAAGA-AT
*
2426790 TGTATCGATACATGAAGAAT
1 TGTATCAATACATGAAGAAT
2426810 TGTATCAATACAT
1 TGTATCAATACAT
2426823 TATGCCCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTATCAATACATGAAGAAT
Found at i:2427404 original size:249 final size:249
Alignment explanation
Indices: 2426965--2427467 Score: 970
Period size: 249 Copynumber: 2.0 Consensus size: 249
2426955 GAGAGATGTG
2426965 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
1 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
*
2427030 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAGGTTGTTTATCCAAGCTAAC
66 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
2427095 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
131 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
*
2427160 TGCCATTCTAATGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
196 TGCCATTCTAAAGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
2427214 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
1 ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
*
2427279 CATACTTAAACGGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
66 CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
*
2427344 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGGGAAAGCGACGT
131 AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
2427409 TGCCATTCTAAAGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
196 TGCCATTCTAAAGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
2427463 ACTTA
1 ACTTA
2427468 ATGCCAAAGC
Statistics
Matches: 250, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 250 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (249 bp):
ACTTATGGCATTGGAGAATAATTCAAATGCCATCGGACTCGCAGGTCAGTCGACTATGAGACCTC
CATACTTAAACAGTGATAACTACTCATATTGGAGAACAAGGATGAAGTTGTTTATCCAAGCTAAC
AACTACGAGGTGTGGAAGATCATCGTTAAAGGACCACAAGTTCCAACGAAGAGAGAAAGCGACGT
TGCCATTCTAAAGGAGGAAGATAAGTGGGATGAACAAGACACAAAAATGGCACA
Found at i:2432642 original size:21 final size:20
Alignment explanation
Indices: 2432618--2432665 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
2432608 CAAATCCTTT
2432618 TCAAAATTCATC-ATTTTCACA
1 TCAAAATT-ATCTATTTT-ACA
* *
2432639 TCAAAACTATCTATTTTTCA
1 TCAAAATTATCTATTTTACA
2432659 TCAAAAT
1 TCAAAAT
2432666 CTTCATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
TCAAAATTATCTATTTTACA
Found at i:2432673 original size:32 final size:31
Alignment explanation
Indices: 2432637--2432713 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
2432627 ATCATTTTCA
* *
2432637 CATCAAAACTATCTATTTTTCATCAAAATCTT
1 CATCAAAACTATCT-TCTTCCATCAAAATCTT
* *
2432669 CATCAAAAACATATCTTCTTCCATCAAATTTTT
1 CATC-AAAAC-TATCTTCTTCCATCAAAATCTT
2432702 CATTCAAAACTA
1 CA-TCAAAACTA
2432714 CCCACAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 6 0.16
33 25 0.66
34 7 0.18
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (31 bp):
CATCAAAACTATCTTCTTCCATCAAAATCTT
Found at i:2435069 original size:19 final size:20
Alignment explanation
Indices: 2435047--2435084 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2435037 ATGTATTGAT
*
2435047 ACATACTC-CTTGTATCGAC
1 ACATACTCAATTGTATCGAC
2435066 ACATACTCAATTGTATCGA
1 ACATACTCAATTGTATCGA
2435085 TATATGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
ACATACTCAATTGTATCGAC
Found at i:2435153 original size:13 final size:13
Alignment explanation
Indices: 2435135--2435164 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2435125 AATACATGGG
2435135 ACATTGTATCAAT
1 ACATTGTATCAAT
*
2435148 ACATTGTATCGAT
1 ACATTGTATCAAT
2435161 ACAT
1 ACAT
2435165 AAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:2437346 original size:9 final size:9
Alignment explanation
Indices: 2437332--2437371 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
2437322 TAACAAATCT
2437332 TTCTTCAAA
1 TTCTTCAAA
2437341 TTCTTCAATTA
1 TTCTTCAA--A
2437352 TTCTTCAAA
1 TTCTTCAAA
2437361 TTTCTTCAAA
1 -TTCTTCAAA
2437371 T
1 T
2437372 ACTCTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 10 0.36
10 9 0.32
11 9 0.32
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (9 bp):
TTCTTCAAA
Found at i:2442132 original size:19 final size:20
Alignment explanation
Indices: 2442108--2442160 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2442098 ATCTATATAA
*
2442108 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
* *
2442127 TGTATCGATGCATACTCAAT
1 TGTATCGATACATGCTCAAT
2442147 TGTATCGATACATG
1 TGTATCGATACATG
2442161 AAACTGACAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:2449870 original size:2 final size:2
Alignment explanation
Indices: 2449863--2449897 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2449853 TCGACTGATT
2449863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2449898 TATTTGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2452137 original size:23 final size:25
Alignment explanation
Indices: 2452109--2452167 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
2452099 TTACCCTTTG
*
2452109 TTTATTTTAT-TTCT-TTTTTCT-CT
1 TTTATTTT-TCTTCTATTTTTCTCCC
2452132 TTTATTTTTCTTCTCATTTTTCTCCC
1 TTTATTTTTCTTCT-ATTTTTCTCCC
2452158 TTTATTTTTC
1 TTTATTTTTC
2452168 GTTTTTAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 12 0.39
25 7 0.23
26 11 0.35
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTATTTTTCTTCTATTTTTCTCCC
Found at i:2452165 original size:25 final size:23
Alignment explanation
Indices: 2452109--2452165 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
2452099 TTACCCTTTG
* *
2452109 TTTATTTTATTTCTTTTTTCTCT
1 TTTATTTTATTTCATTTTTCTCC
*
2452132 TTTATTTTTCTTCTCATTTTTCTCCC
1 TTTA-TTTTATT-TCATTTTTCT-CC
2452158 TTTATTTT
1 TTTATTTT
2452166 TCGTTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 6 0.21
25 13 0.46
26 5 0.18
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTATTTCATTTTTCTCC
Found at i:2453724 original size:79 final size:79
Alignment explanation
Indices: 2453624--2453949 Score: 346
Period size: 79 Copynumber: 4.2 Consensus size: 79
2453614 AATAAAGGGG
* *
2453624 TTGGAGTATCCGCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
2453689 AAATAAAATCGGGA
66 AAATAAAATCGGGA
* * * **
2453703 TTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCTCGATTATGAGAAATTAAT-ATTTT
1 TTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA-TTT
*
2453766 AGAAATAAAATCGGGG
64 AGAAATAAAATCGGGA
** * * * *
2453782 TTGGAGTATTTCCTCGAAAATAACGGGGTTGGAGTATCCCTGA---TGAAAAATTGATGTTTTAC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
* *
2453844 AAGTAAAA-CGGGGG
66 AAATAAAATC-GGGA
* * * *
2453858 TTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAGTC-AGTG-TTTT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGA-TGATTTA
2453921 GAAAATAAAATC-GGA
65 G-AAATAAAATCGGGA
*
2453936 GTTGGAGTTTCCCC
1 -TTGGAGTATCCCC
2453950 GATTATGGAA
Statistics
Matches: 206, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
75 1 0.00
76 63 0.31
78 8 0.04
79 132 0.64
80 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
AAATAAAATCGGGA
Found at i:2453927 original size:155 final size:156
Alignment explanation
Indices: 2453620--2453943 Score: 399
Period size: 155 Copynumber: 2.1 Consensus size: 156
2453610 AGATAATAAA
2453620 GGGGTTGGAGTATCCGCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGAT
1 GGGGTTGGAGTATCCGCTCGAAAATAACAGGGTTGGAGTATCCCCGA-T-TGAAAAATCGATGAT
* *
2453685 TTAGAAATAAAATCGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTAT
64 TTACAAATAAAATCGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAT
*
2453750 GAGAAATTAATATTTTAGAAATAAAATC
129 GAGAAATCAATATTTTAGAAATAAAATC
* * * * *
2453778 GGGGTTGGAGTATTTC-CTCGAAAATAACGGGGTTGGAGTATCCCTGA-TGAAAAATTGATGTTT
1 GGGGTTGGAGTA-TCCGCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGAAAAATCGATGATT
* * * * *
2453841 TACAAGTAAAA-CGGGGGTTGGAGTGTCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGGTTG
65 TACAAATAAAATC-GGGATTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTA
* *
2453904 TGA-AAAGTCAGTGTTTT-GAAAATAAAATC
128 TGAGAAA-TCAATATTTTAG-AAATAAAATC
*
2453933 GGAGTTGGAGT
1 GGGGTTGGAGT
2453944 TTCCCCGATT
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
154 6 0.04
155 96 0.66
158 41 0.28
159 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (156 bp):
GGGGTTGGAGTATCCGCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGAAAAATCGATGATTT
ACAAATAAAATCGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGA
GAAATCAATATTTTAGAAATAAAATC
Found at i:2453940 original size:51 final size:51
Alignment explanation
Indices: 2453885--2454053 Score: 175
Period size: 51 Copynumber: 3.3 Consensus size: 51
2453875 AAATAACGGG
* *
2453885 GTTGGAGTATCCCCGGTTGT-GAAAAGTCAGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TCAGTGTTTTAG-AAATAAAATCGGA
* **
2453936 GTTGGAGTTTCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
* * * * * *
2453987 GTTGGAGTATCCCCGATTA-AGAAAAACTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGGAAAATCAG-TGTTTTAGAAATAAAATCGGA
2454037 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
2454054 GAAGAAAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
50 7 0.07
51 88 0.87
52 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
Found at i:2456330 original size:20 final size:19
Alignment explanation
Indices: 2456305--2456414 Score: 115
Period size: 20 Copynumber: 5.9 Consensus size: 19
2456295 AAAATGCCTG
*
2456305 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
2456325 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
2456345 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
2456365 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
2456378 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
2456398 AATGTATCGATACAATG
1 AATGTATCGATACAATG
2456415 TATCGATACA
Statistics
Matches: 80, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
13 13 0.16
19 1 0.01
20 66 0.82
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2456369 original size:40 final size:40
Alignment explanation
Indices: 2456305--2456414 Score: 128
Period size: 33 Copynumber: 2.9 Consensus size: 40
2456295 AAAATGCCTG
*
2456305 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGC
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAGC
*
2456345 AATGTATCGATACAATG-AGCAATGTATCG-----AT-A-C
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATGAGC
*
2456378 AATGTATCGATACAATGCAAAATGTATCGATACAATG
1 AATGTATCGATACAATGTAAAATGTATCGATACAATG
2456415 TATCGATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
33 27 0.46
34 2 0.03
35 2 0.03
38 2 0.03
39 1 0.02
40 25 0.42
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (40 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAGC
Found at i:2456380 original size:13 final size:13
Alignment explanation
Indices: 2456364--2456424 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
2456354 ATACAATGAG
2456364 CAATGTATCGATA
1 CAATGTATCGATA
2456377 CAATGTATCGATA
1 CAATGTATCGATA
2456390 CAATG---C-A-A
1 CAATGTATCGATA
2456398 -AATGTATCGATA
1 CAATGTATCGATA
2456410 CAATGTATCGATA
1 CAATGTATCGATA
2456423 CA
1 CA
2456425 TTGAATAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.10
8 1 0.02
9 1 0.02
10 2 0.05
11 1 0.02
12 1 0.02
13 32 0.76
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2456386 original size:33 final size:32
Alignment explanation
Indices: 2456344--2456444 Score: 157
Period size: 33 Copynumber: 3.1 Consensus size: 32
2456334 ATACAATGAG
*
2456344 CAATGTATCGATACAATGAGCAATGTATCGATA
1 CAATGTATCGATACAATGA-AAATGTATCGATA
2456377 CAATGTATCGATACAATGCAAAATGTATCGATA
1 CAATGTATCGATACAATG-AAAATGTATCGATA
*
2456410 CAATGTATCGATACATTGAATAATGTATCGATA
1 CAATGTATCGATACAATGAA-AATGTATCGATA
2456443 CA
1 CA
2456445 TTTCCTTGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.03
33 61 0.95
34 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (32 bp):
CAATGTATCGATACAATGAAAATGTATCGATA
Found at i:2460263 original size:42 final size:42
Alignment explanation
Indices: 2460184--2460285 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
2460174 CCGTTTTTCG
* * *
2460184 AGGACAAAGGAAAAAGAGAAACGAAATACGTCCTGCTCTCTA
1 AGGACAAAAGAAAAAGAGAAAAGAAATACGTCATGCTCTCTA
* * * *
2460226 AGGACAAAAGAAAAAG-GAAAATAAAGTGCGTCATGCTCTTTG
1 AGGACAAAAGAAAAAGAGAAAAGAAA-TACGTCATGCTCTCTA
2460268 AGGACAAAAGAGAAAAGA
1 AGGACAAAAGA-AAAAGA
2460286 AGGGAAGGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 7 0.14
42 38 0.76
43 5 0.10
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.14
Consensus pattern (42 bp):
AGGACAAAAGAAAAAGAGAAAAGAAATACGTCATGCTCTCTA
Found at i:2460535 original size:60 final size:61
Alignment explanation
Indices: 2460301--2460534 Score: 296
Period size: 61 Copynumber: 3.9 Consensus size: 61
2460291 AGGAAGTGTG
* * * *
2460301 TCCTACTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCA
* * * * *
2460362 TCCTACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGCA
* *
2460423 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGCA
* * *
2460484 TCCTGTTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
2460535 GCATCCTACT
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
59 5 0.03
60 28 0.18
61 115 0.76
62 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCA
Found at i:2460631 original size:94 final size:94
Alignment explanation
Indices: 2460471--2460655 Score: 286
Period size: 94 Copynumber: 2.0 Consensus size: 94
2460461 GTAGGCTTTA
* * *
2460471 AAAGGAGAAGGCGTCCTGTTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG
1 AAAGGAGAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
2460536 CATCCTACTCTTTGAGGAC-AAAAAGGCG
66 CATCCTACTCTTTGAGGACTAAAAAGGCG
2460564 AAAGGAG-AGAGCATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCATCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAA
*
2460627 AGGCATCCTGCTCTTTGAGGACTAAAAAG
63 AGGCATCCTACTCTTTGAGGACTAAAAAG
2460656 TGCCACCAAC
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
92 2 0.02
93 26 0.31
94 47 0.56
95 9 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AAAGGAGAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
CATCCTACTCTTTGAGGACTAAAAAGGCG
Found at i:2460658 original size:55 final size:55
Alignment explanation
Indices: 2460574--2460706 Score: 221
Period size: 55 Copynumber: 2.4 Consensus size: 55
2460564 AAAGGAGAGA
**
2460574 GCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2460629 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
2460684 GCGTCCTGCTTTTTGAGGACTAA
1 GCATCCTGCTCTTTGAGGACTAA
2460707 CGGGTGAAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2460730 original size:149 final size:151
Alignment explanation
Indices: 2460419--2460862 Score: 601
Period size: 149 Copynumber: 2.9 Consensus size: 151
2460409 GCAAAAAGAA
* *
2460419 AGCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGC
1 AGCATCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT--AA-GAGAAGGC
* * * * * *
2460483 GTCCTGTTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTACTCTT
62 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTT
*
2460548 TGAGGACAAAAAGGCGAAAGGAGAG
127 TGAGGACTAAAAGGCGAAAGGAGAG
*
2460573 AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-A-A-AAGGCATCC
1 AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAGGCGTCC
* *
2460635 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGA
66 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGA
** *
2460700 GGACTAACGGGTGAAAGGAGAG
130 GGACTAAAAGGCGAAAGGAGAG
* *
2460722 AGCGTCCTGCTCTTTGAGGACTA-GACGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
1 AGCATCCTGCTCTTTGAGGACTAGGA-AGTGCCACCAACTTGTGTGGGCTTT--AA-GAGAAGGC
* *
2460786 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCATCTTATGTGGGCTTTAAAAGGCGTCCTGCTTTT
62 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTT
2460851 TGAGGACTAAAA
127 TGAGGACTAAAA
2460863 AGTGACACCA
Statistics
Matches: 257, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
148 24 0.09
149 107 0.42
151 1 0.00
152 1 0.00
154 100 0.39
155 24 0.09
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (151 bp):
AGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGAAGGCGTCC
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAG
GACTAAAAGGCGAAAGGAGAG
Found at i:2460789 original size:61 final size:59
Alignment explanation
Indices: 2460713--2460974 Score: 299
Period size: 55 Copynumber: 4.5 Consensus size: 59
2460703 CTAACGGGTG
* *
2460713 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGACGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
* *
2460773 AAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCATCTTATGTGGGCTTT
1 -AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
2460833 --A--AAAGGCGTCCTGCTTTTTGAGGACTAAAAAGTGACACCAACTTGTGTGGGCTTT
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2460888 ----GAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGGGTAGGCTTCA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTT-T
* *
2460944 AAAGGAAAAAGCATCCTGCTCTTTGAGGACT
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACT
2460975 GAAAAGTGGA
Statistics
Matches: 174, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
54 24 0.14
55 71 0.41
57 1 0.01
60 25 0.14
61 51 0.29
62 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:2460990 original size:209 final size:204
Alignment explanation
Indices: 2460356--2460993 Score: 528
Period size: 209 Copynumber: 3.0 Consensus size: 204
2460346 TTGAAAAGAA
* * *
2460356 AAGGCATCCTACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAG
1 AAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG---G
* *
2460421 CATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCGTC
59 CATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTC
* * * * *
2460486 CTGTTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAAA-G--GCATCCTACTCT
118 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGCGTAGGCTTCAAAAGGAAGCATCCTACTCT
*
2460547 TTGAGGACAAAAAGGCGAAAGGAG
183 TTGAGGACTAAAAGG-G-AAGGAG
2460571 -AGAGCATCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATC
1 AAG-GCATCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATC
*
2460634 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTG
63 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
* ** ** ** ** *** * *
2460699 AGGACTA-ACGGGTGAAAGGAGA-GAGCGTCCTGC-TCTTTGAGGACTAGACGGTGCC-ACCAAC
128 AGGACTAGA-AGGTGCCACCA-ACTTGCGT-AGGCTTC-AAAAGGA--AG-C-AT-CCTA-C-TC
* * **
2460760 TTGTGTGGGCTTTAA---AAGGAG
182 TT-TGAGGACTAAAAGGGAAGGAG
* * * *
2460781 AAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCATCTTATGTGGGCTTTAAAAGGCGTCCTG
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTG
* *
2460846 CTTTTTGAGGACTAAAAAGTGACACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
* *
2460911 ACTAGAAGGTGCCACCAACTTGGGTAGGCTTCAAAAGGAAAAAGCATCCTGCTCTTTGAGGACTG
131 ACTAGAAGGTGCCACCAACTTGCGTAGGCTTCAAAAGG---AAGCATCCTACTCTTTGAGGACT-
2460976 AAAAGTGGAAGGAG
192 AAAAG-GGAAGGAG
2460990 AAGG
1 AAGG
2460994 TTTAGATACC
Statistics
Matches: 334, Mismatches: 56, Indels: 72
0.72 0.12 0.16
Matches are distributed among these distances:
203 23 0.07
204 18 0.05
205 8 0.02
206 4 0.01
207 1 0.00
208 9 0.03
209 171 0.51
210 29 0.09
211 4 0.01
212 7 0.02
213 3 0.01
214 5 0.01
215 50 0.15
216 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (204 bp):
AAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTG
CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
ACTAGAAGGTGCCACCAACTTGCGTAGGCTTCAAAAGGAAGCATCCTACTCTTTGAGGACTAAAA
GGGAAGGAG
Found at i:2461972 original size:17 final size:16
Alignment explanation
Indices: 2461950--2462022 Score: 76
Period size: 17 Copynumber: 4.4 Consensus size: 16
2461940 CTTTTCTCTC
2461950 TTTTTTCTTTGTTTTGT
1 TTTTTTCTTTGTTTT-T
*
2461967 TTTTTTC-TAGTTTTT
1 TTTTTTCTTTGTTTTT
*
2461982 TTATTTTTTTTGTTTTT
1 TT-TTTTCTTTGTTTTT
*
2461999 TTTTTGTTTTTGTTTTT
1 TTTTT-TCTTTGTTTTT
2462016 GTTTTTT
1 -TTTTTT
2462023 TTAGAAGAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
15 3 0.06
16 13 0.27
17 28 0.57
18 5 0.10
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTGTTTTT
Done.