Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 10 of 24
Found at i:1593170 original size:265 final size:268
Alignment explanation
Indices: 1592661--1593223 Score: 787
Period size: 265 Copynumber: 2.1 Consensus size: 268
1592651 AAGAAAAGGT
* *
1592661 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGATTTGAAAAAAAAAGGCGTCC
*
1592726 TGCTCTTTAAGGACTGGAAGGTGCCACAAACTTGAGTGGTCTTTAAAAGGAGAAAGCATCCTGCT
66 TGCTCTTTAAGGACTGGAAGGTGCCACAAACTTGAGTGGGCTTT-AAAGGAG--AGCATCCTGCT
* * *
1592791 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTGAAAGGCATCCTGCTCTTTGAGGAT
128 CTTTGAGGACTAGAAAATACCACCAACTTGTGTGGACTTTGAAAGGCATCCTGCTCTTTGAGGAC
*
1592856 TGAAAAATGCCACCAACATGTGTGAGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGTGA
193 TAAAAAATGCCACCAACATGTGTGAGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGTGA
1592921 AAGGAGAGAAC
258 AAGGAGAGAAC
* ** * *
1592932 GTCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGATTT-AAAAGGAAAAA-GTGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGATTTGAAAA--AAAAAGGCGT
* * * * *
1592995 CCTGCTCTTTGAGGACTGGGAA-GTGCCACCAATTTGTGTGGGCTTT-AA-GAG-GCGTCCTGCT
64 CCTGCTCTTTAAGGACT-GGAAGGTGCCACAAACTTGAGTGGGCTTTAAAGGAGAGCATCCTGCT
* **
1593056 CTTTGAGGACTAGAAAATACCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGAC
128 CTTTGAGGACTAGAAAATACCACCAACTTGTGTGGACTTTGAAAGGCATCCTGCTCTTTGAGGAC
* * * * *
1593121 TAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTCCTCTTTGAGGACTAAAGGGTGA
193 TAAAAAATGCCACCAACATGTGTGAGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGTGA
*
1593186 AAGGAGAGAGC
258 AAGGAGAGAAC
*
1593197 GTCTTGCTCTTTGAGGACTGAAAAGTG
1 GTCCTGCTCTTTGAGGACTGAAAAGTG
1593224 AAAGGAGAAA
Statistics
Matches: 259, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
265 160 0.62
268 3 0.01
269 2 0.01
270 4 0.02
271 81 0.31
272 9 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (268 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGATTTGAAAAAAAAAGGCGTCC
TGCTCTTTAAGGACTGGAAGGTGCCACAAACTTGAGTGGGCTTTAAAGGAGAGCATCCTGCTCTT
TGAGGACTAGAAAATACCACCAACTTGTGTGGACTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
AAAATGCCACCAACATGTGTGAGCTTTAAAAGGCATCCTACTCTTTGAGGACTAAAGGGTGAAAG
GAGAGAAC
Found at i:1594566 original size:33 final size:33
Alignment explanation
Indices: 1594529--1594595 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1594519 TTCAACGATT
1594529 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1594562 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1594595 T
1 T
1594596 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1594567 original size:13 final size:13
Alignment explanation
Indices: 1594549--1594573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1594539 CATAAAATGT
1594549 TGTATCGATACAA
1 TGTATCGATACAA
1594562 TGTATCGATACA
1 TGTATCGATACA
1594574 TATTTTTTTG
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:1594656 original size:13 final size:13
Alignment explanation
Indices: 1594638--1594662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1594628 ATTACGCACA
1594638 TGTATCGATACAT
1 TGTATCGATACAT
1594651 TGTATCGATACA
1 TGTATCGATACA
1594663 CTGATCTTTG
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:1594711 original size:52 final size:52
Alignment explanation
Indices: 1594671--1594841 Score: 324
Period size: 52 Copynumber: 3.3 Consensus size: 52
1594661 CACTGATCTT
1594671 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1594723 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
1594775 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1594827 TGTATCGATACATGC
1 TGTATCGATACATGC
1594842 TAGCAACTTT
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:1600468 original size:52 final size:52
Alignment explanation
Indices: 1600388--1600544 Score: 228
Period size: 52 Copynumber: 3.0 Consensus size: 52
1600378 CCCGAAATAT
1600388 GAAAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
* * *
1600440 GCAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
* * *
1600492 GAAAATTTGCTTGTATGTATCGATACA--AAGATCAGTGTATCGATACATTTGG
1 GAAAATTTGCTTGCATGTATCGATACATTTA-AT-AGTGTATCGATACATCTGG
1600544 G
1 G
1600545 TAGTGTATCA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 92 0.98
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
Found at i:1600605 original size:19 final size:18
Alignment explanation
Indices: 1600581--1600678 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
1600571 TAGCTTACAT
1600581 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1600600 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
1600613 TGTATCGATACAACACTAA
1 TGTATCGATACAA-ACTTA
1600632 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1600645 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
1600665 TTTATCGATACAAA
1 TGTATCGATACAAA
1600679 TCATTAAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 22 0.35
14 1 0.02
16 4 0.06
19 24 0.38
20 12 0.19
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1600617 original size:32 final size:32
Alignment explanation
Indices: 1600576--1600676 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
1600566 GGCAGTAGCT
*
1600576 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1600608 TACATTGTATCGATACAACACTAATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1600640 TACATTGTATCGATACAACACTTTATTTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1600673 TACA
1 TACA
1600677 AATCATTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1600618 original size:13 final size:13
Alignment explanation
Indices: 1600600--1600656 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1600590 ACAAAACTTA
1600600 TGTATCGATACAT
1 TGTATCGATACAT
1600613 TGTATCGATACAACACT
1 TGTATCGAT---ACA-T
1600630 AATGTATCGATACAT
1 --TGTATCGATACAT
1600645 TGTATCGATACA
1 TGTATCGATACA
1600657 ACACTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
15 1 0.03
16 6 0.16
17 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1601694 original size:43 final size:43
Alignment explanation
Indices: 1601633--1602461 Score: 758
Period size: 43 Copynumber: 18.1 Consensus size: 43
1601623 TAAAGATGAC
* * * *
1601633 AAAGGCGCCAATATGCTGATTCCAGGCTAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1601676 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1601719 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * *
1601769 GGAGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1601812 AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1601861 AAAGGTGTCAATGTGCTGATTCAAGGCCAGTTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1601904 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * *
1601954 GGAGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1601997 AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 --A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
1602046 AAAGGTGTCAATGTACTGATTCAAGGCCAGTTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1602089 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * *
1602139 GGAGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1602182 AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGATTT
1 --A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1602231 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1602274 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1602323 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1602366 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1602415 AAAGGTGCCAATGTGCTGATTTAAGACCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1602458 AAAG
1 AAAG
1602462 ATGAAGGTGC
Statistics
Matches: 649, Mismatches: 86, Indels: 102
0.78 0.10 0.12
Matches are distributed among these distances:
43 330 0.51
44 8 0.01
46 6 0.01
47 6 0.01
48 5 0.01
49 188 0.29
50 106 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1601873 original size:92 final size:92
Alignment explanation
Indices: 1601587--1602483 Score: 1398
Period size: 92 Copynumber: 9.7 Consensus size: 92
1601577 TGACAAAGAC
* * * *
1601587 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
* *
1601652 TTCCAGGCTAGCGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* * *
1601682 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
** *
1601747 CAAGGCCAGCGATATTGGACTTGGAGTT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
*
1601775 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1601840 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * *
1601867 GTCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAAGATGAGGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
** *
1601932 CAAGGCCAGCGATATTGGACTTGGAGTT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
*
1601960 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
1602025 AAGGCCAGCAATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * * *
1602052 GTCAATGTACTGATTCAAGGCCAGTTACATTGGACTTAAAAGATGAGGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
** *
1602117 CAAGGCCAGCGATATTGGACTTGGAGTT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
*
1602145 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
1602210 AAGGCCAGCGATATTGGATTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
1602237 GTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
1602302 AAGGCCAGCTATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
1602329 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
1602394 AAGGCTAGCTATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
1602421 GCCAATGTGCTGATTTAAGACCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1602484 AGCCAGTGAT
Statistics
Matches: 744, Mismatches: 55, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
92 457 0.61
93 246 0.33
95 34 0.05
96 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:1601909 original size:185 final size:185
Alignment explanation
Indices: 1601523--1602483 Score: 1494
Period size: 185 Copynumber: 5.1 Consensus size: 185
1601513 TAGGAATGTT
* * **
1601523 AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACG
1 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G----AGTTG
* * * * *
1601588 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
57 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---ATGGTGCCAATATGCTGAT
* * * * *
1601653 TCCAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCT
119 TCAAGGCCAGCGATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1601718 TA
184 TA
*
1601720 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1601785 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
*
1601850 ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTA
131 ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
*
1601905 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
*
1601970 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCA
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
* *
1602035 ATATTGGACTTAAAGGTGTCAATGTACTGATTCAAGGCCAGTTACATTGGACTTA
131 ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
*
1602090 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
1602155 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
*
1602220 ATATTGGATTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-
131 ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * ** *
1602274 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
1 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
* * * *
1602339 TGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCT
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
1602404 ATATTGGACTTAAAGGTGCCAATGTGCTGATTTAAGACCAGCTACATTGGACTT-
131 ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1602458 AAAGATGAAGGTGCCAATATGCTGAT
1 AAAGATGAAGGTGCCAATATGCTGAT
1602484 AGCCAGTGAT
Statistics
Matches: 727, Mismatches: 37, Indels: 13
0.94 0.05 0.02
Matches are distributed among these distances:
184 195 0.27
185 441 0.61
188 43 0.06
192 1 0.00
194 1 0.00
197 46 0.06
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (185 bp):
AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGTTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCG
ATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
Found at i:1602609 original size:33 final size:33
Alignment explanation
Indices: 1602503--1602639 Score: 226
Period size: 32 Copynumber: 4.2 Consensus size: 33
1602493 TATTGGGCTT
*
1602503 AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1602536 AGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1602567 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
1602600 AGAATGGTTGCCACCAACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1602632 AGAAGGGT
1 AGAAGGGT
1602640 GAAAGATGCC
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
31 5 0.05
32 58 0.59
33 35 0.36
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1602878 original size:168 final size:164
Alignment explanation
Indices: 1602646--1603375 Score: 652
Period size: 168 Copynumber: 4.4 Consensus size: 164
1602636 GGGTGAAAGA
* *
1602646 TGCCAC-GAAGTTGTGGAC-TTAAAAGGAACAAGGTGCCCCGGAGTTGTGGGCTTTAAAAGGGAA
1 TGCCACAG-AGTTGTGGGCTTTAAAAGG-A-AAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
*
1602709 AAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAAGGAAAAAGAGTGCCACAGCA-TTGTGGGCTTT
63 AAAGAGTGCCACGGAGTTGTGGGCTTTGA-AAAGG---AAG-GTGCCACAG-AGTTGTGGACTTT
* *
1602773 GAAAAGAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGG
122 AAAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
* * *
1602816 TGCCACAGAGTTGTGGGCTTTGAAAA-G-AAGGTGCCATGGAGTCGTGGACTTTAAAAGGGAAAA
1 TGCCACAGAGTTGTGGGCTTT-AAAAGGAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
1602879 AGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGGTGCCACAGAGTTGTGGACTTTAAAAAGAA
65 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGGTGCCACAGAGTTGTGGACTTTAAAAAGAA
*
1602943 GGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
130 GGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
*
1602978 TGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGGG
1 TGCCACAGAGTTGTGGGCTTTAAAA-GG--AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGGG
* * *
1603043 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGGTGCCACGGAGTCGTGGACTTAAAAG
61 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGGTGCCACAGAGTTGTGGACTTTAAA-
* ** * ** *
1603107 GAACAAGGTGCCACAGAGTTTTGGGCTTTGAA--AAGAAGG
125 -AAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
* * * *
1603146 TGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAA--G
1 TGCCACAGAGTTGTGGGCTTTAAAA-GG--AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGGG
* * * * *
1603209 ---AAG-GTGCCACAGAGTCGTGGAC-TT-AAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTA
61 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGG---AAGGTGCCACAGAGTTGTGGACTTTA
* * * ** *
1603268 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAGG
123 AAAA--G---AAG-GTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
* * * * * *
1603314 TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAAGAAGG
1 TGCCACAGAGTTGTGGGCTTT-AAAAG-GAAAGGTGCCACGGAGTTGTGGGCTTTAA-AAGG
1603376 TATTTGAAGA
Statistics
Matches: 489, Mismatches: 43, Indels: 58
0.83 0.07 0.10
Matches are distributed among these distances:
160 4 0.01
161 8 0.02
162 98 0.20
163 7 0.01
164 25 0.05
165 2 0.00
166 26 0.05
167 28 0.06
168 240 0.49
169 4 0.01
170 39 0.08
171 4 0.01
172 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (164 bp):
TGCCACAGAGTTGTGGGCTTTAAAAGGAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
GAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGGTGCCACAGAGTTGTGGACTTTAAAAAGAAG
GTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
Found at i:1602920 original size:131 final size:131
Alignment explanation
Indices: 1602646--1603367 Score: 750
Period size: 131 Copynumber: 5.4 Consensus size: 131
1602636 GGGTGAAAGA
* * * * * *
1602646 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCCCGGAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAA--AAGAAGGTGCCACGGAGTCGTGGAC-TTAAAA--GAACA
*
1602711 AGAGTGCCACGGAGTTGTGGGCTTTGAGAAA-GGAAAAAGAGTGCCACAGCA-TTGTGGGCTTTG
61 AG-GTGCCACGGAGTTGTGGGCTTTGA-AAAGGGAAAAAGAGTGCCAC-GGAGTTGTGGGCTTTG
1602774 AAAAGAAGG
123 AAAAGAAGG
* * * * * ** *
1602783 TGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTGAA-AAGAAGG
1 TGCCACGGAGTTGTGGACTTAAAA--AAGAAGGTGCCACGGAGTCGTGGACTTAAAAGAACAAGG
* * *
1602847 TGCCATGGAGTCGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
64 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1602911 AGG
129 AGG
* *
1602914 TGCCACAGAGTTGTGGACTTTAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA-GAACAAGGT
* * *
1602979 GCCACAGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGGG
65 GCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1603043 AAAAAGAG
128 ---AAG-G
* **
1603051 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA-GAACAAGGT
* * * *
1603116 GCCACAGAGTTTTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCGTGGACTTT-AAAAGGG
65 GCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1603174 AAAAAGAG
128 ---AAG-G
** *
1603182 TGCCACGGAGTTGT-GAGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGA-CTTAAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA-GAACAAGG
* * *
1603246 TGCCACGGGGTTGTGGACTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
64 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1603311 AGG
129 AGG
* *
1603314 TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGAC-TT-AAAA-AAGAAGGTGCCACGGAGTCGTGGACTT
1603368 TAAGAAGGTA
Statistics
Matches: 516, Mismatches: 46, Indels: 48
0.85 0.08 0.08
Matches are distributed among these distances:
129 25 0.05
130 6 0.01
131 219 0.42
132 53 0.10
133 17 0.03
134 2 0.00
135 25 0.05
136 12 0.02
137 149 0.29
138 8 0.02
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (131 bp):
TGCCACGGAGTTGTGGACTTAAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGAACAAGGTG
CCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
G
Found at i:1603184 original size:299 final size:299
Alignment explanation
Indices: 1602646--1603368 Score: 1097
Period size: 299 Copynumber: 2.4 Consensus size: 299
1602636 GGGTGAAAGA
* *
1602646 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCCCGGAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
* *
1602711 AGAGTGCCACGGAGTTGTGGGCTTTGAGAAAGGAAAAAGAGTGCCACAGCA-TTGTGGGCTTTGA
66 AGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGGAAAAAGAGTGCCAC-GGAGTTGTGGGCTTTGA
*
1602775 AAAGAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTGAA
129 AAAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTGAA
* *
1602840 AAGAAGGTGCCATGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
194 AAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTG
* * *
1602905 AAAAGAAGGTGCCACAGAGTTGTGGACTTTAAA-AAGAAGG
259 AAAAGAAGGTGCCACAGAGTCGTGGACTTAAAAGAACAAGG
* *
1602945 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
*
1603010 AGAGTGCCACGAAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
66 AGAGTGCCACGGAGTTGTGGGCTTTAAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* *
1603075 AAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTTTGGGCTTTGAAA
130 AAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTGAAA
1603140 AGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGA
195 AGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGA
1603205 AAAGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGG
260 AAAGAAGGTGCCACAGAGTCGTGGACTTAAAA-GAACAAGG
* *
1603246 TGCCACGGGGTTGTGGACTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--
1 TGCCACGGAGTTGTGGAC-TT-AAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGG
* * * * *
1603309 G---AAG-GTGCCACGGAGTCGTGGACTTTGAAAA-GAAAAAG-GTGCCACGGAGTCGTGGACTT
61 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1603368 T
126 T
1603369 AAGAAGGTAT
Statistics
Matches: 390, Mismatches: 25, Indels: 20
0.90 0.06 0.05
Matches are distributed among these distances:
297 20 0.05
298 13 0.03
299 270 0.69
300 23 0.06
301 25 0.06
302 2 0.01
303 4 0.01
304 8 0.02
305 21 0.05
306 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (299 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
AGAAGGTGCCACAGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTGAAAA
GAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAA
AAGAAGGTGCCACAGAGTCGTGGACTTAAAAGAACAAGG
Found at i:1603496 original size:8 final size:8
Alignment explanation
Indices: 1603473--1603518 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
1603463 GATGCAAATA
*
1603473 ATGATGTT
1 ATGATGTC
*
1603481 ATTGATGTT
1 A-TGATGTC
1603490 ATGATGTC
1 ATGATGTC
1603498 ATGATGTC
1 ATGATGTC
*
1603506 ATGATGGC
1 ATGATGTC
1603514 ATGAT
1 ATGAT
1603519 TACATCACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 27 0.77
9 8 0.23
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (8 bp):
ATGATGTC
Found at i:1604686 original size:12 final size:13
Alignment explanation
Indices: 1604666--1604694 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1604656 TGATTTTGCC
1604666 TTTGCACTTTTTT
1 TTTGCACTTTTTT
1604679 TTTG-ACTTTTTT
1 TTTGCACTTTTTT
1604691 TTTG
1 TTTG
1604695 TGTTTACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.72
Consensus pattern (13 bp):
TTTGCACTTTTTT
Found at i:1611641 original size:52 final size:52
Alignment explanation
Indices: 1611556--1611704 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 52
1611546 CGAAATATGA
* * *
1611556 AAATTTACCTGCATGTATCGATACGTTTAATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* * *
1611608 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*** *
1611660 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
1611705 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1611711 original size:13 final size:13
Alignment explanation
Indices: 1611693--1611717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1611683 CAAAGATTAG
1611693 TGTATCGATACAA
1 TGTATCGATACAA
1611706 TGTATCGATACA
1 TGTATCGATACA
1611718 TTTGGGTAGT
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:1611786 original size:19 final size:18
Alignment explanation
Indices: 1611762--1611819 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
1611752 GCTTACATTA
1611762 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
*
1611781 TATCGAGAC--A--T-TG
1 TATCGATACAAACTTATG
1611794 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
1611813 TATCGAT
1 TATCGAT
1611820 GCATTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
16 2 0.06
18 1 0.03
19 17 0.55
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:1611798 original size:32 final size:33
Alignment explanation
Indices: 1611756--1611852 Score: 135
Period size: 32 Copynumber: 3.0 Consensus size: 33
1611746 GCAGTAGCTT
*
1611756 ACATTATATCGATACAAAACTTATGTATCGA-G
1 ACATTATATCGATACAACACTTATGTATCGATG
*
1611788 ACATTGTATCGATACAACACTTATGTATCGATG
1 ACATTATATCGATACAACACTTATGTATCGATG
* *
1611821 -CATTATATTGATACAACACTTTATGCATCGAT
1 ACATTATATCGATACAACAC-TTATGTATCGAT
1611853 ACAAATCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
32 46 0.79
33 12 0.21
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (33 bp):
ACATTATATCGATACAACACTTATGTATCGATG
Found at i:1611864 original size:33 final size:32
Alignment explanation
Indices: 1611755--1611864 Score: 96
Period size: 32 Copynumber: 3.4 Consensus size: 32
1611745 AGCAGTAGCT
* * * *
1611755 TACATTATATCGATACAAAACTTATGTATCGA
1 TACATAATATTGATACAACACTTATGCATCGA
* ** * *
1611787 GACATTGTATCGATACAACACTTATGTATCGA
1 TACATAATATTGATACAACACTTATGCATCGA
* *
1611819 TGCATTATATTGATACAACACTTTATGCATCGA
1 TACATAATATTGATACAACAC-TTATGCATCGA
1611852 TACA-AATCATTGA
1 TACATAAT-ATTGA
1611865 AATTCAAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
32 48 0.73
33 18 0.27
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATAATATTGATACAACACTTATGCATCGA
Found at i:1612706 original size:27 final size:26
Alignment explanation
Indices: 1612676--1612734 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
1612666 TTTTTCTCTC
*
1612676 TTTTTTCTTTGTTTGTTTTTTTTGTTG
1 TTTTTTCTTTGTTTGTTTTTTTT-TGG
* *
1612703 TTTTTTGTTTTTTTGTTTTTTTTTGG
1 TTTTTTCTTTGTTTGTTTTTTTTTGG
1612729 TTTTTT
1 TTTTTT
1612735 TTAGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.85
Consensus pattern (26 bp):
TTTTTTCTTTGTTTGTTTTTTTTTGG
Found at i:1612708 original size:10 final size:9
Alignment explanation
Indices: 1612687--1612736 Score: 66
Period size: 10 Copynumber: 5.3 Consensus size: 9
1612677 TTTTTCTTTG
1612687 TTTGTTTTT
1 TTTGTTTTT
1612696 TTTGTTGTTT
1 TTTGTT-TTT
1612706 TTTG-TTTT
1 TTTGTTTTT
1612714 TTTGTTTTTT
1 TTTG-TTTTT
1612724 TTTGGTTTTT
1 TTT-GTTTTT
1612734 TTT
1 TTT
1612737 AGAAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.19
9 7 0.19
10 22 0.59
11 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTGTTTTT
Found at i:1612709 original size:19 final size:19
Alignment explanation
Indices: 1612687--1612736 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
1612677 TTTTTCTTTG
1612687 TTTGTTTTTTTTGTTGTTT
1 TTTGTTTTTTTTGTTGTTT
*
1612706 TTTG-TTTTTTTGTTTTTT
1 TTTGTTTTTTTTGTTGTTT
1612724 TTTGGTTTTTTTT
1 TTT-GTTTTTTTT
1612737 AGAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 16 0.57
19 5 0.18
20 7 0.25
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (19 bp):
TTTGTTTTTTTTGTTGTTT
Found at i:1612714 original size:8 final size:8
Alignment explanation
Indices: 1612676--1612724 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
1612666 TTTTTCTCTC
*
1612676 TTTTTTCT
1 TTTTTTGT
*
1612684 TTGTTTGTT
1 TTTTTTG-T
1612693 TTTTTTGTT
1 TTTTTTG-T
1612702 GTTTTTTGT
1 -TTTTTTGT
1612711 TTTTTTGT
1 TTTTTTGT
1612719 TTTTTT
1 TTTTTT
1612725 TTGGTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 19 0.53
9 10 0.28
10 7 0.19
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:1612735 original size:27 final size:27
Alignment explanation
Indices: 1612676--1612736 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
1612666 TTTTTCTCTC
*
1612676 TTTTTTCTTTGTTTGTTTTTTTTGTTG
1 TTTTTTCTTTGTTTGTTTTTTTTGGTG
* * *
1612703 TTTTTTGTTTTTTTGTTTTTTTTTGGTT
1 TTTTTTCTTTGTTTG-TTTTTTTTGGTG
1612731 TTTTTT
1 TTTTTT
1612737 AGAAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (27 bp):
TTTTTTCTTTGTTTGTTTTTTTTGGTG
Found at i:1625255 original size:13 final size:13
Alignment explanation
Indices: 1625237--1625293 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1625227 TTCAACGATT
1625237 TGTATCGATACAA
1 TGTATCGATACAA
1625250 TGTATCGATACATAA
1 TGTATCGATAC--AA
1625265 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1625282 TGTATCGATACA
1 TGTATCGATACA
1625294 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1625274 original size:19 final size:18
Alignment explanation
Indices: 1625250--1625312 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1625240 ATCGATACAA
1625250 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1625269 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1625282 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1625301 TGTATCGATACA
1 TGTATCGATACA
1625313 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1625277 original size:32 final size:32
Alignment explanation
Indices: 1625236--1625320 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
1625226 ATTCAACGAT
1625236 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1625268 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1625300 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1625321 CTACGAAGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1625388 original size:21 final size:20
Alignment explanation
Indices: 1625343--1625406 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
1625333 TGCCAAGAAA
*
1625343 ATGTATCGATACTT-TACTCAA
1 ATGTATCGATACTTGTA-TC-G
1625364 ATGTATCGATACATTGTATCG
1 ATGTATCGATAC-TTGTATCG
1625385 ATGTA-CTGAT-CTTTGTATCG
1 ATGTATC-GATAC-TTGTATCG
1625405 AT
1 AT
1625407 ACATGTAGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 12 0.32
21 20 0.53
22 4 0.11
23 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACTTGTATCG
Found at i:1625459 original size:52 final size:52
Alignment explanation
Indices: 1625398--1625526 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1625388 TACTGATCTT
* *
1625398 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTGTCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
1625450 TGTTTCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1625502 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1625527 TCATATTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1627428 original size:78 final size:78
Alignment explanation
Indices: 1627323--1627528 Score: 252
Period size: 78 Copynumber: 2.6 Consensus size: 78
1627313 GAGATAATAA
* * * * * * *
1627323 CGGGGTTGGAGTGTTCCCTTGAAAATAATGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
1627388 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAT
* *
1627401 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
1627466 TTTGGGAATAAAGT
65 TTTAGAAAAAAAAT
* *
1627480 CGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1627529 GATTAACGGG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.01
78 54 0.50
79 54 0.50
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAT
Found at i:1627543 original size:27 final size:27
Alignment explanation
Indices: 1627480--1627555 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
1627470 GGAATAAAGT
* *
1627480 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCC-GATAAATAA
* * *
1627508 CAGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
1627535 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1627556 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:1627646 original size:51 final size:53
Alignment explanation
Indices: 1627539--1627661 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 53
1627529 GATTAACGGG
* * *
1627539 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCAGA
*
1627593 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCAGA
*
1627644 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1627662 GTGGAGAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.54
52 2 0.03
53 8 0.13
54 19 0.30
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCAGA
Found at i:1632847 original size:79 final size:77
Alignment explanation
Indices: 1632711--1633043 Score: 303
Period size: 79 Copynumber: 4.2 Consensus size: 77
1632701 GATGACAACG
* * * *
1632711 GGGTTGGAGTTTCCCTTGATTATGGAAAATCGGTATTCTGAAAATAAAATCGAGGTTGGAGTATC
1 GGGTTGGAGTATCCC-TGATTAT-GAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATC
*
1632776 CCCTCGGAAATAAC
64 CCCTCGAAAATAAC
* *
1632790 AGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATC
1 -GGGTTGGAGTATCCCTGATTAT-GAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATC
*
1632855 CCCTCAAAAATAAC
64 CCCTCGAAAATAAC
* * * * * ** *
1632869 GGGGTTGGAGAATCCCCCGATTGTGAAAAATCGATGCTTT-AGAAATAAGGTCGGGGTTTGAGTA
1 -GGGTTGGAGTAT-CCCTGATTATG-AAAATCGGTGTTTTGA-AAATAAAATCGGGGTTGGAGTA
*
1632933 T-CCCTGTGAAAATAAC
62 TCCCCT-CGAAAATAAC
* * * **
1632949 GGGCTTGGAGTAT-CCTCGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTCAGAGTAT
1 GGG-TTGGAGTATCCCT-GATTATGA-AAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTAT
* *
1633013 TCCCTTGAAAATAAC
63 CCCCTCGAAAATAAC
*
1633028 GGGATTGTAGTATCCC
1 GGG-TTGGAGTATCCC
1633044 CGATGACATA
Statistics
Matches: 209, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.01
79 131 0.63
80 75 0.36
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (77 bp):
GGGTTGGAGTATCCCTGATTATGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCC
CTCGAAAATAAC
Found at i:1633282 original size:51 final size:51
Alignment explanation
Indices: 1633144--1633282 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 51
1633134 ACGGGGTTAA
* * * *
1633144 AGTATCCCCAATTG-TGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGG
1 AGTATCCCCGATTGAAG-AAAATTGATGTTTTGGAAATAAAATCGGAGCTGG
** * * * * *
1633195 AGTATCCCCGATTGCTGTAAATCGATGCTTTAGAAATAAAATTGGAGCTGG
1 AGTATCCCCGATTGAAGAAAATTGATGTTTTGGAAATAAAATCGGAGCTGG
*
1633246 AGTATCCCTGATT-AAGAAAATTTGATGTTTTGGAAAT
1 AGTATCCCCGATTGAAGAAAA-TTGATGTTTTGGAAAT
1633283 GGAACCAGGA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
50 4 0.06
51 65 0.92
52 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
AGTATCCCCGATTGAAGAAAATTGATGTTTTGGAAATAAAATCGGAGCTGG
Found at i:1635651 original size:20 final size:20
Alignment explanation
Indices: 1635626--1635679 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1635616 GTAAACCCAG
* *
1635626 AATGTATCGATATAATGAAT
1 AATGTATCGATACAATGAAC
*
1635646 AATGTATCGATACAGTGAAC
1 AATGTATCGATACAATGAAC
*
1635666 AATGTATCAATACA
1 AATGTATCGATACA
1635680 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1635688 original size:69 final size:70
Alignment explanation
Indices: 1635577--1635729 Score: 229
Period size: 70 Copynumber: 2.2 Consensus size: 70
1635567 AAAATGCCTG
* ** * *
1635577 AATGTATCGATACATTGCAAAATGTATTGATACATCTGGGT-AAACCCAGAATGTATCGATATAA
1 AATGTATCGATACAGTGCAAAATGTATCAATACATCTGGGTAAAACACAGAATGTATCAATATAA
*
1635641 TGAAT
66 TGAAC
1635646 AATGTATCGATACAGTG-AACAATGTATCAATACATCTGGGTAAAACACAGAATGTATCAATATA
1 AATGTATCGATACAGTGCAA-AATGTATCAATACATCTGGGTAAAACACAGAATGTATCAATATA
1635710 ATGAAC
65 ATGAAC
1635716 AATGTATCGATACA
1 AATGTATCGATACA
1635730 AATTGTGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
68 2 0.03
69 35 0.46
70 39 0.51
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (70 bp):
AATGTATCGATACAGTGCAAAATGTATCAATACATCTGGGTAAAACACAGAATGTATCAATATAA
TGAAC
Found at i:1636953 original size:28 final size:28
Alignment explanation
Indices: 1636906--1637259 Score: 180
Period size: 28 Copynumber: 12.9 Consensus size: 28
1636896 AAAAAGAAGC
* *
1636906 CTAATT-AAAATTCCACATGTAAAAAGT
1 CTAATTGAAAATTCTATATGTAAAAAGT
* *
1636933 ATAATTGAAAATTGTATATGTTACAAAA--
1 CTAATTGAAAATTCTATATG-TA-AAAAGT
* *
1636961 CT--TTTAAAATCCTATATG-AAAAAGT
1 CTAATTGAAAATTCTATATGTAAAAAGT
1636986 CTAATTGAAAATTCCT-TATGT-AAAAGT
1 CTAATTGAAAATT-CTATATGTAAAAAGT
* *
1637013 TTAATTAAAAATTTCTATATGTAAAAAGT
1 CTAATTGAAAA-TTCTATATGTAAAAAGT
* *
1637042 CTAATTGAAAATTCCATATGTAAAGA-T
1 CTAATTGAAAATTCTATATGTAAAAAGT
* * * * ** *
1637069 TTTATT-AAATTTCAATGGGTAAAAAAT
1 CTAATTGAAAATTCTATATGTAAAAAGT
* * *
1637096 CTAATT-ATAAATTCAATGTATAAAAAGT
1 CTAATTGA-AAATTCTATATGTAAAAAGT
* *
1637124 TTAATTAAAAAAATTCTATATGTAAAAA-T
1 CTAATT--GAAAATTCTATATGTAAAAAGT
* * *
1637153 TTAATTAAAAACTTC-ATGTGT--AAAGT
1 CTAATTGAAAA-TTCTATATGTAAAAAGT
* * * * *
1637179 TTAATTAAAAATTCTATTTGTAGAAATT
1 CTAATTGAAAATTCTATATGTAAAAAGT
* * * * *
1637207 TTAATTGAAAATTATGTTTATAAAAAGT
1 CTAATTGAAAATTCTATATGTAAAAAGT
* * * *
1637235 ATAATTAAAAATTTTATTTGTAAAA
1 CTAATTGAAAATTCTATATGTAAAA
1637260 GTTCAATTAG
Statistics
Matches: 258, Mismatches: 47, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.02
24 1 0.00
25 8 0.03
26 44 0.17
27 54 0.21
28 103 0.40
29 24 0.09
30 19 0.07
31 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.38
Consensus pattern (28 bp):
CTAATTGAAAATTCTATATGTAAAAAGT
Found at i:1637005 original size:27 final size:28
Alignment explanation
Indices: 1636966--1637061 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
1636956 CAAAACTTTT
1636966 AAAA-TCCTATATGAAAAAGTCTAATTG
1 AAAATTCCTATATGAAAAAGTCTAATTG
* * *
1636993 AAAATTCCT-TATGTAAAAGTTTAATTA
1 AAAATTCCTATATGAAAAAGTCTAATTG
*
1637020 AAAATTTCTATATGTAAAAAGTCTAATTG
1 AAAATTCCTATATG-AAAAAGTCTAATTG
1637049 AAAATTCC-ATATG
1 AAAATTCCTATATG
1637062 TAAAGATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 27 0.47
28 13 0.22
29 18 0.31
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (28 bp):
AAAATTCCTATATGAAAAAGTCTAATTG
Found at i:1637051 original size:56 final size:56
Alignment explanation
Indices: 1636972--1637259 Score: 222
Period size: 56 Copynumber: 5.2 Consensus size: 56
1636962 TTTTAAAATC
1636972 CTATATG-AAAAAGTCTAATTGAAAATTCCTTATGTAAAAGTTTAATTAAAAATTT
1 CTATATGTAAAAAGTCTAATTGAAAATTCCTTATGTAAAAGTTTAATTAAAAATTT
* *
1637027 CTATATGTAAAAAGTCTAATTGAAAATTCCATATGT-AAAGATTTTATT--AAATTT
1 CTATATGTAAAAAGTCTAATTGAAAATTCCTTATGTAAAAG-TTTAATTAAAAATTT
* ** * * * *
1637081 CAATGGGTAAAAAATCTAATT-ATAAATTCAATGTAT-AAAAAGTTTAATTAAAAAAATT
1 CTATATGTAAAAAGTCTAATTGA-AAATTC-CT-TATGTAAAAGTTTAATT-AAAAATTT
* * * *
1637139 CTATATGTAAAAA-TTTAATTAAAAACTT-CATGTGT-AAAGTTTAATTAAAAA-TT
1 CTATATGTAAAAAGTCTAATTGAAAA-TTCCTTATGTAAAAGTTTAATTAAAAATTT
* * * * ** * *
1637192 CTATTTGTAGAAATTTTAATTGAAAATTATGTTTAT-AAAAAGTATAATTAAAAATTT
1 CTATATGTAAAAAGTCTAATTGAAAA-T-TCCTTATGTAAAAGTTTAATTAAAAATTT
*
1637249 -TATTTGTAAAA
1 CTATATGTAAAA
1637260 GTTCAATTAG
Statistics
Matches: 187, Mismatches: 29, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
53 14 0.07
54 46 0.25
55 31 0.17
56 67 0.36
57 11 0.06
58 18 0.10
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (56 bp):
CTATATGTAAAAAGTCTAATTGAAAATTCCTTATGTAAAAGTTTAATTAAAAATTT
Found at i:1637212 original size:111 final size:111
Alignment explanation
Indices: 1636979--1637245 Score: 269
Period size: 111 Copynumber: 2.4 Consensus size: 111
1636969 ATCCTATATG
* ** * *
1636979 AAAAAGTCTAATTGAAAATT-CCTTATGTAAAAGTTTAATT-AAAAATTTCTATATGTAAAAAGT
1 AAAAAATCTAATTGAAAATTATGTTAT-AAAAAGTTTAATTAAAAAAATTCTATATGTAAAAAGT
* * *
1637042 CTAATTGAAAATTCCATATGTAAAGATTTTATTAAATTTCAATGGGT
65 CTAATTAAAAATTCCATATGTAAAGATTTAATTAAAATTCAATGGGT
1637089 AAAAAATCTAATT-ATAAATTCAATG-TATAAAAAGTTTAATTAAAAAAATTCTATATGTAAAAA
1 AAAAAATCTAATTGA-AAATT--ATGTTATAAAAAGTTTAATTAAAAAAATTCTATATGTAAAAA
* * * **
1637152 -TTTAATTAAAAACTT-CATGTGTAAAG-TTTAATTAAAAATTCTATTTGT
63 GTCTAATTAAAAA-TTCCATATGTAAAGATTTAATT-AAAATTCAATGGGT
* * * *
1637200 AGAAATTTTAATTGAAAATTATGTTTATAAAAAGTATAATTAAAAA
1 AAAAAATCTAATTGAAAATTATG-TTATAAAAAGTTTAATTAAAAA
1637246 TTTTATTTGT
Statistics
Matches: 130, Mismatches: 17, Indels: 19
0.78 0.10 0.11
Matches are distributed among these distances:
109 4 0.03
110 23 0.18
111 77 0.59
112 26 0.20
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (111 bp):
AAAAAATCTAATTGAAAATTATGTTATAAAAAGTTTAATTAAAAAAATTCTATATGTAAAAAGTC
TAATTAAAAATTCCATATGTAAAGATTTAATTAAAATTCAATGGGT
Found at i:1637259 original size:27 final size:27
Alignment explanation
Indices: 1636966--1637282 Score: 194
Period size: 28 Copynumber: 11.5 Consensus size: 27
1636956 CAAAACTTTT
* * * * *
1636966 AAAATCCTATATGAAAAAGTCTAATTG
1 AAAATTCTATTTGTAAAAGTTTAATTA
*
1636993 AAAATTCCT-TATGTAAAAGTTTAATTA
1 AAAATT-CTATTTGTAAAAGTTTAATTA
* * *
1637020 AAAATTTCTATATGTAAAAAGTCTAATTG
1 AAAA-TTCTATTTGT-AAAAGTTTAATTA
* * *
1637049 AAAATTCCATATGT-AAAGATTTTATT-
1 AAAATTCTATTTGTAAAAG-TTTAATTA
* * ** * *
1637075 AAATTTCAATGGGTAAAAAATCTAATTA
1 AAAATTCTATTTGT-AAAAGTTTAATTA
* * * *
1637103 TAAATTCAATGTATAAAAAGTTTAATTAAA
1 AAAATTCTATTTGT-AAAAGTTTAATT--A
* *
1637133 AAAATTCTATATGTAAAAATTTAATTA
1 AAAATTCTATTTGTAAAAGTTTAATTA
*
1637160 AAAACTTC-ATGTGT-AAAGTTTAATTA
1 AAAA-TTCTATTTGTAAAAGTTTAATTA
* *
1637186 AAAATTCTATTTGTAGAAATTTTAATTG
1 AAAATTCTATTTGTA-AAAGTTTAATTA
* * * *
1637214 AAAATTATGTTTATAAAAAGTATAATTA
1 AAAATTCTATTTGT-AAAAGTTTAATTA
* *
1637242 AAAATTTTATTTGTAAAAGTTCAATTA
1 AAAATTCTATTTGTAAAAGTTTAATTA
*
1637269 GAAATTCTATTTGT
1 AAAATTCTATTTGT
1637283 TCACAAAAAT
Statistics
Matches: 230, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.01
26 34 0.15
27 69 0.30
28 86 0.37
29 27 0.12
30 11 0.05
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (27 bp):
AAAATTCTATTTGTAAAAGTTTAATTA
Found at i:1638997 original size:13 final size:13
Alignment explanation
Indices: 1638979--1639004 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1638969 ACATTTGGTC
1638979 ATGTATCGATACA
1 ATGTATCGATACA
1638992 ATGTATCGATACA
1 ATGTATCGATACA
1639005 TCTTGTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1639000 original size:33 final size:32
Alignment explanation
Indices: 1638958--1639024 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1638948 GTTACAAGCA
*
1638958 AATGTATCGATACAT-TTGGTCATGTATCGATAC
1 AATGTATCGATACATCTT-GT-AGGTATCGATAC
1638991 AATGTATCGATACATCTTGTAGGTATCGATAC
1 AATGTATCGATACATCTTGTAGGTATCGATAC
1639023 AA
1 AA
1639025 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.41
33 17 0.53
34 2 0.06
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATCTTGTAGGTATCGATAC
Found at i:1639111 original size:13 final size:13
Alignment explanation
Indices: 1639093--1639117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1639083 TACAGTGGTC
1639093 ATGTATCGATACA
1 ATGTATCGATACA
1639106 ATGTATCGATAC
1 ATGTATCGATAC
1639118 TATGCATTAT
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):
ATGTATCGATACA
Found at i:1639739 original size:24 final size:24
Alignment explanation
Indices: 1639710--1639758 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1639700 TCTCCCCCTT
1639710 AATAAAACAATTTCCTTTAATCAC
1 AATAAAACAATTTCCTTTAATCAC
1639734 AATAAAACAATTTCCTTTAATCAC
1 AATAAAACAATTTCCTTTAATCAC
1639758 A
1 A
1639759 TGTTCCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (24 bp):
AATAAAACAATTTCCTTTAATCAC
Found at i:1647820 original size:19 final size:20
Alignment explanation
Indices: 1647776--1647827 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1647766 TTACAAGCCA
1647776 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
1647796 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
1647815 ATGTATCGATACA
1 ATGTATCGATACA
1647828 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:1647915 original size:13 final size:13
Alignment explanation
Indices: 1647897--1647922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1647887 TATAGTGGTC
1647897 ATGTATCGATACA
1 ATGTATCGATACA
1647910 ATGTATCGATACA
1 ATGTATCGATACA
1647923 TCTGAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1651400 original size:17 final size:17
Alignment explanation
Indices: 1651374--1651426 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
1651364 TTATCTTATT
*
1651374 TTATAATTATTAGATAA
1 TTATATTTATTAGATAA
1651391 TTATATTTATTAGATGAA
1 TTATATTTATTAGAT-AA
1651409 -TATTATTTATTTAGATAA
1 TTA-TATTTA-TTAGATAA
1651427 ATATGGAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 16 0.50
18 10 0.31
19 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
TTATATTTATTAGATAA
Found at i:1651424 original size:19 final size:18
Alignment explanation
Indices: 1651380--1651430 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
1651370 TATTTTATAA
*
1651380 TTATTAGATAATTA-TAT
1 TTATTAGATAAATATTAT
*
1651397 TTATTAGATGAATATTAT
1 TTATTAGATAAATATTAT
1651415 TTATTTAGATAAATAT
1 TTA-TTAGATAAATAT
1651431 GGAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 12 0.41
18 6 0.21
19 11 0.38
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (18 bp):
TTATTAGATAAATATTAT
Found at i:1653224 original size:21 final size:22
Alignment explanation
Indices: 1653177--1653218 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1653167 ATGGGAGTGA
1653177 AATTCCTAAAAATTAGGAATCC
1 AATTCCTAAAAATTAGGAATCC
*
1653199 AATTCCTAAAATTTAGGAAT
1 AATTCCTAAAAATTAGGAAT
1653219 GAATTCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
AATTCCTAAAAATTAGGAATCC
Found at i:1653870 original size:2 final size:2
Alignment explanation
Indices: 1653863--1653898 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
1653853 TTTGCTTATT
1653863 TA TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
1653899 GCATGATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1659211 original size:84 final size:84
Alignment explanation
Indices: 1659033--1659227 Score: 187
Period size: 84 Copynumber: 2.3 Consensus size: 84
1659023 CATAATAATG
** *
1659033 CAATATGGATAAGGTTATCTTATTAAGGCAATAAATAAAGTAGACATATGTTAAGACAATATGGA
1 CAATATGGATAAGGTTATCTTAACAAGGCAATAAATAAAGTAGACATATGTTAAAACAATATGGA
1659098 TAAACTCGACTTACCAAGA
66 TAAACTCGACTTACCAAGA
* * * *** * *
1659117 TAATGA-GGATAAGGTTGTCTTAACAAGGTAATGTTTAAAGTA-AGCATGTGTTAAAATAATATG
1 CAAT-ATGGATAAGGTTATCTTAACAAGGCAATAAATAAAGTAGA-CATATGTTAAAACAATATG
* * * **
1659180 GATAAGCTTGTCTTATTAAGA
64 GATAAACTCGACTTACCAAGA
** *
1659201 CAATATGGATAAAATTTTCTTAACAAG
1 CAATATGGATAAGGTTATCTTAACAAG
1659228 ACAACGTCAA
Statistics
Matches: 88, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
83 2 0.02
84 85 0.97
85 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (84 bp):
CAATATGGATAAGGTTATCTTAACAAGGCAATAAATAAAGTAGACATATGTTAAAACAATATGGA
TAAACTCGACTTACCAAGA
Found at i:1659221 original size:28 final size:28
Alignment explanation
Indices: 1659174--1659231 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
1659164 GTGTTAAAAT
** **
1659174 AATATGGATAAGCTTGTCTTATTAAGAC
1 AATATGGATAAAATTGTCTTAACAAGAC
*
1659202 AATATGGATAAAATTTTCTTAACAAGAC
1 AATATGGATAAAATTGTCTTAACAAGAC
1659230 AA
1 AA
1659232 CGTCAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (28 bp):
AATATGGATAAAATTGTCTTAACAAGAC
Found at i:1663500 original size:21 final size:20
Alignment explanation
Indices: 1663474--1663530 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
1663464 AAGCACTATT
1663474 GTATCGATACATTAGGCCAAG
1 GTATCGATACATTAGG-CAAG
*
1663495 GTATCGATACATTATGGCAAT
1 GTATCGATACATTA-GGCAAG
*
1663516 GTATCGATACCTTAG
1 GTATCGATACATTAG
1663531 TGCTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.91
22 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATCGATACATTAGGCAAG
Found at i:1664403 original size:16 final size:16
Alignment explanation
Indices: 1664382--1664415 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1664372 TGTGATGCAT
1664382 GCAGCTAATCTTATGA
1 GCAGCTAATCTTATGA
1664398 GCAGCTAATCTTATGA
1 GCAGCTAATCTTATGA
1664414 GC
1 GC
1664416 TGAAGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (16 bp):
GCAGCTAATCTTATGA
Found at i:1671826 original size:33 final size:32
Alignment explanation
Indices: 1671784--1671847 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1671774 TACAAGCCAA
* * *
1671784 TGTATCGATACATTTTGGGATGTATTGATACAT
1 TGTATCGATACATCTTGCG-TGTATCGATACAT
1671817 TGTATCGATACATCTTGCGTGTATCGATACA
1 TGTATCGATACATCTTGCGTGTATCGATACA
1671848 AATAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGCGTGTATCGATACAT
Found at i:1674480 original size:19 final size:20
Alignment explanation
Indices: 1674431--1674482 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1674421 TTACAAGCCA
* *
1674431 ATGTATTGATACATTTTGGG
1 ATGTATCGATACATATTGGG
* *
1674451 ATGTGTCGATACATATTGTG
1 ATGTATCGATACATATTGGG
1674471 -TGTATCGATACA
1 ATGTATCGATACA
1674483 AATTTGGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:1676582 original size:21 final size:21
Alignment explanation
Indices: 1676551--1676602 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
1676541 GCTACTAGTG
*
1676551 TGGGGGTTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
*
1676573 TGGGGGTG-CCGGTCGTGACC
1 TGGGGGTGCCCGGTCGCGACC
1676593 TGGTGGGTGC
1 TGG-GGGTGC
1676603 TGCCTAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.04, C:0.23, G:0.50, T:0.23
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:1676893 original size:20 final size:21
Alignment explanation
Indices: 1676863--1676904 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1676853 CTGTTTTTGT
1676863 TGATGATTTTG-A-TGAAAAA
1 TGATGATTTTGAAGTGAAAAA
1676882 TGATGTATTTTGAAGTGAAAAA
1 TGATG-ATTTTGAAGTGAAAAA
1676904 T
1 T
1676905 AAGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 1 0.05
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (21 bp):
TGATGATTTTGAAGTGAAAAA
Found at i:1677077 original size:20 final size:20
Alignment explanation
Indices: 1677052--1677093 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1677042 GATACACTGC
1677052 ATCGATACAGAGAATGCTGT
1 ATCGATACAGAGAATGCTGT
1677072 ATCGATACAGAGAATGCTGT
1 ATCGATACAGAGAATGCTGT
1677092 AT
1 AT
1677094 AGAGACATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (20 bp):
ATCGATACAGAGAATGCTGT
Found at i:1677296 original size:8 final size:8
Alignment explanation
Indices: 1677283--1677309 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1677273 AACATCATTC
1677283 ATCACAAA
1 ATCACAAA
1677291 ATCACAAA
1 ATCACAAA
1677299 ATCACAAA
1 ATCACAAA
1677307 ATC
1 ATC
1677310 TAATCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1683260 original size:19 final size:20
Alignment explanation
Indices: 1683215--1683266 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1683205 TTACAAGCCA
*
1683215 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
1683235 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
1683255 -TGTATCGATACA
1 ATGTATCGATACA
1683267 AATTTGGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:1685926 original size:13 final size:13
Alignment explanation
Indices: 1685908--1685933 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1685898 TACAGCAAGT
1685908 ATGTATCGATACA
1 ATGTATCGATACA
1685921 ATGTATCGATACA
1 ATGTATCGATACA
1685934 CAAAAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1688182 original size:21 final size:21
Alignment explanation
Indices: 1688149--1688193 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1688139 TTGCAAGTTG
*
1688149 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1688171 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1688191 AAA
1 AAA
1688194 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1689467 original size:13 final size:13
Alignment explanation
Indices: 1689449--1689486 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1689439 GGAAATTCAA
1689449 TGTATCGATACAT
1 TGTATCGATACAT
1689462 TGTATCGATACAT
1 TGTATCGATACAT
1689475 TGTATCGATACA
1 TGTATCGATACA
1689487 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1689650 original size:20 final size:20
Alignment explanation
Indices: 1689607--1689652 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1689597 AAATCTTTTG
1689607 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1689628 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1689648 CAAAA
1 CAAAA
1689653 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1692058 original size:13 final size:13
Alignment explanation
Indices: 1692040--1692065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1692030 TACAGCAAGT
1692040 ATGTATCGATACA
1 ATGTATCGATACA
1692053 ATGTATCGATACA
1 ATGTATCGATACA
1692066 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1694828 original size:13 final size:13
Alignment explanation
Indices: 1694810--1694835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1694800 CATTTTGGGA
1694810 TGTATCGATACAT
1 TGTATCGATACAT
1694823 TGTATCGATACAT
1 TGTATCGATACAT
1694836 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1694953 original size:13 final size:13
Alignment explanation
Indices: 1694935--1694959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1694925 ACATTTGGTC
1694935 ATGTATCGATACA
1 ATGTATCGATACA
1694948 ATGTATCGATAC
1 ATGTATCGATAC
1694960 TGTGCAATAT
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):
ATGTATCGATACA
Found at i:1696936 original size:20 final size:20
Alignment explanation
Indices: 1696911--1696962 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1696901 TACAAGCCAA
1696911 TGTATCGATACATTTTGTGG
1 TGTATCGATACATTTTGTGG
1696931 TGTATCGATACATTTTGTGG
1 TGTATCGATACATTTTGTGG
1696951 TGTATCGATACA
1 TGTATCGATACA
1696963 AGTTTGGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTTGTGG
Found at i:1697043 original size:20 final size:20
Alignment explanation
Indices: 1697018--1697069 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1697008 CTTTTTCAAA
1697018 TATCGATACAATGCAACATG
1 TATCGATACAATGCAACATG
**
1697038 TATCGATACTGTGCAACATG
1 TATCGATACAATGCAACATG
1697058 TATCGATACAAT
1 TATCGATACAAT
1697070 TAAATGTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (20 bp):
TATCGATACAATGCAACATG
Found at i:1700974 original size:13 final size:13
Alignment explanation
Indices: 1700933--1700985 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1700923 CCATTAGAAG
1700933 CAATGTATCGATA
1 CAATGTATCGATA
1700946 CAA--T-TC-AT-
1 CAATGTATCGATA
1700954 C-ATGTATCGATA
1 CAATGTATCGATA
*
1700966 CATTGTATCGATA
1 CAATGTATCGATA
1700979 CAATGTA
1 CAATGTA
1700986 CCATGTATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1700978 original size:33 final size:33
Alignment explanation
Indices: 1700936--1701000 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1700926 TTAGAAGCAA
*
1700936 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
1700969 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
1701001 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:1701055 original size:20 final size:19
Alignment explanation
Indices: 1701030--1701082 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1701020 CTGCCAGTTT
**
1701030 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1701050 CATGTATCGAAACAATGAA
1 CATGTATCGATACAATGAA
1701069 CATGTATCGATACA
1 CATGTATCGATACA
1701083 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1701074 original size:19 final size:20
Alignment explanation
Indices: 1701030--1701078 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1701020 CTGCCAGTTT
* **
1701030 CATGTATCGATACAATTGTC
1 CATGTATCGAAACAATTGAA
1701050 CATGTATCGAAACAA-TGAA
1 CATGTATCGAAACAATTGAA
1701069 CATGTATCGA
1 CATGTATCGA
1701079 TACATCTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCGAAACAATTGAA
Found at i:1702365 original size:11 final size:12
Alignment explanation
Indices: 1702331--1702363 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1702321 GGAAAGGGAA
*
1702331 ATTTGCAAAAAT
1 ATTTGAAAAAAT
1702343 -TTTGAAAAAAT
1 ATTTGAAAAAAT
1702354 ATTTGAAAAA
1 ATTTGAAAAA
1702364 TACATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (12 bp):
ATTTGAAAAAAT
Found at i:1704982 original size:31 final size:31
Alignment explanation
Indices: 1704938--1705028 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
1704928 GACTTGATTA
* *
1704938 GGGTGCCACCAACTCGTGTGGGCTTTGACTT
1 GGGTGCTACCAACTCGTGTGGGCTTTGACTC
* * * *
1704969 TGGTGCTATCAACTTGTGTAGGCTTTGACTC
1 GGGTGCTACCAACTCGTGTGGGCTTTGACTC
* *
1705000 GGGTGCTACCAATTCGTGTGGACTTTGAC
1 GGGTGCTACCAACTCGTGTGGGCTTTGAC
1705029 ATTCTAAGGC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (31 bp):
GGGTGCTACCAACTCGTGTGGGCTTTGACTC
Found at i:1705154 original size:143 final size:143
Alignment explanation
Indices: 1704886--1705163 Score: 349
Period size: 143 Copynumber: 1.9 Consensus size: 143
1704876 GGGATTTGGT
* * * * *
1704886 ATTCTAAGGCTTGACCTCTTTAAATAGGTGCCAACTAATGTGGACTTGATTAGGGTGCCACCAAC
1 ATTCTAAGGCTTAACCTCTTTAAATAGGTGCCAACTAATATGGACTTGACTAAGGTGCCACAAAC
* * * ** * * * * * * *
1704951 TCGTGTGGGCTTTGACTTTGGTGCTATCAACTTGTGTAGGCTTTGACTCGGGTGCTACCAATTCG
66 TCATGTAGGCTTAGACTCGGGTGCTATCAACTTGTGCAAGCTTTGACTAGGGTACCACCAACTCA
1705016 TGTGGACTTTGAC
131 TGTGGACTTTGAC
* *
1705029 ATTCTAAGGCTTAACCTCTTTAGATAGGTGCCAATTAATATGGACTTGACTAAGGTGCCACAAAC
1 ATTCTAAGGCTTAACCTCTTTAAATAGGTGCCAACTAATATGGACTTGACTAAGGTGCCACAAAC
** * *
1705094 TCATGTAGGCTTAGACTCGGGTTTTGTCAGCTTGTGCAAGCTTTGACTAGGGTACCACCAACTCA
66 TCATGTAGGCTTAGACTCGGGTGCTATCAACTTGTGCAAGCTTTGACTAGGGTACCACCAACTCA
1705159 TGTGG
131 TGTGG
1705164 GCTTAGACTT
Statistics
Matches: 112, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
143 112 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (143 bp):
ATTCTAAGGCTTAACCTCTTTAAATAGGTGCCAACTAATATGGACTTGACTAAGGTGCCACAAAC
TCATGTAGGCTTAGACTCGGGTGCTATCAACTTGTGCAAGCTTTGACTAGGGTACCACCAACTCA
TGTGGACTTTGAC
Found at i:1705187 original size:62 final size:62
Alignment explanation
Indices: 1705074--1705208 Score: 162
Period size: 62 Copynumber: 2.2 Consensus size: 62
1705064 TAATATGGAC
* * * * * *
1705074 TTGACTAAGGTGCCACAAACTCATGTAGGCTTAGACTCGGGTTTTGTCAGCTTGTGCAAGCT
1 TTGACTAGGGTACCACAAACTCATGTAGGCTTAGACTCGGGTGTCGCCAGCTTGTACAAGCT
* * * **
1705136 TTGACTAGGGTACCACCAACTCATGTGGGCTTAGACTTGGGTGTCGCCAGCTTGTACGGGCT
1 TTGACTAGGGTACCACAAACTCATGTAGGCTTAGACTCGGGTGTCGCCAGCTTGTACAAGCT
*
1705198 TTGACTTGGGT
1 TTGACTAGGGT
1705209 GCTACCAGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (62 bp):
TTGACTAGGGTACCACAAACTCATGTAGGCTTAGACTCGGGTGTCGCCAGCTTGTACAAGCT
Found at i:1705204 original size:31 final size:31
Alignment explanation
Indices: 1705162--1705246 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
1705152 CAACTCATGT
* *
1705162 GGGCTTAGACTTGGGTG-TCGCCAGCTTGTAC
1 GGGCTTTGACTTGGGTGCT-ACCAGCTTGTAC
*
1705193 GGGCTTTGACTTGGGTGCTACCAGCTTGTGC
1 GGGCTTTGACTTGGGTGCTACCAGCTTGTAC
* * *
1705224 GGGCTTTAACTAGGGTGCCACCA
1 GGGCTTTGACTTGGGTGCTACCA
1705247 ATTCGTGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 46 0.98
32 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (31 bp):
GGGCTTTGACTTGGGTGCTACCAGCTTGTAC
Found at i:1705453 original size:62 final size:62
Alignment explanation
Indices: 1705343--1705512 Score: 177
Period size: 62 Copynumber: 2.7 Consensus size: 62
1705333 GTGGGCTTAT
* * *
1705343 ACTCGAGTGTTGCCAG-TTGGTGTGTGCTTTGACTCA-GGTGCTATCAGCTTGTGCAAGCTTTG
1 ACTCGAGTGCTGCCAGCTT-GTGCGTGCTTTGACT-AGGGTGCTACCAGCTTGTGCAAGCTTTG
* *** *
1705405 ACTCGAGTGCTGCTAGCTTGTGCGTGCTTTGACTAGGGTG-TCACCAGCTTGTGTGGGTTTTG
1 ACTCGAGTGCTGCCAGCTTGTGCGTGCTTTGACTAGGGTGCT-ACCAGCTTGTGCAAGCTTTG
* * *
1705467 ACTTGGGTGCCGCCAGCTTGTGCAG-GCTTTGACTAGGGTGCTACCA
1 ACTCGAGTGCTGCCAGCTTGTGC-GTGCTTTGACTAGGGTGCTACCA
1705513 ATTCGTGTGA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
61 2 0.02
62 85 0.93
63 4 0.04
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (62 bp):
ACTCGAGTGCTGCCAGCTTGTGCGTGCTTTGACTAGGGTGCTACCAGCTTGTGCAAGCTTTG
Found at i:1705454 original size:31 final size:30
Alignment explanation
Indices: 1705368--1705512 Score: 112
Period size: 31 Copynumber: 4.7 Consensus size: 30
1705358 GTTGGTGTGT
* * *
1705368 GCTTTGACTCA-GGTGCTATCAGCTTGTGCAA
1 GCTTTGACT-AGGGTGCCACCAGCTTGTGC-G
* * ** *
1705399 GCTTTGACTCGAGTGCTGCTAGCTTGTGCG
1 GCTTTGACTAGGGTGCCACCAGCTTGTGCG
* *
1705429 TGCTTTGACTAGGGTGTCACCAGCTTGTGTGG
1 -GCTTTGACTAGGGTGCCACCAGCTTGTG-CG
* * *
1705461 GTTTTGACTTGGGTGCCGCCAGCTTGTGCAG
1 GCTTTGACTAGGGTGCCACCAGCTTGTGC-G
*
1705492 GCTTTGACTAGGGTGCTACCA
1 GCTTTGACTAGGGTGCCACCA
1705513 ATTCGTGTGA
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (30 bp):
GCTTTGACTAGGGTGCCACCAGCTTGTGCG
Found at i:1712839 original size:438 final size:438
Alignment explanation
Indices: 1712015--1712896 Score: 1620
Period size: 438 Copynumber: 2.0 Consensus size: 438
1712005 GAAAATCAAA
* * *
1712015 ATAGAAAGTGTGGCATTGTCTGCAATGGCAATAGCAAGCCATACTAGGCTCCTTAAATCTTATCG
1 ATAGGAAGCGTGGCATTGTCTGCAATGGCAATAGCAAGCCATACTAGGCTCCTTAAATCTCATCG
*
1712080 CAACCACTTTCTTGGCTTCCATAATGGCATGCCATATCTTTTCCATTAGCATCTTAACTTCTTTG
66 CAACCACTTTCTTGGCTTCCATAAGGGCATGCCATATCTTTTCCATTAGCATCTTAACTTCTTTG
1712145 ATGGTCCTCTAAACCCATCAATTCTCCCATTCAATGATTGCATTCACCCTTGCTTCGGTACGATT
131 ATGGTCCTCTAAACCCATCAATTCTCCCATTCAATGATTGCATTCACCCTTGCTTCGGTACGATT
* * *
1712210 GGGTAACGGGTTAGCCCCTACATTTGGTCCTGGACCTTGTTCGATCTTAATCACCCCTTGATCTA
196 AGGTAACGGATTAGCCCCTACATTTGGTCCTGGACCTTGTTCGATCTTAATCACACCTTGATCTA
*
1712275 TTAAATTTTGCACCTTCCTTTTGAAAGAAGTGTATTTTTCTATAGAATGGCCCTGTGCCCCTACA
261 TTAAATTTTGCACCTTCCTTTTGAAAGAAGTGTATTTTTCTATAGAATGGCCCTATGCCCCTACA
1712340 ACGTATTCGCAATGAACATTCTCGTCATACCATCTAGGATAAGGGGATACTTTTGGGGTGATGAA
326 ACGTATTCGCAATGAACATTCTCGTCATACCATCTAGGATAAGGGGATACTTTTGGGGTGATGAA
*
1712405 AACTGAAGCCACTAGCTAACCTGGCAATAATCGAGAGTACATTTCCTT
391 AACTGAAGCCACTAGCTAACCTGCCAATAATCGAGAGTACATTTCCTT
1712453 ATAGGAAGCGTGGCATTGTCTGCAATGGCAATAGCAAGCCATACTAGGCTCCTTAAATCTCATCG
1 ATAGGAAGCGTGGCATTGTCTGCAATGGCAATAGCAAGCCATACTAGGCTCCTTAAATCTCATCG
*
1712518 CAACCACTTTCTTGGCTTCCATAAGGGCATGCCATATCTTTTCCATTGGCATCTTAACTTCTTTG
66 CAACCACTTTCTTGGCTTCCATAAGGGCATGCCATATCTTTTCCATTAGCATCTTAACTTCTTTG
* *
1712583 ATGGTCCTCTGAACCCATCAATTCTCCCATTCAATGATTGCATTCACCCTTGCTTCGGTATGATT
131 ATGGTCCTCTAAACCCATCAATTCTCCCATTCAATGATTGCATTCACCCTTGCTTCGGTACGATT
1712648 AGGTAACGGATTAGCCCCTACATTTGGTCCTGGACCTTGTTCGATCTTAATCACACCTTGATCTA
196 AGGTAACGGATTAGCCCCTACATTTGGTCCTGGACCTTGTTCGATCTTAATCACACCTTGATCTA
* *
1712713 TTAAATTTTGCTCCTTCCTTTTGAAAGAAGTGTATTTTTCTGTAGAATGGCCCTATGCCCCTACA
261 TTAAATTTTGCACCTTCCTTTTGAAAGAAGTGTATTTTTCTATAGAATGGCCCTATGCCCCTACA
* *
1712778 AGGTATTCGCAATGAGCATTCTCGTCATACCATCTAGGATAAGGGGATACTTTTGGGGTGATGAA
326 ACGTATTCGCAATGAACATTCTCGTCATACCATCTAGGATAAGGGGATACTTTTGGGGTGATGAA
1712843 AACTGAAGCCACTAGCTAACCTGCCAATAATCGAGAGTACATTTCCTT
391 AACTGAAGCCACTAGCTAACCTGCCAATAATCGAGAGTACATTTCCTT
1712891 ATAGGA
1 ATAGGA
1712897 GCAGGGTAGT
Statistics
Matches: 428, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
438 428 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (438 bp):
ATAGGAAGCGTGGCATTGTCTGCAATGGCAATAGCAAGCCATACTAGGCTCCTTAAATCTCATCG
CAACCACTTTCTTGGCTTCCATAAGGGCATGCCATATCTTTTCCATTAGCATCTTAACTTCTTTG
ATGGTCCTCTAAACCCATCAATTCTCCCATTCAATGATTGCATTCACCCTTGCTTCGGTACGATT
AGGTAACGGATTAGCCCCTACATTTGGTCCTGGACCTTGTTCGATCTTAATCACACCTTGATCTA
TTAAATTTTGCACCTTCCTTTTGAAAGAAGTGTATTTTTCTATAGAATGGCCCTATGCCCCTACA
ACGTATTCGCAATGAACATTCTCGTCATACCATCTAGGATAAGGGGATACTTTTGGGGTGATGAA
AACTGAAGCCACTAGCTAACCTGCCAATAATCGAGAGTACATTTCCTT
Found at i:1721848 original size:13 final size:13
Alignment explanation
Indices: 1721830--1721858 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1721820 ACAACATTCC
1721830 TTGTATCGATACA
1 TTGTATCGATACA
1721843 TTGTATCGATACA
1 TTGTATCGATACA
1721856 TTG
1 TTG
1721859 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1724374 original size:13 final size:13
Alignment explanation
Indices: 1724356--1724382 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1724346 ACATTATGCT
1724356 TTGTATCGATACA
1 TTGTATCGATACA
1724369 TTGTATCGATACA
1 TTGTATCGATACA
1724382 T
1 T
1724383 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1724412 original size:20 final size:19
Alignment explanation
Indices: 1724366--1724422 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1724356 TTGTATCGAT
1724366 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
1724385 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
1724404 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1724423 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1724494 original size:13 final size:13
Alignment explanation
Indices: 1724472--1724520 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1724462 CATAGGACAA
1724472 TGTATCGATACAT
1 TGTATCGATACAT
*
1724485 TGTATTGATACA-
1 TGTATCGATACAT
1724497 TG-AT-GA-A-AT
1 TGTATCGATACAT
1724506 TGTATCGATACAT
1 TGTATCGATACAT
1724519 TG
1 TG
1724521 CTTGTAACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1727348 original size:83 final size:83
Alignment explanation
Indices: 1727209--1727374 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
1727199 TATCGAGCAC
*
1727209 TGAAGGGATATCGATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTAATATAACATGA
1 TGAAGGGATATCAATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTAATATAACATGA
1727274 ATGCATAACAATTATTGT
66 ATGCATAACAATTATTGT
1727292 TGAAGGGATATCAATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTAATATAACATGA
1 TGAAGGGATATCAATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTAATATAACATGA
1727357 ATGCATAACAATTATTGT
66 ATGCATAACAATTATTGT
1727375 AATAGGAGAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (83 bp):
TGAAGGGATATCAATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTAATATAACATGA
ATGCATAACAATTATTGT
Found at i:1727350 original size:41 final size:41
Alignment explanation
Indices: 1727222--1727350 Score: 106
Period size: 41 Copynumber: 3.1 Consensus size: 41
1727212 AGGGATATCG
1727222 ATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTA
1 ATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTA
* * ** ** *
1727263 ATAT--AACATGAATG-CATAACAATTATTGTT-GAAGGGAT-ATCA
1 ATATAGAACAT---TGCCTTGATGATT-TT-TTAGAA-AAATAATTA
1727305 ATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTA
1 ATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTA
1727346 ATATA
1 ATATA
1727351 ACATGAATGC
Statistics
Matches: 63, Mismatches: 14, Indels: 22
0.64 0.14 0.22
Matches are distributed among these distances:
39 5 0.08
40 4 0.06
41 25 0.40
42 20 0.32
43 4 0.06
44 5 0.08
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (41 bp):
ATATAGAACATTGCCTTGATGATTTTTTAGAAAAATAATTA
Found at i:1729780 original size:19 final size:20
Alignment explanation
Indices: 1729732--1729785 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
1729722 CTGTCAGTTT
* **
1729732 CATGTATCGATACATTTGTT
1 CATGTATCGATACATATGAA
*
1729752 CATATATCGATACA-ATGAA
1 CATGTATCGATACATATGAA
1729771 CATGTATCGATACAT
1 CATGTATCGATACAT
1729786 TGTATCGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATATGAA
Found at i:1729791 original size:13 final size:13
Alignment explanation
Indices: 1729773--1729797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1729763 ACAATGAACA
1729773 TGTATCGATACAT
1 TGTATCGATACAT
1729786 TGTATCGATACA
1 TGTATCGATACA
1729798 AAGCATAATG
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:1729814 original size:33 final size:32
Alignment explanation
Indices: 1729756--1729818 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1729746 TTTGTTCATA
*
1729756 TATCGATACAATGAACATGTATCGATACATTG
1 TATCGATACAAAGAACATGTATCGATACATTG
1729788 TATCGATACAAAGCATA-ATGTATCGATACAT
1 TATCGATACAAAG-A-ACATGTATCGATACAT
1729819 CTGAAAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACATTG
Found at i:1735649 original size:51 final size:52
Alignment explanation
Indices: 1735572--1735707 Score: 184
Period size: 51 Copynumber: 2.6 Consensus size: 52
1735562 TCTGAAATGA
*
1735572 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGG-TTTTGACCC
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
* * * * * *
1735623 AAATGTATCAATATATTCTTCGTTGTATCGATACATTTTGGGTTTTTGACCT
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
* *
1735675 AAATATATCGATACATTATTCAATGTATCGATA
1 AAATGTATCGATACATTATTCATTGTATCGATA
1735708 GATGCAGAGA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 37 0.51
52 35 0.49
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCC
Found at i:1741773 original size:20 final size:20
Alignment explanation
Indices: 1741730--1741781 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1741720 CTTAACTGTT
*
1741730 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
1741749 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
1741769 TGTATCGATACAT
1 TGTATCGATACAT
1741782 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1747937 original size:47 final size:50
Alignment explanation
Indices: 1747848--1747944 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 50
1747838 AGGGTCAAAT
*
1747848 TCTGGAAAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
**
1747898 TCTGGAAAAA-T-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACA
1 TCTGGAAAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACA
1747945 AAGGGTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 24 0.56
48 8 0.19
49 1 0.02
50 10 0.23
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGAAAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACA
Found at i:1749783 original size:20 final size:22
Alignment explanation
Indices: 1749758--1749802 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1749748 TTTTGCAAAT
1749758 AAATTTT-T-ATTAAGGGGGAG
1 AAATTTTATGATTAAGGGGGAG
*
1749778 AAATTTTATGTTTAAGGGGGAG
1 AAATTTTATGATTAAGGGGGAG
1749800 AAA
1 AAA
1749803 GAAATATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (22 bp):
AAATTTTATGATTAAGGGGGAG
Found at i:1750456 original size:20 final size:21
Alignment explanation
Indices: 1750431--1750483 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1750421 ATCGATACAT
**
1750431 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTAAAAAA
*
1750451 TGTATCGATACTTGTAAAAAA
1 TGTATCGATACATGTAAAAAA
1750472 TGTATCGATACA
1 TGTATCGATACA
1750484 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAAAA
Found at i:1752869 original size:23 final size:25
Alignment explanation
Indices: 1752812--1752861 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
1752802 TTGACAAGTT
1752812 TAAA-AATAGGGTTGGAGTATCCCC
1 TAAAGAATAGGGTTGGAGTATCCCC
1752836 TCGAAAGAATAGGGTTGGAGTATCCC
1 T--AAAGAATAGGGTTGGAGTATCCC
1752862 TATGAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.04
26 3 0.13
27 19 0.83
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (25 bp):
TAAAGAATAGGGTTGGAGTATCCCC
Found at i:1757162 original size:20 final size:21
Alignment explanation
Indices: 1757124--1757162 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1757114 GTTGGATATG
*
1757124 TTAAAATGCATGAAACATGAC
1 TTAAAAGGCATGAAACATGAC
1757145 TTAAAAGGCATG-AACATG
1 TTAAAAGGCATGAAACATG
1757163 GGCTGTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (21 bp):
TTAAAAGGCATGAAACATGAC
Found at i:1758154 original size:40 final size:40
Alignment explanation
Indices: 1758092--1758169 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1758082 AAAACACAAA
* * * *
1758092 ATGTATTGATATAATGAGAAATGTATCGATACAATTTCTT
1 ATGTATCGATACAATGAAAAATGTATCAATACAATTTCTT
*
1758132 ATGTATCGATACATTGAAAAATGTATCAATACAATTTC
1 ATGTATCGATACAATGAAAAATGTATCAATACAATTTC
1758170 CTTCCAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (40 bp):
ATGTATCGATACAATGAAAAATGTATCAATACAATTTCTT
Found at i:1758235 original size:20 final size:20
Alignment explanation
Indices: 1758212--1758265 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1758202 CATTTCAGGC
1758212 ATGTATCGATACATT-CACTT
1 ATGTATCGATACATTGC-CTT
*
1758232 ATGTATCAATACATTGCCTT
1 ATGTATCGATACATTGCCTT
*
1758252 ATTATATCGATACA
1 A-TGTATCGATACA
1758266 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGCCTT
Found at i:1758264 original size:21 final size:20
Alignment explanation
Indices: 1758192--1758265 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
1758182 CATATGGTCC
***
1758192 TATATCGATACATTTCAGGCA
1 TATATCGATACA-TTCACTTA
*
1758213 TGTATCGATACATTCACTTA
1 TATATCGATACATTCACTTA
* *
1758233 TGTATCAATACATTGC-CTTA
1 TATATCGATACATT-CACTTA
1758253 TTATATCGATACA
1 -TATATCGATACA
1758266 AATTGTTGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 22 0.50
21 22 0.50
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TATATCGATACATTCACTTA
Found at i:1758740 original size:51 final size:52
Alignment explanation
Indices: 1758618--1758741 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 52
1758608 ATTTAACTAG
* * * *
1758618 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGCATCGATACATTTGGGTCAAAAACCCAAA
* * *
1758670 ATGTATCAAT-GAATGAAAAATGCATCGATACATTTGGGTCAAAAACTCAAA
1 ATGTATCGATACAATGAAAAATGCATCGATACATTTGGGTCAAAAACCCAAA
1758721 ATGTATCGATACAAT-AAAAAT
1 ATGTATCGATACAATGAAAAAT
1758742 TTATCGGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 50 0.81
52 12 0.19
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGCATCGATACATTTGGGTCAAAAACCCAAA
Found at i:1758761 original size:29 final size:29
Alignment explanation
Indices: 1758724--1758782 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1758714 ACTCAAAATG
*
1758724 TATCGATACAATAAAAATTTATCGGTATA
1 TATCGATACAATAAAAATTTATCGATATA
1758753 TATCGATACAATAAAAATTTATCGATATA
1 TATCGATACAATAAAAATTTATCGATATA
1758782 T
1 T
1758783 TTTTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (29 bp):
TATCGATACAATAAAAATTTATCGATATA
Found at i:1760837 original size:13 final size:13
Alignment explanation
Indices: 1760818--1760848 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1760808 ACTTTTCATT
1760818 ATGTATCGATACA
1 ATGTATCGATACA
*
1760831 TTGTATCGATACA
1 ATGTATCGATACA
1760844 ATGTA
1 ATGTA
1760849 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1766004 original size:19 final size:19
Alignment explanation
Indices: 1765982--1766038 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1765972 TGTATCGATA
* *
1765982 CATTGTATGGATACATGTT
1 CATTGTATCGATACATGAT
*
1766001 CATTATATCGATACATGGAT
1 CATTGTATCGATACAT-GAT
*
1766021 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
1766039 AACTGGTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:1766031 original size:20 final size:20
Alignment explanation
Indices: 1765978--1766037 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
1765968 TATTTGTATC
*
1765978 GATACATTGTATGGATACAT-
1 GATA-ATTGTATCGATACATG
* * *
1765998 GTTCATTATATCGATACATG
1 GATAATTGTATCGATACATG
1766018 GATAATTGTATCGATACATG
1 GATAATTGTATCGATACATG
1766038 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:1766091 original size:18 final size:19
Alignment explanation
Indices: 1766068--1766113 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1766058 ACCACTATAT
*
1766068 CGATACATG-GTATTGTAA
1 CGATACATGAGAATTGTAA
*
1766086 CGATACATGATGAATTGTAT
1 CGATACATGA-GAATTGTAA
1766106 CGATACAT
1 CGATACAT
1766114 TGCTTGTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
20 15 0.62
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (19 bp):
CGATACATGAGAATTGTAA
Found at i:1774793 original size:14 final size:14
Alignment explanation
Indices: 1774774--1774803 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1774764 ATTGTATGGA
1774774 TACATGGACAACTG
1 TACATGGACAACTG
*
1774788 TACATGGACAATTG
1 TACATGGACAACTG
1774802 TA
1 TA
1774804 TCGATACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
TACATGGACAACTG
Found at i:1777943 original size:9 final size:9
Alignment explanation
Indices: 1777937--1777970 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1777927 CGAGTCATCT
*
1777937 TCATCATCA
1 TCATCTTCA
1777946 TCATCTTCA
1 TCATCTTCA
1777955 TCATCTTCA
1 TCATCTTCA
1777964 TCATCTT
1 TCATCTT
1777971 TGATGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATCTTCA
Found at i:1777949 original size:15 final size:15
Alignment explanation
Indices: 1777931--1777965 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1777921 TTCATCCGAG
1777931 TCATCTTCATCATCA
1 TCATCTTCATCATCA
*
1777946 TCATCTTCATCATCT
1 TCATCTTCATCATCA
1777961 TCATC
1 TCATC
1777966 ATCTTTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCTTCATCATCA
Found at i:1778917 original size:13 final size:13
Alignment explanation
Indices: 1778899--1778931 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1778889 TCATAAATGT
1778899 TGTATCGATACAA
1 TGTATCGATACAA
1778912 TGTATCGATACAA
1 TGTATCGATACAA
1778925 TGTATCG
1 TGTATCG
1778932 CTACGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1779050 original size:52 final size:52
Alignment explanation
Indices: 1779009--1779137 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1778999 CACTGATCTT
* *
1779009 TGTATCGATAGATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1779061 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* * *
1779113 TGTATTGATACATGCAGGTAAATTT
1 TGTATCGATACATACAGGCAAATTT
1779138 TCATATTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1781211 original size:24 final size:26
Alignment explanation
Indices: 1781184--1781237 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
1781174 TCAAAATTTT
1781184 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
1781208 ATTCTTCCCAGGGGACACTCCAACCCC
1 ATTCAT-CCAGGGGACACTCCAACCCC
1781235 ATT
1 ATT
1781238 TTCAACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
26 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:1785556 original size:105 final size:106
Alignment explanation
Indices: 1785368--1785577 Score: 242
Period size: 105 Copynumber: 2.0 Consensus size: 106
1785358 ATTTTTAACA
* ** * * * *
1785368 TAATATCACATAATTAACTCCAAAGGAATGCATTGACATGAAAATACCCGCATAACCTTAAAGGC
1 TAATATCACATAATTAACTCCAAACGAATGCATCAACATGAAAATAACCACAAAACCCTAAAGGC
* * * *
1785433 TCAATTTTGGTTAGTTTTGTTAAAAAGTATAAAACTAACCT
66 TCAATTTTAGTTAATTTTGATAAAAAGTACAAAACTAACCT
* * * *
1785474 TAATATCACATAATTGACTCTAAACTAAT-CATCAACATGAAAATAACCACAAAACCCTAGAGGC
1 TAATATCACATAATTAACTCCAAACGAATGCATCAACATGAAAATAACCACAAAACCCTAAAGGC
* * * *
1785538 TTAGTTTTAGTTAATTTTGATAGAAAGTACAAAAGTAACC
66 TCAATTTTAGTTAATTTTGATAAAAAGTACAAAACTAACC
1785578 CTAAAAACTA
Statistics
Matches: 85, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
105 60 0.71
106 25 0.29
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (106 bp):
TAATATCACATAATTAACTCCAAACGAATGCATCAACATGAAAATAACCACAAAACCCTAAAGGC
TCAATTTTAGTTAATTTTGATAAAAAGTACAAAACTAACCT
Found at i:1785604 original size:48 final size:49
Alignment explanation
Indices: 1785552--1785707 Score: 137
Period size: 48 Copynumber: 3.3 Consensus size: 49
1785542 TTTTAGTTAA
* *
1785552 TTTTGATAGAAAGTACAAAAGTAACCCTAAAAACTAAATTTTGGT-AAG
1 TTTTGATAGAAAGTACAAAACTAACCCTAAAAACTAAGTTTTGGTCAAG
* * * **
1785600 TTTTGACA-AATGGTACAAAACTAATCCTAAAATACTTGGTTTCT--TCAAG
1 TTTTGATAGAA-AGTACAAAACTAACCCTAAAA-ACTAAGTTT-TGGTCAAG
* * * *
1785649 -TTTGATGGAAAATACAAAACTAACCCTAAAGACTCAGTTTTGGTCAA-
1 TTTTGATAGAAAGTACAAAACTAACCCTAAAAACTAAGTTTTGGTCAAG
1785696 TTTTGA-AGAAAG
1 TTTTGATAGAAAG
1785708 GTATAAAAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
46 1 0.01
47 13 0.16
48 57 0.69
49 11 0.13
50 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (49 bp):
TTTTGATAGAAAGTACAAAACTAACCCTAAAAACTAAGTTTTGGTCAAG
Done.