Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 211 of 279
Found at i:68843545 original size:13 final size:13
Alignment explanation
Indices: 68843527--68843551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68843517 ACAAACGATA
68843527 AAATTTTCACACG
1 AAATTTTCACACG
68843540 AAATTTTCACAC
1 AAATTTTCACAC
68843552 ATACTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:68846537 original size:31 final size:31
Alignment explanation
Indices: 68846496--68846559 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
68846486 CCTTTTCATA
*
68846496 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
68846527 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
68846558 TT
1 TT
68846560 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:68846803 original size:24 final size:24
Alignment explanation
Indices: 68846767--68846897 Score: 185
Period size: 23 Copynumber: 5.4 Consensus size: 24
68846757 CTGGAGGCCT
* *
68846767 AGCCTCTTTTAATAACTGGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
68846792 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
68846816 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
68846839 AGCCC-TTTAATAACTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCATA
68846862 AGCCCTTTCTTTAATAACTGGGGCATA
1 AGCCC--T-TTTAATAACTGGGGCATA
68846889 AGCCCTTTT
1 AGCCCTTTT
68846898 TCACTTCCTC
Statistics
Matches: 98, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
23 45 0.46
24 26 0.27
25 5 0.05
27 22 0.22
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:68846978 original size:11 final size:11
Alignment explanation
Indices: 68846953--68847003 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 11
68846943 TTACATCACG
68846953 TGCATATCATA
1 TGCATATCATA
68846964 --CATATCATA
1 TGCATATCATA
68846973 TGCATATCATA
1 TGCATATCATA
* *
68846984 --CATGTCATG
1 TGCATATCATA
68846993 TGCATATCATA
1 TGCATATCATA
68847004 CATACCATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 16 0.50
11 16 0.50
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (11 bp):
TGCATATCATA
Found at i:68847012 original size:20 final size:20
Alignment explanation
Indices: 68846947--68847013 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
68846937 TTATGATTAC
*
68846947 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
68846967 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
68846987 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
68847007 ACCATGT
1 ATCATGT
68847014 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:68858988 original size:57 final size:57
Alignment explanation
Indices: 68858924--68859036 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
68858914 TAGCTCATCG
68858924 AGTACTCGGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCA
1 AGTACTCGGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCA
68858981 AGTACTCGGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATC
1 AGTACTCGGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATC
68859037 CATAGCCTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (57 bp):
AGTACTCGGATAGTGTTGTCCAGCCAAAATTCAGCTTGCTCGGCATCATCGCTATCA
Found at i:68860211 original size:31 final size:31
Alignment explanation
Indices: 68860170--68860233 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
68860160 CCTTTTCATA
*
68860170 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
68860201 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
68860232 TT
1 TT
68860234 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:68861594 original size:46 final size:46
Alignment explanation
Indices: 68861407--68861584 Score: 293
Period size: 46 Copynumber: 3.9 Consensus size: 46
68861397 CACAATATAT
* * * *
68861407 ATATACATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
68861453 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* *
68861499 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
68861545 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
68861585 CGCCACATAT
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:68861639 original size:47 final size:47
Alignment explanation
Indices: 68861608--68861989 Score: 674
Period size: 47 Copynumber: 8.1 Consensus size: 47
68861598 CACTTCCACG
** *
68861608 TTCATCACATTGGCCATTCTACCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
68861655 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
68861702 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
68861749 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
68861796 TTGATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
68861843 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
68861890 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTAACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
68861937 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
68861984 TTCATC
1 TTCATC
68861990 TCATAAAATC
Statistics
Matches: 322, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 322 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:68864929 original size:24 final size:24
Alignment explanation
Indices: 68864893--68864996 Score: 149
Period size: 23 Copynumber: 4.4 Consensus size: 24
68864883 CTGGAGGCCT
*
68864893 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
68864918 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
68864942 AGCCC-TTTAATAACTAGGGCACA
1 AGCCCTTTTAATAACTGGGGCATA
68864965 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
68864988 AGCCATTTT
1 AGCCCTTTT
68864997 TCACTTCCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 41 0.57
24 27 0.38
25 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:68865074 original size:20 final size:20
Alignment explanation
Indices: 68865046--68865086 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
68865036 TTATGATTAC
68865046 ATCACGTGCATATCATACAT
1 ATCACGTGCATATCATACAT
*
68865066 ATCATGTGCATATCATACAT
1 ATCACGTGCATATCATACAT
68865086 A
1 A
68865087 CCTTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (20 bp):
ATCACGTGCATATCATACAT
Found at i:68867400 original size:40 final size:40
Alignment explanation
Indices: 68867350--68867540 Score: 269
Period size: 40 Copynumber: 4.7 Consensus size: 40
68867340 CTCGATATAT
*
68867350 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
68867390 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
68867430 TATATATCCGGGTTAAATCCCGTAGGCTTTGTGTTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-A
*
68867472 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
68867511 -CTATATCCGGGCTTAAAGTTCCGCAGGCTT
1 TATATATCCGGG-TTAAA-TCCCGCAGGCTT
68867541 TGAGCTAGTG
Statistics
Matches: 138, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 10 0.07
39 6 0.04
40 85 0.62
41 1 0.01
42 36 0.26
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:68867457 original size:80 final size:82
Alignment explanation
Indices: 68867350--68867540 Score: 291
Period size: 82 Copynumber: 2.4 Consensus size: 82
68867340 CTCGATATAT
68867350 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGT-A-ATATATATCCGGGTTAAATCCCGC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
*
68867413 AGGCTTCGTGCTGGTAA
66 AGGCTTAGTGCTGGTAA
* *
68867430 TATATATCCGGGTTAAATCCCGTAGGCTTTGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
68867495 AGGCTTAGTGCTGGT-A
66 AGGCTTAGTGCTGGTAA
* *
68867511 -CTATATCCGGGCTTAAAGTTCCGCAGGCTT
1 TATATATCCGGG-TTAAA-TCCCGCAGGCTT
68867541 TGAGCTAGTG
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
80 46 0.46
81 7 0.07
82 48 0.48
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (82 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATATATATATCCGGGTTAAATCCCGC
AGGCTTAGTGCTGGTAA
Found at i:68872198 original size:49 final size:49
Alignment explanation
Indices: 68872113--68872230 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
68872103 TGCGTGTCAT
*
68872113 TGTAAGACCTTTCTGGGACATGGCATCAACACCGATAGAT-AAGAGCCAA
1 TGTAAGACCTCTCTGGGACATGGCATCAACACCGATAGATGAA-AGCCAA
* * * * * *
68872162 TGTAAGATCTCTCTGGGACATGGGATCAGC-CTCGATATATGAAAGTCAG
1 TGTAAGACCTCTCTGGGACATGGCATCAACAC-CGATAGATGAAAGCCAA
*
68872211 TGTAAGACCTGTCTGGGACA
1 TGTAAGACCTCTCTGGGACA
68872231 CAGCATCGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
48 1 0.02
49 55 0.95
50 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTCTCTGGGACATGGCATCAACACCGATAGATGAAAGCCAA
Found at i:68880519 original size:81 final size:81
Alignment explanation
Indices: 68880422--68880577 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
68880412 ATTACCAAAG
68880422 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATT
68880487 TAAAAAATTACCGTTT
66 TAAAAAATTACCGTTT
*** * * * **
68880503 TACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATT
*
68880568 TACAAAATTA
66 TAAAAAATTA
68880578 TTAAAATACC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATT
TAAAAAATTACCGTTT
Found at i:68880570 original size:27 final size:27
Alignment explanation
Indices: 68880422--68880577 Score: 195
Period size: 27 Copynumber: 5.8 Consensus size: 27
68880412 ATTACCAAAG
* *
68880422 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
68880449 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
68880476 TACCCTCAATTTAAAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
68880503 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
68880530 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
68880557 TACCCTTGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
68880578 TTAAAATACC
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:68880587 original size:27 final size:27
Alignment explanation
Indices: 68880557--68880889 Score: 237
Period size: 27 Copynumber: 12.3 Consensus size: 27
68880547 ATTACTGTTT
* **
68880557 TACCCTTGATTTACAAAATTATTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
68880584 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
** **
68880611 TACCCTCAATCAATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * * *
68880638 TACCC-TGGTCTATAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
68880664 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* *
68880691 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * *
68880718 TACAAC-TGGTTTGTGAAATTACCAAAA
1 TAC-CCTTGATTTATAAAATTACCAAAA
* *
68880745 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
68880772 TACCCCTGATTTATAAAATTACAAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
68880799 TACCCTTGACTGTCTA-AAAATTA-TAGAAA
1 TACCCTTGA-T-T-TATAAAATTACCA-AAA
* * * **
68880828 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * * *
68880855 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
68880882 CACCCTTG
1 TACCCTTG
68880890 TAGGATGAAA
Statistics
Matches: 251, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
26 23 0.09
27 203 0.81
28 5 0.02
29 18 0.07
30 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:68880588 original size:54 final size:54
Alignment explanation
Indices: 68880484--68880606 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 54
68880474 TTTACCCTCA
* * * ****
68880484 ATTTAAAAAATTACCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTAAAATACCCTTG
* * *
68880538 ATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTATTAAAATACCCTTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTAAAATACCCTTG
*
68880592 GTTTACAAAATTACC
1 ATTTACAAAATTACC
68880607 AAAATACCCT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (54 bp):
ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTAAAATACCCTTG
Found at i:68880588 original size:81 final size:81
Alignment explanation
Indices: 68880409--68880607 Score: 218
Period size: 81 Copynumber: 2.5 Consensus size: 81
68880399 CTTAAATTGT
*
68880409 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
68880474 TTTACCCTCAATTTAA
66 TTTACCCTCAATTTAA
**** *** * * *
68880490 AAAATTACCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
** *
68880555 TTTACCCTTGATTTAC
66 TTTACCCTCAATTTAA
** * * * *
68880571 AAAATTATTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCA
68880608 AAATACCCTC
Statistics
Matches: 92, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
TTTACCCTCAATTTAA
Found at i:68880642 original size:81 final size:80
Alignment explanation
Indices: 68880557--68880859 Score: 270
Period size: 81 Copynumber: 3.7 Consensus size: 80
68880547 ATTACTGTTT
* * *
68880557 TACCCTTGATTTACAAAATTATTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCAAT
1 TACCC-TGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCT-AAT
**
68880621 CAATAAAATTACCAAAA
64 TTATAAAATTACCAAAA
* * * * ** *
68880638 TACCCTGGTCTATAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTT
1 TACCCTGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAATTT
*
68880703 GTAAAATTACCAAAA
66 ATAAAATTACCAAAA
* * * * * * ** *
68880718 TACAACTGGTTTGTGAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATT
1 TAC-CCTGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAATT
*
68880783 TATAAAATTACAAAAA
65 TATAAAATTACCAAAA
* * **
68880799 TACCCTTGACTGTCTA-AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCC
1 TACCC-TGA-T-T-TATAAAATTACTA-AAATACCCTTAGTTTACAAAATTACCAAAATACCC
68880860 TTGGTTTGTA
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
80 61 0.34
81 79 0.44
82 2 0.01
83 35 0.20
84 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (80 bp):
TACCCTGATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAATTT
ATAAAATTACCAAAA
Found at i:68880994 original size:26 final size:26
Alignment explanation
Indices: 68880907--68880998 Score: 66
Period size: 26 Copynumber: 3.5 Consensus size: 26
68880897 AAATGACCAA
* *
68880907 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGA-CGT
* * *
68880934 AA-AGCCTCTGTAGGGTAAAGTGACGT
1 AATA-CCCCTGTATGGTAAAATGACGT
*
68880960 AATACCCCTGTATGGTAAAATGATG-
1 AATACCCCTGTATGGTAAAATGACGT
68880985 AATACGCCCT-TATG
1 AATAC-CCCTGTATG
68880999 TTCCGTATGA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
25 9 0.17
26 27 0.52
27 15 0.29
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (26 bp):
AATACCCCTGTATGGTAAAATGACGT
Found at i:68888473 original size:24 final size:25
Alignment explanation
Indices: 68888446--68888508 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
68888436 TCAACCGTAT
* * *
68888446 TCGCACACATAGTGCTA-ATTACAC
1 TCGCACACATAGTGCCATAGTAAAC
68888470 TCGCACACATAGTGCCATAGTAAAC
1 TCGCACACATAGTGCCATAGTAAAC
68888495 -CGCACACATAGTGC
1 TCGCACACATAGTGC
68888509 ATTGGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (25 bp):
TCGCACACATAGTGCCATAGTAAAC
Found at i:68903378 original size:16 final size:16
Alignment explanation
Indices: 68903359--68903389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68903349 CTTCTTCACT
68903359 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68903375 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68903390 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68903395 original size:20 final size:20
Alignment explanation
Indices: 68903356--68903395 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68903346 AAACTTCTTC
* *
68903356 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
68903376 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
68903396 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:68903763 original size:55 final size:53
Alignment explanation
Indices: 68903628--68903836 Score: 217
Period size: 55 Copynumber: 3.8 Consensus size: 53
68903618 ATCCTTTTGA
* * * *
68903628 AACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * *
68903681 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * *
68903735 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCC--ATAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
68903788 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
68903837 AACTCAAATG
Statistics
Matches: 129, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 48 0.37
54 9 0.07
55 68 0.53
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:68910582 original size:28 final size:27
Alignment explanation
Indices: 68910508--68910601 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
68910498 NNNNNNNNNN
*
68910508 GGTAGAATTATCGAAATACCCTTGTAG
1 GGTAGAATTACCGAAATACCCTTGTAG
* *
68910535 GGTAGAAATACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCTTGTAG
* *
68910562 GGTAGAATTACCGAAGATACCATTGTGG
1 GGTAGAATTACCGAA-ATACCCTTGTAG
*
68910590 GGTAAAATTACC
1 GGTAGAATTACC
68910602 ATTTTGCCCC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 38 0.66
28 20 0.34
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (27 bp):
GGTAGAATTACCGAAATACCCTTGTAG
Found at i:68910845 original size:27 final size:28
Alignment explanation
Indices: 68910801--68910889 Score: 123
Period size: 27 Copynumber: 3.3 Consensus size: 28
68910791 GGAGGAAGCG
68910801 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
68910829 TTCTGGT-GTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
68910855 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
68910882 ATT-TGGTG
1 -TTCTGGTG
68910890 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
26 15 0.27
27 31 0.56
28 9 0.16
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:68910900 original size:27 final size:26
Alignment explanation
Indices: 68910800--68910909 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 26
68910790 CGGAGGAAGC
* *
68910800 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGACTCTGCCAC-AATATCT
* *
68910827 GTTTCTGGTG-TTATGCCACAAATATCT
1 G-TTCTGGTGACTCTGCCAC-AATATCT
*
68910854 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGACTCTGCCACAATATCT
* * *
68910880 GTATTTGGTGACTCTGTCACAATATTT
1 GT-TCTGGTGACTCTGCCACAATATCT
68910907 GTT
1 GTT
68910910 GAAGGCTGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.25
27 47 0.64
28 8 0.11
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGACTCTGCCACAATATCT
Found at i:68910901 original size:54 final size:53
Alignment explanation
Indices: 68910800--68910909 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
68910790 CGGAGGAAGC
*
68910800 GTTCTGGTGGCTATGCCACAAATATCTGTTTCTGGTGTTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTTTCTGGTGCTATGCCAC-AATATCT
* * * *
68910854 GTTCTGGTGGCTCTGCCAC-AATATCTGTATT-TGGTGACTCTGTCACAATATTT
1 GTTCTGGTGGCTATGCCACAAATATCTGT-TTCTGGTG-CTATGCCACAATATCT
68910907 GTT
1 GTT
68910910 GAAGGCTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
53 23 0.47
54 26 0.53
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (53 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTTTCTGGTGCTATGCCACAATATCT
Found at i:68911420 original size:6 final size:6
Alignment explanation
Indices: 68911411--68911573 Score: 149
Period size: 6 Copynumber: 26.8 Consensus size: 6
68911401 TTGCATTCAC
* *
68911411 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
68911460 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTTTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
68911509 ATTTTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
68911557 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
68911574 CATTTTGGTT
Statistics
Matches: 131, Mismatches: 12, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
5 9 0.07
6 110 0.84
7 9 0.07
8 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:68911495 original size:55 final size:55
Alignment explanation
Indices: 68911411--68911568 Score: 207
Period size: 55 Copynumber: 2.9 Consensus size: 55
68911401 TTGCATTCAC
* *
68911411 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTA
* *
68911466 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTTTGATTTTGTTACTA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTA
* *
68911521 ATAT-TGATTCTGATTCTG--ATTCTGATTCTG-TTACTGATTCTGATTCTG
1 AT-TCTGATTCTGATTCTGTCA-CCTAATTCTGATT-CTGATTCTGATTCTG
68911569 ATTCTCATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
53 3 0.03
54 21 0.23
55 67 0.73
56 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (55 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTA
Found at i:68911594 original size:36 final size:34
Alignment explanation
Indices: 68911436--68911594 Score: 111
Period size: 36 Copynumber: 4.7 Consensus size: 34
68911426 CTGTCACGTA
* *
68911436 ATTCTGATTCTGATTCTGATTCTG-TTACTGATTCTG
1 ATTCTGATTTTG-TTC-AATTCTGATT-CTGATTCTG
* * *
68911472 ATTCTGATTCTG-TC-A-CCTAATTCTGATTCTG
1 ATTCTGATTTTGTTCAATTCTGATTCTGATTCTG
*
68911503 ATTTTGATTTTGTTACTAATAT-TGATTCTGATTCTG
1 ATTCTGATTTTGTT-C-AAT-TCTGATTCTGATTCTG
*
68911539 ATTCTGATTCTGTT--A--CTGATTCTGATTCTG
1 ATTCTGATTTTGTTCAATTCTGATTCTGATTCTG
*
68911569 ATTCTCATTTTGGTTCCAATTCTGAT
1 ATTCTGATTTT-GTT-CAATTCTGAT
68911595 AATGTTTCTT
Statistics
Matches: 99, Mismatches: 10, Indels: 28
0.72 0.07 0.20
Matches are distributed among these distances:
30 23 0.23
31 24 0.24
32 5 0.05
33 1 0.01
34 3 0.03
35 1 0.01
36 42 0.42
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (34 bp):
ATTCTGATTTTGTTCAATTCTGATTCTGATTCTG
Found at i:68912106 original size:26 final size:27
Alignment explanation
Indices: 68912066--68912128 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
68912056 GTGGGATCCT
*
68912066 TGCCACAAATATCTGT-TCTGGTGGCTC
1 TGCCAC-AATATCTGTATCTGGTGACTC
*
68912093 TGCCACAATATCTGTATTTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
68912120 TGTCACAAT
1 TGCCACAAT
68912129 TTTTGTTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:68913276 original size:39 final size:39
Alignment explanation
Indices: 68913233--68913372 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
68913223 CAAGATACTT
* **
68913233 GAAATGTATCTGGGCTAAAGTCCCACAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
*
68913272 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCATGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
* * *
68913311 GAAATGTATTCGGGCTAAAGTCCCGTAAGCTTCGTGCAG
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
68913350 GAAATGTATCCGGGCTAAAGTCC
1 GAAATGTATCCGGGCTAAAGTCC
68913373 TGCGGACTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
Found at i:68917626 original size:16 final size:16
Alignment explanation
Indices: 68917607--68917637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68917597 CTTCTTCACT
68917607 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68917623 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68917638 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68917643 original size:20 final size:20
Alignment explanation
Indices: 68917604--68917643 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
68917594 AAACTTCTTC
* *
68917604 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
68917624 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
68917644 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:68918020 original size:108 final size:110
Alignment explanation
Indices: 68917876--68918076 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
68917866 ATCCTTTTGA
* *
68917876 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
68917939 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
* * * *
68917984 AACTTATCAATGCCATGTCTTGACA-GAGTCTTACATGATTTCCTTGCCTTAGAAACCTTATCAA
1 AACTTACCAATGCCATGTCTTGACATG-GTCTTACATGATATCCTTGCCTTAGAAACCTCACCAA
68918048 TTGCCATGCCTTGGCATGGTCTTACATGG
65 TTGCCATGCCTTGGCATGGTCTTACATGG
68918077 TATCCTTGAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 6 0.07
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
Found at i:68918084 original size:55 final size:53
Alignment explanation
Indices: 68917852--68918084 Score: 219
Period size: 55 Copynumber: 4.4 Consensus size: 53
68917842 TGACTTGTTG
* * * *
68917852 TGGTCTTACGTGGTATCCTT---TT-GAAACTTACCATTGCCATGTCTTGACA
1 TGGTCTTACATGGTATCCTTGCCTTAGAAACTTATCAATGCCATGCCTTGACA
* * * * *
68917901 TGGTCTTACATGATATCCTTTCCTTATG-AACTCACCAATGCCATGCCTTGGCA
1 TGGTCTTACATGGTATCCTTGCCTTA-GAAACTTATCAATGCCATGCCTTGACA
* * *
68917954 TGGTCTTACATGGGA-CCTTTGCCTTACAGTAACTTATCAATGCCATGTCTTGACA
1 TGGTCTTACATGGTATCC-TTGCCTT--AGAAACTTATCAATGCCATGCCTTGACA
* * *
68918009 -GAGTCTTACATGATTTCCTTGCCTTAGAAACCTTATCAATTGCCATGCCTTGGCA
1 TG-GTCTTACATGGTATCCTTGCCTTAGAAA-CTTATCAA-TGCCATGCCTTGACA
68918064 TGGTCTTACATGGTATCCTTG
1 TGGTCTTACATGGTATCCTTG
68918085 AACCCTAATG
Statistics
Matches: 149, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
49 18 0.12
52 4 0.03
53 44 0.30
54 11 0.07
55 69 0.46
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGGTCTTACATGGTATCCTTGCCTTAGAAACTTATCAATGCCATGCCTTGACA
Found at i:68920463 original size:22 final size:23
Alignment explanation
Indices: 68920435--68920478 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
68920425 TATCCCTACA
*
68920435 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
68920457 TGGAGTGTAGAGGATGGATGGA
1 TGGAGTGTAGAGGATGGATGGA
68920479 TAGGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.23, C:0.02, G:0.52, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:68926850 original size:403 final size:403
Alignment explanation
Indices: 68926103--68926912 Score: 1449
Period size: 403 Copynumber: 2.0 Consensus size: 403
68926093 CGCATATATT
*
68926103 GCTTTTATTCCTTTATAGCCAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
1 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
68926168 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
66 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
**
68926233 GTTAAGCAAACCATTTCAAAGCATTTAGGCTATAACGAATATTATACCTTCACGACATATGACTA
131 GTTAAGCAAACCATTTCAAAGCATTTAGGCTATAACGAATATTATAAATTCACGACATATGACTA
*
68926298 TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATATAAAAATAAAAGATTAGCCATT
196 TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
*
68926363 TTCGTATGGCTTATATACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
261 TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
*
68926428 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAGATAGTGTGATGAGCTTGGCTGACAGT
326 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
68926493 TCCCGAGCTTGTA
391 TCCCGAGCTTGTA
68926506 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
1 GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
*
68926571 AATTTACTTATAATCAATCTCACTTAACATTCAAGCTAAGAACACATAAGACCAAACCTAATCAT
66 AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
* * * * *
68926636 GTTAAGCAAACCATTTCAAAGCATTTAGGCTGTCACGAATATTATAAATTTATGGCATATGACTA
131 GTTAAGCAAACCATTTCAAAGCATTTAGGCTATAACGAATATTATAAATTCACGACATATGACTA
* **
68926701 TAAAACTAAAATAAACTTAACTCATACTTACCATGACTGAATACAAAAATAAAAGATTAGCCATT
196 TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
* * * *
68926766 TTCGTATGGCTTATACACATAACCAATATTTAGCATTTCAAAGGTAAATTCTAGCCTATACATGC
261 TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
68926831 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
326 CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
68926896 TCCCGAGCTTGTA
391 TCCCGAGCTTGTA
68926909 GCTT
1 GCTT
68926913 GACTTTAAAA
Statistics
Matches: 388, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
403 388 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (403 bp):
GCTTTTATTCCTTTATAGCAAAATTTACTACCTAACACCACATGCACAACCAAGTTTCCTTTAGT
AATTTACTTATAATCAATCTCACTTAACATTCAAGCCAAGAACACATAAGACCAAACCTAATCAT
GTTAAGCAAACCATTTCAAAGCATTTAGGCTATAACGAATATTATAAATTCACGACATATGACTA
TAAAACTAAAATAAACTTAACTCATACTCACCATGACCAAATACAAAAATAAAAGATTAGCCATT
TTCGTATGGCTTATACACATAACCAACATTCAACATTTCAAAGGTAAATTCCAGCCTATACATGC
CATAATTTAAGTTTAGCTAAAAAGGTACCAAAACAGTAAATAGTGTGATGAGCTTGGCTGACAGT
TCCCGAGCTTGTA
Found at i:68936731 original size:41 final size:41
Alignment explanation
Indices: 68936560--68936741 Score: 176
Period size: 41 Copynumber: 4.5 Consensus size: 41
68936550 GGGTTTAAAT
68936560 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* * *
68936601 CCGAACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTTTCGAAGGGCCTTT-GAGCCAGTGCTAATAA
* * **
68936641 CCG-GACTTAGTTCCGAAGGGCCTTCAAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTTTCGAAGGGCCTTTGAGCCAGT-G-CTAATAA
* * *
68936682 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAA
1 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* * *
68936723 TCGGGCTTGATTTCGAAGG
1 CCGAGCTTGGTTTCGAAGG
68936742 ATGTTTGTGC
Statistics
Matches: 113, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
39 4 0.04
40 34 0.30
41 71 0.63
42 1 0.01
43 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
Found at i:68939038 original size:27 final size:27
Alignment explanation
Indices: 68938998--68939096 Score: 128
Period size: 27 Copynumber: 3.6 Consensus size: 27
68938988 AGGAAGCGTC
*
68938998 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
68939025 CTGGTGGCTCTGCCACACATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
68939052 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
68939080 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
68939097 TTAACTATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.05
27 41 0.66
28 18 0.29
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:68940178 original size:11 final size:10
Alignment explanation
Indices: 68940150--68940183 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
68940140 AGCCTGTAAG
68940150 TATTCTGAAT
1 TATTCTGAAT
*
68940160 TTTTCTGAAT
1 TATTCTGAAT
68940170 ATATTCTGAAT
1 -TATTCTGAAT
68940181 TAT
1 TAT
68940184 CTGTTTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:68946886 original size:27 final size:27
Alignment explanation
Indices: 68946835--68946934 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
68946825 AGGAAGTGTC
*
68946835 CTGGTGGCTATG-C-CATAATTATCTGAT
1 CTGGTGGCTCTGTCACAT-ATT-TCTGAT
*
68946862 CTGGTGGCTCTGTCACATATTTCTGTT
1 CTGGTGGCTCTGTCACATATTTCTGAT
*
68946889 CTGGTGGCTCT-TCCACGAT-TATCTGTAT
1 CTGGTGGCTCTGT-CAC-ATATTTCTG-AT
*
68946917 CTGGTGACTCTGTCACAT
1 CTGGTGGCTCTGTCACAT
68946935 TATCTGTTCT
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
26 1 0.02
27 37 0.60
28 20 0.32
29 4 0.06
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACATATTTCTGAT
Found at i:68946936 original size:27 final size:26
Alignment explanation
Indices: 68946852--68946946 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 26
68946842 CTATGCCATA
*
68946852 ATTATCTGATCTGGTGGCTCTGTCAC
1 ATTATCTGTTCTGGTGGCTCTGTCAC
*
68946878 ATATTTCTGTTCTGGTGGCTCT-TCCAC
1 AT-TATCTGTTCTGGTGGCTCTGT-CAC
*
68946905 GATTATCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTGT-TCTGGTGGCTCTGTCAC
68946933 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
68946947 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
26 8 0.13
27 35 0.58
28 16 0.27
29 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGTCAC
Found at i:68963216 original size:27 final size:27
Alignment explanation
Indices: 68963185--68963362 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68963175 TAAATTGTAC
68963185 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68963212 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68963238 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68963266 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68963294 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68963321 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68963348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68963363 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68963299 original size:82 final size:81
Alignment explanation
Indices: 68963186--68963341 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68963176 AAATTGTACA
* *
68963186 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68963250 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68963267 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68963332 TGCGAGTTGA
65 TGCGAATTGA
68963342 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68963353 original size:82 final size:81
Alignment explanation
Indices: 68963182--68963362 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68963172 GATTAAATTG
* *
68963182 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68963247 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68963263 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68963327 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68963345 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68963363 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68967754 original size:43 final size:42
Alignment explanation
Indices: 68967687--68967841 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
68967677 CTCATACAAT
* *
68967687 GCCAACGTCCCAGACGTGGTCTTACAAGTAATCAAATATAGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATA-AGAA
* * * *
68967730 G-CAATTGTCCCAGACATGGTCTTACACGAAATCAAATACGAA
1 GCCAA-CGTCCCAGACGTGGTCTTACACGTAATCAAATAAGAA
* * *
68967772 GCCAACGTCCCAGACGTGGTCTTACACGTAAAAACCAAAT-TGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGT---AATCAAATAAGAA
*
68967816 GCCAACGTCCCATACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
68967842 TGATTTCACA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.29
43 33 0.35
44 27 0.29
45 7 0.07
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAAGAA
Found at i:68971182 original size:25 final size:25
Alignment explanation
Indices: 68971154--68971201 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
68971144 TTATAATGTA
* *
68971154 AAAATGACCATTTTGCCCCTAGGTG
1 AAAATGACCATTATACCCCTAGGTG
68971179 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
68971202 GATGTGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTG
Found at i:68971258 original size:10 final size:10
Alignment explanation
Indices: 68971245--68971279 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
68971235 TTTATACAAT
68971245 ATATGCCATG
1 ATATGCCATG
*
68971255 ATATGCACATC
1 ATATGC-CATG
68971266 ATATGCCATG
1 ATATGCCATG
68971276 ATAT
1 ATAT
68971280 ATTCATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:68971381 original size:24 final size:25
Alignment explanation
Indices: 68971324--68971381 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
68971314 GAAGGAAGTG
68971324 CAAAA-AGGCTTTGCCCCAGTTTAT
1 CAAAAGAGGCTTTGCCCCAGTTTAT
* *
68971348 CGAAAG-GGCTTTGCCCTAG-TTAT
1 CAAAAGAGGCTTTGCCCCAGTTTAT
*
68971371 TAAAAGAGGCT
1 CAAAAGAGGCT
68971382 AGGCCTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:68978910 original size:25 final size:25
Alignment explanation
Indices: 68978881--68978931 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
68978871 CCCTTATAAT
* *
68978881 GTGAAAATAACCATTTTGCCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
*
68978906 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATAACCATTATACCCCTAG
68978931 G
1 G
68978932 GATGTGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (25 bp):
GTGAAAATAACCATTATACCCCTAG
Found at i:68978984 original size:10 final size:10
Alignment explanation
Indices: 68978971--68979009 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
68978961 CTGTTTTATA
68978971 CATGATATGC
1 CATGATATGC
68978981 CATGATATGC
1 CATGATATGC
68978991 ACATGATATGC
1 -CATGATATGC
68979002 CATGATAT
1 CATGATAT
68979010 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:68978996 original size:21 final size:21
Alignment explanation
Indices: 68978970--68979009 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
68978960 ACTGTTTTAT
68978970 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
68978991 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
68979010 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:68979112 original size:24 final size:24
Alignment explanation
Indices: 68979054--68979136 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
68979044 GGAGGAAGTA
*
68979054 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
68979078 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
68979103 CAAAAGGGCTTCGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
68979126 GAAAAGAGGCT
1 CAAAAG-GGCT
68979137 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 9 0.17
24 22 0.41
25 23 0.43
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:68979147 original size:49 final size:49
Alignment explanation
Indices: 68979054--68979148 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
68979044 GGAGGAAGTA
* **
68979054 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTCGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
*
68979103 CAAAAGGGCTTCGCCCCAG-TTA-TGAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTCGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
68979149 ATATGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 6 0.15
48 10 0.25
49 24 0.60
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (49 bp):
CAAAAGGGCTTCGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:68979205 original size:24 final size:24
Alignment explanation
Indices: 68979173--68979218 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
68979163 CTATGCTGCT
68979173 AGTGGAGAGTTTGGTTGGGTGGGC
1 AGTGGAGAGTTTGGTTGGGTGGGC
68979197 AGTGGAGAGTTTGGTTGGGTGG
1 AGTGGAGAGTTTGGTTGGGTGG
68979219 TTTGAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.02, G:0.54, T:0.30
Consensus pattern (24 bp):
AGTGGAGAGTTTGGTTGGGTGGGC
Found at i:68980685 original size:9 final size:9
Alignment explanation
Indices: 68980671--68980707 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
68980661 AAAAGGGACT
68980671 AAATTGTAA
1 AAATTGTAA
68980680 AAATTGTAA
1 AAATTGTAA
68980689 AAATTGTAA
1 AAATTGTAA
68980698 AAATTGTAA
1 AAATTGTAA
68980707 A
1 A
68980708 TGTTAGGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (9 bp):
AAATTGTAA
Found at i:68982758 original size:39 final size:40
Alignment explanation
Indices: 68982650--68982834 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
68982640 TCGAATGATG
* * *
68982650 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
68982689 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
68982730 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
68982769 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
68982808 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
68982835 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:68982856 original size:79 final size:79
Alignment explanation
Indices: 68982705--68982857 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
68982695 ACTAAGATCT
* **
68982705 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
68982770 CCGGGTTAAGTCCC
66 CCGGGTTAAGTCCC
* *
68982784 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
*
68982847 TATCC-GGTTAA
63 AATCCGGGTTAA
68982858 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAGTCCC
Found at i:68995406 original size:28 final size:28
Alignment explanation
Indices: 68995366--68995429 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
68995356 TGGGAAGTAG
*
68995366 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
*
68995394 TTGGGCCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
68995422 TTGGGCCT
1 TTGGGCCT
68995430 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.38, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGAGA
Found at i:68996087 original size:81 final size:81
Alignment explanation
Indices: 68995746--68996114 Score: 411
Period size: 81 Copynumber: 4.6 Consensus size: 81
68995736 TAATAAAGAG
* * * * * *
68995746 AAATTACTAAAATACCCCTAATTTGTAAAATTATCGAAATACCCCCGGTTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
* * *
68995811 ATACTCTCGATTTGTA
66 ACACCCTCAATTTGTA
*** * * *
68995827 AAATTACCAAAATACCCCCAATTTGTGAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
68995892 ACACCCTCAATTTGTA
66 ACACCCTCAATTTGTA
* * * * * * *
68995908 AAATTATCGAAACA-CCTTCGATTTGTAAAATTACCAAAACACCTTCGATTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTT-GATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGA
*
68995972 AATACCCTCAATTTGTA
65 AACACCCTCAATTTGTA
* * *
68995989 AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCATTGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
* *
68996054 ACA-CCTCTGATTTATA
66 ACACCCTC-AATTTGTA
* * *
68996070 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 AAATTACCAAAATACCCTTGAT-TTGTAAAATTACCGAAATACCCT
68996115 TGTAGGGTAA
Statistics
Matches: 246, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 7 0.03
81 235 0.96
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
ACACCCTCAATTTGTA
Found at i:68996119 original size:27 final size:27
Alignment explanation
Indices: 68995746--68996116 Score: 365
Period size: 27 Copynumber: 13.7 Consensus size: 27
68995736 TAATAAAGAG
** * *
68995746 AAATTACTAAAATACCCCTAATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* ** *
68995773 AAATTATCGAAATACCCCCGGTTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *
68995800 AAATTACCGAAATACTCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *** *
68995827 AAATTACCAAAATACCCCCAATTTGTG
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
68995854 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* **
68995881 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *
68995908 AAATTATCGAAACA-CCTTCGATTTGTA
1 AAATTACCGAAATACCCTT-GATTTGTA
68995935 AAATTACC-AAA-ACACCTTCGATTTGTA
1 AAATTACCGAAATAC-CCTT-GATTTGTA
* **
68995962 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*
68995989 AAATTACCAAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *
68996016 AAATTACCAAAATACCATTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* *
68996043 AAATTACCGAAACA-CCTCTGATTTATA
1 AAATTACCGAAATACCCT-TGATTTGTA
* *
68996070 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTTGAT-TTGTA
68996097 AAATTACCGAAATACCCTTG
1 AAATTACCGAAATACCCTTG
68996117 TAGGGTAAAA
Statistics
Matches: 295, Mismatches: 41, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 9 0.03
27 274 0.93
28 9 0.03
29 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGATTTGTA
Found at i:68996124 original size:27 final size:27
Alignment explanation
Indices: 68995958--68996154 Score: 152
Period size: 27 Copynumber: 7.3 Consensus size: 27
68995948 ACCTTCGATT
* ** *
68995958 TGTAAAATTACCAAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
68995985 TGTAAAATTACCAAAATACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
68996012 TGTAAAATTACCAAAATACCATTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
68996039 TGTAAAATTACCGAAACA-CCTCTG-ATT
1 TGTAAAATTACCGAAATACCCT-TGTA-G
* *
68996066 TATAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
68996093 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
68996120 GGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
68996147 GGTAAAAT
1 TGTAAAAT
68996155 GACTGTTTTG
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 144 0.95
28 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:68998187 original size:28 final size:27
Alignment explanation
Indices: 68998132--68998243 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
68998122 AGCATGGCTG
* *
68998132 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
68998158 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
68998186 CCAGAACAGA-AATATGTGGCAGGGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
68998213 CCAGATCAGATAATTGTGGTATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
68998240 CCAG
1 CCAG
68998244 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:68998223 original size:54 final size:54
Alignment explanation
Indices: 68998132--68998243 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
68998122 AGCATGGCTG
* *
68998132 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * * *
68998186 CCAGAACAGAAATATGTGGCAGGGCCACCAGAT-CAGATAATTGTGGTATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
68998240 CCAG
1 CCAG
68998244 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:68998661 original size:16 final size:15
Alignment explanation
Indices: 68998640--68998669 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
68998630 AAAATACCAA
68998640 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
68998656 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
68998670 CTGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:69005243 original size:17 final size:18
Alignment explanation
Indices: 69005221--69005254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69005211 TTTTGGGCTA
69005221 TGTGGG-CCACACGGGCG
1 TGTGGGACCACACGGGCG
*
69005238 TGTGGGACCACATGGGC
1 TGTGGGACCACACGGGC
69005255 CCACAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.44, T:0.15
Consensus pattern (18 bp):
TGTGGGACCACACGGGCG
Found at i:69005488 original size:80 final size:81
Alignment explanation
Indices: 69005360--69005552 Score: 257
Period size: 80 Copynumber: 2.4 Consensus size: 81
69005350 TGTACCTGGA
69005360 CCCTTA-ATCGGTAAAATGACTATTTTGCCCTTATAAAGTAAAATGACTGTTTTGCCCTTATGAG
1 CCCTTATAT-GGTAAAATGACTATTTTGCCCTTATAAAGTAAAATGACTGTTTTGCCCTTATGAG
* *
69005424 GTAAAATAATTGTTTTG
65 GTAAAATAACTATTTTG
* * * * *
69005441 CCCTTATGA-GGTAAAATGA-TTTTTTTCCCTTATGAGGTTAAATGACTGTTTTGCCCTTATGAG
1 CCCTTAT-ATGGTAAAATGACTATTTTGCCCTTATAAAGTAAAATGACTGTTTTGCCCTTATGAG
* *
69005504 GTAAAATGACTATTTTT
65 GTAAAATAACTATTTTG
*
69005521 CCCTTATATGGTAAAATGACTGTTTTGCCCTT
1 CCCTTATATGGTAAAATGACTATTTTGCCCTT
69005553 TTATGGTAAG
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 69 0.71
81 26 0.27
83 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (81 bp):
CCCTTATATGGTAAAATGACTATTTTGCCCTTATAAAGTAAAATGACTGTTTTGCCCTTATGAGG
TAAAATAACTATTTTG
Found at i:69005561 original size:27 final size:27
Alignment explanation
Indices: 69005369--69005552 Score: 255
Period size: 27 Copynumber: 6.9 Consensus size: 27
69005359 ACCCTTAATC
* *
69005369 GGTAAAATGACTATTTTGCCCTTATAA
1 GGTAAAATGACTGTTTTGCCCTTATGA
*
69005396 AGTAAAATGACTGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
69005423 GGTAAAATAATTGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
69005450 GGTAAAATGA-TTTTTTTCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
*
69005476 GGTTAAATGACTGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
69005503 GGTAAAATGACTATTTTTCCCTTAT-A
1 GGTAAAATGACTGTTTTGCCCTTATGA
69005529 TGGTAAAATGACTGTTTTGCCCTT
1 -GGTAAAATGACTGTTTTGCCCTT
69005553 TTATGGTAAG
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 24 0.17
27 114 0.83
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGA
Found at i:69012099 original size:17 final size:19
Alignment explanation
Indices: 69012063--69012104 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
69012053 TATAAACATT
69012063 TTAAATTAAACAAAATAAA
1 TTAAATTAAACAAAATAAA
*
69012082 TTAAATTAGA-AAAA-AAA
1 TTAAATTAAACAAAATAAA
69012099 TTAAAT
1 TTAAAT
69012105 CTTAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TTAAATTAAACAAAATAAA
Found at i:69016379 original size:34 final size:33
Alignment explanation
Indices: 69016295--69016381 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
69016285 CTGTATTGAG
*
69016295 ATGGGCTAAGGCCCAGACTACCTATGTTACTGAA
1 ATGGGCT-AGGCCCAGACTGCCTATGTTACTGAA
*
69016329 ATGGGCTAGGCCCAGACTGCCTCTGTTACTGAA
1 ATGGGCTAGGCCCAGACTGCCTATGTTACTGAA
69016362 ATGGGCTCAGGCCCAGACTG
1 ATGGGCT-AGGCCCAGACTG
69016382 ATACTATTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 31 0.62
34 19 0.38
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (33 bp):
ATGGGCTAGGCCCAGACTGCCTATGTTACTGAA
Found at i:69016392 original size:34 final size:33
Alignment explanation
Indices: 69016282--69016396 Score: 121
Period size: 34 Copynumber: 3.5 Consensus size: 33
69016272 CTTTGTTTGC
* *
69016282 ATACTG-TATTGAGATGGGCTAAGGCCCAGACT-
1 ATACTGTTACTGAAATGGGCT-AGGCCCAGACTG
69016314 ACCTA-TGTTACTGAAATGGGCTAGGCCCAGACTG
1 A--TACTGTTACTGAAATGGGCTAGGCCCAGACTG
*
69016348 CCT-CTGTTACTGAAATGGGCTCAGGCCCAGACTG
1 -ATACTGTTACTGAAATGGGCT-AGGCCCAGACTG
*
69016382 ATACTATTACTGAAA
1 ATACTGTTACTGAAA
69016397 AATAGGATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
32 1 0.01
33 32 0.46
34 37 0.53
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (33 bp):
ATACTGTTACTGAAATGGGCTAGGCCCAGACTG
Found at i:69023551 original size:28 final size:28
Alignment explanation
Indices: 69023520--69023611 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
69023510 AACCGAGCAA
69023520 TATGTGTGCGAGATCGGGTGTAAGGCAC
1 TATGTGTGCGAGATCGGGTGTAAGGCAC
* ** *
69023548 TATGTGTGCGAAAT--TAT-TAACCGAGAAC
1 TATGTGTGCGAGATCGGGTGTAA--G-GCAC
69023576 TATGTGTGCGAGATCGGGTGTAAGGCAC
1 TATGTGTGCGAGATCGGGTGTAAGGCAC
*
69023604 TGTGTGTG
1 TATGTGTG
69023612 TGCAAAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 39 0.80
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (28 bp):
TATGTGTGCGAGATCGGGTGTAAGGCAC
Found at i:69023581 original size:56 final size:56
Alignment explanation
Indices: 69023490--69023611 Score: 192
Period size: 56 Copynumber: 2.2 Consensus size: 56
69023480 GAATATATGA
* *
69023490 ACTAGGTGTGCGAGATTAGTAACCGAGCAATATGTGTGCGAGATCGGGTGTAAGGC
1 ACTATGTGTGCGAAATTAGTAACCGAGCAATATGTGTGCGAGATCGGGTGTAAGGC
*
69023546 ACTATGTGTGCGAAATTATTAACCGAG-AACTATGTGTGCGAGATCGGGTGTAAGGC
1 ACTATGTGTGCGAAATTAGTAACCGAGCAA-TATGTGTGCGAGATCGGGTGTAAGGC
*
69023602 ACTGTGTGTG
1 ACTATGTGTG
69023612 TGCAAAATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 2 0.03
56 59 0.97
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (56 bp):
ACTATGTGTGCGAAATTAGTAACCGAGCAATATGTGTGCGAGATCGGGTGTAAGGC
Found at i:69023729 original size:50 final size:50
Alignment explanation
Indices: 69023652--69023752 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
69023642 TATGGCGTGA
*
69023652 GATAAAAATTTGGTTTCTATCAAAGGTAATTAAGAAGATGAAATGTGTAG
1 GATAAAAATTTGGTTTCTATCAAAGGTAATTAAAAAGATGAAATGTGTAG
* *
69023702 GATAAGAATTTGGTTTCTATCATAGGTAATTAAAAAGATGAAATGTGTAG
1 GATAAAAATTTGGTTTCTATCAAAGGTAATTAAAAAGATGAAATGTGTAG
69023752 G
1 G
69023753 GGATATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.33
Consensus pattern (50 bp):
GATAAAAATTTGGTTTCTATCAAAGGTAATTAAAAAGATGAAATGTGTAG
Found at i:69025786 original size:52 final size:52
Alignment explanation
Indices: 69025725--69025828 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
69025715 TTCTTTTTCG
*
69025725 GCTGCAAAGAAGTTCAGAGATGATACTAACAGATCGAGGACGACAGCAGGAA
1 GCTGCAAAGAAGTTCAGAGATGATACTAACAGATCAAGGACGACAGCAGGAA
69025777 GCTGCAAAGAAGTTCAGAGATGATACTAACAGATCAAGGACGACAGCAGGAA
1 GCTGCAAAGAAGTTCAGAGATGATACTAACAGATCAAGGACGACAGCAGGAA
69025829 TTTCTATTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.13
Consensus pattern (52 bp):
GCTGCAAAGAAGTTCAGAGATGATACTAACAGATCAAGGACGACAGCAGGAA
Found at i:69031353 original size:28 final size:28
Alignment explanation
Indices: 69031322--69031423 Score: 111
Period size: 28 Copynumber: 3.6 Consensus size: 28
69031312 ATGAATATAT
69031322 GCACTATGTGTGCGAGATTAGTAACCGA
1 GCACTATGTGTGCGAGATTAGTAACCGA
* *
69031350 GCACTATGTGTGCAAGATCGAGTGTAA--G-
1 GCACTATGTGTGCGAGAT-TA--GTAACCGA
* *
69031378 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAGATTAGTAACCGA
*
69031406 GCACTATGTGTACGAGAT
1 GCACTATGTGTGCGAGAT
69031424 CGGGTGTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 3 0.05
27 2 0.03
28 49 0.82
29 2 0.03
31 4 0.07
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATTAGTAACCGA
Found at i:69031408 original size:56 final size:56
Alignment explanation
Indices: 69031322--69031438 Score: 189
Period size: 56 Copynumber: 2.1 Consensus size: 56
69031312 ATGAATATAT
* *
69031322 GCACTATGTGTGCGAGATTAGTAACCGAGCACTATGTGTGCAAGATCGAGTGTAAG
1 GCACTATGTGTGCGAAATTAGTAACCGAGCACTATGTGTACAAGATCGAGTGTAAG
* * *
69031378 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTACGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTAGTAACCGAGCACTATGTGTACAAGATCGAGTGTAAG
69031434 GCACT
1 GCACT
69031439 GTGATACGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTAGTAACCGAGCACTATGTGTACAAGATCGAGTGTAAG
Found at i:69031437 original size:28 final size:28
Alignment explanation
Indices: 69031350--69031438 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
69031340 TAGTAACCGA
*
69031350 GCACTATGTGTGCAAGATCGAGTGTAAG
1 GCACTATGTGTGCGAGATCGAGTGTAAG
* *
69031378 GCACTATGTGTGCGAAAT-TA-T-TAACCG
1 GCACTATGTGTGCGAGATCGAGTGTAA--G
* *
69031405 AGCACTATGTGTACGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGAGTGTAAG
69031434 GCACT
1 GCACT
69031439 GTGATACGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 2 0.04
28 37 0.77
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGAGTGTAAG
Found at i:69033354 original size:46 final size:45
Alignment explanation
Indices: 69033301--69033391 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
69033291 GGAATATATA
* *
69033301 TTTATGTATGTGTATATCTCTAAAGATTATAATATAAAGTCTTGG
1 TTTATGTATGTATATATCTCTAAAGATTATAATATAAAATCTTGG
* *
69033346 NTTTATGTATGTATATATGTCTAAAGATTATGATATAAAATCTTGG
1 -TTTATGTATGTATATATCTCTAAAGATTATAATATAAAATCTTGG
69033392 AAGAAGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.44
Consensus pattern (45 bp):
TTTATGTATGTATATATCTCTAAAGATTATAATATAAAATCTTGG
Found at i:69034785 original size:13 final size:14
Alignment explanation
Indices: 69034764--69034796 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
69034754 TTTATTAATG
69034764 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
69034778 AAATTATTAAATAT
1 AAATTATTAAATAT
69034792 AAATT
1 AAATT
69034797 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:69035720 original size:21 final size:20
Alignment explanation
Indices: 69035691--69035730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
69035681 AATGGCTCCG
69035691 ATCTAATTGAAAGAATTGAA
1 ATCTAATTGAAAGAATTGAA
* *
69035711 ATCTCAATTGCAAGAGTTGA
1 ATCT-AATTGAAAGAATTGA
69035731 CAGATAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
ATCTAATTGAAAGAATTGAA
Found at i:69037376 original size:30 final size:30
Alignment explanation
Indices: 69037342--69037400 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
69037332 ATTTTCGGGC
* *
69037342 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTGCCAAAGT
*
69037372 CTAGGGGCACAATGGTCATTTTGCCAAAG
1 CTAGGGGCAAAATGGTCATTTTGCCAAAG
69037401 ATATGAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTGCCAAAGT
Found at i:69040235 original size:46 final size:46
Alignment explanation
Indices: 69040168--69040431 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 46
69040158 AACCCGCCCC
*
69040168 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGGCATTCGCATCCA
* * *
69040214 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGG--G-C-A-TTCGCATCCA
* * * * **
69040262 TCA-CGAACTCGGACCCAACTCAACAAGTTCGGACGCTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGGCATTCGCATCCA
* * *
69040307 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGG--G-C-A-TTCGCATCCA
* * * *
69040355 TCA-CGAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGGCATTCGCATCCA
*
69040400 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCG
69040432 AATGCTCAAC
Statistics
Matches: 167, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.02
43 7 0.04
44 2 0.01
45 4 0.02
46 82 0.49
47 52 0.31
48 5 0.03
49 2 0.01
50 7 0.04
51 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGGCATTCGCATCCA
Found at i:69040284 original size:47 final size:47
Alignment explanation
Indices: 69040219--69040387 Score: 209
Period size: 47 Copynumber: 3.6 Consensus size: 47
69040209 ATCCATAAGT
* *
69040219 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACCCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * * *
69040266 GAACTCGGACCCAACTCAACAAGTTCGGACG-CTCGCATCCA--TAAGT
1 GAACTCGGACCCAACTCAACAAGTTCGGATGCCTAG-TTACATTTCA-C
* *
69040312 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACCCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
69040359 GAACTCGGACCCAACTCAACAAGTTCGGA
1 GAACTCGGACCCAACTCAACAAGTTCGGA
69040388 CATTCGCATC
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 34 0.34
47 61 0.62
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCGGACCCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:69040288 original size:93 final size:93
Alignment explanation
Indices: 69040173--69040436 Score: 474
Period size: 93 Copynumber: 2.8 Consensus size: 93
69040163 GCCCCTAAGT
* * *
69040173 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69040238 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
**
69040266 GAACTCGGACCCAACTCAACAAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69040331 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
69040359 GAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69040424 CGAGTTCGAATGC
66 CGAGTTCGGATGC
69040437 TCAACCATCC
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGGACCCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:69040452 original size:46 final size:44
Alignment explanation
Indices: 69040216--69040441 Score: 138
Period size: 47 Copynumber: 4.9 Consensus size: 44
69040206 CGCATCCATA
*
69040216 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACATCTC
* * * * * *
69040264 A-CGAACTCGGACCCAACTCAACAAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACAT-C-TC
*
69040309 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACATCTC
* * * * * *
69040357 A-CGAACTCGGACCCAACTCAACAAGTTCGGACAT-TC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCAACAT-C-TC
*
69040402 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAAC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAAC
69040442 CATCCTAGTG
Statistics
Matches: 134, Mismatches: 27, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 5 0.04
46 55 0.41
47 56 0.42
48 5 0.04
49 2 0.01
50 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACATCTC
Found at i:69040890 original size:30 final size:30
Alignment explanation
Indices: 69040856--69040915 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
69040846 ATTTAATACG
* *
69040856 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACAATGTTGCCCCTA
* * *
69040886 AACTTTTGCATAATTACAATGTTGCCCCTA
1 AACTTTGGAAAAATTACAATGTTGCCCCTA
69040916 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATGTTGCCCCTA
Found at i:69050484 original size:79 final size:82
Alignment explanation
Indices: 69050373--69050557 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
69050363 GCTACTCGTT
* * *
69050373 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
69050436 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
69050453 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
69050516 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
69050533 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69050558 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:69050557 original size:40 final size:40
Alignment explanation
Indices: 69050354--69050557 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
69050344 CGGAATTTAA
** *
69050354 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69050394 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69050434 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69050473 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69050513 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69050553 CCGGA
1 CCGGA
69050558 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69057710 original size:40 final size:39
Alignment explanation
Indices: 69057673--69057764 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
69057663 GCTACTCGTT
*
69057673 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
69057713 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
69057752 CAAATGCCTTCGG
1 CAAATGCCTTCGG
69057765 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:69057744 original size:39 final size:40
Alignment explanation
Indices: 69057654--69057817 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
69057644 CGGAATTTAA
** *
69057654 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
69057694 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69057733 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69057773 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69057813 CCGGA
1 CCGGA
69057818 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69070640 original size:23 final size:23
Alignment explanation
Indices: 69070610--69070655 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
69070600 ACGTCACGAC
* *
69070610 GAGGAACTTCCTCGTGTCGCGAT
1 GAGGAACTCCCTCATGTCGCGAT
69070633 GAGGAACTCCCTCATGTCGCGAT
1 GAGGAACTCCCTCATGTCGCGAT
69070656 ATCAATCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (23 bp):
GAGGAACTCCCTCATGTCGCGAT
Found at i:69074566 original size:24 final size:24
Alignment explanation
Indices: 69074527--69074599 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
69074517 AAGTGTAATT
* *
69074527 GTGCTGCCATGGCTGCTTCTTCCA
1 GTGCTGACATGACTGCTTCTTCCA
* *
69074551 GTGCTTACGTGACTGCTTCTTCCA
1 GTGCTGACATGACTGCTTCTTCCA
*
69074575 GTGCTGACATGACTGTTTCTTCCA
1 GTGCTGACATGACTGCTTCTTCCA
69074599 G
1 G
69074600 ATGAGTCGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.12, C:0.29, G:0.23, T:0.36
Consensus pattern (24 bp):
GTGCTGACATGACTGCTTCTTCCA
Found at i:69075042 original size:27 final size:27
Alignment explanation
Indices: 69075010--69075064 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
69075000 AAATTTTGGA
*
69075010 TGATGGTGAGGTTAGATGGAAAATAAG
1 TGATGGTGAGGTTAGATAGAAAATAAG
69075037 TGATGGTGAGGTTAGATAGAAAATAAG
1 TGATGGTGAGGTTAGATAGAAAATAAG
69075064 T
1 T
69075065 TCTAGCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (27 bp):
TGATGGTGAGGTTAGATAGAAAATAAG
Found at i:69085847 original size:38 final size:37
Alignment explanation
Indices: 69085795--69085963 Score: 148
Period size: 38 Copynumber: 4.5 Consensus size: 37
69085785 ATTCGAGCTC
69085795 CGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCT
1 CGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCT
* * *
69085832 CAGTGCCTAACAGGCTTTGTGC-CGATGATATTTGAGCTT
1 C-GTGCCTAGCAGGCTTTGTGCTAG-TGATATTTGGGC-T
* *
69085871 CGTGCCTAGTAGGCTTTGTGCCTA-TGTTATTTGGGCTT
1 CGTGCCTAGCAGGCTTTGTG-CTAGTGATATTTGGGC-T
* ** * *
69085909 TGTATCTAGCATGCTTTGTGC-AGAT-ATTATTAGGGCT
1 CGTGCCTAGCAGGCTTTGTGCTAG-TGA-TATTTGGGCT
69085946 CCGTGCCTAGCAGGCTTT
1 -CGTGCCTAGCAGGCTTT
69085964 ATGTCGGTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 96 0.92
39 3 0.03
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.37
Consensus pattern (37 bp):
CGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCT
Found at i:69085925 original size:76 final size:76
Alignment explanation
Indices: 69085782--69085963 Score: 215
Period size: 76 Copynumber: 2.4 Consensus size: 76
69085772 GAAACATAAC
* *
69085782 ATTATTCGAGCTCCGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCTCAGTGCCTAACAGGC
1 ATTATTAGAGCTCCGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCTCAGTACCTAACAGGC
*
69085847 TTTGTGCCGAT
66 TTTGTGCAGAT
* * * * ** * * *
69085858 GA-TATTTGAGCTTCGTGCCTAGTAGGCTTTGTGCCTA-TGTTATTTGGGCTTTGTATCTAGCAT
1 -ATTATTAGAGCTCCGTGCCTAGCAGGCTTTGTG-CTAGTGATATTTGGGCTCAGTACCTAACAG
69085921 GCTTTGTGCAGAT
64 GCTTTGTGCAGAT
*
69085934 ATTATTAGGGCTCCGTGCCTAGCAGGCTTT
1 ATTATTAGAGCTCCGTGCCTAGCAGGCTTT
69085964 ATGTCGGTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
75 1 0.01
76 83 0.94
77 4 0.05
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (76 bp):
ATTATTAGAGCTCCGTGCCTAGCAGGCTTTGTGCTAGTGATATTTGGGCTCAGTACCTAACAGGC
TTTGTGCAGAT
Found at i:69087243 original size:30 final size:30
Alignment explanation
Indices: 69087209--69087271 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
69087199 ACTTATTTTA
*
69087209 TTGTTAATTTTGTTATAATTTTAAAGGCAT
1 TTGTTAATTTTATTATAATTTTAAAGGCAT
* *
69087239 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATAATTTTAAAGGCAT
69087269 TTG
1 TTG
69087272 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTATAATTTTAAAGGCAT
Found at i:69089659 original size:18 final size:20
Alignment explanation
Indices: 69089619--69089659 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
69089609 ATAAAATGCT
* *
69089619 AAAAGTTTTAATATAAATTA
1 AAAAATTTTAATATAAATAA
69089639 AAAAATTTTAATA-AAA-AA
1 AAAAATTTTAATATAAATAA
69089657 AAA
1 AAA
69089660 TGTGTGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATTTTAATATAAATAA
Found at i:69100139 original size:25 final size:23
Alignment explanation
Indices: 69100100--69100145 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
69100090 ATAGTATAAT
69100100 AAAAATATAACTAATA-ATATTG
1 AAAAATATAACTAATACATATTG
69100122 AAAATATATATACATAATACATAT
1 AAAA-ATATA-AC-TAATACATAT
69100146 AACACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 2 0.10
25 5 0.25
26 4 0.20
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATATAACTAATACATATTG
Found at i:69100165 original size:24 final size:24
Alignment explanation
Indices: 69100138--69100184 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
69100128 TATATACATA
*
69100138 ATACATATAACA-CATATATGATAT
1 ATACATAT-ACATAATATATGATAT
69100162 ATACATATACATAATATATGATA
1 ATACATATACATAATATATGATA
69100185 ACAATACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (24 bp):
ATACATATACATAATATATGATAT
Found at i:69100490 original size:12 final size:13
Alignment explanation
Indices: 69100466--69100496 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
69100456 ATGTATAAAA
69100466 AATATATATACAT
1 AATATATATACAT
69100479 AATATA-ATACAT
1 AATATATATACAT
69100491 AATATA
1 AATATA
69100497 GACACATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
AATATATATACAT
Found at i:69100570 original size:3 final size:3
Alignment explanation
Indices: 69100562--69100591 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
69100552 TGTATTAAAG
69100562 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69100592 TTAAGTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:69106154 original size:25 final size:25
Alignment explanation
Indices: 69106120--69106168 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
69106110 GTATAATTTT
69106120 TATTTTAGAGGCATTTGCTTGTTAC
1 TATTTTAGAGGCATTTGCTTGTTAC
69106145 TATTTTAGAGGCATTTGCTTGTTA
1 TATTTTAGAGGCATTTGCTTGTTA
69106169 AGTTGCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (25 bp):
TATTTTAGAGGCATTTGCTTGTTAC
Found at i:69109698 original size:16 final size:15
Alignment explanation
Indices: 69109672--69109706 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
69109662 TGATGTGAAT
69109672 AATATAAAATATTAA
1 AATATAAAATATTAA
*
69109687 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
69109703 AATA
1 AATA
69109707 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:69110239 original size:16 final size:16
Alignment explanation
Indices: 69110194--69110243 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
69110184 TAATAGATTC
*
69110194 AAAAAAAG-G-AAAAA
1 AAAAAAAGAGTAAAAT
* *
69110208 AAAAAAAAAATAAAAAT
1 AAAAAAAGAGT-AAAAT
69110225 AAAAAAAGAGTAAAAT
1 AAAAAAAGAGTAAAAT
69110241 AAA
1 AAA
69110244 GAAGATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 7 0.25
16 8 0.29
17 13 0.46
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAAAGAGTAAAAT
Found at i:69110248 original size:15 final size:15
Alignment explanation
Indices: 69110194--69110254 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
69110184 TAATAGATTC
*
69110194 AAAAAAAGGA-AAAAA
1 AAAAAAA-GATAAAAT
*
69110209 AAAAAAAAATAAAAAT
1 AAAAAAAGAT-AAAAT
69110225 AAAAAAAGAGTAAAAT
1 AAAAAAAGA-TAAAAT
*
69110241 -AAAGAAGATAAAAT
1 AAAAAAAGATAAAAT
69110255 CACCTTTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.18
15 14 0.36
16 17 0.44
17 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAAAAGATAAAAT
Found at i:69110501 original size:27 final size:26
Alignment explanation
Indices: 69110471--69110553 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
69110461 AGTTTCTTGG
69110471 TTTTTTTTTT--GGGGTTAGGTTTTT
1 TTTTTTTTTTGGGGGGTTAGGTTTTT
*
69110495 CTTTTTTTTTGGGGGGGTTAGGTTTTT
1 -TTTTTTTTTTGGGGGGTTAGGTTTTT
*
69110522 TCTTTTTTTTGGGGGGTTAGGTTTTT
1 TTTTTTTTTTGGGGGGTTAGGTTTTT
69110548 TTTTTT
1 TTTTTT
69110554 GGGAGGGCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
25 9 0.17
26 29 0.56
27 14 0.27
ACGTcount: A:0.04, C:0.02, G:0.28, T:0.66
Consensus pattern (26 bp):
TTTTTTTTTTGGGGGGTTAGGTTTTT
Found at i:69110510 original size:26 final size:25
Alignment explanation
Indices: 69110471--69110553 Score: 125
Period size: 27 Copynumber: 3.3 Consensus size: 25
69110461 AGTTTCTTGG
69110471 TTTTTTTTTT--GGGGTTAGGTTTT
1 TTTTTTTTTTGGGGGGTTAGGTTTT
69110494 TCTTTTTTTTTGGGGGGGTTAGGTTTT
1 T-TTTTTTTTT-GGGGGGTTAGGTTTT
69110521 TTCTTTTTTTTGGGGGGTTAGGTTTT
1 TT-TTTTTTTTGGGGGGTTAGGTTTT
69110547 TTTTTTT
1 TTTTTTT
69110554 GGGAGGGCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
23 1 0.02
24 9 0.16
25 5 0.09
26 18 0.33
27 22 0.40
ACGTcount: A:0.04, C:0.02, G:0.28, T:0.66
Consensus pattern (25 bp):
TTTTTTTTTTGGGGGGTTAGGTTTT
Found at i:69110922 original size:21 final size:21
Alignment explanation
Indices: 69110898--69110968 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
69110888 AGGCATATGG
*
69110898 CCGTGTGGCTGAGGCACACGC
1 CCGTGTGACTGAGGCACACGC
*
69110919 CCGTGTGAATAGAGGCACACGC
1 CCGTGTGACT-GAGGCACACGC
* *
69110941 CCGTGTGACTTAGGCACAAGC
1 CCGTGTGACTGAGGCACACGC
*
69110962 TCGTGTG
1 CCGTGTG
69110969 GACCAGGGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 23 0.53
22 20 0.47
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
CCGTGTGACTGAGGCACACGC
Found at i:69110934 original size:43 final size:43
Alignment explanation
Indices: 69110864--69110968 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
69110854 GGCTGTGTGG
* * * * * * *
69110864 GAGGTCACAAGCCCATGTAAAAAGAGGCATATGGCCGTGTGGCT
1 GAGG-CACAAGCCCGTGTGAATAGAGGCACACGCCCGTGTGACT
*
69110908 GAGGCACACGCCCGTGTGAATAGAGGCACACGCCCGTGTGACT
1 GAGGCACAAGCCCGTGTGAATAGAGGCACACGCCCGTGTGACT
* *
69110951 TAGGCACAAGCTCGTGTG
1 GAGGCACAAGCCCGTGTG
69110969 GACCAGGGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
43 46 0.92
44 4 0.08
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (43 bp):
GAGGCACAAGCCCGTGTGAATAGAGGCACACGCCCGTGTGACT
Found at i:69122221 original size:30 final size:30
Alignment explanation
Indices: 69122185--69122243 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
69122175 CCTACTAAAT
*
69122185 AGCTATACTGGTCACAACAATGTTGAGAGC
1 AGCTATACTGGTCACAACAATGGTGAGAGC
* * *
69122215 AGCTATAGTGGTGACAGCAATGGTGAGAG
1 AGCTATACTGGTCACAACAATGGTGAGAG
69122244 GTTGAAGGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (30 bp):
AGCTATACTGGTCACAACAATGGTGAGAGC
Found at i:69122854 original size:27 final size:27
Alignment explanation
Indices: 69122812--69122863 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 27
69122802 AAATTTTTAG
69122812 AAAAATATAAGAAATATATA-AATTAT
1 AAAAATATAAGAAATATATATAATTAT
69122838 AAAAAT-TCAAGACAATATATATAATT
1 AAAAATAT-AAGA-AATATATATAATT
69122864 TCAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.04
26 10 0.43
27 8 0.35
28 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAAATATAAGAAATATATATAATTAT
Found at i:69123151 original size:17 final size:16
Alignment explanation
Indices: 69123130--69123172 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
69123120 AAAATTCAAA
*
69123130 TTATTTTTTGA-TTTT
1 TTATTTTTTAATTTTT
*
69123145 TTATATTTTCAATTTTT
1 TTAT-TTTTTAATTTTT
69123162 TTATTTTTTAA
1 TTATTTTTTAA
69123173 AATTTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTTTAATTTTT
Found at i:69123178 original size:17 final size:17
Alignment explanation
Indices: 69123140--69123178 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
69123130 TTATTTTTTG
*
69123140 ATTTTTTATATTTTCAA
1 ATTTTTTATATTTTAAA
* *
69123157 TTTTTTTATTTTTTAAA
1 ATTTTTTATATTTTAAA
69123174 ATTTT
1 ATTTT
69123179 AACTTTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTTATATTTTAAA
Found at i:69123212 original size:24 final size:25
Alignment explanation
Indices: 69123133--69123205 Score: 98
Period size: 24 Copynumber: 3.0 Consensus size: 25
69123123 ATTCAAATTA
* *
69123133 TTTTTTGATTTTTTATATTTTCAA-
1 TTTTTTTATTTTTTAAATTTTCAAC
69123157 TTTTTTTATTTTTTAAAATTTT-AAC
1 TTTTTTTATTTTTT-AAATTTTCAAC
69123182 TTTTTTTA-TTTTTAAATTTTCAAC
1 TTTTTTTATTTTTTAAATTTTCAAC
69123206 ATATTTTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.16
24 23 0.52
25 14 0.32
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (25 bp):
TTTTTTTATTTTTTAAATTTTCAAC
Found at i:69123212 original size:25 final size:26
Alignment explanation
Indices: 69123132--69123213 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 26
69123122 AATTCAAATT
* *
69123132 ATTTTTTGATTTTTTATATTTTC-A-
1 ATTTTTTTATTTTTTAAATTTTCAAC
69123156 ATTTTTTTATTTTTTAAAATTTT-AAC
1 ATTTTTTTATTTTTT-AAATTTTCAAC
69123182 -TTTTTTTA-TTTTTAAATTTTCAAC
1 ATTTTTTTATTTTTTAAATTTTCAAC
*
69123206 ATATTTTT
1 ATTTTTTT
69123214 GAATTATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
23 7 0.14
24 22 0.44
25 21 0.42
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (26 bp):
ATTTTTTTATTTTTTAAATTTTCAAC
Found at i:69125559 original size:20 final size:18
Alignment explanation
Indices: 69125536--69125577 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
69125526 TGTTAACTTT
69125536 TAATTTATATTATATTAAGA
1 TAATTTA-ATT-TATTAAGA
*
69125556 TAA-TTAATTTCTTAAGA
1 TAATTTAATTTATTAAGA
69125573 TAATT
1 TAATT
69125578 AATAGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.50
18 4 0.20
19 3 0.15
20 3 0.15
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TAATTTAATTTATTAAGA
Done.