Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 14 of 38
Found at i:2224052 original size:13 final size:13
Alignment explanation
Indices: 2224034--2224059 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2224024 CAATTTTTTG
2224034 TGTATCGATACAT
1 TGTATCGATACAT
2224047 TGTATCGATACAT
1 TGTATCGATACAT
2224060 ACTTGCTGTA
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:2226437 original size:21 final size:21
Alignment explanation
Indices: 2226413--2226459 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2226403 TTTAATGGTG
2226413 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
2226433 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
2226454 ATTTTG
1 ATTTTG
2226460 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:2226618 original size:13 final size:13
Alignment explanation
Indices: 2226580--2226618 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2226570 ATAATCACCG
*
2226580 TGTATCGATACAG
1 TGTATCGATACAA
2226593 TGTATCGATACAA
1 TGTATCGATACAA
2226606 TGTATCGATACAA
1 TGTATCGATACAA
2226619 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2226629 original size:20 final size:20
Alignment explanation
Indices: 2226604--2226682 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
2226594 GTATCGATAC
2226604 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2226624 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
2226649 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
2226669 CATGTATCGATACA
1 AATGTATCGATACA
2226683 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2228717 original size:15 final size:15
Alignment explanation
Indices: 2228697--2228726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2228687 ATTTCGTTTG
*
2228697 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2228712 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2228727 AGACATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2230557 original size:21 final size:21
Alignment explanation
Indices: 2230528--2230572 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2230518 AAGTTTTCAT
*
2230528 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2230548 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2230570 TTT
1 TTT
2230573 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2232809 original size:13 final size:13
Alignment explanation
Indices: 2232791--2232816 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2232781 CAATTTTTTG
2232791 TGTATCGATACAT
1 TGTATCGATACAT
2232804 TGTATCGATACAT
1 TGTATCGATACAT
2232817 ACTTGCTGTA
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:2233715 original size:13 final size:13
Alignment explanation
Indices: 2233697--2233721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2233687 CTATTTATGA
2233697 TGTATCGATACAC
1 TGTATCGATACAC
2233710 TGTATCGATACA
1 TGTATCGATACA
2233722 TGAATAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2233771 original size:21 final size:22
Alignment explanation
Indices: 2233745--2233787 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
2233735 ATAGTGATTT
2233745 TATCGATACATGAA-AGTGATG
1 TATCGATACATGAACAGTGATG
2233766 TATCGATACATGAACAGTGATG
1 TATCGATACATGAACAGTGATG
2233788 AACAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (22 bp):
TATCGATACATGAACAGTGATG
Found at i:2233885 original size:53 final size:53
Alignment explanation
Indices: 2233821--2233954 Score: 241
Period size: 53 Copynumber: 2.5 Consensus size: 53
2233811 ACTGCCAATC
*
2233821 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACCTG
1 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTG
* *
2233874 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCGATGTCCTG
1 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTG
2233927 TATCGATACATATTGTGTGTATCGATAC
1 TATCGATACATATTGTGTGTATCGATAC
2233955 TATGCAATCT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 78 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (53 bp):
TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTG
Found at i:2233896 original size:19 final size:19
Alignment explanation
Indices: 2233872--2233954 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
2233862 GCCAATGACC
2233872 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
*
2233891 TGTATCGATACAAATT-TG
1 TGTATCGATACATATTGTG
** *
2233909 -GCTA-C--TACCGA-TGTCC
1 TG-TATCGATACATATTGT-G
2233925 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
2233944 TGTATCGATAC
1 TGTATCGATAC
2233955 TATGCAATCT
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
14 1 0.02
15 5 0.10
16 2 0.04
17 4 0.08
18 4 0.08
19 30 0.61
20 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATATTGTG
Found at i:2233987 original size:20 final size:20
Alignment explanation
Indices: 2233925--2233994 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
2233915 ACCGATGTCC
*
2233925 TGTATCGATACATATT-GTG
1 TGTATCGATACATATTAATG
* *
2233944 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
2233964 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
2233984 TGTATCGATAC
1 TGTATCGATAC
2233995 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 11 0.26
20 27 0.64
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:2234060 original size:21 final size:21
Alignment explanation
Indices: 2234034--2234074 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2234024 GTCAACCTTG
2234034 TGTATTGATACCAATA-GTATA
1 TGTATTGATA-CAATACGTATA
*
2234055 TGTATTTATACAATACGTAT
1 TGTATTGATACAATACGTAT
2234075 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTGATACAATACGTATA
Found at i:2235698 original size:3 final size:3
Alignment explanation
Indices: 2235690--2235715 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2235680 TTTCTTGCAT
2235690 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2235716 TCTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2235951 original size:18 final size:19
Alignment explanation
Indices: 2235928--2235966 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2235918 TGTTAGTTTG
2235928 TTTTTATGTAATTT-TTTA
1 TTTTTATGTAATTTATTTA
*
2235946 TTTTTATGTTATTTATTTA
1 TTTTTATGTAATTTATTTA
2235965 TT
1 TT
2235967 ATTACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTATGTAATTTATTTA
Found at i:2236495 original size:32 final size:32
Alignment explanation
Indices: 2236452--2236531 Score: 133
Period size: 32 Copynumber: 2.5 Consensus size: 32
2236442 TTTCAACAAT
* *
2236452 TTGTATTGATACAATGTATCAATGCGTAAGTG
1 TTGTATCGATACAATGTATCAATGCATAAGTG
*
2236484 TTGTATCGATACAATGTATCTATGCATAAGTG
1 TTGTATCGATACAATGTATCAATGCATAAGTG
2236516 TTGTATCGATACAATG
1 TTGTATCGATACAATG
2236532 CATCGCTACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCAATGCATAAGTG
Found at i:2237554 original size:21 final size:22
Alignment explanation
Indices: 2237521--2237561 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2237511 TAATGTGAAC
2237521 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
2237543 AGCT-ATGCTTCATGCATTT
1 AGCTCATGATTCATGCATTT
2237562 ATGGCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:2241206 original size:61 final size:61
Alignment explanation
Indices: 2241125--2241448 Score: 416
Period size: 61 Copynumber: 5.2 Consensus size: 61
2241115 ATCATACTTA
* * *
2241125 AGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCTTCAAAG
1 AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
*
2241186 AGTAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
1 AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * * * * *
2241247 AGCATGACACTATTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTCTAGTCCTCAAAG
1 AGCAGGACGC---CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* ** * *
2241311 AGCAAGACGTTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTAGTCCTCAAAG
1 AGCAGGACG-CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * *
2241373 AGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
1 AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTCAAAG
* *
2241434 AGTAGGATGCCTTTT
1 AGCAGGACGCCTTTT
2241449 AAAGCCCACA
Statistics
Matches: 231, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
60 26 0.11
61 96 0.42
62 55 0.24
64 54 0.23
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (61 bp):
AGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
Found at i:2241356 original size:62 final size:61
Alignment explanation
Indices: 2241125--2241497 Score: 395
Period size: 61 Copynumber: 6.1 Consensus size: 61
2241115 ATCATACTTA
* * * * *
2241125 AGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCTTCAAAG
1 AGCAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * *
2241186 AGTAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
1 AGCAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * * * *
2241247 AGCATGACACTATTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTCTAGTCCTCAAAG
1 AGCA-G-GAC-GTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * *
2241311 AGCAAGACGTTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACTTTTAGTCCTCAAAG
1 AGCAGGACG-TCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
* * * *
2241373 AGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
1 AGCAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTCAAAG
* * * * *
2241434 AGTAGGATG-C-----C-TTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCCAGTCCTCAAAG
1 AGCAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTT--TAGTCCTCAAAG
2241489 AGCAGGACG
1 AGCAGGACG
2241498 GTCCCTCCTT
Statistics
Matches: 273, Mismatches: 31, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
54 3 0.01
55 44 0.16
56 1 0.00
60 35 0.13
61 78 0.29
62 59 0.22
63 2 0.01
64 51 0.19
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (61 bp):
AGCAGGACGTCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAG
Found at i:2241464 original size:55 final size:55
Alignment explanation
Indices: 2241330--2241496 Score: 210
Period size: 55 Copynumber: 2.9 Consensus size: 55
2241320 TTTTTTTTCT
* * *
2241330 TTTTAAAGCCCACACGAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGACACCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGG--A-C--TGCC
*
2241390 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGA-TGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACTGCC
* *
2241445 TTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGAC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAGTCCTCAAAGAGCAGGAC
2241497 GGTCCCTCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
54 3 0.03
55 47 0.48
59 1 0.01
60 26 0.27
61 20 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACTGCC
Found at i:2241584 original size:94 final size:95
Alignment explanation
Indices: 2241417--2241591 Score: 298
Period size: 94 Copynumber: 1.9 Consensus size: 95
2241407 GTTGGTGGCA
* * * * *
2241417 CCTTTCAGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTC
1 CCTTTCAGTCCTCAAAAAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
2241482 CTCAAAGAGCAGGACGGTCCCTCCTTTCAC
66 CTCAAAGAGCAGGACGGTCCCTCCTTTCAC
2241512 CCTTT-AGTCCTCAAAAAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1 CCTTTCAGTCCTCAAAAAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
2241576 CTCAAAGAGCAGGACG
66 CTCAAAGAGCAGGACG
2241592 CCTCTTAAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 70 0.93
95 5 0.07
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (95 bp):
CCTTTCAGTCCTCAAAAAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
CTCAAAGAGCAGGACGGTCCCTCCTTTCAC
Found at i:2241601 original size:55 final size:55
Alignment explanation
Indices: 2241517--2241871 Score: 496
Period size: 55 Copynumber: 6.3 Consensus size: 55
2241507 TTCACCCTTT
* * * * *
2241517 AGTCCTCAAAAAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
2241572 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
2241627 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
2241682 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
2241737 AATCCTCAAAGAGTAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * ** *
2241792 TGTCCTCAAAGAGAAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGC---CTC-TT--AAAGCCCACACAAGTTGGTGGCATTTTCC
*
2241853 AGTCCTCAAAGAGTAGGAC
1 AGTCCTCAAAGAGCAGGAC
2241872 ACCTTTCCTT
Statistics
Matches: 272, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
54 2 0.01
55 221 0.81
56 2 0.01
58 3 0.01
59 2 0.01
61 42 0.15
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:2244695 original size:51 final size:50
Alignment explanation
Indices: 2244578--2244699 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 50
2244568 ATTTCTAGAT
* *
2244578 TTTTCACC-TCGGGGATACTCCAACTCTGATTTTATTTCTAAAACACTCA
1 TTTTCACCATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTCA
** * *
2244627 TTTTCCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACTGA
1 TTTT-CACCATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTCA
2244678 CTTTTCACCATCGGGGATACTC
1 -TTTTCACCATCGGGGATACTC
2244700 TAACCCTGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 4 0.07
50 2 0.03
51 51 0.84
52 4 0.07
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (50 bp):
TTTTCACCATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTCA
Found at i:2244731 original size:79 final size:78
Alignment explanation
Indices: 2244640--2244986 Score: 292
Period size: 79 Copynumber: 4.4 Consensus size: 78
2244630 TCCATAATCA
* *
2244640 GGGATACTCCAACTCCGATTTTATTTCCAAAACA-CTGACTTTTCACCATCGGGGATACTCTAAC
1 GGGATACTCCAAC-CCGATTTTATTTCCAAAACATC-GATTTTTCACCATCGGGGATACTCCAAC
*
2244704 CCTGTTATTTTCGAG
64 CCTGTTATTTCCGAG
* * * * * ** * *
2244719 GGGATACCCCAACCCTAGCTTTATTTCTAAAATATTAATTTCTT-ATCATTGGGGATACTCCAAC
1 GGGATACTCCAACCCGA-TTTTATTTCCAAAACATCGATTT-TTCACCATCGGGGATACTCCAAC
*
2244783 CCCGTTATTTCCGAG
64 CCTGTTATTTCCGAG
* * * * * *
2244798 GGGATACTCCAACCCCAGCTTTATTTCTAAAACATCAATTTTTTA-TAGTC-GGGATACTCCAAC
1 GGGATACTCCAACCCGA-TTTTATTTCCAAAACATCGATTTTTCACCA-TCGGGGATACTCCAAC
2244861 TCC-GTTATTTCCGAG
64 -CCTGTTATTTCCGAG
* * * * *
2244876 GGGATACTCCAATCTCGATTTTATTTCCTAATCATCGATTTTTCACAACCGGGGATACTCCAACC
1 GGGATACTCCAA-CCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACC
* *** *
2244941 CTATTATTTTTAAA
65 CTGTTATTTCCGAG
*
2244955 GGGATACTCCAACGCC-ATTATTATCTCCAAAA
1 GGGATACTCCAAC-CCGATT-TTATTTCCAAAA
2244987 TATTAAATTT
Statistics
Matches: 218, Mismatches: 38, Indels: 24
0.78 0.14 0.09
Matches are distributed among these distances:
78 71 0.33
79 145 0.67
80 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAACCCGATTTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCC
TGTTATTTCCGAG
Found at i:2250427 original size:14 final size:13
Alignment explanation
Indices: 2250410--2250447 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2250400 AGTCAAAAGT
2250410 AAACACAAAAAACA
1 AAACACAAAAAA-A
2250424 AAACA-AAAAAAA
1 AAACACAAAAAAA
*
2250436 ACACACAAAAAA
1 AAACACAAAAAA
2250448 GGTGCAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACACAAAAAAA
Found at i:2250429 original size:12 final size:12
Alignment explanation
Indices: 2250410--2250447 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
2250400 AGTCAAAAGT
2250410 AAACACAAAAAA
1 AAACACAAAAAA
2250422 CAAA-ACAAAAAA
1 -AAACACAAAAAA
2250434 AAACACACAAAAA
1 AAACACA-AAAAA
2250447 A
1 A
2250448 GGTGCAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 11 0.48
13 9 0.39
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:2251770 original size:33 final size:33
Alignment explanation
Indices: 2251732--2252445 Score: 504
Period size: 33 Copynumber: 21.9 Consensus size: 33
2251722 ATCTCTCTTC
*
2251732 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* *
2251765 TCAAAGTCCACAACTTAGTGGCATCTCTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
** *
2251798 TCAAAGTCCATGACTCAGTGGCATCT-TTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* * *
2251830 TCAAAGTCCACGACTTAGTGGCATCT-TTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* * * *
2251862 TCAAAGTCCACGACTTAGTGGCA--T-TTTGTC
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* * *
2251892 CCAAAGTCCACGACTCAGTGGCAT-T-TTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* *
2251923 CCAAAGTCCACAACTCAGTGGTAATCTC---TTT
1 TCAAAGTCCACAACTCAGTGG-CATCTCTTTTTT
*
2251954 TCAAAGTCCACAACTCAGTGGCA--TCTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* * * *
2251985 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTT-TTT
*
2252019 TCAAAGCCCACAACTCTA-TGGCATC-C---TTT
1 TCAAAGTCCACAACTC-AGTGGCATCTCTTTTTT
*
2252048 T-AAAGTCCACAACTCTGTGGCA-C-CTTGTTCCTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTT-TT--TT
* * *
2252081 T-TAAGCCCACAACTCTA-TGGC-GCTCTTTTCTTT
1 TCAAAGTCCACAACTC-AGTGGCATCTC-TTT-TTT
* * *
2252114 TC-AAGTCCACAACTCTGTGGCGCTCTTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGC-ATCTCTTT-TTT
* *
2252148 TC-AAGTCCACAACTCTGTGGCA-CATTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCATC-TCTTT-TTT
*
2252181 TCAAAGTCCACAACTCAGTGGCATCCCTTTTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
** *
2252214 CCTGTAAGTCCATAACTCAGTGGCATCTC---TTT
1 --TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* * * *
2252246 TC-AAGCCCACAACTCTGTGACACTCTTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCA-TCTCTTT-TTT
* * *
2252280 TC-AAGTCCACAACTCTGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTT-TTT
* * *
2252313 TTAAAGCCCACAACTCTGTGGCA-CTCATTTTCTTT
1 TCAAAGTCCACAACTCAGTGGCATCTC--TTT-TTT
* * **
2252348 TTAAAGTCCACAACTCCGTGGCATCTCTTTCCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
* *
2252381 TCAAAGTCCACAACTTAGTGACATCTC-TTTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
*
2252413 CCTATAAGTCCACAACTCAGTGGCATCTCTTTT
1 TC-A-AAGTCCACAACTCAGTGGCATCTCTTTT
2252446 CAAGTCCACA
Statistics
Matches: 566, Mismatches: 71, Indels: 86
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.00
28 20 0.04
29 20 0.04
30 30 0.05
31 70 0.12
32 69 0.12
33 149 0.26
34 143 0.25
35 60 0.11
36 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (33 bp):
TCAAAGTCCACAACTCAGTGGCATCTCTTTTTT
Found at i:2251959 original size:62 final size:63
Alignment explanation
Indices: 2251732--2252446 Score: 404
Period size: 62 Copynumber: 11.0 Consensus size: 63
2251722 ATCTCTCTTC
* *
2251732 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTTCAAAGTCCACAACTTAGTGGCATCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCTC--TTCTTCAAAGTCCACAACTCAGTGGCATCT-TTTTC
2251797 T
63 T
* * * *
2251798 TCAAAGTCCATGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC-TCTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTCT
* * * *
2251862 TCAAAGTCCACGACTTAGTGGCAT-T-TTGTCCCAAAGTCCACGACTCAGTGGCAT-TTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCT-TCAAAGTCCACAACTCAGTGGCATCTTTTTCT
* * *
2251923 CCAAAGTCCACAACTCAGTGGTAATCTCTT-TTCAAAGTCCACAACTCAGTGGCATC-TTTTCT
1 TCAAAGTCCACGACTCAGTGG-CATCTCTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTCT
* * * * * * *
2251985 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCTA-TGGCATC--CTT
1 TCAAAGTCCACGACTCAGTGGCATC-TCTTC--TTCAAAGTCCACAACTC-AGTGGCATCTTTTT
2252047 -T
62 CT
* * * * ** * *
2252048 T-AAAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGCCCACAACTCTA-TGGCGCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATC-TCTT-CTTCAAAGTCCACAACTC-AGTGGC-ATCTTTT-
*
2252111 TTT
61 TCT
* * * * *
2252114 TC-AAGTCCACAACTCTGTGGCGCTCTTTTTCTTTTC-AAGTCCACAACTCTGTGGCA-CATTTT
1 TCAAAGTCCACGACTCAGTGGC-ATC-TCTTC--TTCAAAGTCCACAACTCAGTGGCATC-TTTT
2252176 TCTTT
61 TC--T
* * * * * *
2252181 TCAAAGTCCACAACTCAGTGGCATCCCTTTTTTCCTGTAAGTCCATAACTCAGTGGCATC-TCTT
1 TCAAAGTCCACGACTCAGTGGCATCTC-TTCTT-C--AAAGTCCACAACTCAGTGGCATCTTTTT
2252245 -T
62 CT
* * * * * * *
2252246 TC-AAGCCCACAACTCTGTGACACTCTTTTTCTTTTC-AAGTCCACAACTCTGTGGCACCTTTTT
1 TCAAAGTCCACGACTCAGTGGCA-TC-TCTTC--TTCAAAGTCCACAACTCAGTGGCATCTTTTT
2252309 CTTT
62 C--T
* * * * * * *
2252313 TTAAAGCCCACAACTCTGTGGCACTCATTTTCTTTTTAAAGTCCACAACTCCGTGGCATCTCTTT
1 TCAAAGTCCACGACTCAGTGGCA-TC-TCTTC--TTCAAAGTCCACAACTCAGTGGCATCT-TTT
*
2252378 CCT
61 TCT
* * * *
2252381 TCAAAGTCCACAACTTAGTGACATCTCTTTTTCCTATAAGTCCACAACTCAGTGGCATCTCTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTT-C-A-AAGTCCACAACTCAGTGGCATCT-TTTT
2252446 C
62 C
2252447 AAGTCCACAA
Statistics
Matches: 530, Mismatches: 73, Indels: 91
0.76 0.11 0.13
Matches are distributed among these distances:
61 51 0.10
62 101 0.19
63 24 0.05
64 55 0.10
65 63 0.12
66 57 0.11
67 62 0.12
68 73 0.14
69 39 0.07
70 5 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (63 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTCT
Found at i:2252027 original size:34 final size:34
Alignment explanation
Indices: 2251727--2252473 Score: 455
Period size: 34 Copynumber: 23.0 Consensus size: 34
2251717 TTCAAATCTC
* * * * *
2251727 TCTTCTCAAAGTCCACGACTCAGTGGCATCTCTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
*
2251761 T-TTTTCAAAGTCCACAACT-TAGTGGCATCTCTTT
1 TCTTTTCAAAGTCCACAACTCT-GTGGCACCT-TTT
** * *
2251795 TC--TTCAAAGTCCATGACTCAGTGGCATCTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2251827 TC--TTCAAAGTCCACGACT-TAGTGGCATCTTTT
1 TCTTTTCAAAGTCCACAACTCT-GTGGCACCTTTT
*
2251859 TC--TTCAAAGTCCACGACT-TAGTGGCA--TTTT
1 TCTTTTCAAAGTCCACAACTCT-GTGGCACCTTTT
* * *
2251889 GTC---CCAAAGTCCACGACTCAGTGGCA--TTTT
1 -TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* * * * * *
2251919 T-TCTCCAAAGTCCACAACTCAGTGGTA---ATC
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2251949 TCTTTTCAAAGTCCACAACTCAGTGGCATC-TTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2251982 TC--TTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2252014 TCTTTTCAAAGCCCACAACTCTATGGCA-----T
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
*
2252043 CCTTTT-AAAGTCCACAACTCTGTGGCACCTTGTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTT-TT
* * * *
2252077 CCTTTT--AAGCCCACAACTCTATGGC-GCTCTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCT-TTT
*
2252109 TCTTTTC-AAGTCCACAACTCTGTGGCGCTCTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCAC-CTTTT
*
2252143 TCTTTTC-AAGTCCACAACTCTGTGGCACATTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
*
2252176 TCTTTTCAAAGTCCACAACTCAGTGGCATCCCTTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCA--CC-TTTT
* * * * *
2252213 TCCTGT--AAGTCCATAACTCAGTGGCA----TC
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2252241 TCTTTTC-AAGCCCACAACTCTGTGACACTCTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCAC-CTTTT
2252275 TCTTTTC-AAGTCCACAACTCTGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* * *
2252308 TCTTTTTAAAGCCCACAACTCTGTGGCACTCATTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCAC-CTTTT
* * * *
2252343 TCTTTTTAAAGTCCACAACTCCGTGGCATCTCTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* *
2252377 TC-CTTCAAAGTCCACAACT-TAGTGACATCTCTTTT
1 TCTTTTCAAAGTCCACAACTCT-GTGGCA-C-CTTTT
* * * *
2252412 TCCTAT--AAGTCCACAACTCAGTGGCA----TC
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
* * *
2252440 TCTTTTC-AAGTCCACAACTTTATGGCACCCTTT
1 TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
2252473 T
1 T
2252474 AAGTCCACAA
Statistics
Matches: 588, Mismatches: 77, Indels: 97
0.77 0.10 0.13
Matches are distributed among these distances:
28 29 0.05
29 40 0.07
30 30 0.05
31 69 0.12
32 72 0.12
33 130 0.22
34 151 0.26
35 57 0.10
36 2 0.00
37 8 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (34 bp):
TCTTTTCAAAGTCCACAACTCTGTGGCACCTTTT
Found at i:2252057 original size:28 final size:28
Alignment explanation
Indices: 2252015--2252110 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 28
2252005 GCACCTTTTT
2252015 CTTTTCAAAGCCCACAACTCTATGGCATC
1 CTTTTCAAAGCCCACAACTCTATGGCA-C
* *
2252044 CTTTT-AAAGTCCACAACTCTGTGGCAC
1 CTTTTCAAAGCCCACAACTCTATGGCAC
* *
2252071 CTTGTTCCTTTTAAGCCCACAACTCTATGGCGC
1 CTT-TT-C---AAAGCCCACAACTCTATGGCAC
2252104 TCTTTTC
1 -CTTTTC
2252111 TTTTCAAGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
27 4 0.07
28 21 0.39
29 5 0.09
32 1 0.02
33 20 0.37
34 3 0.06
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.33
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAACTCTATGGCAC
Found at i:2252485 original size:27 final size:29
Alignment explanation
Indices: 2252417--2252494 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 29
2252407 CTTTTTCCTA
*
2252417 TAAGTCCACAAC-TCAGTGGCATCTCTTT
1 TAAGTCCACAACTTCAGTGGCATCCCTTT
*
2252445 TCAAGTCCACAACTTTA-TGGCA-CCCTTT
1 T-AAGTCCACAACTTCAGTGGCATCCCTTT
2252473 TAAGTCCACAACTTC-GTGGCAT
1 TAAGTCCACAACTTCAGTGGCAT
2252495 TTTCTCCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
27 18 0.42
28 7 0.16
29 16 0.37
30 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAGTCCACAACTTCAGTGGCATCCCTTT
Found at i:2252751 original size:91 final size:92
Alignment explanation
Indices: 2252593--2253156 Score: 691
Period size: 91 Copynumber: 5.9 Consensus size: 92
2252583 CGTCTTCTTC
* * * *
2252593 TAAGTCCAATATTGCTGGCCATGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGCCGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
2252657 GGCCTTGAATCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
*
2252684 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
*
2252748 GGCCTTGAATCAGCACATTGGCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* *
2252775 TAGGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATGTC
* *
2252840 GCTGGCCTTGAATAAACACATTGGCACCTT
63 GCTGGCCTTGAATCAGCACATTGGCACCTT
* ** * **
2252870 TAACTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
*
2252935 GGCCATGAATCAGCACATTGGCACTTTCATCTT
66 GGCCTTGAATCAGCACATTGGCA----C--CTT
* * *
2252968 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TTT-GTCTTTAAGACCAATGTC
*
2253033 GCTAGCCTTGAATCAGCACATTGGCACCTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* * *
2253069 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAAATAT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-GTCTTTAAGACC-AATGT
*
2253134 CGTTGGCCTTGAATCAGCACATT
62 CGCTGGCCTTGAATCAGCACATT
2253157 AGCATTCTTC
Statistics
Matches: 420, Mismatches: 37, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
91 124 0.30
92 43 0.10
95 80 0.19
96 1 0.00
98 41 0.10
99 2 0.00
100 1 0.00
101 102 0.24
102 26 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTT
Found at i:2252944 original size:49 final size:49
Alignment explanation
Indices: 2252583--2253152 Score: 550
Period size: 49 Copynumber: 11.8 Consensus size: 49
2252573 AAGTTGGTGG
* * *
2252583 CGTCTTCTTCTAAGTCCAATATTGCTGGCCATGAATCAGCATATTGGCAC
1 CGTCATCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
** * ** * *
2252633 C-TTGTCTTTAAGACCAATGCCGTTGGCCTTGAATCAGCACATTGGCA-
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
2252680 ---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
** * * * *
2252724 C-TTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATT-G---
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
2252768 -G-CATCTTTAGGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * *
2252815 CTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATAAACACATTGGCA-
1 C---GTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* **
2252866 ---C--CTTTAACTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * *
2252910 CGTCATCTTTAAGACCAATGTCGCTGGCCATGAATCAGCACATTGGCAC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
**
2252959 TTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * *
2253008 CTTTTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
1 C---GTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
2253060 CTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
** *
2253110 TTCGTCATCTTTAAAACCAAATATCGTTGGCCTTGAATCAGCA
1 --CGTCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCA
2253153 CATTAGCATT
Statistics
Matches: 428, Mismatches: 64, Indels: 53
0.79 0.12 0.10
Matches are distributed among these distances:
43 105 0.25
44 1 0.00
45 1 0.00
47 2 0.00
48 66 0.15
49 129 0.30
50 2 0.00
51 1 0.00
52 98 0.23
53 23 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:2253882 original size:32 final size:32
Alignment explanation
Indices: 2253841--2253925 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
2253831 TTTCAACAAT
*
2253841 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
2253873 TTGTATCGATACAATGTATCTATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
2253905 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
2253926 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:2253987 original size:13 final size:13
Alignment explanation
Indices: 2253969--2253995 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2253959 CATTACTCAA
2253969 TGTATCGATACAT
1 TGTATCGATACAT
2253982 TGTATCGATACAT
1 TGTATCGATACAT
2253995 T
1 T
2253996 TGGGAAATTT
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):
TGTATCGATACAT
Found at i:2254935 original size:21 final size:22
Alignment explanation
Indices: 2254901--2254941 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2254891 TCATGTTAAC
2254901 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
2254923 AGCT-ATGCTTCATGCATTT
1 AGCTCATGATTCATGCATTT
2254942 ATGGCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:2258120 original size:10 final size:10
Alignment explanation
Indices: 2258089--2258157 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
2258079 AGTCGTTAAG
2258089 TTTTTATTTAA
1 TTTTTATTT-A
*
2258100 ATTTTATTTA
1 TTTTTATTTA
*
2258110 TTTTTAGTTA
1 TTTTTATTTA
*
2258120 TTTTTAAATTA
1 TTTTT-ATTTA
2258131 GTTTTTATTTA
1 -TTTTTATTTA
2258142 TTTTTATTTA
1 TTTTTATTTA
*
2258152 TATTTA
1 TTTTTA
2258158 AATTATCTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
10 29 0.58
11 16 0.32
12 5 0.10
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:2258142 original size:32 final size:32
Alignment explanation
Indices: 2258101--2258162 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2258091 TTTATTTAAA
*
2258101 TTTTATTTATTTTTAGTTATTTTTAAATTAGT
1 TTTTATTTATTTTTAGTTATATTTAAATTAGT
*
2258133 TTTTATTTATTTTTATTTATATTTAAATTA
1 TTTTATTTATTTTTAGTTATATTTAAATTA
2258163 TCTAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (32 bp):
TTTTATTTATTTTTAGTTATATTTAAATTAGT
Found at i:2259012 original size:20 final size:20
Alignment explanation
Indices: 2258975--2259044 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
2258965 TTCTATAATT
2258975 TGTATCGATACAATAAGTGAA
1 TGTATCGAT-CAATAAGTGAA
* **
2258996 TATATCGATTTATAAGTGAA
1 TGTATCGATCAATAAGTGAA
*
2259016 TGTATTGATCAATAAGTGAA
1 TGTATCGATCAATAAGTGAA
2259036 TGTATCGAT
1 TGTATCGAT
2259045 ACATGCTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 33 0.80
21 8 0.20
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATCAATAAGTGAA
Found at i:2259278 original size:52 final size:52
Alignment explanation
Indices: 2259104--2259279 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
2259094 TTTGGAAAGA
* * *
2259104 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTTGACCC
*
2259156 AAATGTATCGATACATTCTTTATTGCATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTTGACCC
*
2259208 AAATGTATCGATATATTCTTCATTGCATC-ATTACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTGCATCGA-TACATTCTGGGTTTTTGACCC
2259260 AAATGTATCGATACATTCTT
1 AAATGTATCGATACATTCTT
2259280 TAATGTATTG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
51 1 0.01
52 115 0.99
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTTGACCC
Found at i:2261962 original size:20 final size:19
Alignment explanation
Indices: 2261908--2261963 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2261898 AAAACCCTTA
*
2261908 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
2261928 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2261948 AATGTATCGATACATG
1 AAAGTATCGATACATG
2261964 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2262051 original size:13 final size:13
Alignment explanation
Indices: 2262033--2262058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2262023 TACACAAAAT
2262033 ATGTATCGATACA
1 ATGTATCGATACA
2262046 ATGTATCGATACA
1 ATGTATCGATACA
2262059 CAAAAAAAAT
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:2262080 original size:35 final size:32
Alignment explanation
Indices: 2262015--2262080 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
2262005 TAGCCAAACT
*
2262015 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
2262047 TGTATCGATACACAAAAAAAATTGTATCGATACA
1 TGTATCGATACAC--AAAAAA-TGTATCGATACA
2262081 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
34 5 0.17
35 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:2264321 original size:21 final size:21
Alignment explanation
Indices: 2264288--2264337 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2264278 TTGCAAGTTG
*
2264288 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2264310 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2264331 AAATAAA
1 AAATAAA
2264338 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2266155 original size:15 final size:15
Alignment explanation
Indices: 2266135--2266165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2266125 TAAAAATGTC
*
2266135 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2266150 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2266165 C
1 C
2266166 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2268252 original size:20 final size:20
Alignment explanation
Indices: 2268227--2268291 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
2268217 GGAAATTCAA
2268227 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
*
2268247 TGTATCGATACA-------A
1 TGTATCGATACATTTTTCTT
2268260 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
2268280 TGTATCGATACA
1 TGTATCGATACA
2268292 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 12 0.33
20 24 0.67
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTT
Found at i:2268265 original size:13 final size:13
Alignment explanation
Indices: 2268247--2268271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2268237 CATTTTTCTT
2268247 TGTATCGATACAA
1 TGTATCGATACAA
2268260 TGTATCGATACA
1 TGTATCGATACA
2268272 TTTTTCTTTG
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:2268266 original size:33 final size:33
Alignment explanation
Indices: 2268224--2268304 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
2268214 TCTGGAAATT
2268224 CAATGTATCGATACATTTTTCTTTGTATCGATA
1 CAATGTATCGATACATTTTTCTTTGTATCGATA
2268257 CAATGTATCGATACATTTTTCTTTGTATCGATA
1 CAATGTATCGATACATTTTTCTTTGTATCGATA
2268290 CAATGTATCGATACA
1 CAATGTATCGATACA
2268305 CTGTATCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (33 bp):
CAATGTATCGATACATTTTTCTTTGTATCGATA
Found at i:2268298 original size:13 final size:13
Alignment explanation
Indices: 2268280--2268317 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2268270 CATTTTTCTT
2268280 TGTATCGATACAA
1 TGTATCGATACAA
*
2268293 TGTATCGATACAC
1 TGTATCGATACAA
*
2268306 TGTATCAATACA
1 TGTATCGATACA
2268318 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2268472 original size:20 final size:20
Alignment explanation
Indices: 2268429--2268474 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2268419 AAATCTTTTG
2268429 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2268450 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2268470 CAAAA
1 CAAAA
2268475 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:2270856 original size:13 final size:13
Alignment explanation
Indices: 2270838--2270863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2270828 TACACAAAAT
2270838 ATGTATCGATACA
1 ATGTATCGATACA
2270851 ATGTATCGATACA
1 ATGTATCGATACA
2270864 CAAAAAAAAT
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:2270885 original size:35 final size:32
Alignment explanation
Indices: 2270820--2270885 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
2270810 TAGCCAAACT
*
2270820 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
2270852 TGTATCGATACACAAAAAAAATTGTATCGATACA
1 TGTATCGATACAC--AAAAAA-TGTATCGATACA
2270886 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
34 5 0.17
35 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:2274865 original size:32 final size:33
Alignment explanation
Indices: 2274802--2274866 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
2274792 CACACCCAGA
*
2274802 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
* * *
2274835 TGTATCAATACATGTT-CTTGGTATCTATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
2274867 ATTGAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTAGTATCGATACAT
Found at i:2278197 original size:51 final size:51
Alignment explanation
Indices: 2278063--2278197 Score: 198
Period size: 51 Copynumber: 2.6 Consensus size: 51
2278053 TTGCTGCATT
* *
2278063 TATCGATACATTGAAGAATGTATCGATACATTAGGGTCAAAAACCAGAATA
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCAGAATA
* * ** *
2278114 TATCGATGCAATGAGGAATGTATCGATACATTTGGGTCAAAATTCAGAATG
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCAGAATA
*
2278165 TATCGATACAATGAAAAATGTATCGATACATTT
1 TATCGATACAATGAAGAATGTATCGATACATTT
2278198 TCTTTTTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (51 bp):
TATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAACCAGAATA
Found at i:2280760 original size:3 final size:3
Alignment explanation
Indices: 2280745--2280785 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2280735 AACCATCAAA
*
2280745 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
2280786 AGTTGACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:2281244 original size:15 final size:16
Alignment explanation
Indices: 2281206--2281245 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
2281196 AGAAAAAAAT
*
2281206 AAAT-AAAATTGTTGA
1 AAATGAAAATTCTTGA
2281221 AAATG-AAATTCTTGA
1 AAATGAAAATTCTTGA
2281236 AAA-GAAAATT
1 AAATGAAAATT
2281246 ATCGAACTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (16 bp):
AAATGAAAATTCTTGA
Found at i:2287023 original size:20 final size:21
Alignment explanation
Indices: 2286985--2287025 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2286975 TATCTTCATA
2286985 TTTTATACATGAACGTAATATG
1 TTTTATACATGAAC-TAATATG
*
2287007 TTTTCTACATGAA-TAATAT
1 TTTTATACATGAACTAATAT
2287026 TCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTTATACATGAACTAATATG
Found at i:2294974 original size:79 final size:79
Alignment explanation
Indices: 2294832--2294977 Score: 186
Period size: 79 Copynumber: 1.8 Consensus size: 79
2294822 AGATAACAAC
* * * * *
2294832 GGGGTTGGAGTACCTTCGATTATGAAAAATCGATGTTTTAAAAATAAAATCGGGATTGGAGTATC
1 GGGGTTGGAGTACCTCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGATCGAAGTATC
2294897 CCCGTGAAAATAAT
66 CCCGTGAAAATAAT
* * ** *
2294911 GGGGTTGGAGTATCC-CCGATTATGAGAAATCAATATTTTAGAAATAAGGTCGGGGTCGAAGTAT
1 GGGGTTGGAGTA-CCTCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGATCGAAGTAT
2294975 CCC
65 CCC
2294978 TGATTGTGAG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 54 0.96
80 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTACCTCCGATTATGAAAAATCAATATTTTAAAAATAAAATCGGGATCGAAGTATC
CCCGTGAAAATAAT
Found at i:2295025 original size:51 final size:51
Alignment explanation
Indices: 2294912--2295029 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
2294902 GAAAATAATG
* * *
2294912 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGTCG
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
* * * * *
2294963 GGGTCGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCA
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
2295014 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2295030 TCAGAGATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCCA
Found at i:2295059 original size:130 final size:130
Alignment explanation
Indices: 2294867--2295173 Score: 334
Period size: 130 Copynumber: 2.4 Consensus size: 130
2294857 AAAATCGATG
* * * * * *
2294867 TTTTAAAAATAAAATC-GGGATTGGAGTATCCCCGTGA-AAATAATGGGGTTGGAGTATCCCCGA
1 TTTTAGAAATAAAACCAGGG-TTGGAGTATCCCC-TCAGAAATAACGGGGTTGGACTAACCCCGA
* * *
2294930 TTATGAGAAATCAATATTTTAGAAAT-AAGGTCGGGGTCGAAGTATCCCTGATTGT-GAGAAATC
64 TTATGAGAAATCAATATTTTAGAAATCAA-ATCGGAGTCGAAGTATCCCCGATTGTGGAG-AATC
2294993 AATA
127 AATA
* * *
2294997 TTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAGATAACGGGGTTGGACTAACCCCGATT
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGACTAACCCCGATT
* * * * * * *** *
2295062 GTGAGAAATCAGTGTTTTGGAAATCAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTG
66 ATGAGAAATCAATATTTTAGAAATCAAATCGGAGTCGAAGTATCCCCGATTGTGGAGAATCAATA
* *
2295127 TTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAACGGG
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGG
2295174 ATGGGAGTAT
Statistics
Matches: 146, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
129 2 0.01
130 136 0.93
131 8 0.05
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (130 bp):
TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGACTAACCCCGATT
ATGAGAAATCAATATTTTAGAAATCAAATCGGAGTCGAAGTATCCCCGATTGTGGAGAATCAATA
Found at i:2295128 original size:51 final size:51
Alignment explanation
Indices: 2295044--2295317 Score: 204
Period size: 51 Copynumber: 5.3 Consensus size: 51
2295034 AGATAACGGG
* * ** *
2295044 GTTGGACTAACCCCGATTGT-GAGAAATCAGTGTTTTGGAAATCAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAG-AATTGGTGTTTTGGAAATAAAATCGGA
*
2295095 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGG-
1 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTGGAAATAAAATC-GGA
*** * * * *
2295146 GTTGGAGTATCCCCTCGGAAATAACGG-G-ATGGGAGTATCCCTGATGAAAT--AA-CGGG
1 GTTGGAGTAT-CCC-C-G--ATTGTGGAGAATTGGTGT-T--TTG--GAAATAAAATCGGA
* *
2295202 GTTGGAGTATCCCCGATTGT-GAGAAATTAGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGGAG-AATTGGTGTTTTGGAAATAAAATCGGA
* * * *
2295253 GCTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTGGAAATAAAATCGGA
2295304 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2295318 TCGGAAATAA
Statistics
Matches: 174, Mismatches: 29, Indels: 40
0.72 0.12 0.16
Matches are distributed among these distances:
48 5 0.03
50 5 0.03
51 107 0.61
52 12 0.07
53 7 0.04
54 8 0.05
55 7 0.04
56 15 0.09
57 3 0.02
59 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:2295183 original size:28 final size:28
Alignment explanation
Indices: 2295149--2295215 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
2295139 AATCAGGGTT
2295149 GGAGTATCCCCTCG-GAAATAACGGGATG
1 GGAGTATCCCCT-GAGAAATAACGGGATG
* *
2295177 GGAGTAT-CCCTGATGAAATAACGGGGTT
1 GGAGTATCCCCTGA-GAAATAACGGGATG
2295205 GGAGTATCCCC
1 GGAGTATCCCC
2295216 GATTGTGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 4 0.12
28 26 0.76
29 3 0.09
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (28 bp):
GGAGTATCCCCTGAGAAATAACGGGATG
Found at i:2295307 original size:158 final size:158
Alignment explanation
Indices: 2295019--2295352 Score: 562
Period size: 158 Copynumber: 2.1 Consensus size: 158
2295009 AGCCAGGGTT
* *
2295019 GGAGTATCCCCTCA-GAGATAACGGGGTTGGACTAACCCCGATTGTGAGAAATCAGTGTTTTGGA
1 GGAGTAT-CCCTGATGAAATAACGGGGTTGGACTAACCCCGATTGTGAGAAATCAGTGTTTTGGA
* * *
2295083 AATCAAATCGGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGGGT
65 AATAAAATCGGAGCTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCAGGGT
2295148 TGGAGTATCCCCTCGGAAATAACGGGATG
130 TGGAGTATCCCCTCGGAAATAACGGGATG
* * *
2295177 GGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGGAA
1 GGAGTATCCCTGATGAAATAACGGGGTTGGACTAACCCCGATTGTGAGAAATCAGTGTTTTGGAA
* *
2295242 ATAAAATTGGAGCTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCGGGGTT
66 ATAAAATCGGAGCTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCAGGGTT
2295307 GGAGTATCCCCTCGGAAATAACGGGATG
131 GGAGTATCCCCTCGGAAATAACGGGATG
2295335 GGAGTATCCCTGATGAAA
1 GGAGTATCCCTGATGAAA
2295353 AATTGATGTT
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 5 0.03
158 160 0.97
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (158 bp):
GGAGTATCCCTGATGAAATAACGGGGTTGGACTAACCCCGATTGTGAGAAATCAGTGTTTTGGAA
ATAAAATCGGAGCTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCAGGGTT
GGAGTATCCCCTCGGAAATAACGGGATG
Found at i:2298772 original size:46 final size:46
Alignment explanation
Indices: 2298716--2299182 Score: 247
Period size: 46 Copynumber: 10.5 Consensus size: 46
2298706 AATAAAGTGC
*
2298716 GTCCTGCTCTTTGAGAACTAGAACG-GAAAAGAAGGAAAT-GAATAGT
1 GTCCTGCTCTTTGAGAAC-AAAACGAGAAAAGAAGGAAATGGAA-AGT
* * * * *
2298762 GTCTTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGT
1 GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
* *
2298808 GTCCTGCTCTTTGAGGAC-AAA-G-G-AGAGAAGGAAAAT--AAAGT
1 GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGG-AAATGGAAAGT
* * * * *
2298849 GCGTCCTGCTCTTTAAGGAC-AGAGGAGAAAAG--GAAAAT--AAAGT
1 --GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
* * *
2298892 ACATCCTGCTCTTTGAGGACAAAA-GGGAAAAGAAGGAAAT-G-AAGT
1 --GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
* * * *
2298937 GCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGT
1 --GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
* * *
2298985 GTCCTCCTCTTTGAGGAC--AA--AGAAGAGAAGGAAAAT--AAAGT
1 GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGG-AAATGGAAAGT
* * * * * *
2299026 G-CAACTTGCTCTTTGAGGAC-AGAGGAGAAAAG--GAAAAT-AAAATGC
1 GTC--C-TGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAA-GT
* *
2299071 GTCCTGCTCTTTGAGGACAAAA-GGGAAAAGAAGGAAAT-G-AAGT
1 GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
* * * * *
2299114 GCGTCCTGCTCTTTAAGGACAAAAGGAGAAAAGAAGGGAATGGAACGT
1 --GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
*
2299162 GTCCTGCTCTTTGAGGACAAA
1 GTCCTGCTCTTTGAGAACAAA
2299183 GGAGAGAAGG
Statistics
Matches: 344, Mismatches: 44, Indels: 66
0.76 0.10 0.15
Matches are distributed among these distances:
40 1 0.00
41 9 0.03
42 18 0.05
43 98 0.28
44 17 0.05
45 67 0.19
46 123 0.36
47 5 0.01
48 6 0.02
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.19
Consensus pattern (46 bp):
GTCCTGCTCTTTGAGAACAAAACGAGAAAAGAAGGAAATGGAAAGT
Found at i:2298958 original size:177 final size:177
Alignment explanation
Indices: 2298642--2299222 Score: 905
Period size: 177 Copynumber: 3.3 Consensus size: 177
2298632 CTTGCTTATC
* * * * * * * * *
2298642 GAGGACAAAGGAAAAAAAGGAAAACAAAATGTGTCCTACTCTTTGGGGATAAAGGA-AAAAGGAA
1 GAGGACAAAGG-AGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAGAGGAGAAAAGGAA
* * * * *
2298706 AATAAAGTGCGTCCTGCTCTTTGAGAACTAGAACGGAAAAGAAGGAAATGAA-TAGTGTCTTGCT
65 AATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAAGGGAAAAGAAGGAAATGAAGT-GCGTCCTGCT
2298770 CTTTGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
128 CTTTGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
*
2298820 GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAGAGGAGAAAAGGAAA
1 GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAGAGGAGAAAAGGAAA
* *
2298885 ATAAAGTACATCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
66 ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
*
2298950 TGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTCCTCTTT
131 TGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
* ** *
2298997 GAGGACAAAGAAGAGAAGGAAAATAAAGTGCAACTTGCTCTTTGAGGACAGAGGAGAAAAGGAAA
1 GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAGAGGAGAAAAGGAAA
*
2299062 ATAAAATGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
66 ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
*
2299127 TAAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
131 TGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
2299174 GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1 GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
2299223 TAGGAGGTGC
Statistics
Matches: 369, Mismatches: 32, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
177 324 0.88
178 45 0.12
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.19
Consensus pattern (177 bp):
GAGGACAAAGGAGAGAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAGAGGAGAAAAGGAAA
ATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTT
TGAGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTT
Found at i:2299306 original size:63 final size:62
Alignment explanation
Indices: 2299202--2299375 Score: 210
Period size: 63 Copynumber: 2.8 Consensus size: 62
2299192 GAAAATAAAG
*
2299202 TGCGTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGCGGGCTTTAG-AAAGAAAAAA
1 TGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTTAGCAAAG--AAAA
* * ** * *
2299265 TGCGCCCTGCTCTTTGAGGACTAGAAGGTGTCACCAACTTGTTTGGGC-TTCGCAAAGATAA
1 TGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTTAGCAAAGAAAA
* * **
2299326 -GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGCGGGCTTT
1 TGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTT
2299376 TTAGCGATAC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
60 39 0.41
61 5 0.05
62 3 0.03
63 47 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (62 bp):
TGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGCGGGCTTTAGCAAAGAAAA
Found at i:2299373 original size:60 final size:61
Alignment explanation
Indices: 2299206--2299374 Score: 191
Period size: 60 Copynumber: 2.8 Consensus size: 61
2299196 ATAAAGTGCG
*
2299206 TCCTGCTCTTTGAGGACTAGG-AGGTGCCACCAACTTGTGCGGGCTTTAGAAAGAAAAAATGCG
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGCGGGC-TTAGAAAG-AAAAATGCA
* * * ** * *
2299269 CCCTGCTCTTTGAGGACTAGAAGGTGTCACCAACTTGTTTGGGCTTCGCAAAG-ATAA-GCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGGCTTAG-AAAGAAAAATGCA
**
2299329 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGCGGGCTT
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGGCTT
2299375 TTTAGCGATA
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
60 41 0.46
61 3 0.03
62 4 0.04
63 41 0.46
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGGCTTAGAAAGAAAAATGCA
Found at i:2299455 original size:19 final size:21
Alignment explanation
Indices: 2299431--2299482 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
2299421 AGTGATACAT
*
2299431 TGTATCGATACATT-ACT-TA
1 TGTATCGATACATTAACTGAA
2299450 TGTATCGATACATTAACTGAA
1 TGTATCGATACATTAACTGAA
2299471 TGTATCGATACA
1 TGTATCGATACA
2299483 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTAACTGAA
Found at i:2299859 original size:27 final size:27
Alignment explanation
Indices: 2299815--2299898 Score: 132
Period size: 27 Copynumber: 3.1 Consensus size: 27
2299805 CTTTGAAAGG
* *
2299815 AAAAAGATGCAACAGAGTTGTGGACTT
1 AAAAAGGTGCAACGGAGTTGTGGACTT
*
2299842 AAAAAGGTGCTACGGAGTTGTGGACTT
1 AAAAAGGTGCAACGGAGTTGTGGACTT
*
2299869 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCAACGGAGTTGTGGACTT
2299896 AAA
1 AAA
2299899 GGGAAAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAAGGTGCAACGGAGTTGTGGACTT
Found at i:2299940 original size:35 final size:34
Alignment explanation
Indices: 2299869--2299968 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
2299859 TTGTGGACTT
* * * *
2299869 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAGGG
1 AAAAATGTGCCACGGAGTTATGGACTTAAAAAGA
* *
2299902 AAAAATAGTGCCATGGAGTTATGGGCTTTAAAAAGA
1 AAAAAT-GTGCCACGGAGTTATGGAC-TTAAAAAGA
*
2299938 AAAAATGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAATGTGCCACGGAGTTATGGACTTAAAA
2299969 GGGTGCCACA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 5 0.09
34 22 0.40
35 18 0.33
36 10 0.18
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAATGTGCCACGGAGTTATGGACTTAAAAAGA
Found at i:2299976 original size:27 final size:27
Alignment explanation
Indices: 2299944--2300058 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 27
2299934 AAGAAAAAAT
*
2299944 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
2299971 GTGCCACAAAGTTGTAGACTTTGAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
* ** *
2300005 ATGCCATGGAGTTATGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
2300032 GAGCCACAGAGTTGTGGACTGAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
2300059 AAAAAGAGTG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
27 38 0.58
28 2 0.03
29 5 0.08
32 5 0.08
33 2 0.03
34 14 0.21
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:2300017 original size:61 final size:62
Alignment explanation
Indices: 2299927--2300075 Score: 198
Period size: 61 Copynumber: 2.4 Consensus size: 62
2299917 GAGTTATGGG
* * * *
2299927 CTTTAAAAAGAAAAA-ATGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTAGA
1 CTTTGAAAAGAAAAAGA-GTGCCATGGAGTTATGGACTTAAAAGGGAGCCACAAAGTTGTAGA
* *
2299989 CTTTGAAAAGAAAAAGA-TGCCATGGAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGA
1 CTTTGAAAAGAAAAAGAGTGCCATGGAGTTATGGACTTAAAAGGGAGCCACAAAGTTGTAGA
2300050 C--TGAAAAGGAAAAAGAGTGCCATGGA
1 CTTTGAAAA-GAAAAAGAGTGCCATGGA
2300076 ATGTGGGCTT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
59 6 0.08
60 8 0.10
61 49 0.63
62 14 0.18
63 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (62 bp):
CTTTGAAAAGAAAAAGAGTGCCATGGAGTTATGGACTTAAAAGGGAGCCACAAAGTTGTAGA
Found at i:2300098 original size:157 final size:157
Alignment explanation
Indices: 2299856--2300493 Score: 940
Period size: 157 Copynumber: 4.1 Consensus size: 157
2299846 AGGTGCTACG
* * * *
2299856 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAGGGAAAAATAGTGCCATGGAGT
1 GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
* * *
2299921 TATGGGCTTTAAAAAGAAAAAATGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGT
66 TGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
*
2299986 AGACTTTGAAAAGAAAAAGATGCCATG
131 AGACTTTGAAAAGAAAAAGATGCCATA
* * * * * *
2300013 GAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGACTGAAAAGGAAAAAGAGTGCCATGGA-A
1 GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
* * *
2300077 TGTGGGCTTTAAAAATAAAAAA-GTGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGT
66 TGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
* *
2300141 GGACTTTGAAAGGAAAAAGATGCCATA
131 AGACTTTGAAAAGAAAAAGATGCCATA
*
2300168 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
1 GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
* * ** * *
2300233 TGTGGGCTTTAAAAAGAAAACAGGTGCCACAGAGTTGTGGACTTAAAAAAGTGCCATAGAGTTGT
66 TGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
* * *
2300298 GGACTTTGAAAGGAAAAAGATGCCACA
131 AGACTTTGAAAAGAAAAAGATGCCATA
* *
2300325 AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
1 GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
*
2300390 TGTGGGCTTTAAAAAGAAAACAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
66 TGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
* *
2300455 AGACTTTGAAAAGAAAAAGGTG-CACA
131 AGACTTTGAAAAGAAAAAGATGCCATA
*
2300481 GAGTCGTGGACTT
1 GAGTTGTGGACTT
2300494 TGGGAAGAGA
Statistics
Matches: 435, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
155 120 0.28
156 55 0.13
157 260 0.60
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (157 bp):
GAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
TGTGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACAAAGTTGT
AGACTTTGAAAAGAAAAAGATGCCATA
Found at i:2300102 original size:33 final size:34
Alignment explanation
Indices: 2300059--2300281 Score: 95
Period size: 34 Copynumber: 7.0 Consensus size: 34
2300049 ACTGAAAAGG
*
2300059 AAAAAGAGTGCCATGGA-ATGTGGGCTTTAAAAAT
1 AAAAAGAGTGCCACGGAGATGTGGGC-TTAAAAAT
*
2300093 AAAAA-AGTGCCACGGAGTTGTGGGCTT-AAAAT
1 AAAAAGAGTGCCACGGAGATGTGGGCTTAAAAAT
* * * * **
2300125 -----G-GTGCCACAGAGTTGTGGACTTTGAAAGG
1 AAAAAGAGTGCCACGGAGATGTGGGC-TTAAAAAT
** * *
2300154 AAAAAGA-TGCCATAGAGTTGTGGAC-T-----T
1 AAAAAGAGTGCCACGGAGATGTGGGCTTAAAAAT
* * **
2300181 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGAGTGCCACGGAGATGTGGGCTTAAAAAT
* *
2300214 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGAGTGCCACGGAGATGTGGGC-TTAAAAAT
* * *
2300249 AAAACAG-GTGCCACAGAGTTGTGGACTTAAAAA
1 AAAA-AGAGTGCCACGGAGATGTGGGCTTAAAAA
2300282 AGTGCCATAG
Statistics
Matches: 154, Mismatches: 15, Indels: 40
0.74 0.07 0.19
Matches are distributed among these distances:
27 39 0.25
28 3 0.02
29 3 0.02
32 6 0.04
33 18 0.12
34 55 0.36
35 28 0.18
36 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (34 bp):
AAAAAGAGTGCCACGGAGATGTGGGCTTAAAAAT
Found at i:2300165 original size:61 final size:60
Alignment explanation
Indices: 2300094--2300280 Score: 223
Period size: 61 Copynumber: 3.0 Consensus size: 60
2300084 TTTAAAAATA
* *
2300094 AAAAAG-TGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTTGAAAGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACAGAGTTGTGGAC-TTAAAAGG
** * *
2300154 AAAAAGATGCCATAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
2300214 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAACAGGTGCCACAGAGTTGTGGACTTAA
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TT------AAAA-AGGTGCCACAGAGTTGTGGACTTAA
2300279 AA
57 AA
2300281 AAGTGCCATA
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
60 20 0.19
61 55 0.51
62 2 0.02
68 4 0.04
69 26 0.24
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (60 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:2300183 original size:94 final size:95
Alignment explanation
Indices: 2299999--2300185 Score: 247
Period size: 94 Copynumber: 2.0 Consensus size: 95
2299989 CTTTGAAAAG
*
2299999 AAAAAGATGCCATGGAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGACTGAAAAGGAAAAA
1 AAAAAGATGCCACGGAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGACTGAAAAGGAAAAA
* *
2300064 GAGTGCCATGGAATGTGGGCTTTAAAAATA
66 GAGTGCCATAGAATGTGGACTTTAAAAATA
* * * *
2300094 AAAAAG-TGCCACGGAGTTGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTTG-AAAGGAAA
1 AAAAAGATGCCACGGAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGAC--TGAAAAGGAAA
*
2300157 AAGA-TGCCATAGAGTTGTGGAC-TTAAAAA
64 AAGAGTGCCATAGA-ATGTGGACTTTAAAAA
2300186 GGTGCCACGG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
94 55 0.68
95 24 0.30
96 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.21
Consensus pattern (95 bp):
AAAAAGATGCCACGGAGTTATGGACTTAAAAGGGAGCCACAGAGTTGTGGACTGAAAAGGAAAAA
GAGTGCCATAGAATGTGGACTTTAAAAATA
Found at i:2300288 original size:27 final size:27
Alignment explanation
Indices: 2300092--2300368 Score: 176
Period size: 27 Copynumber: 9.2 Consensus size: 27
2300082 GCTTTAAAAA
* *
2300092 TAAAAAAGTGCCACGGAGTTGTGGGCT
1 TAAAAAAGTGCCACAGAGTTGTGGACT
**
2300119 TAAAATGGTGCCACAGAGTTGTGGACTT
1 TAAAAAAGTGCCACAGAGTTGTGGAC-T
*
2300147 TGAAAGGAAAAAGATGCCATAGAGTTGTGGACT
1 T---A--AAAAAG-TGCCACAGAGTTGTGGACT
* *
2300180 TAAAAAGGTGCCACGGAGTTGTGGACT
1 TAAAAAAGTGCCACAGAGTTGTGGACT
* *
2300207 TAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 T------AAAAA-AGTGCCACAGAGTTGTGGAC-T
2300242 TAAAAAGAAAACAGGTGCCACAGAGTTGTGGACT
1 T----A-AAAA-A-GTGCCACAGAGTTGTGGACT
*
2300276 TAAAAAAGTGCCATAGAGTTGTGGACTT
1 TAAAAAAGTGCCACAGAGTTGTGGAC-T
*
2300304 TGAAAGGAAAAAGATGCCACAAAGTTGTGGACT
1 T---A--AAAAAG-TGCCACAGAGTTGTGGACT
**
2300337 TAAAAGGGTGCCACAGAGTTGTGGACT
1 TAAAAAAGTGCCACAGAGTTGTGGACT
2300364 TAAAA
1 TAAAA
2300369 GGAAAAAGAG
Statistics
Matches: 203, Mismatches: 23, Indels: 48
0.74 0.08 0.18
Matches are distributed among these distances:
27 81 0.40
28 14 0.07
29 4 0.02
30 3 0.01
31 2 0.01
33 22 0.11
34 58 0.29
35 19 0.09
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.22
Consensus pattern (27 bp):
TAAAAAAGTGCCACAGAGTTGTGGACT
Found at i:2300339 original size:61 final size:61
Alignment explanation
Indices: 2300214--2300405 Score: 242
Period size: 61 Copynumber: 3.1 Consensus size: 61
2300204 ACTTAAAAGG
* * * *
2300214 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAACAGGTGCCACAGAGTTGTGGACTT
1 AAAAA-AGTGCCACAGAGTTGTGGACTTTAAAAGGAAAA-AGATGCCACAGAGTTGTGGACTT
* * *
2300277 AAAAAAGTGCCATAGAGTTGTGGACTTTGAAAGGAAAAAGATGCCACAAAGTTGTGGACTT
1 AAAAAAGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTT
** * *
2300338 AAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGA-TGCCACAGAGTTGTGGACTT
*
2300399 TAAAAAG
1 AAAAAAG
2300406 AAAACAGGTG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
60 14 0.13
61 64 0.58
62 28 0.25
63 5 0.05
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (61 bp):
AAAAAAGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTT
Found at i:2300445 original size:62 final size:60
Alignment explanation
Indices: 2300378--2300493 Score: 151
Period size: 62 Copynumber: 1.9 Consensus size: 60
2300368 AGGAAAAAGA
** * * * *
2300378 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAACAGGTGCCACGGAGTTGTGGACTTAAAATG
1 GTGCCACAAAGTTGTAGACTTTAAAAAGAAAA-AGGTG-CACAGAGTCGTGGACTTAAAATG
*
2300440 GTGCCACAAAGTTGTAGACTTTGAAAAGAAAAAGGTGCACAGAGTCGTGGACTT
1 GTGCCACAAAGTTGTAGACTTTAAAAAGAAAAAGGTGCACAGAGTCGTGGACTT
2300494 TGGGAAGAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 15 0.32
61 5 0.11
62 27 0.57
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (60 bp):
GTGCCACAAAGTTGTAGACTTTAAAAAGAAAAAGGTGCACAGAGTCGTGGACTTAAAATG
Found at i:2300564 original size:157 final size:156
Alignment explanation
Indices: 2299842--2300707 Score: 728
Period size: 157 Copynumber: 5.5 Consensus size: 156
2299832 TTGTGGACTT
* * * * * *
2299842 AAAAAGGTGCTACGGAGTTGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGAC-TTAAAGGGAAA
1 AAAAAGATGC-ACAGAGTTGTGGACTTAAAAGAGATGCCACAGAGTTGTGGACTTTGAA-GAAAA
* ** *
2299905 AATAGTGCCA-TGGAGTTATGGGCTTTAAAAAGAAAAAATGTGCCACGGAGTTGTGGACTTAAAA
64 AAGAGTGCCACT-GAGTCGTGGGC-TTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
2299969 GGGTGCCACAAAGTTGTAGACTTTGAAAAG
127 AGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *** *
2299999 AAAAAGATGC-CATGGAGTTATGGACTTAAAAGGGA-GCCACAGAGTTGTGGACTGAAAAGGAAA
1 AAAAAGATGCACA--GAGTTGTGGACTTAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAA
* * *
2300062 AAGAGTGCCA-TGGAAT-GTGGGCTTTAAAAATAAAAAA-GTGCCACGGAGTTGTGGGCTTAAAA
64 AAGAGTGCCACT-GAGTCGTGGGC-TTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
2300124 TGGTGCCACAGAGTTGTGGACTTTGAAAGG
127 AGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * ** *
2300154 AAAAAGATGCCATAGAGTTGTGGACTTAAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 AAAAAGATG-CACAGAGTTGTGGACTTAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAA
* * * * *
2300218 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAACAGGTGCCACAGAGTTGTGGACTTAAAAAA
65 AGAGTGCCACTGAGTCGTGGGC-TTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
2300283 GTGCCATAGAGTTGTGGACTTTGAAAGG
129 GTGCCACAGAGTTGTGGACTTTGAAAAG
* * ** *
2300311 AAAAAGATGCCACAAAGTTGTGGACTTAAAAG-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAA
1 AAAAAGATG-CACAGAGTTGTGGACTTAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAA
* * * *
2300375 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAACAGGTGCCACGGAGTTGTGGACTTAAAATG
65 AGAGTGCCACTGAGTCGTGGGC-TTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
2300440 GTGCCACAAAGTTGTAGACTTTGAAAAG
129 GTGCCACAGAGTTGTGGACTTTGAAAAG
* * ** * **
2300468 AAAAAGGTGCACAGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAA
1 AAAAAGATGCACAGAGTTGTGGAC-TT-AAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAA
* * ** * ** **
2300533 AA-AGATGTCACTGAGTCGTGGACTT-GGAAG-AAAAAGATGCCATTGAGTCATGGACTTAGAAA
64 AAGAG-TGCCACTGAGTCGTGGGCTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTA-AAA
* *
2300595 AGAGATGTCACTGAGTTGTGGACTTTG--AAG
127 AG-G-TGCCACAGAGTTGTGGACTTTGAAAAG
* * * * * * *
2300625 -AAAAGATACCACTGAGTCGTGGACTTCGAAGAAAAGATGCCACTGAGTCGTGGACTTTG--G-G
1 AAAAAGAT-GCACAGAGTTGTGGACTT--AA-AAGAGATGCCACAGAGTTGTGGACTTTGAAGAA
*
2300686 ACAAGA-TGCCACTGAGTCGTGG
62 AAAAGAGTGCCACTGAGTCGTGG
2300708 ACTTTGAGAA
Statistics
Matches: 606, Mismatches: 81, Indels: 47
0.83 0.11 0.06
Matches are distributed among these distances:
154 16 0.03
155 118 0.19
156 84 0.14
157 292 0.48
158 38 0.06
159 58 0.10
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (156 bp):
AAAAAGATGCACAGAGTTGTGGACTTAAAAGAGATGCCACAGAGTTGTGGACTTTGAAGAAAAAA
GAGTGCCACTGAGTCGTGGGCTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGT
GCCACAGAGTTGTGGACTTTGAAAAG
Found at i:2300638 original size:31 final size:31
Alignment explanation
Indices: 2300481--2300807 Score: 353
Period size: 30 Copynumber: 10.5 Consensus size: 31
2300471 AAGGTGCACA
* *
2300481 GAGTCGTGGACTTTG-GGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
2300511 GAGTCATGGACTTTGAAGAAAAAAAGATGTCACT
1 GAGTCGTGGACTTTGAAG---AAAAGATGCCACT
* *
2300545 GAGTCGTGGACTTGGAAGAAAAAGATGCCATT
1 GAGTCGTGGACTTTGAAG-AAAAGATGCCACT
* * * *
2300577 GAGTCATGGACTTAGAA-AAGAGATGTCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
2300607 GAGTTGTGGACTTTGAAGAAAAGATACCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
*
2300638 GAGTCGTGGACTTCGAAGAAAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
2300669 GAGTCGTGGACTTTG-GGACAAGATGCCACT
1 GAGTCGTGGACTTTGAAGAAAAGATGCCACT
* *
2300699 GAGTCGTGGACTTTG-AGAAGAGATTACCACT
1 GAGTCGTGGACTTTGAAGAAAAGA-TGCCACT
2300730 GAGTCGTGGACTTTGACA-AAAGAGATGCCACT
1 GAGTCGTGGACTTTGA-AGAAA-AGATGCCACT
*
2300762 GAG-CTGTGGACTTTG-AGAAGAGATGCCACT
1 GAGTC-GTGGACTTTGAAGAAAAGATGCCACT
* *
2300792 AAGTCATGGACTTTGA
1 GAGTCGTGGACTTTGA
2300808 GAAGAGAGAT
Statistics
Matches: 250, Mismatches: 34, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
30 93 0.37
31 78 0.31
32 48 0.19
33 4 0.02
34 27 0.11
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (31 bp):
GAGTCGTGGACTTTGAAGAAAAGATGCCACT
Found at i:2300814 original size:93 final size:93
Alignment explanation
Indices: 2300481--2300807 Score: 398
Period size: 93 Copynumber: 3.5 Consensus size: 93
2300471 AAGGTGCACA
*
2300481 GAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAAGATGT--CAC
1 GAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAG---AAAAGAT-TACCAC
* *
2300544 TGAGTCGTGGACTTGGAAGAAAAAGATGCCATT
62 TGAGTCGTGGACTTCGAAG-AAAAGATGCCACT
* * * * **
2300577 GAGTCATGGACTTAGAAAAGAGATGTCACTGAGTTGTGGACTTTGAAGAAAAGA-TACCACTGAG
1 GAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATTACCACTGAG
2300641 TCGTGGACTTCGAAGAAAAGATGCCACT
66 TCGTGGACTTCGAAGAAAAGATGCCACT
* * *
2300669 GAGTCGTGGACTTTGGGACA-AGATGCCACTGAGTCGTGGACTTTG-AGAAGAGATTACCACTGA
1 GAGTCGTGGACTTTGAGA-AGAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATTACCACTGA
*
2300732 GTCGTGGACTTTGACA-AAAGAGATGCCACT
65 GTCGTGGACTTCGA-AGAAA-AGATGCCACT
*
2300762 GAG-CTGTGGACTTTGAGAAGAGATGCCACTAAGTCATGGACTTTGA
1 GAGTC-GTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGA
2300808 GAAGAGAGAT
Statistics
Matches: 202, Mismatches: 20, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
91 8 0.04
92 76 0.38
93 77 0.38
96 41 0.20
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (93 bp):
GAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATTACCACTGAG
TCGTGGACTTCGAAGAAAAGATGCCACT
Found at i:2305040 original size:21 final size:21
Alignment explanation
Indices: 2305007--2305056 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2304997 TTGCAAGTTG
*
2305007 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2305029 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2305050 AAATAAA
1 AAATAAA
2305057 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2306873 original size:15 final size:15
Alignment explanation
Indices: 2306853--2306883 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2306843 TAAAAATGTC
*
2306853 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2306868 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2306883 C
1 C
2306884 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2309092 original size:21 final size:22
Alignment explanation
Indices: 2309068--2309111 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2309058 TATCTTCTAA
2309068 ACTTCAAAATACTT-GTTTTTC
1 ACTTCAAAATACTTCGTTTTTC
*
2309089 ACTTCAAATTACTTCGTTTTTC
1 ACTTCAAAATACTTCGTTTTTC
2309111 A
1 A
2309112 TCAAAACCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (22 bp):
ACTTCAAAATACTTCGTTTTTC
Found at i:2309115 original size:20 final size:20
Alignment explanation
Indices: 2309071--2309117 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
2309061 CTTCTAAACT
2309071 TCAAAATACTTGTTTTTCAC
1 TCAAAATACTTGTTTTTCAC
*
2309091 TTCAAATTACTTCGTTTTTCA-
1 -TCAAAATACTT-GTTTTTCAC
2309112 TCAAAA
1 TCAAAA
2309118 CCAGCATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
TCAAAATACTTGTTTTTCAC
Found at i:2311527 original size:13 final size:13
Alignment explanation
Indices: 2311509--2311534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2311499 TACACCAAGT
2311509 ATGTATCGATACA
1 ATGTATCGATACA
2311522 ATGTATCGATACA
1 ATGTATCGATACA
2311535 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:2311532 original size:32 final size:33
Alignment explanation
Indices: 2311491--2311554 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2311481 TAGCCAAACT
* **
2311491 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2311523 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2311555 GTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2312458 original size:44 final size:42
Alignment explanation
Indices: 2312322--2312601 Score: 118
Period size: 44 Copynumber: 6.4 Consensus size: 42
2312312 TGATGCTAGC
* * * *
2312322 ATTTACATTATTTCACGTACATCTACATTTTAGATAACATTGGT
1 ATTTGCATCATTTCATGTACATCTGCATTTTAGAT-ACA-TGGT
* * * * * *
2312366 ATTTGCATCATTTCATATGCATTTGCCACTTTGTTGATAC-TTGC
1 ATTTGCATCATTTCATGTACATCTG-CA-TTT-TAGATACATGGT
*
2312410 ATTTGCATCATTTCATGTACATGTGCATTTTAGATGACATCGGT
1 ATTTGCATCATTTCATGTACATCTGCATTTTAGAT-ACAT-GGT
* * * * * *
2312454 ATTTGCAGT--TTTCATATGCATTTGCCTTTTTTATTGATGC-TTGT
1 ATTTGCA-TCATTTCATGTACATCTG-C-ATTTTA--GATACATGGT
** * * * * *
2312498 ATTTGCATCGCTTCATGCACATCTACATTTTGGATAACATTAGC
1 ATTTGCATCATTTCATGTACATCTGCATTTTAGAT-ACA-TGGT
* * * ** *
2312542 ATTTGCATCGTTTCATGCATATCTATATTTTAGATAACATTAGT
1 ATTTGCATCATTTCATGTACATCTGCATTTTAGAT-ACA-TGGT
2312586 ATTTGCATCATTTCAT
1 ATTTGCATCATTTCAT
2312602 ATGTGTTGCC
Statistics
Matches: 181, Mismatches: 39, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
41 7 0.04
42 6 0.03
43 20 0.11
44 117 0.65
45 18 0.10
46 6 0.03
47 7 0.04
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (42 bp):
ATTTGCATCATTTCATGTACATCTGCATTTTAGATACATGGT
Found at i:2312460 original size:88 final size:88
Alignment explanation
Indices: 2312308--2312557 Score: 288
Period size: 88 Copynumber: 2.8 Consensus size: 88
2312298 TAAGCTTTCA
* * * *
2312308 TTATTGATGCTAGCATTTACATTATTTCACGTACATCTACATTTTAGATAACATTGGTATTTGCA
1 TTATTGATGCTTGCATTTGCATCATTTCATGTACATCTACATTTTAGATAACATTGGTATTTGCA
2312373 TCATTTCATATGCATTTGCC-ACT
66 TC-TTTCATATGCATTTGCCTACT
* * * * * *
2312396 TTGTTGATACTTGCATTTGCATCATTTCATGTACATGTGCATTTTAGATGACATCGGTATTTGCA
1 TTATTGATGCTTGCATTTGCATCATTTCATGTACATCTACATTTTAGATAACATTGGTATTTGCA
**
2312461 GT-TTTCATATGCATTTGCCTTTT
66 -TCTTTCATATGCATTTGCCTACT
* ** * * * *
2312484 TTATTGATGCTTGTATTTGCATCGCTTCATGCACATCTACATTTTGGATAACATTAGCATTTGCA
1 TTATTGATGCTTGCATTTGCATCATTTCATGTACATCTACATTTTAGATAACATTGGTATTTGCA
2312549 TCGTTTCAT
66 TC-TTTCAT
2312558 GCATATCTAT
Statistics
Matches: 133, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
87 18 0.14
88 108 0.81
89 7 0.05
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (88 bp):
TTATTGATGCTTGCATTTGCATCATTTCATGTACATCTACATTTTAGATAACATTGGTATTTGCA
TCTTTCATATGCATTTGCCTACT
Found at i:2313154 original size:89 final size:89
Alignment explanation
Indices: 2313028--2313283 Score: 307
Period size: 90 Copynumber: 2.9 Consensus size: 89
2313018 TAATGCGTTG
* *
2313028 GGGCAAAGGTGCAG-CCACACCTTCCTAATCATATCCCCTTTATTCAACTACTACATGGTACTAA
1 GGGC-AAGGTGCAGCCCACACCTTCCTAATCATATCCCCTTTATTCAACCACTAAATGGTACTAA
*
2313092 TGCATCACAAAGCCTTATTTTCCTA
65 TGCATCACAAAGCCTGATTTTCCTA
* * * * * * * *
2313117 TGGTAAGGTGCAGCCCACAACTTCCTAATCATATCCCCTTCATTTAACCACTAGATAGTGCTAAT
1 GGGCAAGGTGCAGCCCACACCTTCCTAATCATATCCCCTTTATTCAACCACTAAATGGTACTAAT
*
2313182 GCATCATAAAAGCCTGATTTTCCTA
66 GCATCA-CAAAGCCTGATTTTCCTA
* * * * * * *
2313207 GGGCAAGGTACAACCCACACCTTTCTAATCATATCCGCTTTATTCAACCACCAAATGGTATTGAT
1 GGGCAAGGTGCAGCCCACACCTTCCTAATCATATCCCCTTTATTCAACCACTAAATGGTACTAAT
*
2313272 GCATTACAAAGC
66 GCATCACAAAGC
2313284 TGGATTTCCT
Statistics
Matches: 137, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
88 9 0.07
89 57 0.42
90 71 0.52
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (89 bp):
GGGCAAGGTGCAGCCCACACCTTCCTAATCATATCCCCTTTATTCAACCACTAAATGGTACTAAT
GCATCACAAAGCCTGATTTTCCTA
Found at i:2313720 original size:94 final size:94
Alignment explanation
Indices: 2313559--2314363 Score: 336
Period size: 94 Copynumber: 8.8 Consensus size: 94
2313549 ATTGTATCTA
* * * *
2313559 GTCAAACTCTTCTCACCCTTATTTGATTATATTAGCATTAGGTACTGGTCAAACTCTTCTCACCT
1 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTACTAGTCAAACTCTTCTCACCT
**
2313624 TTGTTTAACTGTATTGATG-TTAGAACCTG
66 TTGTTTAACTGTATTGATGAAAAG-ACCTG
* *
2313653 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGGCGTTAGG-ACCTAGTCAAACTCTTTTCACC
1 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTA-CTAGTCAAACTCTTCTCACC
* * *
2313717 TTTGTTTGACTGTATTGGTGAAAAGACTTG
65 TTTGTTTAACTGTATTGATGAAAAGACCTG
* * **
2313747 GTCAAATTCTTCTCACCCTTGTTTGATTATATTGACGTTA-GTACT--T---GGT-TT-T-A--T
1 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTACTAGTCAAACTCTTCTCACCT
* * ** * *
2313801 TTG----ATTGTATTGGTGTTAGGAGCTG
66 TTGTTTAACTGTATTGATGAAAAGACCTG
* * * * * * * *
2313826 GTTAAACTCTTCTTACCCTTGTTTGACTATATTAGCGTTA-GCACCTGGTCAAACTTTTTTCACC
1 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTA-CTAGTCAAACTCTTCTCACC
* * * * * * * *
2313890 CTCGTTTTACTGTATCG--GCATTAGGGCCTA
65 TTTGTTTAACTGTATTGATG-A-AAAGACCTG
* * * * * * *
2313920 GTCAAACTCTTCTCACCCTTATTTAATTGTATTAGCATTAGG-ACCTAGTCAAACTCTTCTAACT
1 GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTA-CTAGTCAAACTCTTCTCACC
** * *
2313984 TTTGTTTGGCTCTATTG--GCATTAAGACCTG
65 TTTGTTTAACTGTATTGATG-A-AAAGACCTG
* * * * * * * *
2314014 GCCAAACTCTTTTCA-CCTTCGTTTGACTGTATTGGCATTAAG-ACTTGGTCAAACTCTTCTCGC
1 GTCAAACTCTTCTCACCCTT-GTTTGATTATATTGGCGTTAGGTAC-TAGTCAAACTCTTCTCAC
* * * * * *
2314077 CTTCGTTTGATTGTATTG--GCATTAGGACTTG
64 CTTTGTTTAACTGTATTGATG-A-AAAGACCTG
* * * * * * * *
2314108 GTCAAACTCTACTCA-CTTTCATTTGACTATATTGGTGTTAGG-GCCAGGTTAAACT-TTCTCAC
1 GTCAAACTCTTCTCACCCTT-GTTTGATTATATTGGCGTTAGGTACTA-GTCAAACTCTTCTCAC
** ** ***
2314170 CTTCATTTAACTGTATT-ACCATCTGGACCTG
64 CTTTGTTTAACTGTATTGATGA-AAAGACCTG
* * *
2314201 GTCAAACTCTTCTCA-CCTTCGTTTGATTGTATTGGCGTTAGG-ACCTGGTCAAACTCGTCTCAC
1 GTCAAACTCTTCTCACCCTT-GTTTGATTATATTGGCGTTAGGTA-CTAGTCAAACTCTTCTCAC
** * * * ****
2314264 C-TCATTTGATTGTATTG-GGGTTGGACCTG
64 CTTTGTTTAACTGTATTGATGAAAAGACCTG
* *
2314293 GTCAACCTCTT-TCCACCCTCT-TTTGACTATATTGGCGTTAGG-ACCTAGTCAAACTCTTCTCA
1 GTCAAACTCTTCT-CACCCT-TGTTTGATTATATTGGCGTTAGGTA-CTAGTCAAACTCTTCTCA
*
2314355 CCTTCGTTT
63 CCTTTGTTT
2314364 GATTATATTG
Statistics
Matches: 557, Mismatches: 121, Indels: 67
0.75 0.16 0.09
Matches are distributed among these distances:
79 52 0.09
80 2 0.00
82 1 0.00
83 4 0.01
85 2 0.00
86 3 0.01
87 3 0.01
88 2 0.00
90 2 0.00
91 2 0.00
92 60 0.11
93 101 0.18
94 320 0.57
95 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (94 bp):
GTCAAACTCTTCTCACCCTTGTTTGATTATATTGGCGTTAGGTACTAGTCAAACTCTTCTCACCT
TTGTTTAACTGTATTGATGAAAAGACCTG
Found at i:2313793 original size:47 final size:47
Alignment explanation
Indices: 2313559--2313795 Score: 228
Period size: 47 Copynumber: 5.0 Consensus size: 47
2313549 ATTGTATCTA
* * *
2313559 GTCAAACTCTTCTCACCCTTATTTGATTATATT-AGCATTAGGTA-CTG
1 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGA-CGTTA-GTACCTG
* * * * *
2313606 GTCAAACTCTTCTCACCTTTGTTTAACTGTATTGATGTTAGAACCTG
1 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGACGTTAGTACCTG
* * *
2313653 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGGCGTTAGGACCTA
1 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGACGTTAGTACCTG
* * * ** ** *
2313700 GTCAAACTCTTTTCACCTTTGTTTGACTGTATTGGTGAAAAG-ACTTG
1 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGACG-TTAGTACCTG
* * *
2313747 GTCAAATTCTTCTCACCCTTGTTTGATTATATTGACGTTAGTACTTG
1 GTCAAACTCTTCTCACCCTTGTTTGACTATATTGACGTTAGTACCTG
2313794 GT
1 GT
2313796 TTTATTTGAT
Statistics
Matches: 154, Mismatches: 32, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
46 4 0.03
47 147 0.95
48 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (47 bp):
GTCAAACTCTTCTCACCCTTGTTTGACTATATTGACGTTAGTACCTG
Found at i:2313874 original size:47 final size:48
Alignment explanation
Indices: 2313800--2314397 Score: 501
Period size: 47 Copynumber: 12.8 Consensus size: 48
2313790 CTTGGTTTTA
* ** * * *
2313800 TTTGATTGTATTGGTGTTAGGAGCTGGTTAAACTCTTCTTACCCTT-G
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * * * *
2313847 TTTGACTATATTAGCGTTAGCACCTGGTCAAACTTTTTTCACCC-TCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * * *
2313894 TTTTACTGTATCGGCATTAGGGCCTAGTCAAACTCTTCTCACCCTT-A
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * * * * *
2313941 TTTAATTGTATTAGCATTAGGACCTAGTCAAACTCTTCT-AACTTTTG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * * *
2313988 TTTGGCTCTATTGGCATTAAGACCTGGCCAAACTCTTTTCA-CCTTCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * *
2314035 TTTGACTGTATTGGCATTAAGACTTGGTCAAACTCTTCTC-GCCTTCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * * *
2314082 TTTGATTGTATTGGCATTAGGACTTGGTCAAACTCTACTCA-CTTTCA
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* ** * * * *
2314129 TTTGACTATATTGGTGTTAGGGCCAGGTTAAACT-TTCTCA-CCTTCA
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* **
2314175 TTTAACTGTATTACCATCT-GGACCTGGTCAAACTCTTCTCA-CCTTCG
1 TTTGACTGTATTGGCAT-TAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * * *
2314222 TTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCGTCTCA-CC-TCA
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* ** * *
2314268 TTTGATTGTATTGGGGTT-GGACCTGGTCAACCTCTT-TCCACCC-TCT
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCT-CACCCTTCG
* * *
2314314 TTTGACTATATTGGCGTTAGGACCTAGTCAAACTCTTCTCA-CCTTCG
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
* * *
2314361 TTTGATTATATTGGCATTAGGACCTGGTCAAGCTCTT
1 TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTT
2314398 TTTAACGTGA
Statistics
Matches: 446, Mismatches: 91, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.00
45 18 0.04
46 79 0.18
47 345 0.77
48 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (48 bp):
TTTGACTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACCCTTCG
Found at i:2314051 original size:141 final size:140
Alignment explanation
Indices: 2313800--2314397 Score: 610
Period size: 141 Copynumber: 4.3 Consensus size: 140
2313790 CTTGGTTTTA
** * * * * ** *
2313800 TTTGATTGTATTGGTGTTAGGAGCTGGTTAAACTCTTCTTACCCTTGTTTGACTATATTAGCGTT
1 TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACTCTCATTTGACTATATTGGCGTT
* * * *
2313865 AGCACCTGGTCAAACTTTTTTCACCCTCGTTTTACTGTATCGGCATTAGGGCCTAGTCAAACTCT
66 AG-ACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCT
*
2313930 TCTCACCCTT-A
130 TCTCA-CCTTCG
* * * * * ** * * *
2313941 TTTAATTGTATTAGCATTAGGACCTAGTCAAACTCTTCTAACTTTTGTTTGGCTCTATTGGCATT
1 TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACTCTCATTTGACTATATTGGCGTT
* * * * *
2314006 AAGACCTGGCCAAACTCTTTTCACCTTCGTTTGACTGTATTGGCATTAAGACTTGGTCAAACTCT
66 -AGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCT
*
2314071 TCTCGCCTTCG
130 TCTCACCTTCG
* * * *
2314082 TTTGATTGTATTGGCATTAGGACTTGGTCAAACTCTACTCACTTTCATTTGACTATATTGGTGTT
1 TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACTCTCATTTGACTATATTGGCGTT
* * * * * * * ** *
2314147 AGGGCCAGGTTAAACT-TTCTCACCTTCATTTAACTGTATTACCATCT-GGACCTGGTCAAACTC
66 A-GACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGCAT-TAGGACCTAGTCAAACTC
2314210 TTCTCACCTTCG
129 TTCTCACCTTCG
* * * * *
2314222 TTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCGTCTCAC-CTCATTTGATTGTATTGGGGTT
1 TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACTCTCATTTGACTATATTGGCGTT
* * * * * *
2314286 GGACCTGGTCAACCTCTTTCCACCCTCTTTTGACTATATTGGCGTTAGGACCTAGTCAAACTCTT
66 AGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTT
2314351 CTCACCTTCG
131 CTCACCTTCG
* *
2314361 TTTGATTATATTGGCATTAGGACCTGGTCAAGCTCTT
1 TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTT
2314398 TTTAACGTGA
Statistics
Matches: 375, Mismatches: 76, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
138 11 0.03
139 98 0.26
140 92 0.25
141 172 0.46
142 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (140 bp):
TTTGATTGTATTGGCATTAGGACCTGGTCAAACTCTTCTCACTCTCATTTGACTATATTGGCGTT
AGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTT
CTCACCTTCG
Found at i:2314062 original size:267 final size:267
Alignment explanation
Indices: 2313562--2314062 Score: 596
Period size: 267 Copynumber: 1.9 Consensus size: 267
2313552 GTATCTAGTC
* * * *
2313562 AAACTCTTCTCACCCTTATTTGATTATATTAGCATTAGGTACTGGTCAAACTCTTCTCACCTTTG
1 AAACTCTTCTCACCCTTATTTGACTATATTAGCATTAGGCACTGGTCAAACTCTTCTCACCCTCG
* ** * * * * *
2313627 TTTAACTGTATTGATGTTAGAACCTGGTCAAACTCTTCTCACCCTTGTTTGACTATATTGGCGTT
66 TTTAACTGTATCGACATTAGAACCTAGTCAAACTCTTCTCACCCTTATTTAACTATATTAGCATT
* * * * * * *
2313692 AGGACCTAGTCAAACTCTTTTCACCTTTGTTTGACTGTATTGGTGAAAAGACTTGGTCAAATTCT
131 AGGACCTAGTCAAACTCTTCTAACCTTTGTTTGACTCTATTGGTCAAAAGACCTGGCCAAACTCT
* *
2313757 TCTCACCCTTGTTTGATTATATTGACGTTAGTACTTGGTTTTATTTGATTGTATTGGTGTTAGGA
196 TCTCACCCTTGTTTGACTATATTGACATTAGTACTTGGTTTTATTTGATTGTATTGGTGTTAGGA
2313822 GCTGGTT
261 GCTGGTT
* * * * *
2313829 AAACTCTTCTTACCCTTGTTTGACTATATTAGCGTTA-GCACCTGGTCAAACTTTTTTCACCCTC
1 AAACTCTTCTCACCCTTATTTGACTATATTAGCATTAGGCA-CTGGTCAAACTCTTCTCACCCTC
* * ** * *
2313893 GTTTTACTGTATCGGCATTAGGGCCTAGTCAAACTCTTCTCACCCTTATTTAATTGTATTAGCAT
65 GTTTAACTGTATCGACATTAGAACCTAGTCAAACTCTTCTCACCCTTATTTAACTATATTAGCAT
* * *
2313958 TAGGACCTAGTCAAACTCTTCTAACTTTTGTTTGGCTCTATTGG-CATTAAGACCTGGCCAAACT
130 TAGGACCTAGTCAAACTCTTCTAACCTTTGTTTGACTCTATTGGTCA-AAAGACCTGGCCAAACT
* * *
2314022 CTTTTCA-CCTTCGTTTGACTGTATTGGCATTAAG-ACTTGGT
194 CTTCTCACCCTT-GTTTGACTATATTGACATT-AGTACTTGGT
2314063 CAAACTCTTC
Statistics
Matches: 192, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
266 7 0.04
267 183 0.95
268 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.41
Consensus pattern (267 bp):
AAACTCTTCTCACCCTTATTTGACTATATTAGCATTAGGCACTGGTCAAACTCTTCTCACCCTCG
TTTAACTGTATCGACATTAGAACCTAGTCAAACTCTTCTCACCCTTATTTAACTATATTAGCATT
AGGACCTAGTCAAACTCTTCTAACCTTTGTTTGACTCTATTGGTCAAAAGACCTGGCCAAACTCT
TCTCACCCTTGTTTGACTATATTGACATTAGTACTTGGTTTTATTTGATTGTATTGGTGTTAGGA
GCTGGTT
Found at i:2314518 original size:24 final size:24
Alignment explanation
Indices: 2314486--2314543 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
2314476 TCAAACCCTT
* *
2314486 CTAATCCCTTGACTAACCCTCTCA
1 CTAACCCCTTAACTAACCCTCTCA
* *
2314510 CTAACCCCTTAACTAACCCTTTGA
1 CTAACCCCTTAACTAACCCTCTCA
2314534 CTAACCCCTT
1 CTAACCCCTT
2314544 TTGATTAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.41, G:0.03, T:0.29
Consensus pattern (24 bp):
CTAACCCCTTAACTAACCCTCTCA
Found at i:2314783 original size:84 final size:84
Alignment explanation
Indices: 2314647--2314958 Score: 301
Period size: 84 Copynumber: 3.7 Consensus size: 84
2314637 TCTTTACCCT
* * * * *
2314647 AGAGACTTCTTCACCCTTTGTTTGC-CCTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCT
1 AGAGACCTCTTTACCCTTTGTCTGCTCGTCGACTTTGACCTGGGAGACTTCTTCACCCTTTGTCT
*
2314711 ACCCATCGGTTTTGATCC-A
66 ACCCATCGGCTTTGA-CCTA
* * *
2314730 AGAGACCTCTTTACCCTTTGTCTACTCGTCGACTTTGACCCGGGAGACCTCTTCACCCTTTGTCT
1 AGAGACCTCTTTACCCTTTGTCTGCTCGTCGACTTTGACCTGGGAGACTTCTTCACCCTTTGTCT
* *
2314795 GCCCGTCGGCTTTGACCTA
66 ACCCATCGGCTTTGACCTA
* * * *
2314814 GGAGACCT-TTTCACCTTTTGTCTGCTCGTCTG-CTTTGACTTGGGAGACTTTTTCACCCTTTGT
1 AGAGACCTCTTT-ACCCTTTGTCTGCTCGTC-GACTTTGACCTGGGAGACTTCTTCACCCTTTGT
* * ** * *
2314877 CTGCCCGTCAACTTTGACTTG
64 CTACCCATCGGCTTTGACCTA
* * * * * * *
2314898 AGAGACTTCTTTACCCTTTATTTGCTCATTGGCTTTGACCAT-GGAGACTTCTTTACCCTTT
1 AGAGACCTCTTTACCCTTTGTCTGCTCGTCGACTTTGACC-TGGGAGACTTCTTCACCCTTT
2314959 ATTTGCCCGT
Statistics
Matches: 190, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
83 27 0.14
84 158 0.83
85 5 0.03
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (84 bp):
AGAGACCTCTTTACCCTTTGTCTGCTCGTCGACTTTGACCTGGGAGACTTCTTCACCCTTTGTCT
ACCCATCGGCTTTGACCTA
Found at i:2314861 original size:126 final size:125
Alignment explanation
Indices: 2314648--2314958 Score: 281
Period size: 126 Copynumber: 2.5 Consensus size: 125
2314638 CTTTACCCTA
* *
2314648 GAGACTTCTTCACCCTTTGTTTGCCCTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTAC
1 GAGACCTCTTCACCCTTTGTCTGCCCTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTAC
* * *
2314713 CCATCGGTTTTGATCCAAGAGACCTCTTT-ACCCTTTGTCTACTCGTCGACTTTGACCCGG
66 CCATCGGCTTTGATCCAAGAGA-CTCTTTCACCCTTTGTCTACCCGTCAACTTTGACCCGG
* *
2314773 GAGACCTCTTCACCCTTTGTCTGCCCGTCGGCTTTGACCT-AGGAGACCTT-TTCACCTTTTGTC
1 GAGACCTCTTCACCCTTTGTCTGCCC-TCGACTTTGACCTGA-GAGA-CTTCTTCACCCTTTGTC
* * * * *** * * ** *
2314836 TGCTCGTCTGCTTTGA-CTTGGGAGACTTTTTCACCCTTTGTCTGCCCGTCAACTTTGACTTGA
63 TACCCATCGGCTTTGATC-CAAGAGACTCTTTCACCCTTTGTCTACCCGTCAACTTTGACCCGG
* * * * * * * *
2314899 GAGACTTCTTTACCCTTTATTTGCTCATTGGCTTTGACCATG-GAGACTTCTTTACCCTTT
1 GAGACCTCTTCACCCTTTGTCTGC-CCTCGACTTTGACC-TGAGAGACTTCTTCACCCTTT
2314959 ATTTGCCCGT
Statistics
Matches: 150, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
125 34 0.23
126 111 0.74
127 5 0.03
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (125 bp):
GAGACCTCTTCACCCTTTGTCTGCCCTCGACTTTGACCTGAGAGACTTCTTCACCCTTTGTCTAC
CCATCGGCTTTGATCCAAGAGACTCTTTCACCCTTTGTCTACCCGTCAACTTTGACCCGG
Found at i:2314895 original size:42 final size:42
Alignment explanation
Indices: 2314648--2315037 Score: 254
Period size: 42 Copynumber: 9.3 Consensus size: 42
2314638 CTTTACCCTA
* * * *
2314648 GAGACTTCTTCACCCTTTGTTTGCCC-TCGACTTTGACCTGA
1 GAGACTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
* * * ** ***
2314689 GAGACTTCTTCACCCTTTGTCTACCCATCGGTTTTGA-TCCAA
1 GAGACTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACT-TGG
* * * **
2314731 GAGACCTCTTT-ACCCTTTGTCTACTCGTCGACTTTGACCCGG
1 GAGA-CTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
* * * * *
2314773 GAGACCTCTTCACCCTTTGTCTGCCCGTCGGCTTTGACCTAG
1 GAGACTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
* * *
2314815 GAGACCTTTTCACCTTTTGTCTGCTCGTCTG-CTTTGACTTGG
1 GAGACTTTTTCACCCTTTGTCTGCCCGTC-GACTTTGACTTGG
* *
2314857 GAGACTTTTTCACCCTTTGTCTGCCCGTCAACTTTGACTTGA
1 GAGACTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
* * * * * * *
2314899 GAGACTTCTTT-ACCCTTTATTTGCTCATTGGCTTTGACCAT-G
1 GAGACTT-TTTCACCCTTTGTCTGCCCGTCGACTTTGA-CTTGG
* * * *
2314941 GAGACTTCTTT-ACCCTTTATTTGCCCGTCGACTTAGACTGGG
1 GAGACTT-TTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
* * * * * * *
2314983 GAGACTTCTTTTATCCTTTGTGTGCCTGTTGCCTTAGACTTGG
1 GAGACTT-TTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
2315026 GAGACTTCTTTC
1 GAGACTT-TTTC
2315038 TCTTTTCTTT
Statistics
Matches: 280, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
41 28 0.10
42 207 0.74
43 45 0.16
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (42 bp):
GAGACTTTTTCACCCTTTGTCTGCCCGTCGACTTTGACTTGG
Found at i:2315581 original size:19 final size:17
Alignment explanation
Indices: 2315549--2315593 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
2315539 TACTTGAAAT
2315549 AAAAATATATAATAATA
1 AAAAATATATAATAATA
2315566 AAAAATATA-AATAATA
1 AAAAATATATAATAATA
2315582 ATAAAATA-ATAA
1 A-AAAATATATAA
2315594 AAAATGTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATATATAATAATA
Found at i:2315597 original size:27 final size:25
Alignment explanation
Indices: 2315547--2315598 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
2315537 TTTACTTGAA
*
2315547 ATAAAAATATATAATAATAAAAAAT
1 ATAAAAATATAAAATAATAAAAAAT
2315572 ATAAATAATAATAAAATAATAAAAAAT
1 ATAAA-AAT-ATAAAATAATAAAAAAT
2315599 GTTCCACCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAAAATATAAAATAATAAAAAAT
Found at i:2316059 original size:82 final size:82
Alignment explanation
Indices: 2315863--2316074 Score: 203
Period size: 82 Copynumber: 2.6 Consensus size: 82
2315853 GAGCAGGGAA
* * * * * * *
2315863 AATAGAAAAATAAGTAGCAAAGGTAGCAACTGAAGCAAAAAACAACAATGAGAAAAATAGCAAAG
1 AATAGAAAAACAAGTAGCAAAGGCAGCAGCTGAAGCAAGAAGCAACGATAAGAAAAATAGCAAAG
*
2315928 CAAACAGCAAGAAAAGC
66 CAAACAACAAGAAAAGC
** * * ** * *
2315945 AACGGCAAAACAAGCAGCAAAGGCAGTGGCTGAAGCAAGAAGCAACGGTAAGAAAGAA-AGTAAA
1 AATAGAAAAACAAGTAGCAAAGGCAGCAGCTGAAGCAAGAAGCAACGATAAGAAA-AATAGCAAA
**
2316009 GCAAGTAACAAGAAAAGC
65 GCAAACAACAAGAAAAGC
* * *
2316027 AATAGTAAAACAAATAGCAAAGGCAGCAGCTGAA-AAAGAAAGCAACGA
1 AATAGAAAAACAAGTAGCAAAGGCAGCAGCTGAAGCAAG-AAGCAACGA
2316075 CAGTATCTAA
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
81 3 0.03
82 96 0.95
83 2 0.02
ACGTcount: A:0.56, C:0.15, G:0.22, T:0.08
Consensus pattern (82 bp):
AATAGAAAAACAAGTAGCAAAGGCAGCAGCTGAAGCAAGAAGCAACGATAAGAAAAATAGCAAAG
CAAACAACAAGAAAAGC
Found at i:2316194 original size:18 final size:18
Alignment explanation
Indices: 2316171--2316226 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
2316161 GCAGCAACAA
2316171 CAAGTAACGACAAGCAAG
1 CAAGTAACGACAAGCAAG
* *
2316189 CAAGTAGCAACAA-C-AG
1 CAAGTAACGACAAGCAAG
* **
2316205 CAAGTAATGGTAAGCAAG
1 CAAGTAACGACAAGCAAG
2316223 CAAG
1 CAAG
2316227 CAACAACACT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 10 0.34
17 2 0.07
18 17 0.59
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.09
Consensus pattern (18 bp):
CAAGTAACGACAAGCAAG
Found at i:2316203 original size:34 final size:34
Alignment explanation
Indices: 2316159--2316226 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
2316149 CAACAAACAC
*
2316159 TAGCAGCAACAACAAGTAACGACAAGCAAGCAAG
1 TAGCAACAACAACAAGTAACGACAAGCAAGCAAG
* * **
2316193 TAGCAACAACAGCAAGTAATGGTAAGCAAGCAAG
1 TAGCAACAACAACAAGTAACGACAAGCAAGCAAG
2316227 CAACAACACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.21, G:0.22, T:0.09
Consensus pattern (34 bp):
TAGCAACAACAACAAGTAACGACAAGCAAGCAAG
Found at i:2317181 original size:21 final size:21
Alignment explanation
Indices: 2317140--2317181 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2317130 GATTTTTGGT
*
2317140 ATATTTTCAATTTTGATTTTG
1 ATATTTTCAATTTTGAATTTG
*
2317161 ATATTTTTAATGTTT-AATTTG
1 ATATTTTCAAT-TTTGAATTTG
2317182 GCGGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (21 bp):
ATATTTTCAATTTTGAATTTG
Found at i:2322576 original size:110 final size:110
Alignment explanation
Indices: 2322376--2322580 Score: 297
Period size: 110 Copynumber: 1.9 Consensus size: 110
2322366 AAGATATCTA
* *
2322376 TGTTGTCACTATTGATGAACTCTGAAGCTCACAGAAATGGTCTCTTCAGGGTTTTAAATAAGGCT
1 TGTTATCACTATTGATGAACTCTGAAGCTCACAGAAATGCTCTCTTCAGGGTTTTAAATAAGGCT
* *
2322441 TATGTCCCATTTGACATTTTCATAGGGCAGCATTATTGATCACTG
66 TATGTCCCATCTAACATTTTCATAGGGCAGCATTATTGATCACTG
* * * * *
2322486 TGTTATCACTATTGTTGAACTTTGAAGCTCACCGAAATGCTTTCTTTAGGGTTTTAAATAAGGCT
1 TGTTATCACTATTGATGAACTCTGAAGCTCACAGAAATGCTCTCTTCAGGGTTTTAAATAAGGCT
2322551 TATGTCCC-TCCTAACA-TTTCTATAGGGCAG
66 TATGTCCCAT-CTAACATTTTC-ATAGGGCAG
2322581 TTGGATCGCC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
109 5 0.06
110 79 0.94
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (110 bp):
TGTTATCACTATTGATGAACTCTGAAGCTCACAGAAATGCTCTCTTCAGGGTTTTAAATAAGGCT
TATGTCCCATCTAACATTTTCATAGGGCAGCATTATTGATCACTG
Found at i:2328573 original size:71 final size:70
Alignment explanation
Indices: 2328428--2329420 Score: 305
Period size: 72 Copynumber: 13.7 Consensus size: 70
2328418 GATGCATTTC
* * *
2328428 TTTTTTCTTCAAAAGCCCACATAAGTTGGTGGCATCATTTATCTTTTCAGTCATCAAAGAATAGG
1 TTTTTTCTTC-AAAGCCCACACAAGCTAGTGGCATCATTTATCTTTTCAGTCATCAAAGAATAGG
2328493 ATGCTT
65 ATGCTT
* * * * * *
2328499 TTTTTTCTTCAAAGCCCACACAAGCTAGTGGTATCCTTTATCATTTTTAGTCCTTAAAGAGTAGG
1 TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATC-TTTTCAGTCATCAAAGAATA-G
2328564 GCAT-CTTT
64 G-ATGC-TT
* * * ** *
2328572 TTTTTTCTTTAAAG-CCACACAAGCTAGTGGCATCATTTATCTTTTCGTGTCCTCAAAGGGTAAG
1 TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATCTTTTC-AGTCATCAAAGAATAGG
2328636 ATGCTT
65 ATGCTT
* * * * * * * * * *
2328642 TTTCATTACCTACCATAAAGCTCGCATAAGTTGGTGGTATCATTTATCTTTTCCGGTCCTCAAA-
1 TTT--TT-TCT-TC--AAAGCCCACACAAGCTAGTGGCATCATTTATCTTTT-CAGTCATCAAAG
*
2328706 AAGTAGGATGTTT
59 AA-TAGGATGCTT
* * * * * * * *
2328719 TTTCTTTTTTCAAAGTCAACACAAGTTGGTGGCA-CTATTTATCTTTTTTAGTCCTCAAA-AAGC
1 TTT-TTTCTTCAAAGCCCACACAAGCTAGTGGCATC-ATTTATC-TTTTCAGTCATCAAAGAA-T
*
2328782 AAGATGCTT
62 AGGATGCTT
* * * * *
2328791 TTCTTTACCTATCGCAAAGCCCACATAAGCTGGTGGCATCATTTATCTTTTGCAGTCCTTAAA-A
1 TT-TTT-TCT-T--CAAAGCCCACACAAGCTAGTGGCATCATTTATCTTTT-CAGTCATCAAAGA
* *
2328855 AGCAAGATGCATT
60 A-TAGGATGC-TT
* * * * ** *
2328868 TTCTTTT-TTCAAAGCCGACATAAGCTGGTGGCAT-ATTTTATTTTTATCAGTTTTCAAAGAGTA
1 TT-TTTTCTTCAAAGCCCACACAAGCTAGTGGCATCA-TTTATCTTT-TCAGTCATCAAAGAATA
2328931 GGATGCTT
63 GGATGCTT
* * ** * * * * *
2328939 TTTCTTACCTACCTCAAA-CCTAACACAAGCGGGTAGCACTC-TTTATCTTTTTAAATCTTCAAG
1 TTT-TT---T-CTTCAAAGCC-CACACAAGCTAGTGGCA-TCATTTATC-TTTTCAGTCATCAAA
** *
2329002 GAGCAAGATGC-T
58 GAATAGGATGCTT
* * * * * * *
2329014 TTTTTTCTTCAAAGCCCATACAAGCTGGTAGCACCCTTAATCTTTTTCAGTCCTCAAAGAATAGG
1 TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATC-TTTTCAGTCATCAAAGAATAGG
2329079 ATGC--
65 ATGCTT
* * * * * * * * *
2329083 -TTTTTCTTTAAAACCTACATAAGCTGGTGGCATCCTTTATCTTTTTCAGTCTTCAAA-ATGTAT
1 TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATC-TTTTCAGTCATCAAAGA-ATAG
**
2329146 GACACCTTT
64 GA-TGC-TT
* * * ** * * * * * * ** *
2329155 TCTTTTTATTTAGAGCTTACACAAACTGGTGGCACCTTTTATCTTTTTCAATCCTCAAAGAGCAA
1 T-TTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATC-TTTTCAGTCATCAAAGAATAG
2329220 GATGCTT
64 GATGCTT
* * * * * * * * *
2329227 ATTCTTT-TTCAAAGCTCACACAAACTGGTGGTATCTTTTATCTCTTTCAATCCTTAAA-AAGTA
1 -TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATCT-TTTCAGTCATCAAAGAA-TA
* *
2329290 TGACAT-ATT
63 -G-GATGCTT
* * * * **
2329299 TTCTTTTCTTTCAAAGCCCACACAAGTTGGTGACACTC-TTTATCTTTTTCAGTCTTCAAAGAGC
1 TT-TTTTC-TTCAAAGCCCACACAAGCTAGTGGCA-TCATTTATC-TTTTCAGTCATCAAAGAAT
*
2329363 AAGATGCTTT
62 AGGATGC-TT
* ** * *
2329373 TTCTTTCTCTTCAAAGCTCACACAATTTGGTGGCATCATTTATATTTT
1 TT-TTT-TCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATCTTTT
2329421 TTAGTCCTTA
Statistics
Matches: 714, Mismatches: 145, Indels: 124
0.73 0.15 0.13
Matches are distributed among these distances:
67 1 0.00
68 52 0.07
69 2 0.00
70 82 0.11
71 89 0.12
72 148 0.21
73 37 0.05
74 132 0.18
75 19 0.03
76 93 0.13
77 58 0.08
78 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (70 bp):
TTTTTTCTTCAAAGCCCACACAAGCTAGTGGCATCATTTATCTTTTCAGTCATCAAAGAATAGGA
TGCTT
Found at i:2328855 original size:148 final size:141
Alignment explanation
Indices: 2328404--2329911 Score: 819
Period size: 148 Copynumber: 10.4 Consensus size: 141
2328394 ATCCACTTTA
* * * * * *
2328404 TCCTCAAAAAGCAAGATGCATTTCTTTTTTCTTCAAAAGCCCACATAAGTTGGTGGCATCATTTA
1 TCCTTAAAAAGCAAGATACATTT-TCTTTT-TTC-AAAGCCCACACAAGCTGGTGGCA-CTTTTA
* ** * * * *
2328469 TC-TTTTCAGTCATCAAAGAATAGGATGCTTTTTTTTCTTCAAAGCCCACACAAGCTAGTGGTAT
62 TCTTTTTCAGTCCTCAAAGAGCAAGATGCTTTTCTTT-TTCAAAGCCCACACAAGCTGGTGGCAT
*
2328533 CCTTTATCATTTTT-AG
126 CATTTATC-TTTTTCAG
* * * * * * *
2328549 TCCTTAAAGAGTAGGGCAT-C-TTTTTTTTTCTTTAAAG-CCACACAAGCTAGTGGCATCATTTA
1 TCCTTAAAAAGCA-AG-ATACATTTTCTTTT-TTCAAAGCCCACACAAGCTGGTGGCA-CTTTTA
* * * ** * * * *
2328611 TC-TTTTCGTGTCCTCAAAGGGTAAGATGCTTTTTCATTACCTACCATAAAGCTCGCATAAGTTG
62 TCTTTTTC-AGTCCTCAAAGAGCAAGATGC-TTTTC-TT---TTTC--AAAGCCCACACAAGCTG
* * *
2328675 GTGGTATCATTTATCTTTTCCGG
119 GTGGCATCATTTATCTTTTTCAG
* * * *** * * *
2328698 TCCTCAAAAAGTAGGATGTTTTTTCTTTTTTCAAAGTCAACACAAGTTGGTGGCACTATTTATCT
1 TCCTTAAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCACT-TTTATCT
* * *
2328763 TTTTTAGTCCTCAAAAAGCAAGATGCTTTTCTTTACCTATCGCAAAGCCCACATAAGCTGGTGGC
65 TTTTCAGTCCTCAAAGAGCAAGATGCTTTTCTTT---T-T--CAAAGCCCACACAAGCTGGTGGC
*
2328828 ATCATTTATCTTTTGCAG
124 ATCATTTATCTTTTTCAG
* * * *
2328846 TCCTTAAAAAGCAAGATGCATTTTCTTTTTTCAAAGCCGACATAAGCTGGTGGCATATTTTAT-T
1 TCCTTAAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCA-CTTTTATCT
** * * * * * *
2328910 TTTATCAGTTTTCAAAGAGTAGGATGCTTTTTCTTACCTACCTCAAA-CCTAACACAAGCGGGTA
65 TTT-TCAGTCCTCAAAGAGCAAGATGC-TTTTCTT---T--TTCAAAGCC-CACACAAGCTGGTG
* *
2328974 GCACTC-TTTATCTTTTTAAA
122 GCA-TCATTTATCTTTTTCAG
** * * * * * *
2328994 T-CTTCAAGGAGCAAGATGC-TTTT-TTTCTTCAAAGCCCATACAAGCTGGTAGCACCCTTAATC
1 TCCTT-AAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCA-CTTTTATC
** * * * * * *
2329056 TTTTTCAGTCCTCAAAGAATAGGATGCTTTT-TCTTT-AAAACCTACATAAGCTGGTGGCATCCT
64 TTTTTCAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCATCAT
2329119 TTATCTTTTTCAG
129 TTATCTTTTTCAG
* * * * * * * ** *
2329132 T-CTTCAAAATGTATGACACCTTTTCTTTTTATTTAGAGCTTACACAAACTGGTGGCACCTTTTA
1 TCCTT-AAAAAGCAAGATACATTTTC-TTTT-TTCAAAGCCCACACAAGCTGGTGGCA-CTTTTA
* * * *
2329196 TCTTTTTCAATCCTCAAAGAGCAAGATGCTTATTCTTTTTCAAAGCTCACACAAACTGGTGGTAT
62 TCTTTTTCAGTCCTCAAAGAGCAAGATGCTT-TTCTTTTTCAAAGCCCACACAAGCTGGTGGCAT
* * *
2329261 CTTTTATCTCTTTCAA
126 CATTTATCTTTTTCAG
* * * * * *
2329277 TCCTTAAAAAGTATGACATATTTTCTTTTCTTTCAAAGCCCACACAAGTTGGTGACACTCTTTAT
1 TCCTTAAAAAGCAAGATACATTTTC-TTT-TTTCAAAGCCCACACAAGCTGGTGGCACT-TTTAT
* * **
2329342 CTTTTTCAGTCTTCAAAGAGCAAGATGCTTTTTCTTTCTCTTCAAAGCTCACACAATTTGGTGGC
63 CTTTTTCAGTCCTCAAAGAGCAAGATGC-TTTTC-TT-T-TTCAAAGCCCACACAAGCTGGTGGC
* *
2329407 ATCATTTATATTTTTTAG
124 ATCATTTATCTTTTTCAG
* * * * * * * * *
2329425 TCCTTAAAGAGCAACACATAGTTTCTTTTTT-AAAGTCCACA-TAGACTAGTGGCACCCTTTATC
1 TCCTTAAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAG-CTGGTGGCA-CTTTTATC
* * ** * * * * * *
2329488 TTTTTCAGTCTTGAAAGAGCCTGATGTCTTTTATTTTTCAAAACCCACATAAGCTGGTGACACCC
64 TTTTTCAGTCCTCAAAGAGCAAGATG-CTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCATCA
* *
2329553 GTTATCTTTTTCAA
128 TTTATCTTTTTCAG
* * * * * * *
2329567 T-CTTCAAAGAG-AAGAATGCTTTTTCTTTTTTTAAAGCCCACAGAAGTTGGTGGAACCTTTTAT
1 TCCTT-AAAAAGCAAG-ATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCA-CTTTTAT
* * * * *
2329630 -TTTTTCAGTCCTTAAAGAGTAAGATGCCTTTTCCTTTTCAAAGCCCACACAAACTGGTGGCACC
63 CTTTTTCAGTCCTCAAAGAGCAAGATG-CTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCATC
*
2329694 ATTTATCTTTTTCAA
127 ATTTATCTTTTTCAG
* * * *
2329709 TCCTTAAAAAGCAAGACACCTTTTC-TTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTATCT
1 TCCTTAAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCA-CTTTTATCT
* * ** * * * * * **
2329773 TTTTCAATCCTCAAAAAGCAAGACACCTTTTCTTTTGCTTGAAAGCCTATACAAACTAGTTACAT
65 TTTTCAGTCCTCAAAGAGCAAGA-TGCTTTTC-TTT--TTCAAAGCCCACACAAGCTGGTGGCAT
* * *
2329838 TATTTATCTTCTCCAG
126 CATTTATCTTTTTCAG
* * * * * *
2329854 TCCTCAAAAAGAAATATGCCTTTTCTTTTTCTTTC-AAGCCCACACAAGTTGGTGGCAC
1 TCCTTAAAAAGCAAGATACATTTTC--TTT-TTTCAAAGCCCACACAAGCTGGTGGCAC
2329912 CCACCTACCT
Statistics
Matches: 1066, Mismatches: 231, Indels: 130
0.75 0.16 0.09
Matches are distributed among these distances:
137 2 0.00
138 40 0.04
139 7 0.01
141 42 0.04
142 233 0.22
143 53 0.05
144 27 0.03
145 225 0.21
146 64 0.06
147 29 0.03
148 238 0.22
149 98 0.09
150 6 0.01
151 1 0.00
152 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (141 bp):
TCCTTAAAAAGCAAGATACATTTTCTTTTTTCAAAGCCCACACAAGCTGGTGGCACTTTTATCTT
TTTCAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCATCATTT
ATCTTTTTCAG
Found at i:2329596 original size:71 final size:71
Alignment explanation
Indices: 2328407--2329795 Score: 658
Period size: 71 Copynumber: 19.2 Consensus size: 71
2328397 CACTTTATCC
* * * * * *
2328407 TCAAAAAGCAAGATGCATTTCTTTTTTCTTCAAAAGCCCACATAAGTTGGTGGCATCATTTATC-
1 TCAAAGAGCAAGATGC-TTT-TTCTTT-TTC-AAAGCCCACACAAGCTGGTGGCACCCTTTATCT
* *
2328471 TTTTCAGTCA
62 TTTTCAATCT
** * * * *
2328481 TCAAAGAATAGGATGCTTTTT-TTTCTTCAAAGCCCACACAAGCTAGTGGTATCCTTTATCATTT
1 TCAAAGAGCAAGATGCTTTTTCTTT-TTCAAAGCCCACACAAGCTGGTGGCACCCTTTATC-TTT
*
2328545 TT-AGTCCT
64 TTCAAT-CT
* * * * * * *
2328553 T-AAAGAGTAGGGCAT-CTTTTTTTTTCTTTAAAG-CCACACAAGCTAGTGGCATCATTTATC-T
1 TCAAAGAGCA-AG-ATGCTTTTTCTTT-TTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTT
** *
2328614 TTTCGTGTCC
63 TTTC-AATCT
* * ** * * * * * * *
2328624 TCAAAGGGTAAGATGCTTTTTCATTACCTACCATAAAGCTCGCATAAGTTGGTGGTATCATTTAT
1 TCAAAGAGCAAGATGCTTTTTC-TT---TTTC--AAAGCCCACACAAGCTGGTGGCACCCTTTAT
* ** *
2328689 CTTTTCCGGTCC
60 CTTTTTCAATCT
* * * * * * * **
2328701 TCAAAAAGTAGGATGTTTTTTCTTTTTTCAAAGTCAACACAAGTTGGTGGCACTATTTATCTTTT
1 TCAAAGAGCAAGATGCTTTTTC-TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTT
* * *
2328766 TTAGTCC
65 TCAATCT
* * * *
2328773 TCAAAAAGCAAGATGC-TTTTCTTTACCTATCGCAAAGCCCACATAAGCTGGTGGCATCATTTAT
1 TCAAAGAGCAAGATGCTTTTTCTTT---T-T--CAAAGCCCACACAAGCTGGTGGCACCCTTTAT
* *
2328837 CTTTTGCAGTCCT
60 CTTTTTCAAT-CT
* * * * ***
2328850 T-AAAAAGCAAGATGCATTTTCTTTTTTCAAAGCCGACATAAGCTGGTGGCATATTTTAT-TTTT
1 TCAAAGAGCAAGATGCTTTTTC-TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTT
* *
2328913 ATCAGTTT
65 -TCAATCT
* * * * * * *
2328921 TCAAAGAGTAGGATGCTTTTTCTTACCTACCTCAAA-CCTAACACAAGCGGGTAGCACTCTTTAT
1 TCAAAGAGCAAGATGCTTTTTCTT---T--TTCAAAGCC-CACACAAGCTGGTGGCACCCTTTAT
*
2328985 CTTTTTAAATCT
60 CTTTTTCAATCT
* * * * *
2328997 TCAAGGAGCAAGATGCTTTTT-TTCTTCAAAGCCCATACAAGCTGGTAGCACCCTTAATCTTTTT
1 TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
* *
2329061 CAGTCC
66 CAATCT
** * * * * *
2329067 TCAAAGAATAGGATGCTTTTTC--TTT-AAAACCTACATAAGCTGGTGGCATCCTTTATCTTTTT
1 TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
*
2329129 CAGTCT
66 CAATCT
* * ** * ** * *
2329135 TCAAA-ATGTATGACACCTTTTCTTTTT-ATTTAGAGCTTACACAAACTGGTGGCACCTTTTATC
1 TCAAAGA-GCAAGATGCTTTTTCTTTTTCA---A-AGCCCACACAAGCTGGTGGCACCCTTTATC
*
2329198 TTTTTCAATCC
61 TTTTTCAATCT
* * * * * * *
2329209 TCAAAGAGCAAGATGCTTATTCTTTTTCAAAGCTCACACAAACTGGTGGTATCTTTTATCTCTTT
1 TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
2329274 CAATCCT
66 CAAT-CT
* * * * * *
2329281 T-AAAAAGTATGA--CATATTTTCTTTTCTTTCAAAGCCCACACAAGTTGGTGACACTCTTTATC
1 TCAAAGAGCAAGATGC-T-TTTTC--TT-TTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATC
*
2329343 TTTTTCAGTCT
61 TTTTTCAATCT
* ** * * *
2329354 TCAAAGAGCAAGATGCTTTTTCTTTCTCTTCAAAGCTCACACAATTTGGTGGCATCATTTATATT
1 TCAAAGAGCAAGATGCTTTTTC-TT-T-TTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTT
* *
2329419 TTTTAGTCCT
63 TTTCAAT-CT
* * * * * *
2329429 T-AAAGAGCAACA--CATAGTTTCTTTTTTAAAGTCCACA-TAGACTAGTGGCACCCTTTATCTT
1 TCAAAGAGCAAGATGC-T-TTTTCTTTTTCAAAGCCCACACAAG-CTGGTGGCACCCTTTATCTT
*
2329490 TTTCAGTCT
63 TTTCAATCT
* ** * * * * *
2329499 TGAAAGAGCCTGATG-TCTTTTATTTTTCAAAACCCACATAAGCTGGTGACACCCGTTATCTTTT
1 TCAAAGAGCAAGATGCT-TTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTT
2329563 TCAATCT
65 TCAATCT
* * * * *
2329570 TCAAAGAG-AAGAATGCTTTTTCTTTTTTTAAAGCCCACAGAAGTTGGTGGAACCTTTTAT-TTT
1 TCAAAGAGCAAG-ATGCTTTTTC-TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTT
*
2329633 TTCAGTCCT
64 TTCAAT-CT
* * * * *
2329642 T-AAAGAGTAAGATGCCTTTTCCTTTTCAAAGCCCACACAAACTGGTGGCACCATTTATCTTTTT
1 TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
2329706 CAATCCT
66 CAAT-CT
* ** * * * *
2329713 T-AAAAAGCAAGACACCTTTTCTTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTATCTTTTT
1 TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
*
2329777 CAATCC
66 CAATCT
*
2329783 TCAAAAAGCAAGA
1 TCAAAGAGCAAGA
2329796 CACCTTTTCT
Statistics
Matches: 1031, Mismatches: 212, Indels: 147
0.74 0.15 0.11
Matches are distributed among these distances:
67 1 0.00
68 50 0.05
69 3 0.00
70 129 0.13
71 289 0.28
72 189 0.18
73 30 0.03
74 167 0.16
75 12 0.01
76 98 0.10
77 56 0.05
78 7 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (71 bp):
TCAAAGAGCAAGATGCTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATCTTTTT
CAATCT
Found at i:2329776 original size:38 final size:37
Alignment explanation
Indices: 2329656--2329779 Score: 100
Period size: 38 Copynumber: 3.4 Consensus size: 37
2329646 GAGTAAGATG
* *
2329656 CCTTT-TCCTTTTCAAAGCCCACACAAACTGGTGGCA
1 CCTTTATCTTTTTCAAAGCCCACACAAACTGGTGGAA
* * ***
2329692 CCATTTATCTTTTTC-AATCCTTA-A-AAA--GCAAGACA
1 CC-TTTATCTTTTTCAAAGCC-CACACAAACTGGTGGA-A
2329727 CCTTT-TCTTTTTCAAAGCCCACACAAACTGGTGGAA
1 CCTTTATCTTTTTCAAAGCCCACACAAACTGGTGGAA
2329763 CCTTTTATCTTTTTCAA
1 CC-TTTATCTTTTTCAA
2329780 TCCTCAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
33 9 0.14
34 10 0.15
35 6 0.09
36 8 0.12
37 14 0.22
38 18 0.28
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (37 bp):
CCTTTATCTTTTTCAAAGCCCACACAAACTGGTGGAA
Found at i:2329879 original size:145 final size:141
Alignment explanation
Indices: 2329522--2329884 Score: 325
Period size: 142 Copynumber: 2.5 Consensus size: 141
2329512 TGTCTTTTAT
* * * * ** * * * *
2329522 TTTTCAAAACCCACATAAGCTGGTGACACCCGTTATCTTTTTCAATCTTCAAAGAG-AAGAATGC
1 TTTTCAAAGCCCACACAAACTAGTGACACCATTTATCTTCTCCAATCCTCAAAAAGAAAG-ATGC
* * * ** * * * *
2329586 TTTTTCTTTTTTTAAAGCCCACAGAAGTTGGTGGAACCTTTTATTTTTTCAGTCCTTAAAGAGTA
65 CTTTTC-TTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTATTTTTTCAATCCTCAAAAAGCA
**
2329651 AGATGCCTTTTCC
129 AGACACCTTTTCC
* * * * * * **
2329664 TTTTCAAAGCCCACACAAACTGGTGGCACCATTTATCTTTTTCAATCCTTAAAAAGCAAGACACC
1 TTTTCAAAGCCCACACAAACTAGTGACACCATTTATCTTCTCCAATCCTCAAAAAGAAAGATGCC
2329729 TTTTCTTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTATCTTTTTCAATCCTCAAAAAGCAA
66 TTTTCTTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTAT-TTTTTCAATCCTCAAAAAGCAA
2329794 GACACCTTTT-C
130 GACACCTTTTCC
* * * ** * *
2329805 TTTTGCTTGAAAGCCTATACAAACTAGTTACATTATTTATCTTCTCCAGTCCTCAAAAAGAAATA
1 TTTT-C---AAAGCCCACACAAACTAGTGACACCATTTATCTTCTCCAATCCTCAAAAAGAAAGA
2329870 TGCCTTTTCTTTTTC
62 TGCCTTTTCTTTTTC
2329885 TTTCAAGCCC
Statistics
Matches: 178, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
141 38 0.21
142 81 0.46
143 3 0.02
145 56 0.31
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (141 bp):
TTTTCAAAGCCCACACAAACTAGTGACACCATTTATCTTCTCCAATCCTCAAAAAGAAAGATGCC
TTTTCTTTTTCAAAGCCCACACAAACTGGTGGAACCTTTTATTTTTTCAATCCTCAAAAAGCAAG
ACACCTTTTCC
Found at i:2332154 original size:27 final size:27
Alignment explanation
Indices: 2332124--2332194 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
2332114 ATTGAAAAAC
2332124 GGGGTTGGAGTATCCCCTCGAAAGAAT
1 GGGGTTGGAGTATCCCCTCGAAAGAAT
* *
2332151 GGGGTTAGAGTATCCCCTCGGAAGAAT
1 GGGGTTGGAGTATCCCCTCGAAAGAAT
*
2332178 GGGGTTGGAGTGTCCCC
1 GGGGTTGGAGTATCCCC
2332195 GATGATGACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.20, G:0.37, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCTCGAAAGAAT
Found at i:2333863 original size:17 final size:17
Alignment explanation
Indices: 2333841--2333896 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
2333831 CATTTCATAT
* *
2333841 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
2333858 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
**
2333875 TTCATC-TTCTTTCATTC
1 TTTTTCTTTCTTTC-TTC
2333892 TTTTT
1 TTTTT
2333897 TACCTAACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 7 0.22
17 25 0.78
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:2335192 original size:32 final size:32
Alignment explanation
Indices: 2335156--2335443 Score: 443
Period size: 32 Copynumber: 9.0 Consensus size: 32
2335146 ACTAACTTAC
* *
2335156 GTGGGTTTTTAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
* * **
2335188 GTGGGCATTGAAAAGGGTTGCCACTAACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
2335220 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
2335252 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
2335284 GTGGGCTTTGAAATAGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
2335316 GTGGGCTTTGAAAAGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
* *
2335348 GTGGGCTTTAAAAAGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
2335380 GTGGGCTTTGAAATAGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
* **
2335412 GTGGGCTTTGAAAAGGG-TGCCACTAACTTGT
1 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
2335443 G
1 G
2335444 GGCTTTAGAA
Statistics
Matches: 235, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
31 13 0.06
32 222 0.94
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
Found at i:2335234 original size:64 final size:64
Alignment explanation
Indices: 2335130--2335473 Score: 448
Period size: 64 Copynumber: 5.4 Consensus size: 64
2335120 AAAATAGTGA
** ** * *
2335130 TTTGAAAAAGGG-TGCCACTAACTTACGTGGGTTTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
2335194 ATTGAAAAGGGTTGCCACTAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2335258 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2335322 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
2335386 TTTGAAATA-GGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAA-AGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
2335447 TTT-AGAAGGGAATGCCACCGCCTTGTG
1 TTTGAAAAGGG-TTGCCACCGACTTGTG
2335474 GACTTAAAAA
Statistics
Matches: 256, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
59 1 0.00
60 4 0.02
61 24 0.09
62 1 0.00
63 15 0.06
64 210 0.82
65 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (64 bp):
TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2335295 original size:96 final size:96
Alignment explanation
Indices: 2335130--2335473 Score: 466
Period size: 96 Copynumber: 3.6 Consensus size: 96
2335120 AAAATAGTGA
** ** * *
2335130 TTTGAAAAAGGG-TGCCACTAACTTACGTGGGTTTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTGTGTGGGC
* **
2335194 ATTGAAA-AGGGTTGCCACTAACTTGTGTGGGC
65 TTTGAAATA-GGTTGCCACCGACTTGTGTGGGC
* *
2335226 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTGTGTGGGCT
2335291 TTGAAATAGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATAGGTTGCCACCGACTTGTGTGGGC
*
2335322 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTGTGTGGGCT
2335387 TTGAAATAGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATAGGTTGCCACCGACTTGTGTGGGC
** * * *
2335418 TTTGAAAAGGG-TGCCACTAAC-T-TGTGGGCTTTAGAA-GGGAATGCCACCGCCTTGTG
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGG-TTGCCACCGACTTGTG
2335474 GACTTAAAAA
Statistics
Matches: 227, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
92 3 0.01
93 27 0.12
94 1 0.00
95 14 0.06
96 181 0.80
97 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (96 bp):
TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAATAGGTTGCCACCGACTTGTGTGGGC
Found at i:2335553 original size:27 final size:27
Alignment explanation
Indices: 2335469--2337569 Score: 3306
Period size: 27 Copynumber: 76.4 Consensus size: 27
2335459 TGCCACCGCC
* *
2335469 TTGTGGACTTAAAAAAGGTGCCACGAAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
2335497 TTGTGAACTTAAAAGGGATGCCACAGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
* **
2335525 TTATGGACTTAAAATCGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2335552 TTGTGGACTTAAAAGGGTGGCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2335579 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2335606 TTGTGGAATTCAAAAAGGTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
2335634 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2335661 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2335689 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2335717 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2335745 TTGTGGACTTAAAAGGGTG-CACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2335771 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2335798 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
2335826 TTGTGGAATTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2335853 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
2335881 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2335908 TTGTGGACTCAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2335935 TTGTGAACTCAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2335962 TTGTGGACTTCAAAAGGGTGCCACGGAC
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2335990 TTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336017 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336045 TTGTGGACTTTAAAAAGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336073 TTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336100 TTGTGGACTTAAAAGGGTGCCACGGTG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336127 TTGTGGACTTGAAAAGGGTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
2336155 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336183 TTGTGGACTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336210 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336237 TTGTGGACTTAAAATGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336264 TTGTGGACTTCGAAAGGGTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2336292 TTGTGGACTTAAGAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336319 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336347 TTGAGGACTATAAAAGGGTGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAG
2336375 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336403 TTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2336431 TTGTGGACTCTAAAAGGGTGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAG
2336459 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2336487 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336514 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336541 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2336568 TTGTCGACTTAAAATGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336595 TTGTGGACTTCAAAAGGGTGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2336623 TTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336650 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336678 TTGTGGATTTTAAAAGGGTGCCACGGAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAG
2336706 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2336734 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336761 TTGTGGAATTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336788 TTGTGGACTTAAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
*
2336816 TTGTGGACTTAAAAGGGTGCTACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336843 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2336870 TGGTGGACTTCAAAAGGGTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2336898 TTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2336925 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
** *
2336953 TTGTGGACTTTAAAAAAGTGCGACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2336981 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337008 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2337036 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337063 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337090 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337117 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2337144 TTGTCGACTTAAAATGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2337171 TTGTGGACTTCAAAAGGGTGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
**
2337199 TTGTGGACTTAAAAGGGTGCCTTGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337226 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2337254 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2337282 TTGTGGATTTTAAAAGGGTGCCACGGAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAG
* *
2337310 TTGTGGACTTTAAAAGTGTGCCACGAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2337338 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2337366 TTGTGGACTTTAAAAGGGTGCCACAGG-G
1 TTGTGGAC-TTAAAAGGGTGCCAC-GGAG
2337394 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
**
2337422 TTGTGGACTTAAAAGGGTTTCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2337449 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2337476 TTGTGGACTTAAAATGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2337503 TGGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2337530 TTGTGGACTTAAAAGGGAAATGCCACTGAG
1 TTGTGGACTTAAAAGGG---TGCCACGGAG
*
2337560 TCGTGGACTT
1 TTGTGGACTT
2337570 TGAAAAGGTC
Statistics
Matches: 1934, Mismatches: 106, Indels: 64
0.92 0.05 0.03
Matches are distributed among these distances:
26 25 0.01
27 952 0.49
28 933 0.48
29 6 0.00
30 18 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.24
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:2335562 original size:55 final size:54
Alignment explanation
Indices: 2335469--2337569 Score: 3306
Period size: 55 Copynumber: 38.2 Consensus size: 54
2335459 TGCCACCGCC
* * * *
2335469 TTGTGGACTTAAAAAAGGTGCCACGAAGTTGTGAACTTAAAAGGGATGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAG
* ** *
2335525 TTATGGACTTAAAATCGTGCCACGGAGTTGTGGACTTAAAAGGGTGGCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2335579 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAATTCAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAG
2335634 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
2335689 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2335745 TTGTGGACTTAAAAGGGTG-CACGAAGTTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2335798 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAATTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2335853 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
2335908 TTGTGGACTCAAAAGGGTGCCACAGAGTTGTGAACTCAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2335962 TTGTGGACTTCAAAAGGGTGCCACGGACTTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2336017 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2336073 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGTG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2336127 TTGTGGACTTGAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336183 TTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2336237 TTGTGGACTTAAAATGGTGCCACGGAGTTGTGGACTTCGAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAG
* *
2336292 TTGTGGACTTAAGAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336347 TTGAGGACTATAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336403 TTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTCTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAG
2336459 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2336514 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
2336568 TTGTCGACTTAAAATGGTGCCACGGAGTTGTGGACTTCAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAG
*
2336623 TTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336678 TTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2336734 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAATTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2336788 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2336843 TTGTGGACTTAAAAGGGTGCCACGGAGTGGTGGACTTCAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAG
*
2336898 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
** *
2336953 TTGTGGACTTTAAAAAAGTGCGACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2337008 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2337063 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2337117 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTCGACTTAAAATGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* **
2337171 TTGTGGACTTCAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCTTGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2337226 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
2337282 TTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGTGTGCCACGAAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
2337338 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGG-G
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC-GGAG
**
2337394 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTTTCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2337449 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAATGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
2337503 TGGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAATGCCACTGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG---TGCCACGGAG
*
2337560 TCGTGGACTT
1 TTGTGGACTT
2337570 TGAAAAGGTC
Statistics
Matches: 1908, Mismatches: 105, Indels: 63
0.92 0.05 0.03
Matches are distributed among these distances:
53 35 0.02
54 511 0.27
55 853 0.45
56 490 0.26
57 19 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.24
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:2341741 original size:13 final size:13
Alignment explanation
Indices: 2341723--2341748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2341713 AATTTTTTTG
2341723 TGTATCGATACAT
1 TGTATCGATACAT
2341736 TGTATCGATACAT
1 TGTATCGATACAT
2341749 ATTTTGTATA
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
Done.