Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 12 of 15
Found at i:2296849 original size:19 final size:19
Alignment explanation
Indices: 2296825--2296891 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
2296815 TAGTAGCTAA
2296825 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
2296844 TTATG--T--AT-CAATAC
1 TTATGTATCGATACAATAC
* * *
2296858 AT-TGTATCGATACAACAT
1 TTATGTATCGATACAATAC
2296876 TTATGTATCGATACAA
1 TTATGTATCGATACAA
2296892 ATCGTTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 2 0.05
14 7 0.18
15 3 0.08
17 3 0.08
18 5 0.13
19 18 0.47
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:2296869 original size:32 final size:32
Alignment explanation
Indices: 2296828--2296890 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
2296818 TAGCTAATTA
*
2296828 TGTATCGATACAATACTTATGTATCAATACAT
1 TGTATCGATACAACACTTATGTATCAATACAT
* *
2296860 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCAATACA
2296891 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCAATACAT
Found at i:2304864 original size:20 final size:20
Alignment explanation
Indices: 2304839--2304893 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2304829 CTGCCAAGGA
2304839 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
2304859 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
2304879 TTTGTATCGATACAT
1 AATGTATCGATACAT
2304894 CTGAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:2320414 original size:13 final size:13
Alignment explanation
Indices: 2320396--2320421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2320386 ACAAAAATCC
2320396 ATGTATCGATACA
1 ATGTATCGATACA
2320409 ATGTATCGATACA
1 ATGTATCGATACA
2320422 TGGAATAATG
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:2320508 original size:32 final size:32
Alignment explanation
Indices: 2320467--2320550 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
2320457 CTTTGTAGCG
*
2320467 ATACATTGTATTGATACAAAACTTATGTATCC
1 ATACATTGTATCGATACAAAACTTATGTATCC
* *
2320499 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCC
2320531 ATACATTGTATCGATACAAA
1 ATACATTGTATCGATACAAA
2320551 TTGTTGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCC
Found at i:2320542 original size:13 final size:13
Alignment explanation
Indices: 2320492--2320548 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2320482 ACAAAACTTA
*
2320492 TGTATCCATACAT
1 TGTATCGATACAT
2320505 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2320523 ATGTATCGATACAT
1 -TGTATCGATACAT
2320537 TGTATCGATACA
1 TGTATCGATACA
2320549 AATTGTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2321456 original size:39 final size:39
Alignment explanation
Indices: 2321402--2321478 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2321392 GTGATAAAGA
* *
2321402 TGCCAATATGCTGATTCACGGCCAACGATATTGGACTTG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTG
*
2321441 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT
2321479 AAAGACAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTG
Found at i:2321640 original size:21 final size:22
Alignment explanation
Indices: 2321580--2321641 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
2321570 ATGCCAGTGC
2321580 CAATATGCTGATTCAAGGCTAA
1 CAATATGCTGATTCAAGGCTAA
* * * **
2321602 CGATAT-CAGACTTAAAGG-TGT
1 CAATATGCTGA-TTCAAGGCTAA
2321623 CAATATGCTGATTCAAGGC
1 CAATATGCTGATTCAAGGC
2321642 AGCGATATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
CAATATGCTGATTCAAGGCTAA
Found at i:2321649 original size:21 final size:21
Alignment explanation
Indices: 2321582--2321649 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
2321572 GCCAGTGCCA
*
2321582 ATATGCTGATTCAAGGCTAACG
1 ATATGCTGATTCAAGGC-AGCG
* * * *
2321604 ATAT-CAGACTTAAAGG-TGTCA
1 ATATGCTGA-TTCAAGGCAG-CG
2321625 ATATGCTGATTCAAGGCAGCG
1 ATATGCTGATTCAAGGCAGCG
2321646 ATAT
1 ATAT
2321650 TGGGTTTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 9
0.65 0.18 0.18
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (21 bp):
ATATGCTGATTCAAGGCAGCG
Found at i:2321787 original size:28 final size:28
Alignment explanation
Indices: 2321729--2322175 Score: 544
Period size: 28 Copynumber: 15.7 Consensus size: 28
2321719 TACCAACTTG
*
2321729 TGTGGGCTTTTGAAAGGGTTG-CA-TCAACT
1 TGTGGGC-TTTGAAAGGG-TGCCACT-GACT
* *
2321758 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
* *
2321786 TGTGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
2321814 TGTGGG-TTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* ** *
2321842 TGTGCGCTTTTG-AAGATTGCCACTAACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
* *
2321870 TGTGGGCTTTAGAAAAGATGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
2321899 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2321927 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
2321956 TCTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2321984 TGCATGGGCTTTGAAAGGGTGCCATTGACT
1 TG--TGGGCTTTGAAAGGGTGCCACTGACT
*
2322014 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2322042 TGTGGGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
2322070 TGCATGGGCTTTGAAAGGGTACCACTGACT
1 TG--TGGGCTTTGAAAGGGTGCCACTGACT
2322100 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
2322128 TATGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
2322157 TGTGGGCTTTGAAAGGGTG
1 TGTGGGCTTTGAAAGGGTG
2322176 AGGAATGTCT
Statistics
Matches: 365, Mismatches: 39, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.04
28 207 0.57
29 87 0.24
30 55 0.15
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:2322041 original size:86 final size:84
Alignment explanation
Indices: 2321729--2322175 Score: 575
Period size: 86 Copynumber: 5.2 Consensus size: 84
2321719 TACCAACTTG
* * * *
2321729 TGTGGGCTTTTGAAAGGGTTG-CA-TCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGG
1 TGTGGGC-TTTGAAAGGG-TGCCACT-GACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGG
*
2321791 GCTTTGAAAG-GATACCACTGACT
62 GCTTTGAAAGAG-TGCCACTGACT
* **
2321814 TGTGGG-TTTGAAAGGGGTGCCACTGACTTGTGCGCTTTTG-AAGATTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACTTGTGGGC
2321877 TTTAGAAA-AGATGCCACTGACT
64 TTT-GAAAGAG-TGCCACTGACT
* *
2321899 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTCTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCT
2321964 TTGAAAGAGTGCCACTGACT
65 TTGAAAGAGTGCCACTGACT
*
2321984 TGCATGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGC
1 TG--TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGC
*
2322049 TTTGAAAGAGTGCCATTGACT
64 TTTGAAAGAGTGCCACTGACT
* * *
2322070 TGCATGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGC
1 TG--TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGC
2322135 TTTGAAAAGAGTGCCACTGACT
64 TTTG-AAAGAGTGCCACTGACT
2322157 TGTGGGCTTTGAAAGGGTG
1 TGTGGGCTTTGAAAGGGTG
2322176 AGGAATGTCT
Statistics
Matches: 332, Mismatches: 18, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
83 9 0.03
84 47 0.14
85 82 0.25
86 140 0.42
87 54 0.16
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (84 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
TGAAAGAGTGCCACTGACT
Found at i:2322172 original size:57 final size:56
Alignment explanation
Indices: 2321755--2322175 Score: 535
Period size: 57 Copynumber: 7.4 Consensus size: 56
2321745 GGTTGCATCA
* * *
2321755 ACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAG-GATACCACTG
1 ACTTGTGGGC-TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTG
* * *
2321811 ACTTGTGGG-TTTGAAAGGGGTGCCACTGACTTGTGCGCTTTTG-AAGATTGCCACTA
1 ACTTGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGC-TTTGAAAGAGTGCCACTG
* * *
2321867 ACTTGTGGGCTTTAGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
* * *
2321924 ACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTCTGGGCTTTGAAAGAGTGCCACTG
1 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
* * *
2321981 ACTTGCATGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTA
1 ACTTG--TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
* * * *
2322039 ACTTGTGGGCTTTGAAAGAGTGCCATTGACTTGCATGGGCTTTGAAAGGGTACCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG--TGGGCTTTGAAAGAGTGCCACTG
*
2322097 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTG
2322154 ACTTGTGGGCTTTGAAAGGGTG
1 ACTTGTGGGCTTTGAAAGGGTG
2322176 AGGAATGTCT
Statistics
Matches: 320, Mismatches: 32, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
54 4 0.01
55 2 0.01
56 86 0.27
57 123 0.38
58 96 0.30
59 9 0.03
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (56 bp):
ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
Found at i:2324604 original size:10 final size:10
Alignment explanation
Indices: 2324589--2324622 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
2324579 CGTCCTCCAC
2324589 AAAAAACAAA
1 AAAAAACAAA
2324599 AAAAAACAATA
1 AAAAAACAA-A
2324610 AAAACAACAAA
1 AAAA-AACAAA
2324621 AA
1 AA
2324623 GGGTCCGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 8 0.36
12 5 0.23
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:2325686 original size:37 final size:37
Alignment explanation
Indices: 2325645--2325729 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
2325635 TGCCACAATC
*
2325645 ATGCATTTGTGACATTCATATCATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
2325682 ATGCATTTGTGACATTCATAACATTTCATTTTGGATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
2325719 ATGCATTTGTG
1 ATGCATTTGTG
2325730 CTTCATCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:2326164 original size:29 final size:28
Alignment explanation
Indices: 2326094--2326331 Score: 259
Period size: 29 Copynumber: 8.4 Consensus size: 28
2326084 CCTCACCTTC
*
2326094 CAAAGCCCATAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
*
2326122 CAAAGCCCACAAGTTAGTGGCACCTTTTT
1 CAAAGCCCACAAGTCAGTGGCACC-TTTT
* *
2326151 CAAAGCCCAAAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCTTTT
* * *
2326179 CAAAAGCCCATAAGTCAGTGGCATCATTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
2326208 CAAAAGCCCACAAGTCAGTGGCACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCACCTTTT
*
2326237 CAAAGCCCACAAGTCAGTGGAAACC--TT
1 CAAAGCCCACAAGTCAGTGG-CACCTTTT
*
2326264 CAAAGCCCACAAGGCAGTGGCAACC-TTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
* * ** *
2326292 AAAAGCACACAAGTTGGT-GCAACCCTTT
1 CAAAGCCCACAAGTCAGTGGC-ACCTTTT
2326320 CAAAAGCCCACA
1 C-AAAGCCCACA
2326332 CAATTTGGTG
Statistics
Matches: 183, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
27 30 0.16
28 64 0.35
29 89 0.49
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.21
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCTTTT
Found at i:2326178 original size:57 final size:55
Alignment explanation
Indices: 2326087--2326331 Score: 262
Period size: 57 Copynumber: 4.3 Consensus size: 55
2326077 AGACATTCCT
* * *
2326087 CACCTTCCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
2326142 CACCTTTTTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGG
1 CACC--TTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGG
*
2326200 CATCATTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
1 CA-CCTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
* * * * **
2326257 AAACC-TTCAAAGCCCACAAGGCAGTGGCAACC-TTTAAAAGCACACAAGTTGGT-G
1 -CACCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGG
2326311 CAACCCTTTCAAAAGCCCACA
1 C-A-CCTTTC-AAAGCCCACA
2326332 CAATTTGGTG
Statistics
Matches: 162, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
54 2 0.01
55 42 0.26
56 9 0.06
57 62 0.38
58 46 0.28
59 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (55 bp):
CACCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:2326313 original size:27 final size:30
Alignment explanation
Indices: 2326283--2326341 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
2326273 CAAGGCAGTG
2326283 GCAA-CCTTT-AAAAG-CACACAAGTTGGT
1 GCAACCCTTTCAAAAGCCACACAAGTTGGT
*
2326310 GCAACCCTTTCAAAAGCCCACACAATTTGGT
1 GCAACCCTTTCAAAAG-CCACACAAGTTGGT
2326341 G
1 G
2326342 TCATCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 4 0.15
28 5 0.19
29 5 0.19
31 13 0.48
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (30 bp):
GCAACCCTTTCAAAAGCCACACAAGTTGGT
Found at i:2326472 original size:49 final size:49
Alignment explanation
Indices: 2326348--2326700 Score: 255
Period size: 52 Copynumber: 7.0 Consensus size: 49
2326338 GGTGTCATCT
* ** *
2326348 TCTTCTAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGTGTCTTTGTCA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG-CACCTT-T-A
** *
2326401 TCTTTAAGTCTGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * *
2326450 TCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * * *
2326499 TCTTTAAGTCCGATATCGTTGGCCTTGAATCGGCATATTGGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * ** *
2326548 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCT-
1 TC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TA
* * * ** * * ** *
2326598 TCCTCAAGTCTAATGTCGCTGATCGTGAATCAGCACATTGATATTCTTTACA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT--A
* * * *
2326650 TCTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCGTTA
1 TCTTTAAGTCCAATGTCGCTGG-CCTTGAATCAGCATATTGGCACCTTTA
2326699 TC
1 TC
2326701 ACTCTTCTCA
Statistics
Matches: 232, Mismatches: 57, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
47 29 0.12
49 89 0.38
50 8 0.03
51 7 0.03
52 94 0.41
53 5 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
Found at i:2327366 original size:13 final size:13
Alignment explanation
Indices: 2327348--2327373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2327338 ACATAAGTGT
2327348 TGTATCGATACAA
1 TGTATCGATACAA
2327361 TGTATCGATACAA
1 TGTATCGATACAA
2327374 AAGCTACCCT
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):
TGTATCGATACAA
Found at i:2335162 original size:9 final size:10
Alignment explanation
Indices: 2335115--2335170 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
2335105 AGAAATCACC
*
2335115 AAAAAACAAA
1 AAAAAAGAAA
*
2335125 AAGAAAGAAA
1 AAAAAAGAAA
2335135 GAAAAAATGAATCA
1 -AAAAAA-GAA--A
2335149 AAAAAAGAAA
1 AAAAAAGAAA
2335159 AAAAAAGAAA
1 AAAAAAGAAA
2335169 AA
1 AA
2335171 TGTTCGGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 21 0.54
11 5 0.13
12 6 0.15
13 6 0.15
14 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:2336646 original size:33 final size:34
Alignment explanation
Indices: 2336593--2336894 Score: 295
Period size: 33 Copynumber: 9.0 Consensus size: 34
2336583 CTAGTAAAGA
* * *
2336593 AACCTTT-TTCAAAAGCCCACAGAGGTTGGTAGC
1 AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
* *
2336626 AA-CTTTCTTTAAAAGTCCACACAAGTTGGTGGC
1 AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
2336659 AACCTTTTTCTTCAAAAGCCCACACAAGTTGGTGGC
1 AACC--TTTCTTCAAAAGCCCACACAAGTTGGTGGC
* **
2336695 AACCTTTCCCTCCAAAAG-CC-CACAAGTCAGTGGC
1 AACCTTT--CTTCAAAAGCCCACACAAGTTGGTGGC
* * *
2336729 ATCCTTTTCCTTCAAAAGACCACACAAGTTAGTGGC
1 AACC-TTT-CTTCAAAAGCCCACACAAGTTGGTGGC
* * *
2336765 ACCCATTT-TTC-ATAGCCCACACAAGTTAGTGGC
1 AACC-TTTCTTCAAAAGCCCACACAAGTTGGTGGC
* * *
2336798 AACATTTTTTC-AAAGGCCACACAAGTTGGTGGC
1 AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
2336831 AACC-TTCTTC-AAAGCCCAC-CAAGTTGGTGGC
1 AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
*
2336862 AACC-CTC-TCAAAAGCCCACACAAGTTGGTGGC
1 AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
2336894 A
1 A
2336895 TCTCTTTCCA
Statistics
Matches: 231, Mismatches: 26, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.01
31 27 0.12
32 33 0.14
33 72 0.31
34 31 0.13
35 7 0.03
36 59 0.26
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (34 bp):
AACCTTTCTTCAAAAGCCCACACAAGTTGGTGGC
Found at i:2336728 original size:34 final size:36
Alignment explanation
Indices: 2336636--2336894 Score: 210
Period size: 36 Copynumber: 7.7 Consensus size: 36
2336626 AACTTTCTTT
* * *
2336636 AAAAGTCCACACAAGTTGGTGGCAACCTTTTTCTTC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* * * *
2336672 AAAAGCCCACACAAGTTGGTGGCAACCTTTCCCTCC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* *
2336708 AAAAG-CC-CACAAGTCAGTGGCATCCTTTTCCTTC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* *
2336742 AAAAGACCACACAAGTTAGTGGCACCCATTT--TTC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* * *
2336776 -ATAGCCCACACAAGTTAGTGGCAACATTTT--TTC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* *
2336809 -AAAGGCCACACAAGTTGGTGGCAACC--TT-CTTC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* * *
2336841 -AAAGCCCAC-CAAGTTGGTGGCAACC--CT-C-TC
1 AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
* *
2336871 AAAAGCCCACACAAGTTGGTGGCA
1 AAAAGACCACACAAGTTAGTGGCA
2336895 TCTCTTTCCA
Statistics
Matches: 195, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.01
31 29 0.15
32 24 0.12
33 50 0.26
34 30 0.15
35 4 0.02
36 56 0.29
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (36 bp):
AAAAGACCACACAAGTTAGTGGCAACCTTTTCCTTC
Found at i:2336742 original size:70 final size:68
Alignment explanation
Indices: 2336593--2336894 Score: 297
Period size: 69 Copynumber: 4.5 Consensus size: 68
2336583 CTAGTAAAGA
* * * * * *
2336593 AACC-TTT-TTCAAAAGCCCACAGAGGTTGGTAGCAA-CTTTCTTTAAAAGTCCACACAAGTTGG
1 AACCTTTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTC-TTCAAAGCCCACACAAGTTAG
2336655 TGGC
65 TGGC
*
2336659 AACCTTTTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTCCCTCCAAAAG-CC-CACAAGT
1 AACC-TTTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCTTT--CTTC-AAAGCCCACACAAGT
*
2336722 CAGTGGC
62 TAGTGGC
* * * * *
2336729 ATCCTTTTCCTTCAAAAGACCACACAAGTTAGTGGCACCCATTT-TTCATAGCCCACACAAGTTA
1 AACCTTTT-CTTCAAAAGCCCACACAAGTTGGTGGCAACC-TTTCTTCAAAGCCCACACAAGTTA
2336793 GTGGC
64 GTGGC
* * *
2336798 AACATTTT-TTC-AAAGGCCACACAAGTTGGTGGCAACC-TTCTTCAAAGCCCAC-CAAGTTGGT
1 AACCTTTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTCTTCAAAGCCCACACAAGTTAGT
2336859 GGC
66 GGC
*
2336862 AACC--CTC-TCAAAAGCCCACACAAGTTGGTGGCA
1 AACCTTTTCTTCAAAAGCCCACACAAGTTGGTGGCA
2336895 TCTCTTTCCA
Statistics
Matches: 198, Mismatches: 24, Indels: 31
0.78 0.09 0.12
Matches are distributed among these distances:
62 3 0.02
63 22 0.11
64 16 0.08
65 11 0.06
66 27 0.14
67 6 0.03
68 7 0.04
69 48 0.24
70 47 0.24
71 6 0.03
72 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (68 bp):
AACCTTTTCTTCAAAAGCCCACACAAGTTGGTGGCAACCTTTCTTCAAAGCCCACACAAGTTAGT
GGC
Found at i:2337000 original size:58 final size:59
Alignment explanation
Indices: 2336917--2337047 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 59
2336907 CCTAATGTTA
* ** * *
2336917 TTGGCCTTGAATCAACTCATTGGCACTTGTCAGACCTTTGTTTTC-AAGTCCAATGTCG
1 TTGGCCTTGAATCAACACATTGGCACTCATCAAACCTTTCTTTTCAAAGTCCAATGTCG
* *
2336975 TTGGCCTTGAATCAACACATTGGCACTCATCAAATCTTTCTTTTCAAAGTCTAATGTCG
1 TTGGCCTTGAATCAACACATTGGCACTCATCAAACCTTTCTTTTCAAAGTCCAATGTCG
* *
2337034 CTGGCCCTGAATCA
1 TTGGCCTTGAATCA
2337048 GCATATTAGC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
58 39 0.62
59 24 0.38
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (59 bp):
TTGGCCTTGAATCAACACATTGGCACTCATCAAACCTTTCTTTTCAAAGTCCAATGTCG
Found at i:2337240 original size:53 final size:52
Alignment explanation
Indices: 2337021--2337797 Score: 390
Period size: 53 Copynumber: 14.8 Consensus size: 52
2337011 TTTCTTTTCA
* * * *
2337021 AAGTCTAATGTCGCTGGCCCTGAATCAGCATATTAGCATT-TTCTTCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-ATCATCTTT
* * * * * * **
2337073 AAGTCCAATGTTGCTGGTCTTGAATTAGCACATTGGTA-CCTTCGCCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-ATCATCTTT
* * ** * * ** * *
2337125 AAGACTAATATCATTGACCATGAATCAAAATATTGGCATTTTTTATCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TTCTTATCATCTTT
* *
2337178 AAGTCTAATGTCGCTGGCCTTGAATCAACACATTTGGCATTCTTATCATCTCT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACA-TTGGCATTCTTATCATCTTT
* * * * * *
2337231 AAGTCTAATGGCACTAGCCTTAAATCAGCACATTCAGCATTCTCT-TCATCCTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATT-GGCATTCT-TATCATCTTT
* *** * *
2337284 AAGTCCAATGTTATTGGCCTTGAATCAGCACATTGGTA-CCTTCATCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-ATCATCTTT
* * * * * * * * * * *
2337336 AAGACCAATATCGTTAGCCGTAAATCAGCATACT-GCATTTTTTGTATCATCTTCA
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCT-TATCATCTT-T
* * * * *
2337391 AAGTTTAATGTCGCTTGGCCCTAAATCAGCATATTAGCACTT-TCT-TCATCTTT
1 AAGTCTAATGTCGC-TGGCCTTGAATCAGCACATTGGCA-TTCT-TATCATCTTT
* * * * * *
2337444 AAGTTTAATGTCGCTGGCTTTGAATCAGCATATTGGTA-CCTTCACCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-ATCATCTTT
* * * ** * * * * *
2337496 AAGACCAATATCAATGGTCTTGAATCAACATATTGGCATTTTTTATCATATTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TTCTTATCATCTTT
* * * * * *
2337549 AAGTCTAATGTCGTTAGCTTTGAATCAGCACATTGGTA-CCTTCACCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTT-ATCATCTTT
** * * * *
2337601 AAAACCAATATCGTTGGCCATGAATCAGCACATTTGGCATTCTTATCATCTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACA-TTGGCATTCTTATCATCTTT
* * * * * * *
2337654 AAGTCCAATGGCGTTAGCCTTGAATCAGCATATTTGGCATTCTTACCATTTTT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACA-TTGGCATTCTTATCATCTTT
* * * * *
2337707 GAGTCTGATGTCTCTGGCCTTGAA-CAAGCACATT-GCA-CCTTTATCATCTTC
1 AAGTCTAATGTCGCTGGCCTTGAATC-AGCACATTGGCATTC-TTATCATCTTT
* * * * * * *
2337758 AAATCTAATGTTGTTGCCCTTGAAGCATCACATTAGCATT
1 AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATT
2337798 ATGCCCTTAC
Statistics
Matches: 540, Mismatches: 157, Indels: 55
0.72 0.21 0.07
Matches are distributed among these distances:
50 3 0.01
51 42 0.08
52 193 0.36
53 238 0.44
54 30 0.06
55 12 0.02
56 19 0.04
57 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (52 bp):
AAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTATCATCTTT
Found at i:2337386 original size:106 final size:104
Alignment explanation
Indices: 2337043--2337388 Score: 304
Period size: 105 Copynumber: 3.3 Consensus size: 104
2337033 GCTGGCCCTG
* * * *
2337043 AATCAGCATATTAGCATTTTCT-TCATCTTTAAGTCCAATGTTGCTGGTCTTGAATTAGCACATT
1 AATCAGCATACT-GCATTTTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATT
** *
2337107 GGTACCTTCGCCATCTTTAAGACTAATATCATT-GACCATG
65 GGTACCTTCATCATCTTTAAGACTAATATCATTAG-CCATA
** * * * *
2337147 AATCAAAATATTGGCATTTTTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCAACACATT
1 AATCAGCATACT-GCATTTTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACA-T
* * * * ** * *
2337212 TGGCATTCTT-ATCATCTCTAAGTCTAATGGCACTAGCCTTA
64 TGGTA-CCTTCATCATCTTTAAGACTAATATCATTAGCCATA
* * * * * **
2337253 AATCAGCACATTCAGCATTCTCT-TCATCCTTAAGTCCAATGTTATTGGCCTTGAATCAGCACAT
1 AATCAG--CATACTGCATTTTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACAT
* * *
2337317 TGGTACCTTCATCATCTTTAAGACCAATATCGTTAGCCGTA
64 TGGTACCTTCATCATCTTTAAGACTAATATCATTAGCCATA
2337358 AATCAGCATACTGCATTTTTTGTATCATCTT
1 AATCAGCATACTGCA-TTTTT-TATCATCTT
2337389 CAAAGTTTAA
Statistics
Matches: 184, Mismatches: 48, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
103 7 0.04
104 24 0.13
105 70 0.38
106 70 0.38
107 11 0.06
108 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (104 bp):
AATCAGCATACTGCATTTTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTG
GTACCTTCATCATCTTTAAGACTAATATCATTAGCCATA
Found at i:2337560 original size:105 final size:104
Alignment explanation
Indices: 2337414--2337687 Score: 345
Period size: 105 Copynumber: 2.6 Consensus size: 104
2337404 CTTGGCCCTA
* * * * * *
2337414 AATCAGCATATTAGCACTTTCT-TCATCTTTAAGTTTAATGTCGCTGGCTTTGAATCAGCATATT
1 AATCAACATATTGGCA-TTTTTATCATCTTTAAGTCTAATGTCGTTAGCTTTGAATCAGCATATT
* * *
2337478 GGTACCTTCACCATCTTTAAGACCAATATCAATGGTCTTG
65 GGTACCTTCACCATCTTTAAAACCAATATCAATGGCCATG
* *
2337518 AATCAACATATTGGCATTTTTTATCATATTTAAGTCTAATGTCGTTAGCTTTGAATCAGCACATT
1 AATCAACATATTGGCA-TTTTTATCATCTTTAAGTCTAATGTCGTTAGCTTTGAATCAGCATATT
**
2337583 GGTACCTTCACCATCTTTAAAACCAATATCGTTGGCCATG
65 GGTACCTTCACCATCTTTAAAACCAATATCAATGGCCATG
* * * *
2337623 AATCAGCACAT-TTGGCATTCTTATCATCTTTAAGTCCAATGGCGTTAGCCTTGAATCAGCATAT
1 AATCA--ACATATTGGCATTTTTATCATCTTTAAGTCTAATGTCGTTAGCTTTGAATCAGCATAT
2337687 T
64 T
2337688 TGGCATTCTT
Statistics
Matches: 147, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
104 18 0.12
105 119 0.81
106 6 0.04
107 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (104 bp):
AATCAACATATTGGCATTTTTATCATCTTTAAGTCTAATGTCGTTAGCTTTGAATCAGCATATTG
GTACCTTCACCATCTTTAAAACCAATATCAATGGCCATG
Found at i:2342469 original size:20 final size:21
Alignment explanation
Indices: 2342409--2342482 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
2342399 TTTTGCAATT
* *
2342409 TGTATCGATACAAACAAT-AAA
1 TGTATCGATACATA-AGTGAAA
*
2342430 AGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
2342450 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTGAAA
*
2342471 TGTATTGATACA
1 TGTATCGATACA
2342483 AAACCACTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 18 0.42
21 25 0.58
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:2342532 original size:20 final size:21
Alignment explanation
Indices: 2342507--2342563 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
2342497 TTTGGAAAGG
2342507 AAATGTATCGATACATGAGT-
1 AAATGTATCGATACATGAGTA
* **
2342527 AAATGTATCGATATATGCTTA
1 AAATGTATCGATACATGAGTA
2342548 AAATGTATCGATACAT
1 AAATGTATCGATACAT
2342564 TTATCATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATGAGTA
Found at i:2345087 original size:79 final size:78
Alignment explanation
Indices: 2344938--2345335 Score: 344
Period size: 79 Copynumber: 5.0 Consensus size: 78
2344928 AATTTCTAAT
* * * ** * *
2344938 TTTTTCCTTCCAAAAGCATCGAATTTTTCATC-TTTGGGATAGTCCAACCCC-TTCAATTTC-GA
1 TTTTTACTTCCAAAA-TATC-AATTTTTCACCATCGGGGATACTCCAACCCCATT--ATTTCTAA
2345000 GGGAATACTCCAATCCCA
62 GGGAATACTCCAA-CCCA
* * * * *
2345018 TTATTAGTTCCAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCTATTATTTCTAAGGGG
1 TTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTAAGGGA
2345083 ATACTCCAACCC-
66 ATACTCCAACCCA
* * *
2345095 TGTTTTCACTTCCAAAATA-CTGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTAAA
1 T-TTTT-ACTTCCAAAATATC-AATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTAAG
2345159 GGAATACTCCAACCCTA
63 GGAATACTCCAACCC-A
* * * * * **
2345176 TTTTTTACCTCCAAAATATCGATTTTTCACTATCAGGGATACTCCGACCCTGTTATTTC-AAGGG
1 -TTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTAAGGG
* *
2345240 GATACTCTAATCCCA
65 AATACTCCAA-CCCA
* * * * *
2345255 TTTTTATTTCCAAAATATTAAATTTTTCATC-TCGGGAATACTCCAACCCCATTATTTTCGAA-G
1 TTTTTACTTCCAAAATA-TCAATTTTTCACCATCGGGGATACTCCAACCCCATTA-TTTCTAAGG
*
2345318 GAATACTCTAACTCCA
64 GAATACTCCAAC-CCA
2345334 TT
1 TT
2345336 ATTTCTGAGG
Statistics
Matches: 263, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
77 1 0.00
78 56 0.21
79 137 0.52
80 63 0.24
81 5 0.02
82 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (78 bp):
TTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTCTAAGGGA
ATACTCCAACCCA
Found at i:2345270 original size:158 final size:158
Alignment explanation
Indices: 2345001--2345338 Score: 418
Period size: 158 Copynumber: 2.1 Consensus size: 158
2344991 CAATTTCGAG
** **
2345001 GGAATACTCCAATCCCATTATTAGTTCCAAAATATCAATTTTTCACCATTGGGGATACTCCAACC
1 GGAATACTCCAATCCCATTATTACCTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACC
*
2345066 CTATTATTTCTAAGGGGATACTCCAACCCTGTTTTCACTTCCAAAATACT-GATTTTTCACCATC
66 CTATTATTTCTAAGGGGATACTCCAACCCTGTTTTCACTTCCAAAATACTAAATTTTTCACC-TC
* *
2345130 GGGGATACTCCAACCCCATTATTTTTAAA
130 GGGAATACTCCAACCCCATTATTTTCAAA
* * * *
2345159 GGAATACTCCAA-CCCTATTTTTTACCTCCAAAATATCGATTTTTCACTATCAGGGATACTCCGA
1 GGAATACTCCAATCCC-A-TTATTACCTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAA
* * * * *
2345223 CCCTGTTATTTC-AAGGGGATACTCTAATCCCAT-TTTT-ATTTCCAAAATATTAAATTTTTCAT
64 CCCTATTATTTCTAAGGGGATACTCCAA-CCC-TGTTTTCACTTCCAAAATACTAAATTTTTCAC
*
2345285 CTCGGGAATACTCCAACCCCATTATTTTCGAA
127 CTCGGGAATACTCCAACCCCATTATTTTCAAA
*
2345317 GGAATACTCTAA-CTCCATTATT
1 GGAATACTCCAATC-CCATTATT
2345339 TCTGAGGGGA
Statistics
Matches: 155, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
157 7 0.05
158 80 0.52
159 67 0.43
160 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (158 bp):
GGAATACTCCAATCCCATTATTACCTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACC
CTATTATTTCTAAGGGGATACTCCAACCCTGTTTTCACTTCCAAAATACTAAATTTTTCACCTCG
GGAATACTCCAACCCCATTATTTTCAAA
Found at i:2345321 original size:28 final size:28
Alignment explanation
Indices: 2345289--2345359 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
2345279 TTTCATCTCG
2345289 GGAATACTCCAACCCCATTATTT-TCGAA
1 GGAATACTCCAACCCCATTATTTCT-GAA
* * *
2345317 GGAATACTCTAACTCCATTATTTCTGAG
1 GGAATACTCCAACCCCATTATTTCTGAA
*
2345345 GGGATACTCCAACCC
1 GGAATACTCCAACCC
2345360 TATTTTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
GGAATACTCCAACCCCATTATTTCTGAA
Found at i:2345347 original size:107 final size:105
Alignment explanation
Indices: 2345228--2345432 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 105
2345218 TCCGACCCTG
* * * *
2345228 TTATTTCAAGGGGATACTCTAATCCC-ATTTTTATTTCCAAAATATTAAATTTTTCATC-TCGGG
1 TTATTTCAAGGGGATACTCCAA-CCCTATTTTTATTTCCAAAATATT-AATTTTGCAGCATAGGG
2345291 AATACTCCAACCCCATTATTTTCGAAGGAATACTCTAACTCCA
64 -ATACTCCAACCCCATTATTTTCGAAGGAATACTCTAACTCCA
* * *
2345334 TTATTTCTGAGGGGATACTCCAACCCTATTTTTATTTCTAAAATATTGATTTTGCAGCATTAGGG
1 TTATTTC-AAGGGGATACTCCAACCCTATTTTTATTTCCAAAATATTAATTTTGCAGCA-TAGGG
* * *
2345399 ATACTCCAACCTCATTATTTTCGAGGGGATACTC
64 ATACTCCAACCCCATTATTTTCGAAGGAATACTC
2345433 CAACCTCATT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
106 18 0.21
107 63 0.74
108 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (105 bp):
TTATTTCAAGGGGATACTCCAACCCTATTTTTATTTCCAAAATATTAATTTTGCAGCATAGGGAT
ACTCCAACCCCATTATTTTCGAAGGAATACTCTAACTCCA
Found at i:2345428 original size:186 final size:187
Alignment explanation
Indices: 2345134--2345483 Score: 449
Period size: 186 Copynumber: 1.9 Consensus size: 187
2345124 ACCATCGGGG
*
2345134 ATACTCCAACCCCATTATTTTTAAAGGAATACTCCAACCCTATTTTTTACCTCCAAAATATCGAT
1 ATACTCCAACCCCATTATTTCTAAAGGAATACTCCAACCCTATTTTTTACCTCCAAAATATCGAT
* * * * * *
2345199 TTTTCACTATCAGGGATACTCCGACCCTGTTATTTCAAGGGGATACTCTAATCC-CATTTTTATT
66 TTTGCACTATCAGGGATACTCCAACCCTATTATTTCAAGGGGATACTCCAA-CCTCATTTTCACT
2345263 TCCAAAATATTAAA-TTTTTCATCTCGGGAATACTCCAACCCCATTATTTTCGAAGGA
130 TCCAAAATATTAAATTTTTTCATCTCGGGAATACTCCAACCCCATTATTTTCGAAGGA
* * * * * ** * *
2345320 ATACTCTAACTCCATTATTTCTGAGGGGATACTCCAACCCTA-TTTTTATTTCTAAAATATTGAT
1 ATACTCCAACCCCATTATTTCTAAAGGAATACTCCAACCCTATTTTTTACCTCCAAAATATCGAT
* *
2345384 TTTGCAGC-ATTAGGGATACTCCAA-CCTCATTATTTTCGAGGGGATACTCCAACCTCATTTTCA
66 TTTGCA-CTATCAGGGATACTCCAACCCT-ATTA-TTTCAAGGGGATACTCCAACCTCATTTTCA
* *
2345447 CTTCTAAAATATTAAATTTTTTCATCTCGGGGATACT
128 CTTCCAAAATATTAAATTTTTTCATCTCGGGAATACT
2345484 TTAACCCCGA
Statistics
Matches: 139, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
184 3 0.02
185 42 0.30
186 75 0.54
187 19 0.14
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (187 bp):
ATACTCCAACCCCATTATTTCTAAAGGAATACTCCAACCCTATTTTTTACCTCCAAAATATCGAT
TTTGCACTATCAGGGATACTCCAACCCTATTATTTCAAGGGGATACTCCAACCTCATTTTCACTT
CCAAAATATTAAATTTTTTCATCTCGGGAATACTCCAACCCCATTATTTTCGAAGGA
Found at i:2345718 original size:59 final size:59
Alignment explanation
Indices: 2345631--2345759 Score: 224
Period size: 59 Copynumber: 2.2 Consensus size: 59
2345621 TCTTTTCGAA
*
2345631 TTTT-TTTTAAATTCTAAATTTTTCTCTAAGGCACCCCTAGATCATTAATCGTAATCTT
1 TTTTCTTTTAAATTCTAAATTTTTCTCTAAGGCACCCCTAGATCATTAATCATAATCTT
2345689 TTTTCTTTTAAATTCTAAATTTTTCTCTAAGGCACCCCTAGATCATTAATCATAATCTT
1 TTTTCTTTTAAATTCTAAATTTTTCTCTAAGGCACCCCTAGATCATTAATCATAATCTT
* *
2345748 TTTGCTTCTAAA
1 TTTTCTTTTAAA
2345760 ATCTCATAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
58 4 0.06
59 63 0.94
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTTCTTTTAAATTCTAAATTTTTCTCTAAGGCACCCCTAGATCATTAATCATAATCTT
Found at i:2348779 original size:3 final size:3
Alignment explanation
Indices: 2348760--2348793 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2348750 TTTTATTTTC
* *
2348760 TAT TTT TAT TCT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2348794 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:2350353 original size:22 final size:23
Alignment explanation
Indices: 2350319--2350404 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
2350309 TTTTTTCTTT
2350319 TTTTTTCTT-TTTC-CTCTCTCC
1 TTTTTTCTTCTTTCTCTCTCTCC
* * *
2350340 TTTTTTCTTCTTTCTTTCTTTCT
1 TTTTTTCTTCTTTCTCTCTCTCC
*
2350363 TTTTTTC-TCTTTCTTTTCTCTTCC
1 TTTTTTCTTCTTTC-TCTCTC-TCC
2350387 TCTTTCTT-TTCTTTCTCT
1 T-TTT-TTCTTCTTTCTCT
2350405 TTCTTTTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.17
22 10 0.19
23 17 0.33
24 3 0.06
25 5 0.10
26 8 0.15
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTCTTCTTTCTCTCTCTCC
Found at i:2350356 original size:4 final size:4
Alignment explanation
Indices: 2350339--2350410 Score: 50
Period size: 4 Copynumber: 19.0 Consensus size: 4
2350329 TTCCTCTCTC
*
2350339 CTTT -TTT C-TT CTTT CTTT CTTT CTTT -TTT -TCT CTTT CTTTT CTCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C-TTT CT-TT
*
2350385 C-CT CTTT CTTTT CTTT C--T CTTT CTTT
1 CTTT CTTT C-TTT CTTT CTTT CTTT CTTT
2350411 TTTGTTTGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
2 2 0.04
3 13 0.24
4 29 0.53
5 11 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:2350361 original size:15 final size:14
Alignment explanation
Indices: 2350347--2350410 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 14
2350337 TCCTTTTTTC
2350347 TTCTTTC-TT-TCT
1 TTCTTTCTTTCTCT
*
2350359 TTCTTTTTTTCTCT
1 TTCTTTCTTTCTCT
2350373 TTCTTTTCTCTTCCTCT
1 TTC-TTTCT-TT-CTCT
2350390 TTCTTTTCTTTCTCT
1 TTC-TTTCTTTCTCT
2350405 TTCTTT
1 TTCTTT
2350411 TTTGTTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 9 0.20
15 11 0.24
16 4 0.09
17 13 0.29
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTTCTTTCTCT
Found at i:2350383 original size:46 final size:46
Alignment explanation
Indices: 2350312--2350413 Score: 122
Period size: 46 Copynumber: 2.2 Consensus size: 46
2350302 ACCTCATTTT
*
2350312 TTTCTTTTTTTTTCTTTTTCCTCTC-TCCT-TTT-TTCTTCTTTCTTTC
1 TTTCTTTTTTTCTCTTTTTCCTCTCTTCCTCTTTCTT-TTCTTTC--TC
*
2350358 TTTCTTTTTTTCTCTTTCTT-TTCTCTTCCTCTTTCTTTTCTTTCTC
1 TTTCTTTTTTTCTCTTT-TTCCTCTCTTCCTCTTTCTTTTCTTTCTC
2350404 TTTCTTTTTT
1 TTTCTTTTTT
2350414 GTTTGTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
46 32 0.64
47 6 0.12
48 10 0.20
49 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (46 bp):
TTTCTTTTTTTCTCTTTTTCCTCTCTTCCTCTTTCTTTTCTTTCTC
Found at i:2350406 original size:54 final size:54
Alignment explanation
Indices: 2350308--2350410 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
2350298 GGCTACCTCA
* *
2350308 TTTTTTTCTTTTTTTTTCTTTTTCCTCTCTCCTTTTTTCTTCTTTCTTTCTTTC
1 TTTTTTTCTTTTCTTTTCTTCTTCCTCTCTCCTTTTTTCTTCTTTCTTTCTTTC
* *
2350362 TTTTTTTCTCTTTCTTTTC-TCTTCCTCTTTCTTTTCTTTC-TCTTTCTTT
1 TTTTTTTCT-TTTCTTTTCTTCTTCCTCTCTCCTTT-TTTCTTCTTTCTTT
2350411 TTTGTTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
54 31 0.72
55 12 0.28
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (54 bp):
TTTTTTTCTTTTCTTTTCTTCTTCCTCTCTCCTTTTTTCTTCTTTCTTTCTTTC
Found at i:2351562 original size:47 final size:47
Alignment explanation
Indices: 2351506--2351630 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
2351496 CATCCACCAA
* * * *
2351506 CAGCAGCTTCCACGAGTAACCGGCAGCAACTCCAGATTCCACGGCAG
1 CAGCAGCTTCCACGAGCAACCAGCAGCAACTCAAGATTCCACAGCAG
* * * * *
2351553 CAGCAGCTTCTACGAGCAACTAGCAGCAACTCAAGCTTCTACAGTAG
1 CAGCAGCTTCCACGAGCAACCAGCAGCAACTCAAGATTCCACAGCAG
*
2351600 CAGCAGCTTCCACGAGCACAGCAGCAGCAAC
1 CAGCAGCTTCCACGAGCA-ACCAGCAGCAAC
2351631 CGAAAGCAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 55 0.85
48 10 0.15
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (47 bp):
CAGCAGCTTCCACGAGCAACCAGCAGCAACTCAAGATTCCACAGCAG
Found at i:2351682 original size:56 final size:56
Alignment explanation
Indices: 2351597--2351737 Score: 192
Period size: 56 Copynumber: 2.5 Consensus size: 56
2351587 GCTTCTACAG
* * *
2351597 TAGCAGCAGCTTCCACGAGCACAGCAGCAGCAACCGAAAGCAACCAACACTAGCGAC
1 TAGCAGCAAC-TCCACGAGCACAGCAGCAGCAACCGAAACCAACCAACACCAGCGAC
* *
2351654 TAGCAGCAACTCCATGAGCACAGTAGCAGCAACCGAAACCAACCAACACCAGCGAC
1 TAGCAGCAACTCCACGAGCACAGCAGCAGCAACCGAAACCAACCAACACCAGCGAC
** * *
2351710 CGGCAGTAACTCCACAAGCACAGCAGCA
1 TAGCAGCAACTCCACGAGCACAGCAGCA
2351738 ACATCCACGG
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
56 64 0.88
57 9 0.12
ACGTcount: A:0.38, C:0.35, G:0.20, T:0.07
Consensus pattern (56 bp):
TAGCAGCAACTCCACGAGCACAGCAGCAGCAACCGAAACCAACCAACACCAGCGAC
Found at i:2362845 original size:13 final size:13
Alignment explanation
Indices: 2362827--2362865 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2362817 AAATTCCCAG
*
2362827 ATGTATCCATTCA
1 ATGTATCCATACA
*
2362840 ATGTATCGATACA
1 ATGTATCCATACA
*
2362853 ATGTATCGATACA
1 ATGTATCCATACA
2362866 TTGAATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCCATACA
Found at i:2363914 original size:101 final size:101
Alignment explanation
Indices: 2363741--2364764 Score: 620
Period size: 101 Copynumber: 10.9 Consensus size: 101
2363731 CGAATAATGA
* * * * * * **
2363741 CAATATGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGAA--TGCCAATGTGCTGAGACA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATA-AAGGTGCGAATGTGCTGATTCA
* * ** *
2363803 AGGCTAGCGACATTAGG-CTT-AGGAATGTTAAAGATGC
65 AGGCCAGCGACATT-GGACTTAAAG-ATGACAAAGGTGC
* * * * * ** *
2363840 CAATATGCTGATTTAAGGCTAGTGATTTTGGACTTAAAGGTGAAGGTGTTAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
2363905 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
**
2363941 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
2364006 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
*
2364042 CAATATGCTGATTCAAGGGCCA-AGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCA
1 CAATATGCTGATTCAA-GGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCA
*
2364106 AGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
65 AGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * *
2364143 CAATATGCTGACTCAAGGCCAGTGATATTGGAC-T-----T----GTGCCAATGTGCTAATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
* * * *
2364198 AGCCAGCAACATTAGTCTT-AA-A-GAC-AAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * * **
2364230 CAATATGCTGATTCAAGACTAGCGATATTGGGC-T-----T----GTGCCAATGTATTGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
** **
2364285 GGCTGGCGAC-----A-TT--A-A-G-CTTA--TGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
** * * * * *
2364308 CAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
* * *
2364373 GGCCAACGATATTGGGC-T-----T-------GTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * * * * *
2364396 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATTCGA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
* * *
2364460 GGCTAGCGATATTGGGC-T-----T-----A--TGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * * * *
2364483 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
* * * **
2364547 GGCCAACGATATTGGAC-TCAAGATGGTAAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* *
2364582 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
* ***
2364641 GGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* *** * * * * * * *
2364677 CAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATTAAGGTGCCAATATGATGATTCAA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
*
2364742 GGCCAGCGATATTGGACTTAAAG
66 GGCCAGCGACATTGGACTTAAAG
2364765 GTGCCACGGA
Statistics
Matches: 777, Mismatches: 101, Indels: 92
0.80 0.10 0.09
Matches are distributed among these distances:
78 31 0.04
79 2 0.00
80 4 0.01
81 2 0.00
84 1 0.00
87 177 0.23
88 67 0.09
89 1 0.00
90 2 0.00
91 33 0.04
92 1 0.00
93 1 0.00
94 36 0.05
95 44 0.06
96 1 0.00
97 1 0.00
98 1 0.00
99 66 0.08
100 8 0.01
101 291 0.37
102 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATAAAGGTGCGAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
Found at i:2363926 original size:49 final size:49
Alignment explanation
Indices: 2363741--2364764 Score: 646
Period size: 49 Copynumber: 21.8 Consensus size: 49
2363731 CGAATAATGA
* * * * *
2363741 CAATATGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** * * * *
2363788 CAATGTGCTGAGACAAGGCTAGCGACATTAGG-CTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-GATGAAGGTGC
* * * * ** * *
2363840 CAATATGCTGATTTAAGGCTAGTGATTTTGGACTTAAAGGTGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2363889 TAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2363941 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2363990 GAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2364042 CAATATGCTGATTCAAGGGCCA-AGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAA-GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2364091 GAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2364143 CAATATGCTGACTCAAGGCCAGTGATATTGGAC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
2364182 CAATGTGCTAATTCAAAGCCAGCAACATTAGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
2364230 CAATATGCTGATTCAAGACTAGCGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** ** * *
2364269 CAATGTATTGATTCAAGGCTGGCGAC-----A-TT-AAGCT-TA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
2364308 CAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
2364357 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
2364396 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
2364444 CAATATGCTGATTCGAGGCTAGCGATATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2364483 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
2364531 CAATATGCTGATTCAAGGCCAACGATATTGGAC-TCAAGATGGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* *
2364582 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2364625 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
2364677 CAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
2364726 CAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
2364765 GTGCCACGGA
Statistics
Matches: 768, Mismatches: 128, Indels: 160
0.73 0.12 0.15
Matches are distributed among these distances:
34 1 0.00
38 1 0.00
39 139 0.18
40 3 0.00
41 1 0.00
43 40 0.05
45 2 0.00
46 6 0.01
47 36 0.05
48 101 0.13
49 197 0.26
50 5 0.01
51 42 0.05
52 189 0.25
53 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:2364297 original size:87 final size:91
Alignment explanation
Indices: 2364087--2364298 Score: 243
Period size: 87 Copynumber: 2.4 Consensus size: 91
2364077 AAAGATAAAG
* * *
2364087 GTGCGAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCT
* *
2364152 GACTCAAGGCCAGTGATATTGGACTT
66 GACTCAAGACCAGCGATATTGGACTT
* * * * * *
2364178 GTGCCAATGTGCTAATTCAAAGCCAGCAACATTAGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCT
* * *
2364239 GATTCAAGACTAGCGATATTGGGCTT
66 GACTCAAGACCAGCGATATTGGACTT
* **
2364265 GTGCCAATGTATTGATTCAAGGCTGGCGACATTA
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTA
2364299 AGCTTATGCC
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
87 63 0.62
88 3 0.03
89 1 0.01
90 2 0.02
91 33 0.32
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (91 bp):
GTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCT
GACTCAAGACCAGCGATATTGGACTT
Found at i:2364309 original size:39 final size:39
Alignment explanation
Indices: 2364227--2364336 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 39
2364217 AAAGACAAGG
* * * ** *
2364227 TGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTG
1 TGCCAATATACTGATTCAAGGCTAGCGACATTAAGCTTA
* * *
2364266 TGCCAATGTATTGATTCAAGGCTGGCGACATTAAGCTTA
1 TGCCAATATACTGATTCAAGGCTAGCGACATTAAGCTTA
* * *
2364305 TGCCAATATGCTGATTCAAGGCCAACGACATT
1 TGCCAATATACTGATTCAAGGCTAGCGACATT
2364337 GGTCTTAAAG
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (39 bp):
TGCCAATATACTGATTCAAGGCTAGCGACATTAAGCTTA
Found at i:2364395 original size:127 final size:126
Alignment explanation
Indices: 2364141--2364424 Score: 354
Period size: 127 Copynumber: 2.2 Consensus size: 126
2364131 TGACAAAGGC
* * * * * * * *
2364141 GCCAATATGCTGACTCAAGGCCAGTGATATT-GGACTTGTGCCAATGTGCTAATTCAAAGCCAGC
1 GCCAATATACTGATTCAAGGCCAGCGACATTAAG-CTTATGCCAATATGCTAATTCAAAGCCAAC
* *
2364205 AACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTGT
65 AACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGACCAACGATATTGGGCTTGT
* * ** * * *
2364267 GCCAATGTATTGATTCAAGGCTGGCGACATTAAGCTTATGCCAATATGCTGATTCAAGGCCAACG
1 GCCAATATACTGATTCAAGGCCAGCGACATTAAGCTTATGCCAATATGCTAATTCAAAGCCAACA
* * *
2364332 ACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTGT
66 ACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGACCAACGATATTGGGCTTGT
*
2364394 GCCAATATGCTGATTCAAGGCCAGCGACATT
1 GCCAATATACTGATTCAAGGCCAGCGACATT
2364425 GGTCTTAGAG
Statistics
Matches: 131, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
126 63 0.48
127 68 0.52
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (126 bp):
GCCAATATACTGATTCAAGGCCAGCGACATTAAGCTTATGCCAATATGCTAATTCAAAGCCAACA
ACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGACCAACGATATTGGGCTTGT
Found at i:2364407 original size:39 final size:40
Alignment explanation
Indices: 2364353--2364660 Score: 206
Period size: 39 Copynumber: 7.0 Consensus size: 40
2364343 AAAGATGAAG
*
2364353 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* *
2364392 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
* *
2364439 GGTGCCAATATGCTGATTCGAGGCTAGCGATATTGGGCTTA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * *
2364480 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
* *
2364526 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG------GCT--T--A
*
2364577 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--A
* * *
2364620 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
2364661 AAGATGGTTA
Statistics
Matches: 219, Mismatches: 24, Indels: 50
0.75 0.08 0.17
Matches are distributed among these distances:
39 69 0.32
41 2 0.01
43 41 0.19
45 1 0.00
46 1 0.00
48 66 0.30
51 37 0.17
54 1 0.00
56 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:2364468 original size:48 final size:47
Alignment explanation
Indices: 2364392--2364761 Score: 341
Period size: 48 Copynumber: 7.9 Consensus size: 47
2364382 TATTGGGCTT
2364392 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-AAG
* * * *
2364440 GTGCCAATATGCTGATTCGAGGCTAGCGATATTGGGCTT------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGAAAG
* *
2364480 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-AAG
* * * *
2364527 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT-TAGA--G-AAAG
* *
2364578 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----AAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGAAAG
* *
2364621 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA--G-AAAG
* * * * *
2364673 GTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATTAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA--AAG
* * *
2364722 GTGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
2364762 AAGGTGCCAC
Statistics
Matches: 265, Mismatches: 33, Indels: 47
0.77 0.10 0.14
Matches are distributed among these distances:
39 33 0.12
41 1 0.00
43 40 0.15
46 1 0.00
48 69 0.26
49 38 0.14
50 2 0.01
51 41 0.15
52 40 0.15
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGAAAG
Found at i:2364468 original size:214 final size:218
Alignment explanation
Indices: 2364087--2364693 Score: 758
Period size: 214 Copynumber: 2.7 Consensus size: 218
2364077 AAAGATAAAG
* * * *
2364087 GTGCGAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCT
* * * * * *
2364152 GACTCAAGGCCAGTGATATTGGACTTGTGCCAATGTGCTAATTCAAAGCCAGCAACATTAGTCTT
64 GATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* *
2364217 AAAGACAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTGTGCCAATGTATTGATT
129 AAAGACAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTATGCCAATGTACTGATT
** *
2364282 CAAGGCTGGCGACA-TT-AAG-CTTA
194 CAAGGCCAGCGACATTTAAAGAC-AA
*
2364305 -TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATG-AAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGA
* * * *
2364368 TTCAAGGCCAACGATATTGGGCTTGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAG
66 TTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
* * *
2364433 AGACAAGGTGCCAATATGCTGATTCGAGGCTAGCGATATTGGGCTTATGCCAATGTGCTGATTCA
131 AGACAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTATGCCAATGTACTGATTCA
2364498 AGGCCAGCGACATTGGTCTTAAAGACAA
196 AGGCCAGCGACA----T-TTAAAGACAA
* *
2364526 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-TCAAGATGGTAAAGGTGCCAATATGC
1 -GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGC
2364590 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
63 TGATTCAAGGCCAGCGATATTGGACTT----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
* *
2364655 GTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAG
124 GTCTTAAAGA----CAAGGTGCCAATATGCTGATTCAAG
2364694 GCCAACAACA
Statistics
Matches: 335, Mismatches: 33, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
214 142 0.42
217 41 0.12
220 2 0.01
221 4 0.01
222 7 0.02
223 35 0.10
225 40 0.12
229 42 0.13
233 22 0.07
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (218 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
AGACAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGGGCTTATGCCAATGTACTGATTCA
AGGCCAGCGACATTTAAAGACAA
Found at i:2364484 original size:87 final size:87
Alignment explanation
Indices: 2364300--2364561 Score: 443
Period size: 87 Copynumber: 3.0 Consensus size: 87
2364290 GCGACATTAA
* *
2364300 GCTTATGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
1 GCTTATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGC
2364365 TGATTCAAGGCCAACGATATTGG
65 TGATTCAAGGCCAACGATATTGG
* *
2364388 GCTTGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCT
1 GCTTATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
* * *
2364453 GATTCGAGGCTAGCGATATTGG
66 GATTCAAGGCCAACGATATTGG
*
2364475 GCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 GCTTATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
2364540 GATTCAAGGCCAACGATATTGG
66 GATTCAAGGCCAACGATATTGG
2364562 ACTCAAGATG
Statistics
Matches: 161, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 116 0.72
88 45 0.28
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (87 bp):
GCTTATGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
GATTCAAGGCCAACGATATTGG
Found at i:2364595 original size:51 final size:50
Alignment explanation
Indices: 2364480--2364764 Score: 279
Period size: 52 Copynumber: 5.8 Consensus size: 50
2364470 ATTGGGCTTA
* * *
2364480 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA---CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAGATGTAAAGG
* * *
2364528 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGAT-GTAAAGG
*
2364579 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC------T-TAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGATGTAAAGG
* * *
2364622 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAGAT-GTAAAGG
* * * * *
2364674 TGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGAT-T-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAGATGTAAAGG
* *
2364723 TGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-TAAAG
2364765 GTGCCACGGA
Statistics
Matches: 203, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
43 39 0.19
45 1 0.00
47 5 0.02
48 32 0.16
49 39 0.19
50 2 0.01
51 39 0.19
52 46 0.23
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (50 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTAAAGATGTAAAGG
Found at i:2364634 original size:43 final size:43
Alignment explanation
Indices: 2364573--2364770 Score: 171
Period size: 43 Copynumber: 4.3 Consensus size: 43
2364563 CTCAAGATGG
*
2364573 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
2364616 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* * * * *
2364659 TAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCT
1 T----A-----AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
* *
2364711 TAAAGATTAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACT
1 T----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
2364760 TAAAGGTGCCA
1 TAAAGGTGCCA
2364771 CGGAGTTGTG
Statistics
Matches: 133, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
43 50 0.38
45 1 0.01
47 1 0.01
49 37 0.28
52 44 0.33
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
Found at i:2364803 original size:33 final size:33
Alignment explanation
Indices: 2364764--2365149 Score: 314
Period size: 34 Copynumber: 12.0 Consensus size: 33
2364754 TGGACTTAAA
2364764 GGTGCCACGGAGTTGTGGACTT-AAAGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
* * *
2364796 GGATGCCACGGAGGTGTGGGCTTAAAAGGGAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAA-GAAAAAG
* ** * *
2364831 GGTGCTACAAAGTCGTAGACTTAAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGACTT-AAAAGAAAAAG
* *
2364864 -GTGCCACGGAGTTATGGACTTAAAAGGAACAA-
1 GGTGCCACGGAGTTGTGGACTTAAAA-GAAAAAG
*
2364896 GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAA-GAAAAAG
* *
2364929 GATGCCACGGAGTTGTGGACTT------CAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
* *
2364956 GGTGTCACGAAGTTGTGGACTTAAAAAGAAAAAG
1 GGTGCCACGGAGTTGTGGACTT-AAAAGAAAAAG
*
2364990 GGTGTCACGGAGTTGTGGACTTAAAAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAA-GAAAAAG
* *
2365024 GAGTGCCACGGAGTTGTGGGCTT-----TAAAAG
1 G-GTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
*
2365053 GGTGCCACGGAGTTATGGACTT------AAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
*
2365080 GGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAG
*
2365114 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAG
2365149 G
1 G
2365150 TCCATGTGGG
Statistics
Matches: 291, Mismatches: 38, Indels: 47
0.77 0.10 0.12
Matches are distributed among these distances:
26 3 0.01
27 42 0.14
28 21 0.07
29 6 0.02
31 4 0.01
32 22 0.08
33 71 0.24
34 86 0.30
35 36 0.12
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAG
Found at i:2364872 original size:66 final size:67
Alignment explanation
Indices: 2364786--2365017 Score: 205
Period size: 66 Copynumber: 3.6 Consensus size: 67
2364776 TTGTGGACTT
* * *
2364786 AAAGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGAA-AAGGGTGCTACAAAGTCGTAGA
1 AAAGAAAAA--GATGCCACGGAGTTGTGGACTTAAAAGGGAACAA-GGTGCCACAAAGTCGTAGA
2364850 CTTAA
63 CTTAA
* *** * *
2364855 AAAGAAAAAG-TGCCACGGAGTTATGGACTTAAAA-GGAACAAGGTGCCATGGAGTTGTGGACTT
1 AAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAACAAGGTGCCACAAAGTCGTAGACTT
2364918 AA
66 AA
* * * * * *
2364920 AAGGAAAAAGATGCCACGGAGTTGTGGACTTCAAA--G-----GGTGTCACGAAGTTGTGGACTT
1 AAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAACAAGGTGCCACAAAGTCGTAGACTT
2364978 AA
66 AA
* *
2364980 AAAGAAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGG
1 AAAGAAAAA-GATGCCACGGAGTTGTGGACTTAAAAGG
2365018 AAAAAGGAGT
Statistics
Matches: 139, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
60 29 0.21
61 23 0.17
65 32 0.23
66 45 0.32
67 1 0.01
69 9 0.06
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.19
Consensus pattern (67 bp):
AAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAACAAGGTGCCACAAAGTCGTAGACTT
AA
Found at i:2365081 original size:124 final size:121
Alignment explanation
Indices: 2364826--2365149 Score: 370
Period size: 124 Copynumber: 2.6 Consensus size: 121
2364816 CTTAAAAGGG
* * *
2364826 AAAAGGGTGCTACAAAGTCGTAGACTTAAAAAGAAAAA-GTGCCACGGAGTTATGGACTTAAAAG
1 AAAAGGGTGC-AC-AAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
2364890 GAACAA-GGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
64 GAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG----AGATGCCACGGAGTTATGGACTT
* *
2364951 CAAAGGGTGTCACGAAGTTGTGGACTTAAAAAGAAAAAGGGTGTCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTG-CAC-AAGTTGTGGACTTAAAAAGAAAAA-GGTGCCACGGAGTTGTGGACTTAAAA
*
2365016 GGAAAAAGGAGTGCCACGGAGTTGTGGGCTTTAAAAGG-G-TGCCACGGAGTTATGGACTT
63 GGAAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAGATGCCACGGAGTTATGGACTT
* *
2365075 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAGGGTG-CACA-AGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AA
2365140 AA-GAAAAAGG
61 AAGGAAAAAGG
2365150 TCCATGTGGG
Statistics
Matches: 174, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
123 1 0.01
124 58 0.33
125 55 0.32
126 5 0.03
127 29 0.17
128 1 0.01
129 17 0.10
130 8 0.05
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (121 bp):
AAAAGGGTGCACAAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAGATGCCACGGAGTTATGGACTT
Found at i:2365084 original size:27 final size:27
Alignment explanation
Indices: 2365019--2365101 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 27
2365009 CTTAAAAGGA
*
2365019 AAAAGGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGG-GTGCCACGGAGTTGTGGAC-TT
*
2365048 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
2365075 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
2365102 TGAAAAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 27 0.54
28 17 0.34
29 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:2365150 original size:34 final size:34
Alignment explanation
Indices: 2365075--2366027 Score: 299
Period size: 33 Copynumber: 30.0 Consensus size: 34
2365065 TTATGGACTT
*
2365075 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
2365109 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
2365143 AAAAAGGT--C-C--A--TGTGGGCATT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
2365169 ---G--GTGCCACAGAGTCGTGGAC-TT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
2365196 AAAAAGGTGCCACGGAGTTGTGGACTTT----TG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * ** *
2365226 AAAAAGATGCTACTA-AGTCATGGACTTTGAAGA-
1 AAAAAGGTGCCAC-AGAGTTGTGGACTTTGAAAAG
* * *
2365259 AAAAAGATGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * **
2365291 -AAAAGATGCCACTGAGTCATGGACTTTG----G
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * * *
2365320 AAAGAGATGCCACTGAATCGTGGACTTTGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365353 AAAAAGATGCCA-ATGAGTCGTGGAC-TTAAAAAG
1 AAAAAGGTGCCACA-GAGTTGTGGACTTTGAAAAG
* * *
2365386 AAAAAGGGTGCCACTGAGTCGTGGATTTTG--AAG
1 AAAAA-GGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365419 -AAAAGATGCCACTGAGTCGTGGACTTTG----G
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * ** *
2365448 AAAGAGATGCCACTGAGGCGTGGACTTTGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * ** ** * *
2365481 AAAAAGATGCCACTGAGTCATCTACTTGGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365514 AAAAAGATGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * *
2365546 -AAAAGATGCCACTGAGTCGTGGACTTTG--GAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365577 -AAAAGATGCCACTGAGTCGTGGACTTTG----G
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * ** *
2365606 AAAGAGATGTCACTGAGTCATGGACTTTGAAGAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAA-AAG
* ** * *
2365641 AAAAAGATGCCATTGAGTCGTGGAC-TTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
2365674 AAAAAGGGTGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAA-GGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365707 -AAAAGATGCCACTGAGTCGTGGACTTTG----G
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * *
2365736 AAAGAGATGCCACTGAGTCGTGGACTTTGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * *
2365769 AAAAAGATGCCACTGAGTTGTGGACTTGGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * *
2365802 AAAAAGATGACACTGAGTCGTGAACTTTG----G
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * *
2365832 AAAGAGATGCCACTGAGTCGTGGACTTTGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * *
2365865 AAAAAGATGCCACTGAGTTGTGGACTTAGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * * *
2365898 AAAAAGATGCCACTGAGTCGTAGACTTTGAAGA-
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365931 AAAAAGATGCCACTGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * * *
2365963 -AAAAGATGCCACCGAGTCGTGGACTTTG--GAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
2365994 -AAAAGATGCCACTGAGTCT-TGGACTTTGGAAAG
1 AAAAAGGTGCCACAGAGT-TGTGGACTTTGAAAAG
2366027 A
1 A
2366028 GAGATTTGAA
Statistics
Matches: 772, Mismatches: 88, Indels: 118
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.00
23 1 0.00
24 1 0.00
26 6 0.01
27 16 0.02
28 5 0.01
29 5 0.01
30 152 0.20
31 188 0.24
32 31 0.04
33 263 0.34
34 77 0.10
35 25 0.03
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
Found at i:2365263 original size:116 final size:113
Alignment explanation
Indices: 2365038--2365264 Score: 242
Period size: 116 Copynumber: 2.0 Consensus size: 113
2365028 GCCACGGAGT
* * *
2365038 TGTGGGCTTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTT
1 TGTGGGCATTAAAAGGGTGCCACAGAGTCATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTT
* * ** *
2365103 GAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTCCA
66 ---AAGAAAAAGATGCCACGAAGTCATGGACTTTGAAAAGAAAAAGGTCCA
* *
2365154 TGTGGGCATTAAAAGGGTGCCACAGAGTCGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGG
1 TGTGGGCATTAAAAGGGTGCCACAGAGTCATGGACTTAAAAG-----GGTGCCACAGAGTTGTGG
* * * *
2365219 ACTTT-TGAAAAAGATGCTACTAAGTCATGGACTTTGAAGA-AAAAAG
61 ACTTTAAGAAAAAGATGCCACGAAGTCATGGACTTTGAAAAGAAAAAG
2365265 ATGCCACTGA
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
116 44 0.48
117 26 0.28
121 22 0.24
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (113 bp):
TGTGGGCATTAAAAGGGTGCCACAGAGTCATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTT
AAGAAAAAGATGCCACGAAGTCATGGACTTTGAAAAGAAAAAGGTCCA
Found at i:2365266 original size:33 final size:33
Alignment explanation
Indices: 2365171--2366021 Score: 1021
Period size: 33 Copynumber: 26.7 Consensus size: 33
2365161 ATTAAAAGGG
* ** *
2365171 TGCCACAGAGTCGTGGACTTAAAAG-AAAAAGG
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
2365203 TGCCACGGAGTTGTGGACTTT--TG-AAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
2365233 TGCTACTAAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
2365266 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
2365297 TGCCACTGAGTCATGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365327 TGCCACTGAATCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* ** * *
2365360 TGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGG
1 TGCCACTGAGTCGTGGACTT-TGAAGAAAAAAGA
*
2365394 TGCCACTGAGTCGTGGATTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365425 TGCCACTGAGTCGTGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365455 TGCCACTGAGGCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* ** *
2365488 TGCCACTGAGTCATCTACTTGGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
2365521 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365552 TGCCACTGAGTCGTGGACTTTG--GAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365583 TGCCACTGAGTCGTGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
2365613 TGTCACTGAGTCATGGACTTTGAAGAAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAAAGA
* ** * *
2365648 TGCCATTGAGTCGTGGACTTAAAAAGAAAAAGGG
1 TGCCACTGAGTCGTGGACTT-TGAAGAAAAAAGA
2365682 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365713 TGCCACTGAGTCGTGGACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
2365743 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
2365776 TGCCACTGAGTTGTGGACTTGGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
2365809 TGACACTGAGTCGTGAACTTTG--G-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
2365839 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
2365872 TGCCACTGAGTTGTGGACTTAGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2365905 TGCCACTGAGTCGTAGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
2365938 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
2365969 TGCCACCGAGTCGTGGACTTTG--GAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
2366000 TGCCACTGAGTCTTGGACTTTG
1 TGCCACTGAGTCGTGGACTTTG
2366022 GAAAGAGAGA
Statistics
Matches: 708, Mismatches: 82, Indels: 59
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.01
30 152 0.21
31 189 0.27
32 24 0.03
33 260 0.37
34 52 0.07
35 23 0.03
36 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (33 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
Found at i:2365408 original size:128 final size:126
Alignment explanation
Indices: 2365171--2366019 Score: 1066
Period size: 128 Copynumber: 6.6 Consensus size: 126
2365161 ATTAAAAGGG
* ** * * * * *
2365171 TGCCACAGAGTCGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTTG-AAAAAGATG
1 TGCCACTGAGTCGTGGACTT--TGGAAAGAGATGCCACTGAGTCGTGGACTTTGGAAAAAAGATG
* * * *
2365235 CTACTAAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAGA
64 CCACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
* *
2365297 TGCCACTGAGTCATGGACTTTGGAAAGAGATGCCACTGAATCGTGGACTTTGAAGAAAAAAGATG
1 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTG--GAAAAAAGATG
* * * * *
2365362 CCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGATTTTGAAG-AAAAGA
64 CCACTGAGTCGTGGACTT-AGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
*
2365425 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGGCGTGGACTTTGAAGAAAAAAGATG
1 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTG--GAAAAAAGATG
* ** *
2365490 CCACTGAGTCATCTACTTGGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAGA
64 CCACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
* * *
2365552 TGCCACTGAGTCGTGGACTTTGGAGAAAAGATGCCACTGAGTCGTGGACTTTGG-AAAGAGATGT
1 TGCCACTGAGTCGTGGACTTTGGA-AAGAGATGCCACTGAGTCGTGGACTTTGGAAAAAAGATGC
* * * **
2365616 CACTGAGTCATGGACTTTGAAGAAAAAAAAGATGCCATTGAGTCGTGGACTTAAAAAGAAAAAGG
65 CACTGAGTCGTGGACTTAGAAG--AAAAAAGATGCCACTGAGTCGTGGACTT-TGAAGAAAAA-G
*
2365681 G
126 A
*
2365682 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGATGCCACTGAGTCGTGGACTTTGG-AAAGAGATG
1 TGCCACTGAGTCGTGGACTTTG--GAAAGAGATGCCACTGAGTCGTGGACTTTGGAAAAAAGATG
* * *
2365745 CCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTGGAAGAAAAAAGA
64 CCACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAAGA
* *
2365809 TGACACTGAGTCGTGAACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATG
1 TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTG--GAAAAAAGATG
* *
2365874 CCACTGAGTTGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTAGACTTTGAAGAAAAAAGA
64 CCACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAAAGA
* *
2365938 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGATGCCACCGAGTCGTGGACTTTGGAGAAAAGATG
1 TGCCACTGAGTCGTGGACTTTG--GAAAGAGATGCCACTGAGTCGTGGACTTTGGAAAAAAGATG
*
2366002 CCACTGAGTCTTGGACTT
64 CCACTGAGTCGTGGACTT
2366020 TGGAAAGAGA
Statistics
Matches: 641, Mismatches: 63, Indels: 36
0.87 0.09 0.05
Matches are distributed among these distances:
124 24 0.04
125 31 0.05
126 45 0.07
127 137 0.21
128 202 0.32
129 91 0.14
130 103 0.16
131 6 0.01
132 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (126 bp):
TGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGGAAAAAAGATGCC
ACTGAGTCGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAGA
Found at i:2365742 original size:288 final size:286
Alignment explanation
Indices: 2365226--2366029 Score: 1222
Period size: 288 Copynumber: 2.8 Consensus size: 286
2365216 TGGACTTTTG
* * * *
2365226 AAAAAGATGCTACTAAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAG--AAAAGATGCCACTGAGTCGTGGACTTTGGAG
* *
2365291 AAAAGATGCCACTGAGTCATGGACTTTGGAAAGAGATGCCACTGAATCGTGGACTTTGAAGAAAA
64 AAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAA
*
2365356 AAGATGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGATTTTGAAGAA
129 AAGATGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAAGAA
2365421 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGGCGTGGACTTTGAAGAAAAAA
194 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGGCGTGGACTTTGAAGAAAAAA
*
2365486 GATGCCACTGAGTCATCTACTTGGAAGA
259 GATGCCACTGAGTCATCGACTTGGAAGA
2365514 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAGAA
* *
2365579 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGTCACTGAGTCATGGACTTTGAAGAAAAAA
66 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAAG--AAAA
*
2365644 AAGATGCCATTGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAAGAA
129 AAGATGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAAGAA
*
2365709 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
194 AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGGCGTGGACTTTGAAGAAAAAA
** *
2365774 GATGCCACTGAGTTGTGGACTTGGAAGA
259 GATGCCACTGAGTCATCGACTTGGAAGA
* *
2365802 AAAAAGATGACACTGAGTCGTGAACTTTG--GAAAGAGATGCCACTGAGTCGTGGACTTTGAAGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAA-AGATGCCACTGAGTCGTGGACTTTG--GA
* * * * *
2365865 AAAAAGATGCCACTGAGTTGTGGACTTAGAAGAAAAAAGATGCCACTGAGTCGTAGACTTTGAAG
63 GAAAAGATGCCACTGAGTCGTGGACTTTG--G-AAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* ** * * *
2365930 AAAAAAGATGCCACTGAGTCGTGGACTT-TGAAG-AAAA-GATGCCACCGAGTCGTGGACTTTGG
125 AAAAAAGATGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGA
*
2365992 AGAAAAGATGCCACTGAGTCTTGGACTTTGGAAAGAGA
190 AGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGA
2366030 GATTTGAAGA
Statistics
Matches: 477, Mismatches: 31, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
286 91 0.19
287 84 0.18
288 215 0.45
289 31 0.06
290 27 0.06
291 1 0.00
292 28 0.06
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (286 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAGAA
AAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAA
GATGCCAATGAGTCGTGGACTTAAAAAGAAAAAGGGTGCCACTGAGTCGTGGACTTTGAAGAAAA
GATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGGCGTGGACTTTGAAGAAAAAAGA
TGCCACTGAGTCATCGACTTGGAAGA
Found at i:2371586 original size:43 final size:43
Alignment explanation
Indices: 2371470--2371881 Score: 548
Period size: 42 Copynumber: 9.7 Consensus size: 43
2371460 CATTACACTT
*
2371470 CTGGAAACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
2371512 TTGGAGACTTTCTTA-CCCTTAGTCTGCCTGTCGACTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
2371554 CTAGAGGCTTTCCTATCCCTTAGTCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
2371597 TTGGAGACTTTCCTATCCCTCAGTCTGCCTGTCGACTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
2371640 TTGGAGACTTTCCT-TCCCTCAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
2371682 CTGGAGACCTT-CTTTCCTTTAGTTTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
2371724 CTGGAGACTTTCCTA-CCCTTAGTCTACCTATCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
2371766 TTGGAGACTTTCCTA-CCCATAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
2371808 CTAGAGATTTTCATATCCCTTAGTCTGCGTGTCGCCTTTGACC
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
*
2371851 CTAGAGACTTTCCTATCCCTTAGTCTGCCTG
1 CTGGAGACTTTCCTATCCCTTAGTCTGCCTG
2371882 GAGACTTTTT
Statistics
Matches: 324, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.01
42 192 0.59
43 130 0.40
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (43 bp):
CTGGAGACTTTCCTATCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:2371886 original size:28 final size:27
Alignment explanation
Indices: 2371854--2371908 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2371844 TTTGACCCTA
*
2371854 GAGACTTTCCTATCCCTTAGTCTGCCTG
1 GAGACTTT-CTATCCCTCAGTCTGCCTG
* *
2371882 GAGACTTTTTTTCCCTCAGTCTGCCTG
1 GAGACTTTCTATCCCTCAGTCTGCCTG
2371909 TCGGCTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (27 bp):
GAGACTTTCTATCCCTCAGTCTGCCTG
Found at i:2371945 original size:42 final size:42
Alignment explanation
Indices: 2371878--2372268 Score: 458
Period size: 42 Copynumber: 9.2 Consensus size: 42
2371868 CCTTAGTCTG
** * *
2371878 CCTGGAGACTTTTTTTCCCTCAGTCTGCCTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
*
2371920 CCTAGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
* * *
2371962 CCTAGGAGACTTTCTTTCCCTTAGTCTACCTGTCGGCTTTGAC
1 CCT-GGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
* * * *
2372005 CTTGGAAACTTTCCTATCCTTAGTCTGCCTATCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
*
2372047 CTTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
* ** * * * * *
2372089 CATGGAGACTTTTTTTCTCTCAGTCTACTTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
* *
2372131 TCTGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
* *
2372173 CCTAGAGACTTTCCTATCCCTCAGTCTGCCTGTCGGCTTTGAC
1 CCTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGAC
* * * ** *
2372216 CTTGGAGACTTTTCTATCCCTCAGTCTGTTTATCGGCTTTGAC
1 CCTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGAC
* *
2372259 CTTGAAGACT
1 CCTGGAGACT
2372269 GCCTAATTTT
Statistics
Matches: 301, Mismatches: 46, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
42 193 0.64
43 108 0.36
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.37
Consensus pattern (42 bp):
CCTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGAC
Found at i:2371971 original size:113 final size:112
Alignment explanation
Indices: 2371786--2371993 Score: 337
Period size: 112 Copynumber: 1.8 Consensus size: 112
2371776 TCCTACCCAT
* *
2371786 AGTCTGCCTGTCGGCTTTGACCCTAGAGATTTTCATATCCCTTAGTCTGCGTGTCGCCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTTAGTCTGCCTGTCGCCTTTGACC
*
2371851 CTAGAGACTTTCCTATCCCTTAGTCTGCCTGGAGACTTTTTTTCCCTC
66 CTAGAGACTTT-CTATCCCTTAGTCTACCTGGAGACTTTTTTTCCCTC
* *
2371899 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTTAGTCTGCCTGTCGCCTTTGACC
*
2371963 CTAGGAGACTTTCTTTCCCTTAGTCTACCTG
66 CTA-GAGACTTTCTATCCCTTAGTCTACCTG
2371994 TCGGCTTTGA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
112 45 0.51
113 43 0.49
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (112 bp):
AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTTAGTCTGCCTGTCGCCTTTGACC
CTAGAGACTTTCTATCCCTTAGTCTACCTGGAGACTTTTTTTCCCTC
Found at i:2372193 original size:366 final size:367
Alignment explanation
Indices: 2371513--2372243 Score: 1056
Period size: 366 Copynumber: 2.0 Consensus size: 367
2371503 GCTTTGACCT
* *
2371513 TGGAGACTTTCTTACCCTTAGTCTGCCTGTCGACTTTGACCCTAGAGGCTTTCCTATCCCTTAGT
1 TGGAGACTTTCTTACCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTATCCCTTAGT
* *
2371578 CTGCCTGTCAGCTTTGACCTTGGAGACTTTCCTATCCCTCAGTCTGCCTGTCGACTTTGACCTTG
66 CTGCCTGTCAGCTTTGACCTAGGAGACTTTCCTATCCCTCAGTCTACCTGTCGACTTTGACCTTG
* * * * * *
2371643 GAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACCTTCTTTCCTTTAGTTTG
131 GAAACTTTCCTTCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACCTTCCTACCCTTAGTCTG
* *
2371708 CCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTACCTATCGGCTTTGACCTTGGAGA
196 CCTGTCGGCTTTGACCATGGAGACTTTCCTACCCTCAGTCTACCTATCGGCTTTGACCTTGGAGA
* * *
2371773 CTTTCCTACCCATAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTTCATATCCCTTAGTCTGCGT
261 CTTTCCTACCCATAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTCAGTCTGCCT
*
2371838 GTCGCCTTTGACCCTAGAGACTTTCCTATCCCTTAGTCTGCC
326 GTCGCCTTTGACCCTAGAGACTTTCCTATCCCTCAGTCTGCC
* * *
2371880 TGGAGACTTTTTTTCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTA-CCCTTAGT
1 TGGAGACTTTCTTACCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTATCCCTTAGT
* * * *
2371944 CTGCCTGTCGGCTTTGACCCTAGGAGACTTT-CTTTCCCTTAGTCTACCTGTCGGCTTTGACCTT
66 CTGCCTGTCAGCTTTGA-CCTAGGAGACTTTCCTATCCCTCAGTCTACCTGTCGACTTTGACCTT
* * *
2372008 GGAAACTTTCCTAT-CCTTAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTAGTC
130 GGAAACTTTCCT-TCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACCTTCCTACCCTTAGTC
** * * * *
2372072 TGCCTGTCGGCTTTGACCATGGAGACTTTTTTTCTCTCAGTCTACTTGTCGGCTTTGA-CTCTGG
194 TGCCTGTCGGCTTTGACCATGGAGACTTTCCTACCCTCAGTCTACCTATCGGCTTTGACCT-TGG
* * *
2372136 AGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTCAGTCTG
258 AGACTTTCCTACCCATAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTCAGTCTG
* * * *
2372201 CCTGTCGGCTTTGACCTTGGAGACTTTTCTATCCCTCAGTCTG
323 CCTGTCGCCTTTGACCCTAGAGACTTTCCTATCCCTCAGTCTG
2372244 TTTATCGGCT
Statistics
Matches: 322, Mismatches: 39, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
365 2 0.01
366 256 0.80
367 64 0.20
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.37
Consensus pattern (367 bp):
TGGAGACTTTCTTACCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCCTATCCCTTAGT
CTGCCTGTCAGCTTTGACCTAGGAGACTTTCCTATCCCTCAGTCTACCTGTCGACTTTGACCTTG
GAAACTTTCCTTCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACCTTCCTACCCTTAGTCTG
CCTGTCGGCTTTGACCATGGAGACTTTCCTACCCTCAGTCTACCTATCGGCTTTGACCTTGGAGA
CTTTCCTACCCATAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCATATCCCTCAGTCTGCCT
GTCGCCTTTGACCCTAGAGACTTTCCTATCCCTCAGTCTGCC
Found at i:2372202 original size:127 final size:125
Alignment explanation
Indices: 2371878--2372260 Score: 541
Period size: 127 Copynumber: 3.0 Consensus size: 125
2371868 CCTTAGTCTG
* * *
2371878 CCTGGAGACTTTTTTTCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAG
1 CCTGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAG
* * * *
2371943 TCTGCCTGTCGGCTTTGACCCTAGGAGACTTTCTTTCCCTTAGTCTACCTGTCGGCTTTGA
66 TCTGCCTGTCGGCTTTGACCAT-GGAGACTTTTTTTCCCTCAGTCTACTTGTCGGCTTTGA
* * * * * *
2372004 CCTTGGAAACTTTCCTATCCTTAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTA
1 CC-TGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTA
*
2372069 GTCTGCCTGTCGGCTTTGACCATGGAGACTTTTTTTCTCTCAGTCTACTTGTCGGCTTTGA
65 GTCTGCCTGTCGGCTTTGACCATGGAGACTTTTTTTCCCTCAGTCTACTTGTCGGCTTTGA
*
2372130 CTCTGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTATCCCTC
1 C-CTGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTA-CCCTT
* * ** *
2372195 AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCTATCCCTCAGTCTGTTTATCGGCTTTGA
64 AGTCTGCCTGTCGGCTTTGACCATGGAGACTTTT-TTTCCCTCAGTCTACTTGTCGGCTTTGA
2372258 CCT
1 CCT
2372261 TGAAGACTGC
Statistics
Matches: 226, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
126 87 0.38
127 115 0.51
128 24 0.11
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.38
Consensus pattern (125 bp):
CCTGGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAG
TCTGCCTGTCGGCTTTGACCATGGAGACTTTTTTTCCCTCAGTCTACTTGTCGGCTTTGA
Found at i:2372758 original size:15 final size:15
Alignment explanation
Indices: 2372725--2372756 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2372715 CAATAAGTAG
2372725 AAATCAAAAGTAAAA
1 AAATCAAAAGTAAAA
2372740 AAAT-AAAAGTAAAA
1 AAATCAAAAGTAAAA
2372754 AAA
1 AAA
2372757 ATCATCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.12
Consensus pattern (15 bp):
AAATCAAAAGTAAAA
Found at i:2373475 original size:47 final size:46
Alignment explanation
Indices: 2373398--2373527 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 46
2373388 CAGCATCACC
*
2373398 AGCAGTAGCTTCCACGAGCAACTGGTAGCAACTCCAGCTTC-CAC-GAT
1 AGCAGTAGCTTCCACGAGCAAC-GGCAGCAACTCCAGCTTCAC-CTG-T
* * * *
2373445 AGCAGCAGCTTCCATGAGCAATCAGCAGCAACTCAAGCTTCACCTGT
1 AGCAGTAGCTTCCACGAGCAA-CGGCAGCAACTCCAGCTTCACCTGT
*
2373492 AGTAGTAGCTTCCACGAGCAACCGGCAGCAACTCCA
1 AGCAGTAGCTTCCACGAGCAA-CGGCAGCAACTCCA
2373528 TGAGCACAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 66 0.96
48 3 0.04
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (46 bp):
AGCAGTAGCTTCCACGAGCAACGGCAGCAACTCCAGCTTCACCTGT
Found at i:2373680 original size:22 final size:20
Alignment explanation
Indices: 2373654--2373695 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2373644 AGCAACAGTT
2373654 TCCACAAGCAACCAGCAGCAAC
1 TCCACAAGC-A-CAGCAGCAAC
*
2373676 TCCACGAGCACAGCAGCAAC
1 TCCACAAGCACAGCAGCAAC
2373696 AATAGCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.38, C:0.40, G:0.17, T:0.05
Consensus pattern (20 bp):
TCCACAAGCACAGCAGCAAC
Found at i:2380273 original size:87 final size:89
Alignment explanation
Indices: 2380175--2380343 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 89
2380165 ATCTAATCTG
*
2380175 ACAATTTTTTATAG-TTTAGCCATTAAAATAAAATAAGTAAAAA-TTT-AGATTTTATCCACTAA
1 ACAATTTTTTATAGTTTTA-CCATTAAAATAAAATAAGTAAAAATTTTAAAATTTTATCCACTAA
*
2380237 AATATATATTTTGGTAACGTTAGAC
65 AATATATATATTGGTAACGTTAGAC
* *
2380262 ACAATTTTTTATAGTTTTACCATTACAATAAAATAAGTAAAAATTTTAAAAATTTTATCCACTGA
1 ACAATTTTTTATAGTTTTACCATTAAAATAAAATAAGTAAAAATTTT-AAAATTTTATCCACTAA
* *
2380327 AGTCTATATATTGGTAA
65 AATATATATATTGGTAA
2380344 TGTTGGACGC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
87 37 0.51
88 7 0.10
90 28 0.39
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (89 bp):
ACAATTTTTTATAGTTTTACCATTAAAATAAAATAAGTAAAAATTTTAAAATTTTATCCACTAAA
ATATATATATTGGTAACGTTAGAC
Found at i:2380851 original size:16 final size:17
Alignment explanation
Indices: 2380801--2380845 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
2380791 AATTTCATAA
2380801 ATAAAATTTTTTATTAT
1 ATAAAATTTTTTATTAT
2380818 ATAAAATTTTTTATTAT
1 ATAAAATTTTTTATTAT
2380835 ATAAATATTTT
1 ATAAA-ATTTT
2380846 ACTATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAAAATTTTTTATTAT
Found at i:2380855 original size:17 final size:16
Alignment explanation
Indices: 2380804--2380851 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
2380794 TTCATAAATA
* *
2380804 AAATTTTTTATTATAT
1 AAATATTTTACTATAT
* *
2380820 AAAATTTTTTATTATAT
1 -AAATATTTTACTATAT
2380837 AAATATTTTACTATA
1 AAATATTTTACTATA
2380852 ATAACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATATTTTACTATAT
Found at i:2382839 original size:28 final size:28
Alignment explanation
Indices: 2382799--2382852 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
2382789 AATGACCTAA
2382799 AATGTACAAAATGTGCTTAAAAGGTCTT
1 AATGTACAAAATGTGCTTAAAAGGTCTT
*
2382827 AATGTACAAAATGTGCTTAAAGGGTC
1 AATGTACAAAATGTGCTTAAAAGGTC
2382853 CTAAATACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (28 bp):
AATGTACAAAATGTGCTTAAAAGGTCTT
Found at i:2383852 original size:28 final size:26
Alignment explanation
Indices: 2383797--2383854 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
2383787 ATCAACAGTT
*
2383797 AAAAGAAATGAAAATGAAATGAAGTA
1 AAAAGAAATAAAAATGAAATGAAGTA
* *
2383823 AAAATGAAATAAAAATATAAATGAATTA
1 AAAA-GAAATAAAAAT-GAAATGAAGTA
2383851 AAAA
1 AAAA
2383855 ACTACCTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.15
27 10 0.37
28 13 0.48
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (26 bp):
AAAAGAAATAAAAATGAAATGAAGTA
Found at i:2386838 original size:17 final size:18
Alignment explanation
Indices: 2386801--2386845 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
2386791 AAAATTTGAA
2386801 TTATTTTTTAAATAAATT
1 TTATTTTTTAAATAAATT
**
2386819 TTATTTTTTATTTAAA-T
1 TTATTTTTTAAATAAATT
2386836 TTATTTTTTA
1 TTATTTTTTA
2386846 GATTTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTTAAATAAATT
Found at i:2389592 original size:5 final size:5
Alignment explanation
Indices: 2389568--2389668 Score: 70
Period size: 5 Copynumber: 19.8 Consensus size: 5
2389558 GAATAATTTG
* *
2389568 TATATT TATTT TATATT TATAT TATAT TATAT TATATTT TATAT TATTT
1 TATA-T TATAT TATA-T TATAT TATAT TATAT TATA--T TATAT TATAT
2389617 TATAT TATAAT T-TAAT TAT-T T-T-T TATAT TAAATAT TATA- TAT-T
1 TATAT TAT-AT TAT-AT TATAT TATAT TATAT T--ATAT TATAT TATAT
2389660 TATAT TATA
1 TATAT TATA
2389669 CTTAAAATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.04
4 9 0.11
5 46 0.57
6 12 0.15
7 10 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:2389593 original size:22 final size:22
Alignment explanation
Indices: 2389568--2389668 Score: 104
Period size: 22 Copynumber: 4.7 Consensus size: 22
2389558 GAATAATTTG
*
2389568 TATATTTATTTTATATTTATAT
1 TATATTTATATTATATTTATAT
2389590 TATA-TTATATTATATTTTATAT
1 TATATTTATATTATA-TTTATAT
2389612 TAT-TTTATATTATAATTTA-AT
1 TATATTTATATTAT-ATTTATAT
* * *
2389633 TATTTTTTATATTAAATAT-TA-
1 TA-TATTTATATTATATTTATAT
2389654 TATATTTATATTATA
1 TATATTTATATTATA
2389669 CTTAAAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
20 11 0.16
21 15 0.22
22 32 0.47
23 10 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTTATATTATATTTATAT
Found at i:2389611 original size:7 final size:7
Alignment explanation
Indices: 2389574--2389665 Score: 51
Period size: 7 Copynumber: 12.6 Consensus size: 7
2389564 TTTGTATATT
2389574 TATTTTA
1 TATTTTA
2389581 TA-TTTA
1 TATTTTA
*
2389587 TATTATA
1 TATTTTA
*
2389594 TTATATTA
1 -TATTTTA
2389602 TATTTTA
1 TATTTTA
*
2389609 TATTATTT
1 TATT-TTA
*
2389617 TATATTA
1 TATTTTA
*
2389624 TAATTTAA
1 T-ATTTTA
*
2389632 TTATTTTT
1 -TATTTTA
*
2389640 TATATTA
1 TATTTTA
* *
2389647 AATATTA
1 TATTTTA
2389654 TATATTTA
1 TAT-TTTA
2389662 TATT
1 TATT
2389666 ATACTTAAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
6 6 0.10
7 32 0.51
8 24 0.38
9 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TATTTTA
Found at i:2389625 original size:43 final size:41
Alignment explanation
Indices: 2389568--2389673 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 41
2389558 GAATAATTTG
* * *
2389568 TATATTTATTTTATATTTATATTA-TATTATATTATATTTTA
1 TATATTTATATTATATTTA-ATTATTATTATATTAAATATTA
*
2389609 TATTATTTTATATTATAATTTAATTATTTTTTATATTAAATATTA
1 TA-TA-TTTATATTAT-ATTTAATTA-TTATTATATTAAATATTA
*
2389654 TATATTTATATTATACTTAA
1 TATATTTATATTATATTTAA
2389674 AATTATGAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.04
42 7 0.13
43 23 0.42
44 7 0.13
45 16 0.29
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (41 bp):
TATATTTATATTATATTTAATTATTATTATATTAAATATTA
Found at i:2390443 original size:14 final size:14
Alignment explanation
Indices: 2390426--2390474 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2390416 TTATATTAAA
2390426 ATATTTATTATATT
1 ATATTTATTATATT
2390440 ATATTTATTATATT
1 ATATTTATTATATT
*
2390454 AT-TTCATATATATT
1 ATATTTAT-TATATT
*
2390468 AAATTTA
1 ATATTTA
2390475 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 4 0.13
14 23 0.77
15 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTATTATATT
Found at i:2390455 original size:19 final size:19
Alignment explanation
Indices: 2390426--2390468 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2390416 TTATATTAAA
2390426 ATATT-TATTATATT-ATAT
1 ATATTATATTAT-TTCATAT
*
2390444 TTATTATATTATTTCATAT
1 ATATTATATTATTTCATAT
2390463 ATATTA
1 ATATTA
2390469 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTATATTATTTCATAT
Found at i:2391431 original size:21 final size:21
Alignment explanation
Indices: 2391406--2391450 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2391396 TTATTTCGTA
*
2391406 TTTGTATTTA-AATTAATTTAT
1 TTTGT-TTTATAATTAATATAT
*
2391427 TTTGTTTTATATTTAATATAT
1 TTTGTTTTATAATTAATATAT
2391448 TTT
1 TTT
2391451 TTAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTGTTTTATAATTAATATAT
Found at i:2391460 original size:18 final size:19
Alignment explanation
Indices: 2391439--2391474 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2391429 TGTTTTATAT
2391439 TTAATA-TATTTTTTAAAA
1 TTAATATTATTTTTTAAAA
2391457 TTAATATTATTTTTTAAA
1 TTAATATTATTTTTTAAA
2391475 TCATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATATTATTTTTTAAAA
Found at i:2391475 original size:18 final size:18
Alignment explanation
Indices: 2391412--2391475 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
2391402 CGTATTTGTA
2391412 TTTAAATTAAT-TTATTTTGT
1 TTTAAATTAATATTA--TT-T
*
2391432 TTTATATTTAATA-TATTT
1 TTTA-AATTAATATTATTT
2391450 TTTAAAATTAATATTATTT
1 TTT-AAATTAATATTATTT
2391469 TTTAAAT
1 TTTAAAT
2391476 CATAATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 15 0.39
19 11 0.29
20 4 0.11
21 8 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTAAATTAATATTATTT
Found at i:2396544 original size:13 final size:13
Alignment explanation
Indices: 2396526--2396568 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2396516 TTACTCAGGC
2396526 TCAAATGTGAATA
1 TCAAATGTGAATA
* *
2396539 TCAAATAT--AGA
1 TCAAATGTGAATA
2396550 TCAAATGTGAATA
1 TCAAATGTGAATA
2396563 TCAAAT
1 TCAAAT
2396569 ATAGATGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 9 0.38
13 15 0.62
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (13 bp):
TCAAATGTGAATA
Found at i:2396558 original size:24 final size:24
Alignment explanation
Indices: 2396526--2396574 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2396516 TTACTCAGGC
2396526 TCAAATGTGAATATCAAATATAGA
1 TCAAATGTGAATATCAAATATAGA
2396550 TCAAATGTGAATATCAAATATAGA
1 TCAAATGTGAATATCAAATATAGA
2396574 T
1 T
2396575 GTGCCTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (24 bp):
TCAAATGTGAATATCAAATATAGA
Found at i:2396815 original size:48 final size:48
Alignment explanation
Indices: 2396732--2396832 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
2396722 TCGGCTCTCA
* *
2396732 GGATGAAACTTCATAATAGAAAGTGCTGATTAGATTCATGCTTCATTT
1 GGATGAAACTTCATAATAGAAAGTGCAGATCAGATTCATGCTTCATTT
* *
2396780 GGATGAAACTTCATAATGGAACGTGCAGATCAGATTCATGCTTCATTT
1 GGATGAAACTTCATAATAGAAAGTGCAGATCAGATTCATGCTTCATTT
2396828 GGATG
1 GGATG
2396833 CATAATGGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (48 bp):
GGATGAAACTTCATAATAGAAAGTGCAGATCAGATTCATGCTTCATTT
Found at i:2403684 original size:143 final size:142
Alignment explanation
Indices: 2403417--2403685 Score: 357
Period size: 143 Copynumber: 1.9 Consensus size: 142
2403407 GCTGCTTTGC
* * * * *
2403417 TAAACCCTTTCCCATCTAATAAAACAGCAAACCCCAATATTTCAGAGACAATGAACATAAAAAAT
1 TAAACCCATTCCCATCTAAAAAAACAACAAAACCAAATATTTCAGAGACAATGAACATAAAAAAT
* * *
2403482 TTGAAGTAAAATACATTTTTTTTCTCAGCATCCAAACAGAACAGCATTAAGAGTGGCAACAGCAG
66 TTGAAGTAAAATACATTTCTTTTCTCAGCATCCAAACAGAACAACATTAAGAGTAGCAACAGCAG
2403547 CAGCAGATTTAT
131 CAGCAGATTTAT
* *
2403559 TAAACCCATTCCCATCTAAAAAAAACAACAAAAACCAAAGTATTTCAGAGGCAATGAACAT-CAA
1 TAAACCCATTCCCATCT-AAAAAAACAAC-AAAACCAAA-TATTTCAGAGACAATGAACATAAAA
* *
2403623 AATCTTGAAGTCATATAC-TTTCTTTTC-CAGCATCCAAACA-AAGCAACATTAAGAGTAGCAAC
63 AAT-TTGAAGTAAAATACATTTCTTTTCTCAGCATCCAAACAGAA-CAACATTAAGAGTAGCAAC
2403685 A
126 A
2403686 ACAATAGCAG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
142 18 0.16
143 40 0.36
144 20 0.18
145 32 0.29
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (142 bp):
TAAACCCATTCCCATCTAAAAAAACAACAAAACCAAATATTTCAGAGACAATGAACATAAAAAAT
TTGAAGTAAAATACATTTCTTTTCTCAGCATCCAAACAGAACAACATTAAGAGTAGCAACAGCAG
CAGCAGATTTAT
Found at i:2403759 original size:7 final size:7
Alignment explanation
Indices: 2403742--2403791 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
2403732 GTTGCCTGAA
2403742 AAAAAAG
1 AAAAAAG
*
2403749 -AAAAAC
1 AAAAAAG
2403755 AAAAAAG
1 AAAAAAG
2403762 AAAAAAG
1 AAAAAAG
2403769 -AAAAAG
1 AAAAAAG
2403775 -AAAAAG
1 AAAAAAG
*
2403781 AAAAAGG
1 AAAAAAG
2403788 AAAA
1 AAAA
2403792 GAAAATCCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 17 0.45
7 21 0.55
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2403760 original size:13 final size:12
Alignment explanation
Indices: 2403740--2403796 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 12
2403730 ACGTTGCCTG
2403740 AAAAAAAAGAAA
1 AAAAAAAAGAAA
2403752 AACAAAAAAGAAA
1 AA-AAAAAAGAAA
2403765 AAAGAAAAAGAAA
1 AAA-AAAAAGAAA
*
2403778 AAGAAAAAGGAAA
1 AA-AAAAAAGAAA
2403791 AGAAAA
1 A-AAAA
2403797 TCCCATCACC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 3 0.08
13 35 0.88
14 2 0.05
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:2403765 original size:6 final size:6
Alignment explanation
Indices: 2403743--2403796 Score: 72
Period size: 6 Copynumber: 8.7 Consensus size: 6
2403733 TTGCCTGAAA
* *
2403743 AAAAAG AAAAACA AAAAAG AAAAAAG AAAAAG AAAAAG AAAAAG GAAAAG
1 AAAAAG AAAAA-G AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
2403793 AAAA
1 AAAA
2403797 TCCCATCACC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 31 0.74
7 11 0.26
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2404702 original size:67 final size:67
Alignment explanation
Indices: 2404606--2404878 Score: 352
Period size: 68 Copynumber: 4.0 Consensus size: 67
2404596 TATCTTAAAC
* ** * * *
2404606 TATAATTTTTTTAAAATTTTAATTTAATTTATATAATTTATTTTTAAAAAATAAAAAAGTGTATT
1 TATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTA-TTTTAAAAAATAAAAAATTTTATT
2404671 CAG
65 CAG
*
2404674 TATAA-TTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTTAAAAAATAAAAAAATTTTGT
1 TATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTA-TTTTAAAAAAT-AAAAAATTTTAT
*
2404738 TCAA
64 TCAG
** * * *
2404742 TATAATTTTTTTAAAAATTTCAATTTAATTTATATAAATTATATTAAAAAATAAAAAGATTTTGT
1 TATAA-TTTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTAAAAAATAAAAA-ATTTTAT
2404807 TCAG
64 TCAG
* *
2404811 TATAATTTTTTAAAAAAATTAATTTAATTTATATAATTTATTTTAAAAAATAAAAAA-ATTATTC
1 TATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTAAAAAATAAAAAATTTTATTC
2404875 AG
66 AG
2404877 TA
1 TA
2404879 AGATTAAGAG
Statistics
Matches: 181, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
66 9 0.05
67 43 0.24
68 73 0.40
69 25 0.14
70 31 0.17
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (67 bp):
TATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTAAAAAATAAAAAATTTTATTC
AG
Found at i:2404767 original size:137 final size:136
Alignment explanation
Indices: 2404606--2404870 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 136
2404596 TATCTTAAAC
* * *
2404606 TATAATTTTTTTAAAATTTTAATTTAATTTATATAATTTATTTTTAAAAAATAAAAA-AGTGTAT
1 TATAATTTTTTTAAAATTTCAATTTAATTTATATAAATTA-TATTAAAAAATAAAAAGAGTGTAT
2404670 TCAGTATAA-TTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTTAAAAAATAAAAAAATT
65 TCAGTATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTA-TTTTAAAAAATAAAAAAATT
2404734 TTGTTCAA
129 TTGTTCAA
* * *
2404742 TATAATTTTTTTAAAAATTTCAATTTAATTTATATAAATTATATTAAAAAATAAAAAGATTTTGT
1 TATAATTTTTTT-AAAATTTCAATTTAATTTATATAAATTATATTAAAAAATAAAAAGAGTGTAT
*
2404807 TCAGTATAATTTTTTAAAAAAATTAATTTAATTTATATAATTTATTTTAAAAAATAAAAAAATT
65 TCAGTATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTAAAAAATAAAAAAATT
2404871 ATTCAGTAAG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
136 27 0.23
137 59 0.50
138 33 0.28
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (136 bp):
TATAATTTTTTTAAAATTTCAATTTAATTTATATAAATTATATTAAAAAATAAAAAGAGTGTATT
CAGTATAATTTTTTAAAAAAATCAATTTAATTTATATAATTTATTTTAAAAAATAAAAAAATTTT
GTTCAA
Found at i:2405188 original size:15 final size:15
Alignment explanation
Indices: 2405165--2405203 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2405155 TTAAAAATTT
*
2405165 ATTAGATTTTAATTAA
1 ATTA-ATTTGAATTAA
*
2405181 TTTAATTTGAATTAA
1 ATTAATTTGAATTAA
2405196 ATTAATTT
1 ATTAATTT
2405204 ATTATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
ATTAATTTGAATTAA
Found at i:2405774 original size:17 final size:17
Alignment explanation
Indices: 2405752--2405790 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2405742 CACCCAAGAA
* *
2405752 AAAAATAATAATTTTTT
1 AAAAATAATAAGTTTTG
*
2405769 AAAAATATTAAGTTTTG
1 AAAAATAATAAGTTTTG
2405786 AAAAA
1 AAAAA
2405791 AAAATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AAAAATAATAAGTTTTG
Found at i:2406276 original size:27 final size:27
Alignment explanation
Indices: 2406228--2406279 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2406218 AGTAGCTCAT
* ** *
2406228 TCGATTTGATTTATTTTTTTATTTAGC
1 TCGATTTAATTTAGATTATTATTTAGC
2406255 TCGATTTAATTTAGATTATTATTTA
1 TCGATTTAATTTAGATTATTATTTA
2406280 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.60
Consensus pattern (27 bp):
TCGATTTAATTTAGATTATTATTTAGC
Found at i:2406301 original size:23 final size:23
Alignment explanation
Indices: 2406273--2406346 Score: 69
Period size: 25 Copynumber: 3.1 Consensus size: 23
2406263 ATTTAGATTA
2406273 TTATTTATTAATTAAAATAAATT
1 TTATTTATTAATTAAAATAAATT
*
2406296 TTATTTGAATTAATTATAA-AAATAT
1 TTATTT--ATTAATTAAAATAAAT-T
* * *
2406321 ATAATTATTAATTAAAAATTAATT
1 TTATTTATTAATT-AAAATAAATT
2406345 TT
1 TT
2406347 TAATATTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
23 13 0.32
24 9 0.22
25 18 0.45
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
TTATTTATTAATTAAAATAAATT
Found at i:2406495 original size:3 final size:3
Alignment explanation
Indices: 2406487--2406528 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
2406477 ATCCATAATC
*
2406487 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2406529 TCAATAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2406765 original size:15 final size:16
Alignment explanation
Indices: 2406747--2406798 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
2406737 TATTTTATTT
2406747 TTATAG-ATTTAAATA
1 TTATAGAATTTAAATA
*
2406762 TTAT-GAATTTGAATA
1 TTATAGAATTTAAATA
* *
2406777 ATATTTGAATTTAAATA
1 TTA-TAGAATTTAAATA
2406794 TTATA
1 TTATA
2406799 ATTACTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.03
15 14 0.48
16 2 0.07
17 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (16 bp):
TTATAGAATTTAAATA
Found at i:2406787 original size:17 final size:18
Alignment explanation
Indices: 2406758--2406793 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2406748 TATAGATTTA
*
2406758 AATATTATGAATTTGAAT
1 AATATTATGAATTTAAAT
2406776 AATATT-TGAATTTAAAT
1 AATATTATGAATTTAAAT
2406793 A
1 A
2406794 TTATAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
AATATTATGAATTTAAAT
Found at i:2407192 original size:26 final size:25
Alignment explanation
Indices: 2407152--2407245 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 25
2407142 ATATTTGATA
2407152 AATAATATTT-AATTTAAATTCAAAT
1 AATAATATTTAAATTTAAATT-AAAT
*
2407177 AATAATATTTAGATTT-AATATAAAT
1 AATAATATTTAAATTTAAAT-TAAAT
**
2407202 AATAA-A--TAAATTTAAATTTTAT
1 AATAATATTTAAATTTAAATTAAAT
*
2407224 AATAATTAATTAAATTTAAATT
1 AATAA-TATTTAAATTTAAATT
2407246 CAGATATTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
22 14 0.24
23 3 0.05
24 2 0.03
25 22 0.38
26 17 0.29
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
AATAATATTTAAATTTAAATTAAAT
Found at i:2407858 original size:14 final size:14
Alignment explanation
Indices: 2407838--2407871 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2407828 TGATCCAAAT
2407838 ATAAAATAACCTAA
1 ATAAAATAACCTAA
* *
2407852 CTAAAATAATCTAA
1 ATAAAATAACCTAA
2407866 ATAAAA
1 ATAAAA
2407872 AAATAACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAATAACCTAA
Found at i:2407868 original size:30 final size:31
Alignment explanation
Indices: 2407820--2407890 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
2407810 CTTATCTCGA
* * *
2407820 AACTTAAATGATCCAAAT-ATAAAATAACCT
1 AACTAAAATAATCCAAATAAAAAAATAACCT
* *
2407850 AACTAAAATAATCTAAATAAAAAAATAACTT
1 AACTAAAATAATCCAAATAAAAAAATAACCT
2407881 AACTCAAAAT
1 AACT-AAAAT
2407891 TAACGAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 15 0.44
31 14 0.41
32 5 0.15
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.25
Consensus pattern (31 bp):
AACTAAAATAATCCAAATAAAAAAATAACCT
Found at i:2408201 original size:13 final size:13
Alignment explanation
Indices: 2408183--2408210 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2408173 GAGTTAATTT
2408183 AAAATAACTTTTA
1 AAAATAACTTTTA
2408196 AAAATAACTTTTA
1 AAAATAACTTTTA
2408209 AA
1 AA
2408211 TTATACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATAACTTTTA
Found at i:2409717 original size:16 final size:16
Alignment explanation
Indices: 2409698--2409753 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
2409688 GAAATTATCT
*
2409698 GAACCCGAGACAGCTC
1 GAACCCGAGAAAGCTC
2409714 GAACCCGAGAAAGCTC
1 GAACCCGAGAAAGCTC
* * *
2409730 AAACCCGAAAAAGTTC
1 GAACCCGAGAAAGCTC
2409746 GAACCCGA
1 GAACCCGA
2409754 AAGAACCTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.39, C:0.32, G:0.21, T:0.07
Consensus pattern (16 bp):
GAACCCGAGAAAGCTC
Found at i:2410252 original size:16 final size:15
Alignment explanation
Indices: 2410231--2410261 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2410221 ATGTTACAAT
2410231 TAGAATAGTAATATAA
1 TAGAATAG-AATATAA
2410247 TAGAATAGAATATAA
1 TAGAATAGAATATAA
2410262 AGTTAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (15 bp):
TAGAATAGAATATAA
Found at i:2411199 original size:16 final size:16
Alignment explanation
Indices: 2411180--2411221 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2411170 CGAATAAGCT
2411180 CGAACCCGAA-AGAGTC
1 CGAACCCGAACA-AGTC
*
2411196 CGAATCCGAACAAGTC
1 CGAACCCGAACAAGTC
*
2411212 CGAACTCGAA
1 CGAACCCGAA
2411222 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (16 bp):
CGAACCCGAACAAGTC
Found at i:2411853 original size:10 final size:11
Alignment explanation
Indices: 2411826--2411851 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2411816 AAATATAATA
2411826 TAAAATATTTT
1 TAAAATATTTT
2411837 TAAAATATTTT
1 TAAAATATTTT
2411848 TAAA
1 TAAA
2411852 TAATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:2417324 original size:22 final size:24
Alignment explanation
Indices: 2417296--2417344 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
2417286 CTTTAATCAC
2417296 AATTTATTT-AATAAAATA-AAAA
1 AATTTATTTAAATAAAATATAAAA
*
2417318 AATTTATTTAAATAAATTATAAAA
1 AATTTATTTAAATAAAATATAAAA
2417342 AAT
1 AAT
2417345 ATTAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
23 8 0.33
24 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTTATTTAAATAAAATATAAAA
Found at i:2417347 original size:22 final size:22
Alignment explanation
Indices: 2417299--2417356 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
2417289 TAATCACAAT
2417299 TTATTT-AATAAAATAAAAAAA
1 TTATTTAAATAAAATAAAAAAA
*
2417320 TTTATTTAAATAAATTATAAAAAA
1 -TTATTTAAATAAAATA-AAAAAA
2417344 -TA-TTAATATAAAA
1 TTATTTAA-ATAAAA
2417357 ATAATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 4 0.13
22 13 0.42
23 8 0.26
24 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTATTTAAATAAAATAAAAAAA
Found at i:2427174 original size:2 final size:2
Alignment explanation
Indices: 2427167--2427208 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2427157 AAATAGTAAA
2427167 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2427209 TTACCCGCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2427636 original size:2 final size:2
Alignment explanation
Indices: 2427625--2427665 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2427615 CAGTTCTTCA
2427625 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2427666 ATATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:2428879 original size:10 final size:10
Alignment explanation
Indices: 2428862--2428894 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2428852 TAATGCATTA
2428862 TTTATTTATT
1 TTTATTTATT
2428872 TATT-TTTATT
1 T-TTATTTATT
2428882 TTTATTTATT
1 TTTATTTATT
2428892 TTT
1 TTT
2428895 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTATT
Found at i:2428887 original size:16 final size:18
Alignment explanation
Indices: 2428866--2428905 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
2428856 GCATTATTTA
2428866 TTTATTTA-TTTTTAT-T
1 TTTATTTATTTTTTATAT
2428882 TTTATTTATTTTTTATAT
1 TTTATTTATTTTTTATAT
2428900 TTTATT
1 TTTATT
2428906 AATTGAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTATTTTTTATAT
Found at i:2428887 original size:20 final size:19
Alignment explanation
Indices: 2428862--2428902 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
2428852 TAATGCATTA
*
2428862 TTTATTTATTTATTTTTATT
1 TTTATTTATTT-TTTATATT
2428882 TTTATTTATTTTTTATATT
1 TTTATTTATTTTTTATATT
2428901 TT
1 TT
2428903 ATTAATTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTATTTTTTATATT
Found at i:2428891 original size:24 final size:24
Alignment explanation
Indices: 2428859--2428905 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2428849 TTATAATGCA
2428859 TTATTTATTTATTTAT-TTTTATTT
1 TTATTTATTT-TTTATATTTTATTT
2428883 TTATTTATTTTTTATATTTTATT
1 TTATTTATTTTTTATATTTTATT
2428906 AATTGAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (24 bp):
TTATTTATTTTTTATATTTTATTT
Done.