Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 25 of 47
Found at i:3877124 original size:24 final size:24
Alignment explanation
Indices: 3877091--3877137 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3877081 AAAGAGACAA
3877091 AAAAACAAAAAAAACGAA-AAAAAT
1 AAAAACAAAAAAAAC-AATAAAAAT
*
3877115 AAAAAGAAAAAAAACAATAAAAA
1 AAAAACAAAAAAAACAATAAAAA
3877138 GGGTCCAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAACAAAAAAAACAATAAAAAT
Found at i:3877128 original size:18 final size:18
Alignment explanation
Indices: 3877079--3877138 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
3877069 GCATCCTCCC
* * *
3877079 AAAAAGAGACAAAAAAAC
1 AAAAAGAAAAAAAAAAAT
*
3877097 AAAAA-AAACGAAAAAAAT
1 AAAAAGAAA-AAAAAAAAT
*
3877115 AAAAAGAAAAAAAACAAT
1 AAAAAGAAAAAAAAAAAT
3877133 AAAAAG
1 AAAAAG
3877139 GGTCCAGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.86
19 3 0.09
ACGTcount: A:0.82, C:0.07, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAAT
Found at i:3877136 original size:9 final size:8
Alignment explanation
Indices: 3877087--3877137 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
3877077 CCAAAAAGAG
3877087 ACAAAAAA
1 ACAAAAAA
3877095 ACAAAAAAA
1 AC-AAAAAA
3877104 ACGAAAAAA
1 AC-AAAAAA
* *
3877113 ATAAAAAG
1 ACAAAAAA
3877121 A-AAAAAA
1 ACAAAAAA
3877128 ACAATAAAA
1 ACAA-AAAA
3877137 A
1 A
3877138 GGGTCCAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.17
8 10 0.28
9 20 0.56
ACGTcount: A:0.84, C:0.08, G:0.04, T:0.04
Consensus pattern (8 bp):
ACAAAAAA
Found at i:3878661 original size:57 final size:55
Alignment explanation
Indices: 3878572--3878750 Score: 211
Period size: 57 Copynumber: 3.2 Consensus size: 55
3878562 CCTCACCTTC
*
3878572 AAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTC-AAAGCCCACAAGTCAGTGGCAAC-TTTCA
* * *
3878629 AAAGCCCACAGGTTAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCAACCTTT-A
1 AAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCAA-CTTTCA
* * *
3878685 GAAGCCCACAAGTCGGTGGCATCCCTTTCAAAGCCCACAAGT-AGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCA--CCTTTCAAAGCCCACAAGTCAGTGGCAACTTTCA
3878741 AAAGCCCACA
1 AAAGCCCACA
3878751 CAAGTTGGTG
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
55 3 0.03
56 39 0.37
57 57 0.54
58 6 0.06
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (55 bp):
AAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTCA
Found at i:3878673 original size:85 final size:85
Alignment explanation
Indices: 3878569--3878750 Score: 255
Period size: 85 Copynumber: 2.2 Consensus size: 85
3878559 ATTCCTCACC
*
3878569 TTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCCCTTTC-AAAG
*
3878633 CCCACAGGTTAGTGGC-ACCTT
65 CCCACAAG-TAGTGGCAACCTT
* * * *
3878654 TTCAAAGCCCATAAGTCAGTGGCAACCTTTAGAAGCCCACAAGTCGGTGGCATCCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCCCTTTCAAAGC
3878719 CCACAAGTAGTGGCAACC--
66 CCACAAGTAGTGGCAACCTT
3878737 TTCAAAAGCCCACA
1 TTC-AAAGCCCACA
3878751 CAAGTTGGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
83 3 0.03
84 16 0.18
85 63 0.72
86 5 0.06
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCCCTTTCAAAGC
CCACAAGTAGTGGCAACCTT
Found at i:3878754 original size:29 final size:28
Alignment explanation
Indices: 3878566--3878750 Score: 209
Period size: 28 Copynumber: 6.6 Consensus size: 28
3878556 GATATTCCTC
3878566 ACCTTC-AAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
3878593 ACCTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * * *
3878621 TCTTTTCAAAAGCCCACAGGTTAGTGGC-
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
*
3878649 ACCTTTTC-AAAGCCCATAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
* * *
3878678 ACCTTTAGAAGCCCACAAGTCGGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
3878706 TCCCTTTC-AAAGCCCACAAGT-AGTGGCA
1 -ACC-TTCAAAAGCCCACAAGTCAGTGGCA
3878734 ACCTTCAAAAGCCCACA
1 ACCTTCAAAAGCCCACA
3878751 CAAGTTGGTG
Statistics
Matches: 131, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.02
27 20 0.15
28 64 0.49
29 42 0.32
30 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (28 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:3878891 original size:49 final size:49
Alignment explanation
Indices: 3878767--3879100 Score: 340
Period size: 49 Copynumber: 6.8 Consensus size: 49
3878757 GGTGGCATAT
* * *
3878767 TCTTCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT-G-A-C-ACA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
3878813 --TTTAAGTCCAATGTTGCTGGCCTTAAATCAACAAATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * **
3878860 CCGTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCATTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-GCACCT-TCA
* * *
3878912 TCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
3878961 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* *
3879013 CCTTTAAGTCCAA-AGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATA-TCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
3879062 TCTTTAAGTCCAATGTCGCTGACCTTGAATCAACACATT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT
3879101 AGCATTTTTC
Statistics
Matches: 237, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
43 29 0.12
44 3 0.01
45 1 0.00
46 1 0.00
47 2 0.01
49 110 0.46
50 6 0.03
51 7 0.03
52 78 0.33
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:3878988 original size:101 final size:101
Alignment explanation
Indices: 3878813--3879153 Score: 463
Period size: 101 Copynumber: 3.4 Consensus size: 101
3878803 TATTGACACA
* * * * *
3878813 TTTAAGTCCAATGTTGCTGGCCTTAAATCAACAAATTGGCACCTTCACCGTTAAGTCCAATATCG
1 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
3878878 CTGGCCTTGAATCAGCATATTGGTGCATTTGTCATC
66 CTGGCCTTGAATCAGCATATTGGAGCATTTGTCATC
*
3878914 TTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * *
3878979 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCACC
66 CTGGCCTTGAATCAGCATATTGGAGCATTTGTCATC
* *
3879015 TTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * * *
3879080 CTGACCTTGAATCAACACATT--AGCATTTTTCTCATC
66 CTGGCCTTGAATCAGCATATTGGAGCA--TTTGTCATC
* * *
3879116 TTCAAGTCTAATGTTGCT-GACTGTGAATCAGCACATTG
1 TTTAAGTCCAATGTTGCTGGCCT-TGAATCAGCACATTG
3879154 ACATTCTTTA
Statistics
Matches: 214, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
99 2 0.01
100 3 0.01
101 209 0.98
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTGGAGCATTTGTCATC
Found at i:3879168 original size:52 final size:51
Alignment explanation
Indices: 3878865--3879179 Score: 216
Period size: 52 Copynumber: 6.2 Consensus size: 51
3878855 CTTCACCGTT
* * * * * *
3878865 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCATT-TGTCATCTTT
1 AAGTCCAATGTCGCTGACCTTGAATCAGCACATT-G-ACATTCTTTCATCTTC
* * * *
3878917 AAGTCCAATGTTGCT-AGCCTTGAATCAGCACATTGGCA--CCTTCATCTTT
1 AAGTCCAATGTCGCTGA-CCTTGAATCAGCACATTGACATTCTTTCATCTTC
* * * * * * * *
3878966 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT-TGTCACCTTT
1 AAGTCCAATGTCGCTGACCTTGAATCAGCACATT-G-ACATTCTTTCATCTTC
* * * * * *
3879018 AAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCA--CCTTCATCTTT
1 AAGTCCAATGTCGCTGACCTTGAATCAGCACATTGACATTCTTTCATCTTC
* *
3879067 AAGTCCAATGTCGCTGACCTTGAATCAACACATT-AGCATTTTTCTCATCTTC
1 AAGTCCAATGTCGCTGACCTTGAATCAGCACATTGA-CATTCTT-TCATCTTC
* * *
3879119 AAGTCTAATGTTGCTGA-CTGTGAATCAGCACATTGACATTCTTTACATCTTG
1 AAGTCCAATGTCGCTGACCT-TGAATCAGCACATTGACATTCTTT-CATCTTC
*
3879171 AAGCCCAAT
1 AAGTCCAAT
3879180 ATCACTAGTC
Statistics
Matches: 211, Mismatches: 37, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
49 76 0.36
50 6 0.03
51 8 0.04
52 120 0.57
53 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
AAGTCCAATGTCGCTGACCTTGAATCAGCACATTGACATTCTTTCATCTTC
Found at i:3879885 original size:13 final size:13
Alignment explanation
Indices: 3879867--3879891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3879857 CATTATTCAA
3879867 TGTATCGATACAT
1 TGTATCGATACAT
3879880 TGTATCGATACA
1 TGTATCGATACA
3879892 AAGCTACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3879889 original size:33 final size:33
Alignment explanation
Indices: 3879847--3879984 Score: 93
Period size: 33 Copynumber: 4.0 Consensus size: 33
3879837 GCTAAGGAAA
3879847 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
* * * * * *
3879880 TGTATCGATACA-AAGCTACCATGCATACTGCCA-AGGAAA
1 TGTATCGATACATTA--TTCAATG--TA-T-CGATA--CAT
*
3879919 TGTATCGATACATTATTCAATGTATCAATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
3879952 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
3879985 CTAGGAATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
32 1 0.01
33 41 0.52
34 8 0.10
35 2 0.03
36 4 0.05
37 2 0.03
38 7 0.09
39 13 0.16
40 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:3879925 original size:72 final size:72
Alignment explanation
Indices: 3879808--3879963 Score: 285
Period size: 72 Copynumber: 2.2 Consensus size: 72
3879798 AAACAGTAAA
* *
3879808 TGTATCGATACAAAGCTACCCTGCATACTGCTAAGGAAATGTATCGATACATTATTCAATGTATC
1 TGTATCGATACAAAGCTACCATGCATACTGCCAAGGAAATGTATCGATACATTATTCAATGTATC
*
3879873 GATACAT
66 AATACAT
3879880 TGTATCGATACAAAGCTACCATGCATACTGCCAAGGAAATGTATCGATACATTATTCAATGTATC
1 TGTATCGATACAAAGCTACCATGCATACTGCCAAGGAAATGTATCGATACATTATTCAATGTATC
3879945 AATACAT
66 AATACAT
3879952 TGTATCGATACA
1 TGTATCGATACA
3879964 TTGATCTTTG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (72 bp):
TGTATCGATACAAAGCTACCATGCATACTGCCAAGGAAATGTATCGATACATTATTCAATGTATC
AATACAT
Found at i:3880926 original size:20 final size:19
Alignment explanation
Indices: 3880897--3880971 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3880887 AAAAAGACAT
3880897 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
3880916 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
3880937 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
3880957 AATGTATCGATACAT
1 AATGTATCGATACAT
3880972 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:3880954 original size:40 final size:39
Alignment explanation
Indices: 3880894--3880971 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
3880884 GGTAAAAAGA
*
3880894 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
3880933 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
3880972 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:3881656 original size:28 final size:28
Alignment explanation
Indices: 3881583--3881849 Score: 300
Period size: 28 Copynumber: 9.3 Consensus size: 28
3881573 CACTGACACG
* **
3881583 TGTGGGCTTTGAAAAGAGTGTTACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTAACT
* *
3881612 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTAACT
*
3881642 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
3881670 TGTGGGCTTTAAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
3881698 TGTGGGCTTCGCAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
3881726 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
3881754 TGTGGGCTGTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTAAC-T
3881784 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* ** *
3881813 TGTGGGCTTCGAAATAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
3881841 TGTGGGCTT
1 TGTGGGCTT
3881850 CACAAGGGTT
Statistics
Matches: 206, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
28 145 0.70
29 13 0.06
30 25 0.12
31 23 0.11
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:3881850 original size:28 final size:28
Alignment explanation
Indices: 3881542--3881858 Score: 278
Period size: 28 Copynumber: 10.9 Consensus size: 28
3881532 AAAATTTGCT
* *
3881542 ACTAACTTGTGTAGGCTTCGAAAAAAGTTGCC
1 ACTAACTTGTG--GGCTTCG--AAAGGGTGCC
* * * **
3881574 ACTGACACGTGTGGGCTTTGAAAAGAGTGTT
1 ACT-A-ACTTGTGGGCTTCG-AAAGGGTGCC
**
3881605 ACTAACTTGCGTGGGCTTTAAAAGGGTGCC
1 ACTAACTT--GTGGGCTTCGAAAGGGTGCC
* *
3881635 ACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTAACTTGTGGGCTTCGAAAGGGTGCC
* ** *
3881663 ACTGACTTGTGGGCTTTAAAAGAGTGCC
1 ACTAACTTGTGGGCTTCGAAAGGGTGCC
* *
3881691 ACTAAATTGTGGGCTTCGCAAGGGTGCC
1 ACTAACTTGTGGGCTTCGAAAGGGTGCC
3881719 ACTAACTTGTGGGCTTCGAAAGGGTGCC
1 ACTAACTTGTGGGCTTCGAAAGGGTGCC
* *
3881747 ACTGACTTGTGGGCTGT-AAAAGGAGTGCC
1 ACTAACTTGTGGGCT-TCGAAAGG-GTGCC
* *
3881776 ACTGACTTGTGTGGGCTTTGAAAGGGTGCC
1 ACTAAC-T-TGTGGGCTTCGAAAGGGTGCC
**
3881806 ACTAACTTGTGGGCTTCGAAATAGTGCC
1 ACTAACTTGTGGGCTTCGAAAGGGTGCC
*
3881834 ACTAAATTGTGGGCTTC-ACAAGGGT
1 ACTAACTTGTGGGCTTCGA-AAGGGT
3881859 TGGGCTTTGA
Statistics
Matches: 241, Mismatches: 34, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.00
28 150 0.62
29 16 0.07
30 27 0.11
31 31 0.13
32 9 0.04
33 1 0.00
34 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (28 bp):
ACTAACTTGTGGGCTTCGAAAGGGTGCC
Found at i:3881899 original size:28 final size:28
Alignment explanation
Indices: 3881859--3885448 Score: 2652
Period size: 28 Copynumber: 128.5 Consensus size: 28
3881849 TCACAAGGGT
3881859 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * *
3881887 TGGGCTTTAAAAGAGTGCCACTAAATTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * *
3881915 TAGGCTTCGCAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3881943 TGGGCTTCGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3881971 TGGGCTCTAAAAGGAGTGCCACTGACTTGTG
1 TGGGCTTTGAAAGG-GTGCCACTGAC-T-TG
3882002 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* ** * *
3882030 TGGGCTTCGAAATAGTGCCACTAAATTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882058 TGGGC-TTCACAAGGGTGCCACTGACTTG
1 TGGGCTTTGA-AAGGGTGCCACTGACTTG
** *
3882086 TGGGCTTCAAAAGGGTGCCACTGACTCG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
**
3882114 TGGGCTTTGAAAATGTGCCACTGACTTGCG
1 TGGGCTTTGAAAGGGTGCCACTGACTT--G
* *
3882144 TGAGCTTTAAAAGGAGTGCCACTGACTTGTG
1 TGGGCTTTGAAAGG-GTGCCACTGAC-T-TG
* *
3882175 TGGGCTTTGAAAGGGTCCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3882203 TGGGCTTTGAAAGAGTGCCACTAAATTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * *
3882231 TGGGCTTCGTATGGGTGCCACCGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
3882259 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3882287 TGGGCTCTAAAAGGAGTGCCATTGACTTG
1 TGGGCTTTGAAAGG-GTGCCACTGACTTG
*
3882316 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882344 TGGGC-TTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* *
3882372 TGGGC-TTGAAAAGGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882399 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882427 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882455 TGGGCTTTGAAAGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882483 TGGGC-TTGAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882510 TGGGC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
**
3882537 TGGGCTTTGAAATAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882565 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882593 TGGGCTTTGAAAGAGTGCCACTGACTTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882621 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882649 TGGGCTTTGAAAGAGTGCCACTGACTAG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882677 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882705 TGGGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* ** *
3882734 TGGGC-TTAAAAACGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3882761 TGGAC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882788 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882816 TGGGCTTTGAAAGGATGCCACTGTCTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3882844 TGGGCTTGGAAAGAGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3882872 TGGGC-TTGAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3882899 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* **
3882927 TGGGCTTTGAAAATGGTGCCACTGACTCA
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* * *
3882956 TGGGCTTTGAAAGGGATGAACATTCTAAAC-AG
1 TGGGCTTTGAAAGGG-TG-CCA--CT-GACTTG
** * * *** ** * ***
3882988 -AAGTTCTTGACGATAATTTC-TTGACAAA
1 TGGGCT-TTGA-AAGGGTGCCACTGACTTG
* * * * *
3883016 T-GGC---AAAAGGGT--C-TTGGCCTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * ** *** *** * **
3883037 AGATG-ATAAAAAGAAAAGAGTCTTACCCG
1 TG-GGCTTTGAAAG-GGTGCCACTGACTTG
*** * * **
3883066 AATG--ATG-TAGGGT--TTCTAGAGCTTG
1 TGGGCTTTGAAAGGGTGCCACT-GA-CTTG
** ** * * * * **
3883091 AAGTTTTTGCCAAGGCTTCCGCAGTGGTTTAG
1 TGGGCTTTG-AAAGG-GTGC-CACTGACTT-G
* * *
3883123 CAGGCCTGGTCTG-AA--GTG--A-T-A-TTA
1 -TGGGCT--T-TGAAAGGGTGCCACTGACTTG
****** * ** *
3883147 TAAAAAATG-ATGTATG--A-TGGTA-TTA
1 TGGGCTTTGAAAGGGTGCCACT-G-ACTTG
* * * *
3883172 TGAATG-TATG-ATGGTTTAG-CACTGACTTG
1 TG--GGCTTTGAAAGG-GT-GCCACTGACTTG
* *
3883201 TGGGCTTTGAAAGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883229 TGGGCTTTAAAAGGAGTGCCACTGACTTGTG
1 TGGGCTTTGAAAGG-GTGCCACTGAC-T-TG
* *
3883260 TGGGCTTTGAAAGGGTCCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3883288 TGGGCTTTGAAAGTGTGCCACTAAATTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883316 TGGGCTTCGCAAA-GGTGCCACCGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
3883344 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3883372 TGGGCTCTAAAAGGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGG-GTGCCACTGACTTG
* *
3883401 TGGGCTTTGAAAGAGTGCCACTGACTTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883429 TGGGC-TTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* *
3883457 TGGGC-TTGAAAAGGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883484 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883512 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883540 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883568 TGTAGGC-TTGAAAAGGTACCACTGACTTG
1 TG--GGCTTTGAAAGGGTGCCACTGACTTG
* * *
3883597 TGGAC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883624 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883652 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883680 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883708 TGGGC-TTGAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883735 TGGGC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883762 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883790 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883818 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883846 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3883874 TAGGCTTTGAAAGAGTGCCACTGACTAG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3883902 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3883930 TGGGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
** *
3883959 TGGGC-TTGAAAACGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3883986 TGGAC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884013 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884041 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3884069 TGGGCTTGGAAAGAGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884097 TGGGC-TTGAGAA-GGTACCACTGACTTG
1 TGGGCTTTGA-AAGGGTGCCACTGACTTG
*
3884124 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* **
3884152 TGGGCTTTGAAAATGGTGCCACTGACTCA
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* * *
3884181 TGGGCTTTGAAAGGGATGAACATTCTAAAC-AG
1 TGGGCTTTGAAAGGG-TG-CCA--CT-GACTTG
** * * *** ** * * ***
3884213 -AAGTTCTTGACGATAATTTC-TTCACAAA
1 TGGGCT-TTGA-AAGGGTGCCACTGACTTG
* * * * *
3884241 T-GGC---AAAAGGGT--C-TTGGCCTA
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * ** *** *** * **
3884262 AGATG-ATAAAAAGAAAAGAGTCTTACCCG
1 TG-GGCTTTGAAAG-GGTGCCACTGACTTG
*** * * **
3884291 AATG--ATG-TAGGGT--TTCTAGAGCTTG
1 TGGGCTTTGAAAGGGTGCCACT-GA-CTTG
** ** * * * * **
3884316 AAGTTTTTGCCAAGGCTTCCGCAGTGGTTTAG
1 TGGGCTTTG-AAAGG-GTGC-CACTGACTT-G
* * *
3884348 CCGGCCTGGTCTG-AA--GTG--A-T-A-TTA
1 -TGGGCT--T-TGAAAGGGTGCCACTGACTTG
****** * ** *
3884372 TAAAAAATG-ATGTATG--A-TGGTA-TTA
1 TGGGCTTTGAAAGGGTGCCACT-G-ACTTG
* * * *
3884397 TGAATG-TATG-ATGGTTTAG-CACTGACTTG
1 TG--GGCTTTGAAAGG-GT-GCCACTGACTTG
* *
3884426 TGTGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884454 TGGG-TTTAAAAGGAGTGCCACTGACTTGTG
1 TGGGCTTTGAAAGG-GTGCCACTGAC-T-TG
* *
3884484 TGGGCTTTGAAAGGGTCCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3884512 TGGGCTTTGAAAGTGTGCCACTAAATTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3884540 TGGGCTTCGCAAA-GGTGCCACCGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
3884568 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3884596 TGGGCTCTAAAAGGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGG-GTGCCACTGACTTG
*
3884625 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884653 TGGGC-TTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* *
3884681 TGGGC-TTGAAAAGGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884708 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3884736 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884764 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3884792 TGGGC-TTGAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3884819 TGGAC-TTAAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
**
3884846 TGGGCTTTGAAAGAATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3884874 TGGGCTTTAAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3884902 TGGGCTTGGAAAGAGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3884930 TGGGC-TTGAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884957 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3884985 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3885013 TGAGCTTTGAAAGAGTGCCACTGACTAG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3885041 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3885069 T-GGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
*
3885097 TGGGC-TTGAAAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3885124 TGGGCTTTGAAAGAGTGCCATTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3885152 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3885180 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * * *
3885208 TGAGC-TTAAAAAGGTACCACTGACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* *
3885235 TGGGCTTTGAAAGAGTGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
* * *
3885263 TGGGCTTTGAAAGGATGCCTCTGACTTT
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
3885291 TGGGCTTTG-AAGGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGG-GTGCCACTGACTTG
* *
3885319 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTG
*
3885347 TGGGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
* *
3885376 TGGGTTTTGAAATGGGTGCCACTGACATG
1 TGGGCTTTGAAA-GGGTGCCACTGACTTG
* * **
3885405 TGGGCTTTGAAAATGGTACCACTGACTCA
1 TGGGCTTTG-AAAGGGTGCCACTGACTTG
3885434 TGGGCTTTGAAAGGG
1 TGGGCTTTGAAAGGG
3885449 ATGAACATTC
Statistics
Matches: 2865, Mismatches: 545, Indels: 304
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.00
21 11 0.00
22 8 0.00
23 12 0.00
24 4 0.00
25 32 0.01
26 16 0.01
27 482 0.17
28 1783 0.62
29 324 0.11
30 71 0.02
31 73 0.03
32 19 0.01
33 14 0.00
34 4 0.00
35 2 0.00
36 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAGGGTGCCACTGACTTG
Found at i:3881904 original size:72 final size:72
Alignment explanation
Indices: 3881787--3881930 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
3881777 CTGACTTGTG
* * *
3881787 TGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTCGAAATAGTGCCACTAAATTGTGGGCTTCA
1 TGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTCAAAAGAGTGCCACTAAATTGTAGGCTTCA
3881852 CAAGGGT
66 CAAGGGT
* * *
3881859 TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTAAATTGTAGGCTTCG
1 TGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTCAAAAGAGTGCCACTAAATTGTAGGCTTCA
3881924 CAAGGGT
66 CAAGGGT
3881931 GCCACTAACT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (72 bp):
TGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTCAAAAGAGTGCCACTAAATTGTAGGCTTCA
CAAGGGT
Found at i:3882454 original size:111 final size:114
Alignment explanation
Indices: 3881859--3885445 Score: 2776
Period size: 111 Copynumber: 31.6 Consensus size: 114
3881849 TCACAAGGGT
* * *
3881859 TGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTAAATTGTAGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * * * * *
3881922 CGCAAGGGTGCCACTAACTTGTGGGCTTCGAAAGGGTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
3881971 TGGGCTCTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * *
3882035 TTCGAAATA-GTGCCACTAAATTGTGGGC-TTCACAAGGGTGCCACTGACTTG
64 TTTGAAA-AGGTGCCACTGACTTGTGGGCTTTGA-AAGAGTGCCACTGACTTG
** * * *
3882086 TGGGCTTCAAAAGG-GTGCCACTGACTCGTGGGCTTTGAAAA-TGTGCCACTGACTTGCGTGAGC
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGC
* * *
3882149 TTT-AAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTCCCATTGACTTG
64 TTTGAAAA-G-GTGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * * * * *
3882203 TGGGCTTTGAAA-GAGTGCCACTAAATTGTGGGCTTCG-TATGGGTGCCACCGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * * *
3882266 TGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCATTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTG
3882316 TGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC-TTGAAAAGAGTGCCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3882378 TGAAAAGGTGCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* *
3882427 TGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTAACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* **
3882489 TGAAAAGGTACCACTGACTTGTGGGCTTAAAAAG-GTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* *
3882537 TGGGCTTTGAAA-TAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3882600 TG-AAAGAGTGCCACTGACTTATGGGCTTTGAAAG-GATGCCACTGACTTG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTTG
* * *
3882649 TGGGCTTTGAAA-GAGTGCCACTGACTAGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* *
3882712 TGAAAAGAGTGCCACTGACTTGTGGGC-TT-AAAAACGTACCACTGACTTG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTG
* * *
3882761 TGGAC-TTAAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * *
3882823 TG-AAAGGATGCCACTGTCTTGTGGGCTTGGAAAGAGTGCCATTGACTTG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* *
3882872 TGGGC-TTGAAAAG-GTACCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
** *
3882934 TGAAAATGGTGCCACTGACTCATGGGCTTTGAAAG-G-G--A-TGAACAT-
66 TGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG-ACTTG
* * * * * * * * * * * * * *
3882979 T---C--TAAACAGAAGTTCTTGACGATAATTTCTTGACAAATGGCAAAAG-G-GTC-TTGGCCT
1 TGGGCTTTGAA-AGGAGTGC--CAC--TGACTTGTGGGC--TTTG-AAAAGAGTGCCACT-GACT
* ****** * * * ** * * *
3883036 AAGATGATAAAAAGAAAAGAGT-CTTACCCGAATGATGTAGGG-TTT-CTAGAGCTTG-AAGT-T
57 -TG-TG-GGCTTTGAAAAG-GTGC-CA-CTGACT--TGT-GGGCTTTGAAAGAG--TGCCACTGA
*
3883096 TTTG
111 CTTG
** * ** ** * * * * * *
3883100 CCAAGGCTTCCGCAGTGGTTTAG-CAGGCCTG-GTCTGAAGTGATATT-ATAAAAAATG--A-TG
1 --TGGGCTT-TG-AAAGGAGT-GCCA---CTGACT-TG-TGGGCT-TTGA-AAAGAGTGCCACTG
**
3883159 --TATGATGGTATTATGAATGTATGATGGTTTAG-CACTGACTTGTGGGCTTTGAAAGAGTGCCA
54 ACT-TG-TGGGCTT-TGAA---A--A-GG--T-GCCACTGACTTGTGGGCTTTGAAAGAGTGCCA
*
3883221 CTAACTTG
107 CTGACTTG
* * * *
3883229 TGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTG-AAAGGGTCCCATTGACTTGTGGGC
1 TGGGCTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
3883293 TTTG-AAAGTGTGCCACTAAATTGTGGGCTTCGCAAAG-GTGCCACCGACTTG
64 TTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTG
* *
3883344 TGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTCT-AAAAGGAGTGCCACTAACTTGTGGGCT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCT
*
3883407 TTG-AAAGAGTGCCACTGACTTATGGGC-TTGAAAAGAGTGCCACTGACTTG
65 TTGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTG
* *
3883457 TGGGC-TTGAAAAG-GTGCCATTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3883519 TG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * * *
3883568 TGTAGGC-TTGAAAAG-GTACCACTGACTTGTGGAC-TTAAAAAG-GTGCCACTGACTTGTGGGC
1 TG--GGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
3883629 TTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-GATGCCACTAACTTG
64 TTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTTG
*
3883680 TGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC-TTGAAAAG-GTACCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3883741 TAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
3883790 TGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* *
3883853 TG-AAAGGATGCCACTGACTTGTAGGCTTTGAAAGAGTGCCACTGACTAG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
*
3883902 TGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * * **
3883965 TGAAAACGTACCACTGACTTGTGGACTTAAAAAG-GTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
*
3884013 TGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * *
3884075 TGGAAAGAGTGCCATTGACTTGTGGGC-TTGAGAAG-GTACCACTGACTTG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTGA-AAGAGTGCCACTGACTTG
**
3884124 TGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAATG-GTGCCACTGACTCATGGGCT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCT
* * * * ** * * * * ** * * ***
3884187 TTGAAAGGGATGAACATTCTAAAC-AG-AAGTTCTTGACGATAATTTC-TTCACAAA
65 TTGAAAAGG-TG-CCA--CT-GACTTGTGGGCT-TTGA-AAGAGTGCCACTGACTTG
* * * * ****** * * *
3884241 T-GGC---AAAAGG-GT--C-TTGGCCTAAGATGATAAAAAGAAAAGAGT-CTTACCCGAATGAT
1 TGGGCTTTGAAAGGAGTGCCACT-GACT-TG-TG-GGCTTTGAAAAGAGTGC-CA-CTGACT--T
** * * * * ** ** * * * * *
3884297 GTAGGG-TTTCTAGAGCTTG-AAGT-TTTTGCCAAGGCTTCCG-CAGTGGTTTAGCCGGCCTG-G
58 GT-GGGCTTTGAAAAG-GTGCCACTGACTTG--TGGGCTT-TGAAAG-AG--T-GCC--ACTGAC
3884357 TCTG
112 T-TG
* * * ** * ** *
3884361 AAGTGATATT-ATAAAAAATG--A-TG--TATGATGGTATTATGAATGTATGATGGTTTAG-CAC
1 -TGGGCT-TTGA-AAGGAGTGCCACTGACT-TG-TGGGCTT-TGAA---AAGA--G--T-GCCAC
* *
3884419 TGACTTGTGTGCTTTG-AAAGAGTGCCACTGACTTGTGGG-TTTAAAAGGAGTGCCACTGACTTG
52 TGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGAC-T-
3884482 TG
113 TG
* * * * *
3884484 TGGGCTTTGAAAGG-GTCCCATTGACTTGTGGGCTTTG-AAAGTGTGCCACTAAATTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * * *
3884547 CGCAAAGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
3884596 TGGGCTCTAAAAGGAGTGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3884659 TGAAAAGAGTGCCACTGACTTGTGGGC-TTGAAA-AGGTGCCATTGACTTG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTG
* *
3884708 TGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3884771 TG-AAAGAGTGCCACTGACTTGTGGGC-TTGAAA-AGGTACCACTGACTTG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTG
* * * *
3884819 TGGAC-TTAAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAATGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* *
3884881 T-AAAAGGATGCCACTGACTTGTGGGCTTGGAAAGAGTGCCATTGACTTG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* *
3884930 TGGGC-TTGAAAAG-GTACCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* *
3884992 TG-AAAGGATGCCACTGACTTGTGAGCTTTGAAAGAGTGCCACTGACTAG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
*
3885041 TGGGCTTTGAAAGGA-TGCCACTAACTTGT-GGCTTTGAAAAGAGTGCCACTGACTTGTGGGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3885103 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCATTGACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
*
3885152 TGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGAGC-T
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
* * *
3885214 TAAAAAGGTACCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTG
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
* * *
3885263 TGGGCTTTGAAAGGA-TGCCTCTGACTTTTGGGCTTTG-AAGGAGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
*
3885326 TG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
66 TGAAAAGG-TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTG
* * * **
3885376 TGGGTTTTGAAATGG-GTGCCACTGACATGTGGGCTTTGAAAATG-GTACCACTGACTCATGGGC
1 TGGGCTTTGAAA-GGAGTGCCACTGACTTGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGC
3885439 TTTGAAA
64 TTTGAAA
3885446 GGGATGAACA
Statistics
Matches: 2829, Mismatches: 412, Indels: 464
0.76 0.11 0.13
Matches are distributed among these distances:
103 3 0.00
104 2 0.00
105 3 0.00
107 5 0.00
108 4 0.00
109 14 0.00
110 274 0.10
111 957 0.34
112 584 0.21
113 347 0.12
114 130 0.05
115 190 0.07
116 23 0.01
117 91 0.03
118 13 0.00
119 1 0.00
120 4 0.00
121 13 0.00
122 15 0.01
123 21 0.01
124 32 0.01
125 10 0.00
126 11 0.00
127 32 0.01
128 19 0.01
129 16 0.01
130 11 0.00
131 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (114 bp):
TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
Found at i:3886701 original size:21 final size:22
Alignment explanation
Indices: 3886677--3886719 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3886667 TTTTTGCTAG
3886677 TTTTTCTTT-TTTTTGTTTTGT
1 TTTTTCTTTGTTTTTGTTTTGT
*
3886698 TTTTTCTTTGTTTTTTTTTTGT
1 TTTTTCTTTGTTTTTGTTTTGT
3886720 GGGTGTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (22 bp):
TTTTTCTTTGTTTTTGTTTTGT
Found at i:3886702 original size:16 final size:15
Alignment explanation
Indices: 3886676--3886717 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
3886666 TTTTTTGCTA
3886676 GTTTTTCTTTTT-TTT
1 GTTTTT-TTTTTCTTT
3886691 GTTTTGTTTTTTCTTT
1 GTTTT-TTTTTTCTTT
3886707 GTTTTTTTTTT
1 GTTTTTTTTTT
3886718 GTGGGTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (15 bp):
GTTTTTTTTTTCTTT
Found at i:3886718 original size:11 final size:11
Alignment explanation
Indices: 3886677--3886719 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
3886667 TTTTTGCTAG
3886677 TTTTTCTTT-T
1 TTTTTCTTTGT
3886687 TTTTGT-TTTGT
1 TTTT-TCTTTGT
3886698 TTTTTCTTTGT
1 TTTTTCTTTGT
*
3886709 TTTTTTTTTGT
1 TTTTTCTTTGT
3886720 GGGTGTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTGT
Found at i:3888979 original size:15 final size:16
Alignment explanation
Indices: 3888953--3888982 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3888943 TTAAAGGACG
3888953 ACCAAGCACTGGCGGT
1 ACCAAGCACTGGCGGT
3888969 ACCAA-CACTGGCGG
1 ACCAAGCACTGGCGG
3888983 GTTTGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.10
Consensus pattern (16 bp):
ACCAAGCACTGGCGGT
Found at i:3899815 original size:22 final size:22
Alignment explanation
Indices: 3899787--3899837 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
3899777 CATGTTAAAG
3899787 ATGCATGAAACATAATAAAAAA
1 ATGCATGAAACATAATAAAAAA
3899809 ATGCATGAAACATAATAAAAAA
1 ATGCATGAAACATAATAAAAAA
3899831 ATGCATG
1 ATGCATG
3899838 GTCAAAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (22 bp):
ATGCATGAAACATAATAAAAAA
Found at i:3900776 original size:20 final size:19
Alignment explanation
Indices: 3900747--3900821 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3900737 AAAAAGACAT
3900747 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
3900766 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
3900787 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
3900807 AATGTATCGATACAT
1 AATGTATCGATACAT
3900822 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:3900804 original size:40 final size:39
Alignment explanation
Indices: 3900744--3900821 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
3900734 GGTAAAAAGA
*
3900744 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
3900783 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
3900822 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:3901505 original size:28 final size:28
Alignment explanation
Indices: 3901432--3902578 Score: 1347
Period size: 28 Copynumber: 40.6 Consensus size: 28
3901422 CACTGACACG
* ** *
3901432 TGTGGGCTTTGAAAAGAGTGTTACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3901461 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
3901491 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3901519 TGTGGGCTTTAAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3901547 TGTGGGCTTCGCAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3901575 TGTGGGCTTCGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3901603 TGTGGGCTCTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
3901633 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
3901662 TGTGGGCTTCGAAATAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3901690 TGTGGGC-TTCACAAGGGTGCCACTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
**
3901718 TGTGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
3901746 CGTGGGCTTTGAAAATGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3901774 TGCGTGAGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
* *
3901806 GTGTGGGCTTTGAAAGGGTCCCATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3901835 TGTGGGCTTTGAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3901863 TGTGGGCTTCGTAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
3901891 TGT-GGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3901918 TGTGGGCTCTAAAAGGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
3901947 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
3901975 TGTGGGC-TTGAAAACAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
3902003 TGTGGGC-TTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902030 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902058 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902086 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902114 TGTGGGC-TTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3902141 GGTGGGC-TTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902168 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902196 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902224 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902252 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902280 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3902308 AGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902336 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
** *
3902365 TGTGGGC-TTGAAAACGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902392 TGTGGGC-TTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902419 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3902447 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3902475 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
3902504 TGTGGGTTTTAAAATGGGTGCCACTGACA
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
*
3902533 TGTGGGCTTTGAAAATGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
**
3902562 CATGGGCTTTGAAAGGG
1 TGTGGGCTTTGAAAGGG
3902579 ATGAACATTC
Statistics
Matches: 955, Mismatches: 141, Indels: 45
0.84 0.12 0.04
Matches are distributed among these distances:
27 141 0.15
28 592 0.62
29 125 0.13
30 49 0.05
31 46 0.05
32 1 0.00
33 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3908441 original size:28 final size:28
Alignment explanation
Indices: 3908368--3910159 Score: 2216
Period size: 28 Copynumber: 63.5 Consensus size: 28
3908358 CACTGACACG
* **
3908368 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3908397 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
3908427 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3908455 TGTGGGCTTTAAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3908483 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3908511 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3908539 TGTGGGCTCTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
3908569 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
3908598 TGTGGGCTTTGAAATAGTGCCACTCAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3908626 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
3908654 TGTGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908682 CGTGGGCTTTGAAAAGGAGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3908710 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
* * *
3908742 GTGTGGGCTTTGGAAGGGTCCCATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908771 TGTGGGCTTTGAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908799 TGTGGGCTTCGCAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3908827 TGTGGGCTTTGAAAGGGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908855 TGTGGGCTCTAAAAGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
3908884 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908912 TGTAGGC-TTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3908939 TGTGAGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3908967 TGTGGGCTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3908995 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909023 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909051 TGTGGGCTCTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T
3909081 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
3909110 TGTGGGCTTTGAAATAGTGCCACTCAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909138 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
**
3909166 TGTGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909194 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909222 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
* *
3909254 ATGTGGGCTTTGAAAGGGTCCCATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909283 TGTGGGCTTTGAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909311 TGTGGGCTTCGCAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909339 TGTGGGCTTTGAAAGGGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909367 TGTGGGCTCTAAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
3909396 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909424 TGTAGGC-TTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909451 TGTGAGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909479 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909507 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909535 TGTGGGC-TTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909562 TGTGGGC-TTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909589 TGTGGGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909617 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909645 TGTAGGC-TTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909672 TGTGAGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909700 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909728 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909756 TGTGGGC-TTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909783 TGTGGGC-TTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909810 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909838 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909866 TGTGAGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3909894 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909922 TGTGGGCTTTGAAAGAGTGCCACTCACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3909950 AGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3909978 TGTGGGCTTTGAAAAGAGTGGCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3910007 TGTGGGC-TTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3910034 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3910062 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3910090 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3910118 TGTGAGC-TTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
3910145 TGTGGGCTTTGAAAG
1 TGTGGGCTTTGAAAG
3910160 AGTGTTACTG
Statistics
Matches: 1514, Mismatches: 221, Indels: 57
0.84 0.12 0.03
Matches are distributed among these distances:
27 208 0.14
28 1040 0.69
29 94 0.06
30 83 0.05
31 85 0.06
32 2 0.00
33 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3909378 original size:512 final size:509
Alignment explanation
Indices: 3908368--3910153 Score: 2590
Period size: 512 Copynumber: 3.5 Consensus size: 509
3908358 CACTGACACG
** * * *
3908368 TGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGG
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTT--GTAGGCTTGAAAA-GGTGCCACTGACTTGTGAG
* * * *
3908433 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTAAATTGTGGGCTTCGCAA
62 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
3908497 GGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCA
127 GAGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCA
*
3908562 CTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATAGTGCCACTCAATT
192 CTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGTGCCACTCAATT
3908627 GTGGGCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTT
254 GTGGGCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTT
* *
3908692 GAAAAGGAGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGGAA
319 GAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTT-TGTGGGCTTTGAAA
3908757 GGGTCCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCAC
383 GGGTCCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCAC
*
3908822 CGACTTGTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTAACT
448 CGACTTGTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTGACT
*
3908884 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTGAAAAGGTGCCATTGACTTGTGAGCTTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTGAAAAGGTGCCACTGACTTGTGAGCTTT
* **
3908949 GAAAGAGTGCCATTGACTTGTGGGCTTTGAATGGA-TGCCACTGACTTGTGGGCTTTGAAAGAGT
66 GAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGT
3909013 GCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCACTGA
131 GCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCACTGA
*
3909078 CTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATAGTGCCACTCAATTGTGG
196 C-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGTGCCACTCAATTGTGG
3909143 GCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTTGAAA
258 GCTTCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTTGAAA
3909208 AGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTATGTGGGCTTTGAAAGGGT
323 AGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTT-TGTGGGCTTTGAAAGGGT
3909273 CCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCACCGAC
387 CCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCACCGAC
3909338 TTGTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTGACT
452 TTGTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTGACT
*
3909396 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTGAAAAGGTGCCATTGACTTGTGAGCTTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTGAAAAGGTGCCACTGACTTGTGAGCTTT
* *
3909461 GAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGAGT
66 GAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGT
* * *
3909525 GCCACTGACTTGTGGGCTT-GAAAAGGTACCACTGACTTGTGGGCT-TAAAAAG-GTGCCACTGA
131 GCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCACTGA
* * * * * *
3909587 CTTGTGGGCTTTGAAAGAGTGCCATTGACTTGTAGGCTTTGAAAGGATGCCACTGACTTGTAGGC
196 CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-TGCCACTCAATTGTGGGC
* * * * ** * * *
3909652 TT-GAAAAGGTGCCATTGACTTGTGAGCTTTGAAAGAGTGCCATTGACTTGTGGGCTTTG-AAAG
260 TTCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAG
* * *
3909715 GATGCCACTGACTT--GTGGGCTTTGAAA-GAGTGCCACTGAC-TTGTGGGC-TTGAAAAGGTAC
325 G-TGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTTGTGGGCTTTGAAAGGGTCC
* ** * * * * * *
3909775 CACTGACTTGTGGGCTTAAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT
389 CATTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCACCGACTT
* * * * * *
3909839 GTAGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTGAAA-GAGTGCCACTGACT
454 GTGGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTGACT
* * * *
3909894 TGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTCACTAGTGGGC
1 TGTGGGCTTTGAAAGAG-TGCCACTGACTTGTAGGC-TTGAAAAG-GTGCCACTGACTTGTGAGC
* *
3909957 TTTGAAAG-GATGCCACTAACTTGTGGGCTTTGAAAAGAGTGGCACTGACTTGTGGGC-TTGAAA
63 TTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
3910020 -AGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCC
127 GA-GTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCC
* * * *
3910083 ACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGAGC-TTGAAAAGGTACCACTGACTTG
191 ACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GTGCCACTCAATTG
3910147 TGGGCTT
255 TGGGCTT
3910154 TGAAAGAGTG
Statistics
Matches: 1181, Mismatches: 76, Indels: 42
0.91 0.06 0.03
Matches are distributed among these distances:
497 1 0.00
498 52 0.04
499 148 0.13
500 94 0.08
501 56 0.05
502 1 0.00
503 13 0.01
504 12 0.01
505 5 0.00
506 61 0.05
507 56 0.05
508 1 0.00
509 11 0.01
510 6 0.01
511 24 0.02
512 598 0.51
513 15 0.01
515 16 0.01
516 11 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (509 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTAGGCTTGAAAAGGTGCCACTGACTTGTGAGCTTT
GAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGT
GCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTGCCACTGA
CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGTGCCACTCAATTGTGGGCT
TCGCAAGGGTGCCACTGACTTGTGGGCTTCAAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGG
TGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTTGTGGGCTTTGAAAGGGTCCCA
TTGACTTGTGGGCTTTGAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCACCGACTTGT
GGGCTTTGAAAGGGTGCCACTGAATTGTGGGCTCTAAAAGGAGTGCCACTGACT
Found at i:3913478 original size:25 final size:25
Alignment explanation
Indices: 3913444--3913513 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
3913434 GTTATCAGCC
*
3913444 GTTGTCGTTGCTTGGTGTTGTTGTT
1 GTTGTTGTTGCTTGGTGTTGTTGTT
3913469 GTTGTTGTTGC-T-GTCGTTGGTTGTT
1 GTTGTTGTTGCTTGGT-GTT-GTTGTT
* * *
3913494 GCTATTGATGCTTGGTGTTG
1 GTTGTTGTTGCTTGGTGTTG
3913514 CTGCTGCTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.05
24 4 0.11
25 25 0.68
26 4 0.11
27 2 0.05
ACGTcount: A:0.03, C:0.09, G:0.36, T:0.53
Consensus pattern (25 bp):
GTTGTTGTTGCTTGGTGTTGTTGTT
Found at i:3914080 original size:36 final size:36
Alignment explanation
Indices: 3914010--3914142 Score: 189
Period size: 36 Copynumber: 3.8 Consensus size: 36
3914000 ATTTCATGCA
* * * *
3914010 TTGCCATTTC-TCCATCTTG-TTGCAGCAACTGACT
1 TTGCCATTTCTTTCTTCTTGTTTTCAACAACTGACT
*
3914044 TTGCCGTTTCTTTCTTCTTGTTTTCAACAACTGACT
1 TTGCCATTTCTTTCTTCTTGTTTTCAACAACTGACT
* *
3914080 TTGTCATTTCTTTCTTCTTGTTTTCTACAACTGACT
1 TTGCCATTTCTTTCTTCTTGTTTTCAACAACTGACT
3914116 TTGCCATTTCTTTCTTCTTGTTTTCAA
1 TTGCCATTTCTTTCTTCTTGTTTTCAA
3914143 TAGCTGATCA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 9 0.10
35 7 0.08
36 71 0.82
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (36 bp):
TTGCCATTTCTTTCTTCTTGTTTTCAACAACTGACT
Found at i:3914301 original size:16 final size:15
Alignment explanation
Indices: 3914280--3914319 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
3914270 GACTTCGGCC
3914280 TTTTTTTATTATTATT
1 TTTTTTTATTATT-TT
*
3914296 TTTTTTTATTCTTTT
1 TTTTTTTATTATTTT
*
3914311 TTTGTTTAT
1 TTTTTTTAT
3914320 CTTAGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTTATTATTTT
Found at i:3914313 original size:13 final size:14
Alignment explanation
Indices: 3914279--3914313 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3914269 TGACTTCGGC
3914279 CTTTTTTTATTATT
1 CTTTTTTTATTATT
*
3914293 ATTTTTTT-TTATT
1 CTTTTTTTATTATT
3914306 CTTTTTTT
1 CTTTTTTT
3914314 GTTTATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (14 bp):
CTTTTTTTATTATT
Found at i:3918246 original size:3 final size:3
Alignment explanation
Indices: 3918238--3918262 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3918228 ATAAAACAAG
3918238 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
3918263 ATAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:3918274 original size:16 final size:17
Alignment explanation
Indices: 3918253--3918287 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3918243 TATTATTATT
3918253 ATTATTATTAA-TAAAA
1 ATTATTATTAATTAAAA
*
3918269 ATTATTTTTAATTAAAA
1 ATTATTATTAATTAAAA
3918286 AT
1 AT
3918288 GAATTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATTATTAATTAAAA
Found at i:3924784 original size:30 final size:27
Alignment explanation
Indices: 3924748--3924803 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
3924738 TTAATATTTT
3924748 GAAAATAAAAACGGGGTTGGAGTATCCCTC
1 GAAAATAAAAA---GGTTGGAGTATCCCTC
*
3924778 GAAAATAACAAGGTTGGAGTATCCCT
1 GAAAATAAAAAGGTTGGAGTATCCCT
3924804 AAGATGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 15 0.60
30 10 0.40
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (27 bp):
GAAAATAAAAAGGTTGGAGTATCCCTC
Found at i:3924797 original size:78 final size:78
Alignment explanation
Indices: 3924572--3924800 Score: 300
Period size: 79 Copynumber: 2.9 Consensus size: 78
3924562 TAACCCCAAT
* *
3924572 GATGAAAATTTTAATATTTTG-AAAT-AAAACGAGGTTGGAGTATCCTCTCGAAAATAATGGGGT
1 GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCC-CTCGAAAATAATGAGGT
*
3924635 TAGAGTATCTCCGA
65 TGGAGTATCTCCGA
* * ** * * *
3924649 GGTGAAAAATTTAATATTTCAAAAATAAAAATGGGGTTGGAGTATCCCCTCAAAAATAATGTGGT
1 GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTAT-CCCTCGAAAATAATGAGGT
* *
3924714 TGGAGTGTCTTCGA
65 TGGAGTATCTCCGA
**
3924728 GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCTCGAAAATAACAAGGTT
1 GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCTCGAAAATAATGAGGTT
3924793 GGAGTATC
66 GGAGTATC
3924801 CCTAAGATGA
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
77 17 0.13
78 27 0.21
79 82 0.64
80 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (78 bp):
GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCTCGAAAATAATGAGGTT
GGAGTATCTCCGA
Found at i:3924809 original size:78 final size:78
Alignment explanation
Indices: 3924554--3924812 Score: 274
Period size: 79 Copynumber: 3.3 Consensus size: 78
3924544 TTGAATACAG
* * *
3924554 GGTTAGAGTAACCCCAATGATGAAAATTTTAATATTTTG-AAAT-AAAACGAGGTTGGAGTATCC
1 GGTTAGAGTATCCCTAA-GATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCC
*
3924617 TCTCGAAAATAATGG
65 -CTCGAAAATAATGA
* * * ** *
3924632 GGTTAGAGTATCTCC-GAGGTGAAAAATTTAATATTTCAAAAATAAAAATGGGGTTGGAGTATCC
1 GGTTAGAGTATC-CCTAAGATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTAT-C
* *
3924696 CCTCAAAAATAATGT
64 CCTCGAAAATAATGA
* * * *
3924711 GGTTGGAGTGT-CTTCGAGATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCC
1 GGTTAGAGTATCCCT-AAGATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCC
**
3924775 CTCGAAAATAACAA
65 CTCGAAAATAATGA
*
3924789 GGTTGGAGTATCCCTAAGATGAAA
1 GGTTAGAGTATCCCTAAGATGAAA
3924813 GATGACAAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
77 18 0.12
78 46 0.31
79 83 0.56
80 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (78 bp):
GGTTAGAGTATCCCTAAGATGAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCC
TCGAAAATAATGA
Found at i:3924877 original size:51 final size:51
Alignment explanation
Indices: 3924812--3924908 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
3924802 CTAAGATGAA
* *
3924812 AGATGACAAATTTAATATTTTGGAAATAAAAATAAGGTTAGAGTATCCTTG
1 AGATGACAAATTTAATATTTTGAAAATAAAAACAAGGTTAGAGTATCCTTG
* **
3924863 AGATGA-AAACTTTAATATTTTGAAAATTAAAACGGGGTTAGAGTAT
1 AGATGACAAA-TTTAATATTTTGAAAATAAAAACAAGGTTAGAGTAT
3924909 TCCCTTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (51 bp):
AGATGACAAATTTAATATTTTGAAAATAAAAACAAGGTTAGAGTATCCTTG
Found at i:3926493 original size:13 final size:13
Alignment explanation
Indices: 3926475--3926499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3926465 CATTATGCTT
3926475 TGTATCGATACAA
1 TGTATCGATACAA
3926488 TGTATCGATACA
1 TGTATCGATACA
3926500 TGCATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3926575 original size:20 final size:20
Alignment explanation
Indices: 3926550--3926613 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
3926540 CTACCACTGT
3926550 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
3926570 TTGTATCGAT--A---CA-A
1 TTGTATCGATACATGGCACA
3926584 -TGTATCGATACATGGCACA
1 TTGTATCGATACATGGCACA
3926603 TTGTATCGATA
1 TTGTATCGATA
3926614 TAATGTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 3 0.08
18 3 0.08
19 1 0.03
20 20 0.54
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGCACA
Found at i:3926588 original size:33 final size:33
Alignment explanation
Indices: 3926551--3926648 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 33
3926541 TACCACTGTT
3926551 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
*
3926584 TGTATCGATACATGGCACATTGTATCGATATAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
* ** *
3926617 TGTATTGATACATGATAAATTGTATCGATACA
1 TGTATCGATACATGGCACATTGTATCGATACA
3926649 TTGCTTCAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:3926589 original size:13 final size:13
Alignment explanation
Indices: 3926571--3926595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3926561 CATGGCACAT
3926571 TGTATCGATACAA
1 TGTATCGATACAA
3926584 TGTATCGATACA
1 TGTATCGATACA
3926596 TGGCACATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3928878 original size:13 final size:13
Alignment explanation
Indices: 3928860--3928885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3928850 CATTATTCAA
3928860 TGTATCGATACAT
1 TGTATCGATACAT
3928873 TGTATCGATACAT
1 TGTATCGATACAT
3928886 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3928949 original size:20 final size:20
Alignment explanation
Indices: 3928924--3929011 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
3928914 TTTACCCAGA
*
3928924 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
3928944 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
3928964 TGTATCGATA-A------AT
1 TGTATCGATACATTGCTCAT
3928977 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
3928997 TGTATTGATACATTG
1 TGTATCGATACATTG
3929012 TATCGATACA
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
19 1 0.02
20 43 0.74
21 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:3928984 original size:33 final size:33
Alignment explanation
Indices: 3928942--3929023 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
3928932 TACATTTTGC
3928942 ATTGTATCGATACATTGCTCATTGTATCGATAA
1 ATTGTATCGATACATTGCTCATTGTATCGATAA
* *
3928975 ATTGTATCGATACATTGCTCATTGTATTGATAC
1 ATTGTATCGATACATTGCTCATTGTATCGATAA
3929008 ATTGTATCGATACATT
1 ATTGTATCGATACATT
3929024 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (33 bp):
ATTGTATCGATACATTGCTCATTGTATCGATAA
Found at i:3929010 original size:13 final size:13
Alignment explanation
Indices: 3928961--3929023 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
3928951 ATACATTGCT
3928961 CATTGTATCGATA
1 CATTGTATCGATA
*
3928974 AATTGTATCGATA
1 CATTGTATCGATA
3928987 CATTG---C--T-
1 CATTGTATCGATA
*
3928994 CATTGTATTGATA
1 CATTGTATCGATA
3929007 CATTGTATCGATA
1 CATTGTATCGATA
3929020 CATT
1 CATT
3929024 CAGGCATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.03
10 1 0.03
12 1 0.03
13 32 0.80
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:3931408 original size:51 final size:50
Alignment explanation
Indices: 3931232--3931408 Score: 189
Period size: 51 Copynumber: 3.5 Consensus size: 50
3931222 ATTTCTAGAT
* * *
3931232 TTTTCAT-CTCGGGGATACTCCAA-TCCCAGTTTCATTTCCAAAACA-TCAA
1 TTTTCATAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACACT-AA
* * * **
3931281 TTTTTCTTAATCGGGGATACTCCAACTCTGATTTTATTTCTAAAACACCCA
1 -TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAA
* *
3931332 TTTTCCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACTGAC
1 TTTT-CATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACT-AA
*
3931384 TTTTCACAATCGGGGATACTCCAAC
1 TTTTCATAATCGGGGATACTCCAAC
3931409 CCTGTTATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
50 10 0.10
51 88 0.84
52 7 0.07
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.34
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAA
Found at i:3931586 original size:79 final size:79
Alignment explanation
Indices: 3931345--3931642 Score: 408
Period size: 79 Copynumber: 3.8 Consensus size: 79
3931335 TCCATAATCA
* * * *
3931345 GGGATACTCCAACTCCGATTTTATTTCCAAAACA-CTGACTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATC-AATTTTTCACAATCGGGGATACTCCAAC
*
3931409 CCTGTTATTTTAGAG
65 CCCGTTATTTTAGAG
* *
3931424 GGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT--C-ATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
*
3931486 CCGTTATTTTCGAG
66 CCGTTATTTTAGAG
* *
3931500 GGGATACTCCAACCCTGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
3931565 CCGTTATTTCT-GAG
66 CCGTTATTT-TAGAG
* * * * *
3931579 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
3931643 TCCGATTTTA
Statistics
Matches: 195, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
76 70 0.36
77 1 0.01
79 122 0.63
80 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTAGAG
Found at i:3931750 original size:53 final size:51
Alignment explanation
Indices: 3931578--3931742 Score: 222
Period size: 51 Copynumber: 3.2 Consensus size: 51
3931568 TTATTTCTGA
* *
3931578 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATC
* * * * *
3931629 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATC
* * *
3931680 GGGGATACTCCAACCCCGATTTTTTATTTCTAGAACACCGATTTTCCATAATC
1 GGGGATACTCCAACCCCGA--TTTTATTTCTAAAACACCAATTTTCCACAATC
3931733 GGGGATACTC
1 GGGGATACTC
3931743 TAGCCCCGTT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 61 0.63
53 36 0.37
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATC
Found at i:3931763 original size:104 final size:102
Alignment explanation
Indices: 3931578--3931765 Score: 252
Period size: 104 Copynumber: 1.8 Consensus size: 102
3931568 TTATTTCTGA
*
3931578 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAAC
* *
3931643 TCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
66 CCCGATTTTATCTCCAAAACACTAATTTTTCACAATC
* * * * * *
3931680 GGGGATACTCCAACCCCGATTTTTTATTTCTAGAACACCGATTTTCCATAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCG--GTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCA
*
3931745 GCCCCG-TTGTTATCTCCAAAA
64 ACCCCGATT-TTATCTCCAAAA
3931766 TATTAAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
102 18 0.25
103 2 0.03
104 53 0.73
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (102 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAAC
CCCGATTTTATCTCCAAAACACTAATTTTTCACAATC
Found at i:3939103 original size:20 final size:19
Alignment explanation
Indices: 3939057--3939113 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
3939047 TTGTATCGAT
* *
3939057 ACATTGTATCGATTCATGT
1 ACATTGTATCGATACATGC
*
3939076 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
3939095 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
3939114 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:3939204 original size:33 final size:33
Alignment explanation
Indices: 3939143--3939207 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
3939133 TATTACTATT
* *
3939143 TGTATCGATACATGGCACATTATATCGATACAA
1 TGTATCGATACATGACAAATTATATCGATACAA
* * *
3939176 TGTATCGATACATGATAAATTGTGTCGATACA
1 TGTATCGATACATGACAAATTATATCGATACA
3939208 TTGCCTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTATATCGATACAA
Found at i:3941039 original size:22 final size:21
Alignment explanation
Indices: 3941011--3941065 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
3941001 ATGAGAAATA
3941011 TATCGATACAATTGTAAGCATG
1 TATCGATACAATT-TAAGCATG
***
3941033 TATCGATAC-ATTTACTTATG
1 TATCGATACAATTTAAGCATG
3941053 TATCGATACAATT
1 TATCGATACAATT
3941066 CCTTGGCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.48
21 6 0.21
22 9 0.31
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TATCGATACAATTTAAGCATG
Found at i:3944956 original size:54 final size:54
Alignment explanation
Indices: 3944889--3945071 Score: 147
Period size: 54 Copynumber: 3.3 Consensus size: 54
3944879 ACATTGAAGA
3944889 ATGTATCGATACATTTTGGTCAAAAACCCAGAATATATTGATACAATTGTAGGC
1 ATGTATCGATACATTTTGGTCAAAAACCCAGAATATATTGATACAATTGTAGGC
** * * * * * * ** *
3944943 ATGTATCGATACA-TTTGGT-AATGTATCGATACATTTTCTTGGCAGTATACAGGGT-GGTT
1 ATGTATCGATACATTTTGGTCAA-AAACCCAGA-A-TATATT-G-A-TACA-ATTGTAGG-C
* * *
3945002 TTGTATCGATACATTTTGGTCAAAAACTCAGAATATATCGATACAATTGTAGGC
1 ATGTATCGATACATTTTGGTCAAAAACCCAGAATATATTGATACAATTGTAGGC
3945056 ATGTATCGATACATTT
1 ATGTATCGATACATTT
3945072 GGTAATGTAT
Statistics
Matches: 92, Mismatches: 26, Indels: 22
0.66 0.19 0.16
Matches are distributed among these distances:
52 2 0.02
53 10 0.11
54 32 0.35
55 9 0.10
56 2 0.02
57 2 0.02
58 8 0.09
59 16 0.17
60 9 0.10
61 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (54 bp):
ATGTATCGATACATTTTGGTCAAAAACCCAGAATATATTGATACAATTGTAGGC
Found at i:3945065 original size:22 final size:21
Alignment explanation
Indices: 3945037--3945088 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
3945027 ACTCAGAATA
*
3945037 TATCGATACAATTGTAGG-CATG
1 TATCGATACAATT-T-GGTAATG
3945059 TATCGATAC-ATTTGGTAATG
1 TATCGATACAATTTGGTAATG
3945079 TATCGATACA
1 TATCGATACA
3945089 TTTTCTTGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 3 0.11
22 9 0.33
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (21 bp):
TATCGATACAATTTGGTAATG
Found at i:3945088 original size:113 final size:113
Alignment explanation
Indices: 3944890--3945130 Score: 464
Period size: 113 Copynumber: 2.1 Consensus size: 113
3944880 CATTGAAGAA
*
3944890 TGTATCGATACATTTTGGTCAAAAACCCAGAATATATTGATACAATTGTAGGCATGTATCGATAC
1 TGTATCGATACATTTTGGTCAAAAACCCAGAATATATCGATACAATTGTAGGCATGTATCGATAC
3944955 ATTTGGTAATGTATCGATACATTTTCTTGGCAGTATACAGGGTGGTTT
66 ATTTGGTAATGTATCGATACATTTTCTTGGCAGTATACAGGGTGGTTT
*
3945003 TGTATCGATACATTTTGGTCAAAAACTCAGAATATATCGATACAATTGTAGGCATGTATCGATAC
1 TGTATCGATACATTTTGGTCAAAAACCCAGAATATATCGATACAATTGTAGGCATGTATCGATAC
3945068 ATTTGGTAATGTATCGATACATTTTCTTGGCAGTATACAGGGTGGTTT
66 ATTTGGTAATGTATCGATACATTTTCTTGGCAGTATACAGGGTGGTTT
3945116 TGTATCGATACATTT
1 TGTATCGATACATTT
3945131 ACTGTTTGCA
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 126 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (113 bp):
TGTATCGATACATTTTGGTCAAAAACCCAGAATATATCGATACAATTGTAGGCATGTATCGATAC
ATTTGGTAATGTATCGATACATTTTCTTGGCAGTATACAGGGTGGTTT
Found at i:3949867 original size:158 final size:157
Alignment explanation
Indices: 3949676--3949975 Score: 372
Period size: 158 Copynumber: 1.9 Consensus size: 157
3949666 AAGGGTATTT
* * * * *
3949676 TAGTAATTTTCTTCAAAATTGAGTCCTAGGTAGTCACCTGGTCACTTTTATGCGAAAAGTTTACA
1 TAGTAATTTTCCTCAAAACTGAGTCCTAGGTAGTCACCGGGTCACTTTTATGCCAAAAGTATACA
* **
3949741 TTTAGGATAGGTTTATCCTTTTAGGATTTTTTTTTTGT-TTCTTCTAGCGTTAC-GAAGATACTT
66 TTTAGGATAGGTTCATCCTTTTAGGATTTTTTTTTCATATTCTT-TAGCGTTACTG-AGATAC-T
3949804 TCACATTGAAAGTATACCCTAGAAGCATTC
128 TCACATTGAAAGTATACCCTAGAAGCATTC
* * * ** *
3949834 TAGTAATTTTCC-CTAAAACTGAGTCCTAGGTAGTTATCGGGTCGCTTTTATGCCAAGGGTATAT
1 TAGTAATTTTCCTC-AAAACTGAGTCCTAGGTAGTCACCGGGTCACTTTTATGCCAAAAGTATAC
* * *
3949898 GTTTAGGATAGGTTCATCCTTTTATGATTTTTTTTTCATATTCTTTAGGGTTACTGAGATACTTC
65 ATTTAGGATAGGTTCATCCTTTTAGGATTTTTTTTTCATATTCTTTAGCGTTACTGAGATACTTC
* *
3949963 ACGTTGAAGGTAT
130 ACATTGAAAGTAT
3949976 CCTTCGGGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
157 15 0.12
158 99 0.82
159 6 0.05
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (157 bp):
TAGTAATTTTCCTCAAAACTGAGTCCTAGGTAGTCACCGGGTCACTTTTATGCCAAAAGTATACA
TTTAGGATAGGTTCATCCTTTTAGGATTTTTTTTTCATATTCTTTAGCGTTACTGAGATACTTCA
CATTGAAAGTATACCCTAGAAGCATTC
Found at i:3950909 original size:19 final size:19
Alignment explanation
Indices: 3950885--3950955 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
3950875 CACACCCAGA
3950885 TGTATCGATACATATTCAT
1 TGTATCGATACATATTCAT
3950904 TGTATCGATACATATTCAT
1 TGTATCGATACATATTCAT
***
3950923 TGTATCGATACATGCACAAT
1 TGTATCGATACATATTC-AT
3950943 TGTATCGATACAT
1 TGTATCGATACAT
3950956 GAAACTGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATATTCAT
Found at i:3957260 original size:20 final size:20
Alignment explanation
Indices: 3957222--3957261 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
3957212 TTTCAAATTT
3957222 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
3957243 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
3957262 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:3958986 original size:31 final size:28
Alignment explanation
Indices: 3958944--3959030 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 28
3958934 AGTAAATTTT
3958944 TTATCAAGGGGAAGAAAATCTTTTAAACAA
1 TTATCAAGGGG-AGAAAAT-TTTTAAACAA
* *
3958974 TTATCAAAGGGGAGAAATTTTTTTTAAACGA
1 TTATC-AAGGGGAGAAA--ATTTTTAAACAA
3959005 TTATCAA-GGGAGAGAAATTTTTAAAC
1 TTATCAAGGGGAGA-AAATTTTTAAAC
3959031 GAGAACCTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 9 0.18
29 6 0.12
30 14 0.28
31 20 0.40
32 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (28 bp):
TTATCAAGGGGAGAAAATTTTTAAACAA
Found at i:3959613 original size:20 final size:19
Alignment explanation
Indices: 3959567--3959623 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
3959557 TTATATCGAT
*
3959567 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
3959586 TCATTGTATCAATACATGC
1 ACATTGTATCGATACATGC
3959605 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
3959624 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:3962069 original size:51 final size:51
Alignment explanation
Indices: 3962003--3962429 Score: 320
Period size: 51 Copynumber: 8.4 Consensus size: 51
3961993 TGAAAATAAT
* * * **
3962003 GGGGTTGGAGCATCCCCAATTATGAGAAATTAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
* * * * **
3962054 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
* ** * *
3962105 GGGGTTGGAGTATCCCCGATTATG-GAGAATTGGTGTTTTAAAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAGA-AATTAATATTTTAGAAATAAAACC
* ** * * *
3962156 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
* * * * * * *
3962207 GGAGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTT-GAAAAAACAATC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAA-AACC
* * * * * * * *
3962258 AGAGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
* * * *** * *
3962309 GGAGTTGGAATATCCCCGATTATG-GAAAATGGGTGTTTTAGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTGTGAG-AAATTAATATTTTAGAAATAAAACC
* ** * * * *
3962360 GGAGTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTTGGAAATGAAACC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
* *
3962411 GGGATTAGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
3962430 GATGAAAAAT
Statistics
Matches: 315, Mismatches: 55, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
50 8 0.03
51 299 0.95
52 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAACC
Found at i:3962099 original size:130 final size:129
Alignment explanation
Indices: 3961824--3962122 Score: 309
Period size: 130 Copynumber: 2.3 Consensus size: 129
3961814 ACAAGAAATT
* * * *
3961824 TAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCC-TCGAAAAAAACGGGGTTGGGGTATCC
1 TAATATTTTGGAAATAA-ATCGGGGTTGGAGTATCCCCGTCGAAAAAAACGGGGTTGGAGCATCC
* * * *
3961888 CCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTAAAGTGTCCCCGATTATAGAAAA
65 CCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGATTATAGAAAA
* *** * * *
3961953 TAGATGTTTCAAAAATAACATCGGGATTGGAGTATCCCCGT-GAAAATAATGGGGTTGGAGCATC
1 TA-ATATTTTGGAAATAA-ATCGGGGTTGGAGTATCCCCGTCGAAAAAAACGGGGTTGGAGCATC
* * ** * * *
3962017 CCCAATTATGAGAAATTAAT-ATTTTAGAAATAAGGCCGGGGTTGAAGTATCCCTGATTGT-GAG
64 CCCAATTATGAAAAATCAATGA-TTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGATTATAGA-
3962080 AAA
127 AAA
3962083 TCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCG
1 T-AATATTTTGGAAATAAA-TCGGGGTTGGAGTATCCCCG
3962123 ATTATGGAGA
Statistics
Matches: 136, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
129 6 0.04
130 128 0.94
131 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (129 bp):
TAATATTTTGGAAATAAATCGGGGTTGGAGTATCCCCGTCGAAAAAAACGGGGTTGGAGCATCCC
CAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGATTATAGAAAA
Found at i:3962179 original size:102 final size:102
Alignment explanation
Indices: 3962003--3962429 Score: 444
Period size: 102 Copynumber: 4.2 Consensus size: 102
3961993 TGAAAATAAT
* * * * * ** * *
3962003 GGGGTTGGAGCATCCCCAATTAT-GAGAAATTAATATTTTAGAAATAAGGCCGGGGTTGAAGTAT
1 GGGGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTAAAAATAAAACCGGAGTTGGAGTAT
* * * *
3962067 CCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
65 CCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAATC
* * *
3962105 GGGGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAAAAATAAAACCGGAGTTGGAGTATC
*
3962170 CCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATC
66 CCCGATTGTGAAAAATCAATGTTTTGGAAATAAAATC
* * * * * * * *
3962207 GGAGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAAA-ACAATCAGAGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTT-AAAAATAAAACCGGAGTTGGAGTAT
* *
3962271 CCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATC
65 CCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAATC
* * ** * *
3962309 GGAGTTGGAATATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAAAAATAAAACCGGAGTTGGAGTATC
** * ** * *
3962374 CCCGATTAAGAGAAATTGATGTTTTGGAAATGAAACC
66 CCCGATTGTGAAAAATCAATGTTTTGGAAATAAAATC
* *
3962411 GGGATTAGAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
3962430 GATGAAAAAT
Statistics
Matches: 272, Mismatches: 50, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
101 4 0.01
102 261 0.96
103 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (102 bp):
GGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAAAAATAAAACCGGAGTTGGAGTATC
CCCGATTGTGAAAAATCAATGTTTTGGAAATAAAATC
Found at i:3962419 original size:153 final size:151
Alignment explanation
Indices: 3962014--3962439 Score: 433
Period size: 153 Copynumber: 2.8 Consensus size: 151
3962004 GGGTTGGAGC
* * ** * *** * * *
3962014 ATCCCCAATTATGAGAAATTAATATTTTAGAAATAAGGCCGGGGTTGAAGTATCCCTGATTGTGA
1 ATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGA
* * * * * * *
3962079 GAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCGATTATGGAGAATTGGTGTTTT
66 GAAAT-TATGTTTTGGAAATAAA-TCGGGATTAGAGTATCCCCGATTATGAAAAATTAGTGTTTT
* *
3962144 AAAAATAAAACCGGGGTTGGAGT
129 AAAAATAAAACCGGAGTTGGAAT
* * *
3962167 ATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTGTGA
1 ATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGA
* * * * *
3962232 AAAATTAGTGTTTTGAAAAAACAATC-AGAGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTT
66 GAAATTA-TGTTTTGGAAATA-AATCGGGA-TTAGAGTATCCCCGATTATGAAAAATTAGTGTTT
** *
3962296 TGGAAATAAAATCGGAGTTGGAAT
128 TAAAAATAAAACCGGAGTTGGAAT
* * * **
3962320 ATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGA
1 ATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGA
* *
3962385 GAAATTGATGTTTTGGAAATGAAACCGGGATTAGAGTATCCCCGA-GATGAAAAAT
66 GAAATT-ATGTTTTGGAAAT-AAATCGGGATTAGAGTATCCCCGATTATGAAAAAT
3962440 CTAGAAATTT
Statistics
Matches: 221, Mismatches: 46, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
152 10 0.05
153 205 0.93
154 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (151 bp):
ATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGA
GAAATTATGTTTTGGAAATAAATCGGGATTAGAGTATCCCCGATTATGAAAAATTAGTGTTTTAA
AAATAAAACCGGAGTTGGAAT
Found at i:3964870 original size:13 final size:13
Alignment explanation
Indices: 3964848--3964905 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
3964838 GGCAGTAGCT
*
3964848 TTGTAGCGATACA
1 TTGTATCGATACA
3964861 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
3964877 CTTATGTATCGATACA
1 --T-TGTATCGATACA
3964893 TTGTATCGATACA
1 TTGTATCGATACA
3964906 GTTACTATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3968509 original size:111 final size:109
Alignment explanation
Indices: 3968294--3968620 Score: 325
Period size: 111 Copynumber: 2.9 Consensus size: 109
3968284 GACTTGAAAG
* * * * * * *
3968294 AACATCAAATTTGTCTGATTTTCAAAGAAATTTATGTTTTATACAACTTGATTCATTCAAGCCTA
1 AACAACAAATTTGTCTGA-TTTCAAAGAAA-TCATGTTTTATAAAACATGATCCATTCATGCTTA
* * *
3968359 GGAAAATGGGGCATATATCTTATCAGTTTTGAAATTTTTAAGCCAAC
64 GGAAAAT-GGGCATGTATCTTATCAATTTTAAAATTTTTAAGCCAAC
*
3968406 AACACCAAATTTGTCTGATTTCAAAGAAATCCATGTTTTATAAAACATGATCCATTCATGCTTAG
1 AACAACAAATTTGTCTGATTTCAAAGAAAT-CATGTTTTATAAAACATGATCCATTCATGCTTAG
* *
3968471 GAAAATAGGGCATGTATCCTA-CTAATTTTAAAAATTTTAAGCCAAC
65 GAAAAT-GGGCATGTATCTTATC-AATTTTAAAATTTTTAAGCCAAC
* * * * * * * ** * *
3968517 AGCAATAAATTTGTCTAATTTAAAAAAAAAATCATGTTTTATATGACCA-GATCTTTTCGTCCTT
1 AACAACAAATTTGTCTGATTT--CAAAGAAATCATGTTTTATA-AAACATGATCCATTCATGCTT
*
3968581 AGGAAAATGGGTCATGTATCTTATGAATTTTAAAATTTTT
63 AGGAAAATGGG-CATGTATCTTATCAATTTTAAAATTTTT
3968621 TAGCAAATCA
Statistics
Matches: 180, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
110 2 0.01
111 97 0.54
112 71 0.39
113 10 0.06
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (109 bp):
AACAACAAATTTGTCTGATTTCAAAGAAATCATGTTTTATAAAACATGATCCATTCATGCTTAGG
AAAATGGGCATGTATCTTATCAATTTTAAAATTTTTAAGCCAAC
Found at i:3969723 original size:119 final size:120
Alignment explanation
Indices: 3969525--3969824 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 120
3969515 AGTCTTGGGT
* * *
3969525 TCACCCAAGTCATTGTTTAGGTTTCTCATTTTATCTAGACCATTTAGTTGAGTCTTGGTTTCACC
1 TCACCCAAGTCATTGTTTAGGTTTCTCAGTTTATCCAAACCATTTAGTTGAGTCTTGGTTTCACC
* * *
3969590 CAAGTCATTGTTTAGGATTT-T-AGTTTTATTTAGGCCACTTAGTTGAGTCATGATC
66 CAAGTCAGTATTTAGG-TTTCTGA-TTTTATCTAGGCCACTTAGTTGAGTCATGATC
**
3969645 TCACCCAAGTCATTGTTTAGGTTT-TTGGTTTATCCAAACCATTTAGTTGAGTCTTGGTTTCACC
1 TCACCCAAGTCATTGTTTAGGTTTCTCAGTTTATCCAAACCATTTAGTTGAGTCTTGGTTTCACC
* * * * *
3969709 CAAGTTAGTATTTAGGTTTCTGATTTTATCTAGGCCATTTAGTTGAGTCTTGGTT
66 CAAGTCAGTATTTAGGTTTCTGATTTTATCTAGGCCACTTAGTTGAGTCATGATC
* * * * * ** * * *
3969764 TCACTCTAGTAATTATTTAGATTTCT-AGTTTAATCCAGGCTATTTTGTTGAGTTTTGGTTT
1 TCACCCAAGTCATTGTTTAGGTTTCTCAGTTT-ATCCAAACCATTTAGTTGAGTCTTGGTTT
3969825 TGCCTTAATC
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
118 3 0.02
119 99 0.65
120 50 0.33
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (120 bp):
TCACCCAAGTCATTGTTTAGGTTTCTCAGTTTATCCAAACCATTTAGTTGAGTCTTGGTTTCACC
CAAGTCAGTATTTAGGTTTCTGATTTTATCTAGGCCACTTAGTTGAGTCATGATC
Found at i:3969781 original size:60 final size:59
Alignment explanation
Indices: 3969506--3969824 Score: 343
Period size: 60 Copynumber: 5.3 Consensus size: 59
3969496 TATCCAAGCT
* * *
3969506 ATTTAGTTTAGTCTTGGGTTCACCCAAGTCATTGTTTAGGTTTCTCATTTTATCTAGACC
1 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGTTTCT-ATTTTATCTAGGCC
*
3969566 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGATTT-TAGTTTTATTTAGGCC
1 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGG-TTTCTA-TTTTATCTAGGCC
* * * * * ** * **
3969626 ACTTAGTTGAGTCATGATCTCACCCAAGTCATTGTTTAGGTTTTTGGTTTATCCAAACC
1 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGTTTCTATTTTATCTAGGCC
* * *
3969685 ATTTAGTTGAGTCTTGGTTTCACCCAAGTTAGTATTTAGGTTTCTGATTTTATCTAGGCC
1 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGTTTCT-ATTTTATCTAGGCC
* * * * * * * *
3969745 ATTTAGTTGAGTCTTGGTTTCACTCTAGTAATTATTTAGATTTCTAGTTTAATCCAGGCT
1 ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGTTTCTA-TTTTATCTAGGCC
* *
3969805 ATTTTGTTGAGTTTTGGTTT
1 ATTTAGTTGAGTCTTGGTTT
3969825 TGCCTTAATC
Statistics
Matches: 217, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
59 50 0.23
60 164 0.76
61 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (59 bp):
ATTTAGTTGAGTCTTGGTTTCACCCAAGTCATTGTTTAGGTTTCTATTTTATCTAGGCC
Found at i:3970135 original size:40 final size:40
Alignment explanation
Indices: 3970068--3970199 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
3970058 TGTCCCTATT
* *
3970068 AACTTTTCTCATCTTTTAACTTGTCGATTTCATCTCGGTC
1 AACTTTTCTCATCTATTAACTTATCGATTTCATCTCGGTC
* * * * *
3970108 AACTTTTTTTATCTATTGACTTATCGATTTCATTTCAGTC
1 AACTTTTCTCATCTATTAACTTATCGATTTCATCTCGGTC
* * * * * *
3970148 ATCTCTTCCCATCCATTAACTAATCGATTTCATCTTGGTC
1 AACTTTTCTCATCTATTAACTTATCGATTTCATCTCGGTC
3970188 AACTATTT-TCAT
1 AACT-TTTCTCAT
3970200 TGTTGACTTA
Statistics
Matches: 70, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.08, T:0.47
Consensus pattern (40 bp):
AACTTTTCTCATCTATTAACTTATCGATTTCATCTCGGTC
Found at i:3971530 original size:6 final size:6
Alignment explanation
Indices: 3971521--3971556 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
3971511 TTTATGATTA
*
3971521 TTAATT TTAATT TTAATT TTAATT TT-CTT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT T
3971557 GGGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:3972500 original size:16 final size:16
Alignment explanation
Indices: 3972475--3972527 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
3972465 AATGTATGCA
* *
3972475 GTTCAAATTATTCTAG
1 GTTCAGATTATTTTAG
*
3972491 GTTCAGATTATTTTAT
1 GTTCAGATTATTTTAG
3972507 GTAT-AGATTATTTTAG
1 GT-TCAGATTATTTTAG
3972523 GTTCA
1 GTTCA
3972528 AGCTAAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (16 bp):
GTTCAGATTATTTTAG
Found at i:3985991 original size:51 final size:51
Alignment explanation
Indices: 3985936--3986047 Score: 215
Period size: 51 Copynumber: 2.2 Consensus size: 51
3985926 TGCTTTGATA
3985936 AAGGGGGAGAATTATATTATATCTAGGGGGAGAAAATCTCTTTAAACGATT
1 AAGGGGGAGAATTATATTATATCTAGGGGGAGAAAATCTCTTTAAACGATT
*
3985987 AAGGGAGAGAATTATATTATATCTAGGGGGAGAAAATCTCTTTAAACGATT
1 AAGGGGGAGAATTATATTATATCTAGGGGGAGAAAATCTCTTTAAACGATT
3986038 AAGGGGGAGA
1 AAGGGGGAGA
3986048 TTTTTTTTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.27
Consensus pattern (51 bp):
AAGGGGGAGAATTATATTATATCTAGGGGGAGAAAATCTCTTTAAACGATT
Found at i:3986598 original size:13 final size:15
Alignment explanation
Indices: 3986566--3986603 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
3986556 AACCCTTGAA
*
3986566 TGTATCGATATGCCT
1 TGTATCGATATGCAT
3986581 TGTATCGAT-T-CAT
1 TGTATCGATATGCAT
3986594 TGTATCGATA
1 TGTATCGATA
3986604 CATATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (15 bp):
TGTATCGATATGCAT
Found at i:3986612 original size:19 final size:19
Alignment explanation
Indices: 3986588--3986625 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3986578 CCTTGTATCG
3986588 ATTCATTGTATCGATACAT
1 ATTCATTGTATCGATACAT
3986607 ATTCATTGTATCGATACAT
1 ATTCATTGTATCGATACAT
3986626 GGACAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
ATTCATTGTATCGATACAT
Found at i:3986636 original size:20 final size:19
Alignment explanation
Indices: 3986591--3986728 Score: 89
Period size: 20 Copynumber: 6.8 Consensus size: 19
3986581 TGTATCGATT
**
3986591 CATTGTATCGATACATATT
1 CATTGTATCGATACATAGA
*
3986610 CATTGTATCGATACATGGA
1 CATTGTATCGATACATAGA
*
3986629 CAATTGTATCGATATAT-GA
1 C-ATTGTATCGATACATAGA
* * * * * * *
3986648 AACTAGCAGTAGCTACCCTACCA
1 CA-TTGTA-TCGATA-CATA-GA
3986671 CTATTTGTATCGATACATAGGA
1 C-AT-TGTATCGATACATA-GA
3986693 CATTGTATCGATACATAGGA
1 CATTGTATCGATACATA-GA
3986713 CATTGTATCGATACAT
1 CATTGTATCGATACAT
3986729 TGAATCAATA
Statistics
Matches: 91, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.01
19 22 0.24
20 51 0.56
21 3 0.03
22 5 0.05
23 6 0.07
24 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATAGA
Found at i:3986740 original size:33 final size:33
Alignment explanation
Indices: 3986692--3986763 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
3986682 GATACATAGG
* *
3986692 ACATTGTATCGATACAT-AGGACATTGTATCGAT
1 ACATTGAATCAATACATGAGGA-ATTGTATCGAT
*
3986725 ACATTGAATCAATACATGATGAATTGTATCGAT
1 ACATTGAATCAATACATGAGGAATTGTATCGAT
3986758 ACATTG
1 ACATTG
3986764 CTTATAACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 32 0.91
34 3 0.09
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (33 bp):
ACATTGAATCAATACATGAGGAATTGTATCGAT
Found at i:3988389 original size:49 final size:48
Alignment explanation
Indices: 3988207--3988404 Score: 146
Period size: 49 Copynumber: 4.2 Consensus size: 48
3988197 TTGACAGAAG
* * * *
3988207 GTACAAAACTAACCCTAAAAGACTTAAATTTGGTTAGTTTCT-ATAAAAA
1 GTACAAAACTAACTCTAAAAGACTCAATTTTGG-TAGTTT-TGATAATAA
* *
3988256 GTACAAAACTAACTCT-AAAG-----ATTTTGGTGTGTTTTGATGATAA
1 GTACAAAACTAACTCTAAAAGACTCAATTTTGGT-AGTTTTGATAATAA
* * *
3988299 GTACAAAACTAACTCTAAAAGACTCGATTTTAGTAGATTTTGATAATAG
1 GTACAAAACTAACTCTAAAAGACTCAATTTTGGTAG-TTTTGATAATAA
* *
3988348 GTACAAAAGTAAC-CTTTAAAGAGC-CAATTTTGGTCAGTTTTGACTAA-AA
1 GTACAAAACTAACTC-TAAAAGA-CTCAATTTTGGT-AGTTTTGA-TAATAA
*
3988397 GTATAAAA
1 GTACAAAA
3988405 TTAAAAGACT
Statistics
Matches: 121, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 31 0.26
44 4 0.03
48 6 0.05
49 72 0.60
50 6 0.05
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (48 bp):
GTACAAAACTAACTCTAAAAGACTCAATTTTGGTAGTTTTGATAATAA
Found at i:3988551 original size:59 final size:58
Alignment explanation
Indices: 3988443--3988682 Score: 268
Period size: 59 Copynumber: 4.1 Consensus size: 58
3988433 AATAAATAGA
* * * *
3988443 CCTTAGATTATGAAAAATAACCTAAAATAACCTTAAAATGCGTAAAAATTGCTAAATGAT
1 CCTTAGATTATGGAAAATAACCT-AAATAACCCTAAAATGCATGAAAATTGCTAAAT-AT
* * * * *
3988503 CTTTAGATCATGGAAAACAATCTAAATAACCCTAAAATTCATGAAAATTGCTAAATAAT
1 CCTTAGATTATGGAAAATAACCTAAATAACCCTAAAATGCATGAAAATTGCTAAAT-AT
* * *
3988562 CCCTAGATTATGGAAAATAACCTAAA-AATCCTAAAATGCATGGAAATTGCTAAATAT
1 CCTTAGATTATGGAAAATAACCTAAATAACCCTAAAATGCATGAAAATTGCTAAATAT
* ** **
3988619 CCTTAGATTATGGAAAATAACCAAAATGAA-CCTAAAATAAATGAAAATAACTAAATAGT
1 CCTTAGATTATGGAAAATAACCTAAAT-AACCCTAAAATGCATGAAAATTGCTAAATA-T
3988678 CCTTA
1 CCTTA
3988683 ATATACAAGA
Statistics
Matches: 152, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
57 26 0.17
58 48 0.32
59 60 0.39
60 18 0.12
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (58 bp):
CCTTAGATTATGGAAAATAACCTAAATAACCCTAAAATGCATGAAAATTGCTAAATAT
Found at i:3988559 original size:29 final size:29
Alignment explanation
Indices: 3988524--3988617 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
3988514 GGAAAACAAT
3988524 CTAAATAACCCTAAAATTCATGAAAATTG
1 CTAAATAACCCTAAAATTCATGAAAATTG
* **
3988553 CTAAATAATCCCT-AGATT-ATGGAAAATAAC
1 CTAAATAA-CCCTAAAATTCAT-GAAAAT-TG
* * *
3988583 CTAAA-AATCCTAAAATGCATGGAAATTG
1 CTAAATAACCCTAAAATTCATGAAAATTG
3988611 CTAAATA
1 CTAAATA
3988618 TCCTTAGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 10 0.20
29 29 0.58
30 11 0.22
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.27
Consensus pattern (29 bp):
CTAAATAACCCTAAAATTCATGAAAATTG
Found at i:3989330 original size:8 final size:8
Alignment explanation
Indices: 3989309--3989343 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
3989299 TTTAGTTGAG
3989309 CTTTTTCTT
1 CTTTTT-TT
*
3989318 TTTTTTTT
1 CTTTTTTT
3989326 CTTTTTTT
1 CTTTTTTT
3989334 CTTTTTTT
1 CTTTTTTT
3989342 CT
1 CT
3989344 CTCTTTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 19 0.79
9 5 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:3995073 original size:20 final size:20
Alignment explanation
Indices: 3995036--3995089 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3995026 TTCTATAATT
*
3995036 TGTATCTATACAATAAGTGAA
1 TGTATCAATAC-ATAAGTGAA
* *
3995057 TGTGTCGATACATAAGTGAA
1 TGTATCAATACATAAGTGAA
3995077 TGTATCAATACAT
1 TGTATCAATACAT
3995090 GCTTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCAATACATAAGTGAA
Found at i:3995173 original size:19 final size:20
Alignment explanation
Indices: 3995147--3995193 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
3995137 CTAGAAAGAA
3995147 AATGTATCGATACATT-TTC
1 AATGTATCGATACATTCTTC
*
3995166 ATTGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
3995186 AATGTATC
1 AATGTATC
3995194 AATATATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:3998977 original size:20 final size:20
Alignment explanation
Indices: 3998927--3998977 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3998917 TTGCCTGCAT
*
3998927 TATCGATACAATAAATAATG
1 TATCGATACATTAAATAATG
* *
3998947 TATCGATACATTGAATCATG
1 TATCGATACATTAAATAATG
3998967 TATCGATACAT
1 TATCGATACAT
3998978 CTGGGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACATTAAATAATG
Found at i:3999066 original size:15 final size:13
Alignment explanation
Indices: 3999035--3999059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3999025 ACAAAACTTA
3999035 TGTATCGATACAT
1 TGTATCGATACAT
3999048 TGTATCGATACA
1 TGTATCGATACA
3999060 AATTGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3999880 original size:52 final size:52
Alignment explanation
Indices: 3999785--4000456 Score: 201
Period size: 52 Copynumber: 12.8 Consensus size: 52
3999775 GTGGGAAAGG
* * *
3999785 TGCCAATATGCTGATTCAAGGCCAACGATATTGAGCTTAAAGATACA-AGGAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTAAAGATA-AGAAGAA
* * * *
3999837 TGTCAATGTGCTGATTCACGGCCAATGACATT-AGACTTGAAGATAAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAAAGATAAGAAGAA
* * * *
3999889 TGCCAATGTACTGATTCAAAGCCAGCGACATTTG-GCTTAGGAATG-TTA-AA-AA
1 TGCCAATGTGCTGATTCAAGGCCAACGACA-TTGAGCTTA--AA-GATAAGAAGAA
* * * * * *
3999941 TGCTAATATACTGATTCAAGGCCAGCGATATT-AGACTCAAAGAT--GATAG--
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAAAGATAAGA-AGAA
* * * * *
3999990 TGCTAATGTGCTGATTCAAGGCCAGCAACATTG-GACTTAAAGAT--GGAG-G
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAAAGATAAGAAGAA
* * *
4000039 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTACGAATG-TTA-AAG-A
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTA--AA-GATAAGAAGAA
* * * * * * *
4000091 TGTCAATATGCTGATTCGAGACCAACAATATCG-GACTTAAAGAT--GATAG--
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAAAGATAAGA-AGAA
* ** * * * * *
4000140 TACCAATGTATTGATTCAAGGCCAGCAACATTG-GATTTAAGGATGAGAAGGATGATAAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAA--A-GATAA-GA--A-GAA
* * * ** *
4000199 GGTGCCAATATGCTGATCCAAGGCCAGCGACATTGAGCTTAGGAATCTTA-AAG-A
1 --TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTA--AAGATAAGAAGAA
* * * ** * *
4000253 TGCCAATATGATAATTCAAGGCCAACGATGTTGGGCTTAAAGATGAGAAAAATGATAAAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTAAAGAT------AA-GA-AGAA
* * * * * **
4000313 GTGCCAATATGCTGATTCAAGACCAATGATATTGGGCTTAAAGATGTGAAGAA
1 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTAAAGATAAGAAGAA
* * * * * *
4000366 TGTCAATGTACTGATTTAAGGCCAGCAACATTG-GACTTAAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAG-CTTAAAGATAAGAAGAA
* * * *
4000418 TGCCAATGTGCTAATTCAAGGCCAGCAACATTAAGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTA
4000457 GGAGGAGATG
Statistics
Matches: 467, Mismatches: 100, Indels: 106
0.69 0.15 0.16
Matches are distributed among these distances:
48 2 0.00
49 106 0.23
50 13 0.03
51 12 0.03
52 235 0.50
53 9 0.02
54 7 0.01
55 3 0.01
56 3 0.01
58 2 0.00
59 1 0.00
60 2 0.00
61 70 0.15
62 1 0.00
63 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGAGCTTAAAGATAAGAAGAA
Found at i:4000011 original size:49 final size:49
Alignment explanation
Indices: 3999841--4000070 Score: 165
Period size: 49 Copynumber: 4.6 Consensus size: 49
3999831 AAGGAATGTC
* ** ** * *
3999841 AATGTGCTGATTCACGGCCAATGACATTAGACTTGAAGATAAGAAGAATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAAGAT-GGAAG--TGCT
* * * * * * ** *
3999893 AATGTACTGATTCAAAGCCAGCGACATTTGGCTTAGGAATGTTAAAAATGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTCA--AA-GATGGAAGTGCT
* * *
3999945 AATATACTGATTCAAGGCCAGCGATATTAGACTCAAAGAT-GATAGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGGA-AGTGCT
* * * * *
3999994 AATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGGAAGTGCT
*
4000043 AATGTGCTAATTCAAGGCCAGCGACATT
1 AATGTGCTGATTCAAGGCCAGCGACATT
4000071 GAGCTTACGA
Statistics
Matches: 142, Mismatches: 31, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.01
49 71 0.50
50 4 0.03
52 59 0.42
54 5 0.04
55 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTAGACTCAAAGATGGAAGTGCT
Found at i:4000083 original size:150 final size:150
Alignment explanation
Indices: 3999889--4000184 Score: 389
Period size: 150 Copynumber: 2.0 Consensus size: 150
3999879 ATAAGAAGAA
* *
3999889 TGCCAATGTACTGATTCAAAGCCAGCGACATTTGGCTTAGGAATGTTAAAAATG-CTAATATACT
1 TGCCAATGTACTAATTCAAAGCCAGCGACATTTGGCTTACGAATGTTAAAAATGTC-AATATACT
* * * * * * *
3999953 GATTCAAGGCCAGCGATATTAGACTCAAAGATGATAGTGCTAATGTGCTGATTCAAGGCCAGCAA
65 GATTCAAGACCAACAATATCAGACTCAAAGATGATAGTACCAATGTACTGATTCAAGGCCAGCAA
4000018 CATTGGACTTAAAGATGGAGG
130 CATTGGACTTAAAGATGGAGG
* * * *
4000039 TGCCAATGTGCTAATTCAAGGCCAGCGACA-TTGAGCTTACGAATGTTAAAGATGTCAATATGCT
1 TGCCAATGTACTAATTCAAAGCCAGCGACATTTG-GCTTACGAATGTTAAAAATGTCAATATACT
* * * *
4000103 GATTCGAGACCAACAATATCGGACTTAAAGATGATAGTACCAATGTATTGATTCAAGGCCAGCAA
65 GATTCAAGACCAACAATATCAGACTCAAAGATGATAGTACCAATGTACTGATTCAAGGCCAGCAA
* *
4000168 CATTGGATTTAAGGATG
130 CATTGGACTTAAAGATG
4000185 AGAAGGATGA
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
149 3 0.02
150 121 0.97
151 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (150 bp):
TGCCAATGTACTAATTCAAAGCCAGCGACATTTGGCTTACGAATGTTAAAAATGTCAATATACTG
ATTCAAGACCAACAATATCAGACTCAAAGATGATAGTACCAATGTACTGATTCAAGGCCAGCAAC
ATTGGACTTAAAGATGGAGG
Found at i:4000348 original size:61 final size:62
Alignment explanation
Indices: 4000248--4000367 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 62
4000238 TAGGAATCTT
* *
4000248 AAAGATGCCAATATGATAATTCAAGGCCAACGATGTTGGGCTTAAAGATGAGAAAAATGATA
1 AAAGATGCCAATATGATAATTCAAGACCAACGATATTGGGCTTAAAGATGAGAAAAATGATA
* * * * *
4000310 AAAG-TGCCAATATGCTGATTCAAGACCAATGATATTGGGCTTAAAGATGTGAAGAATG
1 AAAGATGCCAATATGATAATTCAAGACCAACGATATTGGGCTTAAAGATGAGAAAAATG
4000368 TCAATGTACT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 47 0.92
62 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (62 bp):
AAAGATGCCAATATGATAATTCAAGACCAACGATATTGGGCTTAAAGATGAGAAAAATGATA
Found at i:4000541 original size:32 final size:32
Alignment explanation
Indices: 4000505--4000589 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
4000495 GTTGAAACCG
* *
4000505 ACTTGTGTGGGTTTTAAAGAAAGTTGCCACTA
1 ACTTGTGTGGGCTTTAAAGAAAGTTGCCACCA
4000537 ACTTGTGTGGGCTTTAAAGAAAGTTGCCACCA
1 ACTTGTGTGGGCTTTAAAGAAAGTTGCCACCA
*
4000569 ACTTGTGTGGGCTTTAGAGAA
1 ACTTGTGTGGGCTTTAAAGAA
4000590 GGTTCCTCCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAAAGAAAGTTGCCACCA
Found at i:4000819 original size:28 final size:28
Alignment explanation
Indices: 4000767--4000837 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
4000757 ATACAGCAAC
*
4000767 TGCCACTGA-TTGTGGATTCCGAAAAGA
1 TGCCACTGACTTGTGGATTCCAAAAAGA
*
4000794 TGCCACTGACTTGTGGACTT-CAAAAAGG
1 TGCCACTGACTTGTGGA-TTCCAAAAAGA
*
4000822 TGCCACTGACTAGTGG
1 TGCCACTGACTTGTGG
4000838 GCTTTGAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.23
28 28 0.72
29 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TGCCACTGACTTGTGGATTCCAAAAAGA
Found at i:4002204 original size:12 final size:12
Alignment explanation
Indices: 4002187--4002233 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
4002177 TTTCTTCCCC
4002187 TTTTTTGTTTTT
1 TTTTTTGTTTTT
4002199 TTTTTTGTTTTGT
1 TTTTTTGTTTT-T
*
4002212 TTTGTTTTTTGTTT
1 TTT-TTTGTT-TTT
4002226 TTTTTTGT
1 TTTTTTGT
4002234 AGAGGATGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
13 8 0.27
14 9 0.30
15 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:4002211 original size:17 final size:17
Alignment explanation
Indices: 4002189--4002231 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
4002179 TCTTCCCCTT
4002189 TTTTGTTTTTTTTTTTG
1 TTTTGTTTTTTTTTTTG
*
4002206 TTTTGTTTTGTTTTTTG
1 TTTTGTTTTTTTTTTTG
4002223 TTTT-TTTTT
1 TTTTGTTTTT
4002232 GTAGAGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTGTTTTTTTTTTTG
Found at i:4002214 original size:22 final size:22
Alignment explanation
Indices: 4002189--4002233 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
4002179 TCTTCCCCTT
4002189 TTTTGTTTTTT-TTTTTGTTTTG
1 TTTTGTTTTTTGTTTTT-TTTTG
4002211 TTTTGTTTTTTGTTTTTTTTTG
1 TTTTGTTTTTTGTTTTTTTTTG
4002233 T
1 T
4002234 AGAGGATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (22 bp):
TTTTGTTTTTTGTTTTTTTTTG
Found at i:4007177 original size:27 final size:27
Alignment explanation
Indices: 4007121--4007178 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
4007111 TTAAAAACGG
* * * *
4007121 GGTTGGAGTATTCCTTCTGAAGAATGA
1 GGTTAGAGTATTCCCTCTGAAAAATAA
4007148 GGTTAGAGTATTCCCTC-GAAAAAATAA
1 GGTTAGAGTATTCCCTCTG-AAAAATAA
4007175 GGTT
1 GGTT
4007179 GAAGTATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (27 bp):
GGTTAGAGTATTCCCTCTGAAAAATAA
Found at i:4012009 original size:148 final size:148
Alignment explanation
Indices: 4011715--4011983 Score: 342
Period size: 148 Copynumber: 1.8 Consensus size: 148
4011705 CATAGAAAAC
* * * ** **
4011715 AAAAGCGAACCTACGCTTAATACATACCCTCGACATAGAAGCGAGTCGGTGACAAATTAAGACTC
1 AAAAGCAAACCTACGCCTAATACATACCCTCGACATAGAAACGACCCAATGACAAATTAAGACTC
* * * *
4011780 AATTCTAGAAAATTATGAAAATGCCCTTATGGGTATACCTTCAACATGAAAGTATCCCAGTAACC
66 AATTCTAGAAAATTATAAAAATGCCCCTATAGGTATACCTTCAACATGAAAATATCCCAGTAACC
*
4011845 CTAAAGGACTTAAAAAGA
131 CTAAAAGACTTAAAAAGA
* * * *
4011863 AAAAGCAAACCTATGCCTAATACATACCCTCGACATAGAAATGACCCAATGACAAGTTAGGACTC
1 AAAAGCAAACCTACGCCTAATACATACCCTCGACATAGAAACGACCCAATGACAAATTAAGACTC
** **
4011928 GGTTCTAGAAAAATTATAAAAATGCCCCTA-AGGTATACCTTTGACATGAAAATATC
66 AATTCTAG-AAAATTATAAAAATGCCCCTATAGGTATACCTTCAACATGAAAATATC
4011984 TCGATACATT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
148 82 0.81
149 19 0.19
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (148 bp):
AAAAGCAAACCTACGCCTAATACATACCCTCGACATAGAAACGACCCAATGACAAATTAAGACTC
AATTCTAGAAAATTATAAAAATGCCCCTATAGGTATACCTTCAACATGAAAATATCCCAGTAACC
CTAAAAGACTTAAAAAGA
Found at i:4013827 original size:166 final size:166
Alignment explanation
Indices: 4013619--4014165 Score: 549
Period size: 167 Copynumber: 3.3 Consensus size: 166
4013609 TATCTTATGA
* * * * * *
4013619 AAAAAATGAAAAACTCAT-AGAATAATTTGTATTTTGCAAAACTAATTTAATGTGAATTTAATGA
1 AAAAAATAAAAAACTCATGAAAATAA-ATGAATTTTGCAAAACTAATTTAATATGAATTAAATGA
*
4013683 CAATATTAT-ATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCTCAAAAATATTTATGGAGT
65 CAATATT-TGATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCTCAAAAACATTTATGGAGT
* *
4013747 AGAAAATTCGATTTTTTTAGAACAAGAGA-ATTTTAAGG
129 AGAAAACTCG-TTTTTTTAGAAAAAGAGAGATTTTAAGG
* * * *
4013785 AAAAAATGAAAAATTCATGAAAATAAATGAATTTTTCAAAACTAATTTACTATGAATTAAATGAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTGCAAAACTAATTTAATATGAATTAAATGA-
* * * *
4013850 GAA-ATTTGCTGAATTTTAAAAATTTTAAATCAAGAAAAATTCC-CTTAAAAACATTTATGGAAT
65 CAATATTTGATGAATTTTAAAAATTTTAAATCAAGAAAAA-TCCTCTCAAAAACATTTATGGAGT
* * *
4013913 AGAAAACTC-TGTTTTTCGTAAATAG-GAAGATTTTCAAGG
129 AGAAAACTCGTTTTTTTAG-AAAAAGAG-AGATTTT-AAGG
* * * * ** * * *
4013952 AAAAACTAAAAAACTCAAGAAAATAAATAAATTTTTCAAAACTTCTTTACTATAAATTAAATGAT
1 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTGCAAAACTAATTTAATATGAATTAAATGAC
* * *
4014017 GATATTTGATAAATTTTAAAAAATTTTAAA-CTAAAAAAAAT-CTCTCCAAAAACATTTATGGAG
66 AATATTTGATGAATTTT-AAAAATTTTAAATC-AAGAAAAATCCTCT-CAAAAACATTTATGGAG
* * * * *
4014080 TAGAAAACTCCTTATTTT-GAAAATAGGGAGATTTCAAAG
128 TAGAAAACTCGTTTTTTTAGAAAA-AGAGAGATTTTAAGG
* *
4014119 AAAAAATAAAAAACTCATG-AAATAAAAAGAATTTTGAAAAACTAATT
1 AAAAAATAAAAAACTCATGAAAAT-AAATGAATTTTGCAAAACTAATT
4014166 CAATGGTAAT
Statistics
Matches: 318, Mismatches: 46, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
164 8 0.03
165 6 0.02
166 118 0.37
167 127 0.40
168 53 0.17
169 6 0.02
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (166 bp):
AAAAAATAAAAAACTCATGAAAATAAATGAATTTTGCAAAACTAATTTAATATGAATTAAATGAC
AATATTTGATGAATTTTAAAAATTTTAAATCAAGAAAAATCCTCTCAAAAACATTTATGGAGTAG
AAAACTCGTTTTTTTAGAAAAAGAGAGATTTTAAGG
Found at i:4019299 original size:166 final size:165
Alignment explanation
Indices: 4019123--4019809 Score: 718
Period size: 167 Copynumber: 4.1 Consensus size: 165
4019113 TTTTTTTCTT
* * * *
4019123 CGTAAATTTTTTCAGGAGAATTTTCATGGGTTTAACATTTTGAAAATTCATCAAATA-TATTTAT
1 CGTAAATTTTTTCAGG-GATTTTTCATGGTTTTTA-ATTTTTAAAATTCATCAAATATTA-TTAT
* * * * *
4019187 TTAATTCATATTATATTAGTTTTTACAAATTTATTCATTTTCATTAGTTTTTGAA-TGTTTCCTT
63 TTAATTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTT
** **
4019251 AAAATTTTTCTATTTTTAAAATATGGAGTTTTCTACTC
128 AAAATTTCCCTATTTTTAAAATACAGAGTTTTCTACTC
* * * *
4019289 CGTAAATTTTTTTCGAGGGATTTTTAATGGTTTTTAGTTTTTAATATTTCATAAAATATTATTAT
1 CGTAAA-TTTTTTC-AGGGATTTTTCATGGTTTTTAATTTTTAA-AATTCATCAAATATTATTAT
* * * *
4019354 TTATTTTATAGTAAATCAGTTTTAAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTT
63 TTAATTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTT
* *
4019419 ATAATTTCCCTA-TTTTAGAAATACAGATTTTTCTACTC
128 AAAATTTCCCTATTTTTA-AAATACAGAGTTTTCTACTC
* ** *
4019457 CGTAAATGTTTTT-GGGAGATTTTTGTTGGTTTTTAATTTTTAAAATTTAT-AAATTATTATTAT
1 CGTAAAT-TTTTTCAGG-GATTTTTCATGGTTTTTAATTTTTAAAATTCATCAAA-TATTATTAT
*
4019520 TTATTTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTTCCT
63 TTAATTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAA-TTTTTTCCT
* * *
4019585 TGAAA-TTCTCT-TGTTTTCGAAATACAGAGTTTT-TCACTC
127 TAAAATTTCCCTAT-TTTT-AAAATACAGAGTTTTCT-ACTC
* *
4019624 CGTAAATTTTTTTGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
1 CGTAAA-TTTTTTCAGGGATTTTTCATGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
* * * * *
4019689 AATTTATATTAAATAATTTTTTAAAAATTCATTCATTTTCATGA-ATTTT---TTATTT--TTAA
65 AATTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTTAA
* ** * *
4019748 AATTTTCCTATTTCCAAAATATAGAGTTTTCTATTC
130 AATTTCCCTATTTTTAAAATACAGAGTTTTCTACTC
* *
4019784 TGTAAATGTTTTCAAGGTGATTTTTC
1 CGTAAATTTTTTC-AGG-GATTTTTC
4019810 TCACTTGAAA
Statistics
Matches: 442, Mismatches: 57, Indels: 49
0.81 0.10 0.09
Matches are distributed among these distances:
159 5 0.01
160 29 0.07
161 15 0.03
162 6 0.01
165 3 0.01
166 90 0.20
167 238 0.54
168 56 0.13
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.53
Consensus pattern (165 bp):
CGTAAATTTTTTCAGGGATTTTTCATGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
ATTTATATTAAATTAGTTTTTAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTTAAA
ATTTCCCTATTTTTAAAATACAGAGTTTTCTACTC
Found at i:4020394 original size:13 final size:13
Alignment explanation
Indices: 4020369--4020410 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
4020359 AGGTTCAGCT
*
4020369 GAAA-AAAAAAGA
1 GAAAGAAAAGAGA
4020381 GAAAGAAAAGAGA
1 GAAAGAAAAGAGA
*
4020394 GAAAGAAAAGAGG
1 GAAAGAAAAGAGA
4020407 GAAA
1 GAAA
4020411 AATAGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAGA
Found at i:4022991 original size:2 final size:2
Alignment explanation
Indices: 4022984--4023023 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4022974 TTCACAATTC
4022984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4023024 CACAATTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4023600 original size:7 final size:7
Alignment explanation
Indices: 4023584--4023622 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4023574 ACAACAACTC
*
4023584 ATTTTTA
1 ATTTTCA
4023591 ATTTTCA
1 ATTTTCA
4023598 ATTTTCA
1 ATTTTCA
*
4023605 ATGTTCA
1 ATTTTCA
*
4023612 ATATTCA
1 ATTTTCA
4023619 ATTT
1 ATTT
4023623 CAAAATCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (7 bp):
ATTTTCA
Found at i:4027287 original size:23 final size:23
Alignment explanation
Indices: 4027255--4027315 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4027245 TAATTACAAA
*
4027255 TAAA-ATATTAATATTTATTTAT
1 TAAACATATTAATATTCATTTAT
4027277 TAAACATATTAATATTCATTTAT
1 TAAACATATTAATATTCATTTAT
*
4027300 TAAACAAATTAA-ATTC
1 TAAACATATTAATATTC
4027316 GAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.22
23 28 0.78
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAACATATTAATATTCATTTAT
Found at i:4027756 original size:127 final size:130
Alignment explanation
Indices: 4027497--4027758 Score: 449
Period size: 127 Copynumber: 2.0 Consensus size: 130
4027487 TTCTATTCAG
*
4027497 AATTATTTAATCACGTTTTAATGTTCTTAAACAGCAATTTCATTTAATTTAAATAAATTAACTAA
1 AATTATTTAATCACGTTTTAATGTTCTTAAACAGCAATTTCATTTAATTTAAACAAATT-A-TAA
4027562 ACTAAACTAAACTCAAATAATCACATAATAATTCACTTAAATTCAAACACAATTTTAAAAAAACA
64 ACTAAACTAAACTCAAATAATCACATAATAATTCACTTAAATTCAAACACAATTTTAAAAAAACA
4027627 AA
129 AA
*
4027629 AATTATTTAATCACGTTTTAATGTTCTTAATCAGCAATTTCATTTAATTTAAACAAA-T-T-AAC
1 AATTATTTAATCACGTTTTAATGTTCTTAAACAGCAATTTCATTTAATTTAAACAAATTATAAAC
**
4027691 TAAACTAAACTCAAATAATCACATAATAATTCACTTAAATTCAAACACAATTTTAAAAATTCAAA
66 TAAACTAAACTCAAATAATCACATAATAATTCACTTAAATTCAAACACAATTTTAAAAAAACAAA
4027756 AAT
1 AAT
4027759 AAATTATAAA
Statistics
Matches: 126, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
127 69 0.55
128 1 0.01
131 1 0.01
132 55 0.44
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (130 bp):
AATTATTTAATCACGTTTTAATGTTCTTAAACAGCAATTTCATTTAATTTAAACAAATTATAAAC
TAAACTAAACTCAAATAATCACATAATAATTCACTTAAATTCAAACACAATTTTAAAAAAACAAA
Found at i:4028260 original size:150 final size:153
Alignment explanation
Indices: 4028004--4028289 Score: 454
Period size: 153 Copynumber: 1.9 Consensus size: 153
4027994 TAAAAACTAC
* * *
4028004 ATTCATGTAAACCACAATTGAAATATCTTCTGTTTACAAAATGGAATAAAAAAAAAAACCTTACA
1 ATTCATGTAAACCACAATTGAAATATCGTCCGTTCACAAAATGGAAT-AAAAAAAAAACCTTACA
* *
4028069 GAAATGAATAAAAAAACCCACAGCTCTACCATATAAAG-AAAAAAAAAAAGAAGCCGAAAACGAT
65 GAAATGAATAAAAAAACCCACAGCTCTACCATATAAAGAAAAAAAAAAAAAAAGCCGAAAACGAG
4028133 CCGCCTATAAAAACTACCATTTCT
130 CCGCCTATAAAAACTACCATTTCT
*
4028157 ATTCATGTAAACCACAATTGAAATATCGTCCGTTCACATAATGGAAT-AAAAAAAAA-CTTACAG
1 ATTCATGTAAACCACAATTGAAATATCGTCCGTTCACAAAATGGAATAAAAAAAAAACCTTACAG
*
4028220 AAATGAAATAAAAAAACCC-CAGCTCTACTATATAAAGAAAAAAAAAAAAAAAAGCCGAAAACGA
66 AAATG-AATAAAAAAACCCACAGCTCTACCATATAAAG-AAAAAAAAAAAAAAAGCCGAAAACGA
4028284 GCCGCC
129 GCCGCC
4028290 AAAACTGGGA
Statistics
Matches: 123, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
150 29 0.24
151 22 0.18
152 29 0.24
153 43 0.35
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (153 bp):
ATTCATGTAAACCACAATTGAAATATCGTCCGTTCACAAAATGGAATAAAAAAAAAACCTTACAG
AAATGAATAAAAAAACCCACAGCTCTACCATATAAAGAAAAAAAAAAAAAAAGCCGAAAACGAGC
CGCCTATAAAAACTACCATTTCT
Found at i:4030836 original size:23 final size:23
Alignment explanation
Indices: 4030809--4030854 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4030799 AAATATGATA
4030809 TGTTCTTATATTAATATTGAATC
1 TGTTCTTATATTAATATTGAATC
*
4030832 TGTTCTTATATTAATTTTGAATC
1 TGTTCTTATATTAATATTGAATC
4030855 GATTGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (23 bp):
TGTTCTTATATTAATATTGAATC
Found at i:4031173 original size:235 final size:239
Alignment explanation
Indices: 4030881--4031363 Score: 841
Period size: 236 Copynumber: 2.0 Consensus size: 239
4030871 TCTAATATTC
*
4030881 AATATATAAATATATCATAGTTTATATTATGTATATATATAAATATAATTGTAAATATTAATAAC
1 AATATATAAATATATCATAGTTTATATTATGTATATATATAAATATAATTATAAATATTAATAAC
4030946 TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
66 TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
*
4031011 TAATG-AAAAAATTAAATTAGTTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGA
131 TAATGAAAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGA
4031075 TCTGAAATTTTTAAGAAATAATGA-TTAAAAATTAC-TT-TATAT
196 TCTGAAATTTTTAAGAAATAAT-ATTTAAAAATTACTTTATATAT
* * *
4031117 AATATATAAATATATCATAGTTTAT-TTATGTATATGTATAAATATATTTATAAATATTAATAAT
1 AATATATAAATATATCATAGTTTATATTATGTATATATATAAATATAATTATAAATATTAATAAC
* * *
4031181 TAAATTAAAATAGGTAAATAATAATATTTGAAGGAGAAATAAGATTAATTTAATAATTGATAATA
66 TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
*
4031246 TAATGAAAAAAATTAAATTAATTATTACTCAATTAATTAGCTTAATGTTTAAATTTTATTTAAGA
131 TAATGAAAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGA
4031311 TCTGAAATTTTTAAGAAATAATATTTAAAAATTACTTTATATAT
196 TCTGAAATTTTTAAGAAATAATATTTAAAAATTACTTTATATAT
4031355 AATATATAA
1 AATATATAA
4031364 TTAAATATTT
Statistics
Matches: 234, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
235 103 0.44
236 115 0.49
237 2 0.01
238 14 0.06
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (239 bp):
AATATATAAATATATCATAGTTTATATTATGTATATATATAAATATAATTATAAATATTAATAAC
TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
TAATGAAAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGA
TCTGAAATTTTTAAGAAATAATATTTAAAAATTACTTTATATAT
Found at i:4031416 original size:235 final size:235
Alignment explanation
Indices: 4030881--4031418 Score: 782
Period size: 235 Copynumber: 2.3 Consensus size: 235
4030871 TCTAATATTC
* * * * ** *
4030881 AATATATAAATATATCATAGTTTATATTATGTATATATATAAATATAATTGTAAATATTAATAAC
1 AATATATAAATAAATCATAGTTTAT-TTATGTATATGTACAAATATAATTATAAATAAGAATAAT
4030946 TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
65 TAAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGA
*
4031011 TAATGAAAAAATTAAATTAGTTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGAT
130 TAATGAAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGAT
4031076 CTGAAATTTTTAAGAAATAATGATTAAAAATTACTTTATAT
195 CTGAAATTTTTAAGAAATAATGATTAAAAATTACTTTATAT
* * * **
4031117 AATATATAAATATATCATAGTTTATTTATGTATATGTATAAATATATTTATAAATATTAATAATT
1 AATATATAAATAAATCATAGTTTATTTATGTATATGTACAAATATAATTATAAATAAGAATAATT
* * *
4031182 AAATTAAAATAGGTAAATAATAATATTTGAAGGAGAAATAAGATTAATTTAATAATTGATAATAT
66 AAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGAT
*
4031247 AATGAAAAAAATTAAATTAATTATTACTCAATTAATTAGCTTAATGTTTAAATTTTATTTAAGAT
131 AATG-AAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGAT
4031312 CTGAAATTTTTAAGAAATAAT-ATTTAAAAATTACTTTATATAT
195 CTGAAATTTTTAAGAAATAATGA-TTAAAAATTAC-TT-TATAT
* * * *
4031355 AATATATAATTAAAT-AT-TTTTA-TTATTTTTAT-T-CAAATAGTAATTATTAAATAAGAATAA
1 AATATATAAATAAATCATAGTTTATTTATGTATATGTACAAATA-TAATTA-TAAATAAGAATAA
4031415 TTAA
64 TTAA
4031419 TGAAGATGTG
Statistics
Matches: 278, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
233 5 0.02
234 6 0.02
235 126 0.45
236 119 0.43
237 4 0.01
238 18 0.06
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (235 bp):
AATATATAAATAAATCATAGTTTATTTATGTATATGTACAAATATAATTATAAATAAGAATAATT
AAATTAAAATAGGTAAATAATAATATTTAAAAGAGAAATAAGATTAATTTAATAATTGATAAGAT
AATGAAAAAATTAAATTAATTATTACTCAATTAATTAGCTAAATGTTTAAATTTTATTTAAGATC
TGAAATTTTTAAGAAATAATGATTAAAAATTACTTTATAT
Found at i:4032254 original size:16 final size:16
Alignment explanation
Indices: 4032235--4032268 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4032225 TAGATTTTGA
4032235 TTATTTCAAAGTTAAG
1 TTATTTCAAAGTTAAG
* *
4032251 TTATTTTAAATTTAAG
1 TTATTTCAAAGTTAAG
4032267 TT
1 TT
4032269 TTTATCTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (16 bp):
TTATTTCAAAGTTAAG
Found at i:4035180 original size:13 final size:13
Alignment explanation
Indices: 4035140--4035191 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
4035130 CCGTTATAAG
4035140 CAATGTATCGATA
1 CAATGTATCGATA
4035153 CAA--T-TC-AT-
1 CAATGTATCGATA
4035161 C-ATGTATCGATA
1 CAATGTATCGATA
4035173 CAATGTATCGATA
1 CAATGTATCGATA
4035186 CAATGT
1 CAATGT
4035192 CTTATATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4035182 original size:33 final size:33
Alignment explanation
Indices: 4035140--4035208 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4035130 CCGTTATAAG
*
4035140 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGTC-TCATATATCGATA
*
4035173 CAATGTATCGATACAATGTCTTATATATCGATA
1 CAATGTATCGATACAATGTCTCATATATCGATA
4035206 CAA
1 CAA
4035209 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACAATGTCTCATATATCGATA
Found at i:4035275 original size:13 final size:13
Alignment explanation
Indices: 4035257--4035283 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4035247 TACAATGAAT
4035257 ATGTATCGATACA
1 ATGTATCGATACA
4035270 ATGTATCGATACA
1 ATGTATCGATACA
4035283 A
1 A
4035284 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4035279 original size:32 final size:33
Alignment explanation
Indices: 4035238--4035302 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
4035228 TGCCACTTTC
*
4035238 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAGGAATAATGTATCGATACA
*
4035270 ATGTATCGATACAAGGCATAATGTATCGATACA
1 ATGTATCGATACAAGGAATAATGTATCGATACA
4035303 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAGGAATAATGTATCGATACA
Found at i:4037829 original size:13 final size:13
Alignment explanation
Indices: 4037811--4037837 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4037801 ATAGAAACCC
4037811 ATGTATCGATACA
1 ATGTATCGATACA
4037824 ATGTATCGATACA
1 ATGTATCGATACA
4037837 A
1 A
4037838 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4038241 original size:32 final size:32
Alignment explanation
Indices: 4038165--4038526 Score: 220
Period size: 27 Copynumber: 11.9 Consensus size: 32
4038155 ATTTCTTGTC
*
4038165 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-TT
*
4038198 CCTTTTAAGTCCATAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* * *
4038230 CTTTTTAAGTCCACGATTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* ** *
4038257 CCTTTTAAGCCCACAACTCCAAGGTACTCCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGG--CACCTT-TT
4038292 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
4038324 CTTTTTAAGTCCACGACTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
4038351 CCTTTTAAG-CTTACAACTCCGTGGCA-C----
1 CCTTTTAAGTC-CACAACTCCGTGGCACCTTTT
* *
4038378 CCTTTTAAG-CTTAAAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTC-CACAACTCCGTGGCAC-C-TTTT
* * *
4038412 CCCTTGAAGTCCACAACTCAGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* * *
4038439 CCTTTTAAATCCATAACTCAGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
**
4038466 CCTTTTAAGTCCACAACTCCGTGGCATTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT
** * *
4038499 CCTTTTAACCCCACAAGTCAGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCACC
4038527 CCTTTCAAAG
Statistics
Matches: 264, Mismatches: 42, Indels: 47
0.75 0.12 0.13
Matches are distributed among these distances:
26 1 0.00
27 111 0.42
29 2 0.01
30 1 0.00
31 2 0.01
32 50 0.19
33 56 0.21
34 19 0.07
35 22 0.08
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (32 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
Found at i:4038323 original size:94 final size:92
Alignment explanation
Indices: 4038164--4038370 Score: 315
Period size: 94 Copynumber: 2.2 Consensus size: 92
4038154 CATTTCTTGT
* ** *
4038164 CCCTTTTAAGTCCACAACTCCGTGGCACCTTGTCCCTTTTAAGTCCATAACTCCGTGGCACCTTT
1 CCCTTTTAAGCCCACAACTCCAAGGCACCTTGTCCCTTTTAAGTCCACAACTCCGTGGCACCTTT
*
4038229 TCTTTTTAAGTCCACGATTCCGTGGCA
66 TCTTTTTAAGTCCACGACTCCGTGGCA
* *
4038256 CCCTTTTAAGCCCACAACTCCAAGGTACTCCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCT
1 CCCTTTTAAGCCCACAACTCCAAGG--CACCTTGTCCCTTTTAAGTCCACAACTCCGTGGCACCT
4038321 TTTCTTTTTAAGTCCACGACTCCGTGGCA
64 TTTCTTTTTAAGTCCACGACTCCGTGGCA
**
4038350 CCCTTTTAAGCTTACAACTCC
1 CCCTTTTAAGCCCACAACTCC
4038371 GTGGCACCCT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 22 0.21
94 82 0.79
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (92 bp):
CCCTTTTAAGCCCACAACTCCAAGGCACCTTGTCCCTTTTAAGTCCACAACTCCGTGGCACCTTT
TCTTTTTAAGTCCACGACTCCGTGGCA
Found at i:4038446 original size:88 final size:88
Alignment explanation
Indices: 4038292--4038558 Score: 283
Period size: 88 Copynumber: 3.0 Consensus size: 88
4038282 ACTCCTTGTT
* * * *
4038292 CCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTT
1 CCTTTTAAGTCCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTT
* * *
4038355 TT-AAGCTTACAACTCCGTGGCAC
66 TTAAATC-CACAACTCAGTGGCAC
* * *
4038378 CCTTTTAAG-CTTAAAACTCCGTGGCACTCTTTTTCCCTTGAAGTCCACAACTCAGTGGCACCCT
1 CCTTTTAAGTC-CAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCT
*
4038442 TTTAAATCCATAACTCAGTGGCAC
65 TTTAAATCCACAACTCAGTGGCAC
* * ** *
4038466 CCTTTTAAGTCCACAACTCCGTGGCA-TTTTTTTCCTTTTAACCCCACAAGTCAGTGGCACCCCT
1 CCTTTTAAGTCCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCA-CCCT
* * * *
4038530 TTCAAAGCCCACAAGTCAGTGGCAA
65 TTTAAA-TCCACAACTCAGTGGCAC
4038555 CCTT
1 CCTT
4038559 CAAAAGCACA
Statistics
Matches: 150, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
85 1 0.01
86 23 0.15
87 28 0.19
88 76 0.51
89 22 0.15
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (88 bp):
CCTTTTAAGTCCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCCTT
TTAAATCCACAACTCAGTGGCAC
Found at i:4038558 original size:28 final size:29
Alignment explanation
Indices: 4038508--4038599 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
4038498 TCCTTTTAAC
*
4038508 CCCACAAGTCAGTGGCACCCCTTTC-AAAG
1 CCCACAAGTCAGTGGCA-ACCTTTCAAAAG
4038537 CCCACAAGTCAGTGGCAACC-TTCAAAAG
1 CCCACAAGTCAGTGGCAACCTTTCAAAAG
* **
4038565 CACACAAGTTGGT-GCAACCCTTTCAAAAG
1 CCCACAAGTCAGTGGCAA-CCTTTCAAAAG
4038594 CCCACA
1 CCCACA
4038600 CAAGTTGGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 7 0.13
28 18 0.33
29 30 0.55
ACGTcount: A:0.33, C:0.35, G:0.16, T:0.16
Consensus pattern (29 bp):
CCCACAAGTCAGTGGCAACCTTTCAAAAG
Found at i:4038603 original size:31 final size:30
Alignment explanation
Indices: 4038526--4038609 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 30
4038516 TCAGTGGCAC
**
4038526 CCCTTTC-AAAGCC-CACAAGTCAGTGGCAA
1 CCCTTTCAAAAGCCACACAAGTTGGT-GCAA
4038555 -CC-TTCAAAAG-CACACAAGTTGGTGCAA
1 CCCTTTCAAAAGCCACACAAGTTGGTGCAA
4038582 CCCTTTCAAAAGCCCACACAAGTTGGTG
1 CCCTTTCAAAAG-CCACACAAGTTGGTG
4038610 GCATCTTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
27 8 0.17
28 17 0.36
29 8 0.17
31 14 0.30
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (30 bp):
CCCTTTCAAAAGCCACACAAGTTGGTGCAA
Found at i:4038786 original size:87 final size:87
Alignment explanation
Indices: 4038628--4038918 Score: 442
Period size: 87 Copynumber: 3.3 Consensus size: 87
4038618 TTCTAAGTCT
* *
4038628 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG-ACTAATGTTGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGAAC-AATGTTGCTGGCCTT
*
4038692 GAATCAGCACATTAGCATAAGCCC
64 GAATCAGCACATTGGCATAAGCCC
* *
4038716 AATATCGGT-GCTCTTGAATCAGCATATTGGCACCTTGTCTTTAAGAACAATGTCGCTGGCCTTG
1 AATATCGCTGGC-CTTGAATCAGCATATTGGCACCTTGTCTTTAAGAACAATGTTGCTGGCCTTG
*
4038780 AATCAGCACATTGGCATAAGCCT
65 AATCAGCACATTGGCATAAGCCC
* *
4038803 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCGTTAAGACCAATGTTGCTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGAACAATGTTGCTGGCCTTGA
*
4038868 ATCAGCATATTGGCATAAGCCC
66 ATCAGCACATTGGCATAAGCCC
* *
4038890 ACTATCGCTGGCCTTGAATCAGCACATTG
1 AATATCGCTGGCCTTGAATCAGCATATTG
4038919 ACACAAGCCA
Statistics
Matches: 187, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
87 153 0.82
88 34 0.18
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGAACAATGTTGCTGGCCTTGA
ATCAGCACATTGGCATAAGCCC
Done.