Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold186
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: 1043505
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 56388 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:772721 original size:8 final size:8
Alignment explanation
Indices: 772708--772786 Score: 83
Period size: 8 Copynumber: 9.8 Consensus size: 8
772698 CCTTCTTTTT
772708 AAAAAACA
1 AAAAAACA
772716 AAAAAACA
1 AAAAAACA
772724 ACACAAAA-A
1 A-A-AAAACA
*
772733 ACAAAACA
1 AAAAAACA
*
772741 ATAAAACA
1 AAAAAACA
772749 AAAAAA-A
1 AAAAAACA
772756 AAAACAA-A
1 AAAA-AACA
772764 AAAAAACAA
1 AAAAAAC-A
772773 AAAAAACA
1 AAAAAACA
772781 AAAAAA
1 AAAAAA
772787 ATAAAAGAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
7 11 0.18
8 36 0.58
9 11 0.18
10 4 0.06
ACGTcount: A:0.86, C:0.13, G:0.00, T:0.01
Consensus pattern (8 bp):
AAAAAACA
Found at i:772733 original size:20 final size:19
Alignment explanation
Indices: 772708--772787 Score: 89
Period size: 19 Copynumber: 4.3 Consensus size: 19
772698 CCTTCTTTTT
772708 AAAAAACAAAAAAACAACAC
1 AAAAAACAAAAAAACAA-AC
772728 AAAAAACAAAACAATA-AAAC
1 AAAAAACAAAA-AA-ACAAAC
772748 -AAAAA-AAAAAAACAAA-
1 AAAAAACAAAAAAACAAAC
772764 AAAAAACAAAAAAAACAAA-
1 AAAAAAC-AAAAAAACAAAC
772783 AAAAA
1 AAAAA
772788 TAAAAGAGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.02
17 10 0.19
18 4 0.07
19 21 0.39
20 13 0.24
21 4 0.07
22 1 0.02
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.01
Consensus pattern (19 bp):
AAAAAACAAAAAAACAAAC
Found at i:772777 original size:13 final size:13
Alignment explanation
Indices: 772709--772792 Score: 80
Period size: 13 Copynumber: 6.3 Consensus size: 13
772699 CTTCTTTTTA
772709 AAAAACAAAAAAAC
1 AAAAA-AAAAAAAC
* *
772723 -AACACAAAAAAC
1 AAAAAAAAAAAAC
* *
772735 AAAACAATAAAAC
1 AAAAAAAAAAAAC
772748 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
772761 AAAAAAAAACAAAA
1 AAAAAAAAA-AAAC
*
772775 AAAACAAAAAAAAT
1 AAAA-AAAAAAAAC
772789 AAAA
1 AAAA
772793 GAGAGCAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
12 7 0.12
13 31 0.54
14 14 0.25
15 5 0.09
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:773992 original size:61 final size:61
Alignment explanation
Indices: 773874--774579 Score: 773
Period size: 61 Copynumber: 11.8 Consensus size: 61
773864 GATGCCTTGC
* *
773874 AAAGCACACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAAGACG------CCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* *
773929 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAATGAGCAGGATGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * *
773990 AAAGCCCACACAAGTTGGTCGCACTTTTTAGTCCT-AAAGGGCATGATGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * *
774050 AAAGCACACACAAGTTGGTAGCACTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
*
774111 AAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACT-TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * * ** * ** *
774173 AAAGCCTACACATGTTGGTTGCACCTTCCAGTCCTCCAAGATTAGGATGCC-TTT-C----
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * * *
774228 AAAGCTCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * *
774288 AAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTCGAAGAGCAAGACGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * ** * *
774350 AAAACCCACACAGGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTT
* * * *
774411 AAAGCCCACACAAGCTGGTGGCAC-CTTCAGCCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * **
774471 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATG-CTTTCACCTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTT
* * * * *
774532 AAAGCCAACACAAGTTGGTGGCACCTTCTAGTCCACAAGGAGCAGGAC
1 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAC
774580 CCATTTTATT
Statistics
Matches: 551, Mismatches: 79, Indels: 36
0.83 0.12 0.05
Matches are distributed among these distances:
54 19 0.03
55 61 0.11
56 6 0.01
59 1 0.00
60 135 0.25
61 221 0.40
62 108 0.20
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
Found at i:774083 original size:121 final size:121
Alignment explanation
Indices: 773874--774579 Score: 784
Period size: 121 Copynumber: 5.9 Consensus size: 121
773864 GATGCCTTGC
* * * *
773874 AAAGCACACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCA--A-GAC---GCCTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCACTTTCT-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
* *
773932 GCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAATGAGCAGGATGCCTTTTCCTTTT
65 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA-GAGCAGGACGCCTTTTCCTTTT
* * * *
773990 AAAGCCCACACAAGTTGGTCGCACTTTTTAGTCCT-AAAGGGCATGATGCCTTTTCCTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG
* * *
774054 CACACACAAGTTGGTAGCACTTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
66 CCCACACAAGTTGGTGGCACTTTTCAGTCCTC-AAGAGCAGGACGCCTTTTCCTTTT
*
774111 AAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCACT-TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
* * * * * ** *
774176 GCCTACACATGTTGGTTGCACCTTCCAGTCCTCCAAGATTAGGATGCC-TTT-C----
65 GCCCACACAAGTTGGTGGCACTTTTCAGTCCT-CAAGAGCAGGACGCCTTTTCCTTTT
* * * * *
774228 AAAGCTCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG
* *
774292 CCCACACAAGTTAGTGGCACTTTTCTAGTCCTCGAAGAGCAAGACGCCTTTTCCTTTT
66 CCCACACAAGTTGGTGGCACTTTTC-AGTCCTC-AAGAGCAGGACGCCTTTTCCTTTT
* * * * *
774350 AAAACCCACACAGGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAA
1 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAA
* * *
774414 GCCCACACAAGCTGGTGGCAC-CTTCAGCCCTCAAAGAGCAGGACGCCTTTTCCTTTT
65 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTC-AAGAGCAGGACGCCTTTTCCTTTT
* **
774471 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATG-CTTTCACCTTGCAAA
1 AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAA
* * *
774535 GCCAACACAAGTTGGTGGCAC-CTTCTAGTCCACAAGGAGCAGGAC
65 GCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAA-GAGCAGGAC
774580 CCATTTTATT
Statistics
Matches: 505, Mismatches: 62, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
115 62 0.12
116 46 0.09
117 31 0.06
118 3 0.01
121 196 0.39
122 59 0.12
123 107 0.21
124 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (121 bp):
AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG
CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAGAGCAGGACGCCTTTTCCTTTT
Found at i:776517 original size:17 final size:17
Alignment explanation
Indices: 776495--776528 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
776485 ATAGTGATAC
776495 GTGAACAGGGATGAACA
1 GTGAACAGGGATGAACA
*
776512 GTGAACAGTGATGAACA
1 GTGAACAGGGATGAACA
776529 ATGTAGCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.32, T:0.15
Consensus pattern (17 bp):
GTGAACAGGGATGAACA
Found at i:779975 original size:21 final size:21
Alignment explanation
Indices: 779950--780004 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
779940 CACTTGCAAC
*
779950 TCATTTCTTTTCTCTTCTAAT
1 TCATTTATTTTCTCTTCTAAT
*
779971 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCTTCTAAT
* *
779992 TCACTTAATTTCT
1 TCATTTATTTTCT
780005 TTTCAAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (21 bp):
TCATTTATTTTCTCTTCTAAT
Found at i:780005 original size:21 final size:21
Alignment explanation
Indices: 779958--780008 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
779948 ACTCATTTCT
* * *
779958 TTTCTCTTCTAATTCATTTAT
1 TTTCTTTTCTAATTCACTTAA
779979 TTTCTTTTCTAATTCACTTAA
1 TTTCTTTTCTAATTCACTTAA
780000 TTTCTTTTC
1 TTTCTTTTC
780009 AAGAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCTTTTCTAATTCACTTAA
Found at i:781611 original size:32 final size:33
Alignment explanation
Indices: 781531--781622 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 33
781521 AATTGTTTAC
*
781531 CTTT-AAGGCTAAGATATAACC-TTACACCCCTAT
1 CTTTCAAGGCTAAGATAGAACCTTTACA--CCTAT
781564 CTTTTACAAAGGCTAAGATAGAACCTTTACA-CTAT
1 C-TTT-C-AAGGCTAAGATAGAACCTTTACACCTAT
781599 CTTTCAAGGCTAAGATAGAACCTT
1 CTTTCAAGGCTAAGATAGAACCTT
781623 CCAATCACTT
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
32 19 0.36
33 2 0.04
34 6 0.11
35 5 0.09
37 16 0.30
38 5 0.09
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (33 bp):
CTTTCAAGGCTAAGATAGAACCTTTACACCTAT
Found at i:782107 original size:33 final size:33
Alignment explanation
Indices: 782065--782129 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
782055 TTGGACTCAA
*
782065 TGTATCGATACTATTCACAATATATCGATACAC
1 TGTATCGATACTATTCACAATATATCAATACAC
* *
782098 TGTATCGATACTATTCACCATGTATCAATACA
1 TGTATCGATACTATTCACAATATATCAATACA
782130 TGAACAGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (33 bp):
TGTATCGATACTATTCACAATATATCAATACAC
Found at i:782123 original size:20 final size:20
Alignment explanation
Indices: 782064--782128 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 20
782054 GTTGGACTCA
*
782064 ATGTATCGATACTATTCACA
1 ATGTATCGATACTATTCACC
*
782084 ATATATCG--A-TA--CA-C
1 ATGTATCGATACTATTCACC
782098 -TGTATCGATACTATTCACC
1 ATGTATCGATACTATTCACC
*
782117 ATGTATCAATAC
1 ATGTATCGATAC
782129 ATGAACAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
13 6 0.18
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 1 0.03
20 17 0.50
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACTATTCACC
Found at i:782158 original size:52 final size:51
Alignment explanation
Indices: 782098--782202 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 51
782088 ATCGATACAC
* *
782098 TGTATCGATACTATTCACCATGTATCAATACATGAACAGTGATGAACAGTGA
1 TGTATCGATACTATTCACAATGTATCAATACATGAACAGT-ATGAACAATGA
782150 TGTATCGATACTATTCACAATGTATCAATACATGAACAGTATGAACAATGA
1 TGTATCGATACTATTCACAATGTATCAATACATGAACAGTATGAACAATGA
782201 TG
1 TG
782203 AACAATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 12 0.24
52 39 0.76
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (51 bp):
TGTATCGATACTATTCACAATGTATCAATACATGAACAGTATGAACAATGA
Found at i:782399 original size:23 final size:22
Alignment explanation
Indices: 782373--782422 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
782363 ATGTATCGAT
782373 ACATTATGTATTTACTTTGAAAA
1 ACATTATGTATTTAC-TTGAAAA
* * *
782396 ACATTATTTCTTTGCTTGAAAA
1 ACATTATGTATTTACTTGAAAA
782418 ACATT
1 ACATT
782423 TAATCATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (22 bp):
ACATTATGTATTTACTTGAAAA
Found at i:784158 original size:28 final size:29
Alignment explanation
Indices: 784126--784181 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
784116 TTTCATAATC
*
784126 GGGGATACTCCAATCCCG-TTATTTCTGA
1 GGGGATACTCCAAACCCGATTATTTCTGA
784154 GGGGATACTCCAAACCCGATTTATTTCT
1 GGGGATACTCCAAACCCGA-TTATTTCT
784182 AAAACACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
30 8 0.32
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (29 bp):
GGGGATACTCCAAACCCGATTATTTCTGA
Found at i:784227 original size:129 final size:127
Alignment explanation
Indices: 784077--784308 Score: 349
Period size: 129 Copynumber: 1.8 Consensus size: 127
784067 TTCATCTCGA
* * * * * *
784077 GGATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCC
784142 CGTTATTTC-TGAGGGGATACTCCAAACCCGATTTATTTCTAAAACACCAATTTTCCATAATCGG
66 CGTTATTTCAT-AGGGGATACTCCAAACCCG--TTATTTCTAAAACACCAATTTTCCATAATCGG
*
784206 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCC
* *
784271 CGTTATTTCATCGGGGATACTCCAATCCCGTTATTTCT
66 CGTTATTTCATAGGGGATACTCCAAACCCGTTATTTCT
784309 GAGGGGATAC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
127 8 0.09
129 84 0.90
130 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (127 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCC
CGTTATTTCATAGGGGATACTCCAAACCCGTTATTTCTAAAACACCAATTTTCCATAATCGG
Found at i:784244 original size:51 final size:49
Alignment explanation
Indices: 784154--784270 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 49
784144 TTATTTCTGA
* *
784154 GGGGATACTCCAAACCCGATTTATTTCTAAAACACCAATTTTCCATAATC
1 GGGGATACTCC-AACCCGATTTATTTCCAAAACACCAATTTTCCACAATC
*
784204 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CCGA-TTTATTTCCAAAACACCAATTTTCCACAATC
*
784255 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
784271 CGTTATTTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
49 3 0.05
50 17 0.28
51 41 0.67
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.28
Consensus pattern (49 bp):
GGGGATACTCCAACCCGATTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:784288 original size:28 final size:28
Alignment explanation
Indices: 784252--784326 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
784242 ATTTTTCACA
*
784252 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
784280 ATCGGGGATACTCCAATCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
784308 -TGAGGGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
784327 TGTGTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:784335 original size:107 final size:107
Alignment explanation
Indices: 784204--784407 Score: 270
Period size: 107 Copynumber: 1.9 Consensus size: 107
784194 TTCCATAATC
*
784204 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
* *
784269 CCCGTTA-TTTCATCGGGGATACTCCAATCCCGTTATTTCTGA
66 CCCGTTATTTTCAT-AGGGATACTCCAACCCCGTTATTTCTGA
* * *** * *
784311 GGGGATACTCCAAC-CCTG-TGTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTGCA
1 GGGGATACTCCAACTCC-GAT-TTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCA
784374 ACCCCGTTATTTTCATAGGGATACTCCAACCCCG
64 ACCCCGTTATTTTCATAGGGATACTCCAACCCCG
784408 ACCTTATTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 3 0.04
107 75 0.89
108 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
CCCGTTATTTTCATAGGGATACTCCAACCCCGTTATTTCTGA
Found at i:784363 original size:79 final size:79
Alignment explanation
Indices: 784280--784539 Score: 263
Period size: 79 Copynumber: 3.3 Consensus size: 79
784270 CCGTTATTTC
* * *** *
784280 ATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCTGTGTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCTAAAAC
*
784345 ATTGATTTCTCACA
66 ATAGATTTCTCACA
*
784359 ATCGGGGATACTGCAACCCCGTTATTTTCAT-A-GGGATACTCCAACCCCGACCTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTA-TTTC-TGAGGGGATACTCCAACCCCGACCTTATTTCTAAA
* * * *
784422 GCATAGATTTTTTATA
64 ACATAGATTTCTCACA
* * ** * *
784438 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTTAGAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCTAAAAC
** * *
784503 ACCGATTTTTCATA
66 ATAGATTTCTCACA
* * *
784517 ATTGGGGATACTCTAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
784540 GTTATCCTCA
Statistics
Matches: 150, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 5 0.03
79 139 0.93
80 5 0.03
81 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTATTTCTAAAAC
ATAGATTTCTCACA
Found at i:785730 original size:15 final size:15
Alignment explanation
Indices: 785710--785738 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
785700 ACCATCAAAG
785710 ATGATGAAGATGATA
1 ATGATGAAGATGATA
785725 ATGATGAAGATGAT
1 ATGATGAAGATGAT
785739 GACTCAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
ATGATGAAGATGATA
Found at i:791833 original size:13 final size:13
Alignment explanation
Indices: 791815--791844 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
791805 CAATTCATCG
*
791815 TGTATCGATATAA
1 TGTATCGATACAA
791828 TGTATCGATACAA
1 TGTATCGATACAA
791841 TGTA
1 TGTA
791845 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:801791 original size:19 final size:20
Alignment explanation
Indices: 801767--801819 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
801757 ATCGATATAA
**
801767 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
*
801786 TGTATCAATACATGGACAAT
1 TGTATCGATACATGGACAAT
801806 TGTATCGATACATG
1 TGTATCGATACATG
801820 AAACTTGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:802884 original size:52 final size:51
Alignment explanation
Indices: 802828--802998 Score: 139
Period size: 52 Copynumber: 3.2 Consensus size: 51
802818 AATCAGCCTG
*
802828 TTGGCACATTTATTTTCTTTAAGTCCATTCTCCTTGGCCTTGAATTAACACA
1 TTGGCAC-TTTATTTTCTTTAAGTCCATTCTCCTTGGCCTTGAATCAACACA
* * * * *
802880 TTGGCACTTGTCAAACTCTCTTTCTCAAGTCTGATATC-GC-TGGCCTTGAATCAACATA
1 TTGGCACTT-T---ATTTTC-TT-T-AAGTC-CAT-TCTCCTTGGCCTTGAATCAACACA
* * * *
802938 TTGGCACCTTCATTTTCTTTAAGTCCATTATCGTTGGCCTTAAATCAACACA
1 TTGGCA-CTTTATTTTCTTTAAGTCCATTCTCCTTGGCCTTGAATCAACACA
802990 TTGGCACTT
1 TTGGCACTT
802999 CTCAAACTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
50 1 0.01
51 7 0.08
52 35 0.38
53 1 0.01
54 2 0.02
55 8 0.09
56 2 0.02
57 1 0.01
58 27 0.29
59 6 0.07
60 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (51 bp):
TTGGCACTTTATTTTCTTTAAGTCCATTCTCCTTGGCCTTGAATCAACACA
Found at i:803054 original size:220 final size:218
Alignment explanation
Indices: 802658--803069 Score: 554
Period size: 220 Copynumber: 1.9 Consensus size: 218
802648 GCTTTTAAAT
* * * * *
802658 ACATTGGCGCTTATCAAACTTTTTTTCTCAAGTCCGATATTGCTGGCCTTGAATCAGCATAATGG
1 ACATTGGCACTTATCAAACTCTCTTTCTCAAGTCCGATATCGCTGGCCTTGAATCAACATAATGG
* * * *
802723 CACCTAATTTTCTTTAAGTTCATTGTCATTGGCCTTGAATCAACACTTTGGCACTTATCAAACTT
66 CACCTAATTTTCTTTAAGTCCATTATCATTGGCCTTAAATCAACACATTGGCACTTATCAAACTT
* * * * *
802788 TATTTTTCAAGTCTAATATCACTGGCCTTAAATCAGCCTGTTGGCACATTTATTTTCTTTAAGTC
131 TATTTTGCAAGTCTAATATCACTGACCTTAAATCAGCATATTGGCACATTTA-TATCTTTAAGTC
802853 CATTCTCCTTGGCCTTGAATTAAC
195 CATTCTCCTTGGCCTTGAATTAAC
* * *
802877 ACATTGGCACTTGTCAAACTCTCTTTCTCAAGTCTGATATCGCTGGCCTTGAATCAACATATTGG
1 ACATTGGCACTTATCAAACTCTCTTTCTCAAGTCCGATATCGCTGGCCTTGAATCAACATAATGG
* * *
802942 CACCTTCATTTTCTTTAAGTCCATTATCGTTGGCCTTAAATCAACACATTGGCACTTCTCAAACT
66 CACC-TAATTTTCTTTAAGTCCATTATCATTGGCCTTAAATCAACACATTGGCACTTATCAAACT
* * * * * * * *
803007 TTCTTTTGCAAGTCTGATGTCGCTGACTTTGAATTAGCATATTGGCACCTTTATATCTTTAAG
130 TTATTTTGCAAGTCTAATATCACTGACCTTAAATCAGCATATTGGCACATTTATATCTTTAAG
803070 CTGAATGTCA
Statistics
Matches: 164, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
219 70 0.43
220 94 0.57
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (218 bp):
ACATTGGCACTTATCAAACTCTCTTTCTCAAGTCCGATATCGCTGGCCTTGAATCAACATAATGG
CACCTAATTTTCTTTAAGTCCATTATCATTGGCCTTAAATCAACACATTGGCACTTATCAAACTT
TATTTTGCAAGTCTAATATCACTGACCTTAAATCAGCATATTGGCACATTTATATCTTTAAGTCC
ATTCTCCTTGGCCTTGAATTAAC
Found at i:803055 original size:110 final size:110
Alignment explanation
Indices: 802658--803057 Score: 498
Period size: 110 Copynumber: 3.6 Consensus size: 110
802648 GCTTTTAAAT
* * * *
802658 ACATTGGCGCTTATCAAACTTT-TTTTCTCAAGTCCGATATTGCTGGCCTTGAATCAGCATAATG
1 ACATTGGCACTTATCAAACTTTCTTTT-TCAAGTCTGATATCGCTGGCCTTGAATCAGCATATTG
* *
802722 GCACC-TAATTTTCTTTAAGTTCATTGTCATTGGCCTTGAATCAAC
65 GCACCTTAATTTTCTTTAAGTCCATTATCATTGGCCTTGAATCAAC
* * * * * * *
802767 ACTTTGGCACTTATCAAACTTTATTTTTCAAGTCTAATATCACTGGCCTTAAATCAGCCTGTTGG
1 ACATTGGCACTTATCAAACTTTCTTTTTCAAGTCTGATATCGCTGGCCTTGAATCAGCATATTGG
* * * * *
802832 CACATTTATTTTCTTTAAGTCCATTCTCCTTGGCCTTGAATTAAC
66 CACCTTAATTTTCTTTAAGTCCATTATCATTGGCCTTGAATCAAC
* * * *
802877 ACATTGGCACTTGTCAAACTCTCTTTCTCAAGTCTGATATCGCTGGCCTTGAATCAACATATTGG
1 ACATTGGCACTTATCAAACTTTCTTTTTCAAGTCTGATATCGCTGGCCTTGAATCAGCATATTGG
* * *
802942 CACCTTCATTTTCTTTAAGTCCATTATCGTTGGCCTTAAATCAAC
66 CACCTTAATTTTCTTTAAGTCCATTATCATTGGCCTTGAATCAAC
* * * * * *
802987 ACATTGGCACTTCTCAAACTTTCTTTTGCAAGTCTGATGTCGCTGACTTTGAATTAGCATATTGG
1 ACATTGGCACTTATCAAACTTTCTTTTTCAAGTCTGATATCGCTGGCCTTGAATCAGCATATTGG
803052 CACCTT
66 CACCTT
803058 TATATCTTTA
Statistics
Matches: 247, Mismatches: 42, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
109 53 0.21
110 194 0.79
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (110 bp):
ACATTGGCACTTATCAAACTTTCTTTTTCAAGTCTGATATCGCTGGCCTTGAATCAGCATATTGG
CACCTTAATTTTCTTTAAGTCCATTATCATTGGCCTTGAATCAAC
Found at i:803088 original size:51 final size:52
Alignment explanation
Indices: 803033--803364 Score: 366
Period size: 52 Copynumber: 6.4 Consensus size: 52
803023 ATGTCGCTGA
* **
803033 CTTTGAATTAGCATATTGGCACCTTTAT-ATCTTTAAGCTGAATGTCACTAG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTCAATGTTGCTAG
*
803084 CTTTGAATTAGCATTTTGGCACCTTTAT-ATCTTTAAGCTCAATGTTGCTAG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTCAATGTTGCTAG
* *
803135 CTTTGAATTAGCATATTGGCACCTTTGTCATCTTTAAG-TCTAATGTTGCTGG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTC-AATGTTGCTAG
* * *
803187 CCTTGAATTAGCATATTAGCACCTTTATCATCTTTAAGCTCAATTTTGCTAG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTCAATGTTGCTAG
* * * * * * *
803239 CTCTGAATCAGCATCTTGGTACCTTTGTCATCTTTAAG-TCCAATGTGGCTGG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCT-CAATGTTGCTAG
* * * * * * * * *
803291 CCTTGAATCAGCACAATGGCACCTTTATCAACATTAAGTTCGATGTTGCAAG
1 CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTCAATGTTGCTAG
* * *
803343 CCTTGAATTTGCACATTGGCAC
1 CTTTGAATTAGCATATTGGCAC
803365 ATAACCCGAG
Statistics
Matches: 238, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
51 76 0.32
52 159 0.67
53 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (52 bp):
CTTTGAATTAGCATATTGGCACCTTTATCATCTTTAAGCTCAATGTTGCTAG
Found at i:812077 original size:20 final size:21
Alignment explanation
Indices: 812028--812078 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
812018 AATAATTTAC
* *
812028 ATTGATACAAGTAGTAAATTT
1 ATTGATACATGTAGTAAATAT
* *
812049 ATAGATACATG-AGTGAATAT
1 ATTGATACATGTAGTAAATAT
812069 ATTGATACAT
1 ATTGATACAT
812079 TCCTAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTGATACATGTAGTAAATAT
Found at i:815336 original size:20 final size:20
Alignment explanation
Indices: 815311--815367 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
815301 GTAAAAAGAC
815311 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
815331 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
815351 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
815368 CTAAGTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:828445 original size:20 final size:20
Alignment explanation
Indices: 828420--828469 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
828410 AGATGTATCA
828420 ATACATTTTACAATGAATCG
1 ATACATTTTACAATGAATCG
*
828440 ATACATTCTT-CAATGTATCG
1 ATACATT-TTACAATGAATCG
828460 ATACATTTTA
1 ATACATTTTA
828470 TCTTTTTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (20 bp):
ATACATTTTACAATGAATCG
Found at i:828486 original size:71 final size:70
Alignment explanation
Indices: 828381--828516 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 70
828371 ACGTTGAAAA
*
828381 AATGTATCGATACATTCTGTCTTTTACCCAGATGTATCAATACATTTTACAATGAATCGATACAT
1 AATGTATCGATACATTCTATCTTTTACCCAGATGTATCAATACATTTTACAATGAATCGATACAT
828446 TCTTC
66 TCTTC
* * * * *
828451 AATGTATCGATACATTTTATCTTTTTACCCAGATGTATCAATACTTTTTTCAATGTATTGATACA
1 AATGTATCGATACATTCTATC-TTTTACCCAGATGTATCAATACATTTTACAATGAATCGATACA
828516 T
65 T
828517 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
70 19 0.32
71 40 0.68
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.42
Consensus pattern (70 bp):
AATGTATCGATACATTCTATCTTTTACCCAGATGTATCAATACATTTTACAATGAATCGATACAT
TCTTC
Found at i:831011 original size:20 final size:20
Alignment explanation
Indices: 830986--831110 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
830976 TTTTACCCAA
830986 ATGTATCGATACATTTTTCG
1 ATGTATCGATACATTTTTCG
831006 ATGTATCGATACATTCTGTCTTTTACCTAG
1 ATGTATCGATACA-----T-TTTT--C--G
* *
831036 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCG
* * *
831056 ATATATCGATACATGTAT-G
1 ATGTATCGATACATTTTTCG
* *
831075 AATGTATCGATACATTCTTCA
1 -ATGTATCGATACATTTTTCG
*
831096 ATGTATTGATACATT
1 ATGTATCGATACATT
831111 CTGTCTTTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
20 55 0.69
22 1 0.01
24 3 0.04
25 2 0.03
26 4 0.05
28 1 0.01
30 14 0.17
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCG
Found at i:831063 original size:50 final size:50
Alignment explanation
Indices: 830976--831141 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 50
830966 AAAGTCACAT
* * *
830976 TTTTACCCAAATGTATCGATACATTTTTCGATGTATCGATACATTCTGTC
1 TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
* *
831026 TTTTACCTAGATGTATCGATACATTCTTCAATATATCGATACA---TG--
1 TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
** *
831071 ---TA-TGA-ATGTATCGATACATTCTTCAATGTATTGATACATTCTGTC
1 TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
*
831116 TTTTTGCCCAGATGTATCGATACATT
1 -TTTTACCCAGATGTATCGATACATT
831142 GATTCAATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
40 31 0.33
41 1 0.01
42 2 0.02
43 2 0.02
47 2 0.02
49 1 0.01
50 39 0.42
51 15 0.16
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (50 bp):
TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
Found at i:831111 original size:20 final size:20
Alignment explanation
Indices: 831036--831112 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
831026 TTTTACCTAG
831036 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* * *
831056 ATATATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
831076 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
831096 ATGTATTGATACATTCT
1 ATGTATCGATACATTCT
831113 GTCTTTTTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:832481 original size:13 final size:13
Alignment explanation
Indices: 832463--832488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832453 CAATTTTTTG
832463 TGTATCGATACAT
1 TGTATCGATACAT
832476 TGTATCGATACAT
1 TGTATCGATACAT
832489 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:841278 original size:20 final size:21
Alignment explanation
Indices: 841248--841301 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
841238 TACAAGCCAA
* *
841248 TGTATTCGATACAAT-TTTTTG
1 TGTA-TCGATACAATACTTTGG
*
841269 TGTATCGATAC-GTACTTTGG
1 TGTATCGATACAATACTTTGG
841289 TGTATCGATACAA
1 TGTATCGATACAA
841302 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:842002 original size:39 final size:39
Alignment explanation
Indices: 841927--842017 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
841917 TTTTCTTTCT
841927 CCCTTAATTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATTAAAGTAATTTTAACAAATTCG-ACATTCTCC
* *
841967 CCCTTAA-TAAGGTAATTTTAGCAAATTTACG-CATTCTCC
1 CCCTTAATTAAAGTAATTTTAACAAA-TT-CGACATTCTCC
* *
842006 CCTTTTATTAAA
1 CCCTTAATTAAA
842018 AAATCTCCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 29 0.67
40 12 0.28
41 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (39 bp):
CCCTTAATTAAAGTAATTTTAACAAATTCGACATTCTCC
Found at i:843732 original size:21 final size:22
Alignment explanation
Indices: 843698--843738 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
843688 GCTGGTTTTG
843698 ATGAAAAACGAAGTAATTTGAA
1 ATGAAAAACGAAGTAATTTGAA
*
843720 ATGAAAAAC-AAGTATTTTG
1 ATGAAAAACGAAGTAATTTG
843739 CAAAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (22 bp):
ATGAAAAACGAAGTAATTTGAA
Found at i:848915 original size:33 final size:33
Alignment explanation
Indices: 848878--848942 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
848868 TACAAGCCAA
* *
848878 TGTATCGATACA-ATTTTCTGTGTATCGATACAT
1 TGTATCGATACATACTTT-GGTGTATCGATACAT
848911 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
848943 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:848916 original size:13 final size:13
Alignment explanation
Indices: 848898--848923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
848888 CAATTTTCTG
848898 TGTATCGATACAT
1 TGTATCGATACAT
848911 TGTATCGATACAT
1 TGTATCGATACAT
848924 ACTTTGGTGT
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:854730 original size:14 final size:14
Alignment explanation
Indices: 854711--854737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
854701 CGTACAAAAA
854711 AAAAACAAACAAAC
1 AAAAACAAACAAAC
854725 AAAAACAAACAAA
1 AAAAACAAACAAA
854738 AAGAAGGGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACAAACAAAC
Found at i:856030 original size:28 final size:29
Alignment explanation
Indices: 855955--856198 Score: 260
Period size: 28 Copynumber: 8.7 Consensus size: 29
855945 CTAGAATGCT
* * *
855955 CATCTC-TTCAAAGTCTACAAGTTAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
855983 CA-CCCTTTC-AA-CCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
856009 CATCTCTTT-AAAGCCCATAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
856037 CACCT-TTTCAAAGCCCACAAGTCAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
856065 CATCTC-TTCAAAGCCCACAAGTAAGTGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
* **
856093 CATC-CTTTCAAAGCCCATAAGTCAACGG
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
856121 CATC-CTTTCAAAGCCCACAAGTCAGT-G
1 CATCTCTTTCAAAGCCCACAAGTCAGTGG
*
856148 CATC-CTTTCAAAGCCCACACAAGTCGGTGG
1 CATCTCTTTCAAAG-CC-CACAAGTCAGTGG
*
856178 CAACT-TTCTCTAAAGCCCACA
1 CATCTCTT-TC-AAAGCCCACA
856199 CAAGTTGGTG
Statistics
Matches: 184, Mismatches: 19, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
26 14 0.08
27 29 0.16
28 113 0.61
29 10 0.05
30 10 0.05
31 4 0.02
32 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (29 bp):
CATCTCTTTCAAAGCCCACAAGTCAGTGG
Found at i:856918 original size:20 final size:20
Alignment explanation
Indices: 856893--856976 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
856883 TTTTACCCTG
856893 ATGTATCGATACATGTTTCA
1 ATGTATCGATACATGTTTCA
856913 ATGTATCGATACATTTTGTCTTTTACCTA
1 ATGTATCGATACA---TG---TTT--C-A
*
856942 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATGTTTCA
856963 ATGTATCGATACAT
1 ATGTATCGATACAT
856977 CTAGTTAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
20 27 0.51
21 1 0.02
22 1 0.02
23 2 0.04
24 3 0.06
26 3 0.06
27 1 0.02
28 1 0.02
29 1 0.02
30 13 0.25
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCA
Found at i:858776 original size:32 final size:33
Alignment explanation
Indices: 858735--858799 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
858725 CAATTTGGCC
*
858735 ATGTATCGATACAATG-AACATGCATCGATACA
1 ATGTATCGATACAAAGCAACATGCATCGATACA
* *
858767 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGCATCGATACA
858800 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGCATCGATACA
Found at i:861275 original size:13 final size:13
Alignment explanation
Indices: 861257--861297 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
861247 AATAGTACCT
861257 AATGTATCGATAC
1 AATGTATCGATAC
861270 AATGTATCGATAC
1 AATGTATCGATAC
* *
861283 AATATATCAATAC
1 AATGTATCGATAC
861296 AA
1 AA
861298 GGAATGTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:867540 original size:19 final size:19
Alignment explanation
Indices: 867495--867551 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
867485 CTGCCAGTTT
**
867495 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
867516 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
867535 CATGTATCGATACAATG
1 CATGTATCGATACAATG
867552 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:867554 original size:13 final size:13
Alignment explanation
Indices: 867536--867561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
867526 TACAATGAAC
867536 ATGTATCGATACA
1 ATGTATCGATACA
867549 ATGTATCGATACA
1 ATGTATCGATACA
867562 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:878227 original size:16 final size:16
Alignment explanation
Indices: 878186--878219 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
878176 CATTTTTTTG
878186 AAAAGAAAATACAAGA
1 AAAAGAAAATACAAGA
878202 AAAAGAAAATACAAGA
1 AAAAGAAAATACAAGA
878218 AA
1 AA
878220 GAATAAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAGAAAATACAAGA
Found at i:878923 original size:13 final size:13
Alignment explanation
Indices: 878905--878935 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
878895 TGATACATGG
878905 TACATTATATCGA
1 TACATTATATCGA
*
878918 TACATTGTATCGA
1 TACATTATATCGA
878931 TACAT
1 TACAT
878936 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:943121 original size:28 final size:28
Alignment explanation
Indices: 943085--943155 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 28
943075 AAAATAAAAT
* *
943085 CGGGGTTGGAGTATCCCC-TTGAAAATAG
1 CGGGGTTGGAGTATCCCCGTAG-AAATAA
943113 CGGGGTTGGAG--TCCCCGTAGAAATAA
1 CGGGGTTGGAGTATCCCCGTAGAAATAA
943139 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
943156 GATTGTGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 21 0.55
27 2 0.05
28 15 0.39
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGTAGAAATAA
Found at i:943328 original size:50 final size:50
Alignment explanation
Indices: 943270--943412 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 50
943260 CCAATTGTAA
*
943270 AAAATTGGTGTTTTGGAAATAAAATCGGAGTTTGAGTATCCTCGATTATGG
1 AAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCC-CGATTATGG
* * * * * *
943321 -AAATTGGTGTTGTAGAATTAAAATCGGGAATTGGAGAATCCCGATTGTGG
1 AAAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCGATTATGG
* *
943371 AAAATTGATG-TTTGAGAAATAAAAAC-GAGATTGGAGTATCCC
1 AAAATTGGTGTTTTG-GAAATAAAATCGGAG-TTGGAGTATCCC
943413 CTCAGAAATA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
49 2 0.03
50 43 0.58
51 29 0.39
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (50 bp):
AAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCGATTATGG
Found at i:943532 original size:30 final size:30
Alignment explanation
Indices: 943480--943537 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
943470 AAAAGCGGGT
* *
943480 TGGAGTATCCCTGAGATGATAACGGGGTGG
1 TGGAGTATCCCCGAGATAATAACGGGGTGG
*
943510 TGGAGTATCCCCGATGA-AATAACTGGGT
1 TGGAGTATCCCCGA-GATAATAACGGGGT
943538 ACAGTATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (30 bp):
TGGAGTATCCCCGAGATAATAACGGGGTGG
Found at i:945909 original size:20 final size:20
Alignment explanation
Indices: 945884--945939 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
945874 AAAAATGCCT
945884 AAATGTATCGATACATTAAA
1 AAATGTATCGATACATTAAA
* * * *
945904 AAATGTATCGATATAATGAG
1 AAATGTATCGATACATTAAA
945924 AAATGTATCGATACAT
1 AAATGTATCGATACAT
945940 CTAGATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (20 bp):
AAATGTATCGATACATTAAA
Found at i:946816 original size:55 final size:55
Alignment explanation
Indices: 946655--947110 Score: 359
Period size: 55 Copynumber: 8.3 Consensus size: 55
946645 GGAGAAAGCA
* *
946655 TCCTGCTCCTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGTG
* * * * * * *
946716 TCCTACTCTCTAAGGACTG-AAGGTGTCACCAGCTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
946770 TCCTGTTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * ** **
946825 TCTTGCTCTTTGAGGACT-AAAGGTGCCATCGGCTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
946879 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGACTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * ** *
946934 TCCTGCTCTTTGAGGACT-AAAGGGTG--A--AA--GGTGAAAGG---TG-AGGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GATGCCACCAACTTGTG-TGGGCTTTGAAAGGTG
* * *
946980 TCCTGCTCCTTGAGGACTGGAAG-TGCCACCAACCTGTGTGGGCTTTAAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* ** * *
947040 TCTTGCTCTTTGAGGACTG-GGGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
947095 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
947111 TTAAAGGGTG
Statistics
Matches: 314, Mismatches: 56, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
45 2 0.01
46 23 0.07
47 4 0.01
49 5 0.02
50 3 0.01
51 5 0.02
53 5 0.02
54 67 0.21
55 111 0.35
56 4 0.01
58 1 0.00
59 1 0.00
60 46 0.15
61 37 0.12
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:946883 original size:109 final size:109
Alignment explanation
Indices: 946648--947110 Score: 428
Period size: 109 Copynumber: 4.2 Consensus size: 109
946638 TTTACAAGGA
* *
946648 GAAA-GCATCCTGCTCCTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAA
* * * * *
946712 GGTGTCCTACTCTCTAAGGACTGAAGGTGTCACCAGCTTGTGTGGGCTTT
60 GGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * *
946762 GAAAGGCGTCCTGTTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * *
946827 TTGCTCTTTGAGGACTAAAGGTGCCATCGGCTTGTGTGGGCTTT
66 CTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTT
* *
946871 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGTGTC
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* **
946936 CTGCTCTTTGAGGACTAAAGGGTG--A-AAG---GTGAAAGG---T
66 CTGCTCTTTGAGGACTAAA-GGTGCCACCAGCTTGTG-TGGGCTTT
* ** * * *
946973 G-AGGGTGTCCTGCTCCTTGAGGACTGG-AAGTGCCACCAACCTGTGTGGGCTTTAAAAGGAGAA
1 GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AA
* *** *
947036 GGTGTCTTGCTCTTTGAGGACTGGGGAGTGCCACCAACTTGTGTGGGCTTT
60 GGTGTCCTGCTCTTTGAGGACTAAAG-GTGCCACCAGCTTGTGTGGGCTTT
* *
947087 AAAAGGCGTCCTGCTCTTTGAGGA
1 GAAAGGCATCCTGCTCTTTGAGGA
947111 TTAAAGGGTG
Statistics
Matches: 286, Mismatches: 43, Indels: 39
0.78 0.12 0.11
Matches are distributed among these distances:
100 23 0.08
101 22 0.08
102 2 0.01
104 3 0.01
105 4 0.01
106 26 0.09
107 1 0.00
108 2 0.01
109 124 0.43
110 5 0.02
111 2 0.01
112 3 0.01
114 5 0.02
115 64 0.22
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (109 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
CTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTT
Found at i:947089 original size:61 final size:60
Alignment explanation
Indices: 946967--947092 Score: 189
Period size: 61 Copynumber: 2.1 Consensus size: 60
946957 GTGAAAGGTG
* *
946967 AAAGGTGAGGGTGTCCTGCTCCTTGAGGACTGGAAGTGCCACCAACCTGTGTGGGCTTTA
1 AAAGGAGAAGGTGTCCTGCTCCTTGAGGACTGGAAGTGCCACCAACCTGTGTGGGCTTTA
* * * *
947027 AAAGGAGAAGGTGTCTTGCTCTTTGAGGACTGGGGAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAGAAGGTGTCCTGCTCCTTGAGGACT-GGAAGTGCCACCAACCTGTGTGGGCTTTA
947088 AAAGG
1 AAAGG
947093 CGTCCTGCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 27 0.46
61 32 0.54
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.25
Consensus pattern (60 bp):
AAAGGAGAAGGTGTCCTGCTCCTTGAGGACTGGAAGTGCCACCAACCTGTGTGGGCTTTA
Found at i:947233 original size:60 final size:60
Alignment explanation
Indices: 947134--947421 Score: 365
Period size: 60 Copynumber: 4.9 Consensus size: 60
947124 GGAGAGAGTG
* * * *
947134 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAGGCA
* *
947195 TCATGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTT-----GA-AAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAGGCA
* ** * * *
947249 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTTGAATGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAGGCA
** *
947310 TTTTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAGGCA
947370 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
947422 CATCGTTCTC
Statistics
Matches: 199, Mismatches: 20, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
54 23 0.12
55 25 0.13
59 3 0.02
60 110 0.55
61 38 0.19
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAGAAGGCA
Found at i:947246 original size:154 final size:157
Alignment explanation
Indices: 946873--947266 Score: 544
Period size: 161 Copynumber: 2.5 Consensus size: 157
946863 TGGGCTTTGA
* * ** * *
946873 AAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGACTTTAAAAGGTGTCCT
1 AAGGCGTCATGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
*
946938 GCTCTTTGAGGACTAAAGGGTGAAAGGTGAAAGGTGAGGGTGTCCTGCTCCTTGAGGACTGGAAG
65 GCTCTTTGAGGACTAAAGGGTGAAAGGTG-AA-G-GAGAGTGTCCTGCTCCTTGAGGACTGGAAG
*
947003 TGCCACCAACCTGTGTGGGCTTTAAAAGGAG
127 TGCCACCAACCTGTGTGGGCTTTAAAAAGAG
* * **
947034 AAGGTGTCTTGCTCTTTGAGGACTGGGGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
1 AAGGCGTCATGCTCTTTGAGGACTGAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCT
* *
947099 GCTCTTTGAGGATTAAAGGGTGAAA-G-G-A-GAGAGTGTCCTGCTCTTTGAGGACTGGGAAGTG
65 GCTCTTTGAGGACTAAAGGGTGAAAGGTGAAGGAGAGTGTCCTGCTCCTTGAGGACT-GGAAGTG
*
947160 CCACCAACTTGTGTGGGCTTTAAAAAGAG
129 CCACCAACCTGTGTGGGCTTTAAAAAGAG
* * *
947189 AAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTA
1 AAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
947254 CTCTTTGAGGACT
66 CTCTTTGAGGACT
947267 GAAAAATGCC
Statistics
Matches: 209, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
154 69 0.33
155 58 0.28
157 1 0.00
159 1 0.00
160 2 0.01
161 78 0.37
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (157 bp):
AAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
CTCTTTGAGGACTAAAGGGTGAAAGGTGAAGGAGAGTGTCCTGCTCCTTGAGGACTGGAAGTGCC
ACCAACCTGTGTGGGCTTTAAAAAGAG
Found at i:947335 original size:115 final size:115
Alignment explanation
Indices: 947133--947361 Score: 359
Period size: 115 Copynumber: 2.0 Consensus size: 115
947123 AGGAGAGAGT
* ** * * *
947133 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCA
1 GTCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTTAAAAAGAGAAGGCATCA
947198 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC
66 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC
* ** **
947248 GTCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTTGAATGGAGAAGGCATTT
1 GTCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTTAAAAAGAGAAGGCATCA
947313 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
66 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
947362 AAAAGGCATC
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 103 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (115 bp):
GTCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTTAAAAAGAGAAGGCATCA
TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGC
Found at i:953856 original size:13 final size:13
Alignment explanation
Indices: 953837--953874 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
953827 CAGTATTCTT
953837 TGTATCGATACA-
1 TGTATCGATACAC
953849 TAGTATCGATACAC
1 T-GTATCGATACAC
953863 TGTATCGATACA
1 TGTATCGATACA
953875 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:955956 original size:13 final size:13
Alignment explanation
Indices: 955938--955963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955928 TACACCAAGT
955938 ATGTATCGATACA
1 ATGTATCGATACA
955951 ATGTATCGATACA
1 ATGTATCGATACA
955964 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:955957 original size:32 final size:33
Alignment explanation
Indices: 955920--955983 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
955910 TAGCCAAACT
**
955920 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
955952 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
955984 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:958216 original size:21 final size:21
Alignment explanation
Indices: 958183--958232 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
958173 TTGCAAGTTG
*
958183 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
958205 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
958226 AAATAAA
1 AAATAAA
958233 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:962322 original size:20 final size:20
Alignment explanation
Indices: 962279--962324 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
962269 AAATTTTTTG
962279 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
962300 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
962320 CAAAA
1 CAAAA
962325 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:964732 original size:13 final size:13
Alignment explanation
Indices: 964714--964739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
964704 TACACCAAGT
964714 ATGTATCGATACA
1 ATGTATCGATACA
964727 ATGTATCGATACA
1 ATGTATCGATACA
964740 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:964737 original size:32 final size:33
Alignment explanation
Indices: 964696--964759 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
964686 TAGCCAAACT
**
964696 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
964728 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
964760 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:967616 original size:1 final size:1
Alignment explanation
Indices: 967612--967682 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
967602 TTTGTTTTGC
* ** * * * * * * *
967612 TTTTTTTTGTTTTTTTGGTTTTGTTTTTTTGTTTTTTTTGTTTTGTTTTTTTATGTTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
967677 TTTTTT
1 TTTTTT
967683 AAAAAAAAGA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:967624 original size:8 final size:8
Alignment explanation
Indices: 967613--967681 Score: 72
Period size: 8 Copynumber: 8.9 Consensus size: 8
967603 TTGTTTTGCT
967613 TTTTTTTG
1 TTTTTTTG
967621 TTTTTTTG
1 TTTTTTTG
*
967629 --GTTTTG
1 TTTTTTTG
967635 TTTTTTTG
1 TTTTTTTG
967643 TTTTTTTTG
1 -TTTTTTTG
*
967652 TTTTGTT-
1 TTTTTTTG
*
967659 TTTTTATG
1 TTTTTTTG
*
967667 TTTTTTTC
1 TTTTTTTG
967675 TTTTTTT
1 TTTTTTT
967682 TAAAAAAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.10
7 5 0.10
8 32 0.64
9 8 0.16
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:967635 original size:14 final size:13
Alignment explanation
Indices: 967602--967681 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 13
967592 CTCTTTTTTC
*
967602 TTTGTTTTGCTTTTT
1 TTTGTTTT--TTTGT
967617 TTTGTTTTTTTGGT
1 TTTGTTTTTTT-GT
967631 TTTGTTTTTTTGT
1 TTTGTTTTTTTGT
*
967644 TTTTTTTGTTTTGT
1 TTTGTTT-TTTTGT
967658 TTT-TTTATGTTT-T
1 TTTGTTT-T-TTTGT
*
967671 TTTCTTTTTTT
1 TTTGTTTTTTT
967682 TAAAAAAAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.05
13 20 0.34
14 27 0.47
15 8 0.14
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (13 bp):
TTTGTTTTTTTGT
Found at i:967641 original size:22 final size:23
Alignment explanation
Indices: 967596--967673 Score: 104
Period size: 22 Copynumber: 3.3 Consensus size: 23
967586 TTTTCTCTCT
*
967596 TTTTTCTTTGTTTTGCTTTTTTTTG
1 TTTTT-TTGGTTTTG-TTTTTTTTG
967621 TTTTTTTGGTTTTG-TTTTTTTG
1 TTTTTTTGGTTTTGTTTTTTTTG
*
967643 TTTTTTTTGTTTTGTTTTTTTATG
1 TTTTTTTGGTTTTGTTTTTTT-TG
967667 TTTTTTT
1 TTTTTTT
967674 CTTTTTTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
22 21 0.43
23 6 0.12
24 17 0.35
25 5 0.10
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (23 bp):
TTTTTTTGGTTTTGTTTTTTTTG
Found at i:967682 original size:9 final size:9
Alignment explanation
Indices: 967581--967682 Score: 66
Period size: 9 Copynumber: 11.2 Consensus size: 9
967571 CTTAAGCAGG
967581 TTCTTTTTT
1 TTCTTTTTT
* *
967590 CTCTCTTTT
1 TTCTTTTTT
967599 TTCTTTGTTT
1 TTCTTT-TTT
*
967609 TGCTTTTTT
1 TTCTTTTTT
*
967618 TTGTTTTTT
1 TTCTTTTTT
**
967627 TGGTTTTGTT
1 TTCTTTT-TT
967637 TT-TTTGTTT
1 TTCTTT-TTT
*
967646 TT-TTTGTT
1 TTCTTTTTT
*
967654 TTGTTTTTT
1 TTCTTTTTT
*
967663 TAT-GTTTTT
1 T-TCTTTTTT
967672 TTCTTTTTT
1 TTCTTTTTT
967681 TT
1 TT
967683 AAAAAAAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
8 5 0.07
9 56 0.76
10 13 0.18
ACGTcount: A:0.01, C:0.07, G:0.10, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:967682 original size:22 final size:21
Alignment explanation
Indices: 967597--967682 Score: 91
Period size: 23 Copynumber: 3.8 Consensus size: 21
967587 TTTCTCTCTT
967597 TTTTCTTTGTTTTGCTTTTTTTTG
1 TTTT-TTTGTTTT--TTTTTTTTG
*
967621 TTTTTTTGGTTTTGTTTTTTTG
1 TTTTTTT-GTTTTTTTTTTTTG
967643 TTTTTTTTGTTTTGTTTTTTTATG
1 -TTTTTTTGTTTT-TTTTTTT-TG
*
967667 TTTTTTTCTTTTTTTT
1 TTTTTTTGTTTTTTTT
967683 AAAAAAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
22 17 0.31
23 27 0.49
24 11 0.20
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTTTTTTG
Found at i:980216 original size:79 final size:78
Alignment explanation
Indices: 980098--980264 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 78
980088 AACGGGGCTA
* *
980098 GAGTATCTCCGATTATGAAAAATCAGTGTTCTGAAAATAAAATC-GAGGTTAGAGTATCCTCTCG
1 GAGTATC-CCGATTATGAAAAATCAATGTTCTGAAAATAAAATCAG-GGTTAGAGTATCCCCTCG
*
980162 GAAATAACAGGGTTG
64 AAAATAACAGGGTTG
* *
980177 GAGTATCCCTGATTAT-AGAAAATCAATGTTTTGAAAATAAAATCAGGGTTTGAGTATCCCCTCG
1 GAGTATCCC-GATTATGA-AAAATCAATGTTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTCG
*
980241 AAAATAGCAGGGTTG
64 AAAATAACAGGGTTG
*
980256 AAGTATCCC
1 GAGTATCCC
980265 CGTAGAAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
78 3 0.04
79 74 0.95
80 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (78 bp):
GAGTATCCCGATTATGAAAAATCAATGTTCTGAAAATAAAATCAGGGTTAGAGTATCCCCTCGAA
AATAACAGGGTTG
Found at i:980254 original size:28 final size:28
Alignment explanation
Indices: 980220--980294 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
980210 AAAATAAAAT
* *
980220 CAGGGTTTGAGTATCCCC-TCGAAAATAG
1 CAGGGTTTGAGTATCCCCGTAG-AAATAA
980248 CAGGG-TTGAAGTATCCCCGTAGAAATAA
1 CAGGGTTTG-AGTATCCCCGTAGAAATAA
* *
980276 CGGGGTTGGAGTATCCCCG
1 CAGGGTTTGAGTATCCCCG
980295 ATTGTGAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 33 0.82
29 4 0.10
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (28 bp):
CAGGGTTTGAGTATCCCCGTAGAAATAA
Found at i:980430 original size:106 final size:108
Alignment explanation
Indices: 980162--980450 Score: 286
Period size: 107 Copynumber: 2.7 Consensus size: 108
980152 TATCCTCTCG
* * * * *
980162 GAAATAAC-AGGGTTGGAGTATCCCTGATTATAGAAAATCAATGTTTTGAAAATAAAATCAGGGT
1 GAAATAACGA-GGTTGGAGTATCCCTGATTGTAAAAAATAAATGTTTTGGAAATAAAATCGGGGT
* * *
980226 TTGAGTAT-CCCCTCGAAAATAGCAGGGTTGAAGTATCCCCGTA
65 TGGAGTATCCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGTA
* * * * * **
980269 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAACA-GTTTAGG-AATAAAGCCGGGG
1 GAAATAACGAGGTTGGAGTATCCCTGATTGTAAAAAAT-AA-ATGTTTTGGAAATAAAATCGGGG
* * *
980332 TTGGAGTATCCCCCTCAAAAATAATAGGGTTGGAGTAT-CTCG-A
64 TTGGAGTATCCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGTA
* *** *
980375 TGAAAT-TCGAGGTTGGAGTATCCCTGATTGTAAAAAATTGGTGTTTTGGAAATAAAATCGGAGT
1 -GAAATAACGAGGTTGGAGTATCCCTGATTGTAAAAAATAAATGTTTTGGAAATAAAATCGGGGT
980439 TGGAGTATCCCC
65 TGGAGTATCCCC
980451 GATTATGGAA
Statistics
Matches: 145, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
105 6 0.04
106 51 0.35
107 57 0.39
108 30 0.21
109 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (108 bp):
GAAATAACGAGGTTGGAGTATCCCTGATTGTAAAAAATAAATGTTTTGGAAATAAAATCGGGGTT
GGAGTATCCCCCTCAAAAATAACAGGGTTGAAGTATCCCCGTA
Found at i:980463 original size:51 final size:51
Alignment explanation
Indices: 980386--980551 Score: 192
Period size: 51 Copynumber: 3.3 Consensus size: 51
980376 GAAATTCGAG
* ** *
980386 GTTGGAGTATCCCTGATTGTAAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
* * *
980437 GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAATCGTA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * * *
980488 GTTGGAGTATCCCCGATTGGGGAAAATTGATATTTGAGAAA-AAAACCTGG-
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATC-GGA
*
980538 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
980552 TCAGAAATAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
50 18 0.18
51 80 0.82
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:980581 original size:78 final size:79
Alignment explanation
Indices: 980489--980661 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 79
980479 AAAATCGTAG
* * * *
980489 TTGGAGTATCCCCGATTGGGGAAAATTGATATT-TGAGAAAA-AAACCT-GGGTTAGAGTATCCC
1 TTGGAGTATCCCCGATTAGGAAAAATTGATGTTGT-A-AAAATAAAACTGGGGTTAGAGTATCCC
980551 CTCAGA-AATAACGGGA
64 C-CAGATAATAACGGGA
* * * *
980567 TTGGAGTATCCCCGATTATGAAAAATTGATGTTGTAAAAATAAAACTGGGGTTGGAGTATTCCCG
1 TTGGAGTATCCCCGATTAGGAAAAATTGATGTTGTAAAAATAAAACTGGGGTTAGAGTATCCCCC
* *
980632 AGATGATAACGGGG
66 AGATAATAACGGGA
980646 TTGGAGTATCCCCGAT
1 TTGGAGTATCCCCGAT
980662 GAAATAACGG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 4 0.05
78 38 0.47
79 39 0.48
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTAGGAAAAATTGATGTTGTAAAAATAAAACTGGGGTTAGAGTATCCCCC
AGATAATAACGGGA
Found at i:980654 original size:28 final size:28
Alignment explanation
Indices: 980614--980689 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 28
980604 AAATAAAACT
* *
980614 GGGGTTGGAGTATTCCCGA-GATGATAAC
1 GGGGTTGGAGTATCCCCGATGA-AATAAC
980642 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
980670 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
980690 TATGAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 43 0.96
29 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:980725 original size:107 final size:107
Alignment explanation
Indices: 980536--980733 Score: 319
Period size: 107 Copynumber: 1.9 Consensus size: 107
980526 AAAAAAACCT
980536 GGGTTAGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTG
1 GGGTTAGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTG
980601 TAAAAATAAAACTGGGGTTGGAGTATTCCCGAGATGATAACG
66 TAAAAATAAAACTGGGGTTGGAGTATTCCCGAGATGATAACG
* * *
980643 GGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
1 GGGTTAGAGTATCCCCTCA-GAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTT
* *
980707 TTGAAAATAAAA-TCGGGGTTGGAGTAT
65 GTAAAAATAAAACT-GGGGTTGGAGTAT
980734 CCTCAACATG
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
106 2 0.02
107 82 0.98
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (107 bp):
GGGTTAGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTG
TAAAAATAAAACTGGGGTTGGAGTATTCCCGAGATGATAACG
Found at i:983098 original size:20 final size:20
Alignment explanation
Indices: 983073--983137 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
983063 GTAAACCTAT
983073 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
983093 AATG--T--AT-CAAT--AC
1 AATGTATCGATACAATGAAC
983106 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
983126 AATGTATCGATA
1 AATGTATCGATA
983138 TAAATTGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 6 0.16
15 5 0.13
16 2 0.05
17 2 0.05
18 5 0.13
20 18 0.47
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:983107 original size:13 final size:13
Alignment explanation
Indices: 983091--983122 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
983081 GATACAATGA
983091 ACAATGTATCAAT
1 ACAATGTATCAAT
*
983104 ACAATGTATCGAT
1 ACAATGTATCAAT
983117 ACAATG
1 ACAATG
983123 AACAATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (13 bp):
ACAATGTATCAAT
Found at i:984567 original size:475 final size:474
Alignment explanation
Indices: 983519--991291 Score: 9029
Period size: 475 Copynumber: 16.4 Consensus size: 474
983509 TAAATAAGAC
* * * * *
983519 AAACATAGTCTTCTCATAAGGATATATGATATTAATCCTTTGGTTTCAG-AAGAAAAGCTTTCTT
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTC-GCAAGAAACGCTTTCTT
* * * ** * *
983583 CCCACCAATATTTGTAAAGTCTAAGTTCGTGCCTCAAAAGAGATAAATGTGGATTCTAGCAATGA
64 CCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGA
* * * *
983648 TCTTAATTCATTTTTTGATTAGGCACTATAAACACATTCTCTTCATTAGGATAAATGAGA-TGAT
129 TCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGAT
* * * **
983712 --TTTTTTTTTGCATGAAAATCTTTTTTTTTGCCCTCTTTTCCTTAAAATCAAAGTTTACCCCTT
194 GGTTTTCTTTTGCATGAAAATC-TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTT
*
983775 AAATAAGGCAAGCATTGATGCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
258 AAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* * * * *
983840 ATTCCTTTAATTGGGATACATGACATTGATGCTTTGGTTTCGCAAGAGAAGCTTTTTTTTCCACC
323 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGC-TTTTCTTCCACC
* * * *
983905 ATTATTGATAGAATCAAAGTTTGCCTCTCAAATAAAACAAACATGAATACTCATACTAATCCCCA
387 GTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCA
*
983970 TTCTTTTCAGGACTAGGCACCAT
452 TTCTTTTCAGGATTAGGCACCAT
* * * * *
983993 AAACCTAGTCTTCTCATAAAGATACACGATATTGATGCTTTGTTTTTGCAAGAAACACTTTCTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * * * *
984058 CCACCAACTTTT-CAAAATCTACGTTAGTGCCTCAAATGAGACAAACATGGATTCTAGAAACGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * * * *
984122 TTTGATTCATTTTGTGATTAGGTACTATAAACACATTCTCTTTATTAGGATAAATGATATTGATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * * *
984187 GTTTTCTTTGGCATGGAAATCTTTTCTTTTCCCTATTTTCCTTAAAATCATAA-TTTGAT-CGTT
195 GTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCA-AAGTTTG-TCCCTT
* *
984250 AAATAAGACAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACAC
258 AAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* * * * **
984315 ATTCCCTTTATTAGGATACATGAAATTGATGTTTTGGTGTCGCAAGAGAAGCTTTTCTTACATTG
323 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTTCCACCG
*
984380 TTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATAATAATCCCCAT
388 TTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCAT
* ** *
984445 TCATTAAAGGGTTAGGCACCAT
453 TCTTTTCAGGATTAGGCACCAT
* * * * **
984467 AAACATAGGCTTCGTATTAGGATAGACGATATTGATGCTTTGCTTTCGCAAGAAAAACTTTCTTC
1 AAACATAGTCTTC-TATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* *
984532 TCC-CCAATTTTTGTAAAGTC-AAGGTTCGAGCCTCAAATGAGTC---CA---A--C-A-T--GG
65 -CCACCAATTTTTGTAAAGTCTAA-GTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG
* *
984583 ATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTTTCCCCATTAGGATAAATGATATTGA
128 ATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA
** * * *
984648 T-GTCTTTCTTCAGCATGAAAATATTTTCTTTGCGCTATTTTCCTTAAAATCAAAGTTCGTCCCT
193 TGGT-TTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCT
* * ** * * * * * * *
984712 TTAGTAACACAGGCATCGATTCTCGTAATAGTGTCCATTTTTTTCAAGATTGGAAACTAAAAACA
257 TAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACA
* * * * *
984777 CATTCCCTTGATTAGGATACAAGACAATGATGCTTTGGTGTCGTAAGAAAAGCTTTTCTTTCCAC
322 CATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCAC
** * * * * * * *
984842 CACTACTAATAGAATCAAAGTTTCTCTCTTAAATAAGACAAACATGAAAAGTCATACAAATCCCT
386 CGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCC
* * * *
984907 ATTTTTTTAAGGATTAGGCACAAA
451 ATTCTTTTCAGGATTAGGCACCAT
* * * *
984931 AAACATAGTCTTCTACTAAGGATATATGATATTGATGCTTTGGTTTTGCAAGAAACACTTTCTTC
1 AAACATAGTCTTCTA-TAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * * * *
984996 CCGCCAATTTTTGAAAAGTCTATGTTCCTGCCTCAAAAGAGACAAACATGGATTCTACTAAGTAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * *
985061 CTTCATTCATTTTGTAATTAGGCACTATCAAA-ATATTCTCCTCATTACGATAAATGATATTGAT
130 CTTCATTCATTTTGTGATTAGGCACTAT-AAACACATTCTCCTCATTAGGATAAATGATATTGAT
* * * * *
985125 GATTTTCTTTTGCATGGAAATC-TTTCTTTG-CCTCATTTTCCATAAAATCCAAGTTTGTCCTTT
194 GGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCT-ATTTTCCTTAAAATCAAAGTTTGTCCCTT
* *
985188 AAACAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGGAACCAAAAACAC
258 AAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* * * * * *
985253 ATTCCTTTCATTAGGATACATGATATTGACGCATTGGTGTCGTAAGAGAAGCTTTTCTGTCCATC
323 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCT-TCCACC
* * * * *
985318 ATTATTGATAGAATCAAAGTTTGTCTCTTAAACAAGACAATCATGAATACTTATACTAATCCCTA
387 GTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCA
* *
985383 TTCTTTTCAGGATTAGGCACTAC
452 TTCTTTTCAGGATTAGGCACCAT
* * ** * *
985406 AAACGTAGTCTTCTAATAAGGATAGACGGCATTGAT-CTTTGGTTTCGCAAGAAATGCTTTTTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * *
985470 CCACCAATTTTTGAAAAGTCTAAGTTCATGTCTCAAATGAGACAAACATGGATTCTTGTGAGGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * * * *
985535 CTTCATTCATTTTGTGATTCA-GCATTATAAATAAATTCTCCTTATTAGGATAAATGTTATTGAT
130 CTTCATTCATTTTGTGATT-AGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGAT
* * ** *
985599 GGTTTTCTTTGGTATGAAAATCTTTTCTTTAACCTATTTTCCTTAAAATCAAAGTTTGACCCTTA
194 GGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTA
* * * *
985664 AATAAGACAAGCATTGATTCTCGTAACAGTCTCTAATCTTTTCAAGATTAGGAACCAAAAACACA
259 AATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
* * * *
985729 TTCCCTTCATTAGGATACATGAGATTGATGCATTGGTGTCACAAGAGAAGCTTTTATTTCCACCG
324 TTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTT-CTTCCACCG
* * * * * *
985794 TTATTGGTAGAGTCAAAGTTTGTCCCTTAAAAAAGACAAGCATGAATACTTATACTAATCCCCAT
388 TTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCAT
*
985859 TCTTTTCAGGATTAGGC-CGTAT
453 TCTTTTCAGGATTAGGCAC-CAT
* * * * * *
985881 AGACATAGTCTTCTAATATGGATACACGATATTGATGTTTTGGTTTCACAAGAAACGTTTTTTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
** * *
985946 CTGCCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * * * *
986011 CTTCATTCATTTTGTGACTCGGCATTATAAACAAATTCTCCTCATTAGGATAAATGATATTTATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * *
986076 GTTTTCTTTTGCATGGAAAA-ATTTTCTTTGCCTTATTTTCCTTAAAATC-AAGTTTGTCCTTTA
195 GTTTTCTTTTGCAT-GAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTA
* * *
986139 AATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCCTTTCAAGATTGGGAACCAAAAATACA
259 AATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACA
* * * *
986204 TTCCCTTCATTAGGGTACATGACATTGATGATTTGGTGTCGAAAGAGAAGCTTTTTTTTCCACCG
324 TTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGC-TTTTCTTCCACCG
* *
986269 TTATTGATAGAATCAAAGCTTGTCTCTTAAATAAGACAAACATGAATACTTATACTAATCCCCAT
388 TTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCAT
* ** *
986334 TCGTTTCAGGATTAGTTAGCAT
453 TCTTTTCAGGATTAGGCACCAT
* * * *
986356 AAACAAAGTCTTCCCATATGGATACAC-ATTATTGATGCTTTGGTTTCGCAAGAAATGCTTTCTT
1 AAACATAGTCTT-CTATAAGGATACACGA-TATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTT
* ** * *
986420 CCTACCAATTTTTGTAAAGTCTAAG-TCTGTGCCTCAAGCGAGTCAAACATGGATTCTTGTAAGG
64 CCCACCAATTTTTGTAAAGTCTAAGTTC-GTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG
* * * * *
986484 ATCATT-ATTCATTTTGTGGTTAGGCATTATAAACATATTATCCTCATTAGGATAAATGTTATTG
128 ATC-TTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTG
* * * * * *
986548 ATAGCTTTCTTTGGCATGAAAATCTTTTCTTTACCTTATTTTCCTTAAAATCAAAGTTTGACCCT
192 ATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCT
* ** *
986613 TACATAAAACAAGCATTGATTCTCGTAACAGTCTCC-TATCTTTTCAAGATTAGGAACCAAAAAC
257 TAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCAT-TCTTTTCAAGATTGGGAACCAAAAAC
* * * **
986677 ACATTCCCTTTATTAGGATACATGGCATTGATGCATTGGTGTTACAAGAGAAGCTTTTCTTTCCA
321 ACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCA
* *
986742 CCGTTATTCG-TAGAATCAAAGTTTGTCTCTTATAA-AAGACAAACATGAATACTTATACAAATC
385 CCGTTATT-GATAGAATCAAAGTTTGTCTCTTA-AATAAGACAAACATGAATACTCATACTAATC
986805 CCCATTCTTTTCAGGATTAGGCACCAT
448 CCCATTCTTTTCAGGATTAGGCACCAT
* *
986832 AAACATAGTCTTATAATAAGGATACACGATAATGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * *
986897 CCACCAATATTTGTAAAGTCTAAGTTCATGCCTCAAAAGAGACAAACACGGATTCTAGTAAGGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* ** * * * *
986962 CTTCATTCATTTTGTGATTTGGTGCTATAAACATAATCTCCTCATTAGGATAAATGGTATCGATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * * **
987027 GTTTTCTTTTGCATGGAAGTC-TTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTTGTCTTTTAA
195 GTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAA
* *
987091 ATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCCTTTCAAGATTGGGAACCAAAAATACAT
260 ATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACAT
* * * * *
987156 TCCCTTCATTAGGGTACATGACATTGATGATTTGGTGTTGAAAGAGAAGCTTTTTTTTCCACCGT
325 TCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGC-TTTTCTTCCACCGT
* *
987221 TATTGATAAAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATACTCATACTAATCCCCATT
389 TATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATT
* * *
987286 CTTTTAAGGATTATGCACCGT
454 CTTTTCAGGATTAGGCACCAT
* * * * *
987307 AAATATAGTCTTCTCGTAAGGATA-ATGATATTGATGCTTTGGTTT--CATAGAAAAAGCTTTTT
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCA-AG-AAACGCTTTCT
*
987369 TCCCACCAATATTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGA-T-T-GTAAGG
63 TCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG
* * * * *
987431 ATCTTCATTAATTTTGTGATTAGGAATTATAAACAAATTCTTCT-ATTTAGGATAAATGATATTG
128 ATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCA-TTAGGATAAATGATATTG
* * * * * *
987495 ATGGTTTTCTTTTGCTTGAAAATCTTTTCTTTACCTTATTTTGCTTAAAATTAAAGTTTGTCCTT
192 ATGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCT
* *
987560 TAAAAAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCCTATT-AAGATTGGGAACCAAAAAC
257 TAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATT-CTTTTCAAGATTGGGAACCAAAAAC
* * * *
987624 ACATTCCCTTCATTAGGATACATGACATTGATGGTTTGGTGCCGAAAGAAAAGCTTTTCTTTCCA
321 ACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCA
** * * * *
987689 ATGTTATTGATGGAATCAAAGTTTGTCTCTTAAATAAGAC-AA-GTAAATACTCATAATAATCCC
385 CCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* * *
987752 CAATCTTTTCAGGGTGAGGCACCAT
450 CATTCTTTTCAGGATTAGGCACCAT
* * * * * * ** * *
987777 GAACATAGTCTTCACATTAGGGTAGATGATATTGACACTATGGTTTCGCAAGAAAGGCTTTCTTC
1 AAACATAGTCTTC-TATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * * *
987842 CCACCAATTTTTGTAAAGTTTAAGTTTGTGCCTCAAAT--GACAAACATCGATTCCAGCAATGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * *
987905 CTTCATTCATTTTGCGATTAGGCACTATAAACACATTCTCTTCATTAGGATAAATGATGTTGATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * * * * *
987970 GTTTTCTTTGGCATGAAAATCTTTTCTTTGTCCTATTTTCCTCAAATTCAAAGATTGACCCTTAA
195 GTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAA
* * ** * * * *
988035 ATAAGACAAGCTTTGATTCTTATAACAGTTTCCAATCTTTCCAAGATTGGAAACCAAAAACACAT
260 ATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACAT
* * *
988100 T-CCTTCATTAGGATAAATGACATTGTTGTTTTGGTGTCGCAAGAGAAGCTTTTCTTTCCACCGT
325 TCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCACCGT
* *
988164 TATCGATAGAATCAAAGTTTGTCTCTTAAACAAG----AC---AA-ACTCATACTAATCCCCATT
389 TATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATT
* *
988221 CTTTTC-GAGATTTGGCATCAT
454 CTTTTCAG-GATTAGGCACCAT
* * * * ** ** * *
988242 AAACATTGTCATCTAATAATGATAGATTATATTGATGCTTTGGTTTTACAAGAAACGTTTTTTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
*
988307 CCACCAATTTTTGAAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* *
988372 CTTCATTCATTTTGTGATTAGGCACTATAAACAAATTCTCCTCGTTAGGATAAATGATATTGATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * *
988437 GTTTTCTTTTGCATGGAAATCTTTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTTGTCCTTTAA
195 GTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAA
* * * *
988502 AGAAGGCAAGCATTGATTCTTGTAACAGCCTCCATTCCTTTCAAGATTGGGAACCAAAAACACAT
260 ATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACAT
* * * * *
988567 TCTCTTCATTAGGATACATGAAATTGATGCTTTGGTGTCACATGAGAAGCTTTTCTTTCCACCAT
325 TCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCACCGT
988632 TATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATT
389 TATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATT
* *
988697 CGTTTCAGGATTAGGTC-CCAC
454 CTTTTCAGGATTAGG-CACCAT
* * * *
988718 AAACATAGTCTTCTTATAAGGATAAATGATATTGATGCTTTGGTTTCACAAGAAACGTTTTCTTC
1 AAACATAGTCTTC-TATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * ** *
988783 CCTCCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGATAAACAAGGATTCAAACAATGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * *
988848 CTTCATTCGTTTTGTGATTAGGTACTATAAACACATTCTCCTAATTAGGATAAATGATATTGATG
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * * * *
988913 ATTTTTTTTTGCATGAAAATCTTTT-TATTACCCTATTTTACTTAAAATCAAAGTTTGCCCCTTA
195 GTTTTCTTTTGCATGAAAATCTTTTCT-TTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTA
* * * * * * *
988977 AATAAGGCAA-CTTTGCCTT-TCATGATAGTCTCTATTCTTTTCAAGATAGGGAACCAAAAACAC
259 AATAAGGCAAGCATTG-ATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* * * * * **
989040 ATTCCCTTGATTAGGATACATGACATTGATGCTTTCGTGCCACAAGAAAAGCTTTT-TT-GTCC-
323 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTTCCACCG
* * * *
989102 --A-TCAT----T--AAGTTTGCCTATTAAATAAGACAAACAAGAATACTCATACTAATCCCCAT
388 TTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCAT
* *
989158 TCTTTTAAGGATTATGCACCAT
453 TCTTTTCAGGATTAGGCACCAT
* *
989180 AAACATATGTAC-T-TATAAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAATGCTTTCTA
1 AAACATA-GT-CTTCTATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTC--
** * * *
989243 TAAAGGATCTTCATGGATTCTATAGAAATTTTTGAAAACTCTAAGTTCGTGCCTCAAATGCGACA
62 T------TC--C-------C---ACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACA
989308 AACATGGATTCTA-TAAAGGATCTTCATTC-TCTTTGTGATTAGGCACTATAAACACATTCTCCT
109 AACATGGATTCTAGT-AAGGATCTTCATTCAT-TTTGTGATTAGGCACTATAAACACATTCTCCT
* ** *
989371 TATTAGGATAAATGATATTGATGGTTTTCTTTCACAT-AGAAATCTTTTCTTTGCCCTCTTTTCC
172 CATTAGGATAAATGATATTGATGGTTTTCTTTTGCATGA-AAATCTTTTCTTTGCCCTATTTTCC
* * *
989435 TTCAAATCAAAGTTTATCCCTTAAATAAGGCAAGTATTGATTCTCGTAACAGTCTCCATTCTTTT
236 TTAAAATCAAAGTTTGTCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTT
* *
989500 CAAGATTAGGAACCAAAAACACATTCCCTTCATTAAGATACATGACATTGATGCTTTGGTGTCGC
301 CAAGATTGGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
* * *
989565 AAGAGTAGCTTTTCATTCCACCGTTATTGATAGAATCAAAGTTTTTCTCTTGAATAAGACAAACA
366 AAGAGAAGCTTTTC-TTCCACCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
* * * * **
989630 TGAATGCTCATACTAATCCCTAATCTTTTTAGGATTAGGCAGTAT
430 TGAATACTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCAT
* * * *
989675 AAACATAGCCTTTCCATAAGGATACATGATAATGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
1 AAACATAGTC-TTCTATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * * *
989740 CCACTAATTTTTGAAAAGTCTAAGTTCATGCCTTAATTGCGACAAACATGGATTCTA-TAAGGGA
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAA-GGA
*
989804 TCTTCATTC-TCTTTGTGATTAGGCACTATAAACACATTCTCCTCAATAGGATAAATGATATTGA
129 TCTTCATTCAT-TTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA
* * * * *
989868 ---TTTTCTTTCGCATGGAAATCTTTTCTTTGCCCTCTTTTCCCTCAAATCAAAGTTTGTCCCTT
193 TGGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTT
* * * * *
989930 AAATAAGGCAAGTATTAATTCTCGTAATAGTCTCCGTTTTTTTCAAGATTGGGAACCAAAAACAC
258 AAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACAC
* *
989995 ATTCCCTTCATTAGGATACATGACATTAATGCTTTGGTGTCGTAAGAGAAGCTTTTCTTGCCACC
323 ATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTT-CCACC
* * * *
990060 GTTATTGATAGAATCAAAGTTTTTCTCTTAAATAAGACAAACATGAGTGCTCATACTAATCCCTA
387 GTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCA
* *
990125 ATCTTTTCAGGATTAGGCACTAT
452 TTCTTTTCAGGATTAGGCACCAT
** * * * *
990148 AAATGTAGACTTTTCATAAGGATACACGATATTGATGCTTTGGTTTTGGAAGAAACGCTTTCTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * * *
990213 CCACTAATTTTTGAAAAGCCTAAATTCATGCCTCAAATGAGACAAGCATGGATTCTA-TAAAGGA
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGT-AAGGA
*
990277 TCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGAC
129 TCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGAT
* * ** * * * * * *
990342 GGTTTTCATTGGTGTGGAAATCTTTTCTTTGTCTTATTTTCCTTTAAATCAAAGTTTCTCCCTTT
194 GGTTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTA
* * * * * *
990407 AATAAGACAAGCGTTGATTCTCATAATAGTCTCCACTCTTTTTTCCAGATTGGGAACCAAAAACA
259 AATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA-T-TCTTTTCAAGATTGGGAACCAAAAACA
* * * ** **
990472 CATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTATTGTAAGAGAATTTTTTCTTTCCGT
322 CATTCCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTC-TTCCAC
* * * *
990537 CGTTATTGATAGAATCAAAGTTTATCTCTTAAATAGGACAAACATAAATACTCATAATAATCCCC
386 CGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCC
*
990602 ATTCTTTTTC-GGGTTAGGCACCAT
451 ATTC-TTTTCAGGATTAGGCACCAT
* * * ** *
990626 AAACA-ATGTCTTTTCATCAGGATAGACGATATTGATGCTTTGGTTTTACAAGAAA-GTCTTTTT
1 AAACATA-GTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACG-CTTTCT
* * * * * *
990689 TCCCACCAATTTTCGTTAAGTCTAAGTTCGTGCCTCAAAT--GACAAACATTGATTCTTGCAATG
63 TCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGG
* * *
990752 ATCTTCATTCATTTTGTAATTAGGCACTATAAGCACATTCTCCTAATTAGGATAAATGATATTGA
128 ATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA
* * *
990817 TGATTTTCTTTTTGCATGAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAAAGTTTGTCCCT
193 TGGTTTTC-TTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCT
* * * * *
990882 TAAATAAGGCAA-CTTTGATTTTCATGATAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACA
257 TAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACA
* * * * * * *
990946 CATT-CCTCTGATTAGGATACATGACGTTGATGCTTCGGTGCCACAAGAAAAGCTTTTTTGTCCA
322 CATTCCCT-TCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCT-TCCA
* * * * * * * *
991010 TCGTTATTGATCGAATCAAAGTTTGCCTATTAAATAAGACAAACATTAATTCTCAAACTGATCCC
385 CCGTTATTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* * * *
991075 CATTTTTTTAAGGATCATGCACCAT
450 CATTCTTTTCAGGATTAGGCACCAT
* * * * *
991100 AAACATA-TGTTCTCATAAGGATACACGATATTGATGCTTTGGTTTAGCAAGAAATGTTTTTTTC
1 AAACATAGTCTTCT-ATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTC
* * * * *
991164 CTACCAATTTTTGTAAAGTATAAGTTCTTGCCTCAAATGAGACAAACAAGGATTCTAGTAGGGAT
65 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGAT
* * *
991229 CTTCATTCATTTCGTGATTAGGCACTATATACACATTCTCCTCATGAGGATAAATGATATTGA
130 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA
991292 GGGTGATGAG
Statistics
Matches: 6255, Mismatches: 878, Indels: 331
0.84 0.12 0.04
Matches are distributed among these distances:
461 43 0.01
462 75 0.01
463 220 0.04
464 166 0.03
465 116 0.02
466 3 0.00
467 196 0.03
468 91 0.01
469 15 0.00
470 57 0.01
471 239 0.04
472 363 0.06
473 628 0.10
474 611 0.10
475 1484 0.24
476 1232 0.20
477 76 0.01
478 239 0.04
479 8 0.00
480 2 0.00
481 174 0.03
482 91 0.01
484 2 0.00
485 2 0.00
486 1 0.00
488 3 0.00
489 3 0.00
493 2 0.00
494 2 0.00
495 68 0.01
496 43 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (474 bp):
AAACATAGTCTTCTATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAACGCTTTCTTCC
CACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAGGATC
TTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGG
TTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTGTCCCTTAAA
TAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATT
CCCTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAGAAGCTTTTCTTCCACCGTTA
TTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCT
TTTCAGGATTAGGCACCAT
Found at i:992920 original size:33 final size:33
Alignment explanation
Indices: 992883--992964 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
992873 TAGCCCGCAA
* *
992883 AGAGAAAGAAGAGATAGGAGGGATGATATG-AGG
1 AGAGAAAGAAGAGATAGAAAGGATGATA-GAAGG
* *
992916 AGAGATAGTAGAGATAGAAAGGATGATAGAAGG
1 AGAGAAAGAAGAGATAGAAAGGATGATAGAAGG
*
992949 AGA-AATAGGAGAGATA
1 AGAGAA-AGAAGAGATA
992965 ATAAAGAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 2 0.05
33 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (33 bp):
AGAGAAAGAAGAGATAGAAAGGATGATAGAAGG
Found at i:992959 original size:42 final size:42
Alignment explanation
Indices: 992913--992992 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
992903 GGATGATATG
* * *
992913 AGGAGAGATAGTAGAGATAGAAAGGATGATAGAAGGAGAAAT
1 AGGAGAGATAATAAAGAGAGAAAGGATGATAGAAGGAGAAAT
* * *
992955 AGGAGAGATAATAAAGAGAGGAGGGATGATAGGAGGAG
1 AGGAGAGATAATAAAGAGAGAAAGGATGATAGAAGGAG
992993 GAGAGAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.12
Consensus pattern (42 bp):
AGGAGAGATAATAAAGAGAGAAAGGATGATAGAAGGAGAAAT
Found at i:998680 original size:475 final size:475
Alignment explanation
Indices: 997607--1000627 Score: 3036
Period size: 475 Copynumber: 6.3 Consensus size: 475
997597 AATAAGCCCT
* * * *
997607 TTAGGATACATGACATTGATGCTTTGGTGTCGTAAGAGAAGCATTTT-GTTCCTTCGTTATTGAT
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGC-TTTTCTTTCCATCGTTATTGAT
* * *
997671 AGAATGAACGTTT-CTCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTC
65 AGAATCAAAGTTTGC-CTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTC
* * * *
997735 AAGATTAGGCACTATAAACATAGTCTTCTCATAAGGATACACAATATTGATGCTTTGGTTTCGCA
129 AGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCA
* * *
997800 AGAAATGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAATTCATGCCTCAAATGAGACAAACATG
194 AGAAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAAG
*
997865 GATTCTA-TAAAGGATCTTCAATCATTTTGTGATTAGGCACTATAAACACA---TCCTCATTAGG
259 GATTCTAGT-AAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGG
* * * ** * *
997926 ATAAATGATACTGA-CAGTTTTCTTTGGCATTGAAATCTTTTCTTTGCCCTATTTTCCTTAAAAT
323 ATAAATGATATTGATGA-TTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAAT
* * * *
997990 CAAAGTTTGTCCCTTTAATAAGGCAAGCATTGATTCTCATAATAGTCTCCATTCTTTTCTAGATT
387 CAAAGTTTGTCCATTAAATAAGGCAA-CATTGATTCTCATAATAGTCTTCATTCTTTTCAAGATT
998055 GGGAACCAAAAACACATTCCCTTCA
451 GGGAACCAAAAACACATTCCCTTCA
* * * *
998080 CTAGGATACAAGACATTGATGCTTTGGTGTCGCAAGAGAAGTTTTTCTTTCCATCGTTATTGATA
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCGTTATTGATA
* * ** *
998145 GAATCGAAGTTTGTCTCTTAAATAAGACAAACATGAATACTCATAAAAATCCTCATTCTTTTCCA
66 GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTT-CA
* * * *
998210 GGA-TAGGCACCAAAAACATAGTCTTCACATTAGGATAGACGATATTGATGCTTTGGTTTTGCAA
130 GGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAA
* * *
998274 GAAAGGCTTTCTTCTCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGATAAACAAGG
195 GAAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAAGG
* ** * * * * * *
998339 ATTCGAACAATGATCTTTATTCCTTTTGTGATTAGGTACTATAAACACATTTTCCTAATTAGGAT
260 ATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGAT
998404 AAATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAA
325 AAATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAA
* * * *
998469 AGTTTGTCCATAAAATAAGGCAACTTTGATTTTCATGATAGTCTTCATTCTTTTCAAGATTGGGA
390 AGTTTGTCCATTAAATAAGGCAACATTGATTCTCATAATAGTCTTCATTCTTTTCAAGATTGGGA
*
998534 ACCAAAAACACATTCCCTTGA
455 ACCAAAAACACATTCCCTTCA
* * * *
998555 TTAGGATACATGACATTGATGCTTTGGTG-CAGCAAGAAAAGATTTTATGTCTATCGTTATTGAT
1 TTAGGATACATGACATTGATGCTTTGGTGTC-GCAAGAAAAGCTTTTCTTTCCATCGTTATTGAT
* * * *
998619 CGAATCAAAGTTTGCCTATTAAATAAGACAAACACGAATACTCATACTAATCCCCATTCTTTTAA
65 AGAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCA
* * * *
998684 GGATTATGCACCATAAACGTA-TGTTCTCA-TATGGATACACGATATTGATGCTTTGGTTTAGCA
130 GGATTAGGCACCATAAACATAGTCTTCTCATTA-GGATACACGATATTGATGCTTTGGTTTCGCA
* * **
998747 AGAAATGCTTTTTTTCCCACCAATTTTTGTAAAGTATAAGTTTGTGCCTCAAATGAGACAAACAA
194 AGAAATGC-TTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAA
* * *
998812 GGATTCTAGTAGGGATCTTCATTCATTTTGTGATCAGGCACTATAAACACATTGTCCTCATTAGG
258 GGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGG
* * ** ****** ** ** * **
998877 ATAAATGATATTGAGGGTGATGAGAACCA-AGGAAGGTCCATTAAAGACAACGACTTGAGGGTTT
323 ATAAATGATATTGATGATTTTCTTTTGCATA--AAAATCTTTTCATTAC--C--C-T-A---TTT
* * * * * *
998941 TCTTTGACATGGAAATCTTTTCTTTACCCTATTTTCCTGAAAATCAAAGTTTGACCCTTAA-ATA
377 TCCTTAAAAT-CAAA---GTT-TGT--CC-A---T--T--AAAT--AAG---G---C--AACAT-
* * * ** * *
999005 AGATAAATATTGATTCTCGTAACACTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTTC
416 TGAT---T-CTCATAATAGT----CT-T-CATTCTTTTCAAGATTGGGAACCAAAAACACATTCC
999070 CTTCA
471 CTTCA
* * * * *
999075 TTAGGATACATGACATTGATGCTTTGGTGTCGTAAGAGATGCTTTTCTTTCCAACGTTATTGATT
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCGTTATTGATA
* * * * * *
999140 GAATGAAAGTTTGTCTTTTAAATAAGACAAACATGAATACTCATATTAAT-TCCATTCTTTTTAG
66 GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAG
*
999204 GATTAGGCACCATAAACATAGTC-T-TC-----G-----C-------A----TT-GTTTCACAAG
131 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAG
* * *
999245 AAACGCTTT-TTCACACTAATTTTTGTAAAGTCTAAGTTCATGCCTCAAAT--GACAAACATA-G
196 AAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACA-AGG
* * * * *
999306 ATTCTAGTAAGGATCTACATTTATTTTGTGGTTAGGCACAATAAACACATTCTCCTCAGTAGGAT
260 ATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGAT
* * * ** * * *
999371 AAATAATATTTATG-GTTTCTTTTGCATGGAAATCTTTTCTTTACCTTGTTTTCCTTAAAATCAA
325 AAATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAA
* * * * *
999435 AGTTTGTCCCATT-AATAAGACAAGCATTGATTCTCATAACAGT-GTCTATTCTTTTCTAGATTA
390 AGTTTGT-CCATTAAATAAGGCAA-CATTGATTCTCATAATAGTCTTC-ATTCTTTTCAAGATTG
*
999498 GGAATCAAAAACACATTCCCTTCA
452 GGAACCAAAAACACATTCCCTTCA
* * * *
999522 TTAGGATACATGACATCGATGCTTTGGTGTCGCAAGAAAAGTTTTTCTATCCATCGTTACTGATA
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCGTTATTGATA
*
999587 GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCACATTCTTTTCAG
66 GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAG
* * * * *
999652 GATTAGGCACCATAAACATAGTCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTTGCCAT
131 GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAG
* * *
999717 AAATGCTTTTTTCCCACCAATTTTTGTAAATTCTAAGTTCATGCCTCAAATGAGACAAACATGGA
196 AAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAAGGA
* * * *
999782 TTCTAGTAAGGATCTTCATTCATTCTGTAATTAGGCACCATAAACACATTCTCCTCAGTAGGATA
261 TTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATA
* ** * * * * * *
999847 AATGATATTGACGGCTTTCTTTTGCATCAAAATATTTTCAATGCCTTATTTTCCGTAAAATCAAA
326 AATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAAA
* * ** * * **
999912 GTTTGACCCTTAAATAAGATACGCATTGATTCTCATAACAGTCCCCATTCTTTTCAAGATTGGGA
391 GTTTGTCCATTAAATAAGGCA-ACATTGATTCTCATAATAGTCTTCATTCTTTTCAAGATTGGGA
*
999977 ACCAGAAACACA-TCCCTTCA
455 ACCAAAAACACATTCCCTTCA
* * * * *
999997 TTAGGATACATGGCATTAATGCTTTAGTGTTGCAA-AAGAAGCTTTCCTTTCCATCGTTATTGAT
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAA-AAGCTTTTCTTTCCATCGTTATTGAT
* *** * * *
1000061 AGAATCAAAGCTTATTTCTTAAATAAGTA-AAAAATGAATGCTCATACTAAT-CCTATTCTTTTC
65 AGAATCAAAGTTTGCCTCTTAAATAAG-ACAAACATGAATACTCATACTAATCCCCATTCTTTTC
** * * * * * *
1000124 AGGATTAAACACCCTAAACATAGTCTT-TGCATTAGGAAAGACGATAATGATGCTATGGTTTCAC
129 AGGATTAGGCACCATAAACATAGTCTTCT-CATTAGGATACACGATATTGATGCTTTGGTTTCGC
* * *
1000188 AAGAAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTATGCCTCAAA--AGACGAACAT
193 AAGAAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAA
* * * *
1000251 GGATTCCAGTAATGATCTTCATTCATTTTATGATTAGGCACTATAAACACATTCTCCTAATTAGG
258 GGATTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGG
* ** * * *
1000316 ATAAATGATATTGATGATTTTATTTTGCATGGAAATCTTTTCTTTGCCCTGTTTTCCTTAAAATC
323 ATAAATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATC
* * * * *
1000381 AAAGTTTTTCCCTTTAATAAGGCAAACATTGATTCTCGTAATAGTC-T-ATTCGTTTCAAGATTG
388 AAAGTTTGTCCATTAAATAAGGC-AACATTGATTCTCATAATAGTCTTCATTCTTTTCAAGATTG
1000444 GGAACCAAAAACACATTCCCTTCA
452 GGAACCAAAAACACATTCCCTTCA
* * * ** *
1000468 CTAGGATACATGACATTGATGCTTTGGGGTCGCAAGAAAAGCTTTTCTGTCTGTGGTTATTGATA
1 TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCGTTATTGATA
* * * * * * *
1000533 GAATGAAAGTTAGCTTTTTAAATAAGACAAACTTGAATACTCATACTAATCCCTATTCTTTTAAG
66 GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAG
* *
1000598 GATTATGCACCATAAACATAGTCCTCTCAT
131 GATTAGGCACCATAAACATAGTCTTCTCAT
1000628 AAAGGTATAT
Statistics
Matches: 2093, Mismatches: 347, Indels: 217
0.79 0.13 0.08
Matches are distributed among these distances:
446 1 0.00
447 139 0.07
448 34 0.02
449 1 0.00
450 2 0.00
453 5 0.00
454 1 0.00
455 1 0.00
456 2 0.00
457 3 0.00
458 3 0.00
464 3 0.00
466 3 0.00
467 1 0.00
469 1 0.00
470 30 0.01
471 101 0.05
472 212 0.10
473 304 0.15
474 164 0.08
475 493 0.24
476 201 0.10
477 4 0.00
478 1 0.00
480 4 0.00
481 11 0.01
482 1 0.00
485 11 0.01
486 3 0.00
488 1 0.00
489 2 0.00
490 9 0.00
491 3 0.00
492 79 0.04
493 2 0.00
494 36 0.02
495 3 0.00
496 14 0.01
497 2 0.00
500 4 0.00
501 1 0.00
502 3 0.00
505 1 0.00
508 2 0.00
509 1 0.00
510 5 0.00
513 2 0.00
514 7 0.00
518 4 0.00
519 32 0.02
520 139 0.07
521 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (475 bp):
TTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATCGTTATTGATA
GAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCCATTCTTTTCAG
GATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTCGCAAG
AAATGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAAATGAGACAAACAAGGA
TTCTAGTAAGGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATA
AATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCATTACCCTATTTTCCTTAAAATCAAA
GTTTGTCCATTAAATAAGGCAACATTGATTCTCATAATAGTCTTCATTCTTTTCAAGATTGGGAA
CCAAAAACACATTCCCTTCA
Found at i:1005693 original size:966 final size:967
Alignment explanation
Indices: 1002884--1005782 Score: 5703
Period size: 966 Copynumber: 3.0 Consensus size: 967
1002874 ATCTGAAATT
1002884 TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
1 TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
1002949 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
66 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
1003014 TCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAGAAATGCATGAACAAA
131 TCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAGAAATGCATGAACAAA
1003079 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
196 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
1003144 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
261 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
1003209 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
326 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
1003274 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
391 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
1003339 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
456 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
*
1003404 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATAAAGGTAGAGGGAAT
521 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
1003469 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
586 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
1003534 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
651 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
1003599 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
716 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
1003664 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
781 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
1003729 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTG-TTTTTTTTCTCCAAAAAAGGA
846 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
1003793 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
911 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
*
1003850 TGCTATTTCCCCAAGGTTGGAAAAGCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
1 TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
1003915 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
66 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
*
1003980 TCTTGGCACAAACAACATGCAGCAAACATAACATATGTCATGGAGGACAGAAATGCATGAACAAA
131 TCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAGAAATGCATGAACAAA
1004045 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
196 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
1004110 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
261 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
1004175 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
326 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
1004240 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
391 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
1004305 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
456 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
1004370 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
521 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
1004435 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
586 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
1004500 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
651 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
1004565 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
716 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
1004630 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
781 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
1004695 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
846 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
1004760 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
911 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
1004817 TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
1 TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
*
1004882 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATTCGGTTTTGGCAGACAAATAAGCA
66 TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
*
1004947 TCTTGGCACAAACAACATGCAGCAAACACAACATATTTCATGGAGGACAGAAATGCATGAACAAA
131 TCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAGAAATGCATGAACAAA
1005012 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
196 GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
1005077 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
261 AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
1005142 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
326 ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
1005207 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
391 ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
1005272 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
456 GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
1005337 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
521 GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
1005402 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
586 ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
1005467 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
651 TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
*
1005532 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATAGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
716 GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
*
1005597 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTATTTTTTTTGTGTTTTTGG-TTTTTTT
781 GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
1005661 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
846 TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
* *
1005726 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCAATAGGATTA
911 TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
1005783 GGGGACAAAC
Statistics
Matches: 1921, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
966 1012 0.53
967 909 0.47
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (967 bp):
TGCTATTTCCCCAAGGTTGGAAAACCAACTCAAAAAAGCCTTAAGTTCATGTTATTCTCCATGTA
TGGGAGGTAGCATGAACTTGGCTTGGGGATATATTTAAAATCCGGTTTTGGCAGACAAATAAGCA
TCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAGAAATGCATGAACAAA
GATGAATTTTTATGGGAGGAAAAGAAAAAGAAAAGCAAATGCATGGTGATGGCAAGATATCATCA
AGATAAACATGTAAAAAAACACATTTTTATTTCATGGAACCTATCAAGCTATTAATCATGCATGA
ACATGCTCAAGATGTGTTGAAATGACATTCAATATGAGATAAAGATGTGAATATGGGAGGAATGA
ACAAAGGGTGCAAAAACAGGGGTTGTTATGGTGATGAAAAGCACACAAAACCAAAGAACAACAAA
GTCCTAAACTACCACAAACAAAAACTACAATAATGCATGGGAGTCCTAAGGTGTTTATGAGCATA
GGAAGAGACTTCTAATATGTCATTAATGGCCAAAACAGAAAGCAAAAGATCAAGGTAGAGGGAAT
ATACCAAAGCTTGAGCTTTCCTTGTTTCTTGGAATAAAGGTTGTTGGCCTAGTTTTCTCCCTCTC
TTTGCTATTATTTAGCAAGAAAATGATGGAAGGAGGTAGCTTTTGGGTAGTCTAGCTAAGGGAGA
GGTTGTTTGGGGGTGAAAGTGTGAGGAATATGGACTTTTTGGAGGTTTTTTGGTGGTGGCTTTTG
GAGCTACAGGAATAGAGTTTGAAAACCAATGGAATAGTGTTTTTTTTGTGTTTTTGGTTTTTTTT
TTGCTAAAGGATTTCCTAAGGGTTTTTTGTTGCTGAAAATTTGTTTTTTTTTCTCCAAAAAAGGA
TCCCCTTTTGCTGAGCCAACAGCCACTACTTATAATCAAGCTTGGCCGATAGCATTA
Found at i:1006299 original size:19 final size:19
Alignment explanation
Indices: 1006275--1006347 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
1006265 AGCGATACAT
1006275 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
1006294 TGTATCGGTACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1006313 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1006334 TGTATCGATACAAA
1 TGTATCGATACAAA
1006348 TTATTGGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 28 0.64
20 3 0.07
21 13 0.30
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1007001 original size:40 final size:41
Alignment explanation
Indices: 1006957--1007053 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 41
1006947 CCACTTTTCA
1006957 AGGACAAAGGAAAAG-AGAATGA-AATAG-GTCCTGCTCCTTG
1 AGGACAAAGGAAAAGAAGAA-GAGAA-AGTGTCCTGCTCCTTG
* * *
1006997 AGGACCAAGGAAGAGAAGAAGAGGAAAGTGTCCTGCTTCTTG
1 AGGACAAAGGAAAAGAAGAAGA-GAAAGTGTCCTGCTCCTTG
1007039 AGGACAAAGTGAAAA
1 AGGACAAAG-GAAAA
1007054 AGAGTACGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
40 15 0.32
41 6 0.13
42 22 0.47
43 4 0.09
ACGTcount: A:0.41, C:0.13, G:0.30, T:0.15
Consensus pattern (41 bp):
AGGACAAAGGAAAAGAAGAAGAGAAAGTGTCCTGCTCCTTG
Found at i:1007230 original size:55 final size:55
Alignment explanation
Indices: 1007146--1008267 Score: 1225
Period size: 55 Copynumber: 19.9 Consensus size: 55
1007136 ATAAAGTGTA
**
1007146 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAA-TTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTT-GTGTGGGCTTTGAAAGGCG
* *
1007201 TCCTGCTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGCCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1007256 TCCTGCTCTTTGAGGACT-GAAAGCTGCCACCAACTTATGTGGTCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAG-TGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
1007311 TCCTGCTCTTTGAGGACTGGAAACTACCACCAACTTGTGT-GGCTTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGC-TTTGAAAGGCG
* * * * *
1007366 TCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
1007427 TCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
1007482 TCCTGCTCTTTGAGGACTGGAAAATGCCAACAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
1007537 TCTTGCTCTTTGGGGACT-GAAAGGTGCCACCAATTTGTGTGGGCTTCGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
1007598 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1007653 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1007708 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1007763 TCCTGCTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1007818 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1007873 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAGGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
*
1007934 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
1007989 TCCTACTTTTTGAGGACT--ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
* *
1008047 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1008102 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
*
1008162 TCCTGCTTTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
1008222 TCCTGCTTTTTGAGGAC--AAAAGGTGCCACCACCTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
1008268 AAAAAGAAAA
Statistics
Matches: 943, Mismatches: 75, Indels: 93
0.85 0.07 0.08
Matches are distributed among these distances:
53 2 0.00
54 62 0.07
55 555 0.59
56 23 0.02
58 21 0.02
59 25 0.03
60 119 0.13
61 130 0.14
62 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1007493 original size:171 final size:171
Alignment explanation
Indices: 1007146--1008301 Score: 1246
Period size: 171 Copynumber: 6.8 Consensus size: 171
1007136 ATAAAGTGTA
* *
1007146 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAA-TTCGTGTGGGCTTTGAAAGGCGTCCTGCTT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTT-GTGTGGGCTTTGAAAGGCGTCCTGCTC
* * * *
1007209 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCCTTT----G-AAAGGCGTCCTGCTCTTTGA
64 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGA
* * *
1007269 GGAC-TGAAAGCTGCCACCAACTTATGTGGTCTTT-AAGAGGTG
129 GGACTTGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
1007311 TCCTGCTCTTTGAGGACTGGAAACTACCACCAACTTGTGT-GGCTTTTGAAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTTGAAAGGCGTCCTGCTCT
* *
1007375 TTGGGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGA
65 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCCTGCTCTTTGA
*
1007440 GGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
129 GGACTTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
1007482 TCCTGCTCTTTGAGGACTGGAAAATGCCAACAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
1007547 TGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTCGAAAAGAAAAAGCATCCTGCTCTTTGAG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT-TAAAAGAAAAAGCATCCTGCTCTTTGAG
* * * *
1007612 GACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
130 GACTTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
*
1007653 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
1007718 TGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTGCTCCTTGAG
66 TGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAG
* * * * *
1007777 GACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAA-AGGCA
130 GACTTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
*
1007818 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
** * * * * *
1007883 TGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAGGGAGAAGGCGTCCTGCTCTTTGAG
66 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA-AGAAAAAGCATCCTGCTCTTTGAG
* *
1007948 GACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AGGCG
130 GACTTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * ** * *
1007989 TCCTACTTTTTGAGGACT--ACAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAGGTGTCCTG
1 TCCTGCTCTTTGAGGACTGGA-AAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCGTCCTG
** *
1008052 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-----GCGTCCTGCTCTT
61 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTT
*
1008112 TGAGGAC-T-AAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAGGCG
126 TGAGGACTTGAAA-GTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGCG
* *
1008162 TCCTGCTTTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCC
* * ** *
1008225 TGCTTTTTGAGGAC--AAAAGGTGCCACCACCTTGTGTGGGCTTTAAAAAGAAAAAAAGTGTCAT
59 TGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAAGCATCCT
1008288 GCTCTTTGAGGACT
120 GCTCTTTGAGGACT
1008302 GGAAGGGCTA
Statistics
Matches: 869, Mismatches: 74, Indels: 78
0.85 0.07 0.08
Matches are distributed among these distances:
164 6 0.01
165 233 0.27
166 8 0.01
167 23 0.03
168 20 0.02
169 4 0.00
170 26 0.03
171 357 0.41
172 16 0.02
173 50 0.06
174 82 0.09
175 26 0.03
182 18 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (171 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAGG
ACTTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
Found at i:1007648 original size:28 final size:28
Alignment explanation
Indices: 1007617--1007758 Score: 80
Period size: 28 Copynumber: 5.1 Consensus size: 28
1007607 TTGAGGACTA
1007617 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * * * *
1007645 G-AAA-GGCATCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
1007672 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * * * *
1007700 G-AAA-GGCATCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
1007727 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
1007755 GAAA
1 GAAA
1007759 GGCATCCTGC
Statistics
Matches: 76, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
26 6 0.08
27 30 0.39
28 34 0.45
29 6 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1007675 original size:27 final size:27
Alignment explanation
Indices: 1007645--1007730 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1007635 TGTGGGCTTT
1007645 GAAAGGCATCCTGCTCTTTGAGGACTG
1 GAAAGGCATCCTGCTCTTTGAGGACTG
* ** * * * *
1007672 GAAAATGCCA-CCAACT-TGTGTGGGCTTT
1 G-AAA-GGCATCCTGCTCTTTGAGGAC-TG
1007700 GAAAGGCATCCTGCTCTTTGAGGACTG
1 GAAAGGCATCCTGCTCTTTGAGGACTG
1007727 GAAA
1 GAAA
1007731 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 15 0.38
29 3 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (27 bp):
GAAAGGCATCCTGCTCTTTGAGGACTG
Found at i:1012537 original size:32 final size:32
Alignment explanation
Indices: 1012496--1012558 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1012486 TACAAGCCAA
*
1012496 TGTATCGATACA-ATTTTTGTATATCGATACAT
1 TGTATCGATACATA-CTTTGTATATCGATACAT
*
1012528 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTATATCGATACA
1012559 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTATATCGATACAT
Found at i:1014628 original size:21 final size:20
Alignment explanation
Indices: 1014599--1014641 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1014589 GACTAGTGTG
* *
1014599 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1014620 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1014640 GG
1 GG
1014642 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1015101 original size:13 final size:13
Alignment explanation
Indices: 1015083--1015121 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1015073 ATAATCCCTC
1015083 TGTATCGATACAA
1 TGTATCGATACAA
*
1015096 TGTATCGATACAT
1 TGTATCGATACAA
1015109 TGTATCGATACAA
1 TGTATCGATACAA
1015122 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1022437 original size:52 final size:53
Alignment explanation
Indices: 1022373--1022507 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 53
1022363 AAATAACGAG
* * *
1022373 GTTGGAGTATCCTCGATTGTGAAAAATTGAGGT-TTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCTCGATTATGAAAAATTGAGGTGTTTTGAAAATAAAATCGGA
* * *
1022425 GTTGGAGTATCCTCGATTAAAGGAAAA-TG-GGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCTCGATT-ATGAAAAATTGAGGTGTTTTGAAAATAAAATCGGA
* * *
1022477 GTTAGAGTATCCCCGATTATGAACAATTGAG
1 GTTGGAGTATCCTCGATTATGAAAAATTGAG
1022508 AAACTTAACA
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
51 8 0.12
52 54 0.79
53 6 0.09
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (53 bp):
GTTGGAGTATCCTCGATTATGAAAAATTGAGGTGTTTTGAAAATAAAATCGGA
Found at i:1029596 original size:13 final size:13
Alignment explanation
Indices: 1029555--1029603 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1029545 CGTTACAAGC
1029555 CAATGTATCGATA
1 CAATGTATCGATA
*
1029568 CAAT-T-T-GGT-
1 CAATGTATCGATA
1029577 C-ATGTATCGATA
1 CAATGTATCGATA
1029589 CAATGTATCGATA
1 CAATGTATCGATA
1029602 CA
1 CA
1029604 TCTTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1029598 original size:34 final size:32
Alignment explanation
Indices: 1029555--1029623 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1029545 CGTTACAAGC
1029555 CAATGTATCGATACAAT-TTGGTCATGTATCGATA
1 CAATGTATCGATAC-ATCTT-GT-ATGTATCGATA
1029589 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
1029621 CAA
1 CAA
1029624 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 4 0.12
34 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:1029721 original size:13 final size:13
Alignment explanation
Indices: 1029703--1029727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1029693 TACAGTGGTC
1029703 ATGTATCGATACA
1 ATGTATCGATACA
1029716 ATGTATCGATAC
1 ATGTATCGATAC
1029728 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1029741 original size:20 final size:20
Alignment explanation
Indices: 1029716--1029757 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1029706 TATCGATACA
1029716 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
1029736 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
1029756 AT
1 AT
1029758 CGGCCCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTGTGCATT
Found at i:1030911 original size:28 final size:27
Alignment explanation
Indices: 1030871--1030940 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
1030861 AATAAAGCCG
** *
1030871 GGGTTGGAGTATCCCCTCGGAAGTAAC
1 GGGTTGGAGTATCCCCGAGGAAATAAC
*
1030898 AGGGTTGGAGTATCCCCGATGAAATAAC
1 -GGGTTGGAGTATCCCCGAGGAAATAAC
1030926 GAGGTTGGAGTATCC
1 G-GGTTGGAGTATCC
1030941 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:1031095 original size:52 final size:51
Alignment explanation
Indices: 1030928--1031098 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
1030918 GAAATAACGA
* * *
1030928 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGT-GTTTT-GAAATAAAACCGG
* * ** * **
1030980 AGTTGGAGTATTCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCAA
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTGGTGTTTTG-AAATAAAACCGG
* *
1031032 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTT-GAAATAAAACCGG
1031084 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1031099 TCAGAAATAA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
51 3 0.03
52 82 0.86
53 9 0.09
54 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTGGTGTTTTGAAATAAAACCGG
Found at i:1031116 original size:28 final size:27
Alignment explanation
Indices: 1031081--1031153 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1031071 GCAATAAAAC
1031081 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-CATG-AATAA
* * *
1031109 CGGGGTTGGAATATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCCATGAATAA
1031136 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1031154 GATTGTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCCATGAATAA
Found at i:1031221 original size:212 final size:211
Alignment explanation
Indices: 1030821--1031239 Score: 592
Period size: 212 Copynumber: 2.0 Consensus size: 211
1030811 AAAATAACGG
* * * *
1030821 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATCCC
* * * *
1030886 CTCGGAAGTAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCAGAAATAACAGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
* *
1030951 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATTCCCGATTAAAGGAAAATTGGCGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATTCCCGATTAAAGGAAAATTAGCGTT
1031016 TTGAAAATAAAACCAA
196 TTGAAAATAAAACCAA
* * * * *
1031032 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCAATTAT-GAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATCC
* * *
1031097 CCTCAGAAATAACGGGGTTGGAATATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTG
65 CCTCAGAAATAACAGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTG
* *
1031161 AAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA-TCCCTGATTATA-GAAAATTAG
130 AA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTATTCCC-GATTAAAGGAAAATTAG
*
1031224 TGTTTTGAAAATAAAA
192 CGTTTTGAAAATAAAA
1031240 TCGGAGTTAG
Statistics
Matches: 183, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
211 48 0.26
212 101 0.55
213 34 0.19
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (211 bp):
GGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATCCC
CTCAGAAATAACAGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
AAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATTCCCGATTAAAGGAAAATTAGCGTT
TTGAAAATAAAACCAA
Found at i:1033471 original size:20 final size:20
Alignment explanation
Indices: 1033444--1033498 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1033434 TAAAATTTCC
*
1033444 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
1033464 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
1033484 AAATGTATCGATACA
1 AAATGTATCGATACA
1033499 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:1033542 original size:19 final size:19
Alignment explanation
Indices: 1033518--1033589 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
1033508 CAGTAGCTAA
1033518 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
1033537 TTATGTATCGATACAATAC
1 TTATGTATCGATACAATAC
*
1033556 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAATAC
1033575 TTATGTATCGATACA
1 TTATGTATCGATACA
1033590 TTGTATCGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAATAC
Found at i:1033596 original size:13 final size:13
Alignment explanation
Indices: 1033578--1033602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1033568 ACAAAACTTA
1033578 TGTATCGATACAT
1 TGTATCGATACAT
1033591 TGTATCGATACA
1 TGTATCGATACA
1033603 AATTGTTGAA
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:1033687 original size:21 final size:21
Alignment explanation
Indices: 1033663--1033716 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1033653 TTGTAGGATA
1033663 TATCGATACATTCCACAAATG
1 TATCGATACATTCCACAAATG
*
1033684 TATCGATACATTCTACAAATG
1 TATCGATACATTCCACAAATG
1033705 TATCGATACATT
1 TATCGATACATT
1033717 TGGATAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (21 bp):
TATCGATACATTCCACAAATG
Found at i:1034485 original size:55 final size:55
Alignment explanation
Indices: 1034399--1034923 Score: 609
Period size: 55 Copynumber: 9.3 Consensus size: 55
1034389 ATAAAGTGTA
* * * * * *
1034399 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1034454 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
1034509 TCCTGCTCTTTCAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1034564 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
1034619 TCCTG-TCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* *
1034679 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
1034738 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGG-TTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
*
1034796 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
1034850 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1034905 TCCTGCTCTTTGAGGACTG
1 TCCTGCTCTTTGAGGACTG
1034924 GATGTTAGGG
Statistics
Matches: 421, Mismatches: 28, Indels: 43
0.86 0.06 0.09
Matches are distributed among these distances:
53 2 0.00
54 69 0.16
55 190 0.45
56 10 0.02
58 56 0.13
59 44 0.10
60 33 0.08
61 11 0.03
64 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1035913 original size:19 final size:17
Alignment explanation
Indices: 1035838--1035915 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
1035828 CTTAAGTAGG
*
1035838 TTTTTTCTTTTCTCTCTTT
1 TTTTTTTTTTTC-CT-TTT
* * *
1035857 TTCTTTGTTTT-GTTTT
1 TTTTTTTTTTTCCTTTT
1035873 TTTGTTTTTTTTCCTTTT
1 TTT-TTTTTTTTCCTTTT
*
1035891 TTTTTTCTTTTACCTTTT
1 TTTTTT-TTTTTCCTTTT
1035909 TTTTTTT
1 TTTTTTT
1035916 GAAGAGAAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
16 5 0.10
17 12 0.24
18 23 0.47
19 9 0.18
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTCCTTTT
Done.