Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 7 of 35
Found at i:959868 original size:13 final size:13
Alignment explanation
Indices: 959850--959874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
959840 ACAATACTTA
959850 TGTATCGATACAT
1 TGTATCGATACAT
959863 TGTATCGATACA
1 TGTATCGATACA
959875 AAACTTATGT
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:959872 original size:32 final size:32
Alignment explanation
Indices: 959831--959893 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
959821 TAGCTAATTA
* *
959831 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCAATACAT
959863 TGTATCGATACAAAACTTATGTATCAATACA
1 TGTATCGATACAAAACTTATGTATCAATACA
959894 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAT
Found at i:962814 original size:20 final size:20
Alignment explanation
Indices: 962718--962814 Score: 113
Period size: 20 Copynumber: 4.7 Consensus size: 20
962708 TTTTAACTAG
* *
962718 ATGTATCGATACACTGAACA
1 ATGTATCGATACATTGAAGA
* *
962738 ATGTATCGATGCATCTGGGTAGA
1 ATGTATCGATACAT-T--GAAGA
*
962761 ATATATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
962781 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAGA
962801 ATGTATCGATACAT
1 ATGTATCGATACAT
962815 CTGGGTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 48 0.74
21 1 0.02
22 1 0.02
23 15 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:963624 original size:49 final size:49
Alignment explanation
Indices: 963552--963681 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 49
963542 GGGAGCCAAT
* *
963552 GTGCTAATTCAGGGCCAGCGACATTGGG-TAAAGGGAAAAGTGGACTAAC
1 GTGCTGATTCAAGGCCAGCGACATTGGGCT-AAGGGAAAAGTGGACTAAC
*
963601 GTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACTAAT
1 GTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACTAAC
* * *
963650 GTGCTGATTTAAAGCCAGCAACATTGGGCTAA
1 GTGCTGATTCAAGGCCAGCGACATTGGGCTAA
963682 TAAAGGTGCC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
49 73 0.99
50 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.21
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACTAAC
Found at i:963811 original size:28 final size:28
Alignment explanation
Indices: 963758--964479 Score: 383
Period size: 28 Copynumber: 25.2 Consensus size: 28
963748 TGAAAATAGT
963758 TGCCACTGACTTGTGTGGGCTTTGAAAGGG
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGG
*
963788 TGCCACCGACTTGTGGGCTTTGAAAGGGTG
1 TGCCACTGACTTGTGGGCTTTGAAA-GG-G
*
963818 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
963846 TGCCACCGATTTGTGTGGGCTTTGAACAGAGT
1 TGCCACTGA-CT-TGTGGGCTTTGAA-AG-GG
* * *
963878 TGCCA-TCGACTTGTATGGACTTTGAAAAAAGT
1 TGCCACT-GACTTG--TGGGCTTTG--AAAGGG
* * * *
963910 TACCATTGACTTATGGGCTTTAAAAAGGG
1 TGCCACTGACTTGTGGGCTTT-GAAAGGG
*
963939 TGTCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
963967 TGCCACCGATTTGTGTGGCTTTGAACAGAGT
1 TGCCACTGACTTGTG-GGCTTTGAA-AG-GG
* *
963998 TGCCACCGACTTGTGTGGACTTTGAAAAGAGA
1 TGCCACTGACTTGTG-GG-CTTTG-AAAG-GG
* *
964030 TACCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
964058 TATGCCACTGACTTGTGGGCTTTGAAAAGA
1 --TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
964088 TGCCACTGACTTGTGCGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
964116 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* *
964144 TGCCACTGACTTGT-GGATTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * ***
964171 TGCCAC-GAAGTTGTGGAC-TTAAAATAA
1 TGCCACTG-ACTTGTGGGCTTTGAAAGGG
* *
964198 TGCCACTGACTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * **
964225 TGCCA-TGGAATTGTGGACTTAAAAAGGG
1 TGCCACT-GACTTGTGGGCTTTGAAAGGG
* * * *
964253 TTGCCACGGAGTTGTGGACTTT-AAAGGT
1 -TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * ** *
964281 TGCCACGGAGTTGTGGACTTAAAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * ** *
964309 TGCCACAGAGTTGTGAAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* ** * *
964336 TGCCA-TGGAGTTGTGGATTTTAAAAGGA
1 TGCCACT-GACTTGTGGGCTTTGAAAGGG
* * * * *
964364 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
964392 TGCCAC-GAAATTGTGGACTTT-AAGAGGA
1 TGCCACTG-ACTTGTGGGCTTTGAA-AGGG
* * *
964420 TGCCACAGAGC-TGTGGAC-TTAAAAGGG
1 TGCCACTGA-CTTGTGGGCTTTGAAAGGG
* * * * *
964447 TGCCACGGAGTTGTGGAC-TTAAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGG
964474 TGCCAC
1 TGCCAC
964480 GGAGCTGTGG
Statistics
Matches: 579, Mismatches: 76, Indels: 77
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.00
27 140 0.24
28 216 0.37
29 58 0.10
30 86 0.15
31 23 0.04
32 48 0.08
33 4 0.01
34 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:963997 original size:120 final size:119
Alignment explanation
Indices: 963746--964172 Score: 451
Period size: 120 Copynumber: 3.6 Consensus size: 119
963736 AAAGTGGTGA
* * * * * * * * *
963746 TTTGAAAATAGTTGCCACTGACTTGTGTGGGCTTTG--AAAGGGTGCCACCGACTTGTGGGCTTT
1 TTTGAACAGAGTTGCCACCGACTTGTATGGACTTTGAAAAAAGATACCACTGACTTGTGGGCTTT
*
963809 GAAAGGGTGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGTGGGC
66 GAAAGGGTGT--CACTGACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGT-GGC
* * * *
963866 TTTGAACAGAGTTGCCATCGACTTGTATGGACTTTGAAAAAAGTTACCATTGACTTATGGGCTTT
1 TTTGAACAGAGTTGCCACCGACTTGTATGGACTTTGAAAAAAGATACCACTGACTTGTGGGCTTT
*
963931 AAAAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGTGGC
66 -GAAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGTGGC
* * *
963986 TTTGAACAGAGTTGCCACCGACTTGTGTGGACTTTGAAAAGAGATACCACTAACTTGTGGGCTTT
1 TTTGAACAGAGTTGCCACCGACTTGTATGGACTTTGAAAAAAGATACCACTGACTTGTGGGCTTT
* * * * * *
964051 GAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTG-CGC
66 GAAAGGG--TGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGTGGC
* * * * * *
964106 TTTGAA-A-AGATGCCACTGACTTG--TGGGCTTTG--AAATGATGCCACTGACTTGT-GGATTT
1 TTTGAACAGAGTTGCCACCGACTTGTATGGACTTTGAAAAAAGATACCACTGACTTGTGGGCTTT
*
964164 AAAAGGGTG
66 GAAAGGGTG
964173 CCACGAAGTT
Statistics
Matches: 265, Mismatches: 37, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
111 2 0.01
113 11 0.04
114 16 0.06
116 8 0.03
118 14 0.05
119 7 0.03
120 99 0.37
121 78 0.29
122 21 0.08
123 9 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (119 bp):
TTTGAACAGAGTTGCCACCGACTTGTATGGACTTTGAAAAAAGATACCACTGACTTGTGGGCTTT
GAAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGATTTGTGTGGC
Found at i:964340 original size:55 final size:55
Alignment explanation
Indices: 964142--964575 Score: 514
Period size: 55 Copynumber: 7.9 Consensus size: 55
964132 GCTTTGAAAT
* * * *
964142 GATGCCACTGACTTGTGGATTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAATA-
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-AG
* * * *
964197 -ATGCCACTGACTTGTGGACTTAAAAGGGTGCCATGGAATTGTGGACTTAAAAAGG
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAA-G
* * * *
964252 GTTGCCACGGAGTTGTGGACTTTAAAGGTTGCCACGGAGTTGTGGACTTAAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * * *
964307 GTTGCCACAGAGTTGTGAACTTAAAAGGGTGCCATGGAGTTGTGGATTTTAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * * *
964362 GATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGAAATTGTGGACTTTAAGAG
1 GATGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
*
964418 GATGCCACAGAGCTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * ** *
964473 G-TGCCACGGAGCTGTGGACTTAAAAGGTTGCCACGGAGTTGTAAACTTTAAAAG
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * * *
964527 GATGTCACGGAGCTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
964576 TGAAGAGGTT
Statistics
Matches: 331, Mismatches: 43, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.00
54 97 0.29
55 139 0.42
56 94 0.28
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (55 bp):
GATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:964535 original size:28 final size:28
Alignment explanation
Indices: 964011--964576 Score: 490
Period size: 28 Copynumber: 20.4 Consensus size: 28
964001 CACCGACTTG
* ** *
964011 TGTGGACTTTGAAAAGAGATACCACTAACT
1 TGTGGACTTT-AAAAG-GATGCCACGGAGT
* * * *
964041 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGACTTT-AAAAGG-ATGCCACGGAGT
* * *
964071 TGTGGGCTTTGAAAA-GATGCCACTGACT
1 TGTGGACTTT-AAAAGGATGCCACGGAGT
* *
964099 TGTGCG-CTTTGAAAA-GATGCCACTGACT
1 TGTG-GACTTT-AAAAGGATGCCACGGAGT
* * * * *
964127 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
964155 TGTGGA-TTTAAAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
** * *
964182 TGTGGAC-TTAAAATAATGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
964209 TGTGGAC-TTAAAAGGGTGCCATGGAAT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
964236 TGTGGACTTAAAAAGGGTTGCCACGGAGT
1 TGTGGACTTTAAAA-GGATGCCACGGAGT
*
964265 TGTGGACTTT-AAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
964292 TGTGGACTTAAAAAGGTTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
964320 TGTGAAC-TTAAAAGGGTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
964347 TGTGGATTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
964375 TGTGGACTTTAAAAGGATGCCACGAAAT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
964403 TGTGGACTTTAAGAGGATGCCACAGAGC
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
964431 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
964458 TGTGGACTTAAAAAGG-TGCCACGGAGC
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
964485 TGTGGAC-TTAAAAGGTTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
** * *
964512 TGTAAACTTTAAAAGGATGTCACGGAGC
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
964540 TATGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
964567 TGTGGACTTT
1 TGTGGACTTT
964577 GAAGAGGTTA
Statistics
Matches: 451, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.02
27 188 0.42
28 195 0.43
29 23 0.05
30 38 0.08
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGAGT
Found at i:964573 original size:27 final size:27
Alignment explanation
Indices: 964144--964575 Score: 468
Period size: 27 Copynumber: 15.7 Consensus size: 27
964134 TTTGAAATGA
* * *
964144 TGCCACTGACTTGTGGATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* ***
964171 TGCCACGAAGTTGTGGACTTAAAATAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
964198 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
964225 TGCCATGGAATTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
964253 TTGCCACGGAGTTGTGGACTTTAAAGGT
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
*
964281 TGCCACGGAGTTGTGGACTTAAAAAGGT
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
964309 TGCCACAGAGTTGTGAACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
964336 TGCCATGGAGTTGTGGATTTTAAAAGGA
1 TGCCACGGAGTTGTGGA-CTTAAAAGGG
* *
964364 TGCCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
964392 TGCCACGAAATTGTGGACTTTAAGAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
964420 TGCCACAGAGCTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
964447 TGCCACGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
964474 TGCCACGGAGCTGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
** *
964501 TGCCACGGAGTTGTAAACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
964529 TGTCACGGAGCTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
964556 TGCCACAGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
964576 TGAAGAGGTT
Statistics
Matches: 337, Mismatches: 62, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
27 192 0.57
28 127 0.38
29 18 0.05
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:973035 original size:20 final size:20
Alignment explanation
Indices: 973010--973104 Score: 100
Period size: 20 Copynumber: 4.8 Consensus size: 20
973000 TTTTAACTAG
*
973010 ATGTATCGATACATTGAACT
1 ATGTATCGATACATTGAACA
* *
973030 ATGTATTGATACATTGAAGA
1 ATGTATCGATACATTGAACA
* * *
973050 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAACA
* *
973070 ACGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAACA
* *
973090 ATGCATCTATACATT
1 ATGTATCGATACATT
973105 TGGGTAAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAACA
Found at i:973081 original size:40 final size:40
Alignment explanation
Indices: 973010--973104 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
973000 TTTTAACTAG
* * * * *
973010 ATGTATCGATACATTGAACTATGTATTGATACATTGAAGA
1 ATGTATCGATACATTCAACCACGTATCGATACATTGAAAA
*
973050 ATGTATCGATACATTCATCCACGTATCGATACATTGAAAA
1 ATGTATCGATACATTCAACCACGTATCGATACATTGAAAA
* *
973090 ATGCATCTATACATT
1 ATGTATCGATACATT
973105 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (40 bp):
ATGTATCGATACATTCAACCACGTATCGATACATTGAAAA
Found at i:974201 original size:3 final size:3
Alignment explanation
Indices: 974193--974223 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
974183 TCTGAGTCAA
*
974193 CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
974224 TTTGATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:975835 original size:20 final size:20
Alignment explanation
Indices: 975808--975863 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
975798 CCGTTTAGGA
*
975808 CAATGTATCGATACAATTCTT
1 CAATGTATCGATACAA-TCTG
*
975829 C-ATGTATCGATACAATGTG
1 CAATGTATCGATACAATCTG
975848 CAATGTATCGATACAA
1 CAATGTATCGATACAA
975864 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.09
20 28 0.88
21 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
CAATGTATCGATACAATCTG
Found at i:975919 original size:20 final size:19
Alignment explanation
Indices: 975886--975948 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
975876 TAGCTACTGC
*
975886 CAAT-TTCATATATCGATA
1 CAATGTTCATGTATCGATA
*
975904 CATTTGTTCATGTATCGATA
1 CA-ATGTTCATGTATCGATA
**
975924 CAATGAACATGTATCGATA
1 CAATGTTCATGTATCGATA
975943 CAATGT
1 CAATGT
975949 ATCGATACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 15 0.41
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
CAATGTTCATGTATCGATA
Found at i:975950 original size:13 final size:13
Alignment explanation
Indices: 975932--975958 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
975922 TACAATGAAC
975932 ATGTATCGATACA
1 ATGTATCGATACA
975945 ATGTATCGATACA
1 ATGTATCGATACA
975958 A
1 A
975959 AGAATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:975954 original size:32 final size:33
Alignment explanation
Indices: 975913--975977 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
975903 ACATTTGTTC
* *
975913 ATGTATCGATACAATGAA-CATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
975945 ATGTATCGATACAAAGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
975978 TCTGAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:976114 original size:22 final size:21
Alignment explanation
Indices: 976086--976135 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
976076 ATTTTTACTT
*
976086 AAAAACATTTGATTTA-AAGCTC
1 AAAAACATTTG-TTCATAAG-TC
976108 AAAAACATTTGTTCATAAGTC
1 AAAAACATTTGTTCATAAGTC
976129 AAAAACA
1 AAAAACA
976136 CTTATTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (21 bp):
AAAAACATTTGTTCATAAGTC
Found at i:976130 original size:21 final size:22
Alignment explanation
Indices: 976086--976144 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
976076 ATTTTTACTT
*
976086 AAAAACATTTGATTTAAAGCTC
1 AAAAACATTTGATTCAAAGCTC
976108 AAAAACATTTG-TTCATAAG-TC
1 AAAAACATTTGATTCA-AAGCTC
*
976129 AAAAACACTT-ATTCAA
1 AAAAACATTTGATTCAA
976145 TTTGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 18 0.55
22 14 0.42
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAAACATTTGATTCAAAGCTC
Found at i:976896 original size:20 final size:20
Alignment explanation
Indices: 976871--976922 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
976861 CATTTTAAGC
* *
976871 ATGTATCGATACATTCATTT
1 ATGTATCGATACATTCACTA
*
976891 ATGTATCAATACATTCACTA
1 ATGTATCGATACATTCACTA
976911 ATTGTATCGATA
1 A-TGTATCGATA
976923 TAAATCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:978139 original size:66 final size:67
Alignment explanation
Indices: 978045--978187 Score: 157
Period size: 67 Copynumber: 2.1 Consensus size: 67
978035 GTTGAATTTG
* *
978045 TTTTTAAAATGGGTTAAACCTCAAGATCACTA-CAAGGTCTTT-CTATTTTCTTTTAAGTCA-AA
1 TTTTCAAAATGGGTTAAACCTCAAGATCACCACCAAGGT-TTTACTATTTTCTTTTAAG-CAGAA
*
978107 CTTA
64 CTCA
** * * * * *
978111 TTTTCAAAATGGGTTAAGTCTTAGGATCACCACCAAGGTTTTATTGTTTTCTTTTAAGGAGAACT
1 TTTTCAAAATGGGTTAAACCTCAAGATCACCACCAAGGTTTTACTATTTTCTTTTAAGCAGAACT
978176 CA
66 CA
978178 TTTTCAAAAT
1 TTTTCAAAAT
978188 AGGTCAAGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
66 30 0.47
67 34 0.53
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (67 bp):
TTTTCAAAATGGGTTAAACCTCAAGATCACCACCAAGGTTTTACTATTTTCTTTTAAGCAGAACT
CA
Found at i:979802 original size:32 final size:34
Alignment explanation
Indices: 979744--979807 Score: 105
Period size: 32 Copynumber: 1.9 Consensus size: 34
979734 GAAAATTGAT
979744 CATATAAAATTTTAATTTAATTTCTATTTTATATC
1 CATATAAAATTTTAA-TTAATTTCTATTTTATATC
979779 CATATAAAATTTT-A-TAATTTCTATTTTAT
1 CATATAAAATTTTAATTAATTTCTATTTTAT
979808 TTTAAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 15 0.52
34 1 0.03
35 13 0.45
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (34 bp):
CATATAAAATTTTAATTAATTTCTATTTTATATC
Found at i:979982 original size:24 final size:25
Alignment explanation
Indices: 979919--979982 Score: 60
Period size: 28 Copynumber: 2.5 Consensus size: 25
979909 TACATTGAAT
*
979919 TAAATG-AAAAGTAAAAAAAATAAA
1 TAAATGCAAAAATAAAAAAAATAAA
* *
979943 TAAATAAGTCATAAATAAAAATAATAAA
1 TAAAT--G-CAAAAATAAAAAAAATAAA
979971 -AAATGCAAAAAT
1 TAAATGCAAAAAT
979983 CATGGAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 11 0.34
25 1 0.03
26 1 0.03
27 4 0.12
28 15 0.47
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAATGCAAAAATAAAAAAAATAAA
Found at i:980561 original size:122 final size:122
Alignment explanation
Indices: 980421--980678 Score: 464
Period size: 122 Copynumber: 2.1 Consensus size: 122
980411 ATGTTTTGTG
* *
980421 ATATTTATCATGCCATGTTTGTGTTGATTCATGTTGAAATATTAGTGATTTTATGTTGTTTTTAA
1 ATATTTATCATGCCATGTTTGTGTTGATTCATATTGAAATATTAGTGATTTCATGTTGTTTTTAA
980486 GTTTATTCATGATATTATTTATGGGATTTCATGAGAAAATTTTTGTTTGGTGCCTTA
66 GTTTATTCATGATATTATTTATGGGATTTCATGAGAAAATTTTTGTTTGGTGCCTTA
*
980543 ATATTTATCATGCCATGTTTGTGTTGATTCATATTGAAATATTAGTGCTTTCATGTTGTTTTTAA
1 ATATTTATCATGCCATGTTTGTGTTGATTCATATTGAAATATTAGTGATTTCATGTTGTTTTTAA
*
980608 GTTTATTCATGATATTATTTATGGGATTTCATGAGAAAATTTTTGTTTGGTGTCTTA
66 GTTTATTCATGATATTATTTATGGGATTTCATGAGAAAATTTTTGTTTGGTGCCTTA
980665 ATATTT-TCCATGCC
1 ATATTTAT-CATGCC
980679 TTGGCCGAAT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 1 0.01
122 130 0.99
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.50
Consensus pattern (122 bp):
ATATTTATCATGCCATGTTTGTGTTGATTCATATTGAAATATTAGTGATTTCATGTTGTTTTTAA
GTTTATTCATGATATTATTTATGGGATTTCATGAGAAAATTTTTGTTTGGTGCCTTA
Found at i:981823 original size:155 final size:153
Alignment explanation
Indices: 981639--982085 Score: 533
Period size: 155 Copynumber: 2.9 Consensus size: 153
981629 TTCAACATTC
* * *
981639 CATCACATCTACAATCCTTTTTAGACCTTTAAGGGTATCGAACACTTCTGCGTCGAAGGTATCCT
1 CATCACATCTACAATCCTTTTTAGTCCTTTAGGGGTATCGAACACTTCTACGTCGAAGGTATCCT
*
981704 CTAGAGGCATTTTCGTATTTTTTTTATAATTGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGC
66 CTAGAGGTATTTTCGTA-TTTTTTTATAATTGAGTCCTAGGTTGTCATCGGGTCT-CTTTTATGC
*
981769 CGAAGGTGGGTGTTTAAGATAGGGT
129 CGAAGGTGGGTATTTAAGATAGGGT
* *
981794 CATCCCATCTACAATCCTTTTTAGTCCTTTAGGGGTATC-AAGCACTTTTACGTCGAAGGTATCC
1 CATCACATCTACAATCCTTTTTAGTCCTTTAGGGGTATCGAA-CACTTCTACGTCGAAGGTATCC
* * * * * *
981858 CCTAG-GGATATTTTTGTAATTTTTCATAATTGAGTCTTAGGTTGTCACCGGGTTCTCTTTTATG
65 TCTAGAGG-TATTTTCGTATTTTTTTATAATTGAGTCCTAGGTTGTCATCGGG-TCTCTTTTATG
* *
981922 CTGAAGGTGGGTATTTAAGATAGGTT
128 CCGAAGGTGGGTATTTAAGATAGGGT
* * * * * * *
981948 CATCACAGCTATAATCATTTTTAAGTTCTTTAGGGGTATCGAGCACTTCTAAGTCAAAGGTAT-C
1 CATCACATCTACAATCCTTTTT-AGTCCTTTAGGGGTATCGAACACTTCTACGTCGAAGGTATCC
** * * *
982012 TCCTA-AGAGTATTTTCGTAATTTTTTTAGGATTGAATCCTAGGTTGTCATCGGGTCACTTCTAT
65 T-CTAGAG-GTATTTTCGT-ATTTTTTTATAATTGAGTCCTAGGTTGTCATCGGGTCTCTTTTAT
*
982076 GCCAAAGGTG
127 GCCGAAGGTG
982086 TACACATAGG
Statistics
Matches: 246, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
154 84 0.34
155 132 0.54
156 30 0.12
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (153 bp):
CATCACATCTACAATCCTTTTTAGTCCTTTAGGGGTATCGAACACTTCTACGTCGAAGGTATCCT
CTAGAGGTATTTTCGTATTTTTTTATAATTGAGTCCTAGGTTGTCATCGGGTCTCTTTTATGCCG
AAGGTGGGTATTTAAGATAGGGT
Found at i:984225 original size:30 final size:28
Alignment explanation
Indices: 984191--984246 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
984181 TCGATGATTA
984191 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAAT-AA-CGAGATTGGAGTATCCCCTC
*
984221 GAAAATAACGGGATTGGAGTATCCCC
1 GAAAATAACGAGATTGGAGTATCCCC
984247 AATTATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 2 0.08
30 6 0.24
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (28 bp):
GAAAATAACGAGATTGGAGTATCCCCTC
Found at i:984338 original size:50 final size:52
Alignment explanation
Indices: 984284--984453 Score: 156
Period size: 52 Copynumber: 3.3 Consensus size: 52
984274 TAAAGTAGGA
*
984284 GTTGGAGTATCCCCTCG-GAGG-AAAATTGGTGTTTT-GAAAATAAAACCGGG
1 GTTGGAGTATCCCCTCGTGAGGAAAAATTAGTGTTTTAG-AAATAAAACCGGG
* *
984334 GTTGGAGTAT--CCTCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCTCG--TGAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
* * * * * * **
984386 GTTGGAGTAT-CCC-CGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGG
1 GTTGGAGTATCCCCTCG-TGAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
984437 GTTGGAGTATCCCCTCG
1 GTTGGAGTATCCCCTCG
984454 GAAATAACGG
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
48 5 0.05
50 10 0.10
51 38 0.39
52 40 0.41
53 5 0.05
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCTCGTGAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
Found at i:984470 original size:28 final size:28
Alignment explanation
Indices: 984433--984505 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
984423 GAAATAAAGT
984433 CGGGGTTGGAGTATCCCCTCG-GAAATAA
1 CGGGGTTGGAGTATCCCC-CGAGAAATAA
* *
984461 CGGGGATGGAGTAT-CCCCGATAAATAA
1 CGGGGTTGGAGTATCCCCCGAGAAATAA
*
984488 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
984506 GATTGTGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 21 0.54
28 16 0.41
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:984588 original size:51 final size:50
Alignment explanation
Indices: 984234--984614 Score: 187
Period size: 51 Copynumber: 7.3 Consensus size: 50
984224 AATAACGGGA
* * * * ** * *
984234 TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTAGGAG
1 TTGGAGTATCCCCGATTATGA-AAATTAGTGTTTTGAAAATAAAATCGGAG
**** * * * *
984285 TTGGAGTATCCCCTCGGAGGAAAATTGGTGTTTTGAAAATAAAACCGGGG
1 TTGGAGTATCCCCGATTATGAAAATTAGTGTTTTGAAAATAAAATCGGAG
* * * * *
984335 TTGGAGTATCCTCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGGGG
1 TTGGAGTATCCCCGATTAT-G-AAAATTAGTGTTTTGA-AAATAAAATCGGAG
* * * * * *
984387 TTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGG
1 TTGGAGTATCCCCGATTATG-AAAATTAGTGTTTTGAAAATAAAATCGGAG
* * *** * * ***
984438 TTGGAGTATCCCCTCGGAAATAACGGGGATGGAGTATCCCCGATAAAT--AA-C-GAGG
1 TTGGAGTAT-CCC-C-G--ATTATGAAAAT-TAGTGT-TTTGA-AAATAAAATCGGA-G
* * *
984493 TTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTATG-A-AAATTAGTG--TTTTGAAAATAAAATCGGAG
984547 TTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTGAAAATAAAATCGGAG
*
984598 TTGGAATATCCCCGATT
1 TTGGAGTATCCCCGATT
984615 GTGGAGAATT
Statistics
Matches: 245, Mismatches: 63, Indels: 44
0.70 0.18 0.12
Matches are distributed among these distances:
50 34 0.14
51 92 0.38
52 50 0.20
53 13 0.05
54 26 0.11
55 16 0.07
56 9 0.04
57 1 0.00
58 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (50 bp):
TTGGAGTATCCCCGATTATGAAAATTAGTGTTTTGAAAATAAAATCGGAG
Found at i:986977 original size:13 final size:13
Alignment explanation
Indices: 986959--986984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
986949 ACAAAGATCC
986959 ATGTATCGATACA
1 ATGTATCGATACA
986972 ATGTATCGATACA
1 ATGTATCGATACA
986985 CAGAAAAATG
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:986980 original size:33 final size:33
Alignment explanation
Indices: 986938--987004 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
986928 AAAATTTCCA
***
986938 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
986971 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
987004 A
1 A
987005 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:987048 original size:19 final size:18
Alignment explanation
Indices: 987024--987091 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
987014 CAGTAGCTAA
987024 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
987043 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
987058 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
987075 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
987092 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:987064 original size:13 final size:13
Alignment explanation
Indices: 987046--987070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
987036 ACAATACTTA
987046 TGTATCGATACAT
1 TGTATCGATACAT
987059 TGTATCGATACA
1 TGTATCGATACA
987071 AAACTTATGT
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:987068 original size:32 final size:32
Alignment explanation
Indices: 987027--987089 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
987017 TAGCTAATTA
*
987027 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
987059 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
987090 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:987752 original size:33 final size:32
Alignment explanation
Indices: 987710--987773 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
987700 CACACTCAGA
*
987710 TGTATCGATACATATTGTTTAATATCGATACAT
1 TGTATCGATACATATTCTTT-ATATCGATACAT
* *
987743 TGTATCGATACATGTTCTTTGTATCGATACA
1 TGTATCGATACATATTCTTTATATCGATACA
987774 CCATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATATTCTTTATATCGATACAT
Found at i:987877 original size:52 final size:52
Alignment explanation
Indices: 987820--987928 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
987810 TACCCTAATT
* * *
987820 GAATTGTATCGATAAATGGTAAATTATATCGATACATTAAGCCCAATGGCTA
1 GAATTGTATCGATAAATGATAAATTATATCAATACATTAAGCCCAACGGCTA
* * * * * * *
987872 TAATTGTATCTATACATTATGAATTGTATCAATACATTGAGCCCAACGGCTA
1 GAATTGTATCGATAAATGATAAATTATATCAATACATTAAGCCCAACGGCTA
987924 GAATT
1 GAATT
987929 TCAAATGCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (52 bp):
GAATTGTATCGATAAATGATAAATTATATCAATACATTAAGCCCAACGGCTA
Found at i:988389 original size:35 final size:32
Alignment explanation
Indices: 988326--988403 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 32
988316 TTAAAAGTTT
*
988326 TATCTTAGCCTTTGAAAAAGATAAGGAGAAATGTTC
1 TATCTTAGCCTGTGAAAAAGATAAGGAG--A--TTC
*
988362 TATCTTAGCCTGTG-AAAAGATAGGGAGATTC
1 TATCTTAGCCTGTGAAAAAGATAAGGAGATTC
988393 TATCTTAGCCT
1 TATCTTAGCCT
988404 TCAAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 14 0.35
33 1 0.03
35 12 0.30
36 13 0.32
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (32 bp):
TATCTTAGCCTGTGAAAAAGATAAGGAGATTC
Found at i:988397 original size:31 final size:35
Alignment explanation
Indices: 988319--988403 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
988309 AAGTGATTTA
* *
988319 AAAGTTTTATCTTAGCCTTTGAAAAAGATAAGGAG
1 AAAGTTCTATCTTAGCCTGTGAAAAAGATAAGGAG
988354 AAATGTTCTATCTTAGCCTGTG-AAAAGAT-AGG-G
1 AAA-GTTCTATCTTAGCCTGTGAAAAAGATAAGGAG
*
988387 AGA-TTCTATCTTAGCCT
1 AAAGTTCTATCTTAGCCT
988404 TCAAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 14 0.30
33 3 0.07
34 3 0.07
35 10 0.22
36 16 0.35
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (35 bp):
AAAGTTCTATCTTAGCCTGTGAAAAAGATAAGGAG
Found at i:993656 original size:20 final size:21
Alignment explanation
Indices: 993616--993657 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
993606 GACATGTTTA
993616 AATGTTTTTCAAGCATAAAATT
1 AATGTTTTTCAAG-ATAAAATT
993638 AATGTTTTTCAAG-TAAAATT
1 AATGTTTTTCAAGATAAAATT
993658 TATTTAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTTTTTCAAGATAAAATT
Found at i:993803 original size:19 final size:20
Alignment explanation
Indices: 993757--993808 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
993747 CATACCCAAA
993757 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
**
993777 AATATCGATACATATT-CTT
1 TGTATCGATACATATTGCTT
993796 TGTATCGATACAT
1 TGTATCGATACAT
993809 CATAAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:993936 original size:52 final size:52
Alignment explanation
Indices: 993854--993962 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
993844 TACCCTAATT
*
993854 GAATTGTATCGATACATGGTAAATTATATCGATACATTAAGCCCAACGGCTA
1 GAATTGTATCGATACATGATAAATTATATCGATACATTAAGCCCAACGGCTA
* * * * * * *
993906 TAATTGTATCGATATATTATGAATTGTATCGATACATTGAGCCTAACGGCTA
1 GAATTGTATCGATACATGATAAATTATATCGATACATTAAGCCCAACGGCTA
993958 GAATT
1 GAATT
993963 TCAAATGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (52 bp):
GAATTGTATCGATACATGATAAATTATATCGATACATTAAGCCCAACGGCTA
Found at i:994467 original size:34 final size:34
Alignment explanation
Indices: 994383--994515 Score: 166
Period size: 34 Copynumber: 4.0 Consensus size: 34
994373 AAAGTGATTG
* * *
994383 AGAGGTTCTATCTTAGCCTTTGAAAAATATAGGGA
1 AGAGGTTCTATCTTAGCCTGTG-AAAAGATAGTGA
* *
994418 GAAAGATTCTATCTTAGCCTGTGAAAAGATAGTGA
1 -AGAGGTTCTATCTTAGCCTGTGAAAAGATAGTGA
994453 AGAGGTTCTATCTTAGCCTGTGAAAAGATAG-G-
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGTGA
*
994485 -GAGGTTCTATCTTAGCCT-TCAAAAGATAGTG
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGTG
994516 TTGTAAGGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
30 10 0.11
31 19 0.22
33 1 0.01
34 29 0.33
35 10 0.11
36 19 0.22
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAGTGA
Found at i:998017 original size:55 final size:55
Alignment explanation
Indices: 997932--998963 Score: 1356
Period size: 55 Copynumber: 18.4 Consensus size: 55
997922 TTAGCCCTTC
*
997932 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
997987 CCAGTCCTCAAAGAGCGGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
998042 CCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTT
*
998099 --AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
998152 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
998207 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * * *
998263 -C-GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
* **
998322 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCT
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
998383 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
998438 CCAGTCCTTAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTT
*
998495 --AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTT
*
998548 CCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* *
998604 -CAGTCCCCAAAGAGCAGGACACCTCTT-AAAACCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTT
998658 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
998713 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * * * *
998769 -C-GTCCCCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
* **
998828 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCT
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
998889 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * *
998945 -TACTCCTCAATGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
998964 TACAGTTTAT
Statistics
Matches: 896, Mismatches: 48, Indels: 66
0.89 0.05 0.07
Matches are distributed among these distances:
53 8 0.01
54 46 0.05
55 604 0.67
56 17 0.02
57 8 0.01
59 8 0.01
60 50 0.06
61 155 0.17
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (55 bp):
CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
Found at i:998179 original size:27 final size:27
Alignment explanation
Indices: 998149--998231 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
998139 TTGGTGGCAT
998149 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
998176 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
998204 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
998231 T
1 T
998232 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:998884 original size:506 final size:506
Alignment explanation
Indices: 997932--998963 Score: 1894
Period size: 506 Copynumber: 2.0 Consensus size: 506
997922 TTAGCCCTTC
*
997932 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCCCA
*
997997 AAGAGCGGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
65 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
*
998062 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAA
130 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAA
*
998127 AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
195 AACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
998192 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGC
260 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGC
998257 ACCTTTCGTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
325 ACCTTTCGTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
998322 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAG
390 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAG
998387 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
455 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* *
998438 CCAGTCCTTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCCC
1 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA--TTTTCAGTCCCC
998502 AAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
64 AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
998566 GACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTT
128 GACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCT-TT
998631 -AAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
192 CAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
998695 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGT
257 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGT
*
998760 GGCACCTTTCGTCCCCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
322 GGCACCTTTCGTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
998825 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTC
387 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTC
998890 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
452 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* * *
998945 -TACTCCTCAATGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
998964 TACAGTTTAT
Statistics
Matches: 510, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
506 498 0.98
507 8 0.02
508 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (506 bp):
CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCCCAA
AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAA
ACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
CCTTTCGTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGT
CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
Found at i:999647 original size:19 final size:19
Alignment explanation
Indices: 999623--999722 Score: 98
Period size: 19 Copynumber: 5.9 Consensus size: 19
999613 AATTCAACGA
999623 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
999642 TTTGTATCAATAC--AA--
1 TTTGTATCGATACATAAGT
999657 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
999674 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
999689 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
999706 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
999723 TTAGCTACTG
Statistics
Matches: 67, Mismatches: 2, Indels: 24
0.72 0.02 0.26
Matches are distributed among these distances:
13 19 0.28
15 6 0.09
17 6 0.09
19 36 0.54
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:999661 original size:32 final size:32
Alignment explanation
Indices: 999625--999719 Score: 163
Period size: 32 Copynumber: 3.0 Consensus size: 32
999615 TTCAACGATT
*
999625 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
999657 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
999689 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
999720 TAATTAGCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:999780 original size:13 final size:13
Alignment explanation
Indices: 999762--999787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
999752 CATTTTTCTG
999762 TGTATCGATACAT
1 TGTATCGATACAT
999775 TGTATCGATACAT
1 TGTATCGATACAT
999788 GGATCTTTGT
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:1002263 original size:52 final size:51
Alignment explanation
Indices: 1002144--1002274 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 51
1002134 TTGAGTTTAT
* * * *
1002144 CAATTCTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACAC
** *
1002195 CAATTTTCCTTTAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAA-TCCTGATTTTATTTCC-AAAACAC
* *
1002248 CAATTTTTCACAATCGAGGATACTCCA
1 CAATTTTCCACAATCGGGGATACTCCA
1002275 GCCTCGTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
51 8 0.12
52 42 0.64
53 16 0.24
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACAC
Found at i:1002402 original size:107 final size:107
Alignment explanation
Indices: 1002211--1002414 Score: 241
Period size: 107 Copynumber: 1.9 Consensus size: 107
1002201 TCCTTTAATC
* * * *
1002211 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAG
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* *
1002276 CCTCGTTATTTCATCGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCATAGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
1002318 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATGGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
1002382 CCCCGTTATTTTCGA-AGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ATAGGGATACTCCAACCCCG
1002415 ATTTTTTTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 38 0.47
107 41 0.51
108 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCATAGGGATACTCCAACCCCGTTACTTCCGA
Found at i:1002438 original size:79 final size:79
Alignment explanation
Indices: 1002291--1002491 Score: 217
Period size: 79 Copynumber: 2.5 Consensus size: 79
1002281 TTATTTCATC
* * * * *
1002291 GGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
* **
1002356 ATTTCTCATAATGG
66 ATTTCTCACAACCG
* * * ** *
1002370 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATC
1002434 GATTTCTCACAACCG
65 GATTTCTCACAACCG
* * *
1002449 GGGATACTCCAGCCTCGTTATTTTC-AAGGGAACACTCCAACCC
1 GGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
1002492 TGTTATTATC
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 8 0.08
79 94 0.92
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
ATTTCTCACAACCG
Found at i:1009271 original size:52 final size:51
Alignment explanation
Indices: 1009190--1009309 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 51
1009180 TGAAGAGTTA
*
1009190 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGC
1009242 CTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGC
1 CTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTGC
1009293 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1009310 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 21 0.32
52 40 0.61
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGC
Found at i:1009322 original size:51 final size:50
Alignment explanation
Indices: 1009190--1009329 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 50
1009180 TGAAGAGTTA
*
1009190 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGC
1009242 CTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-TTGC
1 CTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAATTTGC
1009293 CTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1009330 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.41
52 39 0.48
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (50 bp):
CTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1009336 original size:13 final size:13
Alignment explanation
Indices: 1009318--1009342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1009308 CAAAGATCAG
1009318 TGTATCGATACAA
1 TGTATCGATACAA
1009331 TGTATCGATACA
1 TGTATCGATACA
1009343 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1009420 original size:33 final size:33
Alignment explanation
Indices: 1009383--1009449 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1009373 AGTAGCTTAA
1009383 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1009416 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1009449 A
1 A
1009450 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1009423 original size:13 final size:13
Alignment explanation
Indices: 1009405--1009429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1009395 CAAAAAAATA
1009405 TGTATCGATACAT
1 TGTATCGATACAT
1009418 TGTATCGATACA
1 TGTATCGATACA
1009430 ACATTTTATG
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:1010543 original size:49 final size:49
Alignment explanation
Indices: 1010368--1011046 Score: 767
Period size: 49 Copynumber: 14.0 Consensus size: 49
1010358 CTTAAAGATG
* *
1010368 AGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAA
1 AGAAAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
1010418 AGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
1 AGA---AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
1010470 AG-----GCGT--CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * * * *
1010513 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT--
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
1010560 ----AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** * * * * * *
1010605 AGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*** * * *
1010654 AGGTGAAGGGGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
1010703 A-AATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
**
1010752 AG-ATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** *
1010800 AGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
**
1010849 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** *
1010898 AGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
** *
1010947 AGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * * * *
1010996 TGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 ---AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1011047 GAGGGGTTGC
Statistics
Matches: 542, Mismatches: 64, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
43 73 0.13
45 2 0.00
47 2 0.00
48 45 0.08
49 334 0.62
50 3 0.01
52 78 0.14
53 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
AGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
Found at i:1010717 original size:98 final size:98
Alignment explanation
Indices: 1010315--1011046 Score: 923
Period size: 98 Copynumber: 7.5 Consensus size: 98
1010305 TGAGAAAAGT
* * * * ** *
1010315 GATAAAGATGCCAATATGTTGATTCACGGCCAACGCTATTGGGCTTAAAGATGAGAAAAAGGATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG-TG
* *
1010380 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
60 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
1010419 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--G--CGT--CA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
*
1010478 ATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAA
63 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * * *
1010514 GAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT----A--AAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
*
1010573 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * * * * * *
1010606 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* *
1010671 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAA
66 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
1010704 AATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1010768 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * * *
1010801 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1010866 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
1010899 GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* *
1010964 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAT
66 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
1010997 GGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1011047 GAGGGGTTGC
Statistics
Matches: 562, Mismatches: 48, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
90 2 0.00
92 118 0.21
95 38 0.07
97 91 0.16
98 229 0.41
101 41 0.07
103 1 0.00
104 3 0.01
107 39 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
Found at i:1010839 original size:244 final size:239
Alignment explanation
Indices: 1010376--1011046 Score: 843
Period size: 244 Copynumber: 2.8 Consensus size: 239
1010366 TGAGAAAAAG
* * * * * * * *
1010376 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGGGGCCAATGTGC
* * * * *
1010441 TGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGCGTCAATGTGCTGATTTAAGGCCAGCT
63 TGAGTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
** * *
1010500 ACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT-AAAG
128 ACATTGGACTTAAAG-ATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAG
1010564 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
192 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
1010612 GATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGGGCCAATGTGCTGA
* *
1010677 GTCAAGGCCAGCTACATTGGTCTTAAAAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACA
66 GTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* * *
1010742 TTGGACTTAAAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
131 TTGGACTTAAAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT--A-A--AA
1010807 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
191 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * * * *
1010856 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGGGCCAATGTGCTGA
* * * * *
1010921 TTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACA
66 GTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
* *
1010986 TTGGACTTAATGGTGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
131 TTGGACTTAAAGAT-G---AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1011047 GAGGGGTTGC
Statistics
Matches: 374, Mismatches: 45, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
233 34 0.09
234 1 0.00
235 1 0.00
236 38 0.10
238 37 0.10
239 44 0.12
242 1 0.00
244 178 0.48
245 1 0.00
246 1 0.00
248 38 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (239 bp):
GATGCCAATATGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGGGGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
TTGGACTTAAAGATGAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAGGTGC
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:1011200 original size:33 final size:33
Alignment explanation
Indices: 1011113--1011604 Score: 443
Period size: 33 Copynumber: 15.1 Consensus size: 33
1011103 GGGCTTTGGG
*
1011113 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAA
1 AAGG-AAAAAG-TGCCACGGAGTTGTGGGCTTTAA
1011147 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GG-AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
1011183 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
1011217 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GG-AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1011253 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1011286 AAAGAAAAAGGTGCCACGGAGTTGTGGGCCTTAA
1 AAGGAAAAA-GTGCCACGGAGTTGTGGGCTTTAA
*
1011320 AAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAA
1 AAGGAAAAA-GTGCCACGGAGTTGTGGGCTTTAA
* *
1011353 ACGG-----GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1011380 AGATGAAAAAGTGCCACAGAATTGTGGGCTTTAA
1 A-AGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1011414 AAGG-----GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1011441 AAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAA
1 AAGGAA-AAAGTGCCACGGAGTTGTGGGCTTT-AA
* *
1011476 AAGGAAAAATGTGCCACAGAGTTGTGGGCTTT-G
1 AAGGAAAAA-GTGCCACGGAGTTGTGGGCTTTAA
* * * *
1011509 AA-GAAAAAATGCCACTGAGTCGTGGACTTT--
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * * *
1011539 GA-GACAAAA-TGCCACTGAGTCGTGGACTTT-A
1 AAGGA-AAAAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1011570 AAGG-AAAAGATGCCACTGAGTCGTGGACTTTAA
1 AAGGAAAAAG-TGCCACGGAGTTGTGGGCTTTAA
1011603 AA
1 AA
1011605 AGGTATTTGA
Statistics
Matches: 401, Mismatches: 27, Indels: 61
0.82 0.06 0.12
Matches are distributed among these distances:
27 31 0.08
28 17 0.04
30 28 0.07
31 23 0.06
32 28 0.07
33 101 0.25
34 75 0.19
35 59 0.15
36 16 0.04
37 23 0.06
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:1011364 original size:61 final size:60
Alignment explanation
Indices: 1011290--1011476 Score: 259
Period size: 61 Copynumber: 3.1 Consensus size: 60
1011280 CTTTAAAAAG
* * *
1011290 AAAAAGGTGCCACGGAGTTGTGGGCCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGT-GGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTT
* * *
1011351 AAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA-GTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-AAGAAAAAGGTGCCACAGAGTTGTGGGC-TT
* *
1011412 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGC-TT
1011473 AAAA
1 AAAA
1011477 AGGAAAAATG
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
60 31 0.27
61 82 0.73
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTT
Found at i:1011367 original size:27 final size:26
Alignment explanation
Indices: 1011329--1011441 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 26
1011319 AAAAGAAAAA
*
1011329 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAA-G
1011356 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAG
* * *
1011382 ATGAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG
1 --G-----GTGCCACGGAGTTGTGGAC-TT-AAAG
1011417 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
1011442 AGGAACAAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
26 4 0.06
27 26 0.37
28 17 0.24
33 17 0.24
34 2 0.03
35 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTGGACTTAAAG
Found at i:1011550 original size:30 final size:29
Alignment explanation
Indices: 1011487--1011600 Score: 138
Period size: 30 Copynumber: 3.7 Consensus size: 29
1011477 AGGAAAAATG
* * *
1011487 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAA
1011518 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAA
*
1011548 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GA-GAAAA-A
1011580 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1011601 AAAAAGGTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.01
30 27 0.36
31 23 0.31
32 24 0.32
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (29 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAA
Found at i:1011603 original size:189 final size:188
Alignment explanation
Indices: 1011223--1011604 Score: 443
Period size: 189 Copynumber: 2.0 Consensus size: 188
1011213 TGAAAAGGGA
* *
1011223 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTAAAA
* * * *
1011288 AGAAAAAGGTGCCACGGAGTTGTGGGCCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAA
66 AGAAAAAGGTGCCACAGAGTTGTGGGCCTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTAA
*** * * *
1011353 ACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAGTGCCACAGAATTGTGGGCTTT
131 ACAAATGCCACGGAGTCGTGGACTTAAAGA-GAAAAAGTGCCACAGAATCGTGGACTTT
* * *
1011412 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAA-GAAAAAAGTGCCACAGAGTTGTGGGCTTTAAA
* ** *
1011476 AAGGAAAAATGTGCCACAGAGTTGTGGG-CTT-TGAAGAAAAA-ATGCCACTGAGTCGTGGACTT
65 AA-GAAAAAGGTGCCACAGAGTTGTGGGCCTTAAAAAGAAAAAGATGCCACGGAGTCGTGGAC-T
* * * *
1011538 TGAGACAAAATGCCACTGAGTCGTGGACTTTAAAG-G-AAAAGATGCCACTGAGTCGTGGACTTT
128 T-AAAC-AAATGCCACGGAGTCGTGGAC-TTAAAGAGAAAAAG-TGCCACAGAATCGTGGACTTT
1011601 AAAA
1 AAAA
1011605 AGGTATTTGA
Statistics
Matches: 163, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
187 15 0.09
188 21 0.13
189 82 0.50
190 39 0.24
191 6 0.04
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (188 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTAAAA
AGAAAAAGGTGCCACAGAGTTGTGGGCCTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTAA
ACAAATGCCACGGAGTCGTGGACTTAAAGAGAAAAAGTGCCACAGAATCGTGGACTTT
Found at i:1012559 original size:17 final size:17
Alignment explanation
Indices: 1012527--1012558 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1012517 GTTTTTCCTC
1012527 TTTTGTTTTCTTTTTTG
1 TTTTGTTTTCTTTTTTG
1012544 TTTTG-TTTCTTTTTT
1 TTTTGTTTTCTTTTTT
1012559 TTGGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTCTTTTTTG
Found at i:1012814 original size:13 final size:12
Alignment explanation
Indices: 1012798--1012866 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 12
1012788 TGCCTTTGCA
*
1012798 TTTTTTTTGTGT
1 TTTTTTTTGTTT
1012810 TTTTTTTT-TTT
1 TTTTTTTTGTTT
*
1012821 GTTTTTTTGTTT
1 TTTTTTTTGTTT
*
1012833 TTTTTGTGTGTTT
1 TTTTT-TTTGTTT
1012846 TTTTTGTTTGTTT
1 TTTTT-TTTGTTT
1012859 TTTTTTTT
1 TTTTTTTT
1012867 TTTCATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
11 9 0.18
12 18 0.36
13 23 0.46
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:1012821 original size:32 final size:33
Alignment explanation
Indices: 1012785--1012855 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
1012775 CCCTTTTTGA
1012785 TTTTGCCTTTGCATTTTTTTTGTGT-TTTTTTT
1 TTTTGCCTTTGCATTTTTTTTGTGTGTTTTTTT
** ***
1012817 TTTTGTTTTTTTGTTTTTTTTGTGTGTTTTTTT
1 TTTTGCCTTTGCATTTTTTTTGTGTGTTTTTTT
1012850 TGTTTG
1 T-TTTG
1012856 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 20 0.62
33 8 0.25
34 4 0.12
ACGTcount: A:0.01, C:0.04, G:0.15, T:0.79
Consensus pattern (33 bp):
TTTTGCCTTTGCATTTTTTTTGTGTGTTTTTTT
Found at i:1012836 original size:34 final size:33
Alignment explanation
Indices: 1012798--1012869 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
1012788 TGCCTTTGCA
1012798 TTTTTTTTGTGT-TTTTTTTT-TTTGTTTTTTT
1 TTTTTTTTGTGTGTTTTTTTTGTTTGTTTTTTT
1012829 GTTTTTTTTGTGTGTTTTTTTTGTTTGTTTTTTT
1 -TTTTTTTTGTGTGTTTTTTTTGTTTGTTTTTTT
1012863 TTTTTTT
1 TTTTTTT
1012870 CATCACTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 12 0.32
33 15 0.39
34 11 0.29
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (33 bp):
TTTTTTTTGTGTGTTTTTTTTGTTTGTTTTTTT
Found at i:1012881 original size:34 final size:32
Alignment explanation
Indices: 1012809--1012883 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 32
1012799 TTTTTTTGTG
***
1012809 TTTTTTTTTTTTGTTTTTTTGTTTTTTTTGTG
1 TTTTTTTTTTTTGTTTTTTTGTTTTTTTTCAC
1012841 TGTTTTTTTTGTTTGTTTTTTT-TTTTTTTCATCAC
1 T-TTTTTTTT-TTTGTTTTTTTGTTTTTTT--TCAC
1012876 TTTTTTTT
1 TTTTTTTT
1012884 AAGGGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 1 0.03
33 15 0.42
34 18 0.50
35 2 0.06
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (32 bp):
TTTTTTTTTTTTGTTTTTTTGTTTTTTTTCAC
Found at i:1012883 original size:1 final size:1
Alignment explanation
Indices: 1012798--1012869 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
1012788 TGCCTTTGCA
* * * * * * * * *
1012798 TTTTTTTTGTGTTTTTTTTTTTTGTTTTTTTGTTTTTTTTGTGTGTTTTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1012863 TTTTTTT
1 TTTTTTT
1012870 CATCACTTTT
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:1019498 original size:52 final size:51
Alignment explanation
Indices: 1019417--1019536 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 51
1019407 TGAAGAGTTA
*
1019417 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGC
1019469 CTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGC
1 CTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTGC
1019520 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1019537 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 21 0.32
52 40 0.61
53 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGC
Found at i:1019549 original size:51 final size:50
Alignment explanation
Indices: 1019417--1019556 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 50
1019407 TGAAGAGTTA
*
1019417 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAATTTGC
1019469 CTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-TTGC
1 CTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAATTTGC
1019520 CTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1019557 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.41
52 39 0.48
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (50 bp):
CTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1019563 original size:13 final size:13
Alignment explanation
Indices: 1019545--1019569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1019535 CAAAGATCAG
1019545 TGTATCGATACAA
1 TGTATCGATACAA
1019558 TGTATCGATACA
1 TGTATCGATACA
1019570 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1019647 original size:33 final size:33
Alignment explanation
Indices: 1019610--1019676 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1019600 AGTAGCTTAA
1019610 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1019643 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1019676 A
1 A
1019677 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1019650 original size:13 final size:13
Alignment explanation
Indices: 1019632--1019656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1019622 CAAAAAAATA
1019632 TGTATCGATACAT
1 TGTATCGATACAT
1019645 TGTATCGATACA
1 TGTATCGATACA
1019657 ACATTTTATG
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:1020710 original size:20 final size:20
Alignment explanation
Indices: 1020654--1020711 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1020644 AAAAAACCCA
**
1020654 AAATGTATCGATACA-AACC
1 AAATGTATCGATACATTTCC
1020673 AAATTGTATCGATACATTTCC
1 AAA-TGTATCGATACATTTCC
1020694 AAATGTATCGATACATTT
1 AAATGTATCGATACATTT
1020712 ACTTATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACATTTCC
Found at i:1020719 original size:20 final size:20
Alignment explanation
Indices: 1020654--1020728 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1020644 AAAAAACCCA
*
1020654 AAATGTATCGATACA--AACC
1 AAATGTATCGATACATTTA-C
*
1020673 AAATTGTATCGATACATTTCC
1 AAA-TGTATCGATACATTTAC
1020694 AAATGTATCGATACATTTAC
1 AAATGTATCGATACATTTAC
** *
1020714 TTATGTATTGATACA
1 AAATGTATCGATACA
1020729 ATTTTTCGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
19 3 0.06
20 40 0.85
21 4 0.09
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTTAC
Found at i:1021228 original size:16 final size:18
Alignment explanation
Indices: 1021187--1021238 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
1021177 TAATTAAAAA
* *
1021187 TAAAAAATAATTATTTATT
1 TAAAAAATAAATAATT-TT
*
1021206 TTAAAAATAAA-AATTTT
1 TAAAAAATAAATAATTTT
*
1021223 TGAAAAATAAATAATT
1 TAAAAAATAAATAATT
1021239 AATTTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.43
18 7 0.25
19 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAAAATAAATAATTTT
Found at i:1021230 original size:17 final size:17
Alignment explanation
Indices: 1021204--1021238 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1021194 TAATTATTTA
1021204 TTTTAAAAATAAA-AAT
1 TTTTAAAAATAAATAAT
1021220 TTTTGAAAAATAAATAAT
1 TTTT-AAAAATAAATAAT
1021238 T
1 T
1021239 AATTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TTTTAAAAATAAATAAT
Found at i:1021278 original size:14 final size:14
Alignment explanation
Indices: 1021249--1021290 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
1021239 AATTTTTTCT
1021249 TTTTTTTCTCTCTATC
1 TTTTTTTCT-T-TATC
1021265 TTTTTTTCTTTATC
1 TTTTTTTCTTTATC
1021279 TTTATTTTCTTT
1 TTT-TTTTCTTT
1021291 TACTTTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 9 0.36
16 9 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTCTTTATC
Found at i:1021557 original size:13 final size:12
Alignment explanation
Indices: 1021524--1021571 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
1021514 ATAGGGAGAG
1021524 AGAAAAGAA-AA
1 AGAAAAGAATAA
1021535 AGAGACAAGAATGAA
1 AGA-A-AAGAAT-AA
1021550 AGAAAAGAATAA
1 AGAAAAGAATAA
1021562 AGAAAAGAAT
1 AGAAAAGAAT
1021572 TTTAATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 3 0.09
12 13 0.39
13 11 0.33
14 1 0.03
15 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.06
Consensus pattern (12 bp):
AGAAAAGAATAA
Found at i:1021941 original size:17 final size:18
Alignment explanation
Indices: 1021919--1021959 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
1021909 AATAATAATT
*
1021919 TATTATTTATTGTTT-TA
1 TATTATTTATTATTTGTA
*
1021936 TATTATTTTTTATTTGTA
1 TATTATTTATTATTTGTA
1021954 TATTAT
1 TATTAT
1021960 CATGAGAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TATTATTTATTATTTGTA
Found at i:1022548 original size:20 final size:21
Alignment explanation
Indices: 1022510--1022548 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1022500 GCATAGGCCA
1022510 ATGTATCAATACAATTTGGTG
1 ATGTATCAATACAATTTGGTG
1022531 ATGTATCAATAC-ATTTGG
1 ATGTATCAATACAATTTGG
1022549 CCTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (21 bp):
ATGTATCAATACAATTTGGTG
Found at i:1026175 original size:37 final size:39
Alignment explanation
Indices: 1026130--1026202 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
1026120 TTAATATTAA
* *
1026130 TATAATTATTT-TTTGTTAATTATAAAAAT-TAATTTTT
1 TATAATTATTTATTTATAAATTATAAAAATATAATTTTT
*
1026167 TATAATTATTTATTTATAAATTATATAAATATAATT
1 TATAATTATTTATTTATAAATTATAAAAATATAATT
1026203 GCATTTTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.35
38 15 0.48
39 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (39 bp):
TATAATTATTTATTTATAAATTATAAAAATATAATTTTT
Found at i:1026365 original size:12 final size:13
Alignment explanation
Indices: 1026348--1026376 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1026338 AAATCGACTT
1026348 AAAACTAAAAA-A
1 AAAACTAAAAATA
1026360 AAAACTAAAAATA
1 AAAACTAAAAATA
1026373 AAAA
1 AAAA
1026377 ACAAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAACTAAAAATA
Found at i:1026395 original size:19 final size:18
Alignment explanation
Indices: 1026347--1026384 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1026337 TAAATCGACT
*
1026347 TAAAACTAAAAAAAAAAC
1 TAAAAATAAAAAAAAAAC
1026365 TAAAAATAAAAAACAAAAC
1 TAAAAATAAAAAA-AAAAC
1026384 T
1 T
1026385 TAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (18 bp):
TAAAAATAAAAAAAAAAC
Found at i:1027085 original size:12 final size:14
Alignment explanation
Indices: 1027053--1027090 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
1027043 ATATATTATT
1027053 TAAAAATAATATAAC
1 TAAAAATAAT-TAAC
1027068 TAAAAATAATTAA-
1 TAAAAATAATTAAC
1027081 T-AAAATAATT
1 TAAAAATAATT
1027091 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 3 0.13
15 10 0.43
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATAATTAAC
Found at i:1027261 original size:12 final size:11
Alignment explanation
Indices: 1027241--1027278 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
1027231 ATAACATAAA
1027241 ATATAAAATAT
1 ATATAAAATAT
*
1027252 ATATCTAAATAT
1 ATAT-AAAATAT
1027264 AT-TAAAATAT
1 ATATAAAATAT
1027274 ATATA
1 ATATA
1027279 TTATAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.35
11 7 0.30
12 8 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:1027272 original size:22 final size:20
Alignment explanation
Indices: 1027237--1027277 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
1027227 GAAAATAACA
1027237 TAAAATATAAAATATATATC
1 TAAAATATAAAATATATATC
1027257 TAAATATATTAAAATATATAT
1 TAAA-ATA-TAAAATATATAT
1027278 ATTATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATATAAAATATATATC
Found at i:1027588 original size:27 final size:27
Alignment explanation
Indices: 1027515--1027588 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 27
1027505 ATATACATGA
* *
1027515 ATATAATATATAAAAATAATTAAAGTATG
1 ATATAATACAT-AAAAT-ATTAAAGTATC
1027544 ATATAATAC--AAAA-A-TAAA-TATC
1 ATATAATACATAAAATATTAAAGTATC
1027566 ATATAATACATAAACATATTAAA
1 ATATAATACATAAA-ATATTAAA
1027589 ATTTACGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 4 0.11
25 1 0.03
26 5 0.13
27 4 0.11
29 8 0.21
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (27 bp):
ATATAATACATAAAATATTAAAGTATC
Found at i:1030653 original size:2 final size:2
Alignment explanation
Indices: 1030646--1030676 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1030636 TTAATAAGGT
1030646 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1030677 GTTTGACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1032637 original size:11 final size:10
Alignment explanation
Indices: 1032608--1032640 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
1032598 TCTCTATCTC
1032608 AAAAAAAAA-
1 AAAAAAAAAG
1032617 AAAAAAAAAG
1 AAAAAAAAAG
1032627 AAAAAAGAAAG
1 AAAAAA-AAAG
1032638 AAA
1 AAA
1032641 GAAGAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 6 0.27
11 7 0.32
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1033191 original size:3 final size:3
Alignment explanation
Indices: 1033185--1033217 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1033175 TTTTTTTTAT
1033185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1033218 GACTTTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1037989 original size:25 final size:25
Alignment explanation
Indices: 1037961--1038009 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1037951 TGCAAATTAA
*
1037961 ACTTTAAAACATG-TAGAAGCAACAT
1 ACTTTAAAACA-GATAGAAGAAACAT
1037986 ACTTTAAAACAGATAGAAGAAACA
1 ACTTTAAAACAGATAGAAGAAACA
1038010 GGATAGACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.20
Consensus pattern (25 bp):
ACTTTAAAACAGATAGAAGAAACAT
Found at i:1041331 original size:19 final size:19
Alignment explanation
Indices: 1041296--1041334 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1041286 TCATAATTTG
*
1041296 ATTATTCTTATTTTTTTAT
1 ATTATTCTTATTGTTTTAT
1041315 ATTATTCTT-TATGTTTTAT
1 ATTATTCTTAT-TGTTTTAT
1041334 A
1 A
1041335 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTATTCTTATTGTTTTAT
Found at i:1041566 original size:2 final size:2
Alignment explanation
Indices: 1041559--1041602 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1041549 ATGCAAAATG
1041559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1041601 TA
1 TA
1041603 AAAGTGGTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1041568 original size:33 final size:31
Alignment explanation
Indices: 1041510--1041602 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
1041500 GTAAAACAGC
1041510 AGTTCTATACACAAAATATATATATATATAT
1 AGTTCTATACACAAAATATATATATATATAT
** *
1041541 AGTTCTATATGCAAAATGTATATATATATAT
1 AGTTCTATACACAAAATATATATATATATAT
* * * *
1041572 A-TATATATATA-TATATATATATATATATAT
1 AGT-TCTATACACAAAATATATATATATATAT
1041602 A
1 A
1041603 AAAGTGGTAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 18 0.34
31 35 0.66
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (31 bp):
AGTTCTATACACAAAATATATATATATATAT
Found at i:1042615 original size:20 final size:19
Alignment explanation
Indices: 1042592--1042640 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
1042582 TGATGTATCA
1042592 ATACAATGCCTATTGTATTG
1 ATACAATGCCT-TTGTATTG
1042612 ATACAACATG-CTTTGTATTG
1 ATAC-A-ATGCCTTTGTATTG
1042632 ATACAATGC
1 ATACAATGC
1042641 AAAATTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 16 0.62
21 3 0.12
22 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ATACAATGCCTTTGTATTG
Found at i:1043824 original size:13 final size:13
Alignment explanation
Indices: 1043806--1043831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1043796 TACACCAAGT
1043806 ATGTATCGATACA
1 ATGTATCGATACA
1043819 ATGTATCGATACA
1 ATGTATCGATACA
1043832 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:1043829 original size:32 final size:33
Alignment explanation
Indices: 1043788--1043851 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1043778 TAGCCAAACT
**
1043788 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1043820 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1043852 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:1046072 original size:21 final size:21
Alignment explanation
Indices: 1046039--1046088 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1046029 TTGCAAGTTG
*
1046039 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1046061 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1046082 AAATAAA
1 AAATAAA
1046089 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:1050014 original size:13 final size:13
Alignment explanation
Indices: 1049996--1050047 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
1049986 ACATTTTTCT
1049996 TTGTATCGATACA
1 TTGTATCGATACA
1050009 TTGTATCGATACA
1 TTGTATCGATACA
1050022 TTGTATCGATACA
1 TTGTATCGATACA
1050035 TTGTATCGATACA
1 TTGTATCGATACA
1050048 GGGTGATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1050211 original size:20 final size:20
Alignment explanation
Indices: 1050168--1050213 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1050158 AAATCTTTTG
1050168 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1050189 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1050209 CAAAA
1 CAAAA
1050214 CCAGCATAAA
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:1052617 original size:13 final size:13
Alignment explanation
Indices: 1052599--1052624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1052589 TACACCAAGT
1052599 ATGTATCGATACA
1 ATGTATCGATACA
1052612 ATGTATCGATACA
1 ATGTATCGATACA
1052625 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:1052622 original size:32 final size:33
Alignment explanation
Indices: 1052581--1052644 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1052571 TAGCCAAACT
**
1052581 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1052613 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1052645 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:1054062 original size:49 final size:50
Alignment explanation
Indices: 1054009--1054105 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
1053999 TTTTTTTATT
*
1054009 TCATCTTAGTCATTTTTCATGGCTTAGGGA-TTTTCATGC-ATTCTTTTTG
1 TCATCTTAGTCATTTTTCATGGCTCAGGGACTTTT-ATGCAATTCTTTTTG
* *
1054058 TCATCTTAGTCATTTTTTATTGCTCAGGGACTTTTATGCAATTCTTTT
1 TCATCTTAGTCATTTTTCATGGCTCAGGGACTTTTATGCAATTCTTTT
1054106 GTTAAAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 31 0.72
50 12 0.28
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (50 bp):
TCATCTTAGTCATTTTTCATGGCTCAGGGACTTTTATGCAATTCTTTTTG
Found at i:1054237 original size:58 final size:56
Alignment explanation
Indices: 1054117--1054360 Score: 195
Period size: 58 Copynumber: 4.2 Consensus size: 56
1054107 TTAAAGTTAT
* * * * * *
1054117 TTTAGTAATTTTCCATGACTGAGGGGTTATAAT-TCAATTTCATGCATTTTAAAATCA
1 TTTAGTCATTTT-CATGATTTAAGGGTTATTATGT-AATTTCATGCATTTTAGAATCA
* * *
1054174 TTTTAGTCATCTTTCATGATTTAGGGGTTATTATGTAATTTCATGAATTTTAGCATCA
1 -TTTAGTCAT-TTTCATGATTTAAGGGTTATTATGTAATTTCATGCATTTTAGAATCA
* * * * ***
1054232 CTTTAGTCCATTTCCACGATTAAAGGGTTATTGTGTAATTTCATGCATTTTAGTGCCA
1 -TTTAGT-CATTTTCATGATTTAAGGGTTATTATGTAATTTCATGCATTTTAGAATCA
* * *
1054290 TTCTAGTCATTTTCAATGATTTTAATGGTTATTATGCAATGTCATGCATTTTA-AAGTCA
1 TT-TAGTCATTTTC-ATGA-TTTAAGGGTTATTATGTAATTTCATGCATTTTAGAA-TCA
*
1054349 TTCTAGTAATTT
1 TT-TAGTCATTT
1054361 GTTATGTTTT
Statistics
Matches: 151, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
57 8 0.05
58 95 0.63
59 48 0.32
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (56 bp):
TTTAGTCATTTTCATGATTTAAGGGTTATTATGTAATTTCATGCATTTTAGAATCA
Found at i:1056528 original size:97 final size:97
Alignment explanation
Indices: 1056427--1056609 Score: 269
Period size: 97 Copynumber: 1.9 Consensus size: 97
1056417 TAATGATGAT
* * **
1056427 AATTTAGGCAAAAATAAGATTTAAATCTTAATAAGTTTAAAAACGAGG-TTGGAGTATCCTTTCG
1 AATTTAGGCAAAAATAAGATTTAAATCTTAACAAGTGTAAAAACG-GGTTTGGAGTATCCCCTCG
* *
1056491 AAAGAATGGGGTTGGAGTATCCCCGATGACAAC
65 AAAGAATGGAGTTAGAGTATCCCCGATGACAAC
* * *
1056524 AATTTAGGCAAAAATAAGATTTAAATCTTGACAAGTGTAAAAATGGGTTTGGAGTATCCCCTCGG
1 AATTTAGGCAAAAATAAGATTTAAATCTTAACAAGTGTAAAAACGGGTTTGGAGTATCCCCTCGA
1056589 AAGAATGGAGTTAGAGTATCC
66 AAGAATGGAGTTAGAGTATCC
1056610 TTGAAAAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
96 2 0.03
97 74 0.97
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (97 bp):
AATTTAGGCAAAAATAAGATTTAAATCTTAACAAGTGTAAAAACGGGTTTGGAGTATCCCCTCGA
AAGAATGGAGTTAGAGTATCCCCGATGACAAC
Found at i:1059046 original size:20 final size:21
Alignment explanation
Indices: 1059021--1059070 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
1059011 GCAAGCATGA
*
1059021 ATCGATACATTCACTTA-TAT
1 ATCGATACATTAACTTATTAT
*
1059041 ATCGATACATTAACTTATTGT
1 ATCGATACATTAACTTATTAT
1059062 ATCGATACA
1 ATCGATACA
1059071 AATTGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (21 bp):
ATCGATACATTAACTTATTAT
Found at i:1059829 original size:52 final size:52
Alignment explanation
Indices: 1059689--1060074 Score: 306
Period size: 52 Copynumber: 7.3 Consensus size: 52
1059679 CAAACGTGCT
** * * * * * **
1059689 AATGTGCTGATTCAAGATCTGCGACACTAGACTTAAAGATAATAAGGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
* * * * *
1059741 TAA-GTGCTAATTCAAGGCCAGCAATATGGGATTTAAAAATGATAAGAATGCC
1 -AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
* * * * *
1059793 AATGTACTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAGAAGAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
* * * * * *
1059845 AATGTACTGATTCAAGGCTAGTGACATTGGACTTAAAGATGATTAGAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
* * * ** * * * *
1059897 AATATGCTGATTCAAGGCTAGCAACATTGGTTTTGAGAAAGAAGGTCTGACAAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTT---AAA-AATG-ATAAGAA-TGCC
* * ** * *
1059955 AATGTGCTGATTCAAAGCCAACGATGTTGGACTTAAAGATGATAAGAATTCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
* * * *
1060007 AATGTGCTGATTGAAGGCTAGCGACATTGGACTTAAAAATGATTAGAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
1060059 AATGTGCTGATTCAAG
1 AATGTGCTGATTCAAG
1060075 CCCAATGTCA
Statistics
Matches: 261, Mismatches: 65, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
51 2 0.01
52 211 0.81
53 6 0.02
54 2 0.01
55 6 0.02
56 2 0.01
57 3 0.01
58 29 0.11
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGATAAGAATGCC
Found at i:1059991 original size:110 final size:107
Alignment explanation
Indices: 1059839--1060163 Score: 304
Period size: 110 Copynumber: 3.1 Consensus size: 107
1059829 AGATGAGAAG
* * * * ** *
1059839 AGTGCCAATGTACTGATTCAAGGCTAGTGACATTGGACTTAAAGATGATTAGAGTGCCAATATGC
1 AGTGCCAATGTGCTGATTCAAAGCCA-CGATGTTGGACTTAAAGATGATTAGAGTGCCAATGTGC
**
1059904 TGATTCAAGGCTAGCAACATTGGTTTTGAGAAAGAAGGTCTGACA
65 TGATTCAAGGCTAGCAACATTGGACTTGAGAAA-AAGGT-TGACA
* * *
1059949 AGTGCCAATGTGCTGATTCAAAGCCAACGATGTTGGACTTAAAGATGATAAGAATTCCAATGTGC
1 AGTGCCAATGTGCTGATTCAAAGCC-ACGATGTTGGACTTAAAGATGATTAGAGTGCCAATGTGC
* * * * *
1060014 TGATTGAAGGCTAGCGACATTGGACTT-A-AAAATGATT-A-G
65 TGATTCAAGGCTAGCAACATTGGACTTGAGAAAAAGGTTGACA
*
1060053 AGTGCCAATGTGCTGATTC-AAGCC-CAATG-T---C------ATGATTAGAGTGCCAATGTGCT
1 AGTGCCAATGTGCTGATTCAAAGCCACGATGTTGGACTTAAAGATGATTAGAGTGCCAATGTGCT
* *
1060106 GATTCAAGGCCAGCAACATTGGGCTTGAGAAATAAGGTTTGACA
66 GATTCAAGGCTAGCAACATTGGACTTGAGAAA-AAGG-TTGACA
1060150 AGTGCCAATGTGCT
1 AGTGCCAATGTGCT
1060164 AATTTAAGAC
Statistics
Matches: 180, Mismatches: 28, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
91 41 0.23
92 1 0.01
93 3 0.02
94 2 0.01
95 2 0.01
96 1 0.01
97 15 0.08
100 1 0.01
101 4 0.02
103 5 0.03
104 19 0.11
105 1 0.01
106 1 0.01
107 3 0.02
108 3 0.02
109 1 0.01
110 76 0.42
111 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (107 bp):
AGTGCCAATGTGCTGATTCAAAGCCACGATGTTGGACTTAAAGATGATTAGAGTGCCAATGTGCT
GATTCAAGGCTAGCAACATTGGACTTGAGAAAAAGGTTGACA
Found at i:1060081 original size:19 final size:20
Alignment explanation
Indices: 1060057--1060113 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
1060047 GATTAGAGTG
1060057 CCAATGTGCTGATTCAAG-C
1 CCAATGTGCTGATTCAAGTC
*
1060076 CCAATGT-CATGATT-AGAGTG
1 CCAATGTGC-TGATTCA-AGTC
1060096 CCAATGTGCTGATTCAAG
1 CCAATGTGCTGATTCAAG
1060114 GCCAGCAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 2 0.06
19 14 0.44
20 14 0.44
21 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (20 bp):
CCAATGTGCTGATTCAAGTC
Found at i:1060101 original size:20 final size:21
Alignment explanation
Indices: 1060045--1060109 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 21
1060035 GGACTTAAAA
1060045 ATGATTAGAGTGCCAATGTGC
1 ATGATTAGAGTGCCAATGTGC
*
1060066 -TGATTCA-AG-CCCAATGT-C
1 ATGATT-AGAGTGCCAATGTGC
1060084 ATGATTAGAGTGCCAATGTGC
1 ATGATTAGAGTGCCAATGTGC
1060105 -TGATT
1 ATGATT
1060110 CAAGGCCAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.05
19 14 0.38
20 19 0.51
21 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (21 bp):
ATGATTAGAGTGCCAATGTGC
Found at i:1060218 original size:52 final size:52
Alignment explanation
Indices: 1060154--1060264 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 52
1060144 TTGACAAGTG
* * * *
1060154 CCAATGTGCTAATTTAAGACTAGCGACATTGG-ACTTAAATATGATAAAGGTA
1 CCAATGTACTAATTCAAGACTAACGACATTGGTA-TTAAAGATGATAAAGGTA
* * *
1060206 TCAATGTACTAATTCAAGGCTAATGACATTGGTATTAAAGATGATAAAGGTA
1 CCAATGTACTAATTCAAGACTAACGACATTGGTATTAAAGATGATAAAGGTA
1060258 CCAATGT
1 CCAATGT
1060265 GTTGATTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 49 0.98
53 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (52 bp):
CCAATGTACTAATTCAAGACTAACGACATTGGTATTAAAGATGATAAAGGTA
Found at i:1060236 original size:201 final size:201
Alignment explanation
Indices: 1059883--1060275 Score: 499
Period size: 201 Copynumber: 2.0 Consensus size: 201
1059873 GGACTTAAAG
* **
1059883 ATGATTAGAGTGCCAATATGCTGATTCAAGGCTAGCAACATTGGTTTTGAGAAAGAAGGTCTGAC
1 ATGATTAGAGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAGGTCTGAC
* ** *
1059948 AAGTGCCAATGTGCTGATTCAAAGCCAACGATGTTGGACTTAAAGATGATAAGAATTCCAATGTG
66 AAGTGCCAATGTGCTAATTCAAAGCCAACGACATTGGACTTAAAGATGATAAGAATTCCAATGTA
* * * * *
1060013 CTGATTGAAGGCTAGCGACATTGG-ACTTAAAAATGAT-TAGAGTGCCAATGTGCTGATTCAAGC
131 CTAATTCAAGGCTAACGACATTGGTA-TTAAAAATGATAAAG-GTACCAATGTGCTGATTCAAGC
1060076 CCAATGTC
194 CCAATGTC
* * *
1060084 ATGATTAGAGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTTGAGAAATAAGGTTTGAC
1 ATGATTAGAGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAGGTCTGAC
* * * * *
1060149 AAGTGCCAATGTGCTAATT-TAAGACTAGCGACATTGGACTTAAATATGATAA-AGGTAT-CAAT
66 AAGTGCCAATGTGCTAATTCAAAG-CCAACGACATTGGACTTAAAGATGATAAGA-AT-TCCAAT
* * *
1060211 GTACTAATTCAAGGCTAATGACATTGGTATTAAAGATGATAAAGGTACCAATGTGTTGATTCAAG
128 GTACTAATTCAAGGCTAACGACATTGGTATTAAAAATGATAAAGGTACCAATGTGCTGATTCAAG
1060276 GCCAGTGACA
Statistics
Matches: 164, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
200 4 0.02
201 156 0.95
202 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (201 bp):
ATGATTAGAGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAGGTCTGAC
AAGTGCCAATGTGCTAATTCAAAGCCAACGACATTGGACTTAAAGATGATAAGAATTCCAATGTA
CTAATTCAAGGCTAACGACATTGGTATTAAAAATGATAAAGGTACCAATGTGCTGATTCAAGCCC
AATGTC
Found at i:1060273 original size:52 final size:52
Alignment explanation
Indices: 1060178--1060296 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 52
1060168 TAAGACTAGC
* * *
1060178 GACATTGGACTTAAATATGATAAAGGTATCAATGTACTAATTCAAGGCTAAT
1 GACATTGGACTTAAAGATGATAAAGGTACCAATGTACTAATTCAAGGCCAAT
** * *
1060230 GACATTGGTA-TTAAAGATGATAAAGGTACCAATGTGTTGATTCAAGGCCAGT
1 GACATTGG-ACTTAAAGATGATAAAGGTACCAATGTACTAATTCAAGGCCAAT
1060282 GACATT-GAGCTTAAA
1 GACATTGGA-CTTAAA
1060297 AAGAAATGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 1 0.02
51 1 0.02
52 54 0.95
53 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (52 bp):
GACATTGGACTTAAAGATGATAAAGGTACCAATGTACTAATTCAAGGCCAAT
Found at i:1060419 original size:32 final size:31
Alignment explanation
Indices: 1060351--1060463 Score: 93
Period size: 32 Copynumber: 3.5 Consensus size: 31
1060341 TTGCGTAGAC
* * * *
1060351 TTTGAGAAAGGATGCCACCAACTTATGTGAGCT
1 TTTG-GAAAGGTTGCCACAAACTTGTGTG-GGT
*
1060384 TTTGGAAAGGTTGCCACAAATTTGTGTGGGTT
1 TTTGGAAAGGTTGCCACAAACTTGTGTGGG-T
* * * *
1060416 TTTGAAAATGGTTACCACTAACTTGTGTGGGA
1 TTTGGAAA-GGTTGCCACAAACTTGTGTGGGT
*
1060448 TTT-GAAAGGGTGCCAC
1 TTTGGAAAGGTTGCCAC
1060464 GGAGTTGTAG
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
30 7 0.11
31 4 0.06
32 31 0.48
33 23 0.35
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (31 bp):
TTTGGAAAGGTTGCCACAAACTTGTGTGGGT
Found at i:1060492 original size:28 final size:29
Alignment explanation
Indices: 1060452--1060516 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
1060442 GTGGGATTTG
*
1060452 AAAGGGTGCCACGGAGTTGT-AGACTTT-A
1 AAAGGGTGCCACGAAGTTGTGA-ACTTTAA
*
1060480 AAAGGGTGCCACGAAGTTGTGAATTTTAA
1 AAAGGGTGCCACGAAGTTGTGAACTTTAA
1060509 AAAGGGTG
1 AAAGGGTG
1060517 TGTAGACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (29 bp):
AAAGGGTGCCACGAAGTTGTGAACTTTAA
Found at i:1063469 original size:30 final size:29
Alignment explanation
Indices: 1063404--1063657 Score: 213
Period size: 30 Copynumber: 9.0 Consensus size: 29
1063394 ACGTTGCGAT
* * * *
1063404 AGGGTGCCCCAGAGTTGTAGACTTT-CAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
1063432 AGGGTGCCACGGAGTTGTGGACTTTGAAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
*
1063461 AGGGGTGCCACGGAGTTGTGGAATTTGAAA
1 A-GGGTGCCACGGAGTTGTGGACTTTGAAA
*
1063491 A-------A-GGAGTTGTGGACATTGAAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
* * * *
1063512 AAGGTGCCATGGAGTTATGGACCTTGAGAA
1 AGGGTGCCACGGAGTTGTGGACTTTGA-AA
* * * * *
1063542 GGGGTGCCATGAAGTTATGGACTTGGAAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
** * *
1063571 AGGGTGCCATAGAATTGTAGACTTT-AAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
*
1063599 AGGGTGCCACAGAGTTGTGGACTTTGAAA
1 AGGGTGCCACGGAGTTGTGGACTTTGAAA
* *
1063628 ATAGGTGCTACGGAGTTGTGGACTTTGAAA
1 A-GGGTGCCACGGAGTTGTGGACTTTGAAA
1063658 GGTTACTCTA
Statistics
Matches: 186, Mismatches: 27, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
21 18 0.10
22 1 0.01
28 48 0.26
29 42 0.23
30 77 0.41
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (29 bp):
AGGGTGCCACGGAGTTGTGGACTTTGAAA
Found at i:1063498 original size:21 final size:21
Alignment explanation
Indices: 1063472--1063515 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1063462 GGGGTGCCAC
1063472 GGAGTTGTGGA-ATTTGAAAAA
1 GGAGTTGTGGACA-TTGAAAAA
1063493 GGAGTTGTGGACATTGAAAAA
1 GGAGTTGTGGACATTGAAAAA
1063514 GG
1 GG
1063516 TGCCATGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.25
Consensus pattern (21 bp):
GGAGTTGTGGACATTGAAAAA
Found at i:1063734 original size:72 final size:72
Alignment explanation
Indices: 1063617--1063763 Score: 267
Period size: 72 Copynumber: 2.0 Consensus size: 72
1063607 ACAGAGTTGT
* *
1063617 GGACTTTGAAAATAGGTGCTACGGAGTTGTGGACTTTGAAAGGTTACTCTACTAGGGATGTCAAA
1 GGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAGGTTACTCTACTAGGGATGTCAAA
1063682 CTCTCTG
66 CTCTCTG
*
1063689 GGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAGGTTACTTTACTAGGGATGTCAAA
1 GGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAGGTTACTCTACTAGGGATGTCAAA
1063754 CTCTCTG
66 CTCTCTG
1063761 GGA
1 GGA
1063764 ACTGGCATGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (72 bp):
GGACTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTTGAAAGGTTACTCTACTAGGGATGTCAAA
CTCTCTG
Done.