Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167884.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_151, whole genome shotgun sequence
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: 64682
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Found at i:1145 original size:29 final size:29
Alignment explanation
Indices: 1104--1165 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
1094 AAGAGTATAT
1104 TTTTTCATATTAGTTTAATACATTTAAAA
1 TTTTTCATATTAGTTTAATACATTTAAAA
*
1133 TTTTTCATATTAGTTTAATGCATTTAAAA
1 TTTTTCATATTAGTTTAATACATTTAAAA
1162 TTTT
1 TTTT
1166 ACTTTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (29 bp):
TTTTTCATATTAGTTTAATACATTTAAAA
Found at i:1631 original size:26 final size:29
Alignment explanation
Indices: 1601--1659 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
1591 AATTTTAAAA
1601 AATAGAAAATG-A-A-ATAATATTTTGCT
1 AATAGAAAATGTATAGATAATATTTTGCT
1627 AATAGAAAATGTATAGATAATATTTTGCT
1 AATAGAAAATGTATAGATAATATTTTGCT
1656 AATA
1 AATA
1660 AACGCTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 11 0.37
27 1 0.03
28 1 0.03
29 17 0.57
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.36
Consensus pattern (29 bp):
AATAGAAAATGTATAGATAATATTTTGCT
Found at i:2377 original size:7 final size:7
Alignment explanation
Indices: 2367--2431 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
2357 AAAAATTAAT
2367 AAAAATC
1 AAAAATC
2374 AAAAATAC
1 AAAAAT-C
2382 AAAAATAC
1 AAAAAT-C
2390 AAAAGATC
1 AAAA-ATC
2398 AAAAAT-
1 AAAAATC
2404 ACAAAATAC
1 A-AAAAT-C
**
2413 AAAAAGG
1 AAAAATC
*
2420 AAAAATG
1 AAAAATC
2427 AAAAA
1 AAAAA
2432 ATTCCCCTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
6 1 0.02
7 24 0.48
8 22 0.44
9 3 0.06
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (7 bp):
AAAAATC
Found at i:2384 original size:8 final size:8
Alignment explanation
Indices: 2367--2417 Score: 72
Period size: 8 Copynumber: 6.6 Consensus size: 8
2357 AAAAATTAAT
2367 AAAAAT-C
1 AAAAATAC
2374 AAAAATAC
1 AAAAATAC
2382 AAAAATAC
1 AAAAATAC
2390 AAAAGAT-C
1 AAAA-ATAC
2398 AAAAATAC
1 AAAAATAC
2406 -AAAATAC
1 AAAAATAC
2413 AAAAA
1 AAAAA
2418 GGAAAAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 15 0.38
8 23 0.57
9 2 0.05
ACGTcount: A:0.75, C:0.12, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAAATAC
Found at i:2418 original size:24 final size:24
Alignment explanation
Indices: 2367--2416 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
2357 AAAAATTAAT
2367 AAAA-ATCAAAAATACAAAAATAC
1 AAAAGATCAAAAATACAAAAATAC
2390 AAAAGATCAAAAATAC-AAAATAC
1 AAAAGATCAAAAATACAAAAATAC
2413 AAAA
1 AAAA
2417 AGGAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (24 bp):
AAAAGATCAAAAATACAAAAATAC
Found at i:6631 original size:3 final size:3
Alignment explanation
Indices: 6619--6662 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
6609 ATGATTTTTT
*
6619 ATA A-A ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6663 GTTTAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6804 original size:42 final size:42
Alignment explanation
Indices: 6758--6839 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
6748 AAAAGTTTTA
* *
6758 TAACATTTGATA-AAATTTTAATAATTTTTTATACAATTTTGG
1 TAACATTTAATAGAAA-TTTAATAATTTATTATACAATTTTGG
* * *
6800 TAACATTTAATAGTAATTTGATAATTTATTATATAATTTT
1 TAACATTTAATAGAAATTTAATAATTTATTATACAATTTT
6840 TTAACCATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (42 bp):
TAACATTTAATAGAAATTTAATAATTTATTATACAATTTTGG
Found at i:6900 original size:22 final size:21
Alignment explanation
Indices: 6874--6948 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
6864 AATTTGGTAA
*
6874 AATTTTGGTAATCTCTCAATGT
1 AATTTTGGTAATCTCTC-ATAT
* *
6896 AATTTTGGTAACCTTTCATAT
1 AATTTTGGTAATCTCTCATAT
* * * *
6917 AATTTTAGTAATTTATGATAT
1 AATTTTGGTAATCTCTCATAT
*
6938 ACTTTTGGTAA
1 AATTTTGGTAA
6949 CCATTGATAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (21 bp):
AATTTTGGTAATCTCTCATAT
Found at i:10002 original size:16 final size:16
Alignment explanation
Indices: 9978--10008 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9968 ATGGTCAATC
9978 AATAAAAAAGTTTAAT
1 AATAAAAAAGTTTAAT
*
9994 AATACAAAAGTTTAA
1 AATAAAAAAGTTTAA
10009 CACTGGTAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
AATAAAAAAGTTTAAT
Found at i:10771 original size:17 final size:17
Alignment explanation
Indices: 10745--10807 Score: 90
Period size: 17 Copynumber: 3.7 Consensus size: 17
10735 AAAATTGTGG
*
10745 TTGAAGTTGTGAATTGT
1 TTGAAATTGTGAATTGT
*
10762 TTGAAATTGTTAATTGT
1 TTGAAATTGTGAATTGT
* *
10779 TTTAAGTTGTGAATTGT
1 TTGAAATTGTGAATTGT
10796 TTGAAATTGTGA
1 TTGAAATTGTGA
10808 TATTTTAGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (17 bp):
TTGAAATTGTGAATTGT
Found at i:11631 original size:20 final size:20
Alignment explanation
Indices: 11576--11631 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
11566 ATTTACCAAC
**
11576 GAAATTTTAATTATTATTGAT
1 GAAATTTT-ATTATTATCAAT
* *
11597 -AGATTTTTTTAATTATCAAT
1 GAAATTTTATT-ATTATCAAT
11617 GAAATTTTATTATTA
1 GAAATTTTATTATTA
11632 CTGATTGAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
GAAATTTTATTATTATCAAT
Found at i:14944 original size:15 final size:15
Alignment explanation
Indices: 14924--14962 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14914 GTGTGCCAAA
*
14924 TTTAGGGTTTAGGAT
1 TTTAGGATTTAGGAT
*
14939 TTTAGGATTTGGGAT
1 TTTAGGATTTAGGAT
14954 TTTA-GATTT
1 TTTAGGATTT
14963 TAAGTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTAGGATTTAGGAT
Found at i:15054 original size:30 final size:30
Alignment explanation
Indices: 15020--15145 Score: 123
Period size: 30 Copynumber: 4.3 Consensus size: 30
15010 TAAGGCATGG
* *
15020 ATTTTAGGATTTGGAGGGTTTAAGGTTCTA
1 ATTTTAGGATTTGGAAGGTTTAAGGTTTTA
* * *
15050 ATTTTAGGGTTT--AAGGTTTAGGGTTTTG
1 ATTTTAGGATTTGGAAGGTTTAAGGTTTTA
*
15078 ATTTTAGGATTTGAAAGGTTT-AGAGTTTTA
1 ATTTTAGGATTTGGAAGGTTTAAG-GTTTTA
* * * *
15108 ATTTTAGGGTTTAGAAGGTTTAGGGTTTTG
1 ATTTTAGGATTTGGAAGGTTTAAGGTTTTA
*
15138 TTTTTAGG
1 ATTTTAGG
15146 GTTTAAAGAG
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 23 0.29
29 1 0.01
30 53 0.68
31 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (30 bp):
ATTTTAGGATTTGGAAGGTTTAAGGTTTTA
Found at i:15146 original size:30 final size:29
Alignment explanation
Indices: 15036--15183 Score: 174
Period size: 30 Copynumber: 5.1 Consensus size: 29
15026 GGATTTGGAG
* *
15036 GGTTTAAGGTTCTAATTTTAGGGTTT-AA
1 GGTTTAGGGTTTTAATTTTAGGGTTTAAA
* *
15064 GGTTTAGGGTTTTGATTTTAGGATTTGAAA
1 GGTTTAGGGTTTTAATTTTAGGGTTT-AAA
*
15094 GGTTTAGAGTTTTAATTTTAGGGTTTAGAA
1 GGTTTAGGGTTTTAATTTTAGGGTTTA-AA
**
15124 GGTTTAGGGTTTTGTTTTTAGGGTTTAAA
1 GGTTTAGGGTTTTAATTTTAGGGTTTAAA
* *
15153 GAGTTTAGGATTTT-ATTTTTGGGTTTAAA
1 G-GTTTAGGGTTTTAATTTTAGGGTTTAAA
15182 GG
1 GG
15184 GTTTGATTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
28 23 0.22
29 18 0.17
30 62 0.60
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (29 bp):
GGTTTAGGGTTTTAATTTTAGGGTTTAAA
Found at i:15159 original size:60 final size:59
Alignment explanation
Indices: 14990--15183 Score: 209
Period size: 58 Copynumber: 3.3 Consensus size: 59
14980 GTTCTAAGGG
* ** * * * *
14990 TTTTAGGGTTTAAAGGGTTTTAAGGCATGGATTTTAGGATTTGGAGGGTTTAAGG-TTCTAA
1 TTTTAGGGTTTAAA-GG-TTTAGGGTTTTGATTTTAGGATTTGAAAGGTTT-AGGATTTTAA
15051 TTTTAGGGTTT-AAGGTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTA-GAGTTTTAA
1 TTTTAGGGTTTAAAGGTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTAGGA-TTTTAA
* *
15109 TTTTAGGGTTTAGAAGGTTTAGGGTTTTGTTTTTAGGGTTT-AAAGAGTTTAGGATTTT-A
1 TTTTAGGGTTTA-AAGGTTTAGGGTTTTGATTTTAGGATTTGAAAG-GTTTAGGATTTTAA
*
15168 TTTTTGGGTTTAAAGG
1 TTTTAGGGTTTAAAGG
15184 GTTTGATTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 47 0.40
59 18 0.15
60 37 0.32
61 13 0.11
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (59 bp):
TTTTAGGGTTTAAAGGTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTAGGATTTTAA
Found at i:15204 original size:21 final size:21
Alignment explanation
Indices: 15167--15208 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15157 TTAGGATTTT
*
15167 ATTTTTGGGTTTAAAGGGTTTG
1 ATTTTAGGGTTTAAA-GGTTTG
15189 ATTTTAGGGTTT-AAGGTTTG
1 ATTTTAGGGTTTAAAGGTTTG
15209 GGGTTTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
ATTTTAGGGTTTAAAGGTTTG
Found at i:15236 original size:14 final size:15
Alignment explanation
Indices: 15212--15300 Score: 73
Period size: 15 Copynumber: 6.1 Consensus size: 15
15202 AGGTTTGGGG
15212 TTTGGATTTTAGGGT
1 TTTGGATTTTAGGGT
*
15227 TTTGGATTTAAGGG-
1 TTTGGATTTTAGGGT
*
15241 TTTGGAAGTTTT-GAGT
1 TTTGG-A-TTTTAGGGT
*
15257 TTT-GATTTTAGGTT
1 TTTGGATTTTAGGGT
15271 TTTGG--TTTAGCGG-
1 TTTGGATTTTAG-GGT
*
15284 TTTCGATTTTAGGGT
1 TTTGGATTTTAGGGT
15299 TT
1 TT
15301 AGATTTTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
13 13 0.22
14 14 0.24
15 25 0.43
16 6 0.10
ACGTcount: A:0.15, C:0.02, G:0.30, T:0.53
Consensus pattern (15 bp):
TTTGGATTTTAGGGT
Found at i:15305 original size:14 final size:14
Alignment explanation
Indices: 15050--15307 Score: 90
Period size: 14 Copynumber: 18.4 Consensus size: 14
15040 TAAGGTTCTA
15050 ATTTTAGGGTTTA-
1 ATTTTAGGGTTTAG
* *
15063 AGGTTTAGGGTTTTG
1 A-TTTTAGGGTTTAG
* *
15078 ATTTTAGGATTTGAA
1 ATTTTAGGGTTT-AG
* *
15093 AGGTTTAGAGTTTTA-
1 A-TTTTAG-GGTTTAG
15108 ATTTTAGGGTTTAG
1 ATTTTAGGGTTTAG
* *
15122 AAGGTTTAGGGTTTTG
1 -A-TTTTAGGGTTTAG
*
15138 TTTTTAGGGTTTAAAG
1 ATTTTAGGGTTT--AG
* * *
15154 AGTTTAGGATTT-T
1 ATTTTAGGGTTTAG
*
15167 ATTTTTGGGTTTA-
1 ATTTTAGGGTTTAG
15180 A----AGGGTTT-G
1 ATTTTAGGGTTTAG
15189 ATTTTAGGGTTTA-
1 ATTTTAGGGTTTAG
* * *
15202 AGGTTTGGGGTTTGG
1 A-TTTTAGGGTTTAG
*
15217 ATTTTAGGGTTTTGG
1 ATTTTAGGG-TTTAG
* *
15232 ATTTAAGGGTTTGG
1 ATTTTAGGGTTTAG
* *
15246 AAGTTTT-GAGTTTTG
1 -A-TTTTAGGGTTTAG
* *
15261 ATTTTAGGTTTTTG
1 ATTTTAGGGTTTAG
* *
15275 -GTTTAGCGGTTTCG
1 ATTTTAG-GGTTTAG
15289 ATTTTAGGGTTTAG
1 ATTTTAGGGTTTAG
15303 ATTTT
1 ATTTT
15308 TTAATTTTTA
Statistics
Matches: 181, Mismatches: 39, Indels: 49
0.67 0.14 0.18
Matches are distributed among these distances:
9 7 0.04
13 33 0.18
14 77 0.43
15 30 0.17
16 30 0.17
17 4 0.02
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (14 bp):
ATTTTAGGGTTTAG
Found at i:15641 original size:3 final size:3
Alignment explanation
Indices: 15564--15627 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
15554 AAAAAAAATT
* * * *
15564 TTA TTA TTT TTA TAA TCA TT- TTA TATA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
15609 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
15628 ACAAGATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15800 original size:20 final size:21
Alignment explanation
Indices: 15763--15801 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15753 TAATAAATTT
*
15763 AAAATTACAAGAATAATATTA
1 AAAATTACAAGAAAAATATTA
*
15784 AAAATTTCAA-AAAAATAT
1 AAAATTACAAGAAAAATAT
15802 CTGAAACCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATTACAAGAAAAATATTA
Found at i:23314 original size:101 final size:101
Alignment explanation
Indices: 23159--23343 Score: 223
Period size: 101 Copynumber: 1.8 Consensus size: 101
23149 TTATTGCAAG
* * **
23159 ATTTTCATGGATTTAAAGAAAAATTTTAAATAAATTTAAAAACTTCTACCAAACTATTGGAGAAT
1 ATTTTCATAGATTT-AAGAAAAATTTTAAATAAATTTAAAAAATTCTACCAAACTATTAAAGAAT
23224 CTTATTTTGAGAAATAAAATTTTATCAAACTATTAGAGA
65 CTTA--TTGAGAAATAAAATTTTATCAAACTATTAGAGA
* * ** *
23263 ATTTTCATAGATTT-ATAAAAA-TTTAAATACATTTAAAAAA-TCTTAGTAAACTATTAAAGGAT
1 ATTTTCATAGATTTAAGAAAAATTTTAAATAAATTTAAAAAATTC-TACCAAACTATTAAAGAAT
*
23325 CTTATTGAGACATAAAATT
65 CTTATTGAGAAATAAAATT
23344 CTACAAAAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
99 14 0.20
100 2 0.03
101 35 0.50
102 6 0.09
104 13 0.19
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (101 bp):
ATTTTCATAGATTTAAGAAAAATTTTAAATAAATTTAAAAAATTCTACCAAACTATTAAAGAATC
TTATTGAGAAATAAAATTTTATCAAACTATTAGAGA
Found at i:24544 original size:14 final size:14
Alignment explanation
Indices: 24525--24554 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24515 GGTATCAGAG
24525 CGAGGTTCCAGGTT
1 CGAGGTTCCAGGTT
*
24539 CGAGGTTCTAGGTT
1 CGAGGTTCCAGGTT
24553 CG
1 CG
24555 TGGGTCCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.37, T:0.30
Consensus pattern (14 bp):
CGAGGTTCCAGGTT
Found at i:29554 original size:16 final size:17
Alignment explanation
Indices: 29533--29570 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
29523 TTTTCAAACC
*
29533 AAAAAA-ATTAAAATAT
1 AAAAAACATAAAAATAT
29549 AAAAAACATAAAAATAT
1 AAAAAACATAAAAATAT
29566 AAAAA
1 AAAAA
29571 TTTTTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAACATAAAAATAT
Found at i:30351 original size:266 final size:266
Alignment explanation
Indices: 30025--30558 Score: 1032
Period size: 266 Copynumber: 2.0 Consensus size: 266
30015 ACCAAAAAAC
30025 TAAAACTAATAAAAATTTTTTTGACGACGGAACCTCTTCAAGATATTAAATGAAATTTTTGAATA
1 TAAAACTAATAAAAATTTTTTTGACGACGGAACCTCTTCAAGATATTAAATGAAATTTTTGAATA
30090 CTCTTGAGGTGAGAAAATATTTTTAAGAGTTCTATCAGATTGATGAAGAATCTTAAAAATTATTA
66 CTCTTGAGGTGAGAAAATATTTTTAAGAGTTCTATCAGATTGATGAAGAATCTTAAAAATTATTA
*
30155 CACATATAAACTTAAAACCATTAGAACCGAGACCTTAGGATAAATTTAAAACGTTTGAATGGGCA
131 CACATATAAACTTAAAACCATTAGAACCGAGACCTTAGGATAAATTTAAAACCTTTGAATGGGCA
*
30220 TGTGAGAGTGCTATAATCTTCCCTACATGTAACCGACTATCGAATCCTGTTCTGGTTAGTAGACC
196 TGTGAGAGTGCTATAATCTTCCCTACATGTAACCGACTATCGAATCCTCTTCTGGTTAGTAGACC
30285 CGAACT
261 CGAACT
*
30291 TAAAACTAATAAAATTTTTTTTGACGACGGAACCTCTTCAAGATATTAAATGAAATTTTTGAATA
1 TAAAACTAATAAAAATTTTTTTGACGACGGAACCTCTTCAAGATATTAAATGAAATTTTTGAATA
30356 CTCTTGAGGTGAGAAAATATTTTTAAGAGTTCTATCAGATTGATGAAGAATCTTAAAAATTATTA
66 CTCTTGAGGTGAGAAAATATTTTTAAGAGTTCTATCAGATTGATGAAGAATCTTAAAAATTATTA
30421 CACATATAAACTTAAAACCATTAGAACCGAGACCTTAGGATAAATTTAAAACCTTTGAATGGGCA
131 CACATATAAACTTAAAACCATTAGAACCGAGACCTTAGGATAAATTTAAAACCTTTGAATGGGCA
*
30486 TGTGAGAGTGCTATAATCTTCCCTACATGTAACCGACTATCGAATCCTCTTCTGGTTAGTAGATC
196 TGTGAGAGTGCTATAATCTTCCCTACATGTAACCGACTATCGAATCCTCTTCTGGTTAGTAGACC
30551 CGAACT
261 CGAACT
30557 TA
1 TA
30559 TTTTTTTAGG
Statistics
Matches: 264, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 264 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (266 bp):
TAAAACTAATAAAAATTTTTTTGACGACGGAACCTCTTCAAGATATTAAATGAAATTTTTGAATA
CTCTTGAGGTGAGAAAATATTTTTAAGAGTTCTATCAGATTGATGAAGAATCTTAAAAATTATTA
CACATATAAACTTAAAACCATTAGAACCGAGACCTTAGGATAAATTTAAAACCTTTGAATGGGCA
TGTGAGAGTGCTATAATCTTCCCTACATGTAACCGACTATCGAATCCTCTTCTGGTTAGTAGACC
CGAACT
Found at i:31041 original size:22 final size:22
Alignment explanation
Indices: 31013--31056 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31003 TAAGTCTTTA
31013 ATCCTAACATATGATATTATAT
1 ATCCTAACATATGATATTATAT
*
31035 ATCCTAACATATGATGTTATAT
1 ATCCTAACATATGATATTATAT
31057 TGGGAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (22 bp):
ATCCTAACATATGATATTATAT
Found at i:44293 original size:26 final size:26
Alignment explanation
Indices: 44264--44315 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44254 AACCATAGGT
44264 TATGAATCACAATACAAATGATAAGG
1 TATGAATCACAATACAAATGATAAGG
44290 TATGAATCACAATACAAATGATAAGG
1 TATGAATCACAATACAAATGATAAGG
44316 AAAACATTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (26 bp):
TATGAATCACAATACAAATGATAAGG
Found at i:48569 original size:26 final size:26
Alignment explanation
Indices: 48548--48597 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
48538 TCTTTATCTT
48548 TTTAT-TCTATTTTTATATTTTATTCA
1 TTTATCTCTATTTTT-TATTTTATTCA
*
48574 TTTATCTTTATTTTTTATTTTATT
1 TTTATCTCTATTTTTTATTTTATT
48598 ATTCACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTATCTCTATTTTTTATTTTATTCA
Found at i:48589 original size:21 final size:18
Alignment explanation
Indices: 48538--48592 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
48528 TAATTTCCTT
48538 TCTTTATCTTTTTATTCTA
1 TCTTTAT-TTTTTATTCTA
* *
48557 TTTTTATATTTTATTCATTTA
1 TCTTTATTTTTTATTC---TA
48578 TCTTTATTTTTTATT
1 TCTTTATTTTTTATT
48593 TTATTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.28
19 6 0.21
21 15 0.52
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTTTATTTTTTATTCTA
Found at i:48600 original size:29 final size:28
Alignment explanation
Indices: 48548--48615 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
48538 TCTTTATCTT
*
48548 TTTATTCTA-TTTTTATATTTTATTCA-
1 TTTATTTTATTTTTTATATTTTATTCAC
*
48574 TTTATCTTTATTTTTTATTTTATTATTCAC
1 TTTAT-TTTATTTTTTATATT-TTATTCAC
48604 TTTATTTTATTT
1 TTTATTTTATTT
48616 ATCTGTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 5 0.14
27 3 0.08
28 9 0.25
29 14 0.39
30 5 0.14
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTATTTTATTTTTTATATTTTATTCAC
Found at i:48616 original size:39 final size:39
Alignment explanation
Indices: 48538--48673 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
48528 TAATTTCCTT
* * * *
48538 TCTTTATCTTTTTATTCTATTTTTATATTTTA-TTCATTTA
1 TCTTTAT-TTTTT-TTTTATTTTTACAATTTATTTTATTTA
* *
48578 TCTTTATTTTTTATTTTATTATT-CACTTTATTTTATTTA
1 TCTTTATTTTTT-TTTTATTTTTACAATTTATTTTATTTA
* * *
48617 TCTGTCTTTATCTTTTTATTTTTACAATTTATTTTATTTA
1 TCTTTATTT-TTTTTTTATTTTTACAATTTATTTTATTTA
* *
48657 TCTATCTTTTTTTTTTA
1 TCTTTATTTTTTTTTTA
48674 CATTTTCTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.06
39 44 0.54
40 32 0.40
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.71
Consensus pattern (39 bp):
TCTTTATTTTTTTTTTATTTTTACAATTTATTTTATTTA
Found at i:48656 original size:22 final size:20
Alignment explanation
Indices: 48547--48657 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 20
48537 TTCTTTATCT
48547 TTTTATTCTATTTTT-A--TA
1 TTTTATT-TATTTTTCATTTA
* *
48565 TTTTATTCATTTATC-TTTA
1 TTTTATTTATTTTTCATTTA
*
48584 TTTTTTATTTTATTATTCACTTTA
1 --TTTTA-TTTATTTTTCA-TTTA
* *
48608 TTTTATTTATCTGTC-TTTA
1 TTTTATTTATTTTTCATTTA
*
48627 TCTT-TTTATTTTTACAATTTA
1 TTTTATTTATTTTT-C-ATTTA
48648 TTTTATTTAT
1 TTTTATTTAT
48658 CTATCTTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
17 5 0.07
18 14 0.20
19 10 0.14
21 19 0.28
22 17 0.25
24 4 0.06
ACGTcount: A:0.21, C:0.08, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTATTTATTTTTCATTTA
Found at i:48658 original size:40 final size:42
Alignment explanation
Indices: 48563--48673 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 42
48553 TCTATTTTTA
* * *
48563 TATTTTATTCATTTATCTTTATTTTTTATTTTATTATTCACTT
1 TATTTTATTTATCTATCTTTATTTTTTATTTTATTA-TCAATT
*
48606 TATTTTATTTATCTGTCTTTATCTTTTTA-TTT-TTA-CAATT
1 TATTTTATTTATCTATCTTTAT-TTTTTATTTTATTATCAATT
*
48646 TATTTTATTTATCTATCTTTTTTTTTTA
1 TATTTTATTTATCTATCTTTATTTTTTA
48674 CATTTTCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
39 6 0.10
40 24 0.39
42 3 0.05
43 22 0.36
44 6 0.10
ACGTcount: A:0.20, C:0.09, G:0.01, T:0.70
Consensus pattern (42 bp):
TATTTTATTTATCTATCTTTATTTTTTATTTTATTATCAATT
Found at i:48685 original size:32 final size:34
Alignment explanation
Indices: 48625--48689 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
48615 TATCTGTCTT
48625 TATCTTTTTATTTTTACAATTTATTTTATTTATC
1 TATCTTTTTATTTTTACAATTTATTTTATTTATC
48659 TATCTTTTT-TTTTTAC-ATTT-TCTTTATTTAT
1 TATCTTTTTATTTTTACAATTTAT-TTTATTTAT
48690 TGTTTTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 1 0.03
32 13 0.43
33 7 0.23
34 9 0.30
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (34 bp):
TATCTTTTTATTTTTACAATTTATTTTATTTATC
Found at i:53668 original size:180 final size:180
Alignment explanation
Indices: 53366--53708 Score: 596
Period size: 180 Copynumber: 1.9 Consensus size: 180
53356 AACATAGAAA
* * *
53366 AAAATCAAAGGCAAAAGCATACCTTCAAATTTGTTTTCACCTAGATATACTTCTTTGAGCACGGT
1 AAAATCAAAGGCAAAAGCATACCTCCAAATCTGTTTTCACCTAGAGATACTTCTTTGAGCACGGT
53431 TAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTGCA
66 TAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTGCA
*
53496 GATTGCAGCATTTGCTTATATGACAGAATATTATAGATGATAGAAAAAAT
131 GATTGCAGCATTTGCCTATATGACAGAATATTATAGATGATAGAAAAAAT
* * *
53546 AAAATCAAAGGCAAAAGCATACCTCCCAATCTGTTTTCATCTAGAGATAGTTCTTTGAGCACGGT
1 AAAATCAAAGGCAAAAGCATACCTCCAAATCTGTTTTCACCTAGAGATACTTCTTTGAGCACGGT
53611 TAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTGCA
66 TAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTGCA
* **
53676 GATTGTAGCATTTGCCTATATGATGGAATATTA
131 GATTGCAGCATTTGCCTATATGACAGAATATTA
53709 CCAGATAATT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
180 153 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (180 bp):
AAAATCAAAGGCAAAAGCATACCTCCAAATCTGTTTTCACCTAGAGATACTTCTTTGAGCACGGT
TAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTGCA
GATTGCAGCATTTGCCTATATGACAGAATATTATAGATGATAGAAAAAAT
Found at i:54524 original size:518 final size:516
Alignment explanation
Indices: 53609--54670 Score: 1815
Period size: 518 Copynumber: 2.1 Consensus size: 516
53599 TTTGAGCACG
* * *
53609 GTTAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTG
1 GTTAAATTTCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAAATCTG
* ** *
53674 CAGATTGTAGCATTTGCCTATATGATGGAATATTACCAGATAATTGATTCTTAGCTAAGCAAAGC
66 CAAATTACAGCATTTGCCTATATGATGGAATATTACCAGATAATTGATTCTCAGCTAAGCAAAGC
* * *
53739 CCCTTAAGCTTAGGAAGATGATGATACATATAATCAGGCAATTTACCTGATAAACTATTGTTTTG
131 CCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATTTTG
* *
53804 TAGAGCAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCTCA
196 TAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCCCA
* * * *
53869 TCCTTGCTGCTCTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTGTA
261 TACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTGCA
* * *
53934 AACAAGGTAAATAATCAAAGTGTTAGCTTGACTGCATATTTTTGTTTAATTATTTCAGTATATTA
326 AACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTATATTA
53999 GTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTAAA
391 GTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTAAA
54064 GAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
456 GAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
54125 GTTAAATTTCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAAT-TCCAAAATCT
1 GTTAAATTTCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATAT-CAAAATCT
*
54189 GCAAATTACAGCATTTGCCTATACTTGATGGAATATTACCAGATAATTGATTCTCAGCTAAGTAA
65 GCAAATTACAGCATTTGCCTATA--TGATGGAATATTACCAGATAATTGATTCTCAGCTAAGCAA
54254 AGCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTA-T
128 AGCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATT
*
54318 TTGTTAGAGAAACAATGGTCAGAGAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGG
193 TTG-TAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGG
* * *
54383 CCCATAGTTGATGCACTTAATATCTCTAAACTATAAAGATTACCAATTTCCTTAGGAATTTCACC
257 CCCATACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACC
*
54448 TGCAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACCTATTTTTGTTTAATTATTTCAGTAT
322 TGCAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTAT
54513 ATTAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGAC
387 ATTAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGAC
* *
54578 TAAAGAAATCAAATTAAAGCTTACCTTCTAAGTTATTTTTACCCAAATATACTCCTTTGAGTTGT
452 TAAAGAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
54643 GTTAAATTTCCAATA-TTTCTTGGAATGA
1 GTTAAATTTCCAATACTTT-TTGGAATGA
54671 ACCCATTGAA
Statistics
Matches: 514, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
515 1 0.00
516 79 0.15
517 7 0.01
518 427 0.83
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (516 bp):
GTTAAATTTCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAAATCTG
CAAATTACAGCATTTGCCTATATGATGGAATATTACCAGATAATTGATTCTCAGCTAAGCAAAGC
CCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATTTTG
TAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCCCA
TACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTGCA
AACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTATATTA
GTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTAAA
GAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
Found at i:54772 original size:518 final size:518
Alignment explanation
Indices: 53609--54807 Score: 1722
Period size: 518 Copynumber: 2.3 Consensus size: 518
53599 TTTGAGCACG
* * * * * * *
53609 GTTAAATTCCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATATCAAACTTTG
1 GTTAAATTTCCAATACTTTTTGGAATGAACCCTGTGAATTCATTTATAGACAATACCAAAATCTG
* ** * * * * * * *
53674 CAGATTGTAGCATTTGCCTATA--TGATGGAATATTACCAGATAATTGATTCTTAGCTAAGCAAA
66 CAAATTACAGCATGTGCCTATACTTGATGGAATATAACCAGATAATTCATTATCAACTAAGTAAA
* * *
53737 GCCCCTTAAGCTTAGGAAGATGATGATACATATAATCAGGCAATTTACCTGATAAACTATTGTTT
131 GCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATTT
* *
53802 TGTAGAGCAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCT
196 TGTAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCC
* * *
53867 CATCCTTGCTGCTCTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTG
261 CATACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTG
* * * *
53932 TAAACAAGGTAAATAATCAAAGTGTTAGCTTGACTGCATATTTTTGTTTAATTATTTCAGTATAT
326 CAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTATAT
53997 TAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTA
391 TAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTA
54062 AAGAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
456 AAGAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
* * * *
54125 GTTAAATTTCCAATACTTTTTGGAATGAGCCCTGTGAATTGATTTATAGATAATTCCAAAATCTG
1 GTTAAATTTCCAATACTTTTTGGAATGAACCCTGTGAATTCATTTATAGACAATACCAAAATCTG
* * * * *
54190 CAAATTACAGCATTTGCCTATACTTGATGGAATATTACCAGATAATTGATTCTCAGCTAAGTAAA
66 CAAATTACAGCATGTGCCTATACTTGATGGAATATAACCAGATAATTCATTATCAACTAAGTAAA
54255 GCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTA-TT
131 GCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATTT
*
54319 TGTTAGAGAAACAATGGTCAGAGAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGC
196 TG-TAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGC
* * *
54384 CCATAGTTGATGCACTTAATATCTCTAAACTATAAAGATTACCAATTTCCTTAGGAATTTCACCT
260 CCATACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCT
*
54449 GCAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACCTATTTTTGTTTAATTATTTCAGTATA
325 GCAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTATA
54514 TTAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACT
390 TTAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACT
* *
54579 AAAGAAATCAAATTAAAGCTTACCTTCTAAGTTATTTTTACCCAAATATACTCCTTTGAGTTGT
455 AAAGAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
* * *
54643 GTTAAATTTCCAATA-TTTCTTGGAATGAACCCAT-TGAATTCA-TTATTAGACAA-AGCTAATT
1 GTTAAATTTCCAATACTTT-TTGGAATGAACCC-TGTGAATTCATTTA-TAGACAATACCAAAAT
* * * * * * *
54704 GTTG-AAGCTTGCTGCATGTGCCTATACTTGATGGCATATAACCGGATAATTCATTTATGAAC-A
63 -CTGCAA-ATTACAGCATGTGCCTATACTTGATGGAATATAACCAGATAATTCA-TTATCAACTA
* *
54767 AGTAAAG-CACTTCAAGTTTAGGAAGATG--GACACATA-AATCA
125 AGTAAAGCCCCTT-AAGCTTAGGAAGATGATGACACATATAATCA
54808 TCTGGCAAAC
Statistics
Matches: 623, Mismatches: 50, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
515 5 0.01
516 87 0.14
517 20 0.03
518 505 0.81
519 6 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (518 bp):
GTTAAATTTCCAATACTTTTTGGAATGAACCCTGTGAATTCATTTATAGACAATACCAAAATCTG
CAAATTACAGCATGTGCCTATACTTGATGGAATATAACCAGATAATTCATTATCAACTAAGTAAA
GCCCCTTAAGCTTAGGAAGATGATGACACATATAATCAGGCAATCTACCTGATAAACTATTATTT
TGTAGAGAAACAATGGTCAGAAAAGAAATGTTGAAGATGGAAGCTGGAATCTTACCAGTAAGGCC
CATACTTGATGCACTTAATATCTCTAAACTAAAAAGATTACCAATTTCCTCAGGAATTTCACCTG
CAAACAAGGTAAATAATCAAAGTGCTAGCTCGACTACATATTTTTGTTTAATTATTTCAGTATAT
TAGTTTAGAAAATTAAAAATTTTGCATTGAAAAAATGAAAAAGGAATGAAAATGTGTTTAGACTA
AAGAAATCAAATTAAAGCTTACCTTCTAAGCTATTTTTACCCAAATATACTCCTTTGAGTTGC
Found at i:56512 original size:3 final size:3
Alignment explanation
Indices: 56504--56531 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
56494 GCAACTAGGT
56504 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
56532 ACAATGGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61887 original size:26 final size:26
Alignment explanation
Indices: 61837--61888 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
61827 TTTGAAAAAA
* * *
61837 AAATAATAAATTTTGATATATTTATT
1 AAATAATAAATTTTAATAAAATTATT
*
61863 AAATAATCAATTTTAATAAAATTATT
1 AAATAATAAATTTTAATAAAATTATT
61889 GATAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATAATAAATTTTAATAAAATTATT
Found at i:62038 original size:13 final size:12
Alignment explanation
Indices: 62005--62030 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61995 CTATTAATTT
62005 AAATTTTTATTA
1 AAATTTTTATTA
62017 AAATTTTTATTA
1 AAATTTTTATTA
62029 AA
1 AA
62031 TCATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTTTTATTA
Done.