Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, 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: 2324158
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 12
Found at i:1416076 original size:22 final size:21
Alignment explanation
Indices: 1416018--1416077 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
1416008 GAATGCTCGG
*
1416018 ATGGTATCGATACCCCTTAGT
1 ATGGTATCGATACCCCTGAGT
*
1416039 A-GGTATCAATACCCCCATGA-T
1 ATGGTATCGATA-CCCC-TGAGT
1416060 ATGGTATCGATATCCCCT
1 ATGGTATCGATA-CCCCT
1416078 ACTTAGGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.28
21 8 0.25
22 15 0.47
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGGTATCGATACCCCTGAGT
Found at i:1417872 original size:15 final size:15
Alignment explanation
Indices: 1417852--1417890 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1417842 CTACATGGAG
1417852 CGATGAAGAAGGTTC
1 CGATGAAGAAGGTTC
*
1417867 CGATGAAGAATGTTC
1 CGATGAAGAAGGTTC
*
1417882 CAATGAAGA
1 CGATGAAGA
1417891 GGAACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (15 bp):
CGATGAAGAAGGTTC
Found at i:1421887 original size:23 final size:23
Alignment explanation
Indices: 1421857--1421959 Score: 112
Period size: 23 Copynumber: 4.7 Consensus size: 23
1421847 GACCTGATAC
1421857 AGGTATCGATACCCCCTTTGAAT
1 AGGTATCGATACCCCCTTTGAAT
*
1421880 AGGTATCGATA--CCCATTGAAT
1 AGGTATCGATACCCCCTTTGAAT
* * *
1421901 AGCTATCGATACACTCTTTGAAT
1 AGGTATCGATACCCCCTTTGAAT
1421924 -GAGTATCGATACCCCC--TG-AT
1 AG-GTATCGATACCCCCTTTGAAT
1421944 -GGTATCGATACCCCCT
1 AGGTATCGATACCCCCT
1421960 GTCGGGTTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
19 14 0.20
20 3 0.04
21 21 0.30
22 1 0.01
23 30 0.43
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (23 bp):
AGGTATCGATACCCCCTTTGAAT
Found at i:1421910 original size:44 final size:42
Alignment explanation
Indices: 1421860--1421959 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 42
1421850 CTGATACAGG
*
1421860 TATCGATACCCCCTTTGAAT-AGGTATCGATACCCATTGAATAGC
1 TATCGATACCCCCTTTGAATGA-GTATCGATACCCACTG-AT-GC
* * * *
1421904 TATCGATACACTCTTTGAATGAGTATCGATACCCCCTGATGG
1 TATCGATACCCCCTTTGAATGAGTATCGATACCCACTGATGC
1421946 TATCGATACCCCCT
1 TATCGATACCCCCT
1421960 GTCGGGTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 13 0.27
43 2 0.04
44 32 0.67
45 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
TATCGATACCCCCTTTGAATGAGTATCGATACCCACTGATGC
Found at i:1424664 original size:76 final size:76
Alignment explanation
Indices: 1424555--1424742 Score: 283
Period size: 76 Copynumber: 2.5 Consensus size: 76
1424545 TTTATTTAGT
* * * * *
1424555 ATGGTATCGATACCCCCATATAGGGTACCGATACCCCTATGAATATTTTGGTTCCGAGAAATAAC
1 ATGGTACCGATACCCCCTTATAGGGTACTGATACCCCTATGAACATTTTGATTCCGAGAAATAAC
1424620 AGAATACTCGG
66 AGAATACTCGG
1424631 ATGGTACCGATACCCCCTTATAGGGTACTGATACCCCTATGAACATTTTGATTCCGAGAAATAAC
1 ATGGTACCGATACCCCCTTATAGGGTACTGATACCCCTATGAACATTTTGATTCCGAGAAATAAC
*
1424696 AGAATGCTCGG
66 AGAATACTCGG
1424707 ATGGTACCGATA-CCCCTTAGTA-GGTA-TCGATACCCC
1 ATGGTACCGATACCCCCTTA-TAGGGTACT-GATACCCC
1424743 CTACTTAGGT
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
74 1 0.01
75 19 0.18
76 84 0.81
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (76 bp):
ATGGTACCGATACCCCCTTATAGGGTACTGATACCCCTATGAACATTTTGATTCCGAGAAATAAC
AGAATACTCGG
Found at i:1424737 original size:20 final size:21
Alignment explanation
Indices: 1424709--1424762 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1424699 ATGCTCGGAT
*
1424709 GGTACCGATACCCCTTA-GTA
1 GGTACCGATACCCCCTACGTA
* *
1424729 GGTATCGATACCCCCTACTTA
1 GGTACCGATACCCCCTACGTA
1424750 GGTACCGATACCC
1 GGTACCGATACCC
1424763 TCAGGCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (21 bp):
GGTACCGATACCCCCTACGTA
Found at i:1439435 original size:63 final size:63
Alignment explanation
Indices: 1439336--1439461 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
1439326 TCCCTTCGGC
*
1439336 CTTCCCCAACACAACGTGAAAGACGTGTTTTTTGGACGGATATACTTATCAATAGTATTAGGA
1 CTTCCCCAACACAACGTGAAAGACGTGTTTTTTGGACGGATATAATTATCAATAGTATTAGGA
* * * *
1439399 CTTCCCGAACACAACGTGAAAGACTTGTTTTTTGGACGGATATAATTATTAATAGTGTTAGGA
1 CTTCCCCAACACAACGTGAAAGACGTGTTTTTTGGACGGATATAATTATCAATAGTATTAGGA
1439462 GTATACTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (63 bp):
CTTCCCCAACACAACGTGAAAGACGTGTTTTTTGGACGGATATAATTATCAATAGTATTAGGA
Found at i:1448857 original size:15 final size:15
Alignment explanation
Indices: 1448837--1448888 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
1448827 TTCCAGAAAA
1448837 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1448852 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1448867 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
1448881 TGAATTAC
1 TGAATTAC
1448889 ATTTCTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1448894 original size:20 final size:20
Alignment explanation
Indices: 1448871--1448941 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
1448861 GGAATTTGAA
1448871 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
1448891 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1448911 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1448931 TTCTGGAAAAT
1 TTCTGGAAAAT
1448942 ATCTGGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1449148 original size:28 final size:29
Alignment explanation
Indices: 1449108--1449207 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 29
1449098 TTACTAAAAT
*
1449108 ATTATTGAAATATATAAATAATATTATT-C
1 ATTATT-AAATATATAAATAAAATTATTAC
*
1449137 ATTATTAAATATATAAA-AAAATTATTAT
1 ATTATTAAATATATAAATAAAATTATTAC
* * * *
1449165 ATTATTAAA-ATAAAAATATAATATCTTAT
1 ATTATTAAATATATAAATAAAAT-TATTAC
1449194 ATTATTATAATATA
1 ATTATTA-AATATA
1449208 ATTGATTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 14 0.23
28 24 0.39
29 18 0.30
30 2 0.03
31 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATTATTAAATATATAAATAAAATTATTAC
Found at i:1449186 original size:57 final size:57
Alignment explanation
Indices: 1449106--1449252 Score: 139
Period size: 54 Copynumber: 2.6 Consensus size: 57
1449096 CTTTACTAAA
* *
1449106 ATATTATTGAAATATATAA-ATAATATTATTCATTATTAAATATATAAAAAAATT-ATT
1 ATATTATTAAAATA-AAAATATAATATTATT-ATTATTAAATATATAAAAAAATTGATT
* * *
1449163 ATATTATTAAAATAAAAATATAATA-TCTTA-TATT--AT-TATAATATAATTGATT
1 ATATTATTAAAATAAAAATATAATATTATTATTATTAAATATATAAAAAAATTGATT
* *
1449215 ATTTTATATAATATTAAAAATATAATATTA-TATTATTA
1 ATATTAT-TAA-AATAAAAATATAATATTATTATTATTA
1449253 TAAATATTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
51 10 0.13
52 11 0.15
53 3 0.04
54 20 0.27
55 6 0.08
56 6 0.08
57 19 0.25
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (57 bp):
ATATTATTAAAATAAAAATATAATATTATTATTATTAAATATATAAAAAAATTGATT
Found at i:1449246 original size:22 final size:23
Alignment explanation
Indices: 1449221--1449264 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1449211 GATTATTTTA
1449221 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1449243 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1449265 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1449269 original size:22 final size:22
Alignment explanation
Indices: 1449225--1449281 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1449215 ATTTTATATA
* *
1449225 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
1449246 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
1449268 ATATTTTAAATATT
1 ATATTATAAATATT
1449282 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:1449280 original size:52 final size:51
Alignment explanation
Indices: 1449162--1449281 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 51
1449152 AAAAAATTAT
**
1449162 TATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTGA
1 TATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAAA
1449213 T-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAAA
1 TATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAAA
1449267 TATATTTTAAATATT
1 TATATTTTAAATATT
1449282 TTAATAATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
50 3 0.05
51 5 0.08
52 20 0.34
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
TATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAAA
Found at i:1449529 original size:42 final size:42
Alignment explanation
Indices: 1449470--1449589 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
1449460 ATGAATTACA
*
1449470 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1449512 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1449554 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1449590 TTCGGGGAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1458628 original size:179 final size:181
Alignment explanation
Indices: 1458138--1458789 Score: 1020
Period size: 179 Copynumber: 3.6 Consensus size: 181
1458128 GATCCAAATT
* * * **
1458138 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACAGGTATTGAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * * *
1458203 AAACCGGTAAAGCGGTACCAGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGATAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
* * *
1458268 GTTAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATATTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
1458320 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1458385 AAATCGATAAAACACTATCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGATAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
* *
1458450 TGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTTGATACTTT-A
131 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
** * *
1458500 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAT-AAATTGGTACCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1458564 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATTTAAGGATCGACACTTTG
66 AAACCGATAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
1458629 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
1458680 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1458745 AAATCGATATAACGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGATAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
1458790 CGTAAGTACG
Statistics
Matches: 430, Mismatches: 38, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
179 124 0.29
180 90 0.21
181 121 0.28
182 95 0.22
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGATAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:1458733 original size:20 final size:20
Alignment explanation
Indices: 1458710--1458747 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1458700 CGATATAACA
1458710 GGTA-AAAATATGATAAAACC
1 GGTATAAAA-ATGATAAAACC
*
1458730 GGTATCAAAATGATAAAA
1 GGTATAAAAATGATAAAA
1458748 TCGATATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (20 bp):
GGTATAAAAATGATAAAACC
Found at i:1460805 original size:15 final size:15
Alignment explanation
Indices: 1460785--1460817 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1460775 TGGTTGTATT
*
1460785 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
1460800 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
1460815 GGG
1 GGG
1460818 AAAACATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:1460926 original size:21 final size:21
Alignment explanation
Indices: 1460900--1460964 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1460890 AAGACAATCA
*
1460900 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1460921 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1460942 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1460963 AG
1 AG
1460965 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1461040 original size:33 final size:33
Alignment explanation
Indices: 1460998--1461063 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1460988 AAATAGATGG
*
1460998 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1461031 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1461064 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1461289 original size:15 final size:15
Alignment explanation
Indices: 1461269--1461356 Score: 54
Period size: 15 Copynumber: 5.5 Consensus size: 15
1461259 AGAGGGAGGA
*
1461269 GGAAGAAGAAGTGAT
1 GGAAGAAGAAGAGAT
*
1461284 GGAAGAA-AAGAGGGAGGA
1 GGAAGAAGAAGA--GA--T
1461302 GGAAGAAGAAGAGAT
1 GGAAGAAGAAGAGAT
*
1461317 GGAAGAA-AAGAGGGAGGA
1 GGAAGAAGAAGA--GA--T
*
1461335 GGAAGAATAAGAGAT
1 GGAAGAAGAAGAGAT
1461350 GGAAGAA
1 GGAAGAA
1461357 ATGAGGAGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.12
15 21 0.36
16 4 0.07
17 4 0.07
18 14 0.24
19 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.06
Consensus pattern (15 bp):
GGAAGAAGAAGAGAT
Found at i:1461290 original size:33 final size:33
Alignment explanation
Indices: 1461252--1461372 Score: 199
Period size: 33 Copynumber: 3.7 Consensus size: 33
1461242 AAAATATGAA
*
1461252 GAAGAAAAGAGGGAGGAGGAAGAAGAAGTGATG
1 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
1461285 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
1 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
*
1461318 GAAGAAAAGAGGGAGGAGGAAGAATAAGAGATG
1 GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
*
1461351 GAAGAAATGA-GGAGGAAGGAAG
1 GAAGAAAAGAGGGAGG-AGGAAG
1461373 TCGATGTCAT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
32 5 0.06
33 79 0.94
ACGTcount: A:0.50, C:0.00, G:0.45, T:0.05
Consensus pattern (33 bp):
GAAGAAAAGAGGGAGGAGGAAGAAGAAGAGATG
Found at i:1462335 original size:4 final size:4
Alignment explanation
Indices: 1462326--1462358 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1462316 TAAGAGATTG
1462326 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1462359 AAAGCACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:1463540 original size:200 final size:200
Alignment explanation
Indices: 1463197--1464181 Score: 1645
Period size: 200 Copynumber: 4.9 Consensus size: 200
1463187 AATTTACAAT
* *
1463197 ATGGCAAACATGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
*
1463262 CGAAACCCATAAGTATAATGTAATAGATAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
1463327 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1463392 AATGA
196 AATGA
*
1463397 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
* *
1463462 CGAAACCCATAAGTATAATATAATAGGTAATTTTTCAATCTAACCGGTATAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
1463527 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1463592 AATGA
196 AATGA
*
1463597 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTCTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1463662 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
*
1463727 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTATCGATACTATTGGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1463792 AATGA
196 AATGA
* * *
1463797 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAATGTATCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
* *
1463862 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTATAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
* * * *
1463927 ATGAGATAATAGGTGTA-ATATATGTATCGACACTTTTTAATTTTATGTCGATACTATTGGTCCA
131 ATGAGAGATTAGGTATATA-ATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
1463991 GAATGA
195 GAATGA
* *
1463997 ATGGAAAACAGGGTGCAACCAT-AAGCTGT--TTCCCATATATAAAAAGTGTCGATCCCAGAAAC
1 ATGGCAAACAGGGTGCAACCATAAAG-TGTCGAT-CCATATATAAAAAGTGTCGATCCCAGAAAC
** * **
1464059 ATCGAAACCCATAAGTATAATGTAATAAATAATTTTTCAATCTAACCGGTATAAATATACCAATT
64 ATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTT
*** * * *
1464124 TTATTTTATAATAGGTGTATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
129 TTATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
1464182 ATTTAAATAT
Statistics
Matches: 748, Mismatches: 33, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
198 1 0.00
199 144 0.19
200 603 0.81
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
AATGA
Found at i:1470253 original size:22 final size:22
Alignment explanation
Indices: 1470209--1470253 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1470199 ATTACATAAC
*
1470209 TTTAAAAAAAGTATCGATTCTT
1 TTTAAAAAAAGTATCGATACTT
* *
1470231 TTTACAAAAAGTATCTATACTT
1 TTTAAAAAAAGTATCGATACTT
1470253 T
1 T
1470254 CAACATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGATACTT
Found at i:1470403 original size:92 final size:92
Alignment explanation
Indices: 1470294--1470501 Score: 328
Period size: 93 Copynumber: 2.2 Consensus size: 92
1470284 TCATAATAAA
* * *
1470294 ACTGGTTTTGTCATTTTTTTACTTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGA
1 ACTGGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCGA
* * *
1470359 TACTTTCATTATATCAGGTAAATCGCT
66 TACTTTCAATATATCAGATAAAGCGCT
*
1470386 ACTGGTTTTGTTATTTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCG
1 ACTGGTTTTGTTA-TTTTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCG
1470451 ATACTTTCAATATATCAGATAAAGCGCT
65 ATACTTTCAATATATCAGATAAAGCGCT
1470479 A-TCGGTTTTGTTATTTTTTTACC
1 ACT-GGTTTTGTTATTTTTTTACC
1470502 GGTTTTGTTA
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
92 23 0.21
93 84 0.79
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (92 bp):
ACTGGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCATTTTTATAAAAGGATCGA
TACTTTCAATATATCAGATAAAGCGCT
Found at i:1470506 original size:20 final size:20
Alignment explanation
Indices: 1470481--1470520 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1470471 AAAGCGCTAT
1470481 CGGTTTTGTTATTTTTTTAC
1 CGGTTTTGTTATTTTTTTAC
1470501 CGGTTTTGTTATTTTTTTAC
1 CGGTTTTGTTATTTTTTTAC
1470521 ATGTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.65
Consensus pattern (20 bp):
CGGTTTTGTTATTTTTTTAC
Found at i:1470529 original size:112 final size:113
Alignment explanation
Indices: 1470389--1470617 Score: 379
Period size: 112 Copynumber: 2.0 Consensus size: 113
1470379 AATCGCTACT
*
1470389 GGTTTTGTTATTTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
1 GGTTTTGTTATTTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* * *
1470454 CTTTCAATATATCAGATAAAGCGCTATCGGTTTTGTTATTTTTTTACC
66 CTTTCAATATAGCAGATAAAGCGCTACCGATTTTGTTATTTTTTTACC
* *
1470502 GGTTTTGTTA-TTTTTTTACATGTTATATTGTAACGTATCGATCCTTTTTATAAAATGATCGATA
1 GGTTTTGTTATTTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* *
1470566 CTTTCAATATAGCAGGTAAAGCGTTACCGATTTTGTTATTTTTTTACC
66 CTTTCAATATAGCAGATAAAGCGCTACCGATTTTGTTATTTTTTTACC
1470614 GGTT
1 GGTT
1470618 ATATTGTAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 98 0.91
113 10 0.09
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (113 bp):
GGTTTTGTTATTTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
CTTTCAATATAGCAGATAAAGCGCTACCGATTTTGTTATTTTTTTACC
Found at i:1470568 original size:205 final size:204
Alignment explanation
Indices: 1470216--1470723 Score: 676
Period size: 204 Copynumber: 2.5 Consensus size: 204
1470206 AACTTTAAAA
* * * * * ***
1470216 AAAGTATCGATTCTTTTTACAAAAAGTATCTATACTTTCAACATATCAGGTAAA-TTTTATCGGT
1 AAAGTATCGATCCTTTTTA-TAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTATCGGT
* ** *** * * * *
1470280 TTTGTCATAATAAAACTGGTTTTGTCATTTTTTTACTTGTTATATTGTAAAGTATCTATCATTTT
65 TTTGTTATTTTTTTACCGGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCATTTT
* * * * *
1470345 TATAAAAGGATCGATACTTTCATTATATCAGGTAAATCGCTACTGGTTTTGTTATTTTTTTTACC
130 TATAAAAGGATCGATACTTTCAATATAGCAGGTAAAGCGCTACCGATTTTGTTA-TTTTTTTACC
*
1470410 TGTTATATTGT
194 GGTTATATTGT
*
1470421 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGATAAAGCGCTATCGGTT
1 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTATCGGTT
* *
1470486 TTGTTATTTTTTTACCGGTTTTGTTATTTTTTTACATGTTATATTGTAACGTATCGATCCTTTTT
66 TTGTTATTTTTTTACCGGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCATTTTT
* *
1470551 ATAAAATGATCGATACTTTCAATATAGCAGGTAAAGCGTTACCGATTTTGTTATTTTTTTACCGG
131 ATAAAAGGATCGATACTTTCAATATAGCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTACCGG
1470616 TTATATTGT
196 TTATATTGT
* * * * * *
1470625 AAAATATCGATCATTTTTATAAAAAGATCGATACTTTCAATATATTAGGTAAAGCGCTACCGATT
1 AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTATCGGTT
1470690 TTGTTATTTTTTTACCGGTTTTGTTATTTTTTTA
66 TTGTTATTTTTTTACCGGTTTTGTTATTTTTTTA
1470724 TCGATTTTAC
Statistics
Matches: 266, Mismatches: 36, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
204 141 0.53
205 125 0.47
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (204 bp):
AAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTATCGGTT
TTGTTATTTTTTTACCGGTTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCATTTTT
ATAAAAGGATCGATACTTTCAATATAGCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTACCGG
TTATATTGT
Found at i:1470608 original size:92 final size:92
Alignment explanation
Indices: 1470497--1470709 Score: 327
Period size: 92 Copynumber: 2.3 Consensus size: 92
1470487 TGTTATTTTT
* * ** * *
1470497 TTACCGGTTTTGTTATTTTTTTACATGTTATATTGTAACGTATCGATCCTTTTTATAAAATGATC
1 TTACCGATTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCATTTTTATAAAAAGATC
1470562 GATACTTTCAATATAGCAGGTAAAGCG
66 GATACTTTCAATATAGCAGGTAAAGCG
*
1470589 TTACCGATTTTGTTATTTTTTTACCGGTTATATTGTAAAATATCGATCATTTTTATAAAAAGATC
1 TTACCGATTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCATTTTTATAAAAAGATC
**
1470654 GATACTTTCAATATATTAGGTAAAGCG
66 GATACTTTCAATATAGCAGGTAAAGCG
* *
1470681 CTACCGATTTTGTTATTTTTTTACCGGTT
1 TTACCGATTTTGTTATTTTTTTACAGGTT
1470710 TTGTTATTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 111 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (92 bp):
TTACCGATTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCATTTTTATAAAAAGATC
GATACTTTCAATATAGCAGGTAAAGCG
Found at i:1470711 original size:20 final size:20
Alignment explanation
Indices: 1470682--1470731 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1470672 GGTAAAGCGC
1470682 TACCGATTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
*
1470702 TACCGGTTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
*
1470722 TATCGATTTT
1 TACCGATTTT
1470732 ACCGAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.64
Consensus pattern (20 bp):
TACCGATTTTGTTATTTTTT
Found at i:1470984 original size:10 final size:10
Alignment explanation
Indices: 1470969--1470997 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
1470959 TTCTAATAAT
1470969 AAAATAAAAA
1 AAAATAAAAA
1470979 AAAAT-AAAA
1 AAAATAAAAA
1470988 AAAATAAAAA
1 AAAATAAAAA
1470998 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:1470986 original size:15 final size:15
Alignment explanation
Indices: 1470966--1470999 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1470956 GCTTTCTAAT
1470966 AATAAAATAAAA-AAA
1 AATAAAA-AAAATAAA
1470981 AATAAAAAAAATAAA
1 AATAAAAAAAATAAA
1470996 AATA
1 AATA
1471000 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAAAAAAAATAAA
Found at i:1471195 original size:14 final size:14
Alignment explanation
Indices: 1471176--1471248 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
1471166 TATCTATGTC
1471176 AATATTATTATTAA
1 AATATTATTATTAA
*
1471190 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
1471204 AATTTTATAAATAA
1 AATATTATTATTAA
* * *
1471218 AAAATTATGATTAT
1 AATATTATTATTAA
*
1471232 TATATT-TTATTAA
1 AATATTATTATTAA
1471245 AATA
1 AATA
1471249 AATTTGCAAT
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 11 0.26
14 30 0.71
15 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:1471211 original size:28 final size:28
Alignment explanation
Indices: 1471176--1471248 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
1471166 TATCTATGTC
1471176 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
1471204 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
*
1471232 TATATT-TTATTAAAATA
1 AATATTATTATTAAAATA
1471249 AATTTGCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:1471401 original size:87 final size:87
Alignment explanation
Indices: 1471301--1471542 Score: 367
Period size: 88 Copynumber: 2.8 Consensus size: 87
1471291 GAATATGTCA
* * *
1471301 ATATAAGCGTTACCTATTACATTATATAAGCACTACTTAATATGTTATTGTGTTTGATAATGTTT
1 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1471366 CCAGTAATTAACATATTTTATT
66 CCAGTAATTAACATATTTTATT
* *
1471388 ATATAAGCGTTACCTATTACATTATATAAACGCTAACCTAATATGTTATTGTGCTAGATAATGTT
1 ATATAAGCGTTACCTATTACATTATATAAGCGCT-ACCTAATATGTTATTGTGCTTGATAATGTT
* *
1471453 TCTAGTAATTAACTTATTTTATT
65 TCCAGTAATTAACATATTTTATT
* * * * *
1471476 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTTTACTTGATAATATTT
1 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1471541 CC
66 CC
1471543 GGTTGAATGA
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 59 0.42
88 80 0.58
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
CCAGTAATTAACATATTTTATT
Found at i:1472922 original size:3 final size:3
Alignment explanation
Indices: 1472914--1472947 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1472904 TTGTCATTTA
*
1472914 ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1472948 ATTTACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1472940 original size:17 final size:16
Alignment explanation
Indices: 1472918--1472951 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1472908 CATTTAATTA
*
1472918 TTATTATTATTATTATT
1 TTATTAATATTA-TATT
1472935 TTATTAATATTATATT
1 TTATTAATATTATATT
1472951 T
1 T
1472952 ACATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTAATATTATATT
Found at i:1474606 original size:16 final size:16
Alignment explanation
Indices: 1474587--1474620 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1474577 CAATATACGA
1474587 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
1474603 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
1474619 AT
1 AT
1474621 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:1474692 original size:16 final size:18
Alignment explanation
Indices: 1474660--1474693 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1474650 TATTAATGTA
1474660 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1474678 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1474694 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1475363 original size:130 final size:130
Alignment explanation
Indices: 1475163--1475406 Score: 407
Period size: 130 Copynumber: 1.9 Consensus size: 130
1475153 TTCTTCTAAT
* * *
1475163 TAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGATCCTG
1 TAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATCCTA
* *
1475228 GTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAATAAC
66 ATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAATAAC
* * *
1475293 TAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGATCCTA
1 TAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATCCTA
*
1475358 ATTAAATGATTAGTTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 ATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
1475407 TATATAAATA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 105 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (130 bp):
TAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGATCCTA
ATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAATAAC
Found at i:1475863 original size:35 final size:35
Alignment explanation
Indices: 1475802--1475877 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
1475792 AATTGAATTT
* *
1475802 AATTGAATTATTTTAAAATTTAGGGTTTAGAATGA
1 AATTGAATTATTTGAAAATTTAGGGTTTAAAATGA
* *
1475837 AATTGAATTACTTTGGAAA-TTGGGGTTTAAAATGA
1 AATTGAATTA-TTTGAAAATTTAGGGTTTAAAATGA
1475872 AATTGA
1 AATTGA
1475878 GGACTGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.39
Consensus pattern (35 bp):
AATTGAATTATTTGAAAATTTAGGGTTTAAAATGA
Found at i:1476326 original size:16 final size:17
Alignment explanation
Indices: 1476298--1476343 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1476288 TACTTCTTTG
1476298 TATTTGATATATATATATA
1 TATTT-ATATATATATA-A
*
1476317 TATTTATATATGTATAA
1 TATTTATATATATATAA
1476334 TATTTA-ATAT
1 TATTTATATAT
1476344 TAGATTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 10 0.38
19 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TATTTATATATATATAA
Found at i:1476574 original size:18 final size:19
Alignment explanation
Indices: 1476551--1476586 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1476541 TTTCATTCTA
1476551 TTATTTTA-TTTAGTTTAT
1 TTATTTTATTTTAGTTTAT
1476569 TTATTTTATTTTAGTTTA
1 TTATTTTATTTTAGTTTA
1476587 CAAAATGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTTAGTTTAT
Found at i:1477358 original size:19 final size:19
Alignment explanation
Indices: 1477336--1477382 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1477326 AATTAAAGTC
*
1477336 ATAATTATTTTTTAAAATA
1 ATAATTATTTTTTAAAAAA
*
1477355 ATAATTTAATTTTTAAAAAA
1 ATAA-TTATTTTTTAAAAAA
*
1477375 ATGATTAT
1 ATAATTAT
1477383 GACATGTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATTATTTTTTAAAAAA
Found at i:1484873 original size:22 final size:23
Alignment explanation
Indices: 1484848--1484891 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1484838 AATTAAGTTT
1484848 TAATCTTA-AAA-TAATTTCAAAA
1 TAATCTTACAAAGT-ATTTCAAAA
*
1484870 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAAGTATTTCAAA
1484892 CCATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATCTTACAAAGTATTTCAAAA
Found at i:1490749 original size:20 final size:20
Alignment explanation
Indices: 1490724--1490761 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1490714 TTTTGGTGCA
*
1490724 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
1490744 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
1490762 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:1492945 original size:17 final size:17
Alignment explanation
Indices: 1492912--1492945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1492902 TTGAATATTT
* *
1492912 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
1492929 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
1492946 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:1493363 original size:13 final size:13
Alignment explanation
Indices: 1493345--1493369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1493335 AATGAATTTT
1493345 AAGATTTTCTAAA
1 AAGATTTTCTAAA
1493358 AAGATTTTCTAA
1 AAGATTTTCTAA
1493370 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:1494679 original size:28 final size:28
Alignment explanation
Indices: 1494645--1494710 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
1494635 TATCAATAAC
*
1494645 CATATATTTAACTGAACTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
1494673 CATATATTTAACTAAACTCAAATTCATA
1 CATATATTTAACTAAACTCAAATTCATA
1494701 CA-ATATTTAA
1 CATATATTTAA
1494711 AACATTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 8 0.22
28 29 0.78
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (28 bp):
CATATATTTAACTAAACTCAAATTCATA
Found at i:1494803 original size:3 final size:3
Alignment explanation
Indices: 1494795--1494890 Score: 183
Period size: 3 Copynumber: 32.0 Consensus size: 3
1494785 TTCTAAGTCT
*
1494795 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1494843 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1494891 ACTCTATAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1504470 original size:31 final size:31
Alignment explanation
Indices: 1504435--1504502 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
1504425 TTGTAATACA
* *
1504435 GTCCCCCAATATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTACAATATG
*
1504466 GTCCCCCAACATTTAGTCTGTTTACAATATG
1 GTCCCCCAACATTTAGTCCGTTTACAATATG
*
1504497 ATCCCC
1 GTCCCC
1504503 GACCATTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCGTTTACAATATG
Found at i:1507654 original size:21 final size:21
Alignment explanation
Indices: 1507628--1507668 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1507618 GAAAATTTTG
*
1507628 TACATCGGTGCACTGTAGCAA
1 TACATCGATGCACTGTAGCAA
1507649 TACATCGATGCACTGTAGCA
1 TACATCGATGCACTGTAGCA
1507669 TTGTTCTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TACATCGATGCACTGTAGCAA
Found at i:1520263 original size:21 final size:21
Alignment explanation
Indices: 1520237--1520295 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 21
1520227 TCTGGGCAGA
1520237 GTGCATCGATGCATATTCATT
1 GTGCATCGATGCATATTCATT
1520258 GTGCATCGATGATGCATATTCATT
1 GTGCATC---GATGCATATTCATT
1520282 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1520296 CAAGGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 14 0.40
24 21 0.60
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (21 bp):
GTGCATCGATGCATATTCATT
Found at i:1520276 original size:24 final size:24
Alignment explanation
Indices: 1520244--1520292 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1520234 AGAGTGCATC
1520244 GATGCATATTCATTGTGCATCGAT
1 GATGCATATTCATTGTGCATCGAT
1520268 GATGCATATTCATTGTGCATCGAT
1 GATGCATATTCATTGTGCATCGAT
1520292 G
1 G
1520293 CATCAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (24 bp):
GATGCATATTCATTGTGCATCGAT
Found at i:1521745 original size:31 final size:31
Alignment explanation
Indices: 1521627--1521748 Score: 131
Period size: 31 Copynumber: 3.9 Consensus size: 31
1521617 GTCGAGGGTA
*
1521627 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
1521659 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
**
1521690 TACCTATGTTCTAATGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * *
1521721 TACCTAGGTTCTTCGGAACCTATGGACA
1 TACCTATGTTCTACGGAACATATGGACA
1521749 CTTGCCGAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 49 0.65
32 26 0.35
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:1526230 original size:31 final size:31
Alignment explanation
Indices: 1526143--1526267 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 31
1526133 AGAGTAGAGG
1526143 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
1526174 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTC-TACGGA-ACATATGGACA
*
1526206 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * * *
1526237 GTTTCCCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
1526268 CTTAGCGAGG
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
31 51 0.65
32 27 0.35
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:1529208 original size:12 final size:12
Alignment explanation
Indices: 1529190--1529219 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1529180 ACTTCAAAGA
1529190 CCAGTGACAGTG
1 CCAGTGACAGTG
*
1529202 TCAGTGACAGTG
1 CCAGTGACAGTG
1529214 CCAGTG
1 CCAGTG
1529220 CCATATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.20
Consensus pattern (12 bp):
CCAGTGACAGTG
Found at i:1532912 original size:183 final size:184
Alignment explanation
Indices: 1532584--1532969 Score: 611
Period size: 183 Copynumber: 2.1 Consensus size: 184
1532574 TTTTCTAATT
* *
1532584 TATATAA-A-ATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATAAATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
*
1532647 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * * *
1532712 AGATCTTAAAGTATTAATTGGGTTTTAAATGGTCTGGGTTTAGCCCATATGTTA
131 AGATCTTAAAGTATTAATTGAGTTTTAAATGATCTGAGTTGAGCCCATATGTTA
*
1532766 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATAAATAA
*
1532830 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
* * *
1532894 T-GAATCTTAAATTATTAATTGAGTTTTTAATGATTTGAGTTGAGCCCATATGTTA
130 TAG-ATCTTAAAGTATTAATTGAGTTTTAAATGATCTGAGTTGAGCCCATATGTTA
1532949 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
1532970 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
182 8 0.04
183 116 0.62
184 64 0.34
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
AGATCTTAAAGTATTAATTGAGTTTTAAATGATCTGAGTTGAGCCCATATGTTA
Found at i:1539885 original size:19 final size:18
Alignment explanation
Indices: 1539843--1539896 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
1539833 TTTCCTTTCC
* *
1539843 TTTTATTTATTTATAATC
1 TTTTATTTATTTCTAATA
1539861 TATTTATTTATTTCTGAATA
1 T-TTTATTTATTTCT-AATA
1539881 TTTTATATATATTTCT
1 TTTTAT-T-TATTTCT
1539897 TTCGCATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.57
20 5 0.17
21 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATTTATTTCTAATA
Found at i:1540057 original size:25 final size:22
Alignment explanation
Indices: 1540027--1540078 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
1540017 AGATTAAATC
*
1540027 CAATTTGTTCTTATTTTTATTTTT
1 CAATTTGAT-TTA-TTTTATTTTT
1540051 ACAATTTTGATTTATTTTATTTTT
1 -CAA-TTTGATTTATTTTATTTTT
1540075 CAAT
1 CAAT
1540079 CACAAATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 3 0.12
24 10 0.40
25 6 0.24
26 5 0.20
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (22 bp):
CAATTTGATTTATTTTATTTTT
Found at i:1541197 original size:11 final size:11
Alignment explanation
Indices: 1541181--1541220 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
1541171 AAATTAGATC
1541181 TTTTATTTTAT
1 TTTTATTTTAT
1541192 TTTTATTTTAT
1 TTTTATTTTAT
1541203 TTTTA-TTT-T
1 TTTTATTTTAT
1541212 TTTTATTTT
1 TTTTATTTT
1541221 TAGCTCCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 16 0.57
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1541238 original size:6 final size:6
Alignment explanation
Indices: 1541181--1541212 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1541171 AAATTAGATC
1541181 TTTTA- TTTTAT TTTTA- TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1541213 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:1541239 original size:5 final size:5
Alignment explanation
Indices: 1541181--1541220 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
1541171 AAATTAGATC
1541181 TTTTA TTTTA TTTTTA TTTTA TTTTTA TTTT- TTTTA TTTT
1 TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT
1541221 TAGCTCCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 18 0.56
6 10 0.31
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:1541552 original size:151 final size:151
Alignment explanation
Indices: 1541278--1541579 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
1541268 TTAAAACCCC
1541278 TCTTAAAACCTATGATGAGAAAATAGCACCTAAATTTCATTAACTTGAAATAGCATCGTTTACAA
1 TCTTAAAACCTATGATGAGAAAATAGCACCTAAATTTCATTAACTTGAAATAGCATCGTTTACAA
1541343 TAATAGAAGATAAACATAACAGATAGTCATGCATAAAAGAAATAACAGTGGTGGAATTAGAAGCA
66 TAATAGAAGATAAACATAACAGATAGTCATGCATAAAAGAAATAACAGTGGTGGAATTAGAAGCA
1541408 AAGTTAGCCAGAGTATGCACA
131 AAGTTAGCCAGAGTATGCACA
1541429 TCTTAAAACCTATGATGAGAAAATAGCACCTAAATTTCATTAACTTGAAATAGCATCGTTTACAA
1 TCTTAAAACCTATGATGAGAAAATAGCACCTAAATTTCATTAACTTGAAATAGCATCGTTTACAA
1541494 TAATAGAAGATAAACATAACAGATAGTCATGCATAAAAGAAATAACAGTGGTGGAATTAGAAGCA
66 TAATAGAAGATAAACATAACAGATAGTCATGCATAAAAGAAATAACAGTGGTGGAATTAGAAGCA
1541559 AAGTTAGCCAGAGTATGCACA
131 AAGTTAGCCAGAGTATGCACA
1541580 GCCTAATTTA
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.25
Consensus pattern (151 bp):
TCTTAAAACCTATGATGAGAAAATAGCACCTAAATTTCATTAACTTGAAATAGCATCGTTTACAA
TAATAGAAGATAAACATAACAGATAGTCATGCATAAAAGAAATAACAGTGGTGGAATTAGAAGCA
AAGTTAGCCAGAGTATGCACA
Found at i:1553296 original size:25 final size:25
Alignment explanation
Indices: 1553268--1553319 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1553258 TGATCACTCG
1553268 ATCAATTAATAGATCTTATGAATAT
1 ATCAATTAATAGATCTTATGAATAT
1553293 ATCAATTAATAGATCTTATGAATAT
1 ATCAATTAATAGATCTTATGAATAT
1553318 AT
1 AT
1553320 GCTTTTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (25 bp):
ATCAATTAATAGATCTTATGAATAT
Found at i:1555177 original size:2 final size:2
Alignment explanation
Indices: 1555172--1555208 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1555162 ACACACACAG
1555172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1555209 CAGACACACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1557942 original size:100 final size:100
Alignment explanation
Indices: 1557796--1558001 Score: 412
Period size: 100 Copynumber: 2.1 Consensus size: 100
1557786 GTACTCTATC
1557796 ATTTATGGCTAACTCGCTTTTAACTTTTCTTCATTCATTATTCCTACTGCTATATTTATATGCGT
1 ATTTATGGCTAACTCGCTTTTAACTTTTCTTCATTCATTATTCCTACTGCTATATTTATATGCGT
1557861 TAAATAAATTTCTTATTAATTTATTTCAACTATAT
66 TAAATAAATTTCTTATTAATTTATTTCAACTATAT
1557896 ATTTATGGCTAACTCGCTTTTAACTTTTCTTCATTCATTATTCCTACTGCTATATTTATATGCGT
1 ATTTATGGCTAACTCGCTTTTAACTTTTCTTCATTCATTATTCCTACTGCTATATTTATATGCGT
1557961 TAAATAAATTTCTTATTAATTTATTTCAACTATAT
66 TAAATAAATTTCTTATTAATTTATTTCAACTATAT
1557996 ATTTAT
1 ATTTAT
1558002 ATATAAATAA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 106 1.00
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (100 bp):
ATTTATGGCTAACTCGCTTTTAACTTTTCTTCATTCATTATTCCTACTGCTATATTTATATGCGT
TAAATAAATTTCTTATTAATTTATTTCAACTATAT
Found at i:1558003 original size:47 final size:47
Alignment explanation
Indices: 1557846--1558003 Score: 144
Period size: 47 Copynumber: 3.2 Consensus size: 47
1557836 TTCCTACTGC
1557846 TATATTTATATGCGTTAAATAAATTTCTTATTAATTTATTTCAACTA
1 TATATTTATATGCGTTAAATAAATTTCTTATTAATTTATTTCAACTA
* * * * * *
1557893 TATATTTATGGCTAACT-CGCTT--TTAACTTTTCTTCATTCA-TTATTCCTACTGC
1 TATATTTA----T-A-TGCG-TTAAATAA-ATTTCTT-ATTAATTTATTTCAACT-A
1557946 TATATTTATATGCGTTAAATAAATTTCTTATTAATTTATTTCAACTA
1 TATATTTATATGCGTTAAATAAATTTCTTATTAATTTATTTCAACTA
1557993 TATATTTATAT
1 TATATTTATAT
1558004 ATAAATAAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
47 26 0.31
48 18 0.21
49 4 0.05
51 4 0.05
52 18 0.21
53 15 0.18
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (47 bp):
TATATTTATATGCGTTAAATAAATTTCTTATTAATTTATTTCAACTA
Found at i:1562920 original size:149 final size:150
Alignment explanation
Indices: 1562637--1562935 Score: 591
Period size: 149 Copynumber: 2.0 Consensus size: 150
1562627 AAGATTATCT
1562637 TATATATTAATATTTACTTGGGGAGAGAGATTGATAAGGTTGTCCTTTGAACTGAAAAGATCCAC
1 TATATATTAATATTTACTTGGGGAGAGAGATTGATAAGGTTGTCCTTTGAACTGAAAAGATCCAC
1562702 AATACGTATATCCTTCACCCAATAATATTGTGTTATACTGTTGAAGGTTGATAGTGAGTTTTGTA
66 AATACGTATATCCTTCACCCAATAATATTGTGTTATACTGTTGAAGGTTGATAGTGAGTTTTGTA
1562767 AGATATCAATTTAAGAGAGC
131 AGATATCAATTTAAGAGAGC
1562787 TATATATTAATA-TTACTTGGGGAGAGAGATTGATAAGGTTGTCCTTTGAACTGAAAAGATCCAC
1 TATATATTAATATTTACTTGGGGAGAGAGATTGATAAGGTTGTCCTTTGAACTGAAAAGATCCAC
1562851 AATACGTATATCCTTCACCCAATAATATTGTGTTATACTGTTGAAGGTTGATAGTGAGTTTTGTA
66 AATACGTATATCCTTCACCCAATAATATTGTGTTATACTGTTGAAGGTTGATAGTGAGTTTTGTA
1562916 AGATATCAATTTAAGAGAGC
131 AGATATCAATTTAAGAGAGC
1562936 GGTACCGACA
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
149 137 0.92
150 12 0.08
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (150 bp):
TATATATTAATATTTACTTGGGGAGAGAGATTGATAAGGTTGTCCTTTGAACTGAAAAGATCCAC
AATACGTATATCCTTCACCCAATAATATTGTGTTATACTGTTGAAGGTTGATAGTGAGTTTTGTA
AGATATCAATTTAAGAGAGC
Found at i:1564718 original size:15 final size:15
Alignment explanation
Indices: 1564700--1564732 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1564690 AAATTCTAAA
1564700 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1564715 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1564730 TAT
1 TAT
1564733 ATCTGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1565241 original size:35 final size:35
Alignment explanation
Indices: 1565195--1565275 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
1565185 ATTACAAATC
*
1565195 TCAAAGTTGGTGGAAAAATCAAGTTGCCCCTTGCT
1 TCAAAGTTGGTGGAAAAATCAAGTTACCCCTTGCT
*
1565230 TCAAAGTTGGTGGAAAAATCAAGTTATCCCTTGCT
1 TCAAAGTTGGTGGAAAAATCAAGTTACCCCTTGCT
*
1565265 TCAAAATTGGT
1 TCAAAGTTGGT
1565276 TCGCACTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (35 bp):
TCAAAGTTGGTGGAAAAATCAAGTTACCCCTTGCT
Found at i:1568921 original size:16 final size:16
Alignment explanation
Indices: 1568900--1568931 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1568890 GCAAACGATG
1568900 AATTAAACAAGTAAAA
1 AATTAAACAAGTAAAA
1568916 AATTAAACAAGTAAAA
1 AATTAAACAAGTAAAA
1568932 TATTGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AATTAAACAAGTAAAA
Found at i:1571194 original size:17 final size:17
Alignment explanation
Indices: 1571168--1571202 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1571158 TAACCCAAAT
*
1571168 GAACTTGTCACCTCGAG
1 GAACTGGTCACCTCGAG
1571185 GAACTGGTCACCTCGAG
1 GAACTGGTCACCTCGAG
1571202 G
1 G
1571203 TGACGAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.20
Consensus pattern (17 bp):
GAACTGGTCACCTCGAG
Found at i:1579071 original size:26 final size:28
Alignment explanation
Indices: 1579011--1579072 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
1579001 GAGTATTGAT
*
1579011 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
1579042 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
1579068 GAGCT
1 GAGCT
1579073 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:1579605 original size:41 final size:37
Alignment explanation
Indices: 1579561--1579946 Score: 173
Period size: 40 Copynumber: 9.7 Consensus size: 37
1579551 TAATTTTCGG
1579561 AAAACGATTTTCGAAAATAAGTATATATTATATAGTTTTT
1 AAAAC-ATTTT-GAAAATAA-TATATATTATATAGTTTTT
* * *
1579601 GAAAATATTTTTAAAATATATATATATATAATATATGGTTTT
1 -AAAACATTTTGAAAATA-ATATATAT-T-ATATA-GTTTTT
* * *
1579643 AAAAAATGTTTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACA---TTTTGAAAATA-ATATATATTATATAGTTTTT
* * *
1579684 AAAACATTTTTTGAAAACATTTATATAATATATAGTTTTT
1 AAAACA--TTTTGAAAATA-ATATATATTATATAGTTTTT
1579724 AAAACATTTTGAATATATATATATATATATATATA-TATTATAT
1 AAAACATTTTGAA-A-ATA-ATATATAT-TATATAGT-TT-T-T
* *
1579767 AGTTTTGAAAACATTTTTG-AAACATTTATATATTATATAGTTTTT
1 A-------AAACA-TTTTGAAAATA-ATATATATTATATAGTTTTT
1579812 AAAAAAACATTTTGAAAAT-ATATA-A-TATATAGTTTTTT
1 ---AAAACATTTTGAAAATAATATATATTATATAG-TTTTT
* * * * *
1579850 TAAATATTTTTGAAAA-CATATATAATATATAATTTTT
1 AAAACA-TTTTGAAAATAATATATATTATATAGTTTTT
* *
1579887 AAAATATTTTTG-AAAT-CTATATATTATAT-GTTTTT
1 AAAACA-TTTTGAAAATAATATATATTATATAGTTTTT
* *
1579922 GAAAATATTTTGATAAT-ATAT-TATT
1 -AAAACATTTTGAAAATAATATATATT
1579947 TATTATTATT
Statistics
Matches: 284, Mismatches: 27, Indels: 74
0.74 0.07 0.19
Matches are distributed among these distances:
35 18 0.06
36 40 0.14
37 24 0.08
38 19 0.07
39 18 0.06
40 60 0.21
41 40 0.14
42 11 0.04
43 3 0.01
44 17 0.06
45 1 0.00
46 1 0.00
47 8 0.03
48 12 0.04
49 1 0.00
50 6 0.02
51 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (37 bp):
AAAACATTTTGAAAATAATATATATTATATAGTTTTT
Found at i:1579734 original size:38 final size:39
Alignment explanation
Indices: 1579582--1579901 Score: 237
Period size: 40 Copynumber: 7.9 Consensus size: 39
1579572 CGAAAATAAG
* * * *
1579582 TATATATTATATAGTTTTTGAAAATATTTTT-AAAATATA
1 TATATAATATATAGTTTTT-AAAACATTTTTGAAAACATT
* *
1579621 TATATATATAATATATGGTTTTAAAAAATGTTTTTGAAAACATT
1 TATATA-AT-ATATA-GTTTTTAAAACA--TTTTTGAAAACATT
*
1579665 TATATATTATATAGTTTTTAAAACATTTTTTGAAAACATT
1 TATATAATATATAGTTTTTAAAACA-TTTTTGAAAACATT
*
1579705 TATATAATATATAGTTTTTAAAACA-TTTTGAATATATATATAT
1 TATATAATATATAGTTTTTAAAACATTTTTG-A-A-A-ACAT-T
*
1579748 ATATATATATATATTATATAGTTTTGAAAACATTTTTG-AAACATT
1 -TATATA-ATATA-TA-GT--TTTT-AAAACATTTTTGAAAACATT
*
1579793 TATATATTATATAGTTTTTAAAAAAACA-TTTTG-AAA-A--
1 TATATAATATATAGTTTTT---AAAACATTTTTGAAAACATT
* *
1579830 TATATAATATATAGTTTTTTTAAATATTTTTGAAAACA--
1 TATATAATATATAG-TTTTTAAAACATTTTTGAAAACATT
* *
1579868 TATATAATATATAATTTTTAAAATATTTTTGAAA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAA
1579902 TCTATATATT
Statistics
Matches: 235, Mismatches: 21, Indels: 52
0.76 0.07 0.17
Matches are distributed among these distances:
35 4 0.02
36 5 0.02
37 35 0.15
38 24 0.10
39 12 0.05
40 48 0.20
41 28 0.12
42 15 0.06
43 11 0.05
44 24 0.10
45 6 0.03
46 5 0.02
47 2 0.01
48 1 0.00
49 4 0.02
50 6 0.03
51 5 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (39 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAACATT
Found at i:1579743 original size:2 final size:2
Alignment explanation
Indices: 1579736--1579767 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1579726 AACATTTTGA
1579736 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1579768 GTTTTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1579761 original size:90 final size:88
Alignment explanation
Indices: 1579665--1579842 Score: 277
Period size: 90 Copynumber: 2.0 Consensus size: 88
1579655 TGAAAACATT
*
1579665 TATATATTATATAGTTTTTAAAACATTTTTTGAAAACATTTATATAATATATAGTTTTT-AAAAC
1 TATATATTATATAGTTTTGAAAACA-TTTTTG-AAACATTTATATAATATATAGTTTTTAAAAAC
*
1579729 ATTTTGAATATATATATATATATATA
64 ATTTTGAAAATATATA-ATATATATA
*
1579755 TATATATTATATAGTTTTGAAAACATTTTTGAAACATTTATATATTATATAGTTTTTAAAAAAAC
1 TATATATTATATAGTTTTGAAAACATTTTTGAAACATTTATATAATATATAGTTTTT--AAAAAC
1579820 ATTTTGAAAATATATAATATATA
64 ATTTTGAAAATATATAATATATA
1579843 GTTTTTTTAA
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
88 25 0.30
89 6 0.07
90 31 0.38
91 20 0.24
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (88 bp):
TATATATTATATAGTTTTGAAAACATTTTTGAAACATTTATATAATATATAGTTTTTAAAAACAT
TTTGAAAATATATAATATATATA
Found at i:1579778 original size:50 final size:49
Alignment explanation
Indices: 1579705--1579805 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 49
1579695 TGAAAACATT
* *
1579705 TATATAATATATAGTTTTTAAAACA-TTTTGAATATATATATATATATATA
1 TATATAATATATAGTTTTGAAAACATTTTTGAA-ACATATATATAT-TATA
* *
1579755 TATATATTATATAGTTTTGAAAACATTTTTGAAACATTTATATATTATA
1 TATATAATATATAGTTTTGAAAACATTTTTGAAACATATATATATTATA
1579804 TA
1 TA
1579806 GTTTTTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 6 0.13
50 33 0.72
51 7 0.15
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (49 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAACATATATATATTATA
Found at i:1579798 original size:128 final size:128
Alignment explanation
Indices: 1579616--1579880 Score: 344
Period size: 128 Copynumber: 2.1 Consensus size: 128
1579606 TATTTTTAAA
*
1579616 ATATATATATATATAATATATGGTTTTAAAAAATGTTTTTGAAAACATTTATATATTATATAGTT
1 ATATATATATATATAATATATAGTTTTAAAAAA-GTTTTTGAAAACATTTATATATTATATAGTT
* ** * *
1579681 TTT-AAAACATTTTTTGAAAACATTTATATAATATATAG-TTTTTAAAACA-TTTTGAATATATA
65 TTTAAAAAAACATTTTG-AAA-A--TATATAATATATAGTTTTTTAAAACATTTTTGAAAACATA
1579743 TAT
126 TAT
* *
1579746 ATATATATATATATATTATATAGTTTTGAAAACA-TTTTTG-AAACATTTATATATTATATAGTT
1 ATATATATATATATAATATATAGTTTT-AAAAAAGTTTTTGAAAACATTTATATATTATATAGTT
* *
1579809 TTTAAAAAAACATTTTGAAAATATATAATATATAGTTTTTTTAAATATTTTTGAAAACATATAT
65 TTTAAAAAAACATTTTGAAAATATATAATATATAGTTTTTTAAAACATTTTTGAAAACATATAT
1579873 A-ATATATA
1 ATATATATA
1579881 ATTTTTAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
125 14 0.12
126 16 0.13
127 16 0.13
128 29 0.24
129 16 0.13
130 25 0.21
131 5 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (128 bp):
ATATATATATATATAATATATAGTTTTAAAAAAGTTTTTGAAAACATTTATATATTATATAGTTT
TTAAAAAAACATTTTGAAAATATATAATATATAGTTTTTTAAAACATTTTTGAAAACATATAT
Found at i:1579861 original size:88 final size:89
Alignment explanation
Indices: 1579665--1579868 Score: 258
Period size: 88 Copynumber: 2.3 Consensus size: 89
1579655 TGAAAACATT
*
1579665 TATATATTATATAGTTTTT-AAAACATTTTTTGAAAACATTTATATAATATATAGTTTTTAAAAC
1 TATATATTAAATA-TTTTTGAAAACA-TTTTTGAAAACATTTATATAATATATAGTTTTTAAAAC
1579729 ATTTTGAATATATATATATATATATA
64 ATTTTGAATATATATATATATATATA
* * *
1579755 TATATATTATATAGTTTTGAAAACATTTTTG-AAACATTTATATATTATATAGTTTTTAAAAAAA
1 TATATATTAAATATTTTTGAAAACATTTTTGAAAACATTTATATAATATATAGTTTTT---AAAA
1579819 CATTTTGAA-A-ATATATA-ATATATA
63 CATTTTGAATATATATATATATATATA
* *
1579843 GT-TTTTTTAAATATTTTTGAAAACAT
1 -TATATATTAAATATTTTTGAAAACAT
1579869 ATATAATATA
Statistics
Matches: 103, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
88 52 0.50
89 18 0.17
90 20 0.19
91 13 0.13
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (89 bp):
TATATATTAAATATTTTTGAAAACATTTTTGAAAACATTTATATAATATATAGTTTTTAAAACAT
TTTGAATATATATATATATATATA
Found at i:1579871 original size:36 final size:37
Alignment explanation
Indices: 1579755--1579932 Score: 175
Period size: 37 Copynumber: 4.8 Consensus size: 37
1579745 TATATATATA
* * * *
1579755 TATATATTATATAG-TTTTGAAAACATTTTTGAAACATT
1 TATATAATATATAGTTTTTTAAAATATTTTTGAAA-A-C
* * * *
1579793 TATATATTATATAGTTTTTAAAAAAACATTTTGAAAA-
1 TATATAATATATAGTTTTTTAAAATA-TTTTTGAAAAC
*
1579830 TATATAATATATAGTTTTTTTAAATATTTTTGAAAAC
1 TATATAATATATAGTTTTTTAAAATATTTTTGAAAAC
* *
1579867 ATATATAATATATA-ATTTTTAAAATATTTTTGAAATC
1 -TATATAATATATAGTTTTTTAAAATATTTTTGAAAAC
* *
1579904 TATATATTATAT-GTTTTTGAAAATATTTT
1 TATATAATATATAGTTTTTTAAAATATTTT
1579933 GATAATATAT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
36 34 0.28
37 42 0.35
38 27 0.22
39 10 0.08
40 8 0.07
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (37 bp):
TATATAATATATAGTTTTTTAAAATATTTTTGAAAAC
Found at i:1579909 original size:38 final size:37
Alignment explanation
Indices: 1579753--1579932 Score: 174
Period size: 38 Copynumber: 4.8 Consensus size: 37
1579743 TATATATATA
* * *
1579753 TATATATATTATATAGTTTTGAAAACATTTTTGAAAC
1 TATATATAATATATAGTTTTTAAAATATTTTTGAAAC
* * * *
1579790 ATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAA-
1 -TATATATAATATATAGTTTTT-AAAATA-TTTTTGAAAC
*
1579829 -ATATATAATATATAGTTTTTTTAAATATTTTTGAAAAC
1 TATATATAATATATAG-TTTTTAAAATATTTTTG-AAAC
*
1579867 -ATATATAATATATAATTTTTAAAATATTTTTGAAATC
1 TATATATAATATATAGTTTTTAAAATATTTTTGAAA-C
1579904 TATATAT--TATAT-GTTTTTGAAAATATTTT
1 TATATATAATATATAGTTTTT-AAAATATTTT
1579933 GATAATATAT
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
35 5 0.04
36 23 0.19
37 37 0.30
38 44 0.36
39 5 0.04
40 8 0.07
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (37 bp):
TATATATAATATATAGTTTTTAAAATATTTTTGAAAC
Found at i:1579952 original size:3 final size:3
Alignment explanation
Indices: 1579940--1579981 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
1579930 TTTGATAATA
*
1579940 TAT TATT TAT TAT TAT TAT TTT TATT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
1579982 CGGTGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1579966 original size:19 final size:19
Alignment explanation
Indices: 1579942--1579978 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1579932 TGATAATATA
1579942 TTATTTATTATTATTATTT
1 TTATTTATTATTATTATTT
1579961 TTATTTATTATTATTATT
1 TTATTTATTATTATTATT
1579979 ATTCGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTATTATTATTATTT
Found at i:1581142 original size:3 final size:3
Alignment explanation
Indices: 1581134--1581170 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1581124 GGTTTTTACT
* *
1581134 TTA TTA TTA TTA TTA TTT TTA TTA GTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1581171 CCCCTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1581156 original size:18 final size:18
Alignment explanation
Indices: 1581133--1581168 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1581123 TGGTTTTTAC
*
1581133 TTTATTATTATTATTATT
1 TTTATTAGTATTATTATT
1581151 TTTATTAGTATTATTATT
1 TTTATTAGTATTATTATT
1581169 ATCCCCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATTAGTATTATTATT
Found at i:1581266 original size:10 final size:10
Alignment explanation
Indices: 1581223--1581273 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
1581213 TTATGGCATA
1581223 TATT-TTTTT
1 TATTATTTTT
1581232 CTATT-TTTTT
1 -TATTATTTTT
*
1581242 GACTTATTATTT
1 TA-TTATT-TTT
1581254 TATTATTTTT
1 TATTATTTTT
1581264 TATTATTTTT
1 TATTATTTTT
1581274 CTCTTTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 1 0.03
10 24 0.67
11 7 0.19
12 4 0.11
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (10 bp):
TATTATTTTT
Found at i:1581392 original size:4 final size:4
Alignment explanation
Indices: 1581376--1581450 Score: 57
Period size: 4 Copynumber: 18.8 Consensus size: 4
1581366 ATGTTAGTAT
* * * *
1581376 TTTA TTTA GTTA TTTA TCTA TTTA TTTA -TTA TTTA TTT- TTTC TTGGA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA
*
1581423 TTTA TTTA -ATA TTTAA TTTA TTATA TTT
1 TTTA TTTA TTTA TTT-A TTTA TT-TA TTT
1581451 TATCTAACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
3 8 0.14
4 38 0.68
5 10 0.18
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:1581410 original size:11 final size:12
Alignment explanation
Indices: 1581385--1581413 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1581375 TTTTATTTAG
1581385 TTATTTATCTAT
1 TTATTTATCTAT
1581397 TTATTTAT-TAT
1 TTATTTATCTAT
1581408 TTATTT
1 TTATTT
1581414 TTTCTTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATCTAT
Found at i:1581974 original size:18 final size:18
Alignment explanation
Indices: 1581942--1581976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1581932 GTACTGACAT
*
1581942 TTTTTCAATGATTTCATA
1 TTTTTCAAAGATTTCATA
*
1581960 TTTTTCAAAGTTTTCAT
1 TTTTTCAAAGATTTCAT
1581977 CTCTAGCTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTCAAAGATTTCATA
Found at i:1587202 original size:332 final size:333
Alignment explanation
Indices: 1586614--1587357 Score: 1078
Period size: 332 Copynumber: 2.2 Consensus size: 333
1586604 TCTATCAGCC
* * * * * * * *
1586614 AAGACCTTCGAGTTCAACTATGCTCAACTCCAAGGCATATCATTTGCAGTATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTGCAGCATAACTCAAGGCAAG
*
1586679 AAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
1586744 CAGCATAGCTTAAGTCAAGAAGGACTATCTGCCAAAGACCCTCGAGTTTAATTACACTCAGCTTC
131 CAGCATAGCTTAAGTCAAGAAGGACTATCTGCCAAAGACCCTCGAATTCAATTACACTCAGCTTC
* *** *
1586809 GAGGGTGCATTATTTACAAAATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGA
196 AAGGACACATCATTTACAAAATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGA
* * *
1586874 GTTTGACTATGCTCAGCTCCAAGGCATATCATTTATAACATAACTTAAGTCGAGAAGGGTTATCT
261 GTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCT
1586939 GCCAACCA
326 GCCAACCA
* * * *
1586947 AAGACCGTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTGCAGCATAACTCAAGGCAAG
* *
1587012 AAGGGTTATCTGCCAA-CAATGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * *
1587076 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAATTCAATTACATTCAGCTTC
131 CAGCATAGCTTAAGTCAAGAAGGACTATCTGCCAAAGACCCTCGAATTCAATTACACTCAGCTTC
*
1587141 AAGGACACATCATTTACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGA
196 AAGGACACATCATTTACAAAATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGA
* * *
1587206 GTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT
261 GTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCT
*
1587271 GCCAACCG
326 GCCAACCA
* * * * * * *
1587279 AATACTTTTGAGTTCGATTACACTCAGCT-CAGAGGCAAACCAAATTTACAGCATAACTCAAGGC
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGCAAATC--ATTTGCAGCATAACTCAAGGC
*
1587343 AAGAAGGGCTATCTG
63 AAGAAGGGTTATCTG
1587358 TCAAAAAAAT
Statistics
Matches: 365, Mismatches: 43, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
331 2 0.01
332 260 0.71
333 70 0.19
334 33 0.09
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (333 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATCATTTGCAGCATAACTCAAGGCAAG
AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCAAGAAGGACTATCTGCCAAAGACCCTCGAATTCAATTACACTCAGCTTC
AAGGACACATCATTTACAAAATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGA
GTTTGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTTAAGTCGAGAAGGGTTATCT
GCCAACCA
Found at i:1587239 original size:165 final size:163
Alignment explanation
Indices: 1586605--1587360 Score: 825
Period size: 165 Copynumber: 4.6 Consensus size: 163
1586595 CAAGGGTTGT
* * * ** * * * * *
1586605 CTATCAGCC-AAGACCTTCGAGTTCAACTATGCTCAACTCCAAGGCATATCATTTGCAGTATAAC
1 CTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCAAGGCACATCATTTACAATATAAC
* * *
1586669 TTAAGTCGAGAAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
66 TCAAGGCTAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* *
1586733 CACATCATTTGCAGCATAGCTTAAGTCAAGAAGGA
129 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* * ** * *
1586768 CTATCTGCCAAAGACCCTCGAGTTTAATTACACTCAGCTTCGAGGGTGCATTATTTACAAAATAA
1 CTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTC-AAGGCACATCATTTACAATATAA
* *
1586833 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGG
65 CTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* ** * *
1586898 CATATCATTTATAACATAACTTAAGTCGAGAAGGG
129 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* * * * * * * * **
1586933 TTATCTGCCAACCAAAGACCGTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCA
1 CTATCTG----CCAAAGACCCTCGAGTTCAATTACACTCAGCTTCAAGGCACATCATTTACAATA
* * * *
1586998 TAACTCAAGGCTAGAAGGGTTATCTGCCAACAATGACCTTCGAGTTCGACTATGCTCAGCTCCAA
62 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
1587063 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
127 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* *
1587100 CTATCTGCCAAAGACCCTCGAATTCAATTACATTCAGCTTCAAGGACACATCATTTACAATATAA
1 CTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCAAGG-CACATCATTTACAATATAA
*
1587165 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGG
65 CTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1587230 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
129 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
* * ** * * * *
1587265 TTATCTGCCAACCGAATACTTTTGAGTTCGATTACACTCAGC-TCAGAGGCAAACCAAATTTACA
1 CTATCTGCC-A---AAGACCCTCGAGTTCAATTACACTCAGCTTCA-AGGCACATC--ATTTACA
** * *
1587329 GCATAACTCAAGGCAAGAAGGGCTATCTGTCA
59 ATATAACTCAAGGCTAGAAGGGTTATCTGTCA
1587361 AAAAAATTGT
Statistics
Matches: 495, Mismatches: 81, Indels: 27
0.82 0.13 0.04
Matches are distributed among these distances:
163 39 0.08
164 68 0.14
165 179 0.36
166 2 0.00
167 70 0.14
168 50 0.10
169 52 0.11
170 35 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (163 bp):
CTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCAAGGCACATCATTTACAATATAAC
TCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
CATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
Found at i:1587271 original size:84 final size:83
Alignment explanation
Indices: 1586596--1587360 Score: 693
Period size: 84 Copynumber: 9.2 Consensus size: 83
1586586 AATATAACTC
* * * * * *
1586596 AAGGGTTGTCTATCAGCC-AAGACCTTCGAGTTCAACTATGCTCAACTCCAAGGCATATCATTTG
1 AAGGGTTATCTGTCA-CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
1586660 CAGTATAACTTAAGTCGAG
65 CAGCATAACTTAAGTCGAG
1586679 AAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
1586743 GCAGCATAGCTTAAGTCAAG
64 GCAGCATAACTTAAGTCGAG
** * ** * * * * ** * *
1586763 AAGGACTATCTG---CCAAAGACCCTCGAGTTTAATTACACTCAGCTTCGAGGGTGCATTATTTA
1 AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
** * * *
1586825 CAAAATAACTCAAGGCTAG
65 CAGCATAACTTAAGTCGAG
* * * *
1586844 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCATTTA
1 AAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
1586909 TAACATAACTTAAGTCGAG
65 CAGCATAACTTAAGTCGAG
* * *
1586928 AAGGGTTATCTGCCAACCAAAGACCGTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTG
1 AAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * *
1586993 CAGCATAACTCAAGGCTAG
65 CAGCATAACTTAAGTCGAG
* * * *
1587012 AAGGGTTATCTGCCAACAATGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGC
1 AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
*
1587077 AGCATAGCTTAAGTCGAG
66 AGCATAACTTAAGTCGAG
* * * * * ** * *
1587095 AAGGGCTATCTG---CCAAAGACCCTCGAATTCAATTACATTCAGCTTCAAGGACACATCATTTA
1 AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG-CACATCATTTG
** * * *
1587157 CAATATAACTCAAGGCTAG
65 CAGCATAACTTAAGTCGAG
*
1587176 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTG
1 AAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
1587241 CAGCATAGCTTAAGTCGAG
65 CAGCATAACTTAAGTCGAG
* * * * * * * * *
1587260 AAGGGTTATCTGCCAACCGAATACTTTTGAGTTCGATTACACTCAGCT-CAGAGGCAAACCAAAT
1 AAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGCACATC--AT
* * * *
1587324 TTACAGCATAACTCAAGGCAAG
62 TTGCAGCATAACTTAAGTCGAG
*
1587346 AAGGGCTATCTGTCA
1 AAGGGTTATCTGTCA
1587361 AAAAAATTGT
Statistics
Matches: 546, Mismatches: 117, Indels: 36
0.78 0.17 0.05
Matches are distributed among these distances:
80 54 0.10
81 69 0.13
82 1 0.00
83 86 0.16
84 246 0.45
85 59 0.11
86 31 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (83 bp):
AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCGAG
Found at i:1588105 original size:41 final size:39
Alignment explanation
Indices: 1587998--1588325 Score: 255
Period size: 39 Copynumber: 8.7 Consensus size: 39
1587988 CGAAAATAAG
* *
1587998 TATATATTATATAGTTTTTGAAAACATTTTT-AATATATA
1 TATATATTATATAGTTTTT-AAAACATTTTTGAAAACATA
* * * *** *
1588037 TATATAATATATGGTTTTGAAATTTTTTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
* *
1588076 TATATATTATATAGTTTTTAAATCATTTTTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAACA--TTTTTGAAAACATA
*
1588117 TATATAATATATAGTTTTTAAAACA-TTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
* * * *
1588155 TATATA-TATATA----TT-ATATAGTTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
1588188 TATATATTATATAGTTTTTAAAAAAACA-TTTTG-AAA-ATA
1 TATATATTATATAGTTTTT---AAAACATTTTTGAAAACATA
* * *
1588227 TATA-A-CATATAGTTTTTTAAATATTTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
* *
1588264 TATA-A-TATATAATTTTTAAAATATTTTT-AAAAC---
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
*
1588297 TATATATTATAT-GTTTTTGAAAATATTTT
1 TATATATTATATAGTTTTT-AAAACATTTT
1588326 GATAATATAT
Statistics
Matches: 240, Mismatches: 30, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
32 3 0.01
33 24 0.10
34 16 0.07
35 20 0.08
36 8 0.03
37 45 0.19
38 29 0.12
39 47 0.20
40 3 0.01
41 42 0.17
42 3 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (39 bp):
TATATATTATATAGTTTTTAAAACATTTTTGAAAACATA
Found at i:1588155 original size:27 final size:28
Alignment explanation
Indices: 1588103--1588156 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
1588093 TTAAATCATT
* *
1588103 TTTTTGAAAACATTTATATAATATATAG
1 TTTTTGAAAACATTTATAAAACATATAG
1588131 TTTTT-AAAACATTT-TGAAAACATATA
1 TTTTTGAAAACATTTAT-AAAACATATA
1588157 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.04
27 17 0.74
28 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (28 bp):
TTTTTGAAAACATTTATAAAACATATAG
Found at i:1588196 original size:112 final size:108
Alignment explanation
Indices: 1588063--1588274 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 108
1588053 TTGAAATTTT
** *** *
1588063 TTTTGAAAACATTTATATATTATATAGTTTTTAAATCATTTTTTTGAAAACATTTATATAATATA
1 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAAAACATTTTG-AAA-A--TATATAACATA
1588128 TAGTTTTTAAAACA-TTTTGAAAACATATATATATATATATTATATAG
62 TAGTTTTTAAAACATTTTTGAAAACATATATA-ATATATATTATATAG
1588175 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAATATATAACATATAGT
1 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAATATATAACATATAGT
* *
1588240 TTTTTAAATATTTTTGAAAACATATATAATATATA
66 TTTTAAAACATTTTTGAAAACATATATAATATATA
1588275 ATTTTTAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
108 29 0.32
109 17 0.19
110 1 0.01
111 3 0.03
112 41 0.45
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (108 bp):
TTTTGAAAACATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAATATATAACATATAGT
TTTTAAAACATTTTTGAAAACATATATAATATATATTATATAG
Found at i:1588212 original size:29 final size:28
Alignment explanation
Indices: 1588161--1588218 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 28
1588151 CATATATATA
*
1588161 TATATATTATATAGTTTT-GAAAACATT
1 TATATATTATATAGTTTTAAAAAACATT
1588188 TATATATTATATAGTTTTTAAAAAAACATT
1 TATATATTATATAG-TTTT-AAAAAACATT
1588218 T
1 T
1588219 TGAAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 4 0.15
30 9 0.33
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (28 bp):
TATATATTATATAGTTTTAAAAAACATT
Found at i:1588255 original size:35 final size:35
Alignment explanation
Indices: 1587998--1588335 Score: 204
Period size: 37 Copynumber: 9.1 Consensus size: 35
1587988 CGAAAATAAG
* * *
1587998 TATATATTATATAGTTTTTGAAAACATTTTTAATATATA
1 TATATAATATATAGTTTTT-AAAATATTTTTGA-A-A-A
* * * *
1588037 TATATAATATATGGTTTTGAAATTTTTTTTGAAAACA
1 TATATAATATATAGTTTTTAAAATATTTTTG-AAA-A
* *
1588074 TTTATATATTATATAGTTTTTAAATCATTTTTTTGAAAACA
1 --TATATAATATATAGTTTTTAAA--ATATTTTTG-AAA-A
*
1588115 TTTATATAATATATAGTTTTTAAAACA-TTTTGAAAA
1 --TATATAATATATAGTTTTTAAAATATTTTTGAAAA
* * * *
1588151 CATAT-ATATATA-TATATT-ATATAGTTTTGAAAACA
1 TATATAATATATAGT-TTTTAAAATATTTTTG-AAA-A
* * *
1588186 TTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAA
1 --TATATAATATATAGTTTTT-AAAATA-TTTTTGAAAA
* *
1588225 TATATAACATATAGTTTTTTAAATATTTTTGAAAACA
1 TATATAATATATAGTTTTTAAAATATTTTTG-AAA-A
*
1588262 TATATAATATATAATTTTTAAAATATTTTT-AAAA
1 TATATAATATATAGTTTTTAAAATATTTTTGAAAA
* *
1588296 CTATATATTATAT-GTTTTTGAAAATA-TTTTGATAA
1 -TATATAATATATAGTTTTT-AAAATATTTTTGAAAA
1588331 TATAT
1 TATAT
1588336 TATTTATTAT
Statistics
Matches: 242, Mismatches: 36, Indels: 47
0.74 0.11 0.14
Matches are distributed among these distances:
32 4 0.02
33 15 0.06
34 22 0.09
35 29 0.12
36 8 0.03
37 54 0.22
38 23 0.10
39 39 0.16
40 6 0.02
41 42 0.17
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAATATTTTTGAAAA
Found at i:1588345 original size:3 final size:3
Alignment explanation
Indices: 1588333--1588380 Score: 69
Period size: 3 Copynumber: 15.3 Consensus size: 3
1588323 TTTGATAATA
*
1588333 TAT TATT TAT TAT TAT TAT TTT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
1588380 T
1 T
1588381 TCTTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1588359 original size:19 final size:19
Alignment explanation
Indices: 1588333--1588377 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1588323 TTTGATAATA
1588333 TATTATTTATTATTATTAT
1 TATTATTTATTATTATTAT
*
1588352 TTTTATTTATTATTATTAT
1 TATTATTTATTATTATTAT
1588371 TATTATT
1 TATTATT
1588378 ATTTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:1588392 original size:19 final size:19
Alignment explanation
Indices: 1588333--1588393 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
1588323 TTTGATAATA
* *
1588333 TATTATTTATTATTATTAT
1 TATTATTTATTTTTTTTAT
*
1588352 TTTTATTTATTATTATTATTAT
1 TATTATTTATT-TT-TT-TTAT
*
1588374 TATTATTTCTTTTTTTTAT
1 TATTATTTATTTTTTTTAT
1588393 T
1 T
1588394 CTGAGTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 15 0.44
20 3 0.09
21 3 0.09
22 13 0.38
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTATTTATTTTTTTTAT
Found at i:1588393 original size:22 final size:22
Alignment explanation
Indices: 1588339--1588381 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1588329 AATATATTAT
*
1588339 TTATTATTATTATTTTTATTTA
1 TTATTATTATTATTATTATTTA
1588361 TTATTATTATTATTATTATTT
1 TTATTATTATTATTATTATTT
1588382 CTTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTATTATTATTATTATTTA
Found at i:1594651 original size:21 final size:21
Alignment explanation
Indices: 1594598--1594657 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
1594588 TTTAGTGCAG
1594598 AGGGAATCGATACCCCCTTGA
1 AGGGAATCGATACCCCCTTGA
* *
1594619 AGGGGAACCGATTCCCTCCTT-A
1 A-GGGAATCGATACCC-CCTTGA
1594641 AGGGAATCGATACCCCC
1 AGGGAATCGATACCCCC
1594658 CATGGGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 2 0.06
21 13 0.39
22 14 0.42
23 4 0.12
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (21 bp):
AGGGAATCGATACCCCCTTGA
Found at i:1595119 original size:12 final size:12
Alignment explanation
Indices: 1595102--1595134 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1595092 TCAAACATTA
1595102 TTTTTCAAATAG
1 TTTTTCAAATAG
1595114 TTTTTCAAATAG
1 TTTTTCAAATAG
1595126 TTTTTCAAA
1 TTTTTCAAA
1595135 ACATTGCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (12 bp):
TTTTTCAAATAG
Found at i:1596597 original size:13 final size:13
Alignment explanation
Indices: 1596562--1596599 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1596552 AATGAATTTT
*
1596562 AAGATTTTCCAAA
1 AAGATTTTCTAAA
1596575 AAGATTTTCTAAA
1 AAGATTTTCTAAA
1596588 AAGATTTTCTAA
1 AAGATTTTCTAA
1596600 CTATATTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:1598161 original size:3 final size:3
Alignment explanation
Indices: 1598153--1598178 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1598143 GGTTTTTACT
1598153 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1598179 TTCCCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1598391 original size:4 final size:4
Alignment explanation
Indices: 1598375--1598459 Score: 61
Period size: 4 Copynumber: 22.2 Consensus size: 4
1598365 ATGTTAGTAT
* * * *
1598375 TTTA TTTA GTTA TTTA TCTA TCTA TTTA TTTA ATTA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * ** *
1598422 TTT- TTTG TTTG TTT- TGGA TTTA TTTA -ATA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1598460 ATTTTATCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
3 9 0.14
4 56 0.86
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:1607535 original size:35 final size:36
Alignment explanation
Indices: 1607469--1607539 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
1607459 AGCATCTATG
*
1607469 ATACCATCTATTGTATGCCACATGGAAGAAAAATAC
1 ATACCATCTACTGTATGCCACATGGAAGAAAAATAC
* *
1607505 ATACCTTCTACTGTATG-CTCATGGAAGAAAAATAC
1 ATACCATCTACTGTATGCCACATGGAAGAAAAATAC
1607540 TATGTAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 17 0.53
36 15 0.47
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (36 bp):
ATACCATCTACTGTATGCCACATGGAAGAAAAATAC
Found at i:1613587 original size:29 final size:29
Alignment explanation
Indices: 1613545--1613603 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1613535 TCCAAAAAAA
1613545 TACCAAATTTTGGGCGAGTTTAATATTCT
1 TACCAAATTTTGGGCGAGTTTAATATTCT
1613574 TACCAAATTTTGGGCGAGTTTAATATTCT
1 TACCAAATTTTGGGCGAGTTTAATATTCT
1613603 T
1 T
1613604 TGTATACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (29 bp):
TACCAAATTTTGGGCGAGTTTAATATTCT
Found at i:1616521 original size:20 final size:20
Alignment explanation
Indices: 1616481--1616521 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1616471 TTTGATCATG
*
1616481 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
1616501 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
1616521 A
1 A
1616522 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:1620921 original size:14 final size:15
Alignment explanation
Indices: 1620902--1620932 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1620892 AACTCTTGCA
1620902 ATTCTTT-TGGAGCC
1 ATTCTTTATGGAGCC
1620916 ATTCTTTATGGAGCC
1 ATTCTTTATGGAGCC
1620931 AT
1 AT
1620933 GGCAAAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (15 bp):
ATTCTTTATGGAGCC
Found at i:1623344 original size:18 final size:20
Alignment explanation
Indices: 1623306--1623346 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
1623296 TTTGATCATG
*
1623306 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
1623326 ATATTTC-ATATG-ATATAT
1 ATATTTCAATATGCATATAT
1623344 ATA
1 ATA
1623347 ACCAAGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:1626302 original size:14 final size:14
Alignment explanation
Indices: 1626283--1626309 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1626273 CTGAAAGAAC
1626283 ATGTCATCTCGAAA
1 ATGTCATCTCGAAA
1626297 ATGTCATCTCGAA
1 ATGTCATCTCGAA
1626310 TCCTTGCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTCATCTCGAAA
Found at i:1633225 original size:14 final size:15
Alignment explanation
Indices: 1633198--1633226 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1633188 ATCACAATCG
1633198 CGCAGGATTCCGGGA
1 CGCAGGATTCCGGGA
1633213 CGCAGGA-TCCGGGA
1 CGCAGGATTCCGGGA
1633227 GCACGTGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (15 bp):
CGCAGGATTCCGGGA
Found at i:1636969 original size:206 final size:205
Alignment explanation
Indices: 1636615--1637025 Score: 765
Period size: 206 Copynumber: 2.0 Consensus size: 205
1636605 ACTGAAATTT
1636615 GGGAAACCTTTTAAGGTGTTGGCAGGAACGAAGCCGAAGCAGTGGGATTTGGCATTGCCTCAGGC
1 GGGAAACCTTTTAAGGTGTTGGCAGGAACGAAGCCGAAGCAGTGGGATTTGGCATTGCCTCAGGC
1636680 AGAATTTGCCTACAACAGATCAAAAAACACGAACCACAGGTTTAAGCCCATTGAGATTGTCTATG
66 AGAATTTGCCTACAACAGATCAAAAAACACGAACCACAGGTTTAAGCCCATTGAGATTGTCTATG
1636745 GTCAGAACCCATCCGGGGTGTTGGACTTAGCCCCT-TCCACGTATAGGACGTTTCAGTCCTAAAG
131 GTCAGAACCCATCCGGGGTGTTGGACTTAGCCCCTATCCACGTATAGGACGTTTCAG--CTAAAG
1636809 CAGATGAGATGG
194 CAGATGAGATGG
1636821 GGGAAACCTTTTAAGGTGTTTGGCAGGAACGAAGCCGAAGCAGTGGGATTTGGCATTGCCTCA-G
1 GGGAAACCTTTTAAGGTG-TTGGCAGGAACGAAGCCGAAGCAGTGGGATTTGGCATTGCCTCAGG
1636885 CAGAATTTGCCTACAACAGATCAAAAAACA-GAACCACAGGTTTAAGCCCATTTGAGATTGTCTA
65 CAGAATTTGCCTACAACAGATCAAAAAACACGAACCACAGGTTTAAGCCCA-TTGAGATTGTCTA
1636949 TGGTCAGAACCCATCCGGGGTGTTGGACTTAGCCCCTATCCACGTATAGGACGTTTCAGCTAAAG
129 TGGTCAGAACCCATCCGGGGTGTTGGACTTAGCCCCTATCCACGTATAGGACGTTTCAGCTAAAG
1637014 CAGATGAGATGG
194 CAGATGAGATGG
1637026 CAAAGTATCT
Statistics
Matches: 202, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
205 38 0.19
206 99 0.49
207 65 0.32
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (205 bp):
GGGAAACCTTTTAAGGTGTTGGCAGGAACGAAGCCGAAGCAGTGGGATTTGGCATTGCCTCAGGC
AGAATTTGCCTACAACAGATCAAAAAACACGAACCACAGGTTTAAGCCCATTGAGATTGTCTATG
GTCAGAACCCATCCGGGGTGTTGGACTTAGCCCCTATCCACGTATAGGACGTTTCAGCTAAAGCA
GATGAGATGG
Found at i:1640940 original size:20 final size:20
Alignment explanation
Indices: 1640917--1640980 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
1640907 TTCAGATAAA
1640917 GGAAAGGGAATTAATGAACT
1 GGAAAGGGAATTAATGAACT
**
1640937 GGAAA--G--TTAAATGGAAAA
1 GGAAAGGGAATT-AAT-GAACT
1640955 GGAAAGGGAATTAATGAACT
1 GGAAAGGGAATTAATGAACT
1640975 GGAAAG
1 GGAAAG
1640981 TTAAATGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 9 0.26
20 15 0.44
21 3 0.09
22 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.31, T:0.17
Consensus pattern (20 bp):
GGAAAGGGAATTAATGAACT
Found at i:1640965 original size:38 final size:38
Alignment explanation
Indices: 1640914--1640992 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
1640904 AAATTCAGAT
1640914 AAAGGAAAGGGAATTAATGAACTGGAAAGTTAAATGGA
1 AAAGGAAAGGGAATTAATGAACTGGAAAGTTAAATGGA
1640952 AAAGGAAAGGGAATTAATGAACTGGAAAGTTAAATGGA
1 AAAGGAAAGGGAATTAATGAACTGGAAAGTTAAATGGA
1640990 AAA
1 AAA
1640993 AACATAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.52, C:0.03, G:0.28, T:0.18
Consensus pattern (38 bp):
AAAGGAAAGGGAATTAATGAACTGGAAAGTTAAATGGA
Found at i:1641500 original size:29 final size:29
Alignment explanation
Indices: 1641458--1641514 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
1641448 TTTCACCTAC
*
1641458 CTAAATTGATGTAAGCGATGACATCAAAA
1 CTAAATTGATGTAAGCAATGACATCAAAA
1641487 CTAAATTGATGTAAGCAATGACATCAAA
1 CTAAATTGATGTAAGCAATGACATCAAA
1641515 TTAATTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (29 bp):
CTAAATTGATGTAAGCAATGACATCAAAA
Done.