Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 25
Found at i:4711724 original size:15 final size:15
Alignment explanation
Indices: 4711706--4711778 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
4711696 TTTTGTTTTT
4711706 ATTATTATTATTAAA
1 ATTATTATTATTAAA
4711721 ATTATTATTATTAATA
1 ATTATTATTATTAA-A
* *
4711737 TTATATATATTATTATA
1 AT-TAT-TATTATTAAA
*
4711754 TTATATTATTATT-AA
1 AT-TATTATTATTAAA
*
4711769 ATAATTATTA
1 ATTATTATTA
4711779 CAAGCCCAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.14
15 16 0.32
16 9 0.18
17 10 0.20
18 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:4711778 original size:3 final size:3
Alignment explanation
Indices: 4711704--4711767 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
4711694 CATTTTGTTT
** *
4711704 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA ATA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
4711749 TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
4711768 AATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4713098 original size:20 final size:19
Alignment explanation
Indices: 4713075--4713116 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4713065 TATTTTTATA
4713075 AATTATATATTAATTATTTT
1 AATTATATATTAATT-TTTT
* *
4713095 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
4713114 AAT
1 AAT
4713117 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:4714061 original size:13 final size:13
Alignment explanation
Indices: 4714040--4714088 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
4714030 AGATAAGTCT
4714040 AACTAACTAGCCC
1 AACTAACTAGCCC
*
4714053 AACTTACTAGCCC
1 AACTAACTAGCCC
4714066 AACTAACTAGCCC
1 AACTAACTAGCCC
*
4714079 AACTGACTAG
1 AACTAACTAG
4714089 AAATCAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.10, T:0.18
Consensus pattern (13 bp):
AACTAACTAGCCC
Found at i:4715887 original size:33 final size:33
Alignment explanation
Indices: 4715840--4715921 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
4715830 TGACAGTGGT
* * **
4715840 GATGGTGGTGATGGAGATGGTAGTAGTGATGTA
1 GATGATGGAGATGGAGATGGTAGTAAAGATGTA
*
4715873 GATGATGGAGATGGAGATGGTGGTAAAGATGTA
1 GATGATGGAGATGGAGATGGTAGTAAAGATGTA
**
4715906 GATGACAGAGATGGAG
1 GATGATGGAGATGGAG
4715922 TTGATTATAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.01, G:0.44, T:0.24
Consensus pattern (33 bp):
GATGATGGAGATGGAGATGGTAGTAAAGATGTA
Found at i:4717841 original size:24 final size:24
Alignment explanation
Indices: 4717810--4717888 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
4717800 GAGAGACTGT
*
4717810 AGAAAATTGAGGAATTTGAGATGC
1 AGAAAATTGAGGAATTTGAGGTGC
* *
4717834 AGAAAATTGAGCAGAAAATTGAGGTAC
1 AGAAAATTGAG--G-AATTTGAGGTGC
* *
4717861 AGAAAATTGTGGAATTCGAGGTGC
1 AGAAAATTGAGGAATTTGAGGTGC
4717885 AGAA
1 AGAA
4717889 CGTGTATAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 24 0.53
25 1 0.02
26 1 0.02
27 19 0.42
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.22
Consensus pattern (24 bp):
AGAAAATTGAGGAATTTGAGGTGC
Found at i:4717869 original size:15 final size:12
Alignment explanation
Indices: 4717832--4717856 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4717822 AATTTGAGAT
4717832 GCAGAAAATTGA
1 GCAGAAAATTGA
4717844 GCAGAAAATTGA
1 GCAGAAAATTGA
4717856 G
1 G
4717857 GTACAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (12 bp):
GCAGAAAATTGA
Found at i:4719103 original size:43 final size:44
Alignment explanation
Indices: 4719006--4719104 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 44
4718996 ATCAAAGACA
* * **
4719006 CAGTATGCCAGAACAACCGAGAACAGAAAATGCAAACCAAAGAG
1 CAGTATGCCAGAACAACCGAAAACAAAAAACACAAACCAAAGAG
* * * *
4719050 CAGTATGCCAGACCAATCGAAAACAAAAAACACAAATC-AAGTG
1 CAGTATGCCAGAACAACCGAAAACAAAAAACACAAACCAAAGAG
4719093 CAGTATGCCAGA
1 CAGTATGCCAGA
4719105 TTAACCGAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 16 0.34
44 31 0.66
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.10
Consensus pattern (44 bp):
CAGTATGCCAGAACAACCGAAAACAAAAAACACAAACCAAAGAG
Found at i:4722922 original size:2 final size:2
Alignment explanation
Indices: 4722917--4722943 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4722907 TTATTATAGT
4722917 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4722944 TTATTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4723689 original size:85 final size:86
Alignment explanation
Indices: 4723520--4723689 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 86
4723510 ATTGAGTTGC
*
4723520 GAAATTGGCGAATTCGAGTTTGGGATTTTTTTCTACGGTGTTTACCTATATCAGTAATTGAGTTG
1 GAAATTGGCGAATTCGAGTTTGGGATTTTTTTCTACCGTGTTTACCTATATCAGTAATTGAGTTG
*
4723585 CGAAATCAGAATTCGAATTGT
66 CGAAATCAGAATTCAAATTGT
* *
4723606 GAAATTGGCGAATTTGAG-TTGCGGA-TTTTTTCTACCGTGTTTACCTATAAT-GGTAATTGAGT
1 GAAATTGGCGAATTCGAGTTTG-GGATTTTTTTCTACCGTGTTTACCTAT-ATCAGTAATTGAGT
* * *
4723668 TGCGATATCCGATTTCAAATTG
64 TGCGAAATCAGAATTCAAATTG
4723690 CGATTTTGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 53 0.71
86 22 0.29
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (86 bp):
GAAATTGGCGAATTCGAGTTTGGGATTTTTTTCTACCGTGTTTACCTATATCAGTAATTGAGTTG
CGAAATCAGAATTCAAATTGT
Found at i:4726756 original size:21 final size:21
Alignment explanation
Indices: 4726706--4726762 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
4726696 TACACTCCTG
4726706 AGTGTA-CGATACACATTCA-
1 AGTGTATCGATACACATTCAT
*
4726725 AGGAATGTATCGGTACACATTCAT
1 A-G--TGTATCGATACACATTCAT
4726749 AGTGTATCGATACA
1 AGTGTATCGATACA
4726763 TAGCGAGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 11 0.35
22 4 0.13
23 13 0.42
24 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (21 bp):
AGTGTATCGATACACATTCAT
Found at i:4732990 original size:2 final size:2
Alignment explanation
Indices: 4732977--4733008 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4732967 TTTCAATGAC
*
4732977 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4733009 CAAATCATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4733719 original size:29 final size:29
Alignment explanation
Indices: 4733680--4733833 Score: 222
Period size: 29 Copynumber: 5.4 Consensus size: 29
4733670 AACTATTACG
* ** *
4733680 AAAATAGCACCTTTTTTAAAATAATTACC
1 AAAATATCACCTTTTTCGAAATAATTCCC
* * *
4733709 TAAATATCACCTTGTTCAAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCCC
4733738 AAAATATCA-CTTTTT-GAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCCC
4733765 AAAATATCACCTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCCC
*
4733794 AAAATATTACCTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCCC
4733823 AAAATATCACC
1 AAAATATCACC
4733834 GGGTCGGGTC
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 20 0.18
28 11 0.10
29 82 0.73
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATATCACCTTTTTCGAAATAATTCCC
Found at i:4733770 original size:56 final size:57
Alignment explanation
Indices: 4733680--4733833 Score: 220
Period size: 56 Copynumber: 2.7 Consensus size: 57
4733670 AACTATTACG
* * * *
4733680 AAAATAGCACCTTTTTTAAAATAATTACCTAAATATCACCTTGTTCAAAATAATTCCC
1 AAAATATCACC-TTTTTGAAATAATTCCCAAAATATCACCTTGTTCAAAATAATTCCC
* *
4733738 AAAATATCA-CTTTTTGAAATAATTCCCAAAATATCACCTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTGAAATAATTCCCAAAATATCACCTTGTTCAAAATAATTCCC
*
4733794 AAAATATTACCTTTTTCGAAATAATTCCCAAAATATCACC
1 AAAATATCACCTTTTT-GAAATAATTCCCAAAATATCACC
4733834 GGGTCGGGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 49 0.56
57 7 0.08
58 31 0.36
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.34
Consensus pattern (57 bp):
AAAATATCACCTTTTTGAAATAATTCCCAAAATATCACCTTGTTCAAAATAATTCCC
Found at i:4740561 original size:2 final size:2
Alignment explanation
Indices: 4740556--4740589 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4740546 AGTGACACAC
4740556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4740590 TATTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4740596 original size:4 final size:4
Alignment explanation
Indices: 4740589--4740616 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4740579 TATATATATA
4740589 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
4740617 CAAATCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:4741362 original size:59 final size:58
Alignment explanation
Indices: 4741288--4741474 Score: 227
Period size: 59 Copynumber: 3.2 Consensus size: 58
4741278 AACTATTGCG
* * * *
4741288 AAAATAGCACCTTTTTTTAAAAATAATTACCAAAATATAAC-TTTTTCAAAATAATTACT
1 AAAATATCA-CTTTTTTTCAAAATAATTACCAAAATATCACTTTTTTTAAAATAATT-CT
*
4741347 AAAATATCACTTTTTTTTCGAAATAATTACCAAAATATCACTTTTTTTTAAAATAATTTCT
1 AAAATATCAC-TTTTTTTCAAAATAATTACCAAAATATCAC-TTTTTTTAAAATAA-TTCT
* *
4741408 AAAATATCAC-ATTTTTCAAAATAATT-CTCAAAATATCACATTTTTTAAAATAATTCTT
1 AAAATATCACTTTTTTTCAAAATAATTAC-CAAAATATCACTTTTTTTAAAATAATTC-T
4741466 AAAATATCA
1 AAAATATCA
4741475 TCGGATCGGA
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
57 3 0.03
58 25 0.22
59 60 0.53
61 24 0.21
62 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (58 bp):
AAAATATCACTTTTTTTCAAAATAATTACCAAAATATCACTTTTTTTAAAATAATTCT
Found at i:4741371 original size:31 final size:30
Alignment explanation
Indices: 4741288--4741474 Score: 206
Period size: 29 Copynumber: 6.3 Consensus size: 30
4741278 AACTATTGCG
* * *
4741288 AAAATAGCACCTTTTTTTAAAAATAATTACC
1 AAAATATCA-CTTTTTTTCAAAATAATTACT
*
4741319 AAAATATAAC--TTTTTCAAAATAATTACT
1 AAAATATCACTTTTTTTCAAAATAATTACT
* *
4741347 AAAATATCACTTTTTTTTCGAAATAATTACC
1 AAAATATCAC-TTTTTTTCAAAATAATTACT
* *
4741378 AAAATATCACTTTTTTTTAAAATAATTTCT
1 AAAATATCACTTTTTTTCAAAATAATTACT
*
4741408 AAAATATCAC-ATTTTTCAAAATAATT-CT
1 AAAATATCACTTTTTTTCAAAATAATTACT
*
4741436 CAAAATATCACATTTTTT-AAAATAATT-CTT
1 -AAAATATCACTTTTTTTCAAAATAATTAC-T
4741466 AAAATATCA
1 AAAATATCA
4741475 TCGGATCGGA
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
28 27 0.20
29 43 0.32
30 33 0.24
31 33 0.24
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (30 bp):
AAAATATCACTTTTTTTCAAAATAATTACT
Found at i:4741396 original size:90 final size:90
Alignment explanation
Indices: 4741288--4741453 Score: 246
Period size: 90 Copynumber: 1.8 Consensus size: 90
4741278 AACTATTGCG
4741288 AAAATAGCACCTTTTTTTAAAAATAATTACCAAAATATAAC-TTTTTCAAAATAATTACT-AAAA
1 AAAATAGCACCTTTTTTT-AAAATAATTACCAAAATATAACATTTTTCAAAATAATT-CTCAAAA
*
4741351 TATCACTTTTTTTTCGAAATAATTACC
64 TATCACATTTTTTTCGAAATAATTACC
* * * * *
4741378 AAAATATCACTTTTTTTTAAAATAATTTCTAAAATATCACATTTTTCAAAATAATTCTCAAAATA
1 AAAATAGCACCTTTTTTTAAAATAATTACCAAAATATAACATTTTTCAAAATAATTCTCAAAATA
4741443 TCACATTTTTT
66 TCACATTTTTT
4741454 AAAATAATTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 21 0.31
90 47 0.69
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (90 bp):
AAAATAGCACCTTTTTTTAAAATAATTACCAAAATATAACATTTTTCAAAATAATTCTCAAAATA
TCACATTTTTTTCGAAATAATTACC
Found at i:4741430 original size:17 final size:17
Alignment explanation
Indices: 4741403--4741459 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
4741393 TTTAAAATAA
4741403 TTTCTAAAATATCACATT
1 TTTC-AAAATATCACATT
4741421 TTTC-AAA-AT-A-A-T
1 TTTCAAAATATCACATT
*
4741433 TCTCAAAATATCACATT
1 TTTCAAAATATCACATT
*
4741450 TTTTAAAATA
1 TTTCAAAATA
4741460 ATTCTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.13
13 4 0.13
14 3 0.10
15 3 0.10
16 4 0.13
17 9 0.29
18 4 0.13
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTCAAAATATCACATT
Found at i:4748618 original size:12 final size:12
Alignment explanation
Indices: 4748585--4748623 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
4748575 GGGGCAGTTT
4748585 GACCCGGTTGACCC
1 GACCC-GTTGA-CC
*
4748599 GGCCCGTTGACC
1 GACCCGTTGACC
4748611 GACCCGTTGACC
1 GACCCGTTGACC
4748623 G
1 G
4748624 TTGACTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 14 0.61
13 5 0.22
14 4 0.17
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (12 bp):
GACCCGTTGACC
Found at i:4748832 original size:129 final size:130
Alignment explanation
Indices: 4748620--4748879 Score: 357
Period size: 129 Copynumber: 2.0 Consensus size: 130
4748610 CGACCCGTTG
* * * *
4748620 ACCGTTGACTTTGACCGAAAAAGTCAATTTTTTTTTGAAAAGTCATATTTTTTATATTTTACGTC
1 ACCGTTGACTTTGACCAAAAAAATCAA-TATTTTTTGAAAAGTCATATTTTATATATTTTACGTC
* ** * * *
4748685 CTGAGTCCGATTTTGAAGTCTG-TTTTGCCAAATTTGAGCTCGAAAGCCTCGAAATTGTCAGTCA
65 CTGAGTACGATTCCGAAGTCTGATTTT-CCAAATTTGAACTCAAAAGCCTCCAAATTGTCAGTCA
4748749 AA
129 AA
*
4748751 ACCGTTGACTTTGA-CAAAAAAATCAA-ATTTTTTGAAAAGTCATATTTTATGT-TTTTCGACGT
1 ACCGTTGACTTTGACCAAAAAAATCAATATTTTTTGAAAAGTCATATTTTATATATTTT--ACGT
4748813 CCTGAGTACGATTCCGAAGTCTGATTTTCCAAATTTGAACTCAAAAGCCTCCAAATTGTCAGTCA
64 CCTGAGTACGATTCCGAAGTCTGATTTTCCAAATTTGAACTCAAAAGCCTCCAAATTGTCAGTCA
4748878 AA
129 AA
4748880 CCCGAAAATG
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
127 4 0.03
128 23 0.20
129 60 0.52
130 14 0.12
131 14 0.12
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (130 bp):
ACCGTTGACTTTGACCAAAAAAATCAATATTTTTTGAAAAGTCATATTTTATATATTTTACGTCC
TGAGTACGATTCCGAAGTCTGATTTTCCAAATTTGAACTCAAAAGCCTCCAAATTGTCAGTCAAA
Found at i:4755777 original size:18 final size:18
Alignment explanation
Indices: 4755754--4755790 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4755744 TTTTGAAAGT
*
4755754 CAACCCGATCGGTTGACC
1 CAACCCGACCGGTTGACC
*
4755772 CAACCCGACCTGTTGACC
1 CAACCCGACCGGTTGACC
4755790 C
1 C
4755791 GACTCGCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.43, G:0.19, T:0.16
Consensus pattern (18 bp):
CAACCCGACCGGTTGACC
Found at i:4758302 original size:24 final size:24
Alignment explanation
Indices: 4758220--4758302 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
4758210 ATTTCCGATT
* *
4758220 TGAATTATGTTCTGAAATTTGATC
1 TGAATTATGTTCTGATATCTGATC
* * *
4758244 TGAAATCTGTTCTGAT-TCTTGACC
1 TGAATTATGTTCTGATATC-TGATC
* * *
4758268 TGGATTCTGTTATGATATCTGATC
1 TGAATTATGTTCTGATATCTGATC
4758292 TGAATTATGTT
1 TGAATTATGTT
4758303 TTGTTTTCTG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 1 0.02
24 43 0.93
25 2 0.04
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (24 bp):
TGAATTATGTTCTGATATCTGATC
Found at i:4764312 original size:44 final size:44
Alignment explanation
Indices: 4764222--4764469 Score: 162
Period size: 44 Copynumber: 5.7 Consensus size: 44
4764212 TCTATGACTT
* * * * * *
4764222 GTAAGACCTTACCGTTTC-CCAGGCTCCTCTT-CTATGTGCAGGG
1 GTAAGTCCTTACCGTTACTGCAGGTTCCT-TTGCTGTGTGCAAGG
* **
4764265 GTAAGTCCTTACCATTACTGCAGGTTCCTTTATTGTGTGCAAGG
1 GTAAGTCCTTACCGTTACTGCAGGTTCCTTTGCTGTGTGCAAGG
* * * * * * * * *
4764309 GTAAGACCTTATCGTTTC-CCAGGGAT-CTCTGCTATGTGCATGA
1 GTAAGTCCTTACCGTTACTGCA-GGTTCCTTTGCTGTGTGCAAGG
4764352 GTAAGTCCTTACCGTTACTGCAGGTTCCTTTGCTGTGTGCAAGG
1 GTAAGTCCTTACCGTTACTGCAGGTTCCTTTGCTGTGTGCAAGG
** * * ** * * * *
4764396 GTAAGAGCTTACAGTTTTCCCCAGGCTCCTTTTCTATGTCCAAGG
1 GTAAGTCCTTACCG-TTACTGCAGGTTCCTTTGCTGTGTGCAAGG
* * *
4764441 GTAAGACCTTACCGTTACCGCAGGCTCCT
1 GTAAGTCCTTACCGTTACTGCAGGTTCCT
4764470 CTACTTTATG
Statistics
Matches: 156, Mismatches: 43, Indels: 11
0.74 0.20 0.05
Matches are distributed among these distances:
43 48 0.31
44 73 0.47
45 35 0.22
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (44 bp):
GTAAGTCCTTACCGTTACTGCAGGTTCCTTTGCTGTGTGCAAGG
Found at i:4764370 original size:87 final size:87
Alignment explanation
Indices: 4764222--4764474 Score: 285
Period size: 87 Copynumber: 2.9 Consensus size: 87
4764212 TCTATGACTT
* * *
4764222 GTAAGACCTTACCGTTTCCCAGGCTCCTCTTCTATGTGCAGGGGTAAGTCCTTACCATTACTGCA
1 GTAAGACCTTACCGTTTCCCAGGATCCTCTGCTATGTGCAGGAGTAAGTCCTTACCATTACTGCA
*
4764287 GGTTCCTTTATTGTGTGCAAGG
66 GGTTCCTTTACTGTGTGCAAGG
* * *
4764309 GTAAGACCTTATCGTTTCCCAGGGAT-CTCTGCTATGTGCATGAGTAAGTCCTTACCGTTACTGC
1 GTAAGACCTTACCGTTTCCCA-GGATCCTCTGCTATGTGCAGGAGTAAGTCCTTACCATTACTGC
*
4764373 AGGTTCCTTTGCTGTGTGCAAGG
65 AGGTTCCTTTACTGTGTGCAAGG
* * * * * * * * *
4764396 GTAAGAGCTTACAGTTTTCCCCAGGCTCCTTTTCTATGTCCAAGG-GTAAGACCTTACCGTTACC
1 GTAAGACCTTACCG-TTT-CCCAGGATCCTCTGCTATGTGC-AGGAGTAAGTCCTTACCATTACT
* *
4764460 GCAGGCTCCTCTACT
63 GCAGGTTCCTTTACT
4764475 TTATGCACAT
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
87 86 0.61
88 9 0.06
89 43 0.31
90 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (87 bp):
GTAAGACCTTACCGTTTCCCAGGATCCTCTGCTATGTGCAGGAGTAAGTCCTTACCATTACTGCA
GGTTCCTTTACTGTGTGCAAGG
Found at i:4764521 original size:39 final size:39
Alignment explanation
Indices: 4764455--4764576 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
4764445 GACCTTACCG
* *
4764455 TTACCGCAGGCTCCTCTACTTTATGCACATGATAAGACC
1 TTACCACAGGCTCCTCTACTTTGTGCACATGATAAGACC
* ** * * *
4764494 TTATCGTAGGCTCCTATGCTTTGTGCACAGGATAAGACC
1 TTACCACAGGCTCCTCTACTTTGTGCACATGATAAGACC
*
4764533 TTACCACATGCTCCTCTACTTTGTGCACATGATAAG-CTC
1 TTACCACAGGCTCCTCTACTTTGTGCACATGATAAGAC-C
4764572 TTACC
1 TTACC
4764577 GGGTGTACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 68 0.99
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (39 bp):
TTACCACAGGCTCCTCTACTTTGTGCACATGATAAGACC
Found at i:4770511 original size:16 final size:16
Alignment explanation
Indices: 4770483--4770524 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4770473 CAAACCGCTG
*
4770483 ACCCGACCTGTATCCA
1 ACCCGACCCGTATCCA
*
4770499 ACTCGACCCGTATCCA
1 ACCCGACCCGTATCCA
4770515 ACCCGACCCG
1 ACCCGACCCG
4770525 CTGACCCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.48, G:0.14, T:0.14
Consensus pattern (16 bp):
ACCCGACCCGTATCCA
Found at i:4771429 original size:44 final size:44
Alignment explanation
Indices: 4771338--4771616 Score: 199
Period size: 44 Copynumber: 6.3 Consensus size: 44
4771328 TCTATGACTT
* * * * *
4771338 GTAAGACCTTACCGTTTC-CCAAGCTCCTCTGCTATGTGCAAGG
1 GTAAGACCTTACCGTTACTACAGGTTCCTTTGCTATGTGCAAGG
* * *
4771381 GTAAGTCCTTACCGTTACTACAGGTTCCTTTGCTGTGTACAAGG
1 GTAAGACCTTACCGTTACTACAGGTTCCTTTGCTATGTGCAAGG
* * * *
4771425 GTAAGACCATACCGTT-TTCCAGGCT-CTTCTGCTATGTGCAAGG
1 GTAAGACCTTACCGTTACTACAGGTTCCTT-TGCTATGTGCAAGG
* * ** * *
4771468 GTAAGTCCTTACCATTACTGTAGGTTCCTTTGCTGTGTGCAAGT
1 GTAAGACCTTACCGTTACTACAGGTTCCTTTGCTATGTGCAAGG
** * ** * * *
4771512 GTAAGACCTTATAGTTTTCCCCATGCTCCTTTGCTATTTGCAAGG
1 GTAAGACCTTACCG-TTACTACAGGTTCCTTTGCTATGTGCAAGG
* * * *
4771557 GTAAGACCTTACCGTTA-TCGCAGGCTCCTCTT-CTTTGTGCACAAG
1 GTAAGACCTTACCGTTACT-ACAGGTTCCT-TTGCTATGTGCA-AGG
*
4771602 ATAAGACCTTACCGT
1 GTAAGACCTTACCGT
4771617 AGGCTTCTCT
Statistics
Matches: 181, Mismatches: 47, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.02
43 47 0.26
44 77 0.43
45 54 0.30
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (44 bp):
GTAAGACCTTACCGTTACTACAGGTTCCTTTGCTATGTGCAAGG
Found at i:4771486 original size:87 final size:87
Alignment explanation
Indices: 4771338--4771569 Score: 304
Period size: 87 Copynumber: 2.6 Consensus size: 87
4771328 TCTATGACTT
* * *
4771338 GTAAGACCTTACCGTTTCCCAAGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACTACA
1 GTAAGACCTTACCGTTTTCCAAGCTCTTCTGCTATGTGCAAGGGTAAGTCCTTACCATTACTACA
4771403 GGTTCCTTTGCTGTGTACAAGG
66 GGTTCCTTTGCTGTGTACAAGG
* * **
4771425 GTAAGACCATACCGTTTTCCAGGCTCTTCTGCTATGTGCAAGGGTAAGTCCTTACCATTACTGTA
1 GTAAGACCTTACCGTTTTCCAAGCTCTTCTGCTATGTGCAAGGGTAAGTCCTTACCATTACTACA
* *
4771490 GGTTCCTTTGCTGTGTGCAAGT
66 GGTTCCTTTGCTGTGTACAAGG
** * * *
4771512 GTAAGACCTTATAGTTTTCCCCATGCTCCTT-TGCTATTTGCAAGGGTAAGACCTTACC
1 GTAAGACCTTACCGTTTT--CCAAGCT-CTTCTGCTATGTGCAAGGGTAAGTCCTTACC
4771570 GTTATCGCAG
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 93 0.73
89 31 0.24
90 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (87 bp):
GTAAGACCTTACCGTTTTCCAAGCTCTTCTGCTATGTGCAAGGGTAAGTCCTTACCATTACTACA
GGTTCCTTTGCTGTGTACAAGG
Found at i:4783331 original size:2 final size:2
Alignment explanation
Indices: 4783324--4783362 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4783314 TTTCGTGAAT
4783324 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4783363 GATTGACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4789526 original size:12 final size:12
Alignment explanation
Indices: 4789509--4789550 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4789499 GAACATTAAA
4789509 TGAACATGTTCG
1 TGAACATGTTCG
***
4789521 TGAACAT-TAAA
1 TGAACATGTTCG
4789532 TGAACATGTTCG
1 TGAACATGTTCG
4789544 TGAACAT
1 TGAACAT
4789551 TAAATGAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (12 bp):
TGAACATGTTCG
Found at i:4789526 original size:23 final size:23
Alignment explanation
Indices: 4789499--4789560 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
4789489 AACATTAAAC
4789499 GAACATTAAATGAACATGTTCGT
1 GAACATTAAATGAACATGTTCGT
4789522 GAACATTAAATGAACATGTTCGT
1 GAACATTAAATGAACATGTTCGT
4789545 GAACATTAAATGAACA
1 GAACATTAAATGAACA
4789561 ACAAACGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (23 bp):
GAACATTAAATGAACATGTTCGT
Found at i:4789537 original size:11 final size:11
Alignment explanation
Indices: 4789489--4789560 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
4789479 TTGATCTTTA
*
4789489 AACATTAAACG
1 AACATTAAATG
4789500 AACATTAAATG
1 AACATTAAATG
***
4789511 AACATGTTCGTG
1 AACAT-TAAATG
4789523 AACATTAAATG
1 AACATTAAATG
***
4789534 AACATGTTCGTG
1 AACAT-TAAATG
4789546 AACATTAAATG
1 AACATTAAATG
4789557 AACA
1 AACA
4789561 ACAAACGAAG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
11 30 0.65
12 16 0.35
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (11 bp):
AACATTAAATG
Found at i:4799000 original size:20 final size:21
Alignment explanation
Indices: 4798956--4799014 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
4798946 CCCCTGTGGA
4798956 GGGAATCGGTTCCCTTTCAAAGG
1 GGGAATCGGTTCCC--TCAAAGG
*
4798979 GGTAATCGGTTCCCTC-AAGG
1 GGGAATCGGTTCCCTCAAAGG
* *
4798999 GGGGATCGATTCCCTC
1 GGGAATCGGTTCCCTC
4799015 TGCACCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 17 0.53
21 2 0.06
23 13 0.41
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCAAAGG
Found at i:4805590 original size:44 final size:43
Alignment explanation
Indices: 4805506--4805590 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 43
4805496 TCTTTTGTGG
*
4805506 CATTTTATCCCAAAAAGCCACTAAATATTCTGACATATAGTAA
1 CATTTTATCCCAAAAAGCCACTAAATATTATGACATATAGTAA
* * * * *
4805549 CATTTTTTCCCAAAAGCGCCATTAAATGTTATGTCATATAGT
1 CATTTTATCCCAAAA-AGCCACTAAATATTATGACATATAGT
4805591 GGCGTTTGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 14 0.40
44 21 0.60
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (43 bp):
CATTTTATCCCAAAAAGCCACTAAATATTATGACATATAGTAA
Found at i:4809193 original size:4 final size:4
Alignment explanation
Indices: 4809184--4809209 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4809174 ACATTAATCC
4809184 CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CT
4809210 AATAGATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:4809885 original size:41 final size:41
Alignment explanation
Indices: 4809837--4810306 Score: 244
Period size: 41 Copynumber: 11.5 Consensus size: 41
4809827 GTAAAGACTA
*
4809837 AATATTTAGCGGCGCTTGTATACAAACGCCACTAAAGTACG
1 AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
** * *
4809878 AATATTTAGTTGCGTTTATGCT-TA-AAACGCCACTAAAATACA
1 AATATTTAGCGGCG-TT-TG-TATACAAACGCCACTAAAGTACG
** * * * *
4809920 AACCTTTAGCGGCGTTTGTATAAAAATGCTACTAAAGTATG
1 AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
* * * * *
4809961 AGTCTTTAGCGGTGTTTGTGCTTA-AAACGCCACTAAAGTATG
1 AATATTTAGCGGCGTTTGT--ATACAAACGCCACTAAAGTACG
*** * ** *
4810003 -GCCTTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATG
1 AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
* * * * * *
4810043 ATTTTTTAGCGGC-TTT-CATACAAAAACACCAGTAAAGTATG
1 AATATTTAGCGGCGTTTGTATAC--AAACGCCACTAAAGTACG
* * * ** * *
4810084 AGTCTTTGGCTACATTTGTATACAAACGACACTAAAGTAC-
1 AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
* * * * * *
4810124 AATATTTAGCAGCATTTATACAAAAATGCCACTAAAGTAC-
1 AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
* *
4810164 AAGTATTTAGTGGCGTTTGTACTTA-AAACGCCATTAAAGTAC-
1 AA-TATTTAGCGGCGTTTGTA--TACAAACGCCACTAAAGTACG
* * * * * * *
4810206 AAGTCTTTAGTGGCGTTTGTACAAAAATGCCACTAAACTA-T
1 AA-TATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
* *
4810247 AATATTTAGCGGCGTTTATATGA-AAACTCCACTAAAGTACG
1 AATATTTAGCGGCGTTTGTAT-ACAAACGCCACTAAAGTACG
* * *
4810288 AGTATTTACCAGCGTTTGT
1 AATATTTAGCGGCGTTTGT
4810307 TCAAACAATG
Statistics
Matches: 333, Mismatches: 76, Indels: 40
0.74 0.17 0.09
Matches are distributed among these distances:
39 6 0.02
40 84 0.25
41 150 0.45
42 81 0.24
43 11 0.03
44 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (41 bp):
AATATTTAGCGGCGTTTGTATACAAACGCCACTAAAGTACG
Found at i:4810040 original size:82 final size:83
Alignment explanation
Indices: 4809841--4810055 Score: 238
Period size: 83 Copynumber: 2.6 Consensus size: 83
4809831 AGACTAAATA
* * ** * **
4809841 TTTAGCGGCGCTTGTATACAAACGCCACTAAAGTACGAATATTTAGTTGCGTTTATGCTTAAAAC
1 TTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATGAATATTTAGCGGCGTTTATGCTTAAAAC
4809906 GCCACTAAAATACAAACC
66 GCCACTAAAATACAAACC
* * * *
4809924 TTTAGCGGCGTTTGTAT-AAAA-ATGCTACTAAAGTATGAGTCTTTAGCGGTGTTTGTGCTTAAA
1 TTTAGCGGCGTTTGTATAAAAACAT-C-ACTAAAGTATGAATATTTAGCGGCGTTTATGCTTAAA
* ***
4809987 ACGCCACTAAAGTA-TGGCC
64 ACGCCACTAAAATACAAACC
* *
4810006 TTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATGATTTTTTAGCGGC
1 TTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATGAATATTTAGCGGC
4810056 TTTCATACAA
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
82 44 0.40
83 64 0.58
84 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (83 bp):
TTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATGAATATTTAGCGGCGTTTATGCTTAAAAC
GCCACTAAAATACAAACC
Found at i:4810160 original size:81 final size:81
Alignment explanation
Indices: 4809984--4810162 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 81
4809974 GTTTGTGCTT
* * * * *
4809984 AAAACGCCACTAAAGTATGGCCTTTAGCGGCGTTTGTATAAAAACATCACTAAAGTATGATTTTT
1 AAAACGCCACTAAAGTATGGCCTTTAGCGACATTTGTATAAAAACATCACTAAAGTATCAATATT
*
4810049 TAGCGGCTTTCATACA
66 TAGCAGCTTTCATACA
* * * * * *
4810065 AAAACACCAGTAAAGTATGAGTCTTTGGCTACATTTGTATACAAACGA-CACTAAAGTA-CAATA
1 AAAACGCCACTAAAGTATG-GCCTTTAGCGACATTTGTATAAAAAC-ATCACTAAAGTATCAATA
4810128 TTTAGCAGCATTT-ATACA
64 TTTAGCAGC-TTTCATACA
*
4810146 AAAATGCCACTAAAGTA
1 AAAACGCCACTAAAGTA
4810163 CAAGTATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
81 46 0.57
82 33 0.41
83 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (81 bp):
AAAACGCCACTAAAGTATGGCCTTTAGCGACATTTGTATAAAAACATCACTAAAGTATCAATATT
TAGCAGCTTTCATACA
Found at i:4813933 original size:16 final size:17
Alignment explanation
Indices: 4813905--4813936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4813895 GACTTTGACA
4813905 AAAAAGTCAATATTTTC
1 AAAAAGTCAATATTTTC
4813922 AAAAAGTC-ATATTTT
1 AAAAAGTCAATATTTT
4813937 ATTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (17 bp):
AAAAAGTCAATATTTTC
Found at i:4815907 original size:24 final size:23
Alignment explanation
Indices: 4815856--4815960 Score: 77
Period size: 24 Copynumber: 4.4 Consensus size: 23
4815846 ATCTGAATTA
* *
4815856 TGTTATGATACTTGACCTGGCTTT
1 TGTTATGATAC-TGACCTGGATTC
4815880 TGTTATGATACATGACCTGGATTC
1 TGTTATGATAC-TGACCTGGATTC
** *
4815904 TGTTCGGATACCT-AGCCTGGATCC
1 TGTTATGATA-CTGA-CCTGGATTC
* * *
4815928 TGTTTTGATATCTGACCTGAATTA
1 TGTTATGATA-CTGACCTGGATTC
*
4815952 TGTTTTGAT
1 TGTTATGAT
4815961 TTTTGAATCT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.02
24 63 0.95
25 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (23 bp):
TGTTATGATACTGACCTGGATTC
Found at i:4817392 original size:24 final size:24
Alignment explanation
Indices: 4817365--4817419 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
4817355 CCGTTCATCA
*
4817365 CATCTCCTACACCAACGGACTCAC
1 CATCACCTACACCAACGGACTCAC
4817389 CATCACCTACACCAACGGACTCAC
1 CATCACCTACACCAACGGACTCAC
*
4817413 TATCACC
1 CATCACC
4817420 GTGCGCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.45, G:0.07, T:0.16
Consensus pattern (24 bp):
CATCACCTACACCAACGGACTCAC
Found at i:4825329 original size:44 final size:44
Alignment explanation
Indices: 4825266--4825372 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
4825256 TTTTGTGCGC
* * *
4825266 TATGCATCGATACATTATGAAAGTGTACTGATGCA-TCTCTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCGATGCATTC-CTTGAA
*
4825310 TATGCATCGATACACTATGAAGGTGCACCGATGCATTCCTTGAA
1 TATGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAA
*
4825354 TGTGCATCGATACACTATG
1 TATGCATCGATACACTATG
4825373 TAGTGCATCG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
TATGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAA
Found at i:4825819 original size:20 final size:21
Alignment explanation
Indices: 4825794--4825833 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4825784 AAAAAAATTG
4825794 AAAATTATTG-ATTTGATTTT
1 AAAATTATTGTATTTGATTTT
* *
4825814 AAAATTGTTGTTTTTGATTT
1 AAAATTATTGTATTTGATTT
4825834 AATTATGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
AAAATTATTGTATTTGATTTT
Found at i:4825834 original size:20 final size:21
Alignment explanation
Indices: 4825805--4825850 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4825795 AAATTATTGA
4825805 TTTGATTTTAAA-ATTGTTGTT
1 TTTGATTTTAAATA-TGTTGTT
*
4825826 TTTGA-TTTAATTATGTTGTT
1 TTTGATTTTAAATATGTTGTT
4825846 TTTGA
1 TTTGA
4825851 AAACTCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (21 bp):
TTTGATTTTAAATATGTTGTT
Found at i:4825883 original size:13 final size:13
Alignment explanation
Indices: 4825860--4825902 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
4825850 AAAACTCCAT
4825860 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
4825874 ATTGTTTTCAAAC
1 ATTGTTTTCAAAC
*
4825887 ATAGTTTTCAAA-
1 ATTGTTTTCAAAC
4825899 ATTG
1 ATTG
4825903 CCCATTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:4827643 original size:13 final size:13
Alignment explanation
Indices: 4827621--4827654 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
4827611 AGAGGGAGTA
4827621 ATTTTCAAAAATG
1 ATTTTCAAAAATG
4827634 A-TTTCAAAAATG
1 ATTTTCAAAAATG
4827646 ATTTTCAAA
1 ATTTTCAAA
4827655 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:4829371 original size:24 final size:24
Alignment explanation
Indices: 4829344--4829448 Score: 84
Period size: 24 Copynumber: 4.4 Consensus size: 24
4829334 ATCTGAATTA
*
4829344 TGTTATGATACCTGACCTGGCTTT
1 TGTTATGATACCTGACCTGGATTT
** * *
4829368 TGTTATGATATATGACATGGATTC
1 TGTTATGATACCTGACCTGGATTT
** * *
4829392 TGTTCGGATACCTGGCCTGGATCT
1 TGTTATGATACCTGACCTGGATTT
* * * *
4829416 TGTTCTGATATCTGACCTGAATTA
1 TGTTATGATACCTGACCTGGATTT
*
4829440 TGTTTTGAT
1 TGTTATGAT
4829449 TTTTGATATC
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (24 bp):
TGTTATGATACCTGACCTGGATTT
Found at i:4834550 original size:33 final size:33
Alignment explanation
Indices: 4834511--4834601 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
4834501 AGTTTGAAAT
* *
4834511 TTCATCTTGGTTGATAGCCAACTTATTAAAAAA
1 TTCATCTTGGTTGGTGGCCAACTTATTAAAAAA
* **
4834544 TTCATCTTGGTTGGTGGCCAACTCATTGGAAAA
1 TTCATCTTGGTTGGTGGCCAACTTATTAAAAAA
*
4834577 TTC-T-TTGGTAGGTGGCCAACTTATT
1 TTCATCTTGGTTGGTGGCCAACTTATT
4834602 TTTCATGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 19 0.37
32 1 0.02
33 31 0.61
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (33 bp):
TTCATCTTGGTTGGTGGCCAACTTATTAAAAAA
Found at i:4842368 original size:34 final size:30
Alignment explanation
Indices: 4842319--4842393 Score: 78
Period size: 34 Copynumber: 2.4 Consensus size: 30
4842309 TTTTAGAAAA
* * * *
4842319 AAATCATTAACTATAAACAACTATTAAGATATT
1 AAATTATTAAATATAAA-AA-TACTAAAATA-T
4842352 AAATTGATTAAATATAAAAATACTAAAATAT
1 AAATT-ATTAAATATAAAAATACTAAAATAT
4842383 AAATTATTAAA
1 AAATTATTAAA
4842394 AAAATCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 6 0.16
31 6 0.16
32 8 0.22
33 6 0.16
34 11 0.30
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTATTAAATATAAAAATACTAAAATAT
Found at i:4844125 original size:22 final size:22
Alignment explanation
Indices: 4844093--4844137 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4844083 AAAACTTGAC
**
4844093 TCGACTAAAAAATTCAATCTTT
1 TCGACTAAAAAAACCAATCTTT
*
4844115 TCGACTCAAAAAACCAATCTTT
1 TCGACTAAAAAAACCAATCTTT
4844137 T
1 T
4844138 AGAATTGAGT
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:0.22, G:0.04, T:0.33
Consensus pattern (22 bp):
TCGACTAAAAAAACCAATCTTT
Found at i:4848552 original size:137 final size:137
Alignment explanation
Indices: 4848378--4848651 Score: 487
Period size: 137 Copynumber: 2.0 Consensus size: 137
4848368 CTCATTCCAT
4848378 AACCAATCAGCTCAAGAAAAAGAAACTTCTGTTGCCTCTTTGATTCTATATTCCACCCATACTGC
1 AACCAATCAGCTCAAGAAAAAGAAACTTCTGTTGCCTCTTTGATTCTATATTCCACCCATACTGC
* *
4848443 ACGATGAATAAAACATAAAAAACAATTTAATTAGCATCAGAAAAAGATTTAGCAAGGAAAATTTC
66 ACGATGAATAAAACATAAAAAACAATTTAATTAGCATCAGAAAAAGATGTAACAAGGAAAATTTC
4848508 TATGTTC
131 TATGTTC
* *
4848515 AACCAATCAG-TCCAAGAAAAAGAAACTTCTGTTGCCTCTTTGATTCTATATTCCACCCGTACTT
1 AACCAATCAGCT-CAAGAAAAAGAAACTTCTGTTGCCTCTTTGATTCTATATTCCACCCATACTG
4848579 CACGATGAATAAAACATAAAAAACAATTTAATTAGCATCAGAAAAAGATGTAACAAGGAAAATTT
65 CACGATGAATAAAACATAAAAAACAATTTAATTAGCATCAGAAAAAGATGTAACAAGGAAAATTT
*
4848644 TTATGTTC
130 CTATGTTC
4848652 CAAGTATTGT
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
136 1 0.01
137 130 0.99
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (137 bp):
AACCAATCAGCTCAAGAAAAAGAAACTTCTGTTGCCTCTTTGATTCTATATTCCACCCATACTGC
ACGATGAATAAAACATAAAAAACAATTTAATTAGCATCAGAAAAAGATGTAACAAGGAAAATTTC
TATGTTC
Found at i:4852387 original size:13 final size:13
Alignment explanation
Indices: 4852356--4852380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4852346 ATCTATGGCG
4852356 CGCATTTATGACA
1 CGCATTTATGACA
4852369 CGCATTTATGAC
1 CGCATTTATGAC
4852381 GCTCATTGCG
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (13 bp):
CGCATTTATGACA
Found at i:4852709 original size:15 final size:15
Alignment explanation
Indices: 4852691--4852720 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4852681 TATTGTAATC
4852691 ATATGTCGATACAAA
1 ATATGTCGATACAAA
4852706 ATATGTCGATACAAA
1 ATATGTCGATACAAA
4852721 TTTTCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
ATATGTCGATACAAA
Found at i:4853237 original size:183 final size:183
Alignment explanation
Indices: 4852929--4853292 Score: 710
Period size: 183 Copynumber: 2.0 Consensus size: 183
4852919 GTATTGCACC
4852929 TGCTCGACAGTGCAAACACAATGTTAATATAGAGATGACAAAACGGAAGGAGATATGATCCATGA
1 TGCTCGACAGTGCAAACACAATGTTAATATAGAGATGACAAAACGGAAGGAGATATGATCCATGA
4852994 ATAATTATTCAGTCAAGTAATGAGCAGCTTCTTTTCAATTGTTTAAAGTAAGCAAGATTGTGTTC
66 ATAATTATTCAGTCAAGTAATGAGCAGCTTCTTTTCAATTGTTTAAAGTAAGCAAGATTGTGTTC
4853059 ACCCTCAAAGTATCAAAAATTAATTGAATAAATAATCATGAGCAACTACAACA
131 ACCCTCAAAGTATCAAAAATTAATTGAATAAATAATCATGAGCAACTACAACA
*
4853112 TGCTCGACAGTGCAAACGCAATGTTAATATAGAGATGACAAAACGGAAGGAGATATGATCCATGA
1 TGCTCGACAGTGCAAACACAATGTTAATATAGAGATGACAAAACGGAAGGAGATATGATCCATGA
*
4853177 ATAATTATTCAGTCATGTAATGAGCAGCTTCTTTTCAATTGTTTAAAGTAAGCAAGATTGTGTTC
66 ATAATTATTCAGTCAAGTAATGAGCAGCTTCTTTTCAATTGTTTAAAGTAAGCAAGATTGTGTTC
4853242 ACCCTCAAAGTATCAAAAATTAATTGAATAAATAATCATGAGCAACTACAA
131 ACCCTCAAAGTATCAAAAATTAATTGAATAAATAATCATGAGCAACTACAA
4853293 TTACCATGAC
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (183 bp):
TGCTCGACAGTGCAAACACAATGTTAATATAGAGATGACAAAACGGAAGGAGATATGATCCATGA
ATAATTATTCAGTCAAGTAATGAGCAGCTTCTTTTCAATTGTTTAAAGTAAGCAAGATTGTGTTC
ACCCTCAAAGTATCAAAAATTAATTGAATAAATAATCATGAGCAACTACAACA
Found at i:4858848 original size:30 final size:30
Alignment explanation
Indices: 4858812--4858883 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
4858802 ACTAATAGTT
*
4858812 TAGGTACTAAAAGTGTTAAGTTTTTAATGG
1 TAGGTACTAAAAGTGTTAAGTTTTTAACGG
4858842 TAGGTACTAAAAGTGTTAAGTTTTTAACGG
1 TAGGTACTAAAAGTGTTAAGTTTTTAACGG
4858872 TAGGTACTAAAA
1 TAGGTACTAAAA
4858884 TGAAATAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (30 bp):
TAGGTACTAAAAGTGTTAAGTTTTTAACGG
Found at i:4861061 original size:31 final size:31
Alignment explanation
Indices: 4861026--4861098 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
4861016 CTCAGGCCTT
*
4861026 AATGACCACATCTTAA-CTAAATAAAAATGAA
1 AATGACCAAATCTTAATC-AAATAAAAATGAA
* *
4861057 AATGATCAAATCTTAATCATATAAAAATGAA
1 AATGACCAAATCTTAATCAAATAAAAATGAA
*
4861088 AGTGACCAAAT
1 AATGACCAAAT
4861099 ATTATGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (31 bp):
AATGACCAAATCTTAATCAAATAAAAATGAA
Found at i:4868607 original size:16 final size:16
Alignment explanation
Indices: 4868586--4868626 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
4868576 AGATAAGTTT
4868586 TAGAATAAACAAGATA
1 TAGAATAAACAAGATA
4868602 TAGAATAAACAAGATA
1 TAGAATAAACAAGATA
4868618 TAGAATAAA
1 TAGAATAAA
4868627 GCTGTGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (16 bp):
TAGAATAAACAAGATA
Found at i:4870312 original size:4 final size:4
Alignment explanation
Indices: 4870305--4870361 Score: 100
Period size: 4 Copynumber: 14.8 Consensus size: 4
4870295 TATATATATA
4870305 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4870351 TATG TATG TAT
1 TATG TATG TAT
4870362 ATAATTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
4 49 0.96
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:4870931 original size:42 final size:42
Alignment explanation
Indices: 4870852--4870931 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
4870842 TCGAGGCTGT
* * **
4870852 AAGAACGATATCGATACTTGATGAACAATATTGATACTCACA
1 AAGAACAATATCGATACTGGATGAACAATATCAATACTCACA
*
4870894 AAGAACAATATCGGTACTGGATGAACAATATCAATACT
1 AAGAACAATATCGATACTGGATGAACAATATCAATACT
4870932 AAATGCACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (42 bp):
AAGAACAATATCGATACTGGATGAACAATATCAATACTCACA
Found at i:4888390 original size:20 final size:20
Alignment explanation
Indices: 4888365--4888412 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4888355 TCAAAATCAT
*
4888365 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAA-TCCAATTTTGC
4888385 TTTTCAAAATCCAATTTTGC
1 TTTTCAAAATCCAATTTTGC
4888405 TTTT-AAAA
1 TTTTCAAAA
4888413 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATCCAATTTTGC
Found at i:4888721 original size:115 final size:115
Alignment explanation
Indices: 4888519--4888755 Score: 402
Period size: 115 Copynumber: 2.1 Consensus size: 115
4888509 ATGATAAAAG
* * * * *
4888519 ATAGGAAATGATTGGAATAGTGTTTAAGATCAATTTGTATAAATGAATGGATATAGAGGGCTCTT
1 ATAGGAAATGATTAGAATAGTGTTTAAGATCAATTTATATAAATAAATGGATATAAAGGGCACTT
* *
4888584 TGGTCTTTTAAGAGATAAAAATGAATTTAAAAATATATTAGGGATTTTAA
66 CGGTCTTTTAAGAGAGAAAAATGAATTTAAAAATATATTAGGGATTTTAA
4888634 ATAGGAAATGATTAGAATAGTGTTTAAGATCAATTTATATAAATAAATGGATATAAAGGGCACTT
1 ATAGGAAATGATTAGAATAGTGTTTAAGATCAATTTATATAAATAAATGGATATAAAGGGCACTT
*
4888699 CGGTCTTTTGAGAGAGAAAAATGAATTTAAAAATATATTAGGGATTTTAA
66 CGGTCTTTTAAGAGAGAAAAATGAATTTAAAAATATATTAGGGATTTTAA
4888749 ATAGGAA
1 ATAGGAA
4888756 GAAAGAGGAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (115 bp):
ATAGGAAATGATTAGAATAGTGTTTAAGATCAATTTATATAAATAAATGGATATAAAGGGCACTT
CGGTCTTTTAAGAGAGAAAAATGAATTTAAAAATATATTAGGGATTTTAA
Found at i:4889889 original size:55 final size:55
Alignment explanation
Indices: 4889825--4890527 Score: 931
Period size: 55 Copynumber: 12.8 Consensus size: 55
4889815 GGGAGCATTT
* *
4889825 CACGGAATTCATCCT-ACGTGGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
1 CACGGAATTCATCATGA-GTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* *
4889880 CACGGAATTCATCATGAGTTGATAAATAACCGTACATGCACTATGTGTGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* * *
4889935 CACGAAATTCATCATGAGTGGATGAATAACCGTACTGGCACTATGTGTGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
** * * * *
4889990 CACAAAATTCATCATGAGTGGATGAATAACCATATAGGCACTATGTGTACAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
** * * * *
4890045 CACAAAATTCATTATGAGTTGATGAATAACCGTACAGACACTATATATGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
** * * *
4890100 CACAAAATTCATCATGAGTTGATGAATAAACGTACATGCACTATGTGTGTAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* *
4890155 CACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTACAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* ** * ** * *
4890210 CACAGAATTCATCATGAGTTGATGAATAATTGTATAGATACTATGTATGCCAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* * *
4890265 CATGGAATTCATCATGAGTTGATGAATAACCGTACAGACATTATGTGTGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* *
4890320 CACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTTCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* * * *
4890375 CATGGAATTCATCATGAGTTGATGAATAACTGTACAAGAACTATGTGTGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
* * *
4890430 CACAGAATTCATCATGAGTTTATGAATAACCGTATAGGCACTATGTGTGCAAAAC
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
** * * *
4890485 CACAAAATTCATCATGAGTTGATGAACAACTGTATAGGCACTA
1 CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTA
4890528 CATGTGCATA
Statistics
Matches: 574, Mismatches: 73, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
55 573 1.00
56 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (55 bp):
CACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAAC
Found at i:4890777 original size:29 final size:29
Alignment explanation
Indices: 4890729--4890786 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4890719 TATGCCAGTT
* * * *
4890729 AGATGAACGGTTAAATACTGTTGAGTAAA
1 AGATGAAAGGTCAAACACTGTTGAATAAA
4890758 AGATGAAAGGTCAAACACTGTTGAATAAA
1 AGATGAAAGGTCAAACACTGTTGAATAAA
4890787 GGACTAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (29 bp):
AGATGAAAGGTCAAACACTGTTGAATAAA
Found at i:4897278 original size:15 final size:15
Alignment explanation
Indices: 4897239--4897280 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
4897229 CAATTCTTTT
4897239 TTAATCTTTATTATA
1 TTAATCTTTATTATA
* * *
4897254 TTAGTATTTATTATC
1 TTAATCTTTATTATA
4897269 TTAATCTTTATT
1 TTAATCTTTATT
4897281 CTTGATATTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (15 bp):
TTAATCTTTATTATA
Found at i:4899950 original size:28 final size:28
Alignment explanation
Indices: 4899918--4899973 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4899908 GATTCGAGGT
*
4899918 CGAATCTTTTTTAAGAGAGACATGATGA
1 CGAATCTTTTTGAAGAGAGACATGATGA
4899946 CGAATCTTTTTGAAGAGAGACATGATGA
1 CGAATCTTTTTGAAGAGAGACATGATGA
4899974 TAGATATATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (28 bp):
CGAATCTTTTTGAAGAGAGACATGATGA
Found at i:4900169 original size:35 final size:35
Alignment explanation
Indices: 4900077--4900152 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
4900067 CCAAAAAAGA
*
4900077 AGAGTTAGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4900112 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4900147 AGAGTT
1 AGAGTT
4900153 TTTTAGTACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:4900560 original size:17 final size:16
Alignment explanation
Indices: 4900523--4900563 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
4900513 TATTATATGG
4900523 ATATT-TTATTCATTC
1 ATATTATTATTCATTC
*
4900538 AT-TTATTATTCATGTT
1 ATATTATTATTCAT-TC
4900554 ATATTATTAT
1 ATATTATTAT
4900564 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 3 0.14
17 7 0.32
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (16 bp):
ATATTATTATTCATTC
Found at i:4900568 original size:2 final size:2
Alignment explanation
Indices: 4900553--4900614 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
4900543 TTATTCATGT
4900553 TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4900592 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
4900615 TTTAAATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4900892 original size:17 final size:18
Alignment explanation
Indices: 4900868--4900911 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
4900858 TATATATATA
*
4900868 TATTTTTTTATTC-TTTT
1 TATTTTTTTATTCATTAT
*
4900885 TGTTTTTTTATTCATTAT
1 TATTTTTTTATTCATTAT
4900903 TATTTTTTT
1 TATTTTTTT
4900912 TTTTAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (18 bp):
TATTTTTTTATTCATTAT
Found at i:4901132 original size:40 final size:42
Alignment explanation
Indices: 4901077--4901161 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
4901067 AAGTGAGAGG
*
4901077 ATAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATAT
1 ATAGCTTTTCTATTTTATAAATACTTTGATGTATATATATAT
*
4901117 ATAGCTTATT-TATTTTATTAATACTTTGATGTATATATATAT
1 ATAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATAT
4901159 ATA
1 ATA
4901162 TATATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 13 0.32
41 7 0.17
42 20 0.50
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (42 bp):
ATAGCTTTTCTATTTTATAAATACTTTGATGTATATATATAT
Found at i:4901155 original size:2 final size:2
Alignment explanation
Indices: 4901148--4901186 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4901138 TACTTTGATG
4901148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4901187 TTTCCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4902208 original size:10 final size:10
Alignment explanation
Indices: 4902193--4902230 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
4902183 TTTCTTGCCA
4902193 TTTTATTTAT
1 TTTTATTTAT
4902203 TTTTATTTAT
1 TTTTATTTAT
* *
4902213 TTCTATTTGT
1 TTTTATTTAT
4902223 TTTTATTT
1 TTTTATTT
4902231 TACTAACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:4905691 original size:15 final size:14
Alignment explanation
Indices: 4905673--4905741 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
4905663 ATCAAGAACA
4905673 AAAAAGAAAAGAAGC
1 AAAAAGAAAA-AAGC
*
4905688 AAAAAAGAAAAAAAC
1 -AAAAAGAAAAAAGC
* * *
4905703 AAGAACAAAAAAGA
1 AAAAAGAAAAAAGC
*
4905717 AAAGAAGAAAAAATC
1 AAA-AAGAAAAAAGC
*
4905732 AAAAGGAAAA
1 AAAAAGAAAA
4905742 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
14 18 0.43
15 14 0.33
16 10 0.24
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.01
Consensus pattern (14 bp):
AAAAAGAAAAAAGC
Found at i:4905695 original size:11 final size:10
Alignment explanation
Indices: 4905679--4905717 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
4905669 AACAAAAAAG
4905679 AAAAGAAGCAA
1 AAAAGAA-CAA
*
4905690 AAAAGAAAAA
1 AAAAGAACAA
4905700 AACAAGAACAA
1 AA-AAGAACAA
4905711 AAAAGAA
1 AAAAGAA
4905718 AAGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAGAACAA
Found at i:4905698 original size:21 final size:21
Alignment explanation
Indices: 4905674--4905722 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
4905664 TCAAGAACAA
4905674 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAAGAA-CAAAAAAG
*
4905695 AAAAAAACAAGAACAAAAAAG
1 AAAAGAACAAGAACAAAAAAG
4905716 AAAAGAA
1 AAAAGAA
4905723 GAAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAGAACAAGAACAAAAAAG
Found at i:4905706 original size:22 final size:22
Alignment explanation
Indices: 4905672--4905735 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
4905662 AATCAAGAAC
4905672 AAAAAAGAAAAGAAGCAAAAAAG
1 AAAAAAGAAAAGAA-CAAAAAAG
*
4905695 AAAAAA-ACAAGAACAAAAAAG
1 AAAAAAGAAAAGAACAAAAAAG
4905716 AAAAGAAGAAAA-AATCAAAA
1 AAAA-AAGAAAAGAA-CAAAA
4905736 GGAAAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 12 0.33
22 10 0.28
23 14 0.39
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAGAACAAAAAAG
Found at i:4905735 original size:16 final size:15
Alignment explanation
Indices: 4905669--4905736 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
4905659 TCCAATCAAG
4905669 AACAAAA-AAGAAAA
1 AACAAAAGAAGAAAA
4905683 GAAGCAAAA-AAGAAAA
1 -AA-CAAAAGAAGAAAA
* *
4905699 AA-ACAAGAACAAAA
1 AACAAAAGAAGAAAA
*
4905713 AAGAAAAGAAGAAAA
1 AACAAAAGAAGAAAA
4905728 AATCAAAAG
1 AA-CAAAAG
4905737 GAAAAGGGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.07
14 8 0.18
15 16 0.36
16 17 0.39
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.01
Consensus pattern (15 bp):
AACAAAAGAAGAAAA
Found at i:4906824 original size:18 final size:18
Alignment explanation
Indices: 4906801--4906836 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4906791 TCAACATCAA
*
4906801 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
4906819 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
4906837 GGATTCAACA
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:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:4907365 original size:36 final size:36
Alignment explanation
Indices: 4907289--4907384 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
4907279 TTCGTCGTCT
* * * *
4907289 TTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCCC
*
4907326 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCC
* *
4907362 TTGAGACAATTACTCTTGAAACA
1 TTGAGACAGTTTCTCTTGAAACA
4907385 CAAAATCTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 32 0.63
37 19 0.37
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCC
Found at i:4908291 original size:106 final size:106
Alignment explanation
Indices: 4908065--4908908 Score: 1029
Period size: 106 Copynumber: 8.0 Consensus size: 106
4908055 ATATCGCGCC
* * * * *
4908065 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGATGGTTGGTTGTCAACAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
* *
4908129 CAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CA--AT--TTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
*
4908175 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
4908240 AATTTTAGAGCCAATTTCAACTTCACATCGAAGGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * *
4908281 ACTGGGGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
4908346 AATTTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * *
4908387 ACTCAAGACAATACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATCTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
4908452 AATTTCAGAG-C-----CAA--T-A-A-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * *
4908482 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAATAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
4908547 AATTTTAGGGTCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * *
4908588 ACTCGAGAC--CATAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
4908651 GATTTCAGAGCCAATTTCAACTTCACAGT-GAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACA-TCGAAGGATATTGG
* * * *
4908692 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAATAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * *
4908757 AATTTCAGGGTCAATTTTAACTTCACATCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * * * * * *
4908798 ACTCAAGACAGCACAAGCTCAAATTTACAGCGAAGGGGCGGTTAGG-TGTCAACAAACAATTTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT-GGTTGTCAACAAACAATTTCC
* * * * *
4908862 CAGTTCCATAGCCAATTTCAACTTCACGGT-GGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCAC-ATCGAAGGATATTGG
4908904 ACTCG
1 ACTCG
4908909 GAAGAATACA
Statistics
Matches: 645, Mismatches: 71, Indels: 40
0.85 0.09 0.05
Matches are distributed among these distances:
95 78 0.12
96 2 0.00
97 1 0.00
98 1 0.00
100 3 0.00
101 3 0.00
103 1 0.00
104 95 0.15
105 4 0.01
106 394 0.61
107 3 0.00
108 1 0.00
109 5 0.01
110 54 0.08
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
Found at i:4908719 original size:305 final size:306
Alignment explanation
Indices: 4908162--4908764 Score: 983
Period size: 305 Copynumber: 2.0 Consensus size: 306
4908152 AACTTCACAG
* *
4908162 CGAAGGATATTGGACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA
1 CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
* * *
4908227 CAAACAATTTCCCAATTTTAGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTGGGGACAA
66 CAAACAATTTCCCAATTTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-A
*
4908292 CACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGT
130 CACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGC
*
4908357 CAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAATACAAGTTCAACTTCACAACGAAG
195 CAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAG
4908422 GGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAA
260 GGACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAA
*
4908469 CGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
1 CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
* * * *
4908534 TAAATAATTTCCCAATTTTAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-C
66 CAAACAATTTCCCAATTTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAC
* * *
4908598 ATAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTTCAGAGCC
131 ACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
** * *
4908663 AATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGG
196 AATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGG
* * * *
4908728 GACGGTTGGTTGTCAATAAATAATTTCCCAATTTCAG
261 GACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAG
4908765 GGTCAATTTT
Statistics
Matches: 273, Mismatches: 23, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
305 155 0.57
307 118 0.43
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (306 bp):
CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAA
CAAACAATTTCCCAATTTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAC
ACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCC
AATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGG
GACGGCTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAA
Found at i:4908740 original size:210 final size:211
Alignment explanation
Indices: 4908470--4908908 Score: 650
Period size: 210 Copynumber: 2.1 Consensus size: 211
4908460 AGCCAATAAC
4908470 GAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAT
1 GAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAT
* * *
4908535 AAATAATTTCCCAATTTTAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-CA
66 AAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGACACA
* * * * * *
4908599 TAAGTTCAACTTCACAATGAAGGGACGGCT-GGTTGTCAACAAATAATTTCCC-GATTTCAGAGC
131 CAAGCTCAAATTCACAACGAAGGGACGGCTAGG-TGTCAACAAACAATTTCCCAG-TTCCAGAGC
4908662 CAATTTCAACTTCACAGT
194 CAATTTCAACTTCACAGT
**
4908680 GAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAAT
1 GAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAT
*
4908745 AAATAATTTCCCAATTTCAGGGTCAATTTTAACTTCACATCGAAGGATATTAGACTCAAGACAGC
66 AAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGACA-C
* * * * * *
4908810 ACAAGCTCAAATTTACAGCGAAGGGGCGGTTAGGTGTCAACAAACAATTTTCCAGTTCCATAGCC
130 ACAAGCTCAAATTCACAACGAAGGGACGGCTAGGTGTCAACAAACAATTTCCCAGTTCCAGAGCC
*
4908875 AATTTCAACTTCACGGT
195 AATTTCAACTTCACAGT
*
4908892 GGAGGATATTGGACTCG
1 GAAGGATATTGGACTCG
4908909 GAAGAATACA
Statistics
Matches: 205, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
210 121 0.59
212 81 0.40
213 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (211 bp):
GAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAT
AAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGACACA
CAAGCTCAAATTCACAACGAAGGGACGGCTAGGTGTCAACAAACAATTTCCCAGTTCCAGAGCCA
ATTTCAACTTCACAGT
Found at i:4909484 original size:35 final size:35
Alignment explanation
Indices: 4909392--4909463 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4909382 CAAAAAAACA
4909392 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4909427 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
4909462 AG
1 AG
4909464 GGTTTTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:4909929 original size:2 final size:2
Alignment explanation
Indices: 4909924--4909952 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4909914 TATATTTTAT
4909924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4909953 TTCTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4910024 original size:78 final size:80
Alignment explanation
Indices: 4909940--4910090 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 80
4909930 TATATATATA
* * * *
4909940 TATATATATATATT-T-CTTTAATATTTTACTTATA-AGTCTATTATT-A-CTATATATATTC-T
1 TATATATATTTATTATACTTTAATAGTTTACTTATATA-CCTATTATTAATATATATATATTCTT
4909999 AATTATCTTTATCTAGT
65 AATTAT-TTTATCTAGT
* *
4910016 TATATATATTTTTTATACTTTAATAGTTTATTTATATACCTATTATTAATATATATATATTCTTA
1 TATATATATTTATTATACTTTAATAGTTTACTTATATACCTATTATTAATATATATATATTCTTA
4910081 ATTATTTTAT
66 ATTATTTTAT
4910091 TTGATTATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
76 12 0.19
77 1 0.02
78 25 0.40
79 2 0.03
80 16 0.25
81 7 0.11
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (80 bp):
TATATATATTTATTATACTTTAATAGTTTACTTATATACCTATTATTAATATATATATATTCTTA
ATTATTTTATCTAGT
Found at i:4910192 original size:21 final size:19
Alignment explanation
Indices: 4910142--4910193 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
4910132 TATATATATA
4910142 TATATTATTTTTTATTATTT
1 TATATT-TTTTTTATTATTT
*
4910162 T-CA-TTTTTTTATTCATTAT
1 TATATTTTTTTTATT-ATT-T
4910181 TATATTTTTTTTA
1 TATATTTTTTTTA
4910194 AAATCTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 9 0.35
18 4 0.15
19 3 0.12
20 2 0.08
21 8 0.31
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TATATTTTTTTTATTATTT
Found at i:4910407 original size:38 final size:40
Alignment explanation
Indices: 4910356--4910435 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
4910346 AGTGAGAGGG
*
4910356 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
4910394 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
4910434 TA
1 TA
4910436 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:4910431 original size:2 final size:2
Alignment explanation
Indices: 4910424--4910448 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4910414 TACTTTGATG
4910424 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4910449 TCCTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4913913 original size:23 final size:23
Alignment explanation
Indices: 4913887--4913932 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4913877 TTTTTTTTAA
4913887 TTAAGTGAAATTTCCCACCAATC
1 TTAAGTGAAATTTCCCACCAATC
4913910 TTAAGTGAAATTTCCCACCAATC
1 TTAAGTGAAATTTCCCACCAATC
4913933 AGGTGGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (23 bp):
TTAAGTGAAATTTCCCACCAATC
Found at i:4920678 original size:45 final size:44
Alignment explanation
Indices: 4920629--4920773 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 44
4920619 TGGGTAGACA
*
4920629 TGGGTCACACATCATCA-ACATCTCCCAAGTATCTCAGGCGAGGT
1 TGGGTCACACAGCAT-ATACATCTCCCAAGTATCTCAGGCGAGGT
* * *
4920673 CTGGGTCACATAGCATATGCATCTCCCAAGTATCTTAGGCGAGGT
1 -TGGGTCACACAGCATATACATCTCCCAAGTATCTCAGGCGAGGT
* * * * *
4920718 TCGGGTCACATAGCAT-TGACACCTCCCAA-TACCTTAGGCTAGGT
1 T-GGGTCACACAGCATAT-ACATCTCCCAAGTATCTCAGGCGAGGT
4920762 TCGGGTCACACA
1 T-GGGTCACACA
4920774 ACATCGACAC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
44 27 0.31
45 61 0.69
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
TGGGTCACACAGCATATACATCTCCCAAGTATCTCAGGCGAGGT
Found at i:4920769 original size:44 final size:45
Alignment explanation
Indices: 4920650--4920785 Score: 161
Period size: 45 Copynumber: 3.0 Consensus size: 45
4920640 TCATCAACAT
* * *
4920650 CTCCCAAGTATCTCAGGCGAGG-TCTGGGTCACATAGCATATG-CAT
1 CTCCCAAGTACCTTAGGCGAGGTTC-GGGTCACATAGCAT-TGACAC
*
4920695 CTCCCAAGTATCTTAGGCGAGGTTCGGGTCACATAGCATTGACAC
1 CTCCCAAGTACCTTAGGCGAGGTTCGGGTCACATAGCATTGACAC
* * * *
4920740 CTCCCAA-TACCTTAGGCTAGGTTCGGGTCACACAACATCGACAC
1 CTCCCAAGTACCTTAGGCGAGGTTCGGGTCACATAGCATTGACAC
4920784 CT
1 CT
4920786 TGTCTGGCTA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
44 36 0.44
45 44 0.54
46 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
CTCCCAAGTACCTTAGGCGAGGTTCGGGTCACATAGCATTGACAC
Found at i:4928897 original size:12 final size:12
Alignment explanation
Indices: 4928882--4928912 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4928872 GGTGGGTAAT
4928882 AAGGTATTTCTC
1 AAGGTATTTCTC
4928894 AAGGTATTTCTC
1 AAGGTATTTCTC
4928906 AAGGTAT
1 AAGGTAT
4928913 CGCATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (12 bp):
AAGGTATTTCTC
Found at i:4930740 original size:23 final size:23
Alignment explanation
Indices: 4930687--4930747 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
4930677 TAATTTTATA
* *
4930687 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
4930710 TGGCACTTTGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
4930733 TGGCACTTCGATGCA
1 TGGCACTTCGGTGCA
4930748 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4930755 original size:23 final size:23
Alignment explanation
Indices: 4930687--4930755 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
4930677 TAATTTTATA
* * * *
4930687 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGATGCAATTATACG
* * *
4930710 TGGCACTTTGGTGCAATTCTACG
1 TGGCACTTCGATGCAATTATACG
*
4930733 TGGCACTTCGATGCATTTATACG
1 TGGCACTTCGATGCAATTATACG
4930756 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGATGCAATTATACG
Found at i:4947837 original size:41 final size:41
Alignment explanation
Indices: 4947780--4947868 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
4947770 TGTACATGAA
4947780 TGTACCATACATCGAATCACTCAACCTCATGGCATGCCAAT
1 TGTACCATACATCGAATCACTCAACCTCATGGCATGCCAAT
4947821 TGTACCATACATCGAATCACTCAACCTCATGGCATGCCAAT
1 TGTACCATACATCGAATCACTCAACCTCATGGCATGCCAAT
4947862 TGTACCA
1 TGTACCA
4947869 ATAAATCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (41 bp):
TGTACCATACATCGAATCACTCAACCTCATGGCATGCCAAT
Found at i:4949997 original size:12 final size:12
Alignment explanation
Indices: 4949975--4950003 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4949965 ATTATAATAG
4949975 AAATGATAATCT
1 AAATGATAATCT
4949987 AAATGATAATCT
1 AAATGATAATCT
4949999 AAATG
1 AAATG
4950004 CTTATGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (12 bp):
AAATGATAATCT
Found at i:4955538 original size:21 final size:21
Alignment explanation
Indices: 4955513--4955613 Score: 107
Period size: 21 Copynumber: 4.7 Consensus size: 21
4955503 TTTTTGTAAG
4955513 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
*
4955534 AGTACTTTGTGTATTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
*
4955555 AGTA-TATTGTGTACTATAGTAAG-
1 AGTACT-TTGTGTACT-T-G-GAGT
* *
4955578 AGTACTTTGTATACTTTGAGT
1 AGTACTTTGTGTACTTGGAGT
*
4955599 AGTACTTTTTGTACT
1 AGTACTTTGTGTACT
4955614 ATTGCAAGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.05
21 45 0.68
22 2 0.03
23 13 0.20
24 3 0.05
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.46
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:4955586 original size:44 final size:44
Alignment explanation
Indices: 4955513--4955633 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
4955503 TTTTTGTAAG
*
4955513 AGTACTTTGTGTACT-T-G-GAGTAGTACTTTGTGTA-TTTGGAGT
1 AGTACTTTGTGTACTATAGCAAG-AGTACTTTGTGTACTTT-GAGT
* *
4955555 AGTA-TATTGTGTACTATAGTAAGAGTACTTTGTATACTTTGAGT
1 AGTACT-TTGTGTACTATAGCAAGAGTACTTTGTGTACTTTGAGT
* *
4955599 AGTACTTTTTGTACTATTGCAAGAGTACTTTGTGT
1 AGTACTTTGTGTACTATAGCAAGAGTACTTTGTGT
4955634 TTGTGTACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 13 0.19
43 1 0.01
44 46 0.69
45 6 0.09
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (44 bp):
AGTACTTTGTGTACTATAGCAAGAGTACTTTGTGTACTTTGAGT
Found at i:4955630 original size:21 final size:20
Alignment explanation
Indices: 4955564--4955631 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 20
4955554 TAGTATATTG
*
4955564 TGTACTATAGTAAGAGTACTT
1 TGTACTATTG-AAGAGTACTT
4955585 TGTA-TACTTTG-AGTAGTACTTTT
1 TGTACTA--TTGAAG-AGTAC--TT
4955608 TGTACTATTGCAAGAGTACTT
1 TGTACTATTG-AAGAGTACTT
4955629 TGT
1 TGT
4955632 GTTTGTGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
20 4 0.11
21 14 0.37
22 5 0.13
23 11 0.29
24 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (20 bp):
TGTACTATTGAAGAGTACTT
Found at i:4962084 original size:23 final size:23
Alignment explanation
Indices: 4962058--4962125 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
4962048 GTATTTTTGT
*
4962058 AAGACTACTTTGTGTACTATGGC
1 AAGAGTACTTTGTGTACTATGGC
*
4962081 AAGAGTACTTTATGTACT-T-G-
1 AAGAGTACTTTGTGTACTATGGC
*
4962101 TAGTAGTACTTTGTGTACTATGGC
1 AAG-AGTACTTTGTGTACTATGGC
4962125 A
1 A
4962126 CTTTGTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.06
21 15 0.42
22 2 0.06
23 17 0.47
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.38
Consensus pattern (23 bp):
AAGAGTACTTTGTGTACTATGGC
Found at i:4972314 original size:18 final size:19
Alignment explanation
Indices: 4972275--4972330 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
4972265 GAAACCCCTT
4972275 TGAAAATACATGAGTTTTTAA
1 TGAAAATACATGA--TTTTAA
4972296 TGAAAATACATGA-TTTAA
1 TGAAAATACATGATTTTAA
* *
4972314 TGAAAGTACATGCTTTT
1 TGAAAATACATGATTTT
4972331 GGCCAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 16 0.50
19 3 0.09
21 13 0.41
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (19 bp):
TGAAAATACATGATTTTAA
Found at i:4983814 original size:23 final size:23
Alignment explanation
Indices: 4983785--4983829 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4983775 TATAAAAACA
4983785 TAAAAAAGATGTTTTTAATATAT
1 TAAAAAAGATGTTTTTAATATAT
4983808 TAAAAAAGATGTTTTTAATATA
1 TAAAAAAGATGTTTTTAATATA
4983830 AAAATGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
TAAAAAAGATGTTTTTAATATAT
Found at i:4984467 original size:24 final size:24
Alignment explanation
Indices: 4984435--4984503 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
4984425 CATTCATTTA
*
4984435 TATGTTCGTTTATGTT-CGTTCGTT
1 TATGTTCGTTTAT-TTACGTTCATT
* *
4984459 TATGTTCGTTCATTTATGTTCATT
1 TATGTTCGTTTATTTACGTTCATT
*
4984483 TATGTTCGTTTATTTATGTTC
1 TATGTTCGTTTATTTACGTTC
4984504 GAACAGAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.05
24 38 0.95
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.59
Consensus pattern (24 bp):
TATGTTCGTTTATTTACGTTCATT
Found at i:4984497 original size:14 final size:14
Alignment explanation
Indices: 4984438--4984504 Score: 79
Period size: 14 Copynumber: 5.1 Consensus size: 14
4984428 TCATTTATAT
*
4984438 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
*
4984452 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
4984466 GTTCATTTA---T-
1 GTTCATTTATGTTC
4984476 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
4984490 GTTTATTTATGTTC
1 GTTCATTTATGTTC
4984504 G
1 G
4984505 AACAGAGGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.19
11 1 0.02
13 1 0.02
14 36 0.77
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:4984781 original size:13 final size:12
Alignment explanation
Indices: 4984767--4984812 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
4984757 TGTGTTTGTG
4984767 TTGTTCGTTTA-
1 TTGTTCGTTTAT
4984778 -TGTTCGTTTAT
1 TTGTTCGTTTAT
4984789 TGTGTTCGTTTAT
1 T-TGTTCGTTTAT
4984802 GTTCGTTCGTT
1 -TT-GTTCGTT
4984813 CGTGTTCGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.33
13 12 0.40
14 8 0.27
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.61
Consensus pattern (12 bp):
TTGTTCGTTTAT
Found at i:4984783 original size:10 final size:10
Alignment explanation
Indices: 4984768--4984808 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
4984758 GTGTTTGTGT
4984768 TGTTCGTTTA
1 TGTTCGTTTA
4984778 TGTTCGTTTA
1 TGTTCGTTTA
4984788 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
4984801 TGTTCGTT
1 TGTTCGTT
4984809 CGTTCGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 18 0.64
13 10 0.36
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:4984786 original size:23 final size:23
Alignment explanation
Indices: 4984760--4984825 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
4984750 TTTTTTTTGT
4984760 GTTTG-TGTTGTTCGTTTATGTTC
1 GTTTGTTG-TGTTCGTTTATGTTC
*
4984783 GTTTATTGTGTTCGTTTATGTTC
1 GTTTGTTGTGTTCGTTTATGTTC
*
4984806 GTTCGTTCGTGTTCGTTTAT
1 GTTTGTT-GTGTTCGTTTAT
4984826 TATTTAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.63
24 14 0.37
ACGTcount: A:0.06, C:0.11, G:0.24, T:0.59
Consensus pattern (23 bp):
GTTTGTTGTGTTCGTTTATGTTC
Found at i:4988114 original size:18 final size:17
Alignment explanation
Indices: 4988071--4988118 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
4988061 TGTCACGTTC
4988071 ATATTTTTAAA-AATAT
1 ATATTTTTAAATAATAT
4988087 ATATTTTTAAATAATAT
1 ATATTTTTAAATAATAT
*
4988104 TTATCTTTTAAATAA
1 ATAT-TTTTAAATAA
4988119 ATCAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 11 0.38
17 8 0.28
18 10 0.34
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTTTTAAATAATAT
Found at i:4991569 original size:18 final size:17
Alignment explanation
Indices: 4991515--4991563 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
4991505 TTGGACACTT
* *
4991515 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
4991533 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
4991551 AGTGCATTCGATG
1 AGTGCA-TCGATG
4991564 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:4992275 original size:20 final size:19
Alignment explanation
Indices: 4992247--4992290 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4992237 AAAACCAGTA
* *
4992247 AAAAGATATATATCTTTTT
1 AAAACATATATATATTTTT
4992266 -AAACATATATATATTTTT
1 AAAACATATATATATTTTT
4992284 AAAACAT
1 AAAACAT
4992291 GATCACTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAACATATATATATTTTT
Found at i:4992531 original size:41 final size:41
Alignment explanation
Indices: 4992463--4992540 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
4992453 GATATCAGAA
*
4992463 ATCAAAACAGAATTCAGATCAGGTATCAGAACAGAATCCAG
1 ATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAG
* * * * *
4992504 ATCAAAACAGAATTTAGGTCATATATCATAATAGAAT
1 ATCAAAACAGAATTCAGATCAGATATCAGAACAGAAT
4992541 TCAAGTCAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (41 bp):
ATCAAAACAGAATTCAGATCAGATATCAGAACAGAATCCAG
Found at i:4997268 original size:24 final size:24
Alignment explanation
Indices: 4997213--4997270 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4997203 AATATGAATT
* *
4997213 AGAAATTAGAACAGAATTCAGGTC
1 AGAAATCAGAACAGAATTCAAGTC
* *
4997237 ATATATCAGAACAGAATTCAAGTC
1 AGAAATCAGAACAGAATTCAAGTC
*
4997261 GGAAATCAGA
1 AGAAATCAGA
4997271 TAAAATATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (24 bp):
AGAAATCAGAACAGAATTCAAGTC
Found at i:4999638 original size:6 final size:6
Alignment explanation
Indices: 4999627--4999658 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4999617 CTTTTCGGTT
4999627 AAAGTC AAAGTC AAAGTC AAAGTC AAAGTC AA
1 AAAGTC AAAGTC AAAGTC AAAGTC AAAGTC AA
4999659 TGGGTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAGTC
Found at i:5008239 original size:21 final size:21
Alignment explanation
Indices: 5008213--5008295 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
5008203 TTTGGTGCAG
* *
5008213 AGGGAATCGATCCCCCCCATA
1 AGGGAACCGATTCCCCCCATA
**
5008234 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCCAT-A
* *
5008256 ATAGGAACCGATTCCCCCCACA
1 A-GGGAACCGATTCCCCCCATA
* * *
5008278 GGGGAATCGATACCCCCC
1 AGGGAACCGATTCCCCCC
5008296 TGGGGTTCTG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 30 0.62
22 3 0.06
23 15 0.31
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.16
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCCATA
Found at i:5018789 original size:36 final size:36
Alignment explanation
Indices: 5018741--5018845 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 36
5018731 CTGAACCTAT
* *
5018741 ATAAGAAATTACCAGTTTG-TTCGAGCTGAACATGCC
1 ATAAGGAATTACCAGTTTGATT-GAGCTGAACATGAC
* * *
5018777 GTAAGGAATTACCAGTTTGATTG-GTCTGAAC-TTAT
1 ATAAGGAATTACCAGTTTGATTGAG-CTGAACATGAC
*
5018812 ATAAAGAATTACCAGTTTGATTGAGCTGAACATG
1 ATAAGGAATTACCAGTTTGATTGAGCTGAACATG
5018846 TAGAGACTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
35 29 0.51
36 26 0.46
37 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
ATAAGGAATTACCAGTTTGATTGAGCTGAACATGAC
Found at i:5018827 original size:71 final size:71
Alignment explanation
Indices: 5018706--5018845 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
5018696 CCTTAGATCT
5018706 GTAAAGAATTACCAATTCGATCGGTCTGAACCTATATAAGAAATTACCAGTTTG-TTCGAGCTGA
1 GTAAAGAATTACCAATTCGATCGGTCTGAACCTATATAAGAAATTACCAGTTTGATT-GAGCTGA
5018770 ACATGCC
65 ACATGCC
* * * * *
5018777 GTAAGGAATTACCAGTTTGATTGGTCTGAACTTATATAA-AGAATTACCAGTTTGATTGAGCTGA
1 GTAAAGAATTACCAATTCGATCGGTCTGAACCTATATAAGA-AATTACCAGTTTGATTGAGCTGA
5018841 ACATG
65 ACATG
5018846 TAGAGACTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
70 1 0.02
71 59 0.95
72 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (71 bp):
GTAAAGAATTACCAATTCGATCGGTCTGAACCTATATAAGAAATTACCAGTTTGATTGAGCTGAA
CATGCC
Found at i:5024936 original size:14 final size:14
Alignment explanation
Indices: 5024917--5024945 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5024907 TACAATCTCA
5024917 ACATATATTGTTGT
1 ACATATATTGTTGT
5024931 ACATATATTGTTGT
1 ACATATATTGTTGT
5024945 A
1 A
5024946 TGTTTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
ACATATATTGTTGT
Found at i:5027890 original size:21 final size:21
Alignment explanation
Indices: 5027866--5027912 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5027856 TTGGATCAAA
*
5027866 GCTTTAT-TCCTTTGATTTGTT
1 GCTTTATAT-CTTTAATTTGTT
*
5027887 GCTTCATATCTTTAATTTGTT
1 GCTTTATATCTTTAATTTGTT
*
5027908 TCTTT
1 GCTTT
5027913 TGTTCTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.62
Consensus pattern (21 bp):
GCTTTATATCTTTAATTTGTT
Done.