Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 72 of 89
Found at i:17166791 original size:29 final size:29
Alignment explanation
Indices: 17166749--17166815 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
17166739 ACAAGCCTTA
* * *
17166749 GAAAAATTGAGGATCATTTTGTAATTTTT
1 GAAAAATTGAGGATAAATTTGTAAATTTT
*
17166778 GAAAAATTGGGGATAAATTTGTAAATTTT
1 GAAAAATTGAGGATAAATTTGTAAATTTT
*
17166807 GGAAAATTG
1 GAAAAATTG
17166816 TTGAAGAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.39
Consensus pattern (29 bp):
GAAAAATTGAGGATAAATTTGTAAATTTT
Found at i:17167976 original size:45 final size:45
Alignment explanation
Indices: 17167893--17167991 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
17167883 GTTATGGAAT
*
17167893 AATGGTAAGTGTATTGGTAAAATAAGCTTACGACCTTATG-GTATTA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGACCTTATGTG-A-TA
*
17167939 AATGGTAAGTATATTGGT-AAATAAGCTTACGAGCTTATGTGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGACCTTATGTGATA
17167983 AATGGTAAG
1 AATGGTAAG
17167992 AGATTTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
44 11 0.22
45 21 0.42
46 18 0.36
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.33
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGACCTTATGTGATA
Found at i:17172338 original size:11 final size:11
Alignment explanation
Indices: 17172317--17172356 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
17172307 AAAGGAAAAG
17172317 TTAAGAAGAATT
1 TTAA-AAGAATT
17172329 TTAAAAGAATT
1 TTAAAAGAATT
17172340 TTAAAAGAATT
1 TTAAAAGAATT
*
17172351 TGAAAA
1 TTAAAA
17172357 TAATAGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (11 bp):
TTAAAAGAATT
Found at i:17191785 original size:29 final size:29
Alignment explanation
Indices: 17191706--17191785 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
17191696 CAATATATAG
* **
17191706 CTTTTCAAAATTACAATTTTAGTTTTTAAA
1 CTTTTCAAAATTAC-ATTTTAGCTGCTAAA
* * *
17191736 CTTTTCAAAGTTTATACTTTAGCTGCTAAA
1 CTTTTCAAA-ATTACATTTTAGCTGCTAAA
17191766 C-TTTCAAAACTTACATTTTA
1 CTTTTCAAAA-TTACATTTTA
17191786 TCACTAGCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 15 0.38
30 21 0.54
31 3 0.08
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (29 bp):
CTTTTCAAAATTACATTTTAGCTGCTAAA
Found at i:17193355 original size:25 final size:26
Alignment explanation
Indices: 17193313--17193378 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
17193303 TAAAAGAGCT
* *
17193313 AATAAATATCTTCTAATAAAAGATGA
1 AATAAATCTCTTTTAATAAAAGATGA
17193339 AAT-AATCTCTTTTAATAAAAGATGA
1 AATAAATCTCTTTTAATAAAAGATGA
* *
17193364 ATTAAATTTCTTTTA
1 AATAAATCTCTTTTA
17193379 TCTTTATCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.63
26 13 0.37
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (26 bp):
AATAAATCTCTTTTAATAAAAGATGA
Found at i:17196251 original size:14 final size:14
Alignment explanation
Indices: 17196232--17196258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17196222 CTTCGGTACC
17196232 TGCCGACTGGTGAT
1 TGCCGACTGGTGAT
17196246 TGCCGACTGGTGA
1 TGCCGACTGGTGA
17196259 ATTGAAATTG
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:0.15, C:0.22, G:0.37, T:0.26
Consensus pattern (14 bp):
TGCCGACTGGTGAT
Found at i:17198804 original size:21 final size:21
Alignment explanation
Indices: 17198780--17198819 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17198770 TTTACTCATG
*
17198780 CGATGGGTGCATCTTTTCCCT
1 CGATGAGTGCATCTTTTCCCT
17198801 CGATGAGTGCATCTTTTCC
1 CGATGAGTGCATCTTTTCC
17198820 TTCTCCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.38
Consensus pattern (21 bp):
CGATGAGTGCATCTTTTCCCT
Found at i:17206406 original size:24 final size:23
Alignment explanation
Indices: 17206379--17206423 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
17206369 CTTGAATATC
17206379 TTAATAATTTTTTATATTTTTAAT
1 TTAAT-ATTTTTTATATTTTTAAT
*
17206403 TTAATTTTTTTTATATTTTTA
1 TTAATATTTTTTATATTTTTA
17206424 TAAACAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTAATATTTTTTATATTTTTAAT
Found at i:17211596 original size:16 final size:17
Alignment explanation
Indices: 17211577--17211610 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17211567 ATTAAGGTTG
*
17211577 ATAGAA-ATTGAGACAA
1 ATAGAATATTAAGACAA
17211593 ATAGAATATTAAGACAA
1 ATAGAATATTAAGACAA
17211610 A
1 A
17211611 ACAAGATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.15, T:0.21
Consensus pattern (17 bp):
ATAGAATATTAAGACAA
Found at i:17220697 original size:32 final size:32
Alignment explanation
Indices: 17220677--17220750 Score: 109
Period size: 29 Copynumber: 2.4 Consensus size: 32
17220667 TTTATTCACT
17220677 TATATATATATATATTATACATTATATATATA
1 TATATATATATATATTATACATTATATATATA
* *
17220709 TATGTATATATATATTAT-C--TATACATATA
1 TATATATATATATATTATACATTATATATATA
17220738 TATATATATATAT
1 TATATATATATAT
17220751 TATTTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 21 0.54
31 1 0.03
32 17 0.44
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (32 bp):
TATATATATATATATTATACATTATATATATA
Found at i:17220770 original size:2 final size:2
Alignment explanation
Indices: 17220677--17220750 Score: 91
Period size: 2 Copynumber: 38.5 Consensus size: 2
17220667 TTTATTCACT
* *
17220677 TA TA TA TA TA TA TA T- TA TA CA T- TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
17220717 TA TA TA T- TA TC TA TA CA 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 T
17220751 TATTTTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17220861 original size:19 final size:20
Alignment explanation
Indices: 17220819--17220858 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17220809 CTTTATACTC
*
17220819 ATATAATTATTTATTTTTTA
1 ATATAATTATTTATTTTCTA
17220839 ATAT-ATTATATTATTTTCTA
1 ATATAATTAT-TTATTTTCTA
17220859 TATGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATAATTATTTATTTTCTA
Found at i:17221638 original size:165 final size:166
Alignment explanation
Indices: 17221365--17221695 Score: 655
Period size: 165 Copynumber: 2.0 Consensus size: 166
17221355 TAAAAAATAA
17221365 GACTCGTACACATACTAGAGTAGTCGCTCCTATCTTATAGGGCAATACATTAATATTGATCATTT
1 GACTCGTACACATACTAGAGTAGTCGCTCCTATCTTATAGGGCAATACATTAATATTGATCATTT
17221430 TTACATAGCTAGGGACCTTAGTCTAGAGTACATTGGAAATGATAATGGGCATGAATCCATCTCCA
66 TTACATAGCTAGGGACCTTAGTCTAGAGTACATTGGAAATGATAATGGGCATGAATCCATCTCCA
17221495 CTCGCTACCAATTAGGATCGAGTGTTCTCCATCTCG
131 CTCGCTACCAATTAGGATCGAGTGTTCTCCATCTCG
17221531 GACTCGTACACATACTAGAGTAGTCGCTCCTATCTTATA-GGCAATACATTAATATTGATCATTT
1 GACTCGTACACATACTAGAGTAGTCGCTCCTATCTTATAGGGCAATACATTAATATTGATCATTT
17221595 TTACATAGCTAGGGACCTTAGTCTAGAGTACATTGGAAATGATAATGGGCATGAATCCATCTCCA
66 TTACATAGCTAGGGACCTTAGTCTAGAGTACATTGGAAATGATAATGGGCATGAATCCATCTCCA
17221660 CTCGCTACCAATTAGGATCGAGTGTTCTCCATCTCG
131 CTCGCTACCAATTAGGATCGAGTGTTCTCCATCTCG
17221696 ACTATCTCGA
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 126 0.76
166 39 0.24
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (166 bp):
GACTCGTACACATACTAGAGTAGTCGCTCCTATCTTATAGGGCAATACATTAATATTGATCATTT
TTACATAGCTAGGGACCTTAGTCTAGAGTACATTGGAAATGATAATGGGCATGAATCCATCTCCA
CTCGCTACCAATTAGGATCGAGTGTTCTCCATCTCG
Found at i:17224711 original size:2 final size:2
Alignment explanation
Indices: 17224704--17224740 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17224694 AAACCAAATT
17224704 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 T
17224741 TAAGTTCAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17224806 original size:14 final size:15
Alignment explanation
Indices: 17224787--17224815 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17224777 TCAAGCATTT
17224787 AACAATCCA-AAACA
1 AACAATCCAGAAACA
17224801 AACAATCCAGAAACA
1 AACAATCCAGAAACA
17224816 TCAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:17226780 original size:23 final size:21
Alignment explanation
Indices: 17226750--17226829 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
17226740 GCATGGCCTT
17226750 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAA-G
* * *
17226772 CGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCAAG
*
17226794 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTCAAG
*
17226815 TATGCATCGATGCAC
1 -GTGCATCGATGCAC
17226830 TGTTAGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 17 0.36
22 13 0.28
23 17 0.36
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAAG
Found at i:17226804 original size:44 final size:42
Alignment explanation
Indices: 17226754--17226848 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
17226744 GGCCTTGTGC
* *
17226754 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAA-GCATGCATCGATGCA-CTGTCA-GGTGT
* *
17226798 ATCGATGCACATTCAAGTATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGCATGCATCGATGCACTGTCAGGTGT
17226840 ATCGATGCA
1 ATCGATGCA
17226849 TTAAGCACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 16 0.35
43 14 0.30
44 16 0.35
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
ATCGATGCACATTCAAGCATGCATCGATGCACTGTCAGGTGT
Found at i:17232664 original size:45 final size:45
Alignment explanation
Indices: 17232579--17232666 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
17232569 AAAATAGCCA
* * * *
17232579 GAGTGCATCGATGCATGGTTTATGCTTCTATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTATATGCATCGATGCATAAAATGCACT
* *
17232624 GAGTGCATCGATGCATGGTATGTGCATCGATGCGTAAAATGCA
1 GAGTGCATCGATGCATGGTATATGCATCGATGCATAAAATGCA
17232667 TTCGATGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (45 bp):
GAGTGCATCGATGCATGGTATATGCATCGATGCATAAAATGCACT
Found at i:17236862 original size:2 final size:2
Alignment explanation
Indices: 17236855--17236886 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17236845 AGTTATTTTC
17236855 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
17236887 TATCTATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17238174 original size:22 final size:21
Alignment explanation
Indices: 17238137--17238178 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17238127 CCATCTCCAT
17238137 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
17238158 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
17238179 TTTCGTAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:17239952 original size:16 final size:16
Alignment explanation
Indices: 17239931--17239966 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17239921 CCGTGAGGAA
17239931 CTTAAGGCAACTTCAC
1 CTTAAGGCAACTTCAC
17239947 CTTAAGGCAACTTCAC
1 CTTAAGGCAACTTCAC
17239963 CTTA
1 CTTA
17239967 CCCTAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (16 bp):
CTTAAGGCAACTTCAC
Found at i:17241139 original size:29 final size:30
Alignment explanation
Indices: 17241082--17241147 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
17241072 ACAAGCCTTA
* * * *
17241082 GAAAAATTGGGGATCATTTCTTAAGTTTT-
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
*
17241111 GAAAAGTTGGGGATAAATTCGTAAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
17241141 GAAAAAT
1 GAAAAAT
17241148 GATGAAGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCGTAAATTTTG
Found at i:17242376 original size:47 final size:45
Alignment explanation
Indices: 17242280--17242404 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
17242270 GTAAGTATGC
* * *
17242280 AAATAAGCTTACAAGCTTAT-GAAT-GATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
* * *
17242323 AAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGATA
*
17242370 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
17242405 AGATTTTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 18 0.26
44 3 0.04
45 11 0.16
46 1 0.01
47 37 0.53
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:17253683 original size:21 final size:21
Alignment explanation
Indices: 17253657--17253707 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
17253647 ATAAGAAGCG
* *
17253657 AGAAGAGGATCTGGAGGAAGA
1 AGAAGAGGACCCGGAGGAAGA
17253678 AGAAGAGGACCCGGAGGAAGA
1 AGAAGAGGACCCGGAGGAAGA
17253699 AGAAGAGGA
1 AGAAGAGGA
17253708 AGAAGAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.43, T:0.04
Consensus pattern (21 bp):
AGAAGAGGACCCGGAGGAAGA
Found at i:17253708 original size:12 final size:12
Alignment explanation
Indices: 17253691--17253716 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17253681 AGAGGACCCG
17253691 GAGGAAGAAGAA
1 GAGGAAGAAGAA
17253703 GAGGAAGAAGAA
1 GAGGAAGAAGAA
17253715 GA
1 GA
17253717 TCCGGAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:17257869 original size:15 final size:15
Alignment explanation
Indices: 17257845--17257874 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17257835 CAGTCACTTT
17257845 ATTGAGATGTTACAA
1 ATTGAGATGTTACAA
*
17257860 ATTGATATGTTACAA
1 ATTGAGATGTTACAA
17257875 TGTGGTCACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (15 bp):
ATTGAGATGTTACAA
Found at i:17259379 original size:22 final size:22
Alignment explanation
Indices: 17259354--17259398 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17259344 TAGGTTTTAA
17259354 CCCATTTGACTTTATTCCTTCT
1 CCCATTTGACTTTATTCCTTCT
17259376 CCCATTTGACTTTATTCCTTCT
1 CCCATTTGACTTTATTCCTTCT
17259398 C
1 C
17259399 GTAGCTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.04, T:0.49
Consensus pattern (22 bp):
CCCATTTGACTTTATTCCTTCT
Found at i:17259883 original size:43 final size:43
Alignment explanation
Indices: 17259822--17259908 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
17259812 GTCAAACAAG
17259822 TAAATAAAATCTTAAGGGCAAATTTTTCATGTAGTAACTAGCT
1 TAAATAAAATCTTAAGGGCAAATTTTTCATGTAGTAACTAGCT
17259865 TAAATAAAATCTTAAGGGCAAATTTTTCATGTAGTAACTAGCT
1 TAAATAAAATCTTAAGGGCAAATTTTTCATGTAGTAACTAGCT
17259908 T
1 T
17259909 TCTTAGTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (43 bp):
TAAATAAAATCTTAAGGGCAAATTTTTCATGTAGTAACTAGCT
Found at i:17261525 original size:211 final size:211
Alignment explanation
Indices: 17261113--17261541 Score: 817
Period size: 211 Copynumber: 2.0 Consensus size: 211
17261103 AAGAAAAAAC
17261113 TTTCAATCTTCTTCTTGTTTCCGTGAACTCCATAGCCAAATGTAAGAAGTTTTCATTTTCAATTT
1 TTTCAATCTTCTTCTTGTTTCCGTGAACTCCATAGCCAAATGTAAGAAGTTTTCATTTTCAATTT
17261178 TAAGCTTGAATATTTGATTTTTGGATTAAGACATGAAATAGAGAATTAATCTACATTAAATTTCT
66 TAAGCTTGAATATTTGATTTTTGGATTAAGACATGAAATAGAGAATTAATCTACATTAAATTTCT
17261243 ATCAATGGTACAACTAGTTCATGATTTTCTTGCTTGGAACATTGGTTTCATGAAAAGGGTGTGAA
131 ATCAATGGTACAACTAGTTCATGATTTTCTTGCTTGGAACATTGGTTTCATGAAAAGGGTGTGAA
17261308 TGAAGGGGAGATTGAA
196 TGAAGGGGAGATTGAA
17261324 TTTCAATCTTCTTCTTGTTTCCGTGAACTCCATAGCCAAATGTAAGAAGTTTTCATTTTCAATTT
1 TTTCAATCTTCTTCTTGTTTCCGTGAACTCCATAGCCAAATGTAAGAAGTTTTCATTTTCAATTT
17261389 TAAGCTTGAATATTTGATTTTTGGATTAAGACATGAAATAGAGAATTAATCTACATTAAATTTTC
66 TAAGCTTGAATATTTGATTTTTGGATTAAGACATGAAATAGAGAATTAATCTACATTAAA-TTTC
17261454 TATCAATTGGTACAACTAGTTCATGATTTTCTTGCTTGGAACATTGGTTTCATGAAAA-GG-GTG
130 TATCAA-TGGTACAACTAGTTCATGATTTTCTTGCTTGGAACATTGGTTTCATGAAAAGGGTGTG
*
17261517 AGTGAAGGGGAGATTGAA
194 AATGAAGGGGAGATTGAA
17261535 TTTCAAT
1 TTTCAAT
17261542 GAAATAAAGT
Statistics
Matches: 215, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
211 152 0.71
212 12 0.06
213 51 0.24
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (211 bp):
TTTCAATCTTCTTCTTGTTTCCGTGAACTCCATAGCCAAATGTAAGAAGTTTTCATTTTCAATTT
TAAGCTTGAATATTTGATTTTTGGATTAAGACATGAAATAGAGAATTAATCTACATTAAATTTCT
ATCAATGGTACAACTAGTTCATGATTTTCTTGCTTGGAACATTGGTTTCATGAAAAGGGTGTGAA
TGAAGGGGAGATTGAA
Found at i:17265425 original size:197 final size:197
Alignment explanation
Indices: 17265090--17265483 Score: 734
Period size: 197 Copynumber: 2.0 Consensus size: 197
17265080 TTTACAATCG
* * *
17265090 AGTCGTAACTTTATTTAAAATGTTGGTATGTATATTTTGATATATTTATTTTGGGAGCTCCTGAT
1 AGTCGTAACTTTATTTAAAATGTTGGTATATATATTTTGAGATATTTATTTTGGGAGCTCCCGAT
17265155 GTAAACATCTTTTATATAATTATGGTTGACTTATTTTACCTTGAATTTTTTTAAGTAGTCATTTT
66 GTAAACATCTTTTATATAATTATGGTTGACTTATTTTACCTTGAATTTTTTTAAGTAGTCATTTT
* *
17265220 AATGAGAAATCAAAGAAAAGTTTTTTGTCAGCCACTCTAGTGGTTCCGTGTGGTATTCTAATTGG
131 AATGAGAAATCAAAGAAAAGTTTTTTGTCAGCCACTCCAGTGGTTCCGTGTGGTATTCCAATTGG
17265285 TT
196 TT
17265287 AGTCGTAACTTTATTTAAAATGTTGGTATATATATTTTGAGATATTTATTTTGGGAGCTCCCGAT
1 AGTCGTAACTTTATTTAAAATGTTGGTATATATATTTTGAGATATTTATTTTGGGAGCTCCCGAT
*
17265352 GTAAACATGTTTTATATAATTATGGTTGACTTATTTTACCTTGAATTTTTTTAAGTAGTCATTTT
66 GTAAACATCTTTTATATAATTATGGTTGACTTATTTTACCTTGAATTTTTTTAAGTAGTCATTTT
17265417 AATGAGAAATCAAAGAAAAGTTTTTTGTCAGCCACTCCAGTGGTTCCGTGTGGTATTCCAATTGG
131 AATGAGAAATCAAAGAAAAGTTTTTTGTCAGCCACTCCAGTGGTTCCGTGTGGTATTCCAATTGG
17265482 TT
196 TT
17265484 GTGTGTGTGT
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
197 191 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (197 bp):
AGTCGTAACTTTATTTAAAATGTTGGTATATATATTTTGAGATATTTATTTTGGGAGCTCCCGAT
GTAAACATCTTTTATATAATTATGGTTGACTTATTTTACCTTGAATTTTTTTAAGTAGTCATTTT
AATGAGAAATCAAAGAAAAGTTTTTTGTCAGCCACTCCAGTGGTTCCGTGTGGTATTCCAATTGG
TT
Found at i:17271000 original size:54 final size:54
Alignment explanation
Indices: 17270935--17271546 Score: 771
Period size: 54 Copynumber: 11.4 Consensus size: 54
17270925 CTATGTGTAC
*
17270935 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * * *
17270989 TATCGACACTAAGTGTGCAACCCAAGTAATTCATAATATGTTTATGAATGATCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
*
17271043 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCA
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* *
17271097 TATCG--AC--A-TGTGCAACCCAAGAAATTCATAATATGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * *
17271146 TATTGGCACTAAGTGTGCAACCCAC-ATAATTCATAATATGTTTATGAACGACCA
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCG
* * * *
17271200 TATCG-CACTAAGTGTGCAATCCACGTAATTCATAATACGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
*
17271253 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
* * *
17271307 TATCGGCACTAAGTGTGCAACCCAC-ATAATTTATAATATGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCG
* *
17271361 TATCAACACTAAGTGTACAACCCAC-AGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCG
* *
17271415 TATCGACACTAAGTGTGTAACCCAC-AGAATTCATAATATGTTTATGAACAACCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCG
* * * * * * * * ** *
17271469 TATTGGCATTATGTGTGCAACCTATGAAATTCACAATGA-GTTTGTGAATAATCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAAT-ATGTTTATGAACGACCG
*
17271523 TATCGACACTATA-TGTGCACCCCA
1 TATCGACACTA-AGTGTGCAACCCA
17271547 AGGATTTCAA
Statistics
Matches: 488, Mismatches: 58, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
49 42 0.09
50 1 0.00
51 2 0.00
52 2 0.00
53 49 0.10
54 390 0.80
55 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
Found at i:17279839 original size:20 final size:21
Alignment explanation
Indices: 17279801--17279839 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17279791 CATCAAGGTC
*
17279801 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCATGAAATCT
*
17279822 TTTGTCGAAGGCAT-AAAT
1 TTTGTCGAAGCCATGAAAT
17279840 TCATGTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Found at i:17282112 original size:18 final size:17
Alignment explanation
Indices: 17282078--17282130 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
17282068 CTATTTTTTC
*
17282078 AAAAAAAAAGGTAAAAA
1 AAAAAAAAAGGCAAAAA
17282095 AAAACAAAAAGGCCAAAATTA
1 AAAA-AAAAAGG-CAAAA--A
*
17282116 AAAAAAAAATGCAAA
1 AAAAAAAAAGGCAAA
17282131 TGAAGGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 8 0.27
20 6 0.20
21 5 0.17
ACGTcount: A:0.75, C:0.08, G:0.09, T:0.08
Consensus pattern (17 bp):
AAAAAAAAAGGCAAAAA
Found at i:17288114 original size:47 final size:47
Alignment explanation
Indices: 17288045--17288203 Score: 254
Period size: 47 Copynumber: 3.5 Consensus size: 47
17288035 TATTTTTTTC
* * *
17288045 CCATAAGCTCATAAGCTTATTTTACCAAAATACTTACCATTTGAATT
1 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
17288092 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
1 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
*
17288139 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCA-TT--ATT
1 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
17288183 -CATAAGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
17288204 GCATACTTAC
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
43 21 0.19
44 3 0.03
46 2 0.02
47 82 0.76
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (47 bp):
CCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
Found at i:17295204 original size:47 final size:47
Alignment explanation
Indices: 17295135--17295293 Score: 236
Period size: 47 Copynumber: 3.5 Consensus size: 47
17295125 TATTTTTTTC
* * * *
17295135 CCATAAGCTCGTAAGCTTATTTTACCAAAATACTTAACATTTGAATT
1 CCATAAGCTTGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
*
17295182 CCATAAGCTTGTAAGCTTATTTTATGAATATACTTACCATTTGAATT
1 CCATAAGCTTGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
*
17295229 CCATAAGCTTGTAAGCTTATTTTATCAATATACTTGCCA-TT--ATT
1 CCATAAGCTTGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
17295273 -CATAAGCTTGTAAGCTTATTT
1 CCATAAGCTTGTAAGCTTATTT
17295294 GCATACTTAC
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
43 21 0.20
44 3 0.03
46 2 0.02
47 79 0.75
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (47 bp):
CCATAAGCTTGTAAGCTTATTTTATCAATATACTTACCATTTGAATT
Found at i:17299483 original size:40 final size:40
Alignment explanation
Indices: 17299423--17299504 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
17299413 ACTGTAGTGC
*
17299423 TACACATAAGGTCGTTCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
17299463 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
17299503 TA
1 TA
17299505 TAAACCTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:17301787 original size:20 final size:21
Alignment explanation
Indices: 17301762--17301803 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17301752 ATAATAAATC
17301762 AGAATGTAT-GTATGTGAGTT
1 AGAATGTATGGTATGTGAGTT
*
17301782 AGAATGTATGGTATGTTAGTT
1 AGAATGTATGGTATGTGAGTT
17301803 A
1 A
17301804 TTCGATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (21 bp):
AGAATGTATGGTATGTGAGTT
Found at i:17302047 original size:21 final size:22
Alignment explanation
Indices: 17302002--17302054 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
17301992 ATTAATATTC
17302002 CATTCAAGC-TTCTAACAACAT
1 CATTCAAGCATTCTAACAACAT
* *
17302023 -ATTCAATCATTCTAACAA-TT
1 CATTCAAGCATTCTAACAACAT
17302043 CATTCAAGCATT
1 CATTCAAGCATT
17302055 AAACAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (22 bp):
CATTCAAGCATTCTAACAACAT
Found at i:17306317 original size:12 final size:12
Alignment explanation
Indices: 17306300--17306325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17306290 AAGAATAAAA
17306300 AATGGAAATAAT
1 AATGGAAATAAT
17306312 AATGGAAATAAT
1 AATGGAAATAAT
17306324 AA
1 AA
17306326 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (12 bp):
AATGGAAATAAT
Found at i:17307233 original size:17 final size:17
Alignment explanation
Indices: 17307211--17307246 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17307201 GCAAAATGAA
*
17307211 GACTCAACAAAGATAAT
1 GACTCAACAAAGAGAAT
*
17307228 GACTCATCAAAGAGAAT
1 GACTCAACAAAGAGAAT
17307245 GA
1 GA
17307247 AGCAAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (17 bp):
GACTCAACAAAGAGAAT
Found at i:17308029 original size:2 final size:2
Alignment explanation
Indices: 17308022--17308071 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
17308012 ACAACAACAA
17308022 AT AT AT AT 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 AT AT AT AT
17308064 AT AT AT AT
1 AT AT AT AT
17308072 TACATGTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17308192 original size:20 final size:19
Alignment explanation
Indices: 17308149--17308185 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17308139 CAAAGCAAAG
17308149 TTTATTTTTACATTTGGTC
1 TTTATTTTTACATTTGGTC
17308168 TTTATTTTT-CAGTTTGGT
1 TTTATTTTTACA-TTTGGT
17308186 ATTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.65
Consensus pattern (19 bp):
TTTATTTTTACATTTGGTC
Found at i:17309123 original size:21 final size:23
Alignment explanation
Indices: 17309099--17309140 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17309089 CATATTCTGG
17309099 TATTT-TAAA-AAATATATATCT
1 TATTTATAAATAAATATATATCT
*
17309120 TATTTATAAATATATATATAT
1 TATTTATAAATAAATATATAT
17309141 TACTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTATAAATAAATATATATCT
Found at i:17309379 original size:2 final size:2
Alignment explanation
Indices: 17309372--17309403 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17309362 AAAACCCTAA
17309372 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
17309404 TTAATACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17309912 original size:21 final size:22
Alignment explanation
Indices: 17309872--17309913 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
17309862 GAAATTGAGA
* *
17309872 ATTCATTTTTATTTAATTTATG
1 ATTCATTTCTATTCAATTTATG
17309894 ATTCATTTCT-TTCAATTTAT
1 ATTCATTTCTATTCAATTTAT
17309914 TTTATACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTCATTTCTATTCAATTTATG
Found at i:17311449 original size:6 final size:7
Alignment explanation
Indices: 17311419--17311454 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
17311409 CATACATGTA
17311419 TTTGCAT
1 TTTGCAT
17311426 TTTGCAT
1 TTTGCAT
17311433 CTTTGCAT
1 -TTTGCAT
17311441 TTT-CAT
1 TTTGCAT
17311447 TTTGCAT
1 TTTGCAT
17311454 T
1 T
17311455 CGTACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (7 bp):
TTTGCAT
Found at i:17313790 original size:72 final size:72
Alignment explanation
Indices: 17313673--17313816 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
17313663 ATACAATAAA
* * *
17313673 GCTTGAGTTATCCCCCTAAAGCAATTGTTTAATCGCCCTAGCTTTATGGATAATATTCAGCTAGC
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTAGCTTTATGGATAACATTCAGCTAGC
*
17313738 CTGTTAT
66 CTATTAT
* * * * * *
17313745 GCTTGAGTTGTCCCTCTAGAGCAATTGGTTAGTAGCCTTGGCTTTATGGATAACATTCAGCTAGC
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTAGCTTTATGGATAACATTCAGCTAGC
17313810 CTATTAT
66 CTATTAT
17313817 ACTATTAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCTAGCTTTATGGATAACATTCAGCTAGC
CTATTAT
Found at i:17313908 original size:10 final size:10
Alignment explanation
Indices: 17313893--17313917 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17313883 TTTCAAATAG
17313893 AAAAAAGAAA
1 AAAAAAGAAA
17313903 AAAAAAGAAA
1 AAAAAAGAAA
17313913 AAAAA
1 AAAAA
17313918 GAGATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:17315403 original size:76 final size:75
Alignment explanation
Indices: 17315236--17315473 Score: 359
Period size: 75 Copynumber: 3.2 Consensus size: 75
17315226 GAAAATGTTA
17315236 GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAACGTTTGTATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAACGTTTGTATCA
**
17315301 GCAAATGTTG
66 GCAAATAATG
** *
17315311 GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGAAACAATTTTGAATGTTTGTATC
1 GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGC-ATTTTGAACGTTTGTATC
17315376 AGCAAATAATG
65 AGCAAATAATG
* * **
17315387 GGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATATTGACGCATTTTAAACGTTCATATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAACGTTTGTATCA
* **
17315452 GAAAATACCG
66 GCAAATAATG
17315462 GGGCATGCTGAA
1 GGGCATGCTGAA
17315474 GGCATATATC
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
75 78 0.53
76 69 0.47
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (75 bp):
GGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAACGTTTGTATCA
GCAAATAATG
Found at i:17316924 original size:73 final size:73
Alignment explanation
Indices: 17316800--17317206 Score: 672
Period size: 73 Copynumber: 5.6 Consensus size: 73
17316790 GGATGTTTTC
*
17316800 AAATAGTAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
17316865 TTCACTCG
66 TTCACTCG
* *
17316873 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTTGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
17316938 TTCACTCG
66 TTCACTCG
* * * *
17316946 AAATATCAATTTATCTCACTTGAAATTATTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
17317011 TTCACTCG
66 TTCACTCG
*
17317019 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACCT-TTTCTCGCTTGAGAAAG
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-CTGTTTCTCGCTGGAGAAAG
17317083 TTTCACTCG
65 TTTCACTCG
** * * *
17317092 AAATAATAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCACTTGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
17317157 TTCACTCG
66 TTCACTCG
*
17317165 CAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
17317207 TTTCCAGAAG
Statistics
Matches: 312, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
72 2 0.01
73 309 0.99
74 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
TTCACTCG
Found at i:17319692 original size:113 final size:113
Alignment explanation
Indices: 17319490--17319706 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 113
17319480 CGGTTACGAC
* * * * * * *
17319490 AGAGCTTGTTCGATCTCAACATGGCCTTTATGGGAGAATAAGGAGCTTATATACGAGAGCTTGTC
1 AGAGCTTATTCGACCTCAACATGACCTTTATGGGAGAATAAAGAGCTTATAAACGAGAGATCGTC
* * * * *
17319555 TACTCTTTCTAGAGAGAAGGAAGCGATCAAGGAAGAAGATCATATATG
66 TACTCTTCCCAAAGAGAAGAAAGCGATCAAAGAAGAAGATCATATATG
* * *
17319603 AGAGCTTATTCGACCTCAGCATGACCTTTATGTGAGAATAAAGAGCTTATAAAGGAGAGATCGTC
1 AGAGCTTATTCGACCTCAACATGACCTTTATGGGAGAATAAAGAGCTTATAAACGAGAGATCGTC
*
17319668 TACTCTTCCCAAAGAGGAGAAAGCGATCAAAGAAGAAGA
66 TACTCTTCCCAAAGAGAAGAAAGCGATCAAAGAAGAAGA
17319707 CGTTCATACA
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 88 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (113 bp):
AGAGCTTATTCGACCTCAACATGACCTTTATGGGAGAATAAAGAGCTTATAAACGAGAGATCGTC
TACTCTTCCCAAAGAGAAGAAAGCGATCAAAGAAGAAGATCATATATG
Found at i:17322753 original size:38 final size:39
Alignment explanation
Indices: 17322697--17322779 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 39
17322687 CATGTAGTCC
17322697 TTGAAATTTGTAACGTTTATGATTTAACCTCCT-AGTTG
1 TTGAAATTTGTAACGTTTATGATTTAACCTCCTAAGTTG
** *
17322735 TTGAAATTTGTAGTGTTTATTATTTAACCTCCTAAGTTG
1 TTGAAATTTGTAACGTTTATGATTTAACCTCCTAAGTTG
17322774 TTGAAA
1 TTGAAA
17322780 CTACATGTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 30 0.73
39 11 0.27
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (39 bp):
TTGAAATTTGTAACGTTTATGATTTAACCTCCTAAGTTG
Found at i:17323545 original size:22 final size:22
Alignment explanation
Indices: 17323516--17323664 Score: 111
Period size: 22 Copynumber: 6.9 Consensus size: 22
17323506 TAATATACTT
*
17323516 TATA-TTTAATGCTTATATTTA
1 TATACTTTAATACTTATATTTA
17323537 TATACTTTAATACTTTATATTTA
1 TATACTTTAATAC-TTATATTTA
*
17323560 -ATAC-TT-ATATTATATAGTTTA
1 TATACTTTAATACT-TATA-TTTA
*
17323581 -ATACTTT-ATA-TTATATATTT
1 TATACTTTAATACTTATAT-TTA
*
17323601 TAGTAC-TTACGTACTTATATAATT-
1 TA-TACTTTA-ATACTTATAT--TTA
*
17323625 TATA-TTTAATACTTATTTTTA
1 TATACTTTAATACTTATATTTA
17323646 TATACTTTAATACTTATAT
1 TATACTTTAATACTTATAT
17323665 CCAAACACTT
Statistics
Matches: 106, Mismatches: 7, Indels: 29
0.75 0.05 0.20
Matches are distributed among these distances:
19 2 0.02
20 15 0.14
21 22 0.21
22 40 0.38
23 16 0.15
24 8 0.08
25 3 0.03
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (22 bp):
TATACTTTAATACTTATATTTA
Found at i:17323572 original size:73 final size:73
Alignment explanation
Indices: 17323505--17323664 Score: 168
Period size: 73 Copynumber: 2.2 Consensus size: 73
17323495 ATTATGATTA
* * *
17323505 TTAATATACTTTATATT-TA-ATGCTTA-TATTTATATACTT-TAATACTTTATATTTAATACTT
1 TTAA-ATACTTTATATTATATAT-CTTAGTACTTACATACTTAT-ATAATTTATATTTAATACTT
17323566 ATATTATATAG
63 ATATTATATAG
* * *
17323577 TTTAATACTTTATATTATATATTTTAGTACTTACGTACTTATATAATTTATATTTAATACTTATT
1 TTAAATACTTTATATTATATATCTTAGTACTTACATACTTATATAATTTATATTTAATACTTA-T
* *
17323642 TTTATATAC
65 ATTATATAG
*
17323651 TTTAATAC-TTATAT
1 TTAAATACTTTATAT
17323665 CCAAACACTT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
71 12 0.16
72 8 0.11
73 38 0.51
74 17 0.23
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (73 bp):
TTAAATACTTTATATTATATATCTTAGTACTTACATACTTATATAATTTATATTTAATACTTATA
TTATATAG
Found at i:17323645 original size:13 final size:14
Alignment explanation
Indices: 17323503--17323652 Score: 65
Period size: 13 Copynumber: 10.9 Consensus size: 14
17323493 TAATTATGAT
*
17323503 TATTAATATACTTTA
1 TATTTATATAC-TTA
*
17323518 TATTTA-ATGCTTA
1 TATTTATATACTTA
17323531 TATTTATATAC---
1 TATTTATATACTTA
17323542 --TTTA-ATACTTTA
1 TATTTATATAC-TTA
17323554 TATTTA-ATACTTA
1 TATTTATATACTTA
*
17323567 TA-TTATATAGTTTAA
1 TATTTATATA-CTT-A
17323582 TACTTTATAT--TATA
1 TA-TTTATATACT-TA
17323596 TATTT-TAGTACTTA
1 TATTTATA-TACTTA
* *
17323610 CGTACTTATATAATTTA
1 --TATTTATAT-ACTTA
17323627 TATTTA-ATACTTA
1 TATTTATATACTTA
*
17323640 TTTTTATATACTT
1 TATTTATATACTT
17323653 TAATACTTAT
Statistics
Matches: 105, Mismatches: 9, Indels: 43
0.67 0.06 0.27
Matches are distributed among these distances:
8 4 0.04
9 4 0.04
12 5 0.05
13 30 0.29
14 30 0.29
15 15 0.14
16 5 0.05
17 12 0.11
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (14 bp):
TATTTATATACTTA
Found at i:17323693 original size:2 final size:2
Alignment explanation
Indices: 17323683--17323739 Score: 64
Period size: 2 Copynumber: 29.0 Consensus size: 2
17323673 TTTTTTACTT
* *
17323683 TA TA T- TA TA TA T- TT TA TA CTT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
17323724 TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA
17323740 GTTATACTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
1 2 0.04
2 44 0.94
3 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17323700 original size:14 final size:15
Alignment explanation
Indices: 17323681--17323745 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 15
17323671 ACTTTTTTAC
17323681 TTTATATTATATAT-
1 TTTATATTATATATA
17323695 TTTATACTT-TATATA
1 TTTATA-TTATATATA
*
17323710 TATATA-TATATATA
1 TTTATATTATATATA
* *
17323724 TATATATATACATATA
1 TTTATAT-TATATATA
*
17323740 GTTATA
1 TTTATA
17323746 CTTTATAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.02
14 23 0.55
15 7 0.17
16 11 0.26
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTATATTATATATA
Found at i:17323872 original size:24 final size:24
Alignment explanation
Indices: 17323845--17323890 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17323835 TGATGAGGGA
*
17323845 TGAAACTGA-ATTAATTATAAAATG
1 TGAAACTAATATTAA-TATAAAATG
*
17323869 TGAAGCTAATATTAATATAAAA
1 TGAAACTAATATTAATATAAAA
17323891 AATGGACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (24 bp):
TGAAACTAATATTAATATAAAATG
Found at i:17324197 original size:6 final size:6
Alignment explanation
Indices: 17324186--17324687 Score: 235
Period size: 6 Copynumber: 83.8 Consensus size: 6
17324176 AATTAAAACA
*
17324186 ATATAT ATATAT ATATAT ATATAT ATATAT A-ATAT GTATA- ATGA-AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT-ATAT
* * * * * *
17324232 GTATAT ATA-AT GTATAT -TATACT TTATAC ATATAT ATATAC AT-TAC
1 ATATAT ATATAT ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324278 ATACAT ATACAT ATATACC ATATAC ATACAT ATACAT ACATAT ACATAT
1 ATATAT ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324327 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324375 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324423 ACATAT ACATAT ACATAT ATATAC ACATAT ACATAT ACATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324471 ACATAT ACATAT ACATAT ACATAT ATACAT ATACAT ATACAT ATAAAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324519 ATACAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17324567 ATACAT ATACTAT ACATAT ACATACC ATATAC ATATAC ATATAC ATATAC
1 ATATAT ATA-TAT ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT
* * * * * * *
17324617 ATATAC ATATAC ATCATAT ACATAC ATATAC ATA-AT ATACAT ATACAT
1 ATATAT ATATAT AT-ATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
17324665 ATACAT ATACAT ACATGT ATATA
1 ATATAT ATATAT ATATAT ATATA
17324688 AAGTACCAAA
Statistics
Matches: 440, Mismatches: 43, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
5 24 0.05
6 395 0.90
7 21 0.05
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (6 bp):
ATATAT
Found at i:17324386 original size:60 final size:60
Alignment explanation
Indices: 17324256--17324677 Score: 611
Period size: 60 Copynumber: 7.1 Consensus size: 60
17324246 TATTATACTT
*
17324256 TATACATATATATATACAT-TAC--ATACATATACATATATACCATATAC--ATACATATAC-
1 TATACATATACATATACATATACATATACATATAC--ATATA-CATATACATATACATATACA
17324313 -ATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
1 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
17324372 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
1 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
* *
17324432 TATACATATATATACACATATACATATACATATACATATACATATACATATACATATACATA
1 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATAC--A
*
17324494 TATACATATACATATACATATAAATATAC--ATACATATACATATACATATACATATACA
1 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
*
17324552 TATACATATATACATATACATATAC-TATACATATACATA-CCATATACATATACATATACA
1 TATAC--ATATACATATACATATACATATACATATACATATACATATACATATACATATACA
* *
17324612 TATACATATACATATACATCATATACATACATATAC--ATA-ATATACATATACATATACA
1 TATACATATACATATACAT-ATACATATACATATACATATACATATACATATACATATACA
17324670 TATACATA
1 TATACATA
17324678 CATGTATATA
Statistics
Matches: 338, Mismatches: 11, Indels: 31
0.89 0.03 0.08
Matches are distributed among these distances:
56 24 0.07
57 8 0.02
58 58 0.17
59 18 0.05
60 196 0.58
61 7 0.02
62 27 0.08
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (60 bp):
TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
Found at i:17325114 original size:2 final size:2
Alignment explanation
Indices: 17325107--17325213 Score: 119
Period size: 2 Copynumber: 54.0 Consensus size: 2
17325097 TTAAAACAAT
*
17325107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
17325149 TG TA TA TA TA -A T- TA CTT TA TA TA TA TA TA TA TA CA TA TA CA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
17325190 TA TA CA TA TA CA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
17325214 CTTATGCTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
1 2 0.02
2 85 0.97
3 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:17325670 original size:2 final size:2
Alignment explanation
Indices: 17325659--17327151 Score: 187
Period size: 2 Copynumber: 751.0 Consensus size: 2
17325649 TTAAAACAAT
* *
17325659 TA TA -A TA TA TA TA TA AA GTA TA TA -A GTA TA TA -A TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA
*
17325701 TA TA -A GTA TA -A TA TA TA TA TA TA TA TA GTA TA TA AA 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
*
17325743 TA TA TA TA TA TA TA CT- TA TA TA CT- TA TA TA TA CT- TA TA CTT
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA -TA
* * *
17325784 TA TA CT- TA TA TA CTT TA TA T- TA TA TA CT- TA TA TA CTT TA GTC
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA
* * * * *
17325826 TT TA TA -A T- TA TA TT TA TA TA CT- TT TA TT TA -A TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* ** * *
17325865 TA CTT TA TA T- TA TA TA TA CG TA TA TA CTT TA TA TT TA -A TA CT-
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * * * *
17325907 TA TA AA T- TT TA TA T- TA TA TA TT TT TA TA CTT 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 TA
* * * * * * *
17325947 TGC T- TG TA TA CT- TT TA GTC TT TA TA -A T- TA TG T- TA CA TA
1 T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
17325985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
17326028 T- TG TT TA TA TA TA TA CT- TT TA CTT TA TA GTT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * * * *
17326069 TA TA CT- TA TA CTT TA TA T- TC T- TA TA TA CTT TC T- TC TT TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
17326108 TA -A T- TA TA CT- TA TA TA TA -A TA TA CT- TA TA CT- TT TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
*
17326145 T- TA TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
17326185 TA CT- TA TA TA CTT TA TA TT TA AA CTA TA TA -A TT TA TA -A T-
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * * * *
17326224 TA TA CA TA -A TA TA TA AA TA TA -A GA TG TA TC TA TT TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
17326264 TA -A T- TCA TA TA -A TT TA CA TA TA AA CTA TA TA -A TG TA TA T-
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * * *
17326303 TA -A TA AA CTA TA TA GTT TA TA CA TGG TT TA TA TA GTT TA TA CA
1 TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA -TA TA TA TA
* *
17326346 TA T- TA TA TA CA TA TA GTT TA TA TA TA GTA TA TA -A TA -A TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
17326387 AA TA TA AA CTA TA TA GTT TA TA TA TA TA GTC TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
17326429 TA TA TT TA TA TG TA TA TA TA CTT TA TA TA CT- TA GA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA
* * * *
17326471 TA T- TA TA TA CT- TA TA TA CTT TA GTC TT TA TA -A T- TA TA CTT
1 TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA
* * * *
17326511 TA TA CA TA TA TA -A TA TA CT- TA T- TA TT TA TT TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
17326551 TA TA TA CTT TA TA CTA -A AA CTT TT TA TT TA TT TA TA TA TA TA
1 TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
17326593 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA CTT TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * * * * *
17326636 TA CA TA CA TA CA TA CA TA CA TA CT- TA TA CTT TA TA TG 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
* * * * *
17326679 TT TA TA T- TT TA GTC TT TA TA -A T- TA TA CTT TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
17326720 TA TA CTT TA T- TA T- TA TA T- TA T- TA TA TA TG TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
17326759 CT- TA TA TA TA TA -A TT TA TA GTT TA TA TG TA TA CT- TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * * * * * *
17326799 CTT TA TA TT TA AA CTA TA -A TT TA TA CA TA GTA TA AA TA -A TT
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
** * *
17326840 TA TA -A T- TA TA CC TA -A TA TA TA AA TA TA TA T- TG TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
17326877 TT TA TA TA TA AA CTA TA TA -A TT TA T- TA -A TA AA CTA TA GTT
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
* * * * *
17326917 TA TA TA GT- TCA TA TA TA AA CTT TA TA GTT TA TA CA TGG TA TA TA
1 TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA
* * *
17326961 TA GTT TA -A TA TA TA TA TA TA TA TA TA TA TA TA T- TG TT TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
17327002 TA TA GTA TA TA -A TA -A TA AA AA TA TA AA CTA TA TA GTT TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
17327043 TA TA TA -A TA TA TA TA CTT TA TA TA TA AA CTA TA T- TT TA TA CA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
17327085 -A AA TA TA TA TA GT- TCA TA TA TA GTA TA TA AA TA TA TA T- TCA
1 TA TA TA TA TA TA -TA T-A TA TA TA -TA TA TA TA TA TA TA TA T-A
17327126 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
17327152 ATTTGTTTAC
Statistics
Matches: 1050, Mismatches: 252, Indels: 378
0.62 0.15 0.22
Matches are distributed among these distances:
1 99 0.09
2 857 0.82
3 94 0.09
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17325688 original size:15 final size:14
Alignment explanation
Indices: 17325659--17325754 Score: 74
Period size: 15 Copynumber: 6.6 Consensus size: 14
17325649 TTAAAACAAT
*
17325659 TATAATATATA-TA
1 TATAATATAAAGTA
17325672 TA-AAGTATATAAGTA
1 TATAA-TATA-AAGTA
17325687 TATAATATAAAGTA
1 TATAATATAAAGTA
17325701 TATAAGTATAATA-TA
1 TATAA-TATAA-AGTA
*
17325716 TATATATATATAGTA
1 TATA-ATATAAAGTA
*
17325731 TATAAATATATA-TA
1 TAT-AATATAAAGTA
17325745 TATATATATA
1 TATA-ATATA
17325755 TACTTATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
12 2 0.03
13 7 0.10
14 22 0.31
15 35 0.49
16 5 0.07
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
TATAATATAAAGTA
Found at i:17325726 original size:552 final size:558
Alignment explanation
Indices: 17324593--17325770 Score: 1663
Period size: 556 Copynumber: 2.1 Consensus size: 558
17324583 TATACATACC
* * * * *
17324593 ATATACATATACATATACATATACATATACATATACATCATATACATACATATACATAATATACA
1 ATATA-ATATATATATATATATATATATACATATACAT-ATATATATACATATACAT-ATATACT
17324658 TATACATATACATATACATACATGTATATAAAGTACCAAATTGAACAAACATGAAATTAGAAATA
63 TATACATATACATATACATACATGTATATAAAGTACCAAATTGAACAAACATGAAATTAGAAATA
* * ** *
17324723 AAAAATTGAATAAATTAAGTAGCATGCATTGAAGAGGGATGAAATTGAATTAATTATATAATATG
128 AAAAATTGAATAAATTAAGCAACACACATTGAAGAGGGATGAAATTGAATTAATTATAAAATATG
* * *
17324788 AAGCTGATATTAATATAAAAATGGACTAAATTGCATGCATTTAAAAAGTTGGTTAATATAATTTG
193 AAGCTGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAATATAATTTG
* *
17324853 AAAAGAAATATATTATGCGATTTACATTTTATAGGGTTTGTTTATGTAAATTACAAAAATATAAA
258 AAAAAAAATATATTATGCGATTTACATTTTATAGGGTTTGTTAATGTAAATTACAAAAATATAAA
* * *
17324918 TAAGTGTGGGTCAATTTCATATACAAATATAATTTTAAGGACTAAATTGAACAAATATAAAATTA
323 TAAGTATGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTGAACAAATATAAAATTA
*
17324983 CAAATTTAAATTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAATGAAAAATGTGAGGA
388 CAAATTTAAATTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAATGAAAAACGTGAGGA
* * *
17325048 AAATTTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGGAAATTAAAACAATTATATA
453 AAAATTATAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAGAAATTAAAACAATTATATA
* * *
17325113 TATATATATATATATATATATATATATATATATATGTGTAT
518 TATATATATAAATATATATATATATATATATATAAGTATAT
* *
17325154 ATATAAT-TACTTTATATATATATATATACATATACATATACATATACATATACATATATACTTA
1 ATATAATATA-TATATATATATATATATACATATACATATATATATACATATACATATATACTTA
* * ** * * *
17325218 TGC-T-T-TATAGTTTATATATGTATATAAAGTACTAATTTGAACAAACATGAAATT-GTAAATA
65 TACATATACATA-TACATACATGTATATAAAGTACCAAATTGAACAAACATGAAATTAG-AAATA
* * *
17325279 AAAAATTGAATAAATTAAGCAACACACATTGATGAGGGATGAAATTTAATTAATTATAAAATGTG
128 AAAAATTGAATAAATTAAGCAACACACATTGAAGAGGGATGAAATTGAATTAATTATAAAATATG
*
17325344 AAGTTGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAATATAATTTG
193 AAGCTGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAATATAATTTG
*
17325409 AAAAAAAAT-TATTATGTGATTTACATTTTATAGGG-TT-TTAAT-TAAATTACAAAAATATAAA
258 AAAAAAAATATATTATGCGATTTACATTTTATAGGGTTTGTTAATGTAAATTACAAAAATATAAA
* **
17325470 TAAGTATGGGTCAATTTGAGATACAAATATAATTTGAAGGACTAAATTGAACAAATATGTAATTA
323 TAAGTATGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTGAACAAATATAAAATTA
** *
17325535 TGAA-TTAAAGTTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAAATTGTAAAACGTGA
388 CAAATTTAAA-TTTAAATACAATAAACAACATAAAAGGATCAAAT-AAAAAA-TGAAAAACGTGA
*
17325599 GGAAAAATTATAAAATTGACTGAATTGCATTAATTTC-AAAGTT-GGAGAAATTAAAACAATTAT
450 GGAAAAATTATAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAGAAATTAAAACAATTAT
17325662 A-ATATATATATAAAGTATATA-AGTATATA-ATATA-AAGTATAT
515 ATATATATATATAAA-TATATATA-TATATATATATATAAGTATAT
* * *
17325704 AAGTATAATATATATATATATATAGTATATA-A-ATATATATATATATATATATACTTATATACT
1 -A-TATAATATATATATATATATA-TATATACATATACATATATATATACATATACATATATACT
17325767 TATA
63 TATA
17325771 TATACTTATA
Statistics
Matches: 553, Mismatches: 52, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
550 6 0.01
551 54 0.10
552 164 0.30
553 24 0.04
554 46 0.08
555 29 0.05
556 171 0.31
557 1 0.00
558 10 0.02
559 18 0.03
560 25 0.05
561 5 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (558 bp):
ATATAATATATATATATATATATATATACATATACATATATATATACATATACATATATACTTAT
ACATATACATATACATACATGTATATAAAGTACCAAATTGAACAAACATGAAATTAGAAATAAAA
AATTGAATAAATTAAGCAACACACATTGAAGAGGGATGAAATTGAATTAATTATAAAATATGAAG
CTGATATTAATATAAAAATGGACTAAATTACATACATTTAAAAAGTTGGTGAATATAATTTGAAA
AAAAATATATTATGCGATTTACATTTTATAGGGTTTGTTAATGTAAATTACAAAAATATAAATAA
GTATGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTGAACAAATATAAAATTACAA
ATTTAAATTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAATGAAAAACGTGAGGAAAA
ATTATAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGAGAAATTAAAACAATTATATATAT
ATATATAAATATATATATATATATATATATAAGTATAT
Found at i:17325762 original size:20 final size:20
Alignment explanation
Indices: 17325711--17327151 Score: 212
Period size: 20 Copynumber: 72.8 Consensus size: 20
17325701 TATAAGTATA
*
17325711 ATATATATATATATATA-GT
1 ATATATATATATATATACTT
*
17325730 ATATAAATATATATATA--T
1 ATATATATATATATATACTT
17325748 ATATATATACT-TATATACTT
1 ATATATATA-TATATATACTT
*
17325768 ATATATACTTATACTTTATACTT
1 ATATATA--TATA-TATATACTT
*
17325791 ATATACTTTATATTATATACTT
1 ATATA-TATATA-TATATACTT
* *
17325813 ATATA-CT-T-TA-GT-CTT
1 ATATATATATATATATACTT
*
17325828 -TATAATTATATTTATATACTT
1 ATAT-A-TATATATATATACTT
* * *
17325849 TTATTTAATATTTATATAC-T
1 ATATAT-ATATATATATACTT
*
17325869 -T-TATAT-TATATATACGT
1 ATATATATATATATATACTT
* *
17325886 ATATACTTTATATTTAATACTT
1 ATATA-TATATATAT-ATACTT
* * *
17325908 ATAAATTTTATATTATATATTT
1 ATATA-TATATA-TATATACTT
* * *
17325930 TTATACTTTATATTATATGCTT
1 ATATA-TATATA-TATATACTT
* * * * *
17325952 GTATACTTTTAGTCTTTATAATT
1 ATATA--TATA-TATATATACTT
* *
17325975 ATGT-TACATATATATA--T
1 ATATATATATATATATACTT
17325992 ATATATATATATATATA--T
1 ATATATATATATATATACTT
* *
17326010 ATATATATAGATACTTTA-TT
1 ATATATATATATA-TATACTT
* * *
17326030 GTTTATATATATACTTTTACTTT
1 ATATATATATATA--TATAC-TT
17326053 ATAGTTTATATATATATATACTT
1 ATA---TATATATATATATACTT
* *
17326076 ATACTTTATATTCTTATATACTT
1 ATA-TATATA-T-ATATATACTT
* * *
17326099 -TCT-TCTTTATAATTATACTT
1 ATATATATATAT-A-TATACTT
17326119 ATATATA-ATATACTTATACTT
1 ATATATATATATA--TATACTT
*
17326140 TTATATTATATATAATATACTT
1 ATATA-TATATAT-ATATACTT
17326162 ATACT-T-TATAT-TATA--T
1 ATA-TATATATATATATACTT
17326178 ATATATATACT-TATATACTT
1 ATATATATA-TATATATACTT
* * *
17326198 -TATATTTAAACTATATAATT
1 ATATATATATA-TATATACTT
* *
17326218 -TATA-AT-TATACATA-AT
1 ATATATATATATATATACTT
* * *
17326234 ATATAAATATAAGATGTA-TCT
1 ATATATATAT-ATATATACT-T
* * *
17326255 ATTTAAATATAATTCATATAATT
1 ATATATATAT-A-T-ATATACTT
* * *
17326278 -TACATATAAACTATATAATGT
1 ATATATATATA-TATATACT-T
* *
17326299 ATAT-TAATAAACTATATAGTT
1 ATATAT-ATATA-TATATACTT
* * * *
17326320 -TATACATGGTTTATATAGTT
1 ATATATAT-ATATATATACTT
* *
17326340 -TATACATAT-TATATACAT
1 ATATATATATATATATACTT
* *
17326358 ATAGTTTATATATAGTATA-TA
1 ATA-TATATATATA-TATACTT
* *
17326379 ATA-ATATAAATATAAAC-T
1 ATATATATATATATATACTT
* *
17326397 ATATAGTTTATATATATA-GT
1 ATATA-TATATATATATACTT
*
17326417 CTATAT-TATATATATA--T
1 ATATATATATATATATACTT
*
17326434 -T-TATATGTATATATACTT
1 ATATATATATATATATACTT
* *
17326452 -TATATA-CT-TAGATACTT
1 ATATATATATATATATACTT
17326469 -TATATTATATACTTATATACTT
1 ATATA-TATATA--TATATACTT
* *
17326491 -TAGTCTTTATA-ATTATACTT
1 ATA-TATATATATA-TATACTT
*
17326511 -TATACATATATAATATACTT
1 ATATATATATAT-ATATACTT
* *
17326531 AT-TATTTATTTATATA-TGT
1 ATATATATATATATATACT-T
* *
17326550 ATATATACTTTATACTAAAACTT
1 ATATATA-TATATA-T-ATACTT
* *
17326573 -T-T-TATTTATTTATA--T
1 ATATATATATATATATACTT
17326588 ATATATATATATATATA--T
1 ATATATATATATATATACTT
17326606 ATATATATATATAT-TACTT
1 ATATATATATATATATACTT
* * *
17326625 -TATAGTTTATATACATACAT
1 ATATA-TATATATATATACTT
* * *
17326645 ACATACATACATACTTATACTTT
1 ATATATATATATA--TATAC-TT
* *
17326668 ATATGTATATATTTATA-TT
1 ATATATATATATATATACTT
* * *
17326687 TTAGTCTTTATA-ATTATACTT
1 ATA-TATATATATA-TATACTT
17326708 -TATATATATATATATACTT
1 ATATATATATATATATACTT
17326727 -TAT-TAT-TATAT-TA-TT
1 ATATATATATATATATACTT
*
17326742 ATATATGTATATATATACTT
1 ATATATATATATATATACTT
* *
17326762 ATATATATA-ATTTATAGTT
1 ATATATATATATATATACTT
*
17326781 -TATATGTATACTTATATACTT
1 ATATATATATA--TATATACTT
* * *
17326802 -TATATTTAAACTATA-ATTT
1 ATATATATATA-TATATACTT
* * *
17326821 ATACATAGTATAAATA-ATTT
1 ATATATA-TATATATATACTT
17326841 ATA-AT-TATACCTA-ATA--T
1 ATATATATATA--TATATACTT
* * *
17326858 ATAAATATATATTGTATAATT
1 ATATATATATA-TATATACTT
* *
17326879 -TATATATAAACTATATAATT
1 ATATATATATA-TATATACTT
* *
17326899 -TAT-TA-ATAAACTATAGTT
1 ATATATATATATA-TATACTT
*
17326917 -TATATAGTTCATATATAAACTT
1 ATATATA--T-ATATATATACTT
* **
17326939 -TATAGT-T-TATACAT-GGT
1 ATATA-TATATATATATACTT
*
17326956 ATATATAGTTTA-ATATA-TAT
1 ATATATA-TATATATATACT-T
*
17326976 ATATATATATATATATATTGT
1 ATATATATATATATATACT-T
* *
17326997 TTATATATAGTATATAATA-AT
1 ATATATATA-TATAT-ATACTT
* * * *
17327018 AAAAATATAAACTATATAGTTT
1 ATATATATATA-TATATA-CTT
17327040 ATATATATAATATATATACTT
1 ATATATAT-ATATATATACTT
* *
17327061 -TATATATAAACTATAT-TTT
1 ATATATATATA-TATATACTT
* * *
17327080 ATACA-AAATATATATAGTT
1 ATATATATATATATATACTT
*
17327099 CATATATAGTATATAAATA--T
1 -ATATATA-TATATATATACTT
17327119 ATAT-TCATATATATATA--T
1 ATATAT-ATATATATATACTT
17327137 ATATATATATATATA
1 ATATATATATATATA
17327152 ATTTGTTTAC
Statistics
Matches: 1067, Mismatches: 198, Indels: 315
0.68 0.13 0.20
Matches are distributed among these distances:
14 3 0.00
15 11 0.01
16 31 0.03
17 58 0.05
18 183 0.17
19 158 0.15
20 242 0.23
21 128 0.12
22 157 0.15
23 77 0.07
24 9 0.01
26 10 0.01
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATATATATATATATACTT
Found at i:17326095 original size:17 final size:17
Alignment explanation
Indices: 17326047--17326099 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 17
17326037 TATATACTTT
*
17326047 TACTTTATAGT-TTATA
1 TACTTTATATTCTTATA
* *
17326063 TA-TATATATAC-T-TA
1 TACTTTATATTCTTATA
17326077 TACTTTATATTCTTATA
1 TACTTTATATTCTTATA
17326094 TACTTT
1 TACTTT
17326100 CTTCTTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
14 4 0.14
15 13 0.46
16 3 0.11
17 8 0.29
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (17 bp):
TACTTTATATTCTTATA
Found at i:17326135 original size:21 final size:22
Alignment explanation
Indices: 17326118--17326237 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 22
17326108 TAATTATACT
*
17326118 TATA-TATAATATACTTATACTTT
1 TATATTAT-ATATA-TTATACTTA
*
17326141 TATATTATATATAATATACTTATA
1 TATATTATATATATTATAC-T-TA
17326165 CTTTATATTATATATATATATACTTA
1 ---TATATTATATATAT-TATACTTA
*
17326191 TATACTT-TATAT-TTAAAC-TA
1 TATA-TTATATATATTATACTTA
*
17326211 TATAATT-TATA-ATTATACATAA
1 TAT-ATTATATATATTATAC-TTA
17326233 TATAT
1 TATAT
17326238 AAATATAAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 26
0.71 0.05 0.23
Matches are distributed among these distances:
20 16 0.20
21 7 0.09
22 10 0.13
23 19 0.24
24 6 0.08
26 2 0.03
27 14 0.18
28 5 0.06
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTATATATATTATACTTA
Found at i:17326274 original size:116 final size:115
Alignment explanation
Indices: 17326033--17326245 Score: 267
Period size: 116 Copynumber: 1.9 Consensus size: 115
17326023 CTTTATTGTT
*
17326033 TATAT-ATATACTTTTACTTTATAGTTTATATATATATATACTTATACTTTATATTCTTATATAC
1 TATATAATATACTTATACTTTATAG-TTATATATATATATACTTATACTTTATATTCTTATATAC
* * ** * * *
17326097 TTTCTTCTTTATAATTATACTTATATATAATATACTTATACTTTTATATTA
65 TATATAATTTATAATTATACTAATATATAATATAATTATACTTTTAAATTA
17326148 TATATAATATACTTATACTTTATA-TTATATATATATATACTTATATACTTTATA-T-TTA-A-A
1 TATATAATATACTTATACTTTATAGTTATATATATATATAC-T-TATACTTTATATTCTTATATA
17326208 CTATATAATTTATAATTATACATAATATATAAATATAA
64 CTATATAATTTATAATTATAC-TAATATAT-AATATAA
17326246 GATGTATCTA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
112 18 0.21
113 8 0.09
114 25 0.29
115 7 0.08
116 28 0.33
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (115 bp):
TATATAATATACTTATACTTTATAGTTATATATATATATACTTATACTTTATATTCTTATATACT
ATATAATTTATAATTATACTAATATATAATATAATTATACTTTTAAATTA
Found at i:17326333 original size:11 final size:11
Alignment explanation
Indices: 17326314--17326378 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
17326304 AATAAACTAT
17326314 ATAGTTTATAC
1 ATAGTTTATAC
*
17326325 ATGGTTTAT--
1 ATAGTTTATAC
17326334 ATAGTTTATAC
1 ATAGTTTATAC
17326345 ATA-TTATATAC
1 ATAGTT-TATAC
*
17326356 ATATAGTTTATAT
1 --ATAGTTTATAC
*
17326369 ATAGTATATA
1 ATAGTTTATA
17326379 ATAATATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
9 8 0.18
10 2 0.05
11 25 0.57
13 7 0.16
14 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (11 bp):
ATAGTTTATAC
Found at i:17326636 original size:35 final size:35
Alignment explanation
Indices: 17326613--17326870 Score: 99
Period size: 35 Copynumber: 7.2 Consensus size: 35
17326603 TATATATATA
* * *
17326613 TATATATTACTTTATAGTTTATA-TACATACATACA
1 TATATATTACTTTATA-TTTATACTATATATATATA
* * *
17326648 TACATACATAC-TTATACTTTATA-TGTATATAT-T-
1 TATATA-TTACTTTATA-TTTATACTATATATATATA
* *
17326681 TATATTTTAGTCTTTATAATTATACT-T-TATATATA
1 TATATATTA--CTTTATATTTATACTATATATATATA
* *
17326716 TATATA-TACTTTATTATTATATTATTATATATGTATA
1 TATATATTACTTTA-TATT-TA-TACTATATATATATA
* * *
17326753 TATATACTTA-TATATATAATTTATAGTTTATATGTATA
1 TATATA-TTACT-T-TAT-ATTTATACTATATATATATA
* * *
17326791 CT-TATA-TACTTTATATTTAAACTATAATTTATACA
1 -TATATATTACTTTATATTTATACTAT-ATATATATA
* * * *
17326826 TAGTATAAATAATTTATAATTATACCTA-ATATATAAA
1 TA-TAT-ATTACTTTATATTTATA-CTATATATATATA
17326863 TATATATT
1 TATATATT
17326871 GTATAATTTA
Statistics
Matches: 169, Mismatches: 29, Indels: 50
0.68 0.12 0.20
Matches are distributed among these distances:
32 7 0.04
33 12 0.07
34 21 0.12
35 47 0.28
36 13 0.08
37 24 0.14
38 30 0.18
39 10 0.06
40 5 0.03
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (35 bp):
TATATATTACTTTATATTTATACTATATATATATA
Found at i:17326867 original size:114 final size:114
Alignment explanation
Indices: 17326659--17326869 Score: 248
Period size: 114 Copynumber: 1.9 Consensus size: 114
17326649 ACATACATAC
* * * * * * *
17326659 TTATACTTTATATGTATATATTTATATTTTAGTCTTTATAATTATACTTTATATATATATATATA
1 TTATACTTTATATGTATATATATATACTTTAGTATTTATAACTATAATTTATACATATATAAATA
* * * * **
17326724 CTTTATTATTATATTATTATATATGTATATATATACTTATATATATAAT
66 ATTTATAATTATACTAATATATAAATATATATATACTTATATATATAAT
*
17326773 TTATAGTTTATATGTATACT-TATATACTTTA-TATTTA-AACTATAATTTATACATAGTATAAA
1 TTATACTTTATATGTATA-TATATATACTTTAGTATTTATAACTATAATTTATACATA-TATAAA
17326835 TAATTTATAATTATACCTAATATATAAATATATAT
64 TAATTTATAATTATA-CTAATATATAAATATATAT
17326870 TGTATAATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
112 15 0.19
113 23 0.29
114 41 0.51
115 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (114 bp):
TTATACTTTATATGTATATATATATACTTTAGTATTTATAACTATAATTTATACATATATAAATA
ATTTATAATTATACTAATATATAAATATATATATACTTATATATATAAT
Found at i:17326920 original size:27 final size:28
Alignment explanation
Indices: 17326890--17326949 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 28
17326880 ATATATAAAC
*
17326890 TATATAATTTAT-TAATAAAC-TATAGTT
1 TATATAATTCATAT-ATAAACTTATAGTT
*
17326917 TATATAGTTCATATATAAACTTTATAGTT
1 TATATAATTCATATATAAAC-TTATAGTT
17326946 TATA
1 TATA
17326950 CATGGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.57
28 1 0.04
29 11 0.39
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (28 bp):
TATATAATTCATATATAAACTTATAGTT
Found at i:17329501 original size:171 final size:171
Alignment explanation
Indices: 17329216--17329552 Score: 656
Period size: 171 Copynumber: 2.0 Consensus size: 171
17329206 CGTCAACATC
*
17329216 GTTGTTAAGTTTTGATGGCGGATACCGATATGAAGCTTAAATTAAATGTTAGGTATGTTTTTGAA
1 GTTGTTAAGTTTTGATGGCGGATACCGATATGAAACTTAAATTAAATGTTAGGTATGTTTTTGAA
17329281 AATAAAATAACATTTGGGTACCAAAACAAACCAAAAGTAATAATTTAGGCAATAGACGGATAATT
66 AATAAAATAACATTTGGGTACCAAAACAAACCAAAAGTAATAATTTAGGCAATAGACGGATAATT
17329346 TTCCCTATCTCAAATTTCAAGCAAAAGAAGAAGAAGAAGAA
131 TTCCCTATCTCAAATTTCAAGCAAAAGAAGAAGAAGAAGAA
17329387 GTTGTTAAGTTTTGATGGCGGATACCGATATGAAACTTAAATTAAATGTTAGGTATGTTTTTGAA
1 GTTGTTAAGTTTTGATGGCGGATACCGATATGAAACTTAAATTAAATGTTAGGTATGTTTTTGAA
17329452 AATAAAATAACATTTGGGTACCAAAACAAACCAAAAGTAATAATTTAGGCAATAGACGGATAATT
66 AATAAAATAACATTTGGGTACCAAAACAAACCAAAAGTAATAATTTAGGCAATAGACGGATAATT
*
17329517 TTCCCTATCTCAAATTTCAAGCAGAAGAAGAAGAAG
131 TTCCCTATCTCAAATTTCAAGCAAAAGAAGAAGAAG
17329553 GAGGAGGAGG
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 164 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (171 bp):
GTTGTTAAGTTTTGATGGCGGATACCGATATGAAACTTAAATTAAATGTTAGGTATGTTTTTGAA
AATAAAATAACATTTGGGTACCAAAACAAACCAAAAGTAATAATTTAGGCAATAGACGGATAATT
TTCCCTATCTCAAATTTCAAGCAAAAGAAGAAGAAGAAGAA
Found at i:17329557 original size:3 final size:3
Alignment explanation
Indices: 17329551--17329611 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
17329541 AAGAAGAAGA
17329551 AGG AGG AGG AGG AGG AGG AGG AGG A-G AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
17329598 AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AG
17329612 AAGAAGAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:17329616 original size:3 final size:3
Alignment explanation
Indices: 17329610--17329639 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17329600 GAGGAGGAGG
17329610 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
17329640 GGCGATCTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:17332064 original size:29 final size:29
Alignment explanation
Indices: 17332032--17332112 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
17332022 TAAAAAAATG
*
17332032 AATACTTTATGTACCTATTTTGACCAAAA
1 AATACTTTAGGTACCTATTTTGACCAAAA
* ** *
17332061 AATACGTTAGGTAGTTATTTTGACTAAAA
1 AATACTTTAGGTACCTATTTTGACCAAAA
* *
17332090 AGATAACTTTAGATACTTATTTT
1 A-AT-ACTTTAGGTACCTATTTT
17332113 AATAAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 25 0.60
30 2 0.05
31 15 0.36
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
AATACTTTAGGTACCTATTTTGACCAAAA
Found at i:17335979 original size:17 final size:17
Alignment explanation
Indices: 17335952--17335995 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
17335942 AAAGACCAGT
17335952 TTTTGTCTTAAAAAATGA
1 TTTT-TCTTAAAAAATGA
17335970 TTTTTCTT--AAAATGA
1 TTTTTCTTAAAAAATGA
17335985 TTTTT-TTAAAA
1 TTTTTCTTAAAA
17335996 GACACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 2 0.08
17 4 0.17
18 4 0.17
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (17 bp):
TTTTTCTTAAAAAATGA
Found at i:17335993 original size:14 final size:15
Alignment explanation
Indices: 17335963--17335995 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17335953 TTTGTCTTAA
17335963 AAAATGATTTTTCTT
1 AAAATGATTTTTCTT
17335978 AAAATGATTTTT-TT
1 AAAATGATTTTTCTT
17335992 AAAA
1 AAAA
17335996 GACACTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (15 bp):
AAAATGATTTTTCTT
Found at i:17338217 original size:62 final size:62
Alignment explanation
Indices: 17338120--17338258 Score: 179
Period size: 62 Copynumber: 2.2 Consensus size: 62
17338110 AATCTTGACG
* *
17338120 TTTTGCAGTATTTTTGGTTCATAAACGCCGCTAACTATTGTGACATTTGCTTTACCAGTGCT
1 TTTTGCAGCATTTTTGGTTCATAAACACCGCTAACTATTGTGACATTTGCTTTACCAGTGCT
* * *** * *
17338182 TTTTGCAGCATTTTTGGTTCATAAACACTGCTAACTGTTGTGGTGTTTGCTTTATCGGTGCT
1 TTTTGCAGCATTTTTGGTTCATAAACACCGCTAACTATTGTGACATTTGCTTTACCAGTGCT
* *
17338244 TTTTGCGGCGTTTTT
1 TTTTGCAGCATTTTT
17338259 CCTAGTGTCA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (62 bp):
TTTTGCAGCATTTTTGGTTCATAAACACCGCTAACTATTGTGACATTTGCTTTACCAGTGCT
Found at i:17339294 original size:29 final size:30
Alignment explanation
Indices: 17339252--17339325 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
17339242 GATTACCAAA
*
17339252 CCCGTCCCCGTTTAGCATAAAC-GATTTTC
1 CCCGTCCCCGTTTAACATAAACGGATTTTC
*
17339281 CCCGTCCCCGTTTAACATAAACGGTTTTTC
1 CCCGTCCCCGTTTAACATAAACGGATTTTC
*
17339311 CCCGTCTCCGTTTAA
1 CCCGTCCCCGTTTAA
17339326 TTCAATTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.19, C:0.35, G:0.14, T:0.32
Consensus pattern (30 bp):
CCCGTCCCCGTTTAACATAAACGGATTTTC
Found at i:17342069 original size:15 final size:15
Alignment explanation
Indices: 17342046--17342076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17342036 TCACTTTCAT
*
17342046 ATTTTTTTAAAAATA
1 ATTTATTTAAAAATA
17342061 ATTTATTTAAAAATA
1 ATTTATTTAAAAATA
17342076 A
1 A
17342077 AAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTATTTAAAAATA
Found at i:17343042 original size:17 final size:16
Alignment explanation
Indices: 17343020--17343055 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17343010 AATTATTGTG
17343020 ACCCGAAAGTTTCGGGT
1 ACCCGAAA-TTTCGGGT
*
17343037 ACCCGATATTTCGGGT
1 ACCCGAAATTTCGGGT
17343053 ACC
1 ACC
17343056 ACCCCTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (16 bp):
ACCCGAAATTTCGGGT
Found at i:17343220 original size:15 final size:15
Alignment explanation
Indices: 17343200--17343233 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17343190 AATTTTTTAA
17343200 TTAATAGATTAATTT
1 TTAATAGATTAATTT
17343215 TTAATAGATTAATTT
1 TTAATAGATTAATTT
17343230 TTAA
1 TTAA
17343234 GTTTGAGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTAATAGATTAATTT
Found at i:17346739 original size:16 final size:14
Alignment explanation
Indices: 17346686--17346740 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
17346676 TACTTTATTC
*
17346686 AAAATTATAAATATA
1 AAAATTA-ATATATA
*
17346701 ATAATTAATATATA
1 AAAATTAATATATA
*
17346715 AAAATTAATTTAGTA
1 AAAATTAATATA-TA
17346730 AAACATTAATA
1 AAA-ATTAATA
17346741 AATTTAGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 16 0.48
15 11 0.33
16 6 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
AAAATTAATATATA
Found at i:17346892 original size:24 final size:25
Alignment explanation
Indices: 17346835--17346892 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
17346825 GTAATTATTT
* *
17346835 AAAATAATATATAACTTTATATTATT
1 AAAATAATACAT-ACTTTATATTATA
17346861 AAAA-AATACAT-CTTATATATTA-A
1 AAAATAATACATACTT-TATATTATA
17346884 AAAATAATA
1 AAAATAATA
17346893 TCTTTGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 7 0.25
24 11 0.39
25 6 0.21
26 4 0.14
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAATACATACTTTATATTATA
Found at i:17346895 original size:22 final size:23
Alignment explanation
Indices: 17346828--17346896 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 23
17346818 TAAAAAGGTA
*
17346828 ATTATTTAAAATAATATATAACTTTAT
1 ATTA-TTAAAA-AATA-ATATC-TTAT
*
17346855 ATTATTAAAAAAT-ACATCTTAT
1 ATTATTAAAAAATAATATCTTAT
17346877 A-TATTAAAAAATAATATCTT
1 ATTATTAAAAAATAATATCTT
17346897 TGTCCAATCG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 11 0.29
22 11 0.29
23 3 0.08
25 3 0.08
26 6 0.16
27 4 0.11
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTATTAAAAAATAATATCTTAT
Found at i:17352528 original size:30 final size:30
Alignment explanation
Indices: 17352493--17352565 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
17352483 AATGGATTTA
* *
17352493 TTTAGTGACCAAATTATAAA-TTTGGTAAAC
1 TTTAGTGACCAAAGTATAAACTTT-GAAAAC
** *
17352523 TTTAGTGAATAAAGTATAAACTTTGAAAAG
1 TTTAGTGACCAAAGTATAAACTTTGAAAAC
*
17352553 TTTAGGGACCAAA
1 TTTAGTGACCAAA
17352566 ATGTAATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (30 bp):
TTTAGTGACCAAAGTATAAACTTTGAAAAC
Found at i:17353607 original size:24 final size:24
Alignment explanation
Indices: 17353575--17353662 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
17353565 GATATCAGAA
*
17353575 ATCAAAACAGAATTCAGATAAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* * *
17353599 ATCAGAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATTCAGATAAGAT
*
17353623 ATCAGAACAGAATTCAGGTAATG-T
1 ATCAGAACAGAATTCAGATAA-GAT
17353647 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
17353663 AGTCAGAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 54 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAAGAT
Found at i:17353639 original size:12 final size:12
Alignment explanation
Indices: 17353570--17353639 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
17353560 ACGGAGATAT
* *
17353570 CAGAAATCAAAA
1 CAGAATTCAGAA
17353582 CAGAATTCAGATA
1 CAGAATTCAGA-A
17353595 -AG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
17353606 CAGAATCCAGAT
1 CAGAATTCAGAA
*
17353618 CAGAAATCAGAA
1 CAGAATTCAGAA
17353630 CAGAATTCAG
1 CAGAATTCAG
17353640 GTAATGTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.07
12 40 0.87
13 3 0.07
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:17353639 original size:48 final size:47
Alignment explanation
Indices: 17353568--17353676 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 47
17353558 AAACGGAGAT
*
17353568 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGATAATG-TATCAGAACAGAATCCA
* *
17353615 GATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
17353663 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
17353677 TAAAATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.02
48 54 0.96
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
Found at i:17353674 original size:24 final size:25
Alignment explanation
Indices: 17353568--17353676 Score: 111
Period size: 24 Copynumber: 4.5 Consensus size: 25
17353558 AAACGGAGAT
*
17353568 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
17353592 ATAAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
17353616 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
17353640 GTAATG-TATCAGAACAGAATTCAAG
1 ATCA-GAAATCAGAACAGAATTCAAG
17353665 -TCAGAAATCAGA
1 ATCAGAAATCAGA
17353677 TAAAATATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.04
24 62 0.89
25 5 0.07
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:17357901 original size:24 final size:24
Alignment explanation
Indices: 17357868--17357915 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
17357858 GCATGAAAAA
*
17357868 GTACATAGATGTTTTATACATCAT
1 GTACACAGATGTTTTATACATCAT
17357892 GTACACAGATGTTTTATACATCAT
1 GTACACAGATGTTTTATACATCAT
17357916 CAGGAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (24 bp):
GTACACAGATGTTTTATACATCAT
Found at i:17358996 original size:12 final size:12
Alignment explanation
Indices: 17358979--17359067 Score: 53
Period size: 12 Copynumber: 7.8 Consensus size: 12
17358969 CACTGTTCAT
17358979 TACTATTCACAG
1 TACTATTCACAG
*
17358991 TACTATCCAC-G
1 TACTATTCACAG
**
17359002 ATACTATTCATGG
1 -TACTATTCACAG
*
17359015 TACTATT--CAT
1 TACTATTCACAG
* *
17359025 TACTGTTCACGG
1 TACTATTCACAG
*
17359037 TACTATT--CAT
1 TACTATTCACAG
* *
17359047 TACTGTTCACAA
1 TACTATTCACAG
17359059 TACTATTCA
1 TACTATTCA
17359068 TAAAAAAACT
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
10 13 0.23
11 1 0.02
12 41 0.73
13 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (12 bp):
TACTATTCACAG
Found at i:17359033 original size:22 final size:22
Alignment explanation
Indices: 17358974--17359068 Score: 100
Period size: 22 Copynumber: 4.2 Consensus size: 22
17358964 CGGTACACTG
* *
17358974 TTCATTACTATTCACAGTACTA
1 TTCATTACTGTTCACGGTACTA
* * * *
17358996 TCCACGATACTATTCATGGTACTA
1 TTCA--TTACTGTTCACGGTACTA
17359020 TTCATTACTGTTCACGGTACTA
1 TTCATTACTGTTCACGGTACTA
**
17359042 TTCATTACTGTTCACAATACTA
1 TTCATTACTGTTCACGGTACTA
17359064 TTCAT
1 TTCAT
17359069 AAAAAAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 43 0.70
24 18 0.30
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (22 bp):
TTCATTACTGTTCACGGTACTA
Found at i:17364110 original size:30 final size:29
Alignment explanation
Indices: 17364074--17364162 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
17364064 AATGGATTTA
* *
17364074 TTTAGTGACCAAATTATAATTTTAGTAAAG
1 TTTAGTGACCAAAATATAATTTT-GAAAAG
* *
17364104 TTTAGTGACCAAAGTATAAACTTTGAAAAG
1 TTTAGTGACCAAAATAT-AATTTTGAAAAG
*
17364134 TTTAAG-GACCAAAATGTAATTTTGGAAAA
1 TTT-AGTGACCAAAATATAATTTT-GAAAA
17364163 ATTACAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.10
30 38 0.76
31 7 0.14
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.34
Consensus pattern (29 bp):
TTTAGTGACCAAAATATAATTTTGAAAAG
Found at i:17373056 original size:64 final size:64
Alignment explanation
Indices: 17372906--17373063 Score: 201
Period size: 64 Copynumber: 2.5 Consensus size: 64
17372896 GATTTAATTG
* *** ***
17372906 AACATCGAATGCATTTCATGCACCGATGCACTCTCCATGCATCGATGCACTTTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGGAATATTTTCA
* *
17372970 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACCAGG-CTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGGAATA-TTTTCA
* *
17373034 AACATCGAATGCATTTTATGCATCGTTGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
17373064 TCCTTAGTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 2 0.02
64 80 0.98
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGGAATATTTTCA
Found at i:17385545 original size:64 final size:64
Alignment explanation
Indices: 17385477--17385634 Score: 205
Period size: 64 Copynumber: 2.5 Consensus size: 64
17385467 GATTTAATTG
* * *
17385477 AACATCGAATCCATTTCATGCA-CTGATGCACTCA-CCATGCATCGATGCACTCTGAATA-TTTT
1 AACATCGAATGCATTTCATGCATC-GATGCAC-AAGCCATGCATCGATGCAC-CAGAATATTTTT
17385539 CA
63 CA
* **
17385541 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
*
17385605 AACATCGAATGCATTTTATGCATCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCA
17385635 TCCTTAGTGC
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 5 0.06
64 78 0.93
65 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
Found at i:17389290 original size:38 final size:42
Alignment explanation
Indices: 17389236--17389365 Score: 124
Period size: 47 Copynumber: 3.0 Consensus size: 42
17389226 GGTTTATTGG
*
17389236 TTAATAAATGGTAAG-TAT-G-AAAATAAGCTTACGAGCTTA
1 TTAATAAATGGCAAGATATGGAAAAATAAGCTTACGAGCTTA
17389275 TTAAT-AATGGCAAGTATATGGATAAAATAAGCTTACGAGCTTA
1 TTAATAAATGGCAAG-ATATGGA-AAAATAAGCTTACGAGCTTA
* * * *
17389318 TGGAATTTAAATGGTAAGTATTTTGATAAAATAAGCTTACGAGCTTA
1 T-TAA--TAAATGGCAAG-ATATGGA-AAAATAAGCTTACGAGCTTA
17389365 T
1 T
17389366 GGGATAAATG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
38 8 0.10
39 5 0.06
40 3 0.04
41 1 0.01
43 21 0.27
44 2 0.03
46 1 0.01
47 36 0.47
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (42 bp):
TTAATAAATGGCAAGATATGGAAAAATAAGCTTACGAGCTTA
Found at i:17389349 original size:47 final size:45
Alignment explanation
Indices: 17389255--17389379 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
17389245 GGTAAGTATG
* *
17389255 AAAATAAGCTTACGAGCTTAT-TAAT-AATGGCAAGTATATGGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGAT
* *
17389298 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGAT
1 AAAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGAT
*
17389345 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
17389380 AAGATTTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
43 21 0.29
44 2 0.03
45 10 0.14
46 1 0.01
47 39 0.53
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGAT
Found at i:17393201 original size:59 final size:59
Alignment explanation
Indices: 17393107--17393228 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
17393097 CAATCCTGAG
* * **
17393107 TATGAAACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCCCGAA
1 TATGAAACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
* * * ** *
17393166 TATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCCCGAA
1 TATGAAACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
17393225 TATG
1 TATG
17393229 CAGCCTGCTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (59 bp):
TATGAAACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCCCGAA
Found at i:17395187 original size:24 final size:24
Alignment explanation
Indices: 17395160--17395219 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
17395150 ACCCAACAGC
17395160 AGACCTGACCCAGTATCAGGCCCA
1 AGACCTGACCCAGTATCAGGCCCA
** *
17395184 AGACCCAACCCAGTATTAGGCCCA
1 AGACCTGACCCAGTATCAGGCCCA
*
17395208 AGATCTGACCCA
1 AGACCTGACCCA
17395220 ACCCAATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.18, T:0.13
Consensus pattern (24 bp):
AGACCTGACCCAGTATCAGGCCCA
Found at i:17397182 original size:17 final size:17
Alignment explanation
Indices: 17397155--17397201 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
17397145 GCAGACCAAT
17397155 TTTTGTCTTAAAAAATTA
1 TTTT-TCTTAAAAAATTA
17397173 TTTTTCTTAAAAAATTA
1 TTTTTCTTAAAAAATTA
17397190 TTTTTCTTAAAA
1 TTTTTCTTAAAA
17397202 TTGTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTTCTTAAAAAATTA
Found at i:17402545 original size:67 final size:66
Alignment explanation
Indices: 17402437--17402647 Score: 246
Period size: 67 Copynumber: 3.2 Consensus size: 66
17402427 TTTGAAATTT
* * * * *
17402437 TTTCTCTTGAAACA-AGATCTTTGA-TATCGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGAC
1 TTTCTCTTGAAACACAAATATTTGAGTCT-GATTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
17402500 AA
65 AA
* * * * * *
17402502 TTTCTCTTGAAACACATCATCTTTTAGTCTGATTCTCTTGAAACAAATTTTGTCTTCTTTGAGAC
1 TTTCTCTTGAAACACA-AATATTTGAGTCTGATTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
*
17402567 AG
65 AA
* * *
17402569 TTTCTCTTCAAACACAAATATTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTAAGAC
1 TTTCTCTTGAAACACAAATATTTGAGTCTGATTCCCTTGAAACAAA-TTTTGTCTCCCTTGAGAC
17402634 AA
65 AA
17402636 TTTCTCTTGAAA
1 TTTCTCTTGAAA
17402648 TGATTCCCTA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
65 14 0.11
66 26 0.21
67 80 0.66
68 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (66 bp):
TTTCTCTTGAAACACAAATATTTGAGTCTGATTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
A
Found at i:17402574 original size:36 final size:36
Alignment explanation
Indices: 17402465--17402582 Score: 93
Period size: 36 Copynumber: 3.4 Consensus size: 36
17402455 CTTTGATATC
* * * *
17402465 GTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTTCTTTGAGACA
* * * * * *
17402501 ATTTCTCTTGAAACACA-----TCATCTTTTAGTCT
1 GTTTCTCTTGAAACAAATTTTGTCTTCTTTGAGACA
*
17402532 GATTCTCTTGAAACAAATTTTGTCTTCTTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTTCTTTGAGACA
*
17402568 GTTTCTCTTCAAACA
1 GTTTCTCTTGAAACA
17402583 CAAATATTTG
Statistics
Matches: 58, Mismatches: 19, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
31 22 0.38
36 36 0.62
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTTCTTTGAGACA
Found at i:17402970 original size:133 final size:131
Alignment explanation
Indices: 17402670--17403007 Score: 344
Period size: 130 Copynumber: 2.6 Consensus size: 131
17402660 TATGGCCAGC
** * * *
17402670 CGTCCTCATTGCGTAGGAACCGTGTCATCC-CTCGACCAGACCTCCTCATCATATAGGAGTCATG
1 CGTCCTCATCACGTAGGAACCATGTCATCCACT-GACCAGACCTCCTCATCACATAGGAGTCGTG
* * * *** **
17402734 -CACCCATAGATAATCAGCCATCCTCATCACTTAGGGATTGTGTTATCATCCCTAAAGATGGTAT
65 TCACCCATAGATAACCAGCCATCCTCATCACTTACGAACCATGTTATCATCCCTAAAGATGACAT
17402798 GT
130 GT
* * * * * * * *
17402800 CATCCTAATCACATAGGAACCATGTTATCCACCGACCAAACCTCCTCATCA-GTAGGAGCCGTGT
1 CGTCCTCATCACGTAGGAACCATGTCATCCACTGACCAGACCTCCTCATCACATAGGAGTCGTGT
* *
17402864 CA-CCACTAGATAACCAGCCATCCTTATC-GTGTACGAACCATGTTATCACCTTCCCTAAAGATG
66 CACCCA-TAGATAACCAGCCATCCTCATCACT-TACGAACCATGTTATCA---TCCCTAAAGATG
17402927 ACATGT
126 ACATGT
* **
17402933 CGTCCTCATCACGTAGGAACCTTGTCATCCACTGACCAGATATCCTCATCACATAGGAGTCGTGT
1 CGTCCTCATCACGTAGGAACCATGTCATCCACTGACCAGACCTCCTCATCACATAGGAGTCGTGT
*
17402998 CACCCTTAGA
66 CACCCATAGA
17403008 CGACCAGAAC
Statistics
Matches: 165, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
129 13 0.08
130 74 0.45
131 1 0.01
133 58 0.35
134 17 0.10
135 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (131 bp):
CGTCCTCATCACGTAGGAACCATGTCATCCACTGACCAGACCTCCTCATCACATAGGAGTCGTGT
CACCCATAGATAACCAGCCATCCTCATCACTTACGAACCATGTTATCATCCCTAAAGATGACATG
T
Found at i:17403358 original size:24 final size:24
Alignment explanation
Indices: 17403326--17403376 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17403316 ACCCAACAAC
* * * *
17403326 AGACTCGACCCAGTATCAGGTCCA
1 AGACCCGACCCAGGACCAGGCCCA
17403350 AGACCCGACCCAGGACCAGGCCCA
1 AGACCCGACCCAGGACCAGGCCCA
17403374 AGA
1 AGA
17403377 TCTGATCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.37, G:0.24, T:0.08
Consensus pattern (24 bp):
AGACCCGACCCAGGACCAGGCCCA
Found at i:17403797 original size:19 final size:20
Alignment explanation
Indices: 17403760--17403797 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
17403750 CTATTTCGAA
*
17403760 AAAAAAAACACAAATAAAAG
1 AAAAAAAACACAAACAAAAG
*
17403780 AAAAAAAA-AGAAACAAAA
1 AAAAAAAACACAAACAAAA
17403798 AGAGGGAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAAAAAACACAAACAAAAG
Found at i:17405495 original size:23 final size:23
Alignment explanation
Indices: 17405469--17405524 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
17405459 ATTAAAGTCA
17405469 TAATTGTTTTTTAAAATAATATT
1 TAATTGTTTTTTAAAATAATATT
17405492 TAATTGTTTTTTAAAATAATATT
1 TAATTGTTTTTTAAAATAATATT
*
17405515 TAATTATTTT
1 TAATTGTTTT
17405525 AGAAAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TAATTGTTTTTTAAAATAATATT
Found at i:17405530 original size:23 final size:23
Alignment explanation
Indices: 17405481--17405530 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
17405471 ATTGTTTTTT
* **
17405481 AAAATAATATTTAATTGTTTTTT
1 AAAATAATATTTAATTATTTTAG
17405504 AAAATAATATTTAATTATTTTAG
1 AAAATAATATTTAATTATTTTAG
17405527 AAAA
1 AAAA
17405531 AATGGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAAATAATATTTAATTATTTTAG
Found at i:17408655 original size:54 final size:53
Alignment explanation
Indices: 17408533--17408915 Score: 324
Period size: 54 Copynumber: 7.1 Consensus size: 53
17408523 TTGTAATTCA
* * * * *
17408533 CTCTACTCCT-TAGTAACAAAGGAATGCTAGAACTTGA-TCAATCTTAAAAGTTTG
1 CTCTACTCCTCCA-TAACAAAGGAACGCTAGAGCTT-ACTCGATCTTGAAA-TTTG
* * * * * * * *
17408587 CTGTATTCCTCCATAATAAAGGAACGTTAGAGTTTACTCAACCTTGGAATTTCG
1 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATCTTGAAATTT-G
* *
17408641 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTTCTCTG-TCATGTAAATTTG
1 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTC-GATCTTG-AAATTTG
* * * * *
17408695 CTCTACTCCTTCATAAAAAAGGAATGCTAGAGCTTACTCGATCTCAGAAATTTA
1 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATCT-TGAAATTTG
* * * * *
17408749 CTCCACTCCTTCATAACAAAGGAACACTAGAGCTTACTCGGTCTTGGAAATTTT
1 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATCTT-GAAATTTG
* * *
17408803 CTCTACTCCTCTATAACAAAGGAACACTAGAGCTTACTCGTTCTTTGGAAATTTG
1 CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATC-TT-GAAATTTG
* * * * * *
17408858 C-CTTACTCATCCATAACAAGGGAATGATAGAGCTTACTCGGTCTTAGAAATTTA
1 CTC-TACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATCTT-GAAATTTG
17408912 CTCT
1 CTCT
17408916 TTTGATTTGA
Statistics
Matches: 269, Mismatches: 49, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
53 5 0.02
54 212 0.79
55 52 0.19
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (53 bp):
CTCTACTCCTCCATAACAAAGGAACGCTAGAGCTTACTCGATCTTGAAATTTG
Found at i:17410859 original size:44 final size:45
Alignment explanation
Indices: 17410740--17410864 Score: 180
Period size: 47 Copynumber: 2.8 Consensus size: 45
17410730 TAAAATCATT
*
17410740 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
17410785 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
17410832 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
17410865 GTATGCTTAC
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 24 0.33
45 9 0.12
46 2 0.03
47 38 0.52
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:17411095 original size:59 final size:58
Alignment explanation
Indices: 17410965--17411099 Score: 180
Period size: 59 Copynumber: 2.3 Consensus size: 58
17410955 ATAAGCACCG
* ** *
17410965 TAGTGCTATCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACTATGTATCCTT
1 TAGTG-TATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTT
* **
17411024 AAGTACAGTCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTT
1 TAGTGTA-TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTT
17411083 TAGTGTATTCCCGAATA
1 TAGTGTA-TCCCGAATA
17411100 CGCAGCCTGC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 63 0.98
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (58 bp):
TAGTGTATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTT
Found at i:17416920 original size:23 final size:23
Alignment explanation
Indices: 17416886--17416996 Score: 89
Period size: 23 Copynumber: 4.8 Consensus size: 23
17416876 GAGTCGAGGG
* * *
17416886 TTCTACGCGGTCCTTGGGGACAA
1 TTCTACGTGGTCATTCGGGACAA
*
17416909 TTCTATGTGGTCATTCGGGACAAA
1 TTCTACGTGGTCATTCGGGAC-AA
** ** *
17416933 TTCTACACGGTCATTCGACACAT
1 TTCTACGTGGTCATTCGGGACAA
* *
17416956 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCATTCGGGACAA
*
17416979 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTCA-TTCGG
17416997 TGCGTATTCT
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 1 0.01
23 50 0.72
24 18 0.26
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
TTCTACGTGGTCATTCGGGACAA
Found at i:17417032 original size:23 final size:23
Alignment explanation
Indices: 17416979--17417032 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
17416969 TTCGGGACAT
* *
17416979 TTCTATGTGGCACTTCGGTGCGTA
1 TTCTATGCGACACTTCGGT-CGTA
17417003 TTCTATGCGACACTTCGGT-GTAA
1 TTCTATGCGACACTTCGGTCGT-A
17417026 TTCTATG
1 TTCTATG
17417033 TGGCAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 8 0.30
24 17 0.63
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (23 bp):
TTCTATGCGACACTTCGGTCGTA
Found at i:17423806 original size:23 final size:23
Alignment explanation
Indices: 17423772--17423843 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
17423762 GGTTCTAAGC
*
17423772 GGTCATTCGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* * * *
17423795 GGTTCTTTGGGACAAATTCTACGC
1 GGTCCTTCGGGAC-AATTCTATGT
* *
17423819 GGTCCTTCGGGATATTTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
17423842 GG
1 GG
17423844 AACTTCGGTG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:17423830 original size:24 final size:23
Alignment explanation
Indices: 17423764--17423830 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 23
17423754 GAGTTGAGGG
*
17423764 TTCTAAGCGGTCATTCGGGACAA
1 TTCTAAGCGGTCCTTCGGGACAA
* * * *
17423787 TTCTATGTGGTTCTTTGGGACAAA
1 TTCTAAGCGGTCCTTCGGGAC-AA
*
17423811 TTCTACGCGGTCCTTCGGGA
1 TTCTAAGCGGTCCTTCGGGA
17423831 TATTTCTATG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (23 bp):
TTCTAAGCGGTCCTTCGGGACAA
Found at i:17423861 original size:47 final size:45
Alignment explanation
Indices: 17423764--17423911 Score: 111
Period size: 47 Copynumber: 3.1 Consensus size: 45
17423754 GAGTTGAGGG
* * * ** *
17423764 TTCTAAGCGGTCATTCGGGACAATTCTATGTGGTTCTTTGG-GACAAA
1 TTCTACGCGGTCCTTCGGGA-TATTCTATGTGGAACTTCGGTG-C-AA
17423811 TTCTACGCGGTCCTTCGGGATATTTCTATGTGGAACTTCGGTGCATA
1 TTCTACGCGGTCCTTCGGGATA-TTCTATGTGGAACTTCGGTGCA-A
* * *
17423858 TTCTACGTGG-CACTTCGGTGCATATTCTACGTGTGGCACTTCGATGCAA
1 TTCTACGCGGTC-CTTCGG-G-ATATTCTA--TGTGGAACTTCGGTGCAA
17423907 TTCTA
1 TTCTA
17423912 TGTGGTGGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
46 3 0.04
47 50 0.60
48 7 0.08
49 9 0.11
50 15 0.18
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (45 bp):
TTCTACGCGGTCCTTCGGGATATTCTATGTGGAACTTCGGTGCAA
Found at i:17423867 original size:24 final size:24
Alignment explanation
Indices: 17423810--17423916 Score: 105
Period size: 24 Copynumber: 4.5 Consensus size: 24
17423800 TTTGGGACAA
*
17423810 ATTCTACGCGGTC-CTTCGG-G-AT
1 ATTCTACGTGG-CACTTCGGTGCAT
* *
17423832 ATTTCTATGTGGAACTTCGGTGCAT
1 A-TTCTACGTGGCACTTCGGTGCAT
17423857 ATTCTACGTGGCACTTCGGTGCAT
1 ATTCTACGTGGCACTTCGGTGCAT
*
17423881 ATTCTACGTGTGGCACTTCGATGCA-
1 ATTCTAC--GTGGCACTTCGGTGCAT
*
17423906 ATTCTATGTGG
1 ATTCTACGTGG
17423917 TGGTTTCGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.01
23 18 0.25
24 29 0.40
25 9 0.12
26 15 0.21
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (24 bp):
ATTCTACGTGGCACTTCGGTGCAT
Found at i:17423900 original size:26 final size:25
Alignment explanation
Indices: 17423834--17423916 Score: 111
Period size: 24 Copynumber: 3.4 Consensus size: 25
17423824 TTCGGGATAT
*
17423834 TTCTA-TGTGGAACTTCGGTGCATA
1 TTCTACTGTGGCACTTCGGTGCATA
17423858 TTCTAC-GTGGCACTTCGGTGCATA
1 TTCTACTGTGGCACTTCGGTGCATA
*
17423882 TTCTACGTGTGGCACTTCGATGCA-A
1 TTCTAC-TGTGGCACTTCGGTGCATA
17423907 TTCTA-TGTGG
1 TTCTACTGTGG
17423917 TGGTTTCGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.09
24 28 0.52
25 6 0.11
26 15 0.28
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (25 bp):
TTCTACTGTGGCACTTCGGTGCATA
Found at i:17426958 original size:21 final size:21
Alignment explanation
Indices: 17426932--17427003 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
17426922 CTACTTGCAG
*
17426932 TATCGATACCCTAGGGTCATA
1 TATCGATACCCTAGGGTCAGA
*
17426953 TATCGATACGCTAGGGTCAGA
1 TATCGATACCCTAGGGTCAGA
17426974 TATCGATACCCTAGGG--AGA
1 TATCGATACCCTAGGGTCAGA
*
17426993 TATCGACACCC
1 TATCGATACCC
17427004 CTATAAGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 13 0.28
21 34 0.72
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (21 bp):
TATCGATACCCTAGGGTCAGA
Done.