Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 43 of 345
Found at i:12316803 original size:31 final size:31
Alignment explanation
Indices: 12316768--12316828 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
12316758 TATGAATTTG
12316768 GTCTATCCAGATCTATACAAGTAAATTTAAA
1 GTCTATCCAGATCTATACAAGTAAATTTAAA
12316799 GTCTATCCAGATCTATACAAGTAAATTTAA
1 GTCTATCCAGATCTATACAAGTAAATTTAA
12316829 CATAATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (31 bp):
GTCTATCCAGATCTATACAAGTAAATTTAAA
Found at i:12320495 original size:29 final size:29
Alignment explanation
Indices: 12320462--12320517 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
12320452 TCGTTTGAGG
12320462 TCAAATTTGCATAAAATTCACAAACTAGA
1 TCAAATTTGCATAAAATTCACAAACTAGA
12320491 TCAAATTTGCATAAAATTCACAAACTA
1 TCAAATTTGCATAAAATTCACAAACTA
12320518 ACTCTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (29 bp):
TCAAATTTGCATAAAATTCACAAACTAGA
Found at i:12323972 original size:17 final size:17
Alignment explanation
Indices: 12323932--12323975 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
12323922 AAAGTTGATA
12323932 ATAATTAA-TATACATT
1 ATAATTAATTATACATT
12323948 ATAA-TAATTATA-ATT
1 ATAATTAATTATACATT
12323963 ATATATTAATTAT
1 ATA-ATTAATTAT
12323976 TATAACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.36
16 9 0.36
17 7 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTAATTATACATT
Found at i:12353070 original size:29 final size:29
Alignment explanation
Indices: 12353035--12353112 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
12353025 ATAAATCGAC
* * * ** *
12353035 TTGGCTTTGGGCTATGCTTATCGGCTGAT
1 TTGGCTTCGGGCCATGCATATCAACTAAT
12353064 TTGGCTTCGGGCCATGCATATCAACTAAT
1 TTGGCTTCGGGCCATGCATATCAACTAAT
12353093 TTGGCTTCGGGCCATG-ATAT
1 TTGGCTTCGGGCCATGCATAT
12353113 TAGTATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 4 0.09
29 39 0.91
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.36
Consensus pattern (29 bp):
TTGGCTTCGGGCCATGCATATCAACTAAT
Found at i:12353955 original size:14 final size:14
Alignment explanation
Indices: 12353933--12353967 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12353923 TGAATGAATA
12353933 AAACATGAGTTTAT
1 AAACATGAGTTTAT
*
12353947 AAGCATGAGTTTAT
1 AAACATGAGTTTAT
12353961 AAACATG
1 AAACATG
12353968 GTATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (14 bp):
AAACATGAGTTTAT
Found at i:12363551 original size:46 final size:46
Alignment explanation
Indices: 12363501--12363676 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
12363491 TGGTTGAGCA
*
12363501 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
12363547 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
12363592 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
12363640 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12363677 GCGAGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 63 0.57
47 29 0.26
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:12363657 original size:93 final size:93
Alignment explanation
Indices: 12363498--12363669 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
12363488 GGATGGTTGA
* *
12363498 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
12363563 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
12363591 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
12363656 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
12363670 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12367511 original size:38 final size:38
Alignment explanation
Indices: 12367450--12367638 Score: 202
Period size: 38 Copynumber: 4.9 Consensus size: 38
12367440 ATTTGATGTG
* *
12367450 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
12367490 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-CA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
*
12367528 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
12367566 TATACGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
12367604 TATCTGAGTTTAAAGTCTCGTAGGCTTCGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGG
12367639 TGTTATGTTT
Statistics
Matches: 129, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.02
38 90 0.70
39 13 0.10
40 24 0.19
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:12367607 original size:76 final size:77
Alignment explanation
Indices: 12367450--12367644 Score: 232
Period size: 76 Copynumber: 2.5 Consensus size: 77
12367440 ATTTGATGTG
* * * * *
12367450 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCGTGCTGGTATTATATACGGGTTAAATCCCGCAGGCC
*
12367514 TCGTGCTGGTAACA
64 TAGTGCTGGTAACA
12367528 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATACGGGTTAAATCCCGCAGGCCTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATACGGGTTAAATCCCGCAGGCCTA
**
12367592 GTGCTGGTATTA
66 GTGCTGGTAACA
* * * * *
12367604 TATCTGAGTTTAAAGTCTCGTAGGCTTCGTGCTGGTGTTAT
1 TATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTAT
12367645 GTTTGGGTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 58 0.57
77 11 0.11
78 31 0.31
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATACGGGTTAAATCCCGCAGGCCTA
GTGCTGGTAACA
Found at i:12374789 original size:19 final size:20
Alignment explanation
Indices: 12374757--12374794 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12374747 TGTTTAAAAA
*
12374757 TTTTTATTTATTATTTTATG
1 TTTTTACTTATTATTTTATG
12374777 TTTTTACTT-TTATTTTAT
1 TTTTTACTTATTATTTTAT
12374795 TTTATGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTACTTATTATTTTATG
Found at i:12382289 original size:52 final size:51
Alignment explanation
Indices: 12382193--12382293 Score: 114
Period size: 52 Copynumber: 2.0 Consensus size: 51
12382183 CTGGACTTCC
* *
12382193 TCACACGAGTAGCCCACACGGCCATGCTAACTTGGCAGAATCGAAGCACAAT
1 TCACACGAGCAGACCACACGGCCATGCTAACTTGGCAGAATCGAA-CACAAT
* * * **
12382245 TCACACGAGCAGACCACATGGCCGTG-TCAATTTGGCAGGCTCGAACACA
1 TCACACGAGCAGACCACACGGCCATGCT-AACTTGGCAGAATCGAACACA
12382294 GCCTGAAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
51 5 0.12
52 36 0.88
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.16
Consensus pattern (51 bp):
TCACACGAGCAGACCACACGGCCATGCTAACTTGGCAGAATCGAACACAAT
Found at i:12390864 original size:42 final size:42
Alignment explanation
Indices: 12390758--12390916 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 42
12390748 CGATATGTGT
* * *
12390758 TTTCGTGTTAGACCACATCTGGGACATTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA
*
12390801 TTTACGTGTAAGACCACGTCTGGTACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
**
12390844 TTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCG-TATTTGA
* *
12390887 TTACATGTAAGACCACGTCTGGGACGTTGG
1 TTTCGTGTAAGACCACGTCTGGGACGTTGG
12390917 TATTGTATGA
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 30 0.30
45 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
Found at i:12391149 original size:20 final size:20
Alignment explanation
Indices: 12391112--12391156 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12391102 AATAAGCTAC
12391112 ATGTGTAAATGAATTGAAAT
1 ATGTGTAAATGAATTGAAAT
* *
12391132 ATGTG-AAATGTATATGAACT
1 ATGTGTAAATGAAT-TGAAAT
12391152 ATGTG
1 ATGTG
12391157 GTTTAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (20 bp):
ATGTGTAAATGAATTGAAAT
Found at i:12395201 original size:16 final size:16
Alignment explanation
Indices: 12395157--12395195 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
12395147 TATATGATAT
12395157 CAGGCTTATTGCCTAG
1 CAGGCTTATTGCCTAG
*
12395173 GAGGCTTATTGCCTAG
1 CAGGCTTATTGCCTAG
12395189 CAGGCTT
1 CAGGCTT
12395196 TATGCCGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (16 bp):
CAGGCTTATTGCCTAG
Found at i:12396828 original size:40 final size:40
Alignment explanation
Indices: 12396754--12396892 Score: 221
Period size: 39 Copynumber: 3.5 Consensus size: 40
12396744 AACCCAAGTA
* *
12396754 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
12396793 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
12396832 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
12396872 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
12396893 GTCATCCGAA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 50 0.54
40 42 0.45
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:12403821 original size:20 final size:19
Alignment explanation
Indices: 12403774--12403831 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
12403764 TTTTAAAAAA
*
12403774 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
12403792 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
12403811 TGA-AAATTATTTTAAATTTT
1 T-ATAAA-TATTTTGAATTTT
12403831 T
1 T
12403832 TTTGTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 14 0.40
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:12404169 original size:17 final size:17
Alignment explanation
Indices: 12404147--12404182 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12404137 TATGCAATAC
12404147 AAGGTACCCCCAAGAGT
1 AAGGTACCCCCAAGAGT
12404164 AAGGTACCCCCAAGAGT
1 AAGGTACCCCCAAGAGT
12404181 AA
1 AA
12404183 AGAATTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (17 bp):
AAGGTACCCCCAAGAGT
Found at i:12405606 original size:18 final size:18
Alignment explanation
Indices: 12405583--12405618 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12405573 AATAAGTTTG
12405583 TCTTTAAAATTTAGATAT
1 TCTTTAAAATTTAGATAT
*
12405601 TCTTTAAATTTTAGATAT
1 TCTTTAAAATTTAGATAT
12405619 AAATTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TCTTTAAAATTTAGATAT
Found at i:12411340 original size:55 final size:55
Alignment explanation
Indices: 12411255--12411364 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
12411245 CTTATTTATA
*
12411255 GTCTAAGCTCTACTTACCTCGATTTTGCATAGTCATGGTGGTTCAAGGAGTTTAC
1 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCAAGGAGTTTAC
*
12411310 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCGAGGAGTTTAC
1 GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCAAGGAGTTTAC
12411365 ACTCCTCATC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (55 bp):
GTCTAAGCTCTACTTACCTCGATTTCGCATAGTCATGGTGGTTCAAGGAGTTTAC
Found at i:12421675 original size:26 final size:26
Alignment explanation
Indices: 12421639--12421691 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12421629 CCTTCTATTC
12421639 TATTGTTTTCACACTGTTTTATGATA
1 TATTGTTTTCACACTGTTTTATGATA
12421665 TATTGTTTTCACACTGTTTTATGATA
1 TATTGTTTTCACACTGTTTTATGATA
12421691 T
1 T
12421692 GTTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.55
Consensus pattern (26 bp):
TATTGTTTTCACACTGTTTTATGATA
Found at i:12421965 original size:53 final size:53
Alignment explanation
Indices: 12421898--12422001 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
12421888 ACTATGCAAT
** * * *
12421898 TGATATTGTTACTGTTACTGTATTGACTAGCATGTTATGCTATATGATTGATA
1 TGATATTCCTACTGTTACTGTACTGACTAGCATGATATGCTACATGATTGATA
* **
12421951 TGATATTCCTACTGTTATTGTACTGTTTAGCATGATATGCTACATGATTGA
1 TGATATTCCTACTGTTACTGTACTGACTAGCATGATATGCTACATGATTGA
12422002 AATGCCATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (53 bp):
TGATATTCCTACTGTTACTGTACTGACTAGCATGATATGCTACATGATTGATA
Found at i:12425140 original size:44 final size:44
Alignment explanation
Indices: 12425090--12425196 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
12425080 TGTGTTTTCC
* * *
12425090 TGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGACATCAACTTATGATTTACG
** * *
12425134 TGTAAGACCACGTCTAAGACGTTGACATCAACTTATGATTTATG
1 TGTAAGACCACGTCTGGGACATTGACATCAACTTATGATTTACG
*
12425178 TGTAAGACCATGTCTGGGA
1 TGTAAGACCACGTCTGGGA
12425197 GCATCATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGACATCAACTTATGATTTACG
Found at i:12432913 original size:43 final size:43
Alignment explanation
Indices: 12432758--12432914 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
12432748 TGTGTTTTCG
* * *
12432758 TGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * * *
12432802 TGTAAGACTATGTCTGGGACATCGGCATC-ATAATTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* * * *
12432844 TGTAAAACC-CTGTCTAGAACAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
12432887 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
12432915 TGTACGAGCT
Statistics
Matches: 84, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
42 24 0.29
43 35 0.42
44 25 0.30
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:12433735 original size:77 final size:77
Alignment explanation
Indices: 12433646--12433797 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
12433636 TAATGATATG
*
12433646 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAATGATGAAATT
1 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
12433711 TGTTGTTAATAA
66 TGTTGTTAATAA
12433723 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
1 TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
12433788 TGTTGTTAAT
66 TGTTGTTAAT
12433798 GAAATGGCAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (77 bp):
TTAGAATGAATGAGTTTGCTATGTGATTTTTGGTATGTTTTGAATTGGTTAAAAAGGATGAAATT
TGTTGTTAATAA
Found at i:12437557 original size:45 final size:46
Alignment explanation
Indices: 12437460--12437568 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
12437450 AGCTTAAGAT
*
12437460 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
12437507 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
12437552 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
12437569 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:12441039 original size:24 final size:25
Alignment explanation
Indices: 12440984--12441041 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
12440974 TTTGTTTGGA
*
12440984 AAACTACCGAGATTTTTTTTCAAGT
1 AAACCACCGAGATTTTTTTTCAAGT
* *
12441009 AACCCACCGAGATTTTTTTTTAA-T
1 AAACCACCGAGATTTTTTTTCAAGT
12441033 AAACCACCG
1 AAACCACCG
12441042 TGATATTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (25 bp):
AAACCACCGAGATTTTTTTTCAAGT
Found at i:12443186 original size:10 final size:10
Alignment explanation
Indices: 12443167--12443216 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
12443157 TTAAATTTTA
12443167 AAAGATAAAT
1 AAAGATAAAT
12443177 ACAA-ATAAAT
1 A-AAGATAAAT
*
12443187 AAAGATAATT
1 AAAGATAAAT
12443197 AAAGATAAAT
1 AAAGATAAAT
12443207 GAAA-ATAAAT
1 -AAAGATAAAT
12443217 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:12444873 original size:17 final size:17
Alignment explanation
Indices: 12444853--12444886 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12444843 AGTTTTATGT
12444853 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
12444870 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
12444887 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:12445225 original size:16 final size:17
Alignment explanation
Indices: 12445191--12445227 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12445181 TACAAAAATG
12445191 TATAAAACATCAGATTT
1 TATAAAACATCAGATTT
*
12445208 TATAAAATATCA-ATTT
1 TATAAAACATCAGATTT
12445224 TATA
1 TATA
12445228 TTTTTAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAAACATCAGATTT
Found at i:12447277 original size:18 final size:17
Alignment explanation
Indices: 12447237--12447279 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
12447227 TATACTCCTT
*
12447237 TATTTTATAATTTTTTA
1 TATTTTAAAATTTTTTA
*
12447254 TAATTTTAAAATTTTCTTG
1 T-ATTTTAAAATTTT-TTA
12447273 TATTTTA
1 TATTTTA
12447280 GGATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTTTAAAATTTTTTA
Found at i:12451722 original size:20 final size:22
Alignment explanation
Indices: 12451694--12451735 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12451684 TGAACTCAAC
12451694 CATTAATCA-A-ATTTCATATA
1 CATTAATCATACATTTCATATA
*
12451714 CATTTATCATACATTTCATATA
1 CATTAATCATACATTTCATATA
12451736 TCATGTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTAATCATACATTTCATATA
Found at i:12451752 original size:22 final size:22
Alignment explanation
Indices: 12451704--12451746 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12451694 CATTAATCAA
* *
12451704 ATTTCATATACATTTATCATAC
1 ATTTCATATACATGTAACATAC
12451726 ATTTCATATATCATGTAACAT
1 ATTTCATATA-CATGTAACAT
12451747 TATTTCCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTCATATACATGTAACATAC
Found at i:12451961 original size:24 final size:25
Alignment explanation
Indices: 12451909--12451995 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 25
12451899 GTACATATAT
* * *
12451909 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
*
12451934 GCTCTTACGAGCTATAAAT-GGTAA
1 GCTCATACGAGCTATAAATCGGTAA
* * *
12451958 GCTCCTCCAAGCTGA-ATAA-CGGTAA
1 GCTCATACGAGCT-ATA-AATCGGTAA
*
12451983 ACTCATACGAGCT
1 GCTCATACGAGCT
12451996 GAATATCAGT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 15 0.31
25 33 0.69
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:12459313 original size:57 final size:57
Alignment explanation
Indices: 12459225--12459338 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
12459215 TGTATAACGG
12459225 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
1 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
*
12459282 AAAGTAAACTTACCGGTCATATTTATTAATACAAGCATACATAAATTTACATTCCAT
1 AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
12459339 CTATTTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (57 bp):
AAAGTAAACTTACCGGTAATATTTATTAATACAAGCATACATAAATTTACATTCCAT
Found at i:12460040 original size:24 final size:24
Alignment explanation
Indices: 12460011--12460061 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
12460001 TTCGGATCTA
12460011 TATGGATAAATTTAACTATTAATC
1 TATGGATAAATTTAACTATTAATC
12460035 TATGGATAAATTTAACTATTAATC
1 TATGGATAAATTTAACTATTAATC
12460059 TAT
1 TAT
12460062 CACATTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (24 bp):
TATGGATAAATTTAACTATTAATC
Found at i:12477472 original size:40 final size:40
Alignment explanation
Indices: 12477395--12477615 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
12477385 ACCCAAGTAT
* *
12477395 CTTCGGGAT-TTAG-CCGGATATA-ACAACTTGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
12477434 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
12477474 CTTTGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
12477514 CTTCGAGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
12477554 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
**
12477594 CTTCGGGAATTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
12477616 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 141 0.90
41 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:12485394 original size:42 final size:42
Alignment explanation
Indices: 12485335--12485415 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
12485325 GATTAAATAA
12485335 GTTAATTTTGAATTCATATAGATCAAGAAAGAAAGAATTCAG
1 GTTAATTTTGAATTCATATAGATCAAGAAAGAAAGAATTCAG
*
12485377 GTTAATTTTGAATTCATATAGATTAAGAAAGAAAGAATT
1 GTTAATTTTGAATTCATATAGATCAAGAAAGAAAGAATT
12485416 TAGATTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (42 bp):
GTTAATTTTGAATTCATATAGATCAAGAAAGAAAGAATTCAG
Found at i:12486986 original size:39 final size:41
Alignment explanation
Indices: 12486943--12487044 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 41
12486933 CCCGTACCCG
*
12486943 ATGCCTTCGGGCTTAGCCCGGAAT-TAGTAAC-TCGCACAA
1 ATGCCTTCGGGCTTAGCCCGGAATATAGTAACTTAGCACAA
* * * * *
12486982 ATGCCTTCGGCTCTTAGTCCAG-ATATGGTCACTTAGCACAA
1 ATGCCTTCGG-GCTTAGCCCGGAATATAGTAACTTAGCACAA
12487023 A-GCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGG-CTTAGCCCGGA
12487045 CATCATTCGA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
39 12 0.24
40 29 0.59
41 8 0.16
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (41 bp):
ATGCCTTCGGGCTTAGCCCGGAATATAGTAACTTAGCACAA
Found at i:12488952 original size:37 final size:37
Alignment explanation
Indices: 12488902--12488980 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12488892 TTATTATGAA
* * *
12488902 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
12488939 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
12488976 GTCTT
1 GTCTT
12488981 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:12489170 original size:47 final size:47
Alignment explanation
Indices: 12489099--12489258 Score: 257
Period size: 47 Copynumber: 3.4 Consensus size: 47
12489089 CCCTTCGGGA
* * * * * *
12489099 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12489146 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12489193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12489240 CTTATCACATATATACACT
1 CTTATCACATATATACACT
12489259 GTCTTGGCTG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12492091 original size:40 final size:40
Alignment explanation
Indices: 12492059--12492360 Score: 313
Period size: 40 Copynumber: 7.6 Consensus size: 40
12492049 CCAGCATGAT
* * * *
12492059 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** ** *
12492099 TGCTCTTTGGGGTTTAGCAAGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
12492139 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
12492179 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
12492219 AGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
12492259 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
12492300 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
12492340 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
12492361 ATTAGTAACT
Statistics
Matches: 223, Mismatches: 38, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
39 10 0.04
40 201 0.90
41 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:12492314 original size:80 final size:80
Alignment explanation
Indices: 12492059--12492440 Score: 332
Period size: 80 Copynumber: 4.8 Consensus size: 80
12492049 CCAGCATGAT
* * * * * ** **
12492059 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCAAGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
12492124 TATCACTAGCACGAA
66 TATAACTAGCACAAA
** *
12492139 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
12492204 CATCACTAGCACGAAA
66 TATAACTAGCAC-AAA
* * * *
12492220 -GCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
12492284 TAGTAACTCGCACAAA
66 TA-TAACTAGCACAAA
* ** * * *
12492300 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGA-
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
12492361 ATTAGTAACTCGCACAAA
65 A-TA-TAACTAGCACAAA
* ** * *
12492379 TGC-CTT-GGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCCGGACTTAGCCCGG
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGG
12492440 A
63 A
12492441 CATCATTCGA
Statistics
Matches: 254, Mismatches: 39, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
78 5 0.02
79 55 0.22
80 170 0.67
81 24 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATAACTAGCACAAA
Found at i:12492370 original size:39 final size:40
Alignment explanation
Indices: 12492177--12492440 Score: 227
Period size: 40 Copynumber: 6.6 Consensus size: 40
12492167 CACTAGCATG
** * *
12492177 AATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGA
1 AATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC-A
* * ** * * **
12492218 AA-GCTCTTTGGAACTTAGCCCGGATACA-TCACTAGCATG
1 AATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
12492257 AATGCTCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACA
1 AATGC-CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
* *
12492298 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
12492338 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* * * * *
12492377 AATGCCTT-GGGATCTTAGTCCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
*
12492418 AA-GCCTTCCGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
12492441 CATCATTCGA
Statistics
Matches: 190, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.02
39 35 0.18
40 125 0.66
41 27 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:12492424 original size:79 final size:80
Alignment explanation
Indices: 12492263--12492440 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 80
12492253 CATGAATGCT
* *
12492263 CTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
* *
12492327 TAACTCGCACCAATGC
65 TAACTAGCACCAAAGC
** *
12492343 CTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-GGGATCTTAGTCCGGATATGG
1 CTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAG
*
12492406 TCACTTAGCA-CAAAGC
65 TAAC-TAGCACCAAAGC
*
12492422 CTTCCGGACTTAGCCCGGA
1 CTT-CGGGCTTAGCCCGGA
12492441 CATCATTCGA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.65
80 26 0.31
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGT
AACTAGCACCAAAGC
Found at i:12514399 original size:34 final size:34
Alignment explanation
Indices: 12514346--12514426 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
12514336 TTAGCCCCTC
*
12514346 TTTTAGTAGCAGTAACAGTCTGGGCCTGAGCCCA
1 TTTTAGTATCAGTAACAGTCTGGGCCTGAGCCCA
** * *
12514380 TTTTAGTATCAGTGGCAGTCTGGGTCTTAGCCCA
1 TTTTAGTATCAGTAACAGTCTGGGCCTGAGCCCA
12514414 TTTTAGTAT-AGTA
1 TTTTAGTATCAGTA
12514427 TGTAAACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 3 0.07
34 38 0.93
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (34 bp):
TTTTAGTATCAGTAACAGTCTGGGCCTGAGCCCA
Found at i:12518483 original size:22 final size:22
Alignment explanation
Indices: 12518449--12518490 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12518439 ATATTTAACC
* *
12518449 TTGTGAATGAATATGTGATAGT
1 TTGTGAATCAATATGAGATAGT
*
12518471 TTGTGGATCAATATGAGATA
1 TTGTGAATCAATATGAGATA
12518491 TATTATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.38
Consensus pattern (22 bp):
TTGTGAATCAATATGAGATAGT
Found at i:12520679 original size:36 final size:36
Alignment explanation
Indices: 12520639--12520709 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
12520629 TTTGCTAGCT
*
12520639 TGAGTGCAATGTTTACAAGCTTGAGTTTGGTTAATC
1 TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAATC
* *
12520675 TGAGTGCAATGTTTGCTAGCTTGAGTCTGGTTAAT
1 TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAAT
12520710 GATGGAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (36 bp):
TGAGTGCAATGTTTACAAGCTTGAGTCTGGTTAATC
Found at i:12522947 original size:23 final size:23
Alignment explanation
Indices: 12522921--12522965 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
12522911 CTATTGGCAA
12522921 TTCATCTACAAATCTACTGGTGG
1 TTCATCTACAAATCTACTGGTGG
*
12522944 TTCATCTACATATCTACTGGTG
1 TTCATCTACAAATCTACTGGTG
12522966 ATATATCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (23 bp):
TTCATCTACAAATCTACTGGTGG
Found at i:12523527 original size:22 final size:22
Alignment explanation
Indices: 12523502--12523548 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
12523492 CTCTCCAGCT
12523502 GGAATTATATGTATCTAAATAG
1 GGAATTATATGTATCTAAATAG
* *
12523524 GGAATTATATGTATTTGAATAG
1 GGAATTATATGTATCTAAATAG
12523546 GGA
1 GGA
12523549 TTTCTTCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (22 bp):
GGAATTATATGTATCTAAATAG
Found at i:12526831 original size:16 final size:16
Alignment explanation
Indices: 12526798--12526894 Score: 88
Period size: 16 Copynumber: 5.9 Consensus size: 16
12526788 CTATCTATCA
*
12526798 TTTTCACTAG-CTAGAG
1 TTTTCAC-AGTCTATAG
12526814 TTTTCACAGTCTATAG
1 TTTTCACAGTCTATAG
* * *
12526830 TTGTCTCAGTATATAG
1 TTTTCACAGTCTATAG
12526846 TTTTTCACAGTCTATAG
1 -TTTTCACAGTCTATAG
* * *
12526863 TTGTCTCAATCTATAG
1 TTTTCACAGTCTATAG
*
12526879 TTTTTAACAGTCTATA
1 -TTTTCACAGTCTATA
12526895 ATTTCAAATC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
15 2 0.03
16 38 0.59
17 24 0.38
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (16 bp):
TTTTCACAGTCTATAG
Found at i:12526856 original size:33 final size:33
Alignment explanation
Indices: 12526814--12526894 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
12526804 CTAGCTAGAG
*
12526814 TTTTCACAGTCTATAGTTGTCTCAGTATATAGT
1 TTTTCACAGTCTATAGTTGTCTCAATATATAGT
*
12526847 TTTTCACAGTCTATAGTTGTCTCAATCTATAGT
1 TTTTCACAGTCTATAGTTGTCTCAATATATAGT
*
12526880 TTTTAACAGTCTATA
1 TTTTCACAGTCTATA
12526895 ATTTCAAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (33 bp):
TTTTCACAGTCTATAGTTGTCTCAATATATAGT
Found at i:12537044 original size:55 final size:55
Alignment explanation
Indices: 12536980--12537105 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
12536970 CCGTGTTAAC
*
12536980 TTAACAGGTTCGACCACGGGTAC-TAGACACGGGCGTGTCGCACGCCCGTATTGTT
1 TTAACAGGTTCGACCAC-GGTACTTACACACGGGCGTGTCGCACGCCCGTATTGTT
* * * * *
12537035 TTAATAGGTTC-ACCCACGGTGCTTTCACACGGGCGTGTCGCACGTCCGTGTTGTT
1 TTAACAGGTTCGA-CCACGGTACTTACACACGGGCGTGTCGCACGCCCGTATTGTT
**
12537090 TTGGCAGGTTCGACCA
1 TTAACAGGTTCGACCA
12537106 TAGCAATGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 5 0.08
55 53 0.90
56 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (55 bp):
TTAACAGGTTCGACCACGGTACTTACACACGGGCGTGTCGCACGCCCGTATTGTT
Found at i:12544223 original size:31 final size:32
Alignment explanation
Indices: 12544188--12544247 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
12544178 CAATAATCTC
* *
12544188 CATTACTTT-TGAATTAGTTTTCATTTTTTTT
1 CATTACTTTATCAATTAGTTTGCATTTTTTTT
*
12544219 CATTACTTTATCATTTAGTTTGCATTTTT
1 CATTACTTTATCAATTAGTTTGCATTTTT
12544248 AGGTTCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.62
Consensus pattern (32 bp):
CATTACTTTATCAATTAGTTTGCATTTTTTTT
Found at i:12545822 original size:13 final size:13
Alignment explanation
Indices: 12545804--12545828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12545794 TCAAACTACG
12545804 TTTTATTTTTTAT
1 TTTTATTTTTTAT
12545817 TTTTATTTTTTA
1 TTTTATTTTTTA
12545829 GCAGATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:12547382 original size:239 final size:239
Alignment explanation
Indices: 12546963--12547442 Score: 933
Period size: 239 Copynumber: 2.0 Consensus size: 239
12546953 TCTGTTGTAC
12546963 GCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCAAATTTTCAATTCAATCTCGATTCTAACCCTT
1 GCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCAAATTTTCAATTCAATCTCGATTCTAACCCTT
*
12547028 TCTTTCAGATTGTGACCACACCCCCCTAACCAAGCCTCACTACAACCCTCTAAAGACCCTTTGAT
66 TCTTTCAGATTGTGACCACACCCCCCTAACCAAGCCTCACTACAACCCTCGAAAGACCCTTTGAT
*
12547093 TGATGTATCATCTTAAATTATAGTGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGTGCCGTTGG
131 TGATGTATCATCTTAAATTATAGTGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGTACCGTTGG
12547158 AGTTTTTAGTTCCTATTTGATGATGAGCTTTAGAGCTCTTTATG
196 AGTTTTTAGTTCCTATTTGATGATGAGCTTTAGAGCTCTTTATG
12547202 GCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCAAATTTTCAATTCAATCTCGATTCTAACCCTT
1 GCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCAAATTTTCAATTCAATCTCGATTCTAACCCTT
12547267 TCTTTCAGATTGTGACCACACCCCCCTAACCAAGCCTCACTACAACCCTCGAAAGACCCTTTGAT
66 TCTTTCAGATTGTGACCACACCCCCCTAACCAAGCCTCACTACAACCCTCGAAAGACCCTTTGAT
12547332 TGATGTATCATCTTAAATTATAGTGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGTACCGTTGG
131 TGATGTATCATCTTAAATTATAGTGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGTACCGTTGG
*
12547397 ATTTTTTAGTTCCTATTTGATGATGAGCTTTAGAGCTCTTTATG
196 AGTTTTTAGTTCCTATTTGATGATGAGCTTTAGAGCTCTTTATG
12547441 GC
1 GC
12547443 TGTGATAAAA
Statistics
Matches: 238, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
239 238 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (239 bp):
GCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCAAATTTTCAATTCAATCTCGATTCTAACCCTT
TCTTTCAGATTGTGACCACACCCCCCTAACCAAGCCTCACTACAACCCTCGAAAGACCCTTTGAT
TGATGTATCATCTTAAATTATAGTGGTGGTAGAGGTTCATTAGTCCATAAGTCCTGTACCGTTGG
AGTTTTTAGTTCCTATTTGATGATGAGCTTTAGAGCTCTTTATG
Found at i:12548991 original size:25 final size:25
Alignment explanation
Indices: 12548963--12549079 Score: 105
Period size: 25 Copynumber: 4.6 Consensus size: 25
12548953 AAAAATAGAA
12548963 ATAAATATATATATAATATATAAAT
1 ATAAATATATATATAATATATAAAT
*
12548988 ATAAAAATA-ATATTAATATATAAAT
1 ATAAATATATATA-TAATATATAAAT
* * *
12549013 ATAAAAATATATAAAATATTTAGAAT
1 ATAAATATATATATAATATATA-AAT
* * *
12549039 ATATATA-ATAAAATAGATATATAGAT
1 ATAAATATAT-ATATA-ATATATAAAT
*
12549065 AT-AATATATAAATAA
1 ATAAATATATATATAA
12549080 ATTGAATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
24 4 0.05
25 46 0.61
26 20 0.26
27 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (25 bp):
ATAAATATATATATAATATATAAAT
Found at i:12549022 original size:52 final size:52
Alignment explanation
Indices: 12548963--12549068 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 52
12548953 AAAAATAGAA
* * *
12548963 ATAAATATATATATAATATATA-AATATA-AAAATAATATTA-ATATATAAAT
1 ATAAAAATATATAAAATATATAGAATATATAAAATAA-AATAGATATATAAAT
* * *
12549013 ATAAAAATATATAAAATATTTAGAATATATATAATAAAATAGATATATAGAT
1 ATAAAAATATATAAAATATATAGAATATATAAAATAAAATAGATATATAAAT
12549065 ATAA
1 ATAA
12549069 TATATAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 19 0.40
51 9 0.19
52 19 0.40
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (52 bp):
ATAAAAATATATAAAATATATAGAATATATAAAATAAAATAGATATATAAAT
Found at i:12549059 original size:34 final size:34
Alignment explanation
Indices: 12548969--12549090 Score: 84
Period size: 34 Copynumber: 3.7 Consensus size: 34
12548959 AGAAATAAAT
*
12548969 ATATATATAAT-ATATAAATATAAAAATAATATTA
1 ATATATATAATAAAATAAATAT-AAAATAATATTA
12549003 ATATATA-AATATAAA-AATATATAAAAT-AT-TTAGA
1 ATATATATAATA-AAATAA-ATATAAAATAATATT--A
*
12549037 ATATATATAATAAAATAGATAT---ATAGATA-TA
1 ATATATATAATAAAATAAATATAAAATA-ATATTA
* *
12549068 ATATATA-AATAAATTGAATATAA
1 ATATATATAATAAAATAAATATAA
12549091 TATTAAATAG
Statistics
Matches: 71, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
30 11 0.15
31 10 0.14
32 2 0.03
33 8 0.11
34 29 0.41
35 11 0.15
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (34 bp):
ATATATATAATAAAATAAATATAAAATAATATTA
Found at i:12549506 original size:12 final size:12
Alignment explanation
Indices: 12549489--12549514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12549479 TATTCATAAT
12549489 TAATATGAATTA
1 TAATATGAATTA
12549501 TAATATGAATTA
1 TAATATGAATTA
12549513 TA
1 TA
12549515 GACTCGAATT
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:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
TAATATGAATTA
Found at i:12549695 original size:19 final size:21
Alignment explanation
Indices: 12549667--12549716 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
12549657 AAATTAAAAT
12549667 TTTATATATATA-TTTAT-TA
1 TTTATATATATATTTTATATA
*
12549686 TTTATCTATATATTTTATATA
1 TTTATATATATATTTTATATA
12549707 TTTA-ATATAT
1 TTTATATATAT
12549717 TTAATATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:12549809 original size:17 final size:17
Alignment explanation
Indices: 12549787--12549825 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12549777 CTGACTCCAT
*
12549787 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
12549804 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
12549821 TTTTA
1 TTTTA
12549826 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:12549921 original size:31 final size:31
Alignment explanation
Indices: 12549886--12549945 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
12549876 CGATCGATTT
*
12549886 AATAGATTTAATATAGATTCAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
12549917 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
12549946 CTATTTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:12550022 original size:15 final size:17
Alignment explanation
Indices: 12549992--12550023 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
12549982 GTCAAAATCT
12549992 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
12550009 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
12550024 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:12550673 original size:18 final size:18
Alignment explanation
Indices: 12550646--12550688 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12550636 CGCATAAAAA
* *
12550646 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
12550664 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
12550682 GAAAGAA
1 GAAAGAA
12550689 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:12555430 original size:15 final size:15
Alignment explanation
Indices: 12555410--12555440 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12555400 GACGGTTCCG
12555410 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
12555425 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
12555440 T
1 T
12555441 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:12558893 original size:20 final size:19
Alignment explanation
Indices: 12558863--12558946 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
12558853 GATGTTAGAA
12558863 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
12558883 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
12558901 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
12558919 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
12558939 TATCTATT
1 TAT-TATT
12558947 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:12558908 original size:16 final size:17
Alignment explanation
Indices: 12558868--12558917 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
12558858 TAGAATATTA
12558868 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
12558888 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
12558904 ATTCTAATATATAT
1 ATTCTATTATATAT
12558918 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:12563542 original size:17 final size:17
Alignment explanation
Indices: 12563520--12563553 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12563510 ATAGATTCGC
*
12563520 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
12563537 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
12563554 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:12570816 original size:13 final size:13
Alignment explanation
Indices: 12570785--12570818 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
12570775 TTTTAATTTC
12570785 AATTT-ATTTAAT
1 AATTTAATTTAAT
12570797 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
12570811 AATTTAAT
1 AATTTAAT
12570819 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:12572585 original size:24 final size:23
Alignment explanation
Indices: 12572529--12572585 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
12572519 ATTTTCTTTC
12572529 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
12572551 TAAATATTATTAATA-TATTTAAATT
1 TATATA-TATTAATATTATTT--ATT
12572576 TATATATATT
1 TATATATATT
12572586 TTAATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 5 0.17
24 12 0.41
25 8 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:12572595 original size:15 final size:15
Alignment explanation
Indices: 12572559--12572597 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12572549 TTTAAATATT
12572559 ATTA-ATATATTTAA
1 ATTATATATATTTAA
*
12572573 ATTTATATATATTTTA
1 A-TTATATATATTTAA
12572589 ATTATATAT
1 ATTATATAT
12572598 TGAAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 11 0.50
16 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATATATATTTAA
Found at i:12572817 original size:21 final size:21
Alignment explanation
Indices: 12572777--12572815 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12572767 AAATCATGGA
12572777 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
12572798 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
12572816 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:12575353 original size:12 final size:12
Alignment explanation
Indices: 12575336--12575360 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12575326 ATTTTATAAC
12575336 ATAAATATTGTT
1 ATAAATATTGTT
12575348 ATAAATATTGTT
1 ATAAATATTGTT
12575360 A
1 A
12575361 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:12587121 original size:13 final size:15
Alignment explanation
Indices: 12587095--12587134 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
12587085 CCTTAATTTA
12587095 TTAATATTTATTAAT
1 TTAATATTTATTAAT
12587110 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
12587123 TTAATATTTATT
1 TTAATATTTATT
12587135 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:12590617 original size:83 final size:83
Alignment explanation
Indices: 12590315--12590679 Score: 353
Period size: 83 Copynumber: 4.5 Consensus size: 83
12590305 TCTCTCCACT
* *
12590315 TACT-TTTTA-GGGAGAT-TGT-TCTTCTAGCCGGTTACCCTACTACTTAGGGAAGTTAAGGTTA
1 TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTACTTAGGG-AGTTAAGGTTA
* *
12590376 CTATCTTCGATCTGCTCCG-
65 CTGT-TTTGATCTGCTCCGC
** * *
12590395 TACTG-TTTAGGAAAGATCTGTATTTTCTAACCTGTTA-CCTACTGCTTAGGGAGGTT-AGGCTT
1 TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTACTTAGGGA-GTTAAGG-TT
*
12590457 ATTGTCTTTGATCTGCTCCGC
64 ACTGT-TTTGATCTGCTCCGC
* * * *
12590478 TAC--ATTTAGGGGAGATCTGTACTTTTCTAG-CTATTACCCCACTGCTGGTAGGGAGTTAAGGC
1 TACTGTTTTAGGGGAGATCTGTA-TTTTCTAGCCTGTTACCCTACTACT--TAGGGAGTTAAGG-
* *
12590540 CTACTG-TTTGATCTGTTCCGC
62 TTACTGTTTTGATCTGCTCCGC
* * * *
12590561 TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACGCTTCTACTTAGAGAGTTAAGGTTGC
1 TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTACTTAGGGAGTTAAGGTTAC
*
12590626 TGTTTTGATCTGCTCCGT
66 TGTTTTGATCTGCTCCGC
* *
12590644 TACTGTTTTAGGTGAGAT-T-TATTTTTTAGCCTGTTA
1 TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTA
12590680 ACACGTAAAC
Statistics
Matches: 238, Mismatches: 30, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
80 8 0.03
81 25 0.11
82 63 0.26
83 89 0.37
84 11 0.05
85 42 0.18
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (83 bp):
TACTGTTTTAGGGGAGATCTGTATTTTCTAGCCTGTTACCCTACTACTTAGGGAGTTAAGGTTAC
TGTTTTGATCTGCTCCGC
Found at i:12592227 original size:14 final size:14
Alignment explanation
Indices: 12592208--12592257 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
12592198 ATATAATTAT
12592208 TAATTCAATCAATA
1 TAATTCAATCAATA
*
12592222 TAATTCAATCAAAA
1 TAATTCAATCAATA
*
12592236 TAATTTAATCAATA
1 TAATTCAATCAATA
12592250 TAA-TCAAT
1 TAATTCAAT
12592258 ATTCATCGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATTCAATCAATA
Found at i:12594017 original size:91 final size:79
Alignment explanation
Indices: 12593847--12594030 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 79
12593837 ATTACTGTAG
* *
12593847 GGGA-ATCTGTATTTTTTTTAGCCTGTTACTACTGCTTAAGGGGTTAAGGCGCTGACTTCGATCT
1 GGGAGATCTGTATTTTTTTTAGCCTGTTACTACCGCTTAAGGAGTTAAGGCGCTGACTTCGATCT
*
12593911 GTTCCCACTGTTTA
66 GTCCCCACTGTTTA
12593925 GGGAGATCTGTAATTTTTTTTTAGCCTGTTACCGTACCGCTTAA-GAGTTAAGGCTTGCTTGACT
1 GGGAGATCTGT-A-TTTTTTTTAGCCTGTTA-C-TACCGCTTAAGGAGTTAAGGC--GC-TGACT
12593989 TCGATCTGCTCCACTAACTACTGTTTA
59 TCGATCTG-TCC-C---C-ACTGTTTA
12594016 GGGAGATCT-TATTTT
1 GGGAGATCTGTATTTT
12594031 CTAACGGTTC
Statistics
Matches: 89, Mismatches: 3, Indels: 18
0.81 0.03 0.16
Matches are distributed among these distances:
78 4 0.04
79 6 0.07
80 1 0.01
81 17 0.19
82 10 0.11
83 9 0.10
84 2 0.02
85 13 0.15
86 2 0.02
87 1 0.01
88 4 0.04
89 1 0.01
90 2 0.02
91 17 0.19
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (79 bp):
GGGAGATCTGTATTTTTTTTAGCCTGTTACTACCGCTTAAGGAGTTAAGGCGCTGACTTCGATCT
GTCCCCACTGTTTA
Found at i:12686859 original size:51 final size:51
Alignment explanation
Indices: 12686783--12686972 Score: 294
Period size: 51 Copynumber: 3.7 Consensus size: 51
12686773 TTAAGGGTGT
* * * *
12686783 CATAGTACCACCCTTGTAG-GCAAAGCTATTTTATTCACAAAGTGGACTTCA
1 CATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAAGTGGCCTTCA
*
12686834 CATAGTACCACACTTGTGTCCAAAGCTATTATATTCAAAAAGTGGCCTTCA
1 CATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCTTCA
* *
12686885 CATAGTACCACACTTGTGTTCAAAGCTATTATAGTCACAAAGTGGCCTTCA
1 CATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCTTCA
12686936 CATAGTACCACACTTGTGTCCAAAGCTATTAT-TTCAC
1 CATAGTACCACACTTGTGTCCAAAGCTATTATATTCAC
12686973 TTAGCACAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 5 0.04
51 123 0.96
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (51 bp):
CATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCTTCA
Found at i:12690949 original size:30 final size:30
Alignment explanation
Indices: 12690913--12690969 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12690903 CCGAGCCTAA
*
12690913 GGGCAAAAGTGTAATTATGCAAAAGTTTAG
1 GGGCAAAAATGTAATTATGCAAAAGTTTAG
* *
12690943 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
12690970 CATATTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAG
Found at i:12695910 original size:36 final size:36
Alignment explanation
Indices: 12695858--12695929 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
12695848 TCAAGCTATG
*
12695858 ATTCTAGTATGATCATGTCCTTATAC-GTGGTTACCT
1 ATTCTAGTATGATCATGTCCTCAT-CGGTGGTTACCT
12695894 ATTCTAGTAT-ATTCATGTCCTCATCGGTGGTTACCT
1 ATTCTAGTATGA-TCATGTCCTCATCGGTGGTTACCT
12695930 TCTTACCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (36 bp):
ATTCTAGTATGATCATGTCCTCATCGGTGGTTACCT
Found at i:12699722 original size:17 final size:17
Alignment explanation
Indices: 12699702--12699735 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12699692 TTTTTATTTT
12699702 AATTAATAATATTATTA
1 AATTAATAATATTATTA
**
12699719 AATTGTTAATATTATTA
1 AATTAATAATATTATTA
12699736 TATTTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTAATAATATTATTA
Found at i:12699745 original size:26 final size:24
Alignment explanation
Indices: 12699680--12699750 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 24
12699670 ATGATAAGAA
12699680 AATATTATTATATTTTT--ATTTT
1 AATATTATTATATTTTTAAATTTT
* * *
12699702 AAT-TAATAATATTATTAAATTGTT
1 AATATTATTATATTTTTAAATT-TT
12699726 AATATTATTATATTTTTTAAATTTT
1 AATATTATTATA-TTTTTAAATTTT
12699751 TTTATGTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
21 10 0.26
22 3 0.08
23 3 0.08
24 5 0.13
25 8 0.21
26 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
AATATTATTATATTTTTAAATTTT
Found at i:12701699 original size:30 final size:30
Alignment explanation
Indices: 12701620--12701700 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
12701610 ACGGAAAAAC
*
12701620 AAGAT-GAGGATGAAGATAAAGCTAGAGGTG
1 AAGATGGA-GATGAAGATAATGCTAGAGGTG
* * *
12701650 AAAATGGAAATGAAGATAATGCTGGAGGTG
1 AAGATGGAGATGAAGATAATGCTAGAGGTG
12701680 AAGATGGAGATGAAGATAATG
1 AAGATGGAGATGAAGATAATG
12701701 ATAATGATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 42 0.95
31 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (30 bp):
AAGATGGAGATGAAGATAATGCTAGAGGTG
Found at i:12706277 original size:288 final size:290
Alignment explanation
Indices: 12705700--12706279 Score: 862
Period size: 288 Copynumber: 2.0 Consensus size: 290
12705690 GTAAAATATC
*
12705700 ATTTTGGACTGTAGTTTGGGGTTTTTGGATTTGGGTTTTATGCATGTATTATTCAAACACATTGA
1 ATTTTGGACTGTAGTTTGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
* * * *
12705765 TTATATATTTTAACCGAAAAATGCATGTTACTCGACCTAATTAAAATCTAACCTGAATAGTGTTT
66 TTATATATGTTAACCGAAAAATGCATGTTACTCGACCTAATTAAAATCTAACATGAATAGTATAT
* * * * *
12705830 TTCCACTACTTTGAAAGATAACAAAATTTTGTAAAACTAAGCGAAAGACAATGGGTTCCTAAAAA
131 TTCCACTACTTTGAAAGATAACAAAATTTTGCAAAACAAAGCGAAAAACAACGAGTTCCTAAAAA
* * *
12705895 CATCACTATCAATAATAAAAATGAGGCTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
196 CATCAATATCAATAATAAAAATGAGACTTAAGAATAAATGGCTCAATAAATGAATATTTTTCAAA
*
12705960 CTAACTCAAGTGCAACCGTAGTTTTCCAAA
261 CTAACTCAAGTGCAACCGCAGTTTTCCAAA
* * *
12705990 ATTTTGGATTGT-GTTAT-GGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACTCGTTG
1 ATTTTGGACTGTAGTT-TGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTG
* * *
12706053 ATTATATATGTTAATCGAAAAATGCATGTTACTTGACCTAATTAAAATCTGACATGAATAGTATA
65 ATTATATATGTTAACCGAAAAATGCATGTTACTCGACCTAATTAAAATCTAACATGAATAGTATA
* * *
12706118 TTTCCACTA-TTTGAAAGATAACGAAATTTTGCAAAACAAAGC-AACAAACAACGAGTTTCTATA
130 TTTCCACTACTTTGAAAGATAACAAAATTTTGCAAAACAAAGCGAA-AAACAACGAGTTCCTAAA
* *
12706181 AACATCAATATCAATAATAAAAATGAGACTTAAGAATAAATGGTTCAATAAATGAATATTTTTCG
194 AACATCAATATCAATAATAAAAATGAGACTTAAGAATAAATGGCTCAATAAATGAATATTTTTCA
* * *
12706246 AACTAACTCAAGTGTAACTGCGGTTTTCCAAA
259 AACTAACTCAAGTGCAACCGCAGTTTTCCAAA
12706278 AT
1 AT
12706280 GAGTTAAATT
Statistics
Matches: 260, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
287 2 0.01
288 133 0.51
289 113 0.43
290 12 0.05
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.34
Consensus pattern (290 bp):
ATTTTGGACTGTAGTTTGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
TTATATATGTTAACCGAAAAATGCATGTTACTCGACCTAATTAAAATCTAACATGAATAGTATAT
TTCCACTACTTTGAAAGATAACAAAATTTTGCAAAACAAAGCGAAAAACAACGAGTTCCTAAAAA
CATCAATATCAATAATAAAAATGAGACTTAAGAATAAATGGCTCAATAAATGAATATTTTTCAAA
CTAACTCAAGTGCAACCGCAGTTTTCCAAA
Found at i:12711005 original size:16 final size:16
Alignment explanation
Indices: 12710960--12711015 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
12710950 TATTTGAATG
*
12710960 TTTATGATATGATTGA
1 TTTATGATATAATTGA
* *
12710976 TTATTTGA-ATAATTTA
1 TT-TATGATATAATTGA
12710992 TTTATGATATAATTGA
1 TTTATGATATAATTGA
*
12711008 TTCATGAT
1 TTTATGAT
12711016 TTTGAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTATGATATAATTGA
Found at i:12722888 original size:33 final size:33
Alignment explanation
Indices: 12722851--12722919 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
12722841 CGCAAATCAT
12722851 AGTTTACTACGATTTTCAATTTACACTACCTAG
1 AGTTTACTACGATTTTCAATTTACACTACCTAG
12722884 AGTTTACTACGATTTTCAATTTACACTACCTAG
1 AGTTTACTACGATTTTCAATTTACACTACCTAG
12722917 AGT
1 AGT
12722920 GTTTTAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (33 bp):
AGTTTACTACGATTTTCAATTTACACTACCTAG
Found at i:12729396 original size:48 final size:48
Alignment explanation
Indices: 12729269--12729397 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
12729259 ACAACATGTG
* *
12729269 AGTATTGAGATCCCATATAAGACCATATATGGGATATGGCATCGGCATC
1 AGTA-TGAGATCCCATATAAGACCATATCTGGGATATGACATCGGCATC
* *
12729318 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATC
1 AGTATGAGATCCCATATAAGACCATATCTGGGATATGACATCGGCATC
* * *
12729366 -GATATGAGGTCCCGTATAAGACCATGTCTGGG
1 AG-TATGAGATCCCATATAAGACCATATCTGGG
12729398 GCATGGTATC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 66 0.93
49 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
AGTATGAGATCCCATATAAGACCATATCTGGGATATGACATCGGCATC
Found at i:12729475 original size:42 final size:42
Alignment explanation
Indices: 12729428--12729666 Score: 191
Period size: 42 Copynumber: 5.6 Consensus size: 42
12729418 TGAGACTTCA
* * *
12729428 TGTAAGACCATGTCTAGGACATGG-ATTTGATATGATATTTTG
1 TGTAAGACCATGTCTGGGACATGGCA-TCGATATGAGATTTTG
* * * * *
12729470 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATTTTG
* **
12729512 TGTAAGACCATAG-CTGGG-CTATTGGCATCGATATGATATTACG
1 TGTAAGACCAT-GTCTGGGAC-A-TGGCATCGATATGAGATTTTG
* *
12729555 TGTAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTTA
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATTTTG
* * ***
12729597 TGTAAGACCATAG-CTGGG-CTATTGGCTTTGATATGAGATTACA
1 TGTAAGACCAT-GTCTGGGAC-A-TGGCATCGATATGAGATTTTG
* * *
12729640 TGTAAGACCATATCCGGGATATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
12729667 TGTACGACAT
Statistics
Matches: 157, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 88 0.56
43 67 0.43
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATTTTG
Found at i:12729558 original size:43 final size:42
Alignment explanation
Indices: 12729469--12729666 Score: 195
Period size: 43 Copynumber: 4.7 Consensus size: 42
12729459 ATGATATTTT
* * * *
12729469 GTGTAAGACCATATCTGGGATATGGCATCAATACGAGATT-C
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGAGATTAC
*
12729510 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGATATTAC
1 -GTGTAAGACCATAGCTGGGCTA-TGGCATCGATATGAGATTAC
* **
12729554 GTGTAAGACCAT-GTCTGGGAC-ATGGCATCGTTATGAGATTTT
1 GTGTAAGACCATAG-CTGGG-CTATGGCATCGATATGAGATTAC
* * *
12729596 ATGTAAGACCATAGCTGGGCTATTGGCTTTGATATGAGATTAC
1 GTGTAAGACCATAGCTGGGCTA-TGGCATCGATATGAGATTAC
* * * *
12729639 ATGTAAGACCATATCCGGGATATGGCAT
1 GTGTAAGACCATAGCTGGGCTATGGCAT
12729667 TGTACGACAT
Statistics
Matches: 130, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 59 0.45
43 68 0.52
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATGAGATTAC
Found at i:12729563 original size:85 final size:85
Alignment explanation
Indices: 12729456--12729666 Score: 296
Period size: 85 Copynumber: 2.5 Consensus size: 85
12729446 ACATGGATTT
** *
12729456 GATATGATATTTTGTGTAAGACCATATCTGGGATATGGCATCAATACGAGATTCTGTGTAAGACC
1 GATATGATATTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGATTCTATGTAAGACC
12729521 ATAGCTGGGCTATTGGCATC
66 ATAGCTGGGCTATTGGCATC
* * ** * *
12729541 GATATGATATTACGTGTAAGACCATGTCTGGGACATGGCATCGTTATGAGATTTTATGTAAGACC
1 GATATGATATTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGATTCTATGTAAGACC
* *
12729606 ATAGCTGGGCTATTGGCTTT
66 ATAGCTGGGCTATTGGCATC
* * *
12729626 GATATGAGATTACATGTAAGACCATATCCGGGATATGGCAT
1 GATATGATATTACGTGTAAGACCATATCTGGGATATGGCAT
12729667 TGTACGACAT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 110 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (85 bp):
GATATGATATTACGTGTAAGACCATATCTGGGATATGGCATCAATACGAGATTCTATGTAAGACC
ATAGCTGGGCTATTGGCATC
Found at i:12729665 original size:127 final size:127
Alignment explanation
Indices: 12729428--12729666 Score: 295
Period size: 127 Copynumber: 1.9 Consensus size: 127
12729418 TGAGACTTCA
* * * *
12729428 TGTAAGACCATGTCTAGGACATGGATTTGATATGATATTTTGTGTAAGACCATATCTGGGATATG
1 TGTAAGACCATGTCTAGGACATGGATTCGATATGAGATTTTATGTAAGACCATAGCTGGGATATG
* * *
12729493 GCATCAATACGAGATTCTGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGATATTACG
66 GCATCAATACGAGATTCTATGTAAGACCATAGCCGGGATATTGGCATCGATATGATATTACG
* * *
12729555 TGTAAGACCATGTCTGGGACATGGCA-TCGTTATGAGATTTTATGTAAGACCATAGCTGGGCTAT
1 TGTAAGACCATGTCTAGGACATGG-ATTCGATATGAGATTTTATGTAAGACCATAGCTGGGATA-
* ** * *
12729619 TGGCTTTGATATGAGATTAC-ATGTAAGACCATATCCGGGATA-TGGCAT
64 TGGCATCAATACGAGATT-CTATGTAAGACCATAGCCGGGATATTGGCAT
12729667 TGTACGACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 60 0.64
128 33 0.35
129 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (127 bp):
TGTAAGACCATGTCTAGGACATGGATTCGATATGAGATTTTATGTAAGACCATAGCTGGGATATG
GCATCAATACGAGATTCTATGTAAGACCATAGCCGGGATATTGGCATCGATATGATATTACG
Found at i:12734335 original size:39 final size:41
Alignment explanation
Indices: 12734292--12734373 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
12734282 TTTTATCCTA
* *
12734292 GAAAAAAAGAA-TTT-AAAAAGAAGATAATCTTGGGTTGTT
1 GAAAAAAAGAATTTTAAAAAAGAAGATAAACATGGGTTGTT
*
12734331 GAAAAAATGAATTTTAAAAAAAGAAGATAAACATGGGTTGTT
1 GAAAAAAAGAATTTT-AAAAAAGAAGATAAACATGGGTTGTT
12734373 G
1 G
12734374 GATTTACCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 10 0.27
40 3 0.08
42 24 0.65
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.27
Consensus pattern (41 bp):
GAAAAAAAGAATTTTAAAAAAGAAGATAAACATGGGTTGTT
Found at i:12737913 original size:22 final size:22
Alignment explanation
Indices: 12737888--12737932 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
12737878 CAAAATTTAA
12737888 TTGCATATAATTTATTAAGGGT
1 TTGCATATAATTTATTAAGGGT
12737910 TTGCATATAATTTATTAAGGGT
1 TTGCATATAATTTATTAAGGGT
12737932 T
1 T
12737933 ACTCATATAA
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:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TTGCATATAATTTATTAAGGGT
Found at i:12752290 original size:6 final size:6
Alignment explanation
Indices: 12752279--12752329 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
12752269 CAAATTTTTT
*
12752279 AAATAA AAATAA AAATAA AAAT-A AAGTGAA AAATAA AAGATAAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AA-AT-AA AAATAA
12752329 A
1 A
12752330 TGGACTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.10
6 23 0.59
7 8 0.21
8 4 0.10
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:12762148 original size:43 final size:42
Alignment explanation
Indices: 12762093--12762252 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
12762083 ATATCGTATA
*
12762093 ATGCCAAC-GTCCCAGACATGGTGTTACATGTAATCACATGTCG
1 ATGCCAACTGTCCCAGACATGGTCTTACATG-AATCACAT-TCG
* *
12762136 ATGCC-ACTGTCCCAGACAAGGTCTTACATGAACCACAATTACG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGAATCAC-ATT-CG
* *
12762179 ATGCCGA-TGTCCCAGACATGGTCTTAC-TCAAAATCACATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACAT--GAATCACAT-TCG
* **
12762222 ATGCCAAC-GTTCCAGATGTGGTCTTACATGA
1 ATGCCAACTGTCCCAGACATGGTCTTACATGA
12762253 GAACACATAT
Statistics
Matches: 97, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
42 10 0.10
43 79 0.81
44 8 0.08
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACTGTCCCAGACATGGTCTTACATGAATCACATTCG
Found at i:12770306 original size:29 final size:29
Alignment explanation
Indices: 12770269--12770330 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
12770259 GGTGAGTTTC
*
12770269 AGGT-ACTGAAATGGTATCTATCATAAAA
1 AGGTAACTGAAATGGTATCTATCACAAAA
12770297 AGGTAACTGAAATGGTATCTATCACAAAA
1 AGGTAACTGAAATGGTATCTATCACAAAA
12770326 AGGTA
1 AGGTA
12770331 TCTCTTACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (29 bp):
AGGTAACTGAAATGGTATCTATCACAAAA
Found at i:12776606 original size:39 final size:40
Alignment explanation
Indices: 12776563--12776647 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
12776553 AACGACTTAC
* **
12776563 CGGCTAAAA-TGGCACTTATTGTGCGATTCGAAATAGCTT
1 CGGCTAAAAGTGGCACTTAGTGTGAAATTCGAAATAGCTT
* * *
12776602 CGGCTAAAAGTGGCACTTGGTGTGAAATTTGAGATAGCTT
1 CGGCTAAAAGTGGCACTTAGTGTGAAATTCGAAATAGCTT
12776642 CGGCTA
1 CGGCTA
12776648 TATATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (40 bp):
CGGCTAAAAGTGGCACTTAGTGTGAAATTCGAAATAGCTT
Found at i:12776703 original size:28 final size:28
Alignment explanation
Indices: 12776662--12776762 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
12776652 TATATATATA
*
12776662 AATGGAACTTAGTGTGCAAAGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * *
12776690 GATGGCACTTAGTGTGCGAAA-CATCCAG
1 AATGGCACTTAGTGTGC-AAAGTATCGAG
* * * *
12776718 AATAGCACTTAGCGTGCGAGGTATCGAG
1 AATGGCACTTAGTGTGCAAAGTATCGAG
* * *
12776746 TATGGTACATAGTGTGC
1 AATGGCACTTAGTGTGC
12776763 GAGGCATCGA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.93
29 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (28 bp):
AATGGCACTTAGTGTGCAAAGTATCGAG
Found at i:12779321 original size:43 final size:43
Alignment explanation
Indices: 12779254--12779466 Score: 130
Period size: 42 Copynumber: 5.0 Consensus size: 43
12779244 ATGCCGTTAT
* * *
12779254 AGAACATGACTTTTAGCGGCGCTTT-TCCCACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGACGCTTTCT-CCACAAACGCCGCTAA
* *
12779297 AGAACATGACCTTTAGCGATGCTTTCTCCACAAAGGCCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTCTCCACAAACGCCGCTAA
* * * * * * * *
12779340 AGAACCTAACTTTTAGCGGCGCTTT-TCAAAAAAAGTCGCTAA
1 AGAACATGACCTTTAGCGACGCTTTCTCCACAAACGCCGCTAA
* * * * * * * * *
12779382 ATAACCTAACTTTTAGTGACGCTAT-TCCAAAAACACCACTAA
1 AGAACATGACCTTTAGCGACGCTTTCTCCACAAACGCCGCTAA
* * * * *
12779424 AGAATC-TAACTTTTAGCAACGCTTTC-CCAAAAACGCCACTAA
1 AGAA-CATGACCTTTAGCGACGCTTTCTCCACAAACGCCGCTAA
12779466 A
1 A
12779467 AGTCATGTTC
Statistics
Matches: 139, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
42 81 0.58
43 57 0.41
44 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGACGCTTTCTCCACAAACGCCGCTAA
Found at i:12779454 original size:42 final size:41
Alignment explanation
Indices: 12779336--12779466 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 41
12779326 ACAAAGGCCG
* * * * *
12779336 CTAAAGAACCTAACTTTTAGCGGCGCTTTTCAAAAAAAGTCG
1 CTAAAGAACCTAACTTTTAGCGACGCTTTCCAAAAACA-CCA
* *
12779378 CTAAATAACCTAACTTTTAGTGACGCTATTCCAAAAACACCA
1 CTAAAGAACCTAACTTTTAGCGACGCT-TTCCAAAAACACCA
* * *
12779420 CTAAAGAATCTAACTTTTAGCAACGCTTTCCCAAAAACGCCA
1 CTAAAGAACCTAACTTTTAGCGACGCTTT-CCAAAAACACCA
12779462 CTAAA
1 CTAAA
12779467 AGTCATGTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 64 0.85
43 9 0.12
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (41 bp):
CTAAAGAACCTAACTTTTAGCGACGCTTTCCAAAAACACCA
Found at i:12779481 original size:42 final size:43
Alignment explanation
Indices: 12779435--12779515 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
12779425 GAATCTAACT
12779435 TTTAGCAACGC-TTTCCCAAAAACGCCACTAAAAGTCATGTTC
1 TTTAGCAACGCTTTTCCCAAAAACGCCACTAAAAGTCATGTTC
*** *
12779477 TTTAGCGGTGCTTTTCCCAAAAACGCCACTAAATGTCAT
1 TTTAGCAACGCTTTTCCCAAAAACGCCACTAAAAGTCAT
12779516 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
TTTAGCAACGCTTTTCCCAAAAACGCCACTAAAAGTCATGTTC
Found at i:12780125 original size:39 final size:40
Alignment explanation
Indices: 12780078--12780171 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
12780068 GCATTTTTCA
* *
12780078 AAAAGCGCCACTAATACTTGACCTATAGCGGC-TTTTTAC
1 AAAAGCGCCACTAAAACTCGACCTATAGCGGCGTTTTTAC
12780117 AAAAGCGCCACTAAAACTCGACCTATAGCGGCGTTTTTAC
1 AAAAGCGCCACTAAAACTCGACCTATAGCGGCGTTTTTAC
* *
12780157 AAAAGAGCCGCTAAA
1 AAAAGCGCCACTAAA
12780172 GCCACTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 30 0.60
40 20 0.40
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
AAAAGCGCCACTAAAACTCGACCTATAGCGGCGTTTTTAC
Found at i:12781910 original size:17 final size:17
Alignment explanation
Indices: 12781888--12781933 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
12781878 ATAATTAAAC
*
12781888 ATTAAAAAATTATAATT
1 ATTAAAAAATTATAATA
12781905 ATTAAAAAAATTATAATA
1 ATT-AAAAAATTATAATA
*
12781923 ATTACAAAATT
1 ATTAAAAAATT
12781934 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAAAAATTATAATA
Found at i:12781914 original size:18 final size:19
Alignment explanation
Indices: 12781891--12781931 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
12781881 ATTAAACATT
*
12781891 AAAAAATTATAATTATTA-
1 AAAAAATTATAATAATTAC
12781909 AAAAAATTATAATAATTAC
1 AAAAAATTATAATAATTAC
12781928 AAAA
1 AAAA
12781932 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAATTATAATAATTAC
Found at i:12783040 original size:7 final size:7
Alignment explanation
Indices: 12783028--12783059 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
12783018 TGTTTTGAAA
12783028 AAAATTC
1 AAAATTC
12783035 AAAATTC
1 AAAATTC
12783042 AAAATTC
1 AAAATTC
12783049 AAAATTC
1 AAAATTC
12783056 AAAA
1 AAAA
12783060 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTC
Found at i:12800685 original size:38 final size:38
Alignment explanation
Indices: 12800634--12800711 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
12800624 TGAGCCCAAG
12800634 TATAGTCCTATTCAAAAAAGGCCACTTTTGAGGGCTCT
1 TATAGTCCTATTCAAAAAAGGCCACTTTTGAGGGCTCT
*
12800672 TATAGTCCTATTCAGAAAAGGCCACTTTTGAGGGCTCT
1 TATAGTCCTATTCAAAAAAGGCCACTTTTGAGGGCTCT
12800710 TA
1 TA
12800712 GGCATTCTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (38 bp):
TATAGTCCTATTCAAAAAAGGCCACTTTTGAGGGCTCT
Found at i:12801706 original size:27 final size:26
Alignment explanation
Indices: 12801667--12801748 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
12801657 TGGCTGCCAA
* * *
12801667 AACAGATATTGTGACAGGGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
12801693 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
12801720 AACAGATATTTGTGGCAGAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
12801747 AA
1 AA
12801749 TACTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:12803568 original size:18 final size:19
Alignment explanation
Indices: 12803547--12803589 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
12803537 ACAATTCGCT
12803547 AAAATTCTCAGAA-ATCCC-
1 AAAATTCTC-GAAGATCCCG
*
12803565 AAAAATCTCGAAGATCCCG
1 AAAATTCTCGAAGATCCCG
12803584 AAAATT
1 AAAATT
12803590 GGGGCGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (19 bp):
AAAATTCTCGAAGATCCCG
Found at i:12805220 original size:28 final size:28
Alignment explanation
Indices: 12805184--12805254 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
12805174 GATGTCTCGT
12805184 ACACTAAGTGCCATACTCAATATCTCAC
1 ACACTAAGTGCCATACTCAATATCTCAC
* * * * * **
12805212 ACACCAAGTTCCATTCTTAATATTTTGC
1 ACACTAAGTGCCATACTCAATATCTCAC
12805240 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
12805255 TACATATATA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ACACTAAGTGCCATACTCAATATCTCAC
Found at i:12808467 original size:42 final size:42
Alignment explanation
Indices: 12808395--12808671 Score: 202
Period size: 42 Copynumber: 6.3 Consensus size: 42
12808385 TAGTCAAACT
* * * *
12808395 ATGGTCTTACAC-AAAGTCTCACATCAATGCCATGTCTCAGAC
1 ATGGTCTTACACGAAA-TCTCATATCGATGCCATATCCCAGAC
* * * **
12808437 ATGGTCTTATATGAAATCACATATCGATGCCGCATCCCAGAC
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
* * *
12808479 ACGGTCTTACACGAAATCTCATA-CGGAAGCCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATC-GATGCCATATCCCAGAC
* * * *
12808521 ATGGTCTTACACGTAATCTTATATCGATGCCGATGTCATATCCTAGAT
1 ATGGTCTTACACGAAATCTCATATCGATG-C-----CATATCCCAGAC
*
12808569 ATGGTCTTACAC-AAGATCTCATATCGATGCTGATGCCATATCCCAGAT
1 ATGGTCTTACACGAA-ATCTC--AT--AT-C-GATGCCATATCCCAGAC
* * *
12808617 ATGGTCTTACAC-AGGATCTCATATGGATGCCATGTCCCAGAC
1 ATGGTCTTACACGA-AATCTCATATCGATGCCATATCCCAGAC
12808659 ATGGTCTTACACG
1 ATGGTCTTACACG
12808672 TATCACAATG
Statistics
Matches: 188, Mismatches: 29, Indels: 35
0.75 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 111 0.59
43 5 0.03
44 2 0.01
46 2 0.01
47 1 0.01
48 56 0.30
50 2 0.01
52 2 0.01
53 2 0.01
54 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAC
Found at i:12808562 original size:48 final size:48
Alignment explanation
Indices: 12808507--12808647 Score: 203
Period size: 48 Copynumber: 2.9 Consensus size: 48
12808497 TCATACGGAA
* *
12808507 GCCATATCCCAGATATGGTCTTACACGTA-ATCTTATATCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACAC-AAGATCTCATATCGATGCCGAT
* * *
12808555 GTCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGAT
* *
12808603 GCCATATCCCAGATATGGTCTTACACAGGATCTCATATGGATGCC
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCC
12808648 ATGTCCCAGA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 81 0.99
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGAT
Found at i:12808725 original size:37 final size:37
Alignment explanation
Indices: 12808642--12808779 Score: 167
Period size: 37 Copynumber: 3.8 Consensus size: 37
12808632 ATCTCATATG
*
12808642 GATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCAC
1 GATGCCATAG-CCCAG-CTATGGTCTTACATGTCATCAC
* *
12808678 AATGCCATAGCCCAGCTATAGTCTTACATGTCATCAC
1 GATGCCATAGCCCAGCTATGGTCTTACATGTCATCAC
* *
12808715 GATGCTATAGCCCAGCTATGGTCTTACATG-CTATTAC
1 GATGCCATAGCCCAGCTATGGTCTTACATGTC-ATCAC
*
12808752 GATGCCATAGCCCAGTTATGGTCTTACA
1 GATGCCATAGCCCAGCTATGGTCTTACA
12808780 CGTACCACAT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
35 1 0.01
36 25 0.28
37 63 0.71
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (37 bp):
GATGCCATAGCCCAGCTATGGTCTTACATGTCATCAC
Found at i:12810794 original size:21 final size:20
Alignment explanation
Indices: 12810770--12810808 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12810760 AAATATAACC
* *
12810770 CTAATTATTGTTTTAAATTTT
1 CTAATGATT-TTTCAAATTTT
12810791 CTAATGATTTTTCAAATT
1 CTAATGATTTTTCAAATT
12810809 CAAAACAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (20 bp):
CTAATGATTTTTCAAATTTT
Found at i:12829645 original size:38 final size:38
Alignment explanation
Indices: 12829580--12829692 Score: 127
Period size: 38 Copynumber: 2.9 Consensus size: 38
12829570 ATTTGATGTG
* *
12829580 TATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
12829620 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
** * * *
12829658 TATCCAAGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
12829693 TTGTATTCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 51 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:12829797 original size:86 final size:84
Alignment explanation
Indices: 12829675--12829850 Score: 280
Period size: 86 Copynumber: 2.1 Consensus size: 84
12829665 GATAAATCCC
*
12829675 GCAGGCCTAGTGCTGGTATTGTATTCAGGCATTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGT
1 GCAGGCCTAGTGCTGGTATTGTATTCAGGCATTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGT
*
12829740 ATTCGGGCCTTCGTGCCTA
66 ATTCGGGCCTTCGTGCATA
* * * *
12829759 GCAGGCTTTGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGT
1 GCAGGCCTAGTGCTGGT-AT-TGTATTCAGGCATTCGTGCCTAGCAGGCTTCGTGCCGATGATGT
12829824 GTATTCGGGCCTTCGTGCATA
64 GTATTCGGGCCTTCGTGCATA
12829845 GCAGGC
1 GCAGGC
12829851 GTAATGCCGG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 15 0.18
85 2 0.02
86 67 0.80
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31
Consensus pattern (84 bp):
GCAGGCCTAGTGCTGGTATTGTATTCAGGCATTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGT
ATTCGGGCCTTCGTGCATA
Found at i:12829859 original size:43 final size:43
Alignment explanation
Indices: 12829694--12829850 Score: 260
Period size: 43 Copynumber: 3.7 Consensus size: 43
12829684 GTGCTGGTAT
* *
12829694 TGTATTCAGGCATTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
* *
12829737 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCTGGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
*
12829780 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
*
12829823 TGTATTCGGGCCTTCGTGCATAGCAGGC
1 TGTATTCGGGCCTTCGTGCCTAGCAGGC
12829851 GTAATGCCGG
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
Found at i:12832285 original size:47 final size:47
Alignment explanation
Indices: 12832213--12832354 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
12832203 GTTGAATTTA
12832213 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
12832259 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
12832306 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
12832353 AA
1 AA
12832355 AGAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.13
47 79 0.87
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:12833243 original size:43 final size:44
Alignment explanation
Indices: 12833174--12833329 Score: 185
Period size: 43 Copynumber: 3.6 Consensus size: 44
12833164 CGGGCCTTTG
*
12833174 AGCCTAGCAGGCTATAATGCCAGTGAGATACTATTTGGGCTTCA
1 AGCCTAGCAGGCGATAATGCCAGTGAGATACTATTTGGGCTTCA
*
12833218 AGCCTAGCAGGCGA-AATGCCAGTGAGATACTATTTGGGCTTTCG
1 AGCCTAGCAGGCGATAATGCCAGTGAGATACTATTTGGGC-TTCA
* * * * * *
12833262 AGCCTAGTAGGCTATAATACCGGTGAAATGA-TA-TCGGGCTTCA
1 AGCCTAGCAGGCGATAATGCCAGTGAGAT-ACTATTTGGGCTTCA
*
12833305 AGCCTAGCAGGCGA-AATGCCGGTGA
1 AGCCTAGCAGGCGATAATGCCAGTGA
12833330 AAGAATTCGG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.10
43 40 0.41
44 33 0.34
45 13 0.13
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (44 bp):
AGCCTAGCAGGCGATAATGCCAGTGAGATACTATTTGGGCTTCA
Found at i:12833321 original size:87 final size:88
Alignment explanation
Indices: 12833157--12833329 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 88
12833147 TATCACACAG
* * *
12833157 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTATTTGGGCTTCAAGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATACTATTCGGGCTTCAAGCC
12833222 TAGCAGGCGAAATGCCAGTGAGA
66 TAGCAGGCGAAATGCCAGTGAGA
* * *
12833245 TACTATTTGGG-CTTTCGAGCCTAGTAGGCTATAATACCGGTGAAATGA-TA-TCGGGCTTCAAG
1 TACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATACCAGTGAAAT-ACTATTCGGGCTTCAAG
*
12833307 CCTAGCAGGCGAAATGCCGGTGA
64 CCTAGCAGGCGAAATGCCAGTGA
12833330 AAGAATTCGG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
87 37 0.49
88 38 0.50
89 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (88 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATACTATTCGGGCTTCAAGCC
TAGCAGGCGAAATGCCAGTGAGA
Found at i:12833887 original size:16 final size:18
Alignment explanation
Indices: 12833856--12833888 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
12833846 AACTCGTCAC
12833856 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
12833874 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
12833889 AGCTTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Done.