Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 172 of 279
Found at i:56892244 original size:23 final size:23
Alignment explanation
Indices: 56892143--56892246 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 23
56892133 ACACCAAAAT
* * *
56892143 TTGGACAGCATAAATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * *
56892166 TTAGGAAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * * * *
56892189 TTGAGCAACATTTTTACACCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
56892213 TTGGACAGCGTATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
56892236 TTGGGCAGCAT
1 TTGGGCAGCAT
56892247 TTAAACATCA
Statistics
Matches: 59, Mismatches: 21, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
23 44 0.75
24 15 0.25
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:56892271 original size:2 final size:2
Alignment explanation
Indices: 56892259--56892307 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
56892249 AAACATCAAA
* * *
56892259 AT AT GT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56892301 AT AT AT A
1 AT AT AT A
56892308 CATTCGGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
AT
Found at i:56892285 original size:14 final size:14
Alignment explanation
Indices: 56892268--56892307 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
56892258 AATATGTATA
56892268 TATATATATATATT
1 TATATATATATATT
56892282 TATATATATATATT
1 TATATATATATATT
56892296 TATATATATATA
1 TATATATATATA
56892308 CATTCGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATATATATT
Found at i:56893317 original size:43 final size:42
Alignment explanation
Indices: 56893210--56893323 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 42
56893200 AACGTTCTAA
* *
56893210 ACGTGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAG
1 ACGTGGTCTTACATGTAA-CACATATCGATGCCAATGTCCCAG
*
56893253 ACAG-GGTCTTACATGTAAACACAAATCGATGCCAATGTCCCAG
1 AC-GTGGTCTTACATGT-AACACATATCGATGCCAATGTCCCAG
*
56893296 ACGTGGTCTTACACGATAACACATATCG
1 ACGTGGTCTTACATG-TAACACATATCG
56893324 TAAATCCTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ACGTGGTCTTACATGTAACACATATCGATGCCAATGTCCCAG
Found at i:56895238 original size:12 final size:11
Alignment explanation
Indices: 56895165--56895250 Score: 73
Period size: 9 Copynumber: 8.3 Consensus size: 11
56895155 TGTGATTTGA
56895165 TTATTA-TTA-
1 TTATTATTTAT
56895174 TTATTA-TTA-
1 TTATTATTTAT
56895183 TTATTA-TTA-
1 TTATTATTTAT
56895192 TTATTA-TTA-
1 TTATTATTTAT
56895201 TTATTA-TTAT
1 TTATTATTTAT
56895211 TATATTACTTTAT
1 T-TATTA-TTTAT
56895224 TTATTATTTACT
1 TTATTATTTA-T
56895236 TTATTATTTACT
1 TTATTATTTA-T
56895248 TTA
1 TTA
56895251 CCACTCTCAG
Statistics
Matches: 72, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
9 36 0.50
10 1 0.01
11 9 0.12
12 21 0.29
13 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:56895243 original size:3 final size:3
Alignment explanation
Indices: 56895164--56895231 Score: 104
Period size: 3 Copynumber: 23.0 Consensus size: 3
56895154 ATGTGATTTG
56895164 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
56895212 A-T ATT ACT -TT ATTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT
56895232 TACTTTATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 3 0.05
3 54 0.90
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:56910702 original size:16 final size:16
Alignment explanation
Indices: 56910683--56910716 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
56910673 ATATAATAAT
56910683 TTATATTAATAAATTA
1 TTATATTAATAAATTA
*
56910699 TTATTTTAATAAATTA
1 TTATATTAATAAATTA
56910715 TT
1 TT
56910717 TAGTATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTAATAAATTA
Found at i:56910745 original size:17 final size:16
Alignment explanation
Indices: 56910689--56910747 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
56910679 TAATTTATAT
56910689 TAATAAATTATTATTT-
1 TAATAAATT-TTATTTA
56910705 TAATAAA--TTATTTA
1 TAATAAATTTTATTTA
* *
56910719 GTATTCAATTTTATTTAA
1 -TAATAAATTTTATTT-A
56910737 TAATAAATTTT
1 TAATAAATTTT
56910748 TAAAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.18
15 5 0.15
16 7 0.21
17 15 0.44
18 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATAAATTTTATTTA
Found at i:56910817 original size:15 final size:15
Alignment explanation
Indices: 56910732--56910818 Score: 53
Period size: 14 Copynumber: 6.1 Consensus size: 15
56910722 TTCAATTTTA
56910732 TTTAATAATAAAT-T
1 TTTAATAATAAATAT
56910746 TTTAA-AAT-AATAAT
1 TTTAATAATAAAT-AT
*
56910760 TTTAAATAAT-ATTAT
1 TTT-AATAATAAATAT
* *
56910775 ATTATTAA-AAATA-
1 TTTAATAATAAATAT
** *
56910788 TCCAAT-ATTAATAT
1 TTTAATAATAAATAT
56910802 TTTAATAATAAATAT
1 TTTAATAATAAATAT
56910817 TT
1 TT
56910819 ATTACAATTA
Statistics
Matches: 53, Mismatches: 12, Indels: 15
0.66 0.15 0.19
Matches are distributed among these distances:
12 4 0.08
13 9 0.17
14 20 0.38
15 15 0.28
16 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATAATAAATAT
Found at i:56914203 original size:19 final size:20
Alignment explanation
Indices: 56914167--56914204 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56914157 TACTATAGTA
*
56914167 TTTTTTTTTACATGATAATC
1 TTTTTTTTTACATAATAATC
*
56914187 TTTTTTTTTTCA-AATAAT
1 TTTTTTTTTACATAATAAT
56914205 TTTGAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTTTTTACATAATAATC
Found at i:56915686 original size:30 final size:31
Alignment explanation
Indices: 56915627--56915694 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
56915617 TTGGAAAAAA
* *
56915627 AGTTCAAGCCCCAATGGAGGAATAATTGTCT
1 AGTTCAAGCCCCAATGGAGGAACAATTGTCG
* *
56915658 AGTTCAAGCCCTAAT-GTGGAACAATTGTCG
1 AGTTCAAGCCCCAATGGAGGAACAATTGTCG
56915688 AGTTCAA
1 AGTTCAA
56915695 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (31 bp):
AGTTCAAGCCCCAATGGAGGAACAATTGTCG
Found at i:56915746 original size:89 final size:86
Alignment explanation
Indices: 56915560--56915774 Score: 252
Period size: 89 Copynumber: 2.4 Consensus size: 86
56915550 CTTGTATGAA
* * * * *
56915560 AACAATTGTCAAGTTTAAACCCTAATACGAGAACAAATGGCAAGTTCAAGGACTAACTTGGAAAA
1 AACAATTGTCTAGTTTAAGCCCTAATATG-GAACAATTGGCAAGTTCAAAGACTAACTTGGAAAA
56915625 AAAGTTCAAGCCCCAATGGAGG
65 AAAGTTCAAGCCCCAATGGAGG
* * * * *
56915647 AATAATTGTCTAGTTCAAGCCCTAATGTGGAACAATTGTCGAGTTCAAAGACTAACTTGGACAAA
1 AACAATTGTCTAGTTTAAGCCCTAATATGGAACAATTGGCAAGTTCAAAGACTAACTTGG---AA
56915712 AAAAAGTTCAAGCCCCAATGTGA-G
63 AAAAAGTTCAAGCCCCAATG-GAGG
* **
56915736 AACAATTGTCTAATTTGGGCCCTAATATGGGAACAATTG
1 AACAATTGTCTAGTTTAAGCCCTAATAT-GGAACAATTG
56915775 CCTAATTCAG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
86 27 0.25
87 23 0.21
89 45 0.42
90 12 0.11
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (86 bp):
AACAATTGTCTAGTTTAAGCCCTAATATGGAACAATTGGCAAGTTCAAAGACTAACTTGGAAAAA
AAGTTCAAGCCCCAATGGAGG
Found at i:56917187 original size:57 final size:57
Alignment explanation
Indices: 56917099--56917209 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
56917089 GAAACTAGAT
*
56917099 CGTCGTCCTTACAATTTATTCAGTTTTAATAAATTTCGTTTTTATTTTATTTATGAG
1 CGTCGTCCATACAATTTATTCAGTTTTAATAAATTTCGTTTTTATTTTATTTATGAG
56917156 CGTCGTCCATACAATTTATTCAGTTTTAATAAATTTCGTTTTTATTTTATTTAT
1 CGTCGTCCATACAATTTATTCAGTTTTAATAAATTTCGTTTTTATTTTATTTAT
56917210 TTTTTATTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (57 bp):
CGTCGTCCATACAATTTATTCAGTTTTAATAAATTTCGTTTTTATTTTATTTATGAG
Found at i:56917212 original size:15 final size:15
Alignment explanation
Indices: 56917194--56917228 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56917184 ATAAATTTCG
*
56917194 TTTTTATTTTATTTAT
1 TTTTTA-TTTAATTAT
56917210 TTTTTATTTAATTAT
1 TTTTTATTTAATTAT
56917225 TTTT
1 TTTT
56917229 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTAATTAT
Found at i:56917228 original size:16 final size:16
Alignment explanation
Indices: 56917194--56917228 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56917184 ATAAATTTCG
*
56917194 TTTTTATTTTATTTAT
1 TTTTTATTTAATTTAT
56917210 TTTTTATTTAA-TTAT
1 TTTTTATTTAATTTAT
56917225 TTTT
1 TTTT
56917229 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTAATTTAT
Found at i:56923430 original size:41 final size:37
Alignment explanation
Indices: 56923335--56923448 Score: 93
Period size: 41 Copynumber: 2.9 Consensus size: 37
56923325 AGCAATAAAG
*
56923335 TGACACCCAGTGTCTCATCGGTCAAGCCGAAGTAAGT
1 TGACACCCAGTGTCTCATCGATCAAGCCGAAGTAAGT
** ** * * *
56923372 TGGTACCCAGTACCTCATTGAATCTATCCGAAGTAACAGT
1 TGACACCCAGTGTCTCATCG-ATCAAGCCGAAGT-A-AGT
*
56923412 ATGACACCCAGTGTCTCATCGACTCAAGGTCGAAGTA
1 -TGACACCCAGTGTCTCATCGA-TCAA-GCCGAAGTA
56923449 TCCCTAAACA
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
37 15 0.27
38 10 0.18
39 1 0.02
40 4 0.07
41 19 0.35
42 6 0.11
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (37 bp):
TGACACCCAGTGTCTCATCGATCAAGCCGAAGTAAGT
Found at i:56923750 original size:19 final size:19
Alignment explanation
Indices: 56923682--56923756 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
56923672 AATCAATACA
56923682 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
56923702 --ATTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
*
56923719 CGATTTC-CAATTCACATAT
1 C-AATTCACAATTCACATAT
56923738 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
56923757 TCACACATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.16
18 9 0.21
19 19 0.44
20 6 0.14
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:56924767 original size:2 final size:2
Alignment explanation
Indices: 56924760--56924821 Score: 59
Period size: 2 Copynumber: 35.0 Consensus size: 2
56924750 TCTTTTGTCT
56924760 TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A TA 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
*
56924798 -A TA TA TT TA TA -A TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56924822 AAAACATACT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
1 8 0.16
2 42 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:56924783 original size:5 final size:5
Alignment explanation
Indices: 56924761--56924822 Score: 74
Period size: 5 Copynumber: 12.2 Consensus size: 5
56924751 CTTTTGTCTT
*
56924761 ATATA TATATA TATATA ATATA ATATA ATATA ATATA ATAT- AT-TT ATAATA
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
56924812 ATATA ATATA A
1 ATATA ATATA A
56924823 AAACATACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 33 0.63
6 14 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:56925242 original size:23 final size:25
Alignment explanation
Indices: 56925211--56925268 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
56925201 CTACCCTATC
*
56925211 AATTTGGACAACATTTATATACC-A
1 AATTTGGACAACATTTATACACCAA
* *
56925235 AA-TTGGACAGCATTTTTACACCAA
1 AATTTGGACAACATTTATACACCAA
56925259 AATTTGGACA
1 AATTTGGACA
56925269 GCATAAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.59
24 5 0.17
25 7 0.24
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (25 bp):
AATTTGGACAACATTTATACACCAA
Found at i:56925293 original size:23 final size:23
Alignment explanation
Indices: 56925259--56925365 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
56925249 TTTACACCAA
* *
56925259 AATTTGGACAGCATAAATACAAC
1 AATTTGGGCAGCATATATACAAC
56925282 AATTTGGGCAGCATATATACAAC
1 AATTTGGGCAGCATATATACAAC
* * * *
56925305 AATTTGAGCAGCATTTTTACACC
1 AATTTGGGCAGCATATATACAAC
* * *
56925328 AAAATTGGACAGCGTATATACAAC
1 -AATTTGGGCAGCATATATACAAC
*
56925352 AAATTGGGCAGCAT
1 AATTTGGGCAGCAT
56925366 TTAAACATCA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
23 52 0.76
24 16 0.24
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (23 bp):
AATTTGGGCAGCATATATACAAC
Found at i:56925359 original size:70 final size:69
Alignment explanation
Indices: 56925226--56925365 Score: 210
Period size: 70 Copynumber: 2.0 Consensus size: 69
56925216 GGACAACATT
* *
56925226 TATATACCAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAATTTGGGC
1 TATATACAAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGGGC
56925291 AGCA
66 AGCA
* * *
56925295 TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGACAGCGTATATACAACAAATTGG
1 TATATACAA-AATTGGA-CAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGG
56925359 GCAGCA
64 GCAGCA
56925365 T
1 T
56925366 TTAAACATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
69 8 0.12
70 37 0.58
71 19 0.30
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (69 bp):
TATATACAAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGGGC
AGCA
Found at i:56925377 original size:23 final size:23
Alignment explanation
Indices: 56925226--56925365 Score: 113
Period size: 23 Copynumber: 6.0 Consensus size: 23
56925216 GGACAACATT
*
56925226 TATATAC--CAAATTGGACAGCA
1 TATATACAACAAATTGGGCAGCA
* * * *
56925247 TTTTTACACCAAAATTTGGACAGCA
1 TATATACAAC-AAA-TTGGGCAGCA
* *
56925272 TAAATACAACAATTTGGGCAGCA
1 TATATACAACAAATTGGGCAGCA
* *
56925295 TATATACAACAATTTGAGCAGCA
1 TATATACAACAAATTGGGCAGCA
* * * * *
56925318 TTTTTACACCAAAATTGGACAGCG
1 TATATACAAC-AAATTGGGCAGCA
56925342 TATATACAACAAATTGGGCAGCA
1 TATATACAACAAATTGGGCAGCA
56925365 T
1 T
56925366 TTAAACATCA
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
21 5 0.05
23 50 0.54
24 21 0.23
25 16 0.17
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (23 bp):
TATATACAACAAATTGGGCAGCA
Found at i:56925378 original size:47 final size:47
Alignment explanation
Indices: 56925285--56925379 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
56925275 ATACAACAAT
* * **
56925285 TTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
* * *
56925332 TTGGACAGCGTATATACAACAAATTGGGCAGCATTTAAACATCAAAA
1 TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
56925379 T
1 T
56925380 ATGTATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
Found at i:56926375 original size:43 final size:43
Alignment explanation
Indices: 56926296--56926416 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 43
56926286 CAATGCCAAC
* * *
56926296 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATG-CGACT
1 GTCCCAGACGTGGTCTTACACGTAAACACATATCGATGTC-AAT
*
56926339 GTCCTAGACAG-GGTCTTACACGTAAACACA-AGTCGATGTCAAT
1 GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TCGATGTCAAT
56926382 GTCCCAGACGTGGTCTTACACG-ATAACACATATCG
1 GTCCCAGACGTGGTCTTACACGTA-AACACATATCG
56926417 TAAATCCTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.04
43 61 0.91
44 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGTAAACACATATCGATGTCAAT
Found at i:56928258 original size:3 final size:3
Alignment explanation
Indices: 56928250--56928274 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56928240 TGGTGCGATT
56928250 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
56928275 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:56928279 original size:3 final size:3
Alignment explanation
Indices: 56928273--56928302 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
56928263 GATGATGATG
56928273 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56928303 TATTTTTTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56933398 original size:6 final size:6
Alignment explanation
Indices: 56933387--56933412 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56933377 GAATGATAAA
56933387 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
56933413 TTTGACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:56938851 original size:13 final size:13
Alignment explanation
Indices: 56938833--56938860 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56938823 CACATTATCC
56938833 TTCTATTTATGGG
1 TTCTATTTATGGG
56938846 TTCTATTTATGGG
1 TTCTATTTATGGG
56938859 TT
1 TT
56938861 AAGACTAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.57
Consensus pattern (13 bp):
TTCTATTTATGGG
Found at i:56938966 original size:13 final size:13
Alignment explanation
Indices: 56938948--56939013 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
56938938 AGTTTGGCAA
56938948 TACTTTTGAAAAG
1 TACTTTTGAAAAG
56938961 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* * *
56938974 TGCTGTGGAAAAG
1 TACTTTTGAAAAG
* *
56938987 TAATTTTGAGAAG
1 TACTTTTGAAAAG
*
56939000 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
56939013 T
1 T
56939014 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:56939650 original size:20 final size:20
Alignment explanation
Indices: 56939625--56939663 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56939615 CAGGCCCTAA
*
56939625 CAAGAGGGTGAGGTGAATAG
1 CAAGAGGGTGAAGTGAATAG
56939645 CAAGAGGGTGAAGTGAATA
1 CAAGAGGGTGAAGTGAATA
56939664 AATTTAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.41, T:0.15
Consensus pattern (20 bp):
CAAGAGGGTGAAGTGAATAG
Found at i:56940720 original size:41 final size:41
Alignment explanation
Indices: 56940663--56940744 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
56940653 GCACCAAAGG
*
56940663 TGCTTGTGGCAGAGGCGGGACCAACATGTTCGTATTTTGGC
1 TGCTTGTGGCAGAGGCGGCACCAACATGTTCGTATTTTGGC
56940704 TGCTTGTGGCAGAGGCGGCACCAACATGTTCGTATTTTGGC
1 TGCTTGTGGCAGAGGCGGCACCAACATGTTCGTATTTTGGC
56940745 CCGTTGTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (41 bp):
TGCTTGTGGCAGAGGCGGCACCAACATGTTCGTATTTTGGC
Found at i:56940974 original size:158 final size:157
Alignment explanation
Indices: 56940736--56941408 Score: 991
Period size: 158 Copynumber: 4.4 Consensus size: 157
56940726 AACATGTTCG
* * * ** * *
56940736 TATTTTGGCCCGTTGTTCTTA-TTTTTTCCTTGAATTTTATTAC-TTT-A-AAAAATATACTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATTA-T
56940797 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
65 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
56940862 TTTTAAATAAATTTTAAAAAAAAACCCT
130 TTTTAAATAAATTTTAAAAAAAAACCCT
56940890 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATTATT
56940955 TCATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
66 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
56941020 TTTTAAATAAATTTTAAAAAAAAACCCT
130 TTTTAAATAAATTTTAAAAAAAAACCCT
* * *
56941048 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCCAGATTTTATTACTTTCAATAAAAATATATTGTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATT-AT
* * *
56941112 TTCGT-ATTTTATTATTTTACATTCTTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGT
65 TTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGT
* *
56941176 TTTTTAAATAAA-ATT-AAAAAAAACTCT
129 TTTTTAAATAAATTTTAAAAAAAAACCCT
* *
56941203 TATTTCGGCCCTTTGTTTGTA-TTTTTCCCCCGGATTTTATTAC--TT-A-AAAAATACTA-T-T
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATA-TATTAT
* * *
56941261 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTCGAAATGTATTCATTTAGTTTATT
65 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
*
56941326 TTTTAAATAAATTTAAAAAAAAAACCCT
130 TTTTAAATAAATTTTAAAAAAAAACCCT
*
56941354 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCCGGATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAA
56941409 ACACACTAAA
Statistics
Matches: 471, Mismatches: 32, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
148 1 0.00
149 69 0.15
150 1 0.00
151 54 0.11
152 8 0.02
153 2 0.00
154 24 0.05
155 69 0.15
156 5 0.01
157 104 0.22
158 134 0.28
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (157 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATTATT
TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
TTTAAATAAATTTTAAAAAAAAACCCT
Found at i:56941347 original size:306 final size:314
Alignment explanation
Indices: 56940736--56941408 Score: 1041
Period size: 306 Copynumber: 2.2 Consensus size: 314
56940726 AACATGTTCG
* * * **
56940736 TATTTTGGCCCGTTGTTCTTA-TTTTTTCCTTGAATTTTATTACTTT--A-AAAAATATACTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAG-ATTTTATTACTTTCAATAAAAATATACTATT
* *
56940797 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
65 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
* *
56940862 TTTTAAATAAATTTTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATT
130 TTTTAAATAAATATTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCCCGGATT
56940927 TTATTACTTTTAATAAAAATATATTATTTCATAATTTTATTATTTTACATTATTTTAGTACATTA
195 TTATTAC-TTTAATAAAAATATATTATTTCATAATTTTATTATTTTACATTATTTTAGTACATTA
* * *
56940992 TGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAAAACCCT
259 TGTTCGAAATGTATTCATTTAGTGTATTTTTTAAATAAATTTAAAAAAAAAACCCT
* *
56941048 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTGTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATACTATTT
*
56941113 TCGT-ATTTTATTATTTTACATTCTTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
66 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
* *
56941177 TTTTAAATAAA-ATT-AAAAAAAACTCTTATTTCGGCCCTTTGTTTGTA-TTTTTCCCCCGGATT
130 TTTTAAATAAATATTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCCCGGATT
56941239 TTATTAC-TT-A-AAAAATACTA-T-TTTC-TAATTTTATTATTTTACATTATTTTAGTACATTA
195 TTATTACTTTAATAAAAATA-TATTATTTCATAATTTTATTATTTTACATTATTTTAGTACATTA
*
56941298 TGTTCGAAATGTATTCATTTAGTTTATTTTTTAAATAAATTTAAAAAAAAAACCCT
259 TGTTCGAAATGTATTCATTTAGTGTATTTTTTAAATAAATTTAAAAAAAAAACCCT
*
56941354 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAA
56941409 ACACACTAAA
Statistics
Matches: 336, Mismatches: 19, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
306 140 0.42
307 4 0.01
308 8 0.02
309 3 0.01
310 2 0.01
312 52 0.15
313 40 0.12
314 3 0.01
315 83 0.25
316 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (314 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATACTATTT
TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
TTTAAATAAATATTAAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCCCGGATTT
TATTACTTTAATAAAAATATATTATTTCATAATTTTATTATTTTACATTATTTTAGTACATTATG
TTCGAAATGTATTCATTTAGTGTATTTTTTAAATAAATTTAAAAAAAAAACCCT
Found at i:56946412 original size:30 final size:31
Alignment explanation
Indices: 56946353--56946420 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
56946343 GGAAAAAAAA
* *
56946353 AGTTCAAGCCCTAATGTAGGAATAATTGTCT
1 AGTTCAAGCCCTAATGTAGGAACAATTGTCG
*
56946384 AGTTCATGCCCTAATGT-GGAACAATTGTCG
1 AGTTCAAGCCCTAATGTAGGAACAATTGTCG
56946414 AGTTCAA
1 AGTTCAA
56946421 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
AGTTCAAGCCCTAATGTAGGAACAATTGTCG
Found at i:56946426 original size:88 final size:90
Alignment explanation
Indices: 56946305--56946500 Score: 254
Period size: 89 Copynumber: 2.2 Consensus size: 90
56946295 TGTTTAAACT
* * * * * *
56946305 CTAATATGATAACAAATGTCAAGTTCAAGGACTAACTTGGA-AAAAAAAAGTTCAAGCCCTAATG
1 CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
* * * *
56946369 TAGGAA-TAATTGTCTAGTTCATGCC
66 T-GAAAGCAATTGTCTAATTCAGGCC
*
56946394 CTAATGTG-GAACAATTGTCGAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
1 CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
*
56946458 TGAAAGCAATTGTCTAATTCGGGCC
66 TGAAAGCAATTGTCTAATTCAGGCC
56946483 CTAATGTGAGAACAATTG
1 CTAATGTGAGAACAATTG
56946501 CCTAATTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 31 0.34
89 52 0.57
90 9 0.10
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (90 bp):
CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
TGAAAGCAATTGTCTAATTCAGGCC
Found at i:56947459 original size:3 final size:3
Alignment explanation
Indices: 56947451--56947627 Score: 354
Period size: 3 Copynumber: 59.0 Consensus size: 3
56947441 GTGCGATTTG
56947451 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56947499 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56947547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56947595 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56947628 CTTCTTGTTT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 174 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56953795 original size:16 final size:16
Alignment explanation
Indices: 56953776--56953810 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
56953766 CATATAATAA
*
56953776 ATTATATTAATAATTT
1 ATTATATTAATAAATT
*
56953792 ATTATTTTAATAAATT
1 ATTATATTAATAAATT
56953808 ATT
1 ATT
56953811 TAATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATATTAATAAATT
Found at i:56953829 original size:29 final size:29
Alignment explanation
Indices: 56953770--56953833 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
56953760 TCTAATCATA
*
56953770 TAATAAATTATATTAATAATTTATTATTT
1 TAATAAATTATATTAATAATTAATTATTT
*
56953799 TAATAAATTAT-TTAAT-ATTCAATTTTATT
1 TAATAAATTATATTAATAATT-AATTAT-TT
56953828 TAATAA
1 TAATAA
56953834 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.10
28 9 0.29
29 19 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATAAATTATATTAATAATTAATTATTT
Found at i:56953835 original size:32 final size:31
Alignment explanation
Indices: 56953769--56953912 Score: 91
Period size: 32 Copynumber: 4.5 Consensus size: 31
56953759 ATCTAATCAT
*
56953769 ATAATAAATTATATTAATAATT--TATTATTT-
1 ATAATAAATTAT-TTAAT-ATTAATTTTATTTA
56953799 -TAATAAATTATTTAATATTCAATTTTATTTA
1 ATAATAAATTATTTAATATT-AATTTTATTTA
* * **
56953830 ATAATAAATTTTTTAAATAATAATTTTAAATA
1 ATAATAAATTATTT-AATATTAATTTTATTTA
* * *
56953862 ATATTATATTATTAAAATATTTAATATTAATATTTTA
1 ATAATAAATTATT-TAATA-TTAAT-TT--TA-TTTA
56953899 ATAATAAA-TATTTA
1 ATAATAAATTATTTA
56953913 TTACAATTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.03
28 5 0.06
29 11 0.13
30 7 0.08
32 35 0.40
33 9 0.10
34 2 0.02
35 1 0.01
36 6 0.07
37 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAATAAATTATTTAATATTAATTTTATTTA
Found at i:56953839 original size:17 final size:16
Alignment explanation
Indices: 56953806--56953857 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
56953796 TTTTAATAAA
*
56953806 TTATTTAATATTCAATT
1 TTATTTAATAAT-AATT
56953823 TTATTTAATAATAAATT
1 TTATTTAATAAT-AATT
*
56953840 TT-TTAAATAATAATT
1 TTATTTAATAATAATT
56953855 TTA
1 TTA
56953858 AATAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.19
16 8 0.26
17 17 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTAATAATAATT
Found at i:56953856 original size:13 final size:13
Alignment explanation
Indices: 56953840--56953864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56953830 ATAATAAATT
56953840 TTTTAAATAATAA
1 TTTTAAATAATAA
56953853 TTTTAAATAATA
1 TTTTAAATAATA
56953865 TTATATTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAATAATAA
Found at i:56953887 original size:23 final size:24
Alignment explanation
Indices: 56953860--56953904 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
56953850 TAATTTTAAA
56953860 TAATATT-ATATTATTAA-AATATT
1 TAATATTAATATT-TTAATAATATT
56953883 TAATATTAATATTTTAATAATA
1 TAATATTAATATTTTAATAATA
56953905 AATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATTAATATTTTAATAATATT
Found at i:56953891 original size:15 final size:15
Alignment explanation
Indices: 56953861--56953912 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
56953851 AATTTTAAAT
*
56953861 AATATTATATTATTAA
1 AATATT-TAATATTAA
56953877 AATATTTAATATTAA
1 AATATTTAATATTAA
* *
56953892 TAT-TTTAATAAT-A
1 AATATTTAATATTAA
56953905 AATATTTA
1 AATATTTA
56953913 TTACAATTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 3 0.10
14 12 0.39
15 10 0.32
16 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTAATATTAA
Found at i:56953901 original size:21 final size:22
Alignment explanation
Indices: 56953860--56953915 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
56953850 TAATTTTAAA
*
56953860 TAATATTATATTATTAAAATATT
1 TAATATTATATTATT-AAATAAT
56953883 TAATATTAATATT-TT-AATAAT
1 TAATATT-ATATTATTAAATAAT
*
56953904 AAATATT-TATTA
1 TAATATTATATTA
56953916 CAATTACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 4 0.14
21 11 0.38
23 9 0.31
24 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATTATATTATTAAATAAT
Found at i:56956862 original size:29 final size:29
Alignment explanation
Indices: 56956816--56956872 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
56956806 TGGGGTGGAG
56956816 ATGTGTCAAGCAGGACCCAAGTAGAGGAC
1 ATGTGTCAAGCAGGACCCAAGTAGAGGAC
* *
56956845 ATGTGTCAAGC-GGCACCCTAGTGGAGGA
1 ATGTGTCAAGCAGG-ACCCAAGTAGAGGA
56956873 GCGCTGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (29 bp):
ATGTGTCAAGCAGGACCCAAGTAGAGGAC
Found at i:56959202 original size:30 final size:31
Alignment explanation
Indices: 56959148--56959215 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
56959138 TGGAAAAAAA
*
56959148 AGTTCAAGCCCCAATGTAGGAATAATTGTCT
1 AGTTCAAGCCCCAATGTAGGAATAATTGTCG
* *
56959179 AGTTCATGCCCTAATGT-GGAATAATTGTCG
1 AGTTCAAGCCCCAATGTAGGAATAATTGTCG
56959209 AGTTCAA
1 AGTTCAA
56959216 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
AGTTCAAGCCCCAATGTAGGAATAATTGTCG
Found at i:56959262 original size:90 final size:88
Alignment explanation
Indices: 56959122--56959296 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 88
56959112 ACAAATGTTA
* * * * *
56959122 AGTTCAAGGACTAACTTGGAAAAAAAAGTTCAAGCCCCAATGTAGGAATAATTGTCTAGTTCATG
1 AGTTCAAAGACTAACTTGGAAAAAAAAGTTCAAACCCCAATGTAGAAATAATTGTCTAATTCAGG
*
56959187 CCCTAATGT-GGAATAATTGTCG
66 CCCTAATGTGGGAACAATTGTCG
56959209 AGTTCAAAGACTAACTTGGACAAAAAAAAAGTTCAAACCCCAATGT-GAAAATAATTGTCTAATT
1 AGTTCAAAGACTAACTTGG---AAAAAAAAGTTCAAACCCCAATGTAG-AAATAATTGTCTAATT
*
56959273 CGGGCCCTAATGTGGGAACAATTG
62 CAGGCCCTAATGTGGGAACAATTG
56959297 CCTAATTTCG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
87 18 0.24
89 1 0.01
90 48 0.63
91 9 0.12
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (88 bp):
AGTTCAAAGACTAACTTGGAAAAAAAAGTTCAAACCCCAATGTAGAAATAATTGTCTAATTCAGG
CCCTAATGTGGGAACAATTGTCG
Found at i:56959296 original size:31 final size:31
Alignment explanation
Indices: 56959261--56959327 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
56959251 ATGTGAAAAT
* * *
56959261 AATTGTCTAA-TTCGGGCCCTAATGTGGGAAC
1 AATTGCCTAATTTC-GGCCCTAATGTAGGAAA
*
56959292 AATTGCCTAATTTCGGCCTTAATGTAGGAAA
1 AATTGCCTAATTTCGGCCCTAATGTAGGAAA
56959323 AATTG
1 AATTG
56959328 ACAAGTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (31 bp):
AATTGCCTAATTTCGGCCCTAATGTAGGAAA
Found at i:56964808 original size:55 final size:55
Alignment explanation
Indices: 56964703--56964808 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
56964693 CTGTGTAAGT
* *
56964703 AAATGTATAATGTAGTCAAGAACTGAGATTTTGAGTTTTTCCTTTCTATGTCAGC
1 AAATGTATAATGTAATCAAGAACTGAGATTTTGAGTTTTTCCTTACTATGTCAGC
* * * *
56964758 AAATGTTTGATGTAATCAAGAACTGAGGTTTTTGAG-TTTTCCTTAGTATGT
1 AAATGTATAATGTAATCAAGAACTGA-GATTTTGAGTTTTTCCTTACTATGT
56964809 ATCTGCATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 36 0.82
56 8 0.18
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (55 bp):
AAATGTATAATGTAATCAAGAACTGAGATTTTGAGTTTTTCCTTACTATGTCAGC
Found at i:56972239 original size:7 final size:7
Alignment explanation
Indices: 56972227--56972273 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
56972217 TGTTAGAGTT
56972227 AAGGGTA
1 AAGGGTA
56972234 AAGGGTA
1 AAGGGTA
56972241 AAGGGTA
1 AAGGGTA
56972248 AAGGGTA
1 AAGGGTA
56972255 AAGGGTA
1 AAGGGTA
56972262 AAGGGTA
1 AAGGGTA
56972269 AAGGG
1 AAGGG
56972274 GTTTCTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.13
Consensus pattern (7 bp):
AAGGGTA
Found at i:56980666 original size:8 final size:8
Alignment explanation
Indices: 56980653--56980680 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
56980643 ACCCGGGACT
56980653 CACTGTAA
1 CACTGTAA
56980661 CACTGTAA
1 CACTGTAA
56980669 CACTGTAA
1 CACTGTAA
56980677 CACT
1 CACT
56980681 AGTCTCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (8 bp):
CACTGTAA
Found at i:56980888 original size:17 final size:17
Alignment explanation
Indices: 56980854--56980891 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56980844 TTTTTCCAAC
*
56980854 CACATTCAATATTGATT
1 CACATTCAATATTAATT
56980871 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
56980888 CACA
1 CACA
56980892 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:56983923 original size:17 final size:19
Alignment explanation
Indices: 56983901--56983936 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
56983891 TGTTTTCGAG
56983901 ATTTGAATT-TTT-ATTAT
1 ATTTGAATTATTTAATTAT
56983918 ATTTGAATTATTTAATTAT
1 ATTTGAATTATTTAATTAT
56983937 CCTGCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTGAATTATTTAATTAT
Found at i:56990918 original size:11 final size:11
Alignment explanation
Indices: 56990886--56990957 Score: 57
Period size: 11 Copynumber: 6.9 Consensus size: 11
56990876 ACTAAAAATT
56990886 TATTTTAAAAA
1 TATTTTAAAAA
*
56990897 T-TTTAAAAAAA
1 TATTT-TAAAAA
56990908 GTATTTTAAAAA
1 -TATTTTAAAAA
56990920 TATTTT--AAA
1 TATTTTAAAAA
56990929 -A-TTTAAAAA
1 TATTTTAAAAA
**
56990938 -ATTAAAAAAA
1 TATTTTAAAAA
56990948 TATTTTAAAA
1 TATTTTAAAA
56990958 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 7 0.15
10 9 0.19
11 19 0.40
12 6 0.12
13 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:56990954 original size:28 final size:29
Alignment explanation
Indices: 56990915--56990977 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 29
56990905 AAAGTATTTT
*
56990915 AAAAATATTTTAAAATT-TAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAATTAA
56990943 AAAAATATTTTAAAATTAAAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAATTAA
56990972 AAAAAT
1 AAAAAT
56990978 TAAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATATTTTAAAATTAAAAAAAATTAA
Found at i:56990957 original size:19 final size:20
Alignment explanation
Indices: 56990933--56990987 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
56990923 TTTAAAATTT
56990933 AAAAAATTAAAAAAATATT-
1 AAAAAATTAAAAAAATATTA
**
56990952 TTAAAATTAAAAAAA-ATTA
1 AAAAAATTAAAAAAATATTA
56990971 AAAAAATTAAAAAAATA
1 AAAAAATTAAAAAAATA
56990988 AATATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 3 0.10
19 26 0.87
20 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAATTAAAAAAATATTA
Found at i:56990985 original size:9 final size:9
Alignment explanation
Indices: 56990926--56990986 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
56990916 AAAATATTTT
*
56990926 AAAATTTAA
1 AAAATTAAA
56990935 AAAATTAAA
1 AAAATTAAA
***
56990944 AAAATATTTT
1 AAAAT-TAAA
56990954 AAAATTAAAA
1 AAAATT-AAA
56990964 AAAATTAAA
1 AAAATTAAA
56990973 AAAATTAAA
1 AAAATTAAA
56990982 AAAAT
1 AAAAT
56990987 AAATATATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 31 0.72
10 12 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATTAAA
Found at i:56996459 original size:19 final size:21
Alignment explanation
Indices: 56996435--56996475 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56996425 TATTGTGAGT
56996435 ATATG-TTATA-TAAATTTTA
1 ATATGTTTATATTAAATTTTA
*
56996454 ATATGTTTATATTATATTTTA
1 ATATGTTTATATTAAATTTTA
56996475 A
1 A
56996476 AATATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATGTTTATATTAAATTTTA
Found at i:57000485 original size:20 final size:20
Alignment explanation
Indices: 57000434--57000485 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
57000424 AATCTTGATT
*
57000434 CTATCAATACTCAACAAAAA
1 CTATCAATACTTAACAAAAA
* *
57000454 CTATCGATACTTGACAAAAA
1 CTATCAATACTTAACAAAAA
*
57000474 GTATCAATACTT
1 CTATCAATACTT
57000486 TTTAGCCTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (20 bp):
CTATCAATACTTAACAAAAA
Found at i:57000828 original size:20 final size:19
Alignment explanation
Indices: 57000803--57000858 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
57000793 AGCCTTAGAC
57000803 AAATTTGTCATTCATTACAA
1 AAATTTGTCATTCATT-CAA
* * *
57000823 AAATTTGGCATTCATTTAT
1 AAATTTGTCATTCATTCAA
*
57000842 AAATTGGTCATTCATTC
1 AAATTTGTCATTCATTC
57000859 TCAGTTAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (19 bp):
AAATTTGTCATTCATTCAA
Found at i:57008109 original size:14 final size:14
Alignment explanation
Indices: 57008090--57008120 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57008080 TGCTTCCATT
57008090 TTACTATTATGTTG
1 TTACTATTATGTTG
*
57008104 TTACTATTTTGTTG
1 TTACTATTATGTTG
57008118 TTA
1 TTA
57008121 TTGTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:57008358 original size:12 final size:12
Alignment explanation
Indices: 57008337--57008370 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57008327 TATATATATT
*
57008337 AAAATTATATAA
1 AAAATAATATAA
57008349 AAAATAATATAA
1 AAAATAATATAA
*
57008361 AAATTAATAT
1 AAAATAATAT
57008371 GGGCCGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:57008680 original size:33 final size:32
Alignment explanation
Indices: 57008619--57008697 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 32
57008609 AATTTAGAAC
* *
57008619 TTAGTATCTATTC--TTGTTTTTTTGAGAAAT
1 TTAGTATCTATTCTTTTGTTTTTTTAAGAAAA
*
57008649 TTAGTATCTATTCTTTTCTTTTTTTTAAGAAAA
1 TTAGTATCTATTCTTTT-GTTTTTTTAAGAAAA
57008682 TTAGTATCTATTCTTT
1 TTAGTATCTATTCTTT
57008698 AATGGGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 13 0.30
32 2 0.05
33 28 0.65
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (32 bp):
TTAGTATCTATTCTTTTGTTTTTTTAAGAAAA
Found at i:57010789 original size:14 final size:12
Alignment explanation
Indices: 57010766--57010807 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
57010756 GTTTTTAAGA
57010766 TTTTTGTTTAGGG
1 TTTTTGTTTA-GG
57010779 TTTTTGTTTTAGG
1 TTTTTG-TTTAGG
*
57010792 TTTTT-TTTAGA
1 TTTTTGTTTAGG
57010803 TTTTT
1 TTTTT
57010808 TAATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
13 13 0.48
14 4 0.15
ACGTcount: A:0.10, C:0.00, G:0.19, T:0.71
Consensus pattern (12 bp):
TTTTTGTTTAGG
Found at i:57014673 original size:6 final size:6
Alignment explanation
Indices: 57014662--57014691 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57014652 AAATATATAT
57014662 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
57014692 AAATACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:57015430 original size:69 final size:70
Alignment explanation
Indices: 57015349--57015526 Score: 191
Period size: 69 Copynumber: 2.5 Consensus size: 70
57015339 AGTGATAATT
* *
57015349 TCTTCACTATTTTTGTTAAAAAGTTAATTTTAATCT-CACGTTAACTA-AAAATTACTCTTATAG
1 TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAA-TACTCATATAG
* **
57015412 CTCACC
65 CTAAAA
* * * * *
57015418 TCTTCACTATTTTCATTAAAAAATTAATTTTAAT-TCCATGTTGACTAGAGAATACTCATATAGC
1 TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAATACTCATATAGC
57015482 TAAAA
66 TAAAA
57015487 TCTTCACTATTTTCATTAAATTAAAAAGTTAATTTTAATC
1 TCTTCACTA-TTT--TT--ATTAAAAAGTTAATTTTAATC
57015527 CTACATTGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
68 1 0.01
69 62 0.70
70 6 0.07
72 1 0.01
74 19 0.21
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.42
Consensus pattern (70 bp):
TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAATACTCATATAGC
TAAAA
Found at i:57016026 original size:141 final size:142
Alignment explanation
Indices: 57015794--57016056 Score: 345
Period size: 141 Copynumber: 1.9 Consensus size: 142
57015784 TATTAGCCAA
* * *
57015794 AGAACACTCGCATACTCGCTATTTTCATAAGCTCTTTAGAGTTTCTTCCTCTAAAGAAACTTATG
1 AGAACACTCCCATACTCGCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTTACG
* * * *
57015859 AGAGAGAACTTCTAGTTTAAAGTTATTTATATATTATTGATATGAACGATGATGATTTTTAATCC
66 AGAAAGAACTTCTAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATTTTTAATCC
57015924 CATTTTAACTAG
131 CATTTTAACTAG
* * *
57015936 AGAACACTCCCATGCTCAG-TATTTTCATAAACT-TTTCGAGTTTCTTCCTTTAAAGAAA-TTCA
1 AGAACACTCCCATACTC-GCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTT-A
* * * *
57015998 CGAGAAAGAGC-TCATAGCTTGAAGTTATTTATATATTATCGATACGAATGATGGTGATT
64 CGAGAAAGAACTTC-TAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATT
57016057 CTAATACAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
140 4 0.04
141 71 0.68
142 28 0.27
143 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (142 bp):
AGAACACTCCCATACTCGCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTTACG
AGAAAGAACTTCTAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATTTTTAATCC
CATTTTAACTAG
Found at i:57016305 original size:27 final size:28
Alignment explanation
Indices: 57016256--57016321 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
57016246 TATTTTATAC
*
57016256 TATTATTAATTAAAATATACATTTA-TCA
1 TATTA-TAATTAAAATATACATTTACACA
* *
57016284 TTTTATAATTAATAT-TATCATTTACACA
1 TATTATAATTAAAATATA-CATTTACACA
57016312 TATTATAATT
1 TATTATAATT
57016322 TTAAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 15 0.47
28 15 0.47
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTATAATTAAAATATACATTTACACA
Found at i:57016820 original size:20 final size:18
Alignment explanation
Indices: 57016791--57016841 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
57016781 TATGTTTTAA
57016791 AAAAATTATAAAAAAATCT
1 AAAAATTATAAAAAAAT-T
*
57016810 AAAAATATATATAAAAATT
1 AAAAAT-TATAAAAAAATT
*
57016829 AAAAATTTTAAAA
1 AAAAATTATAAAA
57016842 TTTTCTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 13 0.46
20 10 0.36
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAAAATT
Found at i:57031469 original size:23 final size:23
Alignment explanation
Indices: 57031441--57031485 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57031431 AGTGGAAAAT
*
57031441 AAAGAAAAAAAAAGGAAAAATTA
1 AAAGAAAAAAAAAGAAAAAATTA
* *
57031464 AAAGAACATAAAAGAAAAAATT
1 AAAGAAAAAAAAAGAAAAAATT
57031486 TAAATTACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAGAAAAAAAAAGAAAAAATTA
Found at i:57036971 original size:61 final size:61
Alignment explanation
Indices: 57036853--57036982 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 61
57036843 ATTAGAATAA
* * * *
57036853 TAACAAATTTAGCCCTCATATGTTTATAGATTATAACAATTTGATCCTAATTCTAAAAAAT
1 TAACAAATTTAACCCTCATATCTCTATAGATTATAACAATTTAATCCTAATTCTAAAAAAT
* * * * *
57036914 TAACAAATTTAACCCTCA-A-CTCTATATATTATGACAATTTTAATCTTGATTCTTAAAAAT
1 TAACAAATTTAACCCTCATATCTCTATAGATTATAACAA-TTTAATCCTAATTCTAAAAAAT
*
57036974 TCA-AAATTT
1 TAACAAATTT
57036983 TAAAAACTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
59 20 0.34
60 21 0.36
61 17 0.29
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (61 bp):
TAACAAATTTAACCCTCATATCTCTATAGATTATAACAATTTAATCCTAATTCTAAAAAAT
Found at i:57044630 original size:24 final size:24
Alignment explanation
Indices: 57044598--57044645 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
57044588 AATAGGTGCC
57044598 ATCACTTACTTGCTGTTAACTAAG
1 ATCACTTACTTGCTGTTAACTAAG
57044622 ATCACTTACTTGCTGTTAACTAAG
1 ATCACTTACTTGCTGTTAACTAAG
57044646 GAGCCTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (24 bp):
ATCACTTACTTGCTGTTAACTAAG
Found at i:57048129 original size:13 final size:13
Alignment explanation
Indices: 57048107--57048156 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
57048097 ACTATATTTC
*
57048107 AATTATAATAAAA
1 AATTAAAATAAAA
*
57048120 AATTCAAATAAAA
1 AATTAAAATAAAA
**
57048133 AATTAAAATAATT
1 AATTAAAATAAAA
57048146 AATTAAAATAA
1 AATTAAAATAA
57048157 TTAAATACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:57048157 original size:13 final size:13
Alignment explanation
Indices: 57048133--57048178 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
57048123 TCAAATAAAA
57048133 AATTAAAATAATT
1 AATTAAAATAATT
57048146 AATTAAAATAATT
1 AATTAAAATAATT
* *
57048159 AAATACAA-AATT
1 AATTAAAATAATT
57048171 AATTAAAA
1 AATTAAAA
57048179 ATTAAACGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTAAAATAATT
Found at i:57048716 original size:27 final size:27
Alignment explanation
Indices: 57048686--57048745 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
57048676 ATAGTATGAT
*
57048686 ATAATTTAAACCCTAAAAACCCAACCC-
1 ATAATTCAAACCC-AAAAACCCAACCCA
**
57048713 ATAACTTCAATTCCAAAAACCCAACCCA
1 ATAA-TTCAAACCCAAAAACCCAACCCA
57048741 ATAAT
1 ATAAT
57048746 ACATTAATCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (27 bp):
ATAATTCAAACCCAAAAACCCAACCCA
Found at i:57057252 original size:18 final size:19
Alignment explanation
Indices: 57057231--57057270 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
57057221 TATTTAAAAA
*
57057231 TTATAAAT-GTTGGAATTT
1 TTATAAATAGTTCGAATTT
*
57057249 TTATAAATATTTCGAATTT
1 TTATAAATAGTTCGAATTT
57057268 TTA
1 TTA
57057271 AAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (19 bp):
TTATAAATAGTTCGAATTT
Found at i:57057267 original size:19 final size:20
Alignment explanation
Indices: 57057243--57057286 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57057233 ATAAATGTTG
*
57057243 GAATTTTT-ATAAATATTTC
1 GAATTTTTAAAAAATATTTC
*
57057262 GAATTTTTAAAAAATATTTT
1 GAATTTTTAAAAAATATTTC
57057282 GAATT
1 GAATT
57057287 CTTTTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (20 bp):
GAATTTTTAAAAAATATTTC
Found at i:57062400 original size:19 final size:19
Alignment explanation
Indices: 57062378--57062447 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
57062368 TAAAAATTAG
57062378 AAAAAAATATAAAAATCGT
1 AAAAAAATATAAAAATCGT
* *
57062397 AAAAACAT-TAAAAATTGT
1 AAAAAAATATAAAAATCGT
* ***
57062415 AATATTTTATAAAAATCGT
1 AAAAAAATATAAAAATCGT
* *
57062434 AAAATATTATAAAA
1 AAAAAAATATAAAA
57062448 TATATAGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.32
19 28 0.68
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAAATATAAAAATCGT
Found at i:57062422 original size:57 final size:56
Alignment explanation
Indices: 57062306--57062430 Score: 141
Period size: 56 Copynumber: 2.2 Consensus size: 56
57062296 ACGCACTTGC
* * * *
57062306 TTTTATTAAAAATTAGAAAAAATATAAAAAAATTTAAAACTATAAATATTATTAAA
1 TTTTAATAAAAATTAGAAAAAATATAAAAAAATTAAAAACTATAAAAATTAGTAAA
*
57062362 TTTTAATAAAAATTAGAAAAAA-ATATAAAAATCGTAAAAAC-ATTAAAAATT-GTAATA
1 TTTTAATAAAAATTAGAAAAAATATAAAAAAAT--TAAAAACTA-TAAAAATTAGTAA-A
57062419 TTTT-ATAAAAAT
1 TTTTAATAAAAAT
57062431 CGTAAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
55 9 0.15
56 33 0.55
57 18 0.30
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (56 bp):
TTTTAATAAAAATTAGAAAAAATATAAAAAAATTAAAAACTATAAAAATTAGTAAA
Found at i:57062762 original size:9 final size:10
Alignment explanation
Indices: 57062738--57062784 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
57062728 AAAAAAATTC
57062738 TAATTTTTAA
1 TAATTTTTAA
*
57062748 TAATTTTTTA
1 TAATTTTTAA
*
57062758 T-ATTTTTAT
1 TAATTTTTAA
*
57062767 TAATATTTAA
1 TAATTTTTAA
57062777 TAATTTTT
1 TAATTTTT
57062785 CTAAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:57062764 original size:19 final size:20
Alignment explanation
Indices: 57062738--57062784 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
57062728 AAAAAAATTC
* *
57062738 TAATTTTTAATAATTTTTTA
1 TAATTTTTAATAATATTTAA
*
57062758 T-ATTTTTATTAATATTTAA
1 TAATTTTTAATAATATTTAA
57062777 TAATTTTT
1 TAATTTTT
57062785 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TAATTTTTAATAATATTTAA
Found at i:57062794 original size:29 final size:29
Alignment explanation
Indices: 57062738--57062815 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
57062728 AAAAAAATTC
* **
57062738 TAATTTTTAATAATTTTTTATATTTTTAT
1 TAATATTTAATAATTTTTTATAAATTTAT
57062767 TAATATTTAATAATTTTTCTA-AAATTTAT
1 TAATATTTAATAATTTTT-TATAAATTTAT
*
57062796 TATTATTT--T-ATTTTTTATAA
1 TAATATTTAATAATTTTTTATAA
57062816 TTTTTTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
25 2 0.05
26 8 0.19
27 1 0.02
29 30 0.70
30 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TAATATTTAATAATTTTTTATAAATTTAT
Found at i:57068859 original size:21 final size:21
Alignment explanation
Indices: 57068835--57068884 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
57068825 TTAAGGTTCA
* *
57068835 GGGTTCATTGTTATGGGTTTG
1 GGGTTCATGGTTATGAGTTTG
*
57068856 GGGTT-ACGGGTTATGAGTTTG
1 GGGTTCA-TGGTTATGAGTTTG
57068877 GGGTTCAT
1 GGGTTCAT
57068885 AGTTTAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.12, C:0.06, G:0.40, T:0.42
Consensus pattern (21 bp):
GGGTTCATGGTTATGAGTTTG
Found at i:57069396 original size:25 final size:28
Alignment explanation
Indices: 57069350--57069403 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
57069340 TTACTTGAAT
57069350 TATATATAAAATAACTTAAAA-TTATGG
1 TATATATAAAATAACTTAAAATTTATGG
*
57069377 TATATATAAAAT-A-TTGAAATTTATGG
1 TATATATAAAATAACTTAAAATTTATGG
57069403 T
1 T
57069404 TAATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
TATATATAAAATAACTTAAAATTTATGG
Found at i:57077146 original size:32 final size:32
Alignment explanation
Indices: 57077105--57077169 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57077095 ATAGCAACAC
57077105 TTAATCTGGATAATTTAGACATTTCTAAACCA
1 TTAATCTGGATAATTTAGACATTTCTAAACCA
57077137 TTAATCTGGATAATTTAGACATTTCTAAACCA
1 TTAATCTGGATAATTTAGACATTTCTAAACCA
57077169 T
1 T
57077170 ATCTTGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (32 bp):
TTAATCTGGATAATTTAGACATTTCTAAACCA
Found at i:57089026 original size:13 final size:13
Alignment explanation
Indices: 57089008--57089037 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57088998 TCTATGATTT
57089008 TATTAATATTTTA
1 TATTAATATTTTA
57089021 TATTAATATTTTA
1 TATTAATATTTTA
57089034 TATT
1 TATT
57089038 TTAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTAATATTTTA
Found at i:57094211 original size:42 final size:42
Alignment explanation
Indices: 57094149--57094295 Score: 240
Period size: 42 Copynumber: 3.4 Consensus size: 42
57094139 GCCTAAGAAG
* * *
57094149 AAGTTAGCCAAGAGGAAGTATCTGAAGCAAAGATGGATTGGC
1 AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGC
57094191 AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGC
1 AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGC
57094233 AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGAATATTGGC
1 AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGG---ATTGGC
57094278 AAGTTAGCCAAGAAGCAG
1 AAGTTAGCCAAGAAGCAG
57094296 ATGGATTGGC
Statistics
Matches: 99, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
42 75 0.76
45 24 0.24
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.18
Consensus pattern (42 bp):
AAGTTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGC
Found at i:57094778 original size:42 final size:42
Alignment explanation
Indices: 57094718--57094857 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
57094708 TAAGAGATTA
* * *
57094718 TTAGCCTAAGAAGAAGTATCTGAAGCGAAGATGGATTGGCAAG
1 TTAGCC-AAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
57094761 TTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
1 TTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
57094803 TTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
1 TTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
57094845 TTAGCCAAGAAGC
1 TTAGCCAAGAAGC
57094858 TGATGTTCCT
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 88 0.94
43 6 0.06
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (42 bp):
TTAGCCAAGAAGCAGTATGTGAAGCAAAGATGGATTGGCAAG
Found at i:57095775 original size:15 final size:17
Alignment explanation
Indices: 57095754--57095794 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
57095744 TAATTATTTA
57095754 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
57095770 -AAATTATTAAAATGAT
1 AAAATTATAAAAATGAT
57095786 AAAATTATA
1 AAAATTATA
57095795 GTTTTACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:57095787 original size:24 final size:26
Alignment explanation
Indices: 57095745--57095794 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
57095735 TAGCTCTCTT
*
57095745 AATTATTTAAAAATTATAAAAATATA
1 AATTATTTAAAAATGATAAAAATATA
*
57095771 AATTA-TT-AAAATGATAAAATTATA
1 AATTATTTAAAAATGATAAAAATATA
57095795 GTTTTACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AATTATTTAAAAATGATAAAAATATA
Found at i:57102551 original size:46 final size:46
Alignment explanation
Indices: 57102499--57103559 Score: 1856
Period size: 46 Copynumber: 23.0 Consensus size: 46
57102489 GTGTGCTCTC
*
57102499 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102545 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102591 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102637 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102683 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102729 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102775 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102821 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102867 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102913 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57102959 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103005 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103051 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103097 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103143 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103189 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103235 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
*
57103281 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103327 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
** * * *
57103373 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
* ** *
57103419 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
* ** ** * *
57103465 AGACGTGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
* * * * * * *
57103512 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
57103558 TG
1 TG
57103560 TCAAAGATAA
Statistics
Matches: 990, Mismatches: 22, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
45 1 0.00
46 947 0.96
47 42 0.04
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
Found at i:57109008 original size:26 final size:26
Alignment explanation
Indices: 57108972--57109025 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
57108962 CTTTCAATTC
57108972 AAGGACAATTTACCCAACCCTCTGGA
1 AAGGACAATTTACCCAACCCTCTGGA
57108998 AAGGACAATTTACCCAACCCTCTGGA
1 AAGGACAATTTACCCAACCCTCTGGA
57109024 AA
1 AA
57109026 TGACTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (26 bp):
AAGGACAATTTACCCAACCCTCTGGA
Found at i:57110411 original size:21 final size:23
Alignment explanation
Indices: 57110360--57110415 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
57110350 TTCATAGAAA
57110360 AATTATTTTATGGACTATTTTCATG
1 AATTA-TTTATGGACTATTTT-ATG
*
57110385 ACATTATTTATGGTCTATTTT-T-
1 A-ATTATTTATGGACTATTTTATG
57110407 AATTATTTA
1 AATTATTTA
57110416 ATAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 8 0.28
22 1 0.03
23 1 0.03
25 15 0.52
26 4 0.14
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (23 bp):
AATTATTTATGGACTATTTTATG
Found at i:57110753 original size:20 final size:21
Alignment explanation
Indices: 57110701--57110754 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
57110691 TTAAACCTCC
*
57110701 AGATTTAGGGTTCGGGGTTCA
1 AGATTTAGGGTTCGGAGTTCA
* *
57110722 AGATTCATGGTTC-GAGTTCA
1 AGATTTAGGGTTCGGAGTTCA
*
57110742 AGGTTTAGGGTTC
1 AGATTTAGGGTTC
57110755 AAGATAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (21 bp):
AGATTTAGGGTTCGGAGTTCA
Found at i:57110890 original size:26 final size:27
Alignment explanation
Indices: 57110836--57110901 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
57110826 TTGGTTGCAC
* *
57110836 AAAAATAAAAAAT-ATTAACTTGTGAT
1 AAAAATATAAAATAATTAAATTGTGAT
57110862 AAAAATATAAAATAATTAAAATT-TG-T
1 AAAAATATAAAATAATT-AAATTGTGAT
57110888 AAAAGA-ATAAAATA
1 AAAA-ATATAAAATA
57110902 TGTTTGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 25 0.71
27 6 0.17
28 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAAATATAAAATAATTAAATTGTGAT
Found at i:57111199 original size:25 final size:25
Alignment explanation
Indices: 57111157--57111210 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
57111147 TTTATATTTG
*
57111157 ATAAATATAATTATATGTGTATA-CA
1 ATAAATATAAATATATGT-TATATCA
57111182 ATAAATATAAA-ATAATGTTATATCA
1 ATAAATATAAATAT-ATGTTATATCA
57111207 ATAA
1 ATAA
57111211 TTGTGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
ATAAATATAAATATATGTTATATCA
Found at i:57113261 original size:19 final size:20
Alignment explanation
Indices: 57113219--57113264 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
57113209 AAACAATAAA
57113219 TTTT-AAATTTTTTTAATTT
1 TTTTAAAATTTTTTTAATTT
57113238 TTTTAAAATTATTTTT-A-TT
1 TTTTAAAATT-TTTTTAATTT
57113257 TTTTAAAA
1 TTTTAAAA
57113265 AATATAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.56
20 6 0.24
21 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAAATTTTTTTAATTT
Found at i:57113265 original size:20 final size:20
Alignment explanation
Indices: 57113223--57113265 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
57113213 AATAAATTTT
*
57113223 AAATTTTTTTAATTTTTTTA
1 AAATTTTTTTAATTTTTTAA
57113243 AAATTATTTTT-ATTTTTTAA
1 AAATT-TTTTTAATTTTTTAA
57113263 AAA
1 AAA
57113266 ATATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AAATTTTTTTAATTTTTTAA
Found at i:57114987 original size:3 final size:3
Alignment explanation
Indices: 57114979--57115003 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57114969 CACATTTCTA
57114979 TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC T
57115004 TCTTCTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:57117888 original size:18 final size:18
Alignment explanation
Indices: 57117865--57117900 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57117855 TTTTGCTTTT
57117865 TTTTTTTTTTTGGGGGGG
1 TTTTTTTTTTTGGGGGGG
57117883 TTTTTTTTTTTGGGGGGG
1 TTTTTTTTTTTGGGGGGG
57117901 GGGGGTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (18 bp):
TTTTTTTTTTTGGGGGGG
Found at i:57117899 original size:20 final size:20
Alignment explanation
Indices: 57117863--57117902 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57117853 AATTTTGCTT
**
57117863 TTTTTTTTTTTTTGGGGGGG
1 TTTTTTTTTTTGGGGGGGGG
57117883 TTTTTTTTTTTGGGGGGGGG
1 TTTTTTTTTTTGGGGGGGGG
57117903 GGGTGGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (20 bp):
TTTTTTTTTTTGGGGGGGGG
Found at i:57117900 original size:21 final size:21
Alignment explanation
Indices: 57117862--57117903 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57117852 TAATTTTGCT
***
57117862 TTTTTTTTTTTTTTGGGGGGG
1 TTTTTTTTTTTGGGGGGGGGG
57117883 TTTTTTTTTTTGGGGGGGGGG
1 TTTTTTTTTTTGGGGGGGGGG
57117904 GGTGGTGTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (21 bp):
TTTTTTTTTTTGGGGGGGGGG
Found at i:57124640 original size:3 final size:3
Alignment explanation
Indices: 57124634--57124665 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
57124624 ATCATCGTCG
57124634 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57124666 GAATAAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57131006 original size:44 final size:43
Alignment explanation
Indices: 57130958--57131042 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 43
57130948 TGAATGTAGA
57130958 AAAAAATTAAATATATTTTCTTATAGATACTTTTATGGTAAAGT
1 AAAAAATTAAATATATTTTCTTATAGATACTTTTAT-GTAAAGT
*
57131002 AAAAAATTAAATATATTTTCTTATAGATTCTTTTATGTAAA
1 AAAAAATTAAATATATTTTCTTATAGATACTTTTATGTAAA
57131043 TTGTCATGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 5 0.12
44 35 0.88
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (43 bp):
AAAAAATTAAATATATTTTCTTATAGATACTTTTATGTAAAGT
Found at i:57133202 original size:12 final size:12
Alignment explanation
Indices: 57133185--57133209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57133175 AAGTGCTAGT
57133185 TTAAATAAAAAA
1 TTAAATAAAAAA
57133197 TTAAATAAAAAA
1 TTAAATAAAAAA
57133209 T
1 T
57133210 ACCATATCGG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAATAAAAAA
Found at i:57143170 original size:68 final size:67
Alignment explanation
Indices: 57143098--57143230 Score: 169
Period size: 67 Copynumber: 2.0 Consensus size: 67
57143088 TTTGTTTCTG
* * * *
57143098 TACGGAAATTATTTTTCTT-ATTTTTCGGTGTTTAATTGTGTAAAATATAATAGATCAATGTAAA
1 TACGGAAAATATTTTT-TTCATTTTT-GGTATTTAATTGTGTAAAATATAATAAATCAATGGAAA
57143162 ATTT
64 ATTT
** * *
57143166 TACGGAAAATATTTTTTTCATTTTTTTTATTTGATTGTGTAAAATATACTAAATCAATGGAAAAT
1 TACGGAAAATATTTTTTTCATTTTTGGTATTTAATTGTGTAAAATATAATAAATCAATGGAAAAT
57143231 GCTTTGCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 35 0.62
68 21 0.38
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (67 bp):
TACGGAAAATATTTTTTTCATTTTTGGTATTTAATTGTGTAAAATATAATAAATCAATGGAAAAT
TT
Found at i:57144373 original size:16 final size:18
Alignment explanation
Indices: 57144339--57144378 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
57144329 AAAATTATAA
57144339 AAAATATTTAAAATCATC
1 AAAATATTTAAAATCATC
*
57144357 AAAA-ATTT-AAATTATC
1 AAAATATTTAAAATCATC
57144373 AAAATA
1 AAAATA
57144379 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATTTAAAATCATC
Found at i:57145042 original size:6 final size:6
Alignment explanation
Indices: 57145028--57145057 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
57145018 GTTTTTTTTT
57145028 TAATC- TAATCA TAATCA TAATCA TAATCA T
1 TAATCA TAATCA TAATCA TAATCA TAATCA T
57145058 GTTATGCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (6 bp):
TAATCA
Found at i:57147985 original size:13 final size:14
Alignment explanation
Indices: 57147957--57147989 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
57147947 CAGGTTTGCC
57147957 TTCCTTACTCTTTT
1 TTCCTTACTCTTTT
*
57147971 TTCCTTA-TTTTTT
1 TTCCTTACTCTTTT
57147984 TTCCTT
1 TTCCTT
57147990 TTTCTGGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCCTTACTCTTTT
Found at i:57166006 original size:13 final size:13
Alignment explanation
Indices: 57165988--57166013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57165978 TATAAAAGGA
57165988 ATGACATTTTTCT
1 ATGACATTTTTCT
57166001 ATGACATTTTTCT
1 ATGACATTTTTCT
57166014 TTAGTTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATGACATTTTTCT
Found at i:57166432 original size:18 final size:18
Alignment explanation
Indices: 57166399--57166433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57166389 ATTTTTCAAC
* *
57166399 TTGAATAATTCGAATAAT
1 TTGAATAAATCAAATAAT
57166417 TTGAATAAATCAAATAA
1 TTGAATAAATCAAATAA
57166434 CAAGTTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (18 bp):
TTGAATAAATCAAATAAT
Found at i:57167875 original size:39 final size:39
Alignment explanation
Indices: 57167821--57167946 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
57167811 TTCAGTGATG
*
57167821 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
57167860 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
57167899 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
57167938 TATGTCCGG
1 TATATCCGG
57167947 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:57167960 original size:78 final size:78
Alignment explanation
Indices: 57167821--57167964 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
57167811 TTCAGTGATG
* * * * * **
57167821 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
57167886 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
57167899 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
57167963 CT
65 CT
57167965 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.07
78 51 0.93
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:57167963 original size:39 final size:39
Alignment explanation
Indices: 57167821--57167973 Score: 144
Period size: 39 Copynumber: 3.9 Consensus size: 39
57167811 TTCAGTGATG
* * * * * *
57167821 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* * * * *
57167860 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* *
57167899 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* * * * *
57167938 TATGTCCGGGCTAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGG
57167974 TATTATACCG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
Found at i:57167973 original size:78 final size:78
Alignment explanation
Indices: 57167821--57167984 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
57167811 TTCAGTGATG
* * * * * **
57167821 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
57167886 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
57167899 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
57167963 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
57167977 TATA-CCGG
1 TATATCCGG
57167985 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 9 0.12
78 63 0.88
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:57174504 original size:39 final size:39
Alignment explanation
Indices: 57174450--57174575 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
57174440 TTCAGTGATG
57174450 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
57174489 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
57174528 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
57174567 TATGTCCGG
1 TATATCCGG
57174576 GCTAAAGTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:57174589 original size:39 final size:39
Alignment explanation
Indices: 57174450--57174613 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
57174440 TTCAGTGATG
* *
57174450 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
57174489 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
57174528 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
57174567 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
57174606 TATA-CCGG
1 TATATCCGG
57174614 GTTTAAATTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.08
39 104 0.92
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:57174628 original size:78 final size:78
Alignment explanation
Indices: 57174450--57174640 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
57174440 TTCAGTGATG
** * **
57174450 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
57174515 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
57174528 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
57174592 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
** *
57174606 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTGG
57174641 TAATTGGTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 21 0.22
78 75 0.78
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:57174640 original size:38 final size:38
Alignment explanation
Indices: 57174468--57174645 Score: 148
Period size: 39 Copynumber: 4.6 Consensus size: 38
57174458 GACTTAGGGT
* **
57174468 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* *
57174507 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* * * *
57174546 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTATGTGCTGGAATTAT-ACCGGGTTAAAGTC
* * *
57174585 CCGCAGGCT-TCGAGCTGGTATTATACCGGGTTTAAATTC
1 CCGCAGGCTAT-GTGCTGGAATTATACCGGG-TTAAAGTC
57174624 CCGCAGGCT-TGTGCTGGTAATT
1 CCGCAGGCTATGTGCTGG-AATT
57174646 GGTTTCAAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.14
39 102 0.86
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATACCGGGTTAAAGTC
Done.