Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 179 of 290
Found at i:57843153 original size:20 final size:20
Alignment explanation
Indices: 57843130--57843190 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
57843120 CAACTCCGAC
57843130 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
57843150 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
57843171 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
57843191 ATTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:57843843 original size:94 final size:94
Alignment explanation
Indices: 57843654--57843846 Score: 354
Period size: 94 Copynumber: 2.1 Consensus size: 94
57843644 GCCGAACCGA
57843654 GACATGTCCATTGCTTCCCCATACATTCACCAAGCCTTCAAGTTCATTCCTTAGCCATGAAGCTG
1 GACATGTCCATTGCTTCCCCATACATTCACCAAGCCTTCAAGTTCATTCCTTAGCCATGAAGCTG
57843719 CCCATTGAAGTACCATTCAGCTGAATTTG
66 CCCATTGAAGTACCATTCAGCTGAATTTG
57843748 GACATGTCCATTGC-TCTCCCATACATTCACCAAGCCTTCAAGTTCATTTCCTTAGCCATGAAGC
1 GACATGTCCATTGCTTC-CCCATACATTCACCAAGCCTTCAAGTTCA-TTCCTTAGCCATGAAGC
57843812 TGCCCATTGAAGTACCATTCAGCTGAA-TTG
64 TGCCCATTGAAGTACCATTCAGCTGAATTTG
57843842 GACAT
1 GACAT
57843847 AGCCTTTAAA
Statistics
Matches: 97, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
93 2 0.02
94 51 0.53
95 44 0.45
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (94 bp):
GACATGTCCATTGCTTCCCCATACATTCACCAAGCCTTCAAGTTCATTCCTTAGCCATGAAGCTG
CCCATTGAAGTACCATTCAGCTGAATTTG
Found at i:57846000 original size:30 final size:30
Alignment explanation
Indices: 57845966--57846048 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
57845956 TAAACTAAAA
* *
57845966 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
57845996 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
57846026 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGATTTAGCTCGTGAG
57846049 TTGAAAAGTG
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:57848183 original size:31 final size:29
Alignment explanation
Indices: 57848147--57848228 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
57848137 TCTTTTTTTC
*
57848147 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCA--ATCA
*
57848178 AATTTC-TTTTCGTTCTTC-TTTTCAATCA
1 AATTTCTTTTTC-ATCTTCTTTTTCAATCA
* *
57848206 CATTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTCATCTTCTTTTT
57848229 GCTTTTCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 12 0.28
29 9 0.21
30 11 0.26
31 11 0.26
ACGTcount: A:0.15, C:0.22, G:0.01, T:0.62
Consensus pattern (29 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCA
Found at i:57848251 original size:12 final size:12
Alignment explanation
Indices: 57848231--57848260 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57848221 TTCTTTTTGC
57848231 TTTTC-AAGGCT
1 TTTTCAAAGGCT
57848242 TTTTCAAAGGCT
1 TTTTCAAAGGCT
57848254 TTTTCAA
1 TTTTCAA
57848261 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:57848368 original size:21 final size:20
Alignment explanation
Indices: 57848329--57848378 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
57848319 TTTTATTTCA
57848329 TTTTCTTTTTCTTCTTTTGGT
1 TTTTCTTTTTCTTCTTTT-GT
*
57848350 TTTTC-TTTTCTTTTCTTTGT
1 TTTTCTTTTTCTTCT-TTTGT
57848370 TTTCTCTTT
1 TTT-TCTTT
57848379 ACAATAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 13 0.52
21 10 0.40
22 2 0.08
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTTTTGT
Found at i:57850049 original size:5 final size:5
Alignment explanation
Indices: 57850039--57850102 Score: 51
Period size: 5 Copynumber: 12.2 Consensus size: 5
57850029 AAGAGAAAAC
* *
57850039 AAAGA AAAGA AAATA AAAGAA AAAGCA AGAGA AGAA-A AAAGAA AAAGA
1 AAAGA AAAGA AAAGA AAAG-A AAAG-A AAAGA A-AAGA AAAG-A AAAGA
57850087 AATA-A AAAGA AAAGA A
1 AA-AGA AAAGA AAAGA A
57850103 GAGCAAGAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
4 3 0.06
5 29 0.60
6 16 0.33
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:57850062 original size:16 final size:15
Alignment explanation
Indices: 57850032--57850099 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 15
57850022 TCTTGTAAAG
*
57850032 AGAAAACAAAG-AAA
1 AGAAAAAAAAGAAAA
57850046 AGAAAATAAAAGAAAA
1 AGAAAA-AAAAGAAAA
* * *
57850062 AGCAAGAGAAGAAAAA
1 AGAAAAAAAAG-AAAA
*
57850078 AGAAAAAGAAATAAAA
1 AGAAAAA-AAAGAAAA
57850094 AGAAAA
1 AGAAAA
57850100 GAAGAGCAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 6 0.14
15 8 0.19
16 26 0.62
17 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAAGAAAA
Found at i:57850088 original size:38 final size:36
Alignment explanation
Indices: 57850029--57850099 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 36
57850019 CATTCTTGTA
*
57850029 AAGAGAAAACAAAGAAAAGAAA-ATAAAAGAAAAAGC
1 AAGAGAAAAAAAAGAAAAGAAATA-AAAAGAAAAAGC
57850065 AAGAGAAGAAAAAAGAAAAAGAAATAAAAAGAAAA
1 AAGAGAA-AAAAAAG-AAAAGAAATAAAAAGAAAA
57850100 GAAGAGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 7 0.23
37 6 0.19
38 17 0.55
39 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (36 bp):
AAGAGAAAAAAAAGAAAAGAAATAAAAAGAAAAAGC
Found at i:57850193 original size:18 final size:17
Alignment explanation
Indices: 57850162--57850200 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
57850152 AAAAGCCTTG
57850162 AAAAGCAAAAGAAAATGA
1 AAAAGCAAAAGAAAA-GA
* *
57850180 AAAAGGAAATGAAAAGA
1 AAAAGCAAAAGAAAAGA
57850197 AAAA
1 AAAA
57850201 TTTGAGAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (17 bp):
AAAAGCAAAAGAAAAGA
Found at i:57852355 original size:29 final size:29
Alignment explanation
Indices: 57852321--57852415 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
57852311 AGCTCACTCC
57852321 TAGCTCATA-TTTAGCTCACGAGCTAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAACCT
* ** * *
57852350 TAGCTCAACTTCAGCT-TGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAG-CTAACCT
* *
57852379 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCT-AACCT
57852409 TAGCTCA
1 TAGCTCA
57852416 TTTTAGTTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
28 4 0.08
29 33 0.67
30 12 0.24
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (29 bp):
TAGCTCAACTTTAGCTCACGAGCTAACCT
Found at i:57854118 original size:14 final size:14
Alignment explanation
Indices: 57854099--57854133 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
57854089 GAGAAATTTG
57854099 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
57854113 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
57854127 AAAAAAA
1 AAAAAAA
57854134 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAAAAATTCAA
Found at i:57854135 original size:39 final size:39
Alignment explanation
Indices: 57854062--57854136 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
57854052 ATTGTAATTG
* *
57854062 AAAAAAATCCAAAAAAAAAAAATAGAAGAGAAATTTGAA
1 AAAAAAATCCAAAAAAAAAAAATAGAAAAAAAATTTGAA
* *
57854101 AAAAAAATTCAAAAAAAAAAATTCA-AAAAAAAATTT
1 AAAAAAATCCAAAAAAAAAAAAT-AGAAAAAAAATTT
57854137 TTTTTTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.97
40 1 0.03
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (39 bp):
AAAAAAATCCAAAAAAAAAAAATAGAAAAAAAATTTGAA
Found at i:57855088 original size:24 final size:24
Alignment explanation
Indices: 57855050--57855121 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
57855040 ACTTCTTGTA
57855050 AAGAGAAAACAAAGAAAAGAAAAG
1 AAGAGAAAACAAAGAAAAGAAAAG
*
57855074 AAGA-AAAACACAAGAGAAGAAAAAG
1 AAGAGAAAACA-AAGAAAAG-AAAAG
* *
57855099 AAAATGAAATAAAAAGAAAAGAA
1 AAGA-GAAA-ACAAAGAAAAGAA
57855122 GGCAAGAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.15
24 11 0.28
25 8 0.21
26 2 0.05
27 10 0.26
28 2 0.05
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (24 bp):
AAGAGAAAACAAAGAAAAGAAAAG
Found at i:57855188 original size:13 final size:14
Alignment explanation
Indices: 57855170--57855198 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57855160 AGAGAACTTG
57855170 AAAAAG-CTTTGAA
1 AAAAAGCCTTTGAA
57855183 AAAAAGCCTTTGAA
1 AAAAAGCCTTTGAA
57855197 AA
1 AA
57855199 GCAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (14 bp):
AAAAAGCCTTTGAA
Found at i:57857287 original size:21 final size:20
Alignment explanation
Indices: 57857253--57857302 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
57857243 ACATTATTGT
57857253 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
57857274 AAAGAAAAACCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
57857295 AAAGAAAA
1 AAAGAAAA
57857303 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:57857313 original size:25 final size:25
Alignment explanation
Indices: 57857268--57857316 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
57857258 GAAAACAAAG
57857268 AAAAGAAAAGAAAAACCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
57857294 AAAAGAAAATGAAATA-AAAAGAA
1 AAAAGAAAA-GAAAAACAAAAGAA
57857317 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:57857407 original size:11 final size:12
Alignment explanation
Indices: 57857375--57857405 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57857365 TTGAGAGAAC
57857375 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57857387 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57857399 TTGAAAA
1 TTGAAAA
57857406 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:57857442 original size:30 final size:31
Alignment explanation
Indices: 57857408--57857489 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
57857398 TTTGAAAAGC
* *
57857408 AAAAAGAAAATGAAAAAGAAA-ATGTGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
57857438 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
57857468 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
57857490 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.63, C:0.01, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:57859691 original size:30 final size:30
Alignment explanation
Indices: 57859596--57859692 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
57859586 AGCTCACTCC
*
57859596 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
57859626 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
57859656 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
57859686 TAGCTCA
1 TAGCTCA
57859693 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:57861986 original size:95 final size:95
Alignment explanation
Indices: 57861823--57862017 Score: 390
Period size: 95 Copynumber: 2.1 Consensus size: 95
57861813 TTTAAAGGCT
57861823 ATGTCCAAATTCAGCTGAATGGTACTTCAATGGGCAGCTTCATGGCTAAGGAAATGAACTTGAAG
1 ATGTCCAAATTCAGCTGAATGGTACTTCAATGGGCAGCTTCATGGCTAAGGAAATGAACTTGAAG
57861888 GCTTGGTGAATGTATGGGAGAGCAATGGAC
66 GCTTGGTGAATGTATGGGAGAGCAATGGAC
57861918 ATGTCCAAATTCAGCTGAATGGTACTTCAATGGGCAGCTTCATGGCTAAGGAAATGAACTTGAAG
1 ATGTCCAAATTCAGCTGAATGGTACTTCAATGGGCAGCTTCATGGCTAAGGAAATGAACTTGAAG
57861983 GCTTGGTGAATGTATGGGAGAGCAATGGAC
66 GCTTGGTGAATGTATGGGAGAGCAATGGAC
57862013 ATGTC
1 ATGTC
57862018 TCGGTTCGGC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (95 bp):
ATGTCCAAATTCAGCTGAATGGTACTTCAATGGGCAGCTTCATGGCTAAGGAAATGAACTTGAAG
GCTTGGTGAATGTATGGGAGAGCAATGGAC
Found at i:57862496 original size:11 final size:10
Alignment explanation
Indices: 57862471--57862531 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
57862461 ACCAATAAAA
57862471 TAAA-TGAGC
1 TAAATTGAGC
*
57862480 TGAATTGTAGC
1 TAAATTG-AGC
57862491 TAAATTGAGC
1 TAAATTGAGC
**
57862501 TCGATTGAGC
1 TAAATTGAGC
57862511 TGAAA-TGAGC
1 T-AAATTGAGC
*
57862521 TCAATTGAGC
1 TAAATTGAGC
57862531 T
1 T
57862532 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:57862532 original size:20 final size:20
Alignment explanation
Indices: 57862472--57862532 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
57862462 CCAATAAAAT
*
57862472 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
57862492 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
57862513 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
57862533 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:57863549 original size:14 final size:14
Alignment explanation
Indices: 57863532--57863590 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
57863522 TTTTTTTCGA
57863532 TTTTTTTTTG-ATT
1 TTTTTTTTTGAATT
*
57863545 TTTTTTTTCGAATT
1 TTTTTTTTTGAATT
* * *
57863559 TTGTTTTTTCAAAT
1 TTTTTTTTTGAATT
57863573 TTTTTTTTTG-ATT
1 TTTTTTTTTGAATT
57863586 TTTTT
1 TTTTT
57863591 AACTTGTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 16 0.43
14 21 0.57
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTTTTTTGAATT
Found at i:57863551 original size:11 final size:11
Alignment explanation
Indices: 57863522--57863551 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57863512 CATAAATCAC
*
57863522 TTTTTTTCGAT
1 TTTTTTTTGAT
57863533 TTTTTTTTGAT
1 TTTTTTTTGAT
57863544 TTTTTTTT
1 TTTTTTTT
57863552 TCGAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAT
Found at i:57863565 original size:15 final size:13
Alignment explanation
Indices: 57863522--57863590 Score: 81
Period size: 12 Copynumber: 5.3 Consensus size: 13
57863512 CATAAATCAC
57863522 TTTTTTTCGA-TT
1 TTTTTTTCGATTT
57863534 TTTTTTT-GATTT
1 TTTTTTTCGATTT
57863546 TTTTTTTCGAATTT
1 TTTTTTTCG-ATTT
*
57863560 TGTTTTTTCAAATTT
1 T-TTTTTTC-GATTT
57863575 TTTTTTT-GATTT
1 TTTTTTTCGATTT
57863587 TTTT
1 TTTT
57863591 AACTTGTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.04
12 24 0.48
13 1 0.02
14 11 0.22
15 12 0.24
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTTTCGATTT
Found at i:57869756 original size:10 final size:10
Alignment explanation
Indices: 57869742--57869787 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
57869732 TAAGCTTGGT
57869742 TGAGCTCAAA
1 TGAGCTCAAA
* *
57869752 CGAGCTGAAA
1 TGAGCTCAAA
57869762 TGAGCTCAAA
1 TGAGCTCAAA
* *
57869772 TGAGCTGAAT
1 TGAGCTCAAA
57869782 TGAGCT
1 TGAGCT
57869788 AGACGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:57869765 original size:20 final size:20
Alignment explanation
Indices: 57869742--57869787 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
57869732 TAAGCTTGGT
57869742 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
57869762 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
57869782 TGAGCT
1 TGAGCT
57869788 AGACGGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:57875714 original size:20 final size:20
Alignment explanation
Indices: 57875668--57875714 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57875658 AGCTCGTTTC
*
57875668 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
57875688 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
57875708 CAGCTCA
1 CAGCTCA
57875715 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:57877280 original size:11 final size:12
Alignment explanation
Indices: 57877266--57877299 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
57877256 AGCAAAAAAG
*
57877266 AAAAAAAAGTA-
1 AAAAAAAAGAAC
57877277 AAAAAAAAGAAC
1 AAAAAAAAGAAC
57877289 AAAAAAAAGAA
1 AAAAAAAAGAA
57877300 GTGAAAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGAAC
Found at i:57882336 original size:13 final size:12
Alignment explanation
Indices: 57882305--57882359 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
57882295 TGTGAAACAG
*
57882305 AAAAGAAATTGA
1 AAAAGAAGTTGA
57882317 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
57882329 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
57882341 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
57882353 AAAAGAA
1 AAAAGAA
57882360 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:57884915 original size:20 final size:20
Alignment explanation
Indices: 57884859--57884915 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
57884849 AGCTCCGTTT
* *
57884859 AGCTCATTTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* * *
57884880 AGCTCAAGTCAACTCATTCA
1 AGCTCAATTCAGCTCACTCA
57884900 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
57884916 ATCTTAACCC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:57887207 original size:16 final size:16
Alignment explanation
Indices: 57887186--57887221 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
57887176 TTAAACTAAG
57887186 TAAATAAAAA-AATAAA
1 TAAATAAAAATAA-AAA
57887202 TAAATAAAAATAAAAA
1 TAAATAAAAATAAAAA
57887218 TAAA
1 TAAA
57887222 ACTTTACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAATAAAAATAAAAA
Found at i:57891930 original size:30 final size:31
Alignment explanation
Indices: 57891896--57891992 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 31
57891886 AGCTCACTCC
57891896 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * * * *
57891926 TAGCTCAAC-TTCAACTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
* * *
57891956 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAACTCACGAGCTAAACCT
*
57891986 TAACTCA
1 TAGCTCA
57891993 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAACTCACGAGCTAAACCT
Found at i:57892882 original size:22 final size:20
Alignment explanation
Indices: 57892850--57892898 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
57892840 GCCGAATTTA
57892850 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
57892873 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
57892893 TGAACA
1 TGAACA
57892899 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:57894668 original size:19 final size:20
Alignment explanation
Indices: 57894646--57894691 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
57894636 AGCTCTGTCC
57894646 AGCTCAATTCA-CTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
57894665 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
57894685 AGCTCAA
1 AGCTCAA
57894692 CCGAGCTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:57894672 original size:10 final size:10
Alignment explanation
Indices: 57894657--57894690 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
57894647 GCTCAATTCA
57894657 CTCATTTGAG
1 CTCATTTGAG
*
57894667 CTCATTTCAG
1 CTCATTTGAG
*
57894677 CTCGTTTGAG
1 CTCATTTGAG
57894687 CTCA
1 CTCA
57894691 ACCGAGCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (10 bp):
CTCATTTGAG
Found at i:57899901 original size:12 final size:12
Alignment explanation
Indices: 57899884--57899916 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57899874 AGGAAATTTG
57899884 AAAAAAAAATCC
1 AAAAAAAAATCC
*
57899896 AAAAAAAAATTC
1 AAAAAAAAATCC
57899908 AAAAAAAAA
1 AAAAAAAAA
57899917 ATCGAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATCC
Found at i:57899917 original size:13 final size:13
Alignment explanation
Indices: 57899884--57899918 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
57899874 AGGAAATTTG
*
57899884 AAAAAAAAA-TCC
1 AAAAAAAAATTCA
57899896 AAAAAAAAATTCA
1 AAAAAAAAATTCA
57899909 AAAAAAAAAT
1 AAAAAAAAAT
57899919 CGAAGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:57900833 original size:18 final size:18
Alignment explanation
Indices: 57900812--57900846 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57900802 AGAAAAGAAA
57900812 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
57900830 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
57900847 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:57906372 original size:30 final size:30
Alignment explanation
Indices: 57906287--57906383 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
57906277 TAAACTAAAA
* *
57906287 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
57906317 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* *
57906347 TGAGCTAAGGTTTAGCTAGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
57906376 ATGAGCTA
1 -TGAGCTA
57906384 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:57907960 original size:14 final size:14
Alignment explanation
Indices: 57907943--57907982 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57907933 CGAATGGAAT
*
57907943 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
57907957 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
57907971 GATATGAACAAA
1 GGTAGGAACAAA
57907983 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:57911853 original size:15 final size:14
Alignment explanation
Indices: 57911829--57911868 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
57911819 TTTTCCACTA
*
57911829 TTTTTCTTTTCGTTC
1 TTTTTCTTTT-GCTC
*
57911844 TTTTTATTTTGCTC
1 TTTTTCTTTTGCTC
57911858 TTTTTCTTTTG
1 TTTTTCTTTTG
57911869 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.75
Consensus pattern (14 bp):
TTTTTCTTTTGCTC
Found at i:57918176 original size:13 final size:13
Alignment explanation
Indices: 57918158--57918187 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57918148 CAGCCACCCT
57918158 TTATGAAAACATC
1 TTATGAAAACATC
57918171 TTATGAAAACATC
1 TTATGAAAACATC
57918184 TTAT
1 TTAT
57918188 TATTATTTTT
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:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (13 bp):
TTATGAAAACATC
Found at i:57925047 original size:46 final size:46
Alignment explanation
Indices: 57924980--57925147 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
57924970 TTGAGCATCC
*
57924980 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
57925026 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
57925073 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
57925119 AGCTCGTTGAGTTGAGTCC-AGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
57925148 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 12 0.12
46 47 0.46
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:57925092 original size:93 final size:91
Alignment explanation
Indices: 57924974--57925142 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
57924964 TAGGAGTTGA
* *
57924974 GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
57925039 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCC-AGTTCGTGAGATGTAACTAG
* * *
57925066 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57925131 TGAGTCCAGTTC
65 TGAGTCCAGTTC
57925143 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 11 0.15
93 60 0.85
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (91 bp):
GCATCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
GAGTCCAGTTCGTGAGATGTAACTAG
Found at i:57925409 original size:19 final size:20
Alignment explanation
Indices: 57925372--57925409 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57925362 ATAAGGTGGT
57925372 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
57925392 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
57925410 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:57928347 original size:30 final size:30
Alignment explanation
Indices: 57928313--57928409 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
57928303 TAAACTAAAA
57928313 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * * *
57928343 TGAGCGGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGC-TAAGCTTTAGCTCGTGAGCTAAAGT
* *
57928373 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57928403 TGAGCTA
1 TGAGCTA
57928410 GGAATGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.83
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:57929788 original size:20 final size:20
Alignment explanation
Indices: 57929765--57929812 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57929755 AGCTCCGTCC
57929765 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** * *
57929785 AGCTCGTTTTAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
57929805 AGCTCAAC
1 AGCTCAAC
57929813 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:57933065 original size:26 final size:26
Alignment explanation
Indices: 57933036--57933144 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
57933026 ATGCTACAAA
57933036 ATGATAATGTG-TTAGGTAAATGTTCC
1 ATGATAATG-GATTAGGTAAATGTTCC
*
57933062 ATGATAATGGATTAGGTAAATATTCC
1 ATGATAATGGATTAGGTAAATGTTCC
* *
57933088 ATGACAATGGGTTAGGTAAATGTTCC
1 ATGATAATGGATTAGGTAAATGTTCC
* *
57933114 ATGATAATGGTTTAGGAAAATGTTCC
1 ATGATAATGGATTAGGTAAATGTTCC
57933140 ATGAT
1 ATGAT
57933145 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 1 0.01
26 74 0.99
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
ATGATAATGGATTAGGTAAATGTTCC
Found at i:57936125 original size:23 final size:22
Alignment explanation
Indices: 57936074--57936125 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
57936064 CCTCGACTTT
*
57936074 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
57936096 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
57936119 TTCTTTT
1 TTCTTTT
57936126 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:57937958 original size:10 final size:10
Alignment explanation
Indices: 57937942--57937999 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
57937932 CAACTCTGAC
57937942 CAGCTCAATT
1 CAGCTCAATT
* *
57937952 GAGCTCATTT
1 CAGCTCAATT
57937962 CAGCTCAA-T
1 CAGCTCAATT
57937971 CGAGCTCAATT
1 C-AGCTCAATT
*
57937982 TAGCTACAATT
1 CAGCT-CAATT
57937993 CAGCTCA
1 CAGCTCA
57938000 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:57937965 original size:20 final size:20
Alignment explanation
Indices: 57937942--57938002 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
57937932 CAACTCTGAC
57937942 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
57937962 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
57937983 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
57938003 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:57939307 original size:54 final size:55
Alignment explanation
Indices: 57939194--57939307 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 55
57939184 AGGAAGCGTC
* *
57939194 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCT
1 CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
57939249 -TGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
57939302 CTGGTG
1 CTGGTG
57939308 ACTCCGTCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
53 9 0.16
54 47 0.84
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
Found at i:57939318 original size:27 final size:26
Alignment explanation
Indices: 57939194--57939325 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 26
57939184 AGGAAGCGTC
*
57939194 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
57939221 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
57939247 CTTGGTGGCTATGCCACAATAATCTGAT
1 C-TGGTGGCTCTGCCACAAT-ATCTGAT
57939275 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
57939302 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
57939326 GCAGCCTCGC
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
26 9 0.10
27 82 0.87
28 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:57944082 original size:14 final size:14
Alignment explanation
Indices: 57944065--57944104 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57944055 CGAATGGAAT
*
57944065 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
57944079 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
57944093 GATATGAACAAA
1 GGTAGGAACAAA
57944105 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:57945467 original size:30 final size:30
Alignment explanation
Indices: 57945396--57945478 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
57945386 CTTTTGTTTC
* *
57945396 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
*
57945427 AATTTC-TTTTCGTTCTCTTTTTCAATCT-T
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
57945456 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
57945479 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 5 0.11
30 31 0.70
31 8 0.18
ACGTcount: A:0.13, C:0.20, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:57945598 original size:16 final size:16
Alignment explanation
Indices: 57945545--57945599 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
57945535 GCCTCTTGCC
57945545 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTAT
57945561 T-TCATTTTCTTTTTAT
1 TCTC-TTTTCTTTTTAT
*
57945577 TTTCTTTTCTTTATT-T
1 TCTCTTTTCTTT-TTAT
57945593 TCTCTTT
1 TCTCTTT
57945600 ACAAGAATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 2 0.06
16 29 0.83
17 4 0.11
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTCTTTTCTTTTTAT
Found at i:57946528 original size:17 final size:15
Alignment explanation
Indices: 57946503--57946553 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
57946493 GCATTAAACA
57946503 TTTTTTTTTCAGATTT
1 TTTTTTTTTCA-ATTT
57946519 TTTTTCTTTTCAA--T
1 TTTTT-TTTTCAATTT
*
57946533 TTTTTTTTTGAATTT
1 TTTTTTTTTCAATTT
57946548 TTTTTT
1 TTTTTT
57946554 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 7 0.23
16 6 0.19
17 6 0.19
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTCAATTT
Found at i:57946534 original size:16 final size:16
Alignment explanation
Indices: 57946503--57946541 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
57946493 GCATTAAACA
57946503 TTTTTTTTTCAGATTT
1 TTTTTTTTTCAGATTT
57946519 TTTTTCTTTTCA-ATTT
1 TTTTT-TTTTCAGATTT
57946535 TTTTTTT
1 TTTTTTT
57946542 GAATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCAGATTT
Found at i:57946535 original size:13 final size:12
Alignment explanation
Indices: 57946519--57946564 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
57946509 TTTCAGATTT
*
57946519 TTTTTCTTTTCAA
1 TTTTT-TTTTGAA
57946532 TTTTTTTTTTGAA
1 -TTTTTTTTTGAA
57946545 TTTTTTTTTGAA
1 TTTTTTTTTGAA
57946557 TTTTTTTT
1 TTTTTTTT
57946565 ACTTGTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 20 0.65
13 6 0.19
14 5 0.16
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:57948338 original size:22 final size:23
Alignment explanation
Indices: 57948313--57948372 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
57948303 TGGACTGAAT
57948313 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
57948335 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
57948357 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
57948373 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:57948340 original size:4 final size:4
Alignment explanation
Indices: 57948322--57948355 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
57948312 TATAAAAATT
57948322 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
57948356 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:57954776 original size:4 final size:4
Alignment explanation
Indices: 57954767--57954792 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
57954757 AATTTAAACT
57954767 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
57954793 AATAAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:57955901 original size:30 final size:30
Alignment explanation
Indices: 57955867--57955963 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
57955857 TAAACTAAAA
57955867 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
57955897 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
57955927 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57955957 TGAGCTA
1 TGAGCTA
57955964 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:57962281 original size:29 final size:29
Alignment explanation
Indices: 57962196--57962290 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
57962186 TTAAACTAAA
* *
57962196 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAG-GTTAGCTCGTGAGCTGAAGT
* * * * *
57962226 TGA-CTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGG-TTAGCTCGTGAGCTGAAGT
*
57962255 TGAGCTAAGGTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTAGCTCGTGAGCTG-AAGT
57962284 TGAGCTA
1 TGAGCTA
57962291 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
29 38 0.78
30 11 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGAGCTAAGGTTAGCTCGTGAGCTGAAGT
Found at i:57967250 original size:23 final size:22
Alignment explanation
Indices: 57967198--57967251 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
57967188 TCCACGTCTT
*
57967198 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
57967220 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
57967243 TTTCTTTTC
1 TTTCTTTTC
57967252 ACTCTCAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 3 0.11
22 5 0.19
23 13 0.48
24 6 0.22
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:57974855 original size:22 final size:23
Alignment explanation
Indices: 57974830--57974889 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
57974820 TGGACTGAAT
57974830 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
57974852 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
57974874 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
57974890 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:57974857 original size:4 final size:4
Alignment explanation
Indices: 57974839--57974872 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
57974829 TATAAAAATT
57974839 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
57974873 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:57975981 original size:30 final size:30
Alignment explanation
Indices: 57975947--57976043 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
57975937 TAAACTAAAA
57975947 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
57975977 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
57976007 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57976037 TGAGCTA
1 TGAGCTA
57976044 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:57983645 original size:23 final size:22
Alignment explanation
Indices: 57983594--57983645 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
57983584 CCTCGACTTT
*
57983594 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
57983616 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
57983639 TTCTTTT
1 TTCTTTT
57983646 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:57985478 original size:10 final size:10
Alignment explanation
Indices: 57985462--57985519 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
57985452 CAACTCTGAC
57985462 CAGCTCAATT
1 CAGCTCAATT
* *
57985472 GAGCTCATTT
1 CAGCTCAATT
57985482 CAGCTCAA-T
1 CAGCTCAATT
57985491 CGAGCTCAATT
1 C-AGCTCAATT
*
57985502 TAGCTACAATT
1 CAGCT-CAATT
57985513 CAGCTCA
1 CAGCTCA
57985520 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:57985485 original size:20 final size:20
Alignment explanation
Indices: 57985462--57985522 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
57985452 CAACTCTGAC
57985462 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
57985482 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
57985503 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
57985523 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:57986827 original size:54 final size:55
Alignment explanation
Indices: 57986714--57986827 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 55
57986704 AGGAAGCGTC
* *
57986714 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCT
1 CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
57986769 -TGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
57986822 CTGGTG
1 CTGGTG
57986828 ACTCCGTCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
53 9 0.16
54 47 0.84
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATATCTGTAT
Found at i:57986838 original size:27 final size:26
Alignment explanation
Indices: 57986714--57986845 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 26
57986704 AGGAAGCGTC
*
57986714 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
57986741 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
57986767 CTTGGTGGCTATGCCACAATAATCTGAT
1 C-TGGTGGCTCTGCCACAAT-ATCTGAT
57986795 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
57986822 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
57986846 GCAGCCTCGC
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
26 9 0.10
27 82 0.87
28 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:57991606 original size:14 final size:14
Alignment explanation
Indices: 57991589--57991628 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57991579 CGAATGGAAT
*
57991589 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
57991603 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
57991617 GATATGAACAAA
1 GGTAGGAACAAA
57991629 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:57993001 original size:30 final size:31
Alignment explanation
Indices: 57992921--57993003 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
57992911 ATTTTGTTTC
* *
57992921 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
* * *
57992952 AATTTCTTTTT-GTTCTCTTTTTCAATCT-T
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
*
57992981 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTCATTTTCTTTTT
57993004 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
29 10 0.23
30 22 0.51
31 11 0.26
ACGTcount: A:0.13, C:0.19, G:0.01, T:0.66
Consensus pattern (31 bp):
AATTTCTTTTTCATTTTCTTTTTCAATCTCA
Found at i:57993095 original size:16 final size:16
Alignment explanation
Indices: 57993074--57993113 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
57993064 CTTGCCTCTC
57993074 TTTTCTTTTTATTTCA
1 TTTTCTTTTTATTTCA
*
57993090 TTTTCTTTTTATTTTA
1 TTTTCTTTTTATTTCA
57993106 TTTTCTTT
1 TTTTCTTT
57993114 ATTTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTATTTCA
Found at i:57994062 original size:16 final size:16
Alignment explanation
Indices: 57994029--57994066 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
57994019 GCATTAAACA
57994029 TTTTTTTTTCAAATTT
1 TTTTTTTTTCAAATTT
57994045 TTTTTCTTTTCAAATTT
1 TTTTT-TTTTCAAATTT
57994062 TTTTT
1 TTTTT
57994067 GAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTTCAAATTT
Found at i:57995793 original size:30 final size:30
Alignment explanation
Indices: 57995759--57995855 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
57995749 TAAACTAAAA
57995759 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
57995789 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
57995819 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
57995849 TGAGCTA
1 TGAGCTA
57995856 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:58006705 original size:23 final size:22
Alignment explanation
Indices: 58006654--58006705 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
58006644 CCTCGACTTT
*
58006654 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
58006676 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
58006699 TTCTTTT
1 TTCTTTT
58006706 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:58010933 original size:47 final size:47
Alignment explanation
Indices: 58010855--58011449 Score: 992
Period size: 47 Copynumber: 12.6 Consensus size: 47
58010845 CCCTTCGGGA
* * * * * *
58010855 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58010902 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58010949 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58010996 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58011045 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58011092 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58011139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58011186 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58011235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58011282 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58011329 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58011376 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58011423 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58011450 TATTCAAATA
Statistics
Matches: 516, Mismatches: 28, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
47 425 0.82
49 91 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58011178 original size:190 final size:190
Alignment explanation
Indices: 58010855--58011449 Score: 1050
Period size: 190 Copynumber: 3.1 Consensus size: 190
58010845 CCCTTCGGGA
* * * * * * * * *
58010855 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
58010920 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
* * *
58010985 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58011045 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58011110 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
58011175 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58011235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58011300 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
58011365 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58011423 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58011450 TATTCAAATA
Statistics
Matches: 391, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
188 66 0.17
190 325 0.83
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:58014337 original size:20 final size:19
Alignment explanation
Indices: 58014314--58014378 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
58014304 AAGCTCAAAC
58014314 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
58014334 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
58014354 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
58014374 GAGCT
1 GAGCT
58014379 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:58016210 original size:15 final size:14
Alignment explanation
Indices: 58016184--58016227 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
58016174 TCAAGCTCTC
*
58016184 TTTCAATTTCTTTT
1 TTTCATTTTCTTTT
*
58016198 TTTGCTTTTTCTTTT
1 TTT-CATTTTCTTTT
*
58016213 CTTCATTTTCTTTT
1 TTTCATTTTCTTTT
58016227 T
1 T
58016228 CTCTCACTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTCATTTTCTTTT
Found at i:58016215 original size:20 final size:20
Alignment explanation
Indices: 58016197--58016297 Score: 60
Period size: 24 Copynumber: 4.5 Consensus size: 20
58016187 CAATTTCTTT
58016197 TTTTGCTTTTTCTTTTCTTCA
1 TTTT-CTTTTTCTTTTCTTCA
*
58016218 TTTTCTTTTTCTCTCACTTTTTCGA
1 TTTTCTTTTTCT-T---TTCTTC-A
*
58016243 -TTTCTTTTTCTTTTGCAATTTCT
1 TTTTCTTTTTCTTTT-C---TTCA
*
58016266 TTTTCTTTTTGTTTTCTTTCA
1 TTTTCTTTTTCTTTTC-TTCA
*
58016287 ATTTCTTTTTC
1 TTTTCTTTTTC
58016298 AATCTCTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
20 10 0.16
21 18 0.29
23 2 0.03
24 32 0.51
25 1 0.02
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTTCTTTTCTTCA
Found at i:58016255 original size:18 final size:18
Alignment explanation
Indices: 58016234--58016284 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
58016224 TTTTCTCTCA
58016234 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
58016252 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
58016270 CTTTTT-GTTTTCTTT
1 CTTTTTCGATTTCTTT
58016285 CAATTTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:58016297 original size:6 final size:6
Alignment explanation
Indices: 58016196--58016284 Score: 54
Period size: 6 Copynumber: 14.5 Consensus size: 6
58016186 TCAATTTCTT
* * ** **
58016196 TTTTTGC TTTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC GATTTC
1 TTTTT-C TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* ** *
58016247 TTTTTC TTTTGC AATTTC TTTTTC TTTTT- GTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
58016285 CAATTTCTTT
Statistics
Matches: 59, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
5 4 0.07
6 42 0.71
7 10 0.17
8 3 0.05
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTTC
Found at i:58017305 original size:12 final size:12
Alignment explanation
Indices: 58017288--58017341 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
58017278 AGACTTTTCA
*
58017288 CTTTTTTTTCTT
1 CTTTTTTTACTT
58017300 CTTTTTTTACTT
1 CTTTTTTTACTT
58017312 -TTTTTTT-CTT
1 CTTTTTTTACTT
* *
58017322 -TTTTGCTCACTT
1 CTTTT-TTTACTT
58017334 CTTTTTTT
1 CTTTTTTT
58017342 TCGAATTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.21
11 8 0.24
12 15 0.44
13 4 0.12
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.78
Consensus pattern (12 bp):
CTTTTTTTACTT
Found at i:58017333 original size:22 final size:20
Alignment explanation
Indices: 58017282--58017341 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 20
58017272 CTCGCAAGAC
58017282 TTTTCACTTTTTTTTCTTCTTT
1 TTTTCAC-TTTTTTT-TTCTTT
58017304 TTTT-ACTTTTTTTTTCTTT
1 TTTTCACTTTTTTTTTCTTT
58017323 TTTGCTCACTTCTTTTTTT
1 TTT--TCACTT-TTTTTTT
58017342 TCGAATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 3 0.09
22 8 0.24
23 7 0.21
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTCACTTTTTTTTTCTTT
Found at i:58022906 original size:17 final size:18
Alignment explanation
Indices: 58022867--58022908 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
58022857 AAGAAGAAAA
58022867 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
58022884 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
58022901 TCAAAAGA
1 ACAAAAGA
58022909 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:58028683 original size:10 final size:10
Alignment explanation
Indices: 58028670--58028716 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
58028660 GAGCTCCGTC
*
58028670 CAGCTCAATT
1 CAGCTCATTT
58028680 CAGCTCATTT
1 CAGCTCATTT
*
58028690 GAGCTCATTT
1 CAGCTCATTT
*
58028700 CAGCTCGTTT
1 CAGCTCATTT
*
58028710 GAGCTCA
1 CAGCTCA
58028717 ACCAAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:58028694 original size:20 final size:20
Alignment explanation
Indices: 58028671--58028717 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
58028661 AGCTCCGTCC
58028671 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
58028691 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
58028711 AGCTCAA
1 AGCTCAA
58028718 CCAAGCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:58030763 original size:24 final size:23
Alignment explanation
Indices: 58030736--58030792 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
58030726 GAAAAAGTGC
58030736 AAGAAAAAAAGAGTGAAAAAGAA-A
1 AAGAAAAAAA-AGTGAAAAA-AAGA
*
58030760 AAGATAAAAAAATTGAAAAAAAGA
1 AAGA-AAAAAAAGTGAAAAAAAGA
*
58030784 AAGGAAAAA
1 AAGAAAAAA
58030793 GTGAGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 7 0.24
24 16 0.55
25 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AAGAAAAAAAAGTGAAAAAAAGA
Found at i:58031994 original size:20 final size:22
Alignment explanation
Indices: 58031969--58032017 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
58031959 GGCATCTAGG
58031969 TGTTCACAC-AATA-ATAAAAA
1 TGTTCACACTAATATATAAAAA
*
58031989 TGTTCACACTAATATATTAAAA
1 TGTTCACACTAATATATAAAAA
58032011 TAGTTCA
1 T-GTTCA
58032018 TAAATTCGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 4 0.16
22 7 0.28
23 5 0.20
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (22 bp):
TGTTCACACTAATATATAAAAA
Found at i:58033909 original size:29 final size:29
Alignment explanation
Indices: 58033876--58033935 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
58033866 ATAACCAAAC
* *
58033876 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
58033905 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
58033934 CT
1 CT
58033936 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:58033928 original size:15 final size:15
Alignment explanation
Indices: 58033882--58033929 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
58033872 AAACCTACAA
*
58033882 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
58033897 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
58033911 AAACTTCATATCCAT
1 AAACTTCATATCCAT
58033926 AAAC
1 AAAC
58033930 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:58035268 original size:30 final size:28
Alignment explanation
Indices: 58035232--58035287 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
58035222 AAGCGAAAAA
* *
58035232 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
58035262 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
58035288 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:58050052 original size:29 final size:29
Alignment explanation
Indices: 58050019--58050078 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
58050009 ATAACCAAAC
* *
58050019 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
58050048 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
58050077 CT
1 CT
58050079 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:58050071 original size:15 final size:15
Alignment explanation
Indices: 58050025--58050072 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
58050015 AAACCTACAA
*
58050025 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
58050040 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
58050054 AAACTTCATATCCAT
1 AAACTTCATATCCAT
58050069 AAAC
1 AAAC
58050073 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:58051327 original size:30 final size:30
Alignment explanation
Indices: 58051293--58051389 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
58051283 TAAACTAAAA
* *
58051293 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
58051323 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
58051353 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
58051383 TGAGCTA
1 TGAGCTA
58051390 GGAGTGACCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:58052665 original size:13 final size:13
Alignment explanation
Indices: 58052647--58052671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58052637 TAATGGTATA
58052647 TTGAATCCATGAT
1 TTGAATCCATGAT
58052660 TTGAATCCATGA
1 TTGAATCCATGA
58052672 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:58052899 original size:20 final size:20
Alignment explanation
Indices: 58052876--58052929 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58052866 AGTTTTACCC
*
58052876 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
58052896 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
58052916 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
58052930 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:58052911 original size:30 final size:30
Alignment explanation
Indices: 58052876--58052949 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
58052866 AGTTTTACCC
58052876 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
58052906 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
58052936 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
58052950 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:58052939 original size:20 final size:20
Alignment explanation
Indices: 58052876--58052940 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58052866 AGTTTTACCC
* * * *
58052876 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
58052896 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
58052915 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
58052936 AGCTC
1 AGCTC
58052941 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:58054586 original size:21 final size:22
Alignment explanation
Indices: 58054560--58054619 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
58054550 CAAAATTCGA
**
58054560 AAAAAAAGAAGTGAGCAAAAAAG
1 AAAAAAA-AAGTGAAAAAAAAAG
*
58054583 AAAAAAAAAGTAAAAAAAAAAG
1 AAAAAAAAAGTGAAAAAAAAAG
58054605 -AAAAAAAAGTGAAAA
1 AAAAAAAAAGTGAAAA
58054620 GTCTTGCGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 14 0.42
22 12 0.36
23 7 0.21
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAGTGAAAAAAAAAG
Found at i:58054591 original size:10 final size:10
Alignment explanation
Indices: 58054576--58054612 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
58054566 AGAAGTGAGC
58054576 AAAAAAGAAA
1 AAAAAAGAAA
58054586 AAAAAAGTAAAA
1 AAAAAAG--AAA
58054598 AAAAAAGAAA
1 AAAAAAGAAA
58054608 AAAAA
1 AAAAA
58054613 GTGAAAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.60
12 10 0.40
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:58054598 original size:12 final size:11
Alignment explanation
Indices: 58054576--58054612 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
58054566 AGAAGTGAGC
58054576 AAAAAAG-AAA
1 AAAAAAGAAAA
58054586 AAAAAAGTAAAA
1 AAAAAAG-AAAA
58054598 AAAAAAGAAAA
1 AAAAAAGAAAA
58054609 AAAA
1 AAAA
58054613 GTGAAAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.28
11 8 0.32
12 10 0.40
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:58055649 original size:27 final size:28
Alignment explanation
Indices: 58055614--58055677 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 28
58055604 GAAAGAGATT
58055614 GAAAAAGAAATTG-AAAGAAAACAAAAA-
1 GAAAAAGAAATTGAAAAGAAAA-AAAAAC
58055641 GAAAAAGAAATTGCAAAAGAAAAAAAAATC
1 GAAAAAGAAATTG-AAAAGAAAAAAAAA-C
58055671 GAAAAAG
1 GAAAAAG
58055678 TGAGAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 13 0.39
28 5 0.15
29 8 0.24
30 7 0.21
ACGTcount: A:0.72, C:0.05, G:0.16, T:0.08
Consensus pattern (28 bp):
GAAAAAGAAATTGAAAAGAAAAAAAAAC
Found at i:58055676 original size:18 final size:18
Alignment explanation
Indices: 58055636--58055677 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58055626 GAAAGAAAAC
* *
58055636 AAAAAGAAAAAGAAATTG
1 AAAAAGAAAAAAAAATCG
*
58055654 CAAAAGAAAAAAAAATCG
1 AAAAAGAAAAAAAAATCG
58055672 AAAAAG
1 AAAAAG
58055678 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAAGAAAAAAAAATCG
Found at i:58055708 original size:15 final size:16
Alignment explanation
Indices: 58055671--58055721 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
58055661 AAAAAAAATC
58055671 GAAAAAGTGAGAGAAAA
1 GAAAAAGTGA-AGAAAA
58055688 -AGAAAA-TGAAGAAAA
1 GA-AAAAGTGAAGAAAA
*
58055703 GAAAAAGCGAA-AAAA
1 GAAAAAGTGAAGAAAA
58055718 GAAA
1 GAAA
58055722 TTGAAAGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 18 0.60
16 8 0.27
17 4 0.13
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.04
Consensus pattern (16 bp):
GAAAAAGTGAAGAAAA
Found at i:58055761 original size:33 final size:33
Alignment explanation
Indices: 58055724--58055786 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
58055714 AAAAGAAATT
58055724 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
58055757 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
58055787 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:58057554 original size:20 final size:20
Alignment explanation
Indices: 58057531--58057584 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58057521 AGTTTTTCCC
*
58057531 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
58057551 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
58057571 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
58057585 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:58057566 original size:30 final size:30
Alignment explanation
Indices: 58057531--58057604 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
58057521 AGTTTTTCCC
58057531 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
58057561 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
58057591 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
58057605 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:58057594 original size:20 final size:20
Alignment explanation
Indices: 58057531--58057595 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58057521 AGTTTTTCCC
* * * *
58057531 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
58057551 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
58057570 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
58057591 AGCTC
1 AGCTC
58057596 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:58060562 original size:47 final size:47
Alignment explanation
Indices: 58060455--58060976 Score: 928
Period size: 47 Copynumber: 11.2 Consensus size: 47
58060445 TATTTGAATA
*
58060455 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060501 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58060548 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060595 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58060642 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060689 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060738 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060785 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58060832 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58060879 AATGTGAAAGTGTATATAAGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060925 AATGTGAAAGTGTATATATGTG--AAGGCCT-ATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060969 AATGTGAA
1 AATGTGAA
58060977 GGTGCCGAGT
Statistics
Matches: 460, Mismatches: 12, Indels: 10
0.95 0.02 0.02
Matches are distributed among these distances:
43 2 0.00
44 27 0.06
46 70 0.15
47 316 0.69
49 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58060775 original size:190 final size:189
Alignment explanation
Indices: 58060455--58060976 Score: 934
Period size: 190 Copynumber: 2.8 Consensus size: 189
58060445 TATTTGAATA
58060455 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTG--TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATATAT
*
58060518 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
58060583 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58060642 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATA
58060707 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
58060772 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
130 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58060832 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATA
58060897 -A-GTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTG--AAGGCCT-AT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
58060956 GGCCGATGTGATGAATGTGAA
130 GGCCGATGTGATGAATGTGAA
58060977 GGTGCCGAGT
Statistics
Matches: 327, Mismatches: 5, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
184 23 0.07
185 7 0.02
187 72 0.22
188 35 0.11
189 1 0.00
190 189 0.58
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (189 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58065035 original size:18 final size:18
Alignment explanation
Indices: 58065009--58065063 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
58064999 TCTTTTATCG
58065009 CTCTCTTTTTTTGAATTTT
1 CTCT-TTTTTTTGAATTTT
*
58065028 CTCTTTTTTTT-CATTTT
1 CTCTTTTTTTTGAATTTT
*
58065045 -TCTTTTCTTTTGTATTTT
1 CTCTTTT-TTTTGAATTTT
58065063 C
1 C
58065064 GCTCTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 6 0.19
17 9 0.29
18 12 0.39
19 4 0.13
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.73
Consensus pattern (18 bp):
CTCTTTTTTTTGAATTTT
Found at i:58065055 original size:17 final size:17
Alignment explanation
Indices: 58065010--58065055 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
58065000 CTTTTATCGC
**
58065010 TCTCTTTTTTTGAATTT
1 TCTCTTTTTTTTCATTT
58065027 TCTCTTTTTTTTCATTT
1 TCTCTTTTTTTTCATTT
58065044 T-TCTTTTCTTTT
1 TCTCTTTT-TTTT
58065056 GTATTTTCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (17 bp):
TCTCTTTTTTTTCATTT
Found at i:58068422 original size:20 final size:20
Alignment explanation
Indices: 58068399--58068445 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
58068389 AGGTTAAGAT
*
58068399 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
58068419 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
58068439 TGAGCTG
1 TGAGCTG
58068446 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Done.