Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 189 of 240
Found at i:57918757 original size:21 final size:21
Alignment explanation
Indices: 57918727--57918769 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57918717 AAATTTTTAA
57918727 ATCAAAAAATTTAGAGG-CTT
1 ATCAAAAAATTTAGAGGACTT
*
57918747 ATCAGAAAAATTTGGAGGACTT
1 ATCA-AAAAATTTAGAGGACTT
57918769 A
1 A
57918770 ACTTTAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (21 bp):
ATCAAAAAATTTAGAGGACTT
Found at i:57929937 original size:15 final size:16
Alignment explanation
Indices: 57929893--57929939 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
57929883 TAACACTATG
57929893 ATAAA-TAAAAAATAT
1 ATAAATTAAAAAATAT
**
57929908 ATAAATTTATTAAATAT
1 ATAAA-TTAAAAAATAT
57929925 -TAAATTAAAAAATAT
1 ATAAATTAAAAAATAT
57929940 GCATAGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 14 0.54
16 4 0.15
17 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATTAAAAAATAT
Found at i:57932378 original size:18 final size:18
Alignment explanation
Indices: 57932351--57932443 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
57932341 TACGACCGTT
57932351 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
57932369 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
57932387 TATGGTACTATTCACATA
1 TACGGTACTATTCACGTA
* *
57932405 TACAGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
57932423 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
57932441 TAC
1 TAC
57932444 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:57945863 original size:1 final size:1
Alignment explanation
Indices: 57945857--57945889 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
57945847 TCTGTACTAT
57945857 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
57945890 TCTGGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:57946051 original size:17 final size:18
Alignment explanation
Indices: 57946023--57946068 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 18
57946013 TCCAGTTCAT
*
57946023 TGTGCTCCAAGTTTGCCA
1 TGTGCTCCAAGTTTGCAA
57946041 TGTGC-CCAAG--TGCAA
1 TGTGCTCCAAGTTTGCAA
57946056 TGTGCTCCAAGTT
1 TGTGCTCCAAGTT
57946069 CGCATTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 9 0.38
16 5 0.21
17 5 0.21
18 5 0.21
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (18 bp):
TGTGCTCCAAGTTTGCAA
Found at i:57953725 original size:21 final size:20
Alignment explanation
Indices: 57953682--57953726 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
57953672 GAAAGGACAA
*
57953682 TAAAAGAAAAAAAAGAAAGT
1 TAAAAGAAAAAAAAGAAAAT
57953702 TAAAAGAACATAAAAA-AAAAT
1 TAAAAGAA-A-AAAAAGAAAAT
57953723 TAAA
1 TAAA
57953727 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (20 bp):
TAAAAGAAAAAAAAGAAAAT
Found at i:57966197 original size:16 final size:17
Alignment explanation
Indices: 57966160--57966201 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
57966150 ACAATATTCG
*
57966160 AATTTAATTTTCAATGT
1 AATTTAATTTCCAATGT
57966177 AATTTAATTTCCAAT-T
1 AATTTAATTTCCAATGT
*
57966193 GATTTAATT
1 AATTTAATT
57966202 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (17 bp):
AATTTAATTTCCAATGT
Found at i:57970075 original size:8 final size:8
Alignment explanation
Indices: 57970039--57970076 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
57970029 GCAATGACAG
57970039 GGGGAATTT
1 GGGG-ATTT
*
57970048 GGGAATTT
1 GGGGATTT
57970056 GGGGATTT
1 GGGGATTT
57970064 GGGGATTT
1 GGGGATTT
57970072 GGGGA
1 GGGGA
57970077 AATGAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 24 0.89
9 3 0.11
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (8 bp):
GGGGATTT
Found at i:57970652 original size:111 final size:112
Alignment explanation
Indices: 57970465--57970682 Score: 289
Period size: 111 Copynumber: 2.0 Consensus size: 112
57970455 CATTTTTATA
* * * * ** **
57970465 AAAACGCCACTACCACATAACCTTTTGCGGCGTTTTGTAAAAATTCCACTAATAATGTAGATAAA
1 AAAACGCCACTAACACATAACATATTGCGGCGTTTTGGAAAAACACCACTAATAACATAGATAAA
* *
57970530 ACGACAACGTTT-ACAAAAGACTAATAACATAATTGCGGCGTTACCTG
66 ACGACAACGTTTAAC-AAAGACAAAAAACATAATTGCGGCGTTACCTG
*
57970577 AAAACGCCACTAACACATATCATATTGCGGCG-TTTGGAAAAACACCACTGAA-AACATAGATAA
1 AAAACGCCACTAACACATAACATATTGCGGCGTTTTGGAAAAACACCACT-AATAACATAGATAA
*
57970640 AATGACAACGTTTAACAAAGACAAAAAACATAATTGCGGCGTT
65 AACGACAACGTTTAACAAAGACAAAAAACATAATTGCGGCGTT
57970683 TTCGTAGAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
111 60 0.65
112 32 0.35
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (112 bp):
AAAACGCCACTAACACATAACATATTGCGGCGTTTTGGAAAAACACCACTAATAACATAGATAAA
ACGACAACGTTTAACAAAGACAAAAAACATAATTGCGGCGTTACCTG
Found at i:57971167 original size:22 final size:22
Alignment explanation
Indices: 57971142--57971187 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
57971132 CTAAAACCGT
57971142 AAATCATAAAT-TATAAACCCTA
1 AAATCATAAATCT-TAAACCCTA
57971164 AAATCATAAATCTTAAACCCTA
1 AAATCATAAATCTTAAACCCTA
57971186 AA
1 AA
57971188 CCCTAAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATCATAAATCTTAAACCCTA
Found at i:57971173 original size:29 final size:29
Alignment explanation
Indices: 57971132--57971194 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
57971122 TAAATTAACT
* **
57971132 CTAAAACCGTAAATCATAAATTATAAACC
1 CTAAAACCATAAATCATAAACCATAAACC
* * *
57971161 CTAAAATCATAAATCTTAAACCCTAAACC
1 CTAAAACCATAAATCATAAACCATAAACC
57971190 CTAAA
1 CTAAA
57971195 CCCTAAACCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.24
Consensus pattern (29 bp):
CTAAAACCATAAATCATAAACCATAAACC
Found at i:57971187 original size:7 final size:7
Alignment explanation
Indices: 57971177--57971301 Score: 76
Period size: 7 Copynumber: 16.9 Consensus size: 7
57971167 TCATAAATCT
57971177 TAAACCC
1 TAAACCC
57971184 TAAACCC
1 TAAACCC
57971191 TAAACCC
1 TAAACCC
57971198 TAAACCAC
1 TAAACC-C
*
57971206 AAAACCCC
1 TAAA-CCC
57971214 ATAAACCC
1 -TAAACCC
57971222 ATAAACCCC
1 -TAAA-CCC
*
57971231 T-AACCTA
1 TAAACC-C
57971238 TAAACCC
1 TAAACCC
57971245 TTAAACCC
1 -TAAACCC
*
57971253 AAAACCC
1 TAAACCC
*
57971260 TAAGCCAC
1 TAAACC-C
*
57971268 T-ACCCC
1 TAAACCC
*
57971274 TAGACCC
1 TAAACCC
*
57971281 TAAGCCC
1 TAAACCC
57971288 -ATAACCC
1 TA-AACCC
57971295 TTAAACC
1 -TAAACC
57971302 ATATGCTCTT
Statistics
Matches: 93, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
6 5 0.05
7 48 0.52
8 31 0.33
9 9 0.10
ACGTcount: A:0.42, C:0.42, G:0.02, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:57971212 original size:15 final size:14
Alignment explanation
Indices: 57971178--57971262 Score: 82
Period size: 15 Copynumber: 5.6 Consensus size: 14
57971168 CATAAATCTT
*
57971178 AAACCCTAAACCCT
1 AAACCCTAAACCCA
57971192 AAACCCTAAACCACA
1 AAACCCTAAACC-CA
57971207 AAACCCCATAAACCCA
1 AAA-CCC-TAAACCCA
*
57971223 TAAACCCCT-AACCTA
1 -AAA-CCCTAAACCCA
57971238 TAAACCCTTAAACCCA
1 -AAACCC-TAAACCCA
57971254 AAACCCTAA
1 AAACCCTAA
57971263 GCCACTACCC
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
14 18 0.29
15 20 0.32
16 11 0.18
17 13 0.21
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCCTAAACCCA
Found at i:57971222 original size:8 final size:8
Alignment explanation
Indices: 57971177--57971259 Score: 79
Period size: 7 Copynumber: 10.9 Consensus size: 8
57971167 TCATAAATCT
57971177 TAAACCC-
1 TAAACCCA
57971184 TAAACCC-
1 TAAACCCA
57971191 TAAACCC-
1 TAAACCCA
57971198 TAAACCACA
1 TAAACC-CA
57971207 -AAACCCCA
1 TAAA-CCCA
57971215 TAAACCCA
1 TAAACCCA
*
57971223 TAAACCCC
1 TAAACCCA
*
57971231 T-AACCTA
1 TAAACCCA
*
57971238 TAAACCCT
1 TAAACCCA
57971246 TAAACCCA
1 TAAACCCA
57971254 -AAACCC
1 TAAACCC
57971260 TAAGCCACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
7 31 0.48
8 29 0.45
9 5 0.08
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAACCCA
Found at i:57971441 original size:21 final size:22
Alignment explanation
Indices: 57971411--57971465 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
57971401 ATAAATCCTA
*
57971411 AAACCGTAAACTA-TAAA-AATT
1 AAACCTTAAA-TACTAAACAATT
*
57971432 AAACCTTAAATACTAAACACTT
1 AAACCTTAAATACTAAACAATT
*
57971454 AAACCTAAAATA
1 AAACCTTAAATA
57971466 AATTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 14 0.48
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACCTTAAATACTAAACAATT
Found at i:57984328 original size:26 final size:25
Alignment explanation
Indices: 57984292--57984342 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
57984282 NNNNNNNNNN
*
57984292 AAGGGGTTGCTATGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGA-TCCCC
57984318 AAGGGGTTGCTAAGTGCTGATCCCC
1 AAGGGGTTGCTAAGTGCTGATCCCC
57984343 GATTAAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (25 bp):
AAGGGGTTGCTAAGTGCTGATCCCC
Found at i:57987167 original size:18 final size:18
Alignment explanation
Indices: 57987144--57987178 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57987134 AAGGTTAAGT
57987144 TAATTAAGT-TTAATTAAA
1 TAATT-AGTATTAATTAAA
57987162 TAATTAGTATTAATTAA
1 TAATTAGTATTAATTAA
57987179 GTTACAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TAATTAGTATTAATTAAA
Found at i:57989049 original size:14 final size:12
Alignment explanation
Indices: 57989029--57989086 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
57989019 AATATATTTG
57989029 TAATTTGAAAGCT
1 TAATTTGAAA-CT
57989042 TAAGTTTGGAAACT
1 TAA-TTT-GAAACT
57989056 TAATTTGAAA--
1 TAATTTGAAACT
57989066 -AATTTGAAACT
1 TAATTTGAAACT
57989077 TAATTTGAAA
1 TAATTTGAAA
57989087 TTTGGAAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
9 9 0.22
12 13 0.32
13 6 0.15
14 8 0.20
15 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (12 bp):
TAATTTGAAACT
Found at i:57989096 original size:20 final size:21
Alignment explanation
Indices: 57989046--57989099 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
57989036 AAAGCTTAAG
57989046 TTTGGAAACTTAATTTGAAAAA
1 TTTGGAAACTTAATTTG-AAAA
57989068 TTT-GAAACTTAATTTG-AAA
1 TTTGGAAACTTAATTTGAAAA
57989087 TTTGGAAACTTAA
1 TTTGGAAACTTAA
57989100 AATTAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.19
20 9 0.29
21 13 0.42
22 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (21 bp):
TTTGGAAACTTAATTTGAAAA
Found at i:57989107 original size:20 final size:21
Alignment explanation
Indices: 57989046--57989122 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
57989036 AAAGCTTAAG
*
57989046 TTTGGAAACTT-AATTTGAAAAA
1 TTTGGAAACTTAAAATTG--AAA
*
57989068 TTT-GAAACTT-AATTTGAAA
1 TTTGGAAACTTAAAATTGAAA
57989087 TTTGGAAACTTAAAATT-AAA
1 TTTGGAAACTTAAAATTGAAA
57989107 TTTTGTG-AACTTAAAA
1 -TTTG-GAAACTTAAAA
57989123 GTTTTGAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
19 6 0.12
20 10 0.20
21 30 0.60
22 4 0.08
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTGGAAACTTAAAATTGAAA
Found at i:57989383 original size:34 final size:35
Alignment explanation
Indices: 57989340--57989436 Score: 151
Period size: 35 Copynumber: 2.8 Consensus size: 35
57989330 TTCACTTGTC
* *
57989340 TTTTCTTGCA-GGAATATTTCTTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCTTGTTCACGCATTA
* *
57989374 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCTTGTTCACGCATTA
57989409 TTTTGTTGCAGGGAATCTTTCTTGTTCA
1 TTTTGTTGCAGGGAATCTTTCTTGTTCA
57989437 TCTTGAATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
34 9 0.16
35 47 0.84
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.45
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTTTCTTGTTCACGCATTA
Found at i:57992486 original size:19 final size:19
Alignment explanation
Indices: 57992462--57992503 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
57992452 AGGGTGCAAC
57992462 AGTTCAATCTTCGAAATTA
1 AGTTCAATCTTCGAAATTA
57992481 AGTTCAATCTTCGAAATTA
1 AGTTCAATCTTCGAAATTA
57992500 AGTT
1 AGTT
57992504 ATCTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
AGTTCAATCTTCGAAATTA
Found at i:57992515 original size:17 final size:18
Alignment explanation
Indices: 57992462--57992508 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
57992452 AGGGTGCAAC
57992462 AGTTCAATCTTCGAAATTA
1 AGTT-AATCTTCGAAATTA
57992481 AGTTCAATCTTCGAAATTA
1 AGTT-AATCTTCGAAATTA
57992500 AGTT-ATCTT
1 AGTTAATCTT
57992509 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 5 0.18
19 23 0.82
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (18 bp):
AGTTAATCTTCGAAATTA
Found at i:57995735 original size:45 final size:44
Alignment explanation
Indices: 57995655--57995813 Score: 266
Period size: 45 Copynumber: 3.5 Consensus size: 44
57995645 TGAGTACTTT
57995655 TGATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
57995700 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
1 TGATC-AGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
57995745 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATC-AGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
*
57995791 TGATCAGGGACAAA-TGATAAGTG
1 TGATCAGTGACAAAGTGATAAGTG
57995814 ATCATACGTA
Statistics
Matches: 111, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
44 9 0.08
45 57 0.51
46 45 0.41
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (44 bp):
TGATCAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:57996330 original size:1 final size:1
Alignment explanation
Indices: 57996326--57996356 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
57996316 ATTTTAGATA
*
57996326 TTTTTTTTTTTTTTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57996357 ATTATTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:57996357 original size:8 final size:8
Alignment explanation
Indices: 57996324--57996359 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
57996314 TAATTTTAGA
57996324 TATTTTTT
1 TATTTTTT
*
57996332 TTTTTTTT
1 TATTTTTT
*
57996340 TTTTTTTT
1 TATTTTTT
57996348 TATTTTTT
1 TATTTTTT
57996356 TATT
1 TATT
57996360 ATTGTTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (8 bp):
TATTTTTT
Found at i:58002870 original size:3 final size:3
Alignment explanation
Indices: 58002862--58002910 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
58002852 TCATTTAACC
58002862 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
58002907 TTA T
1 TTA T
58002911 AAACAACAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:58004264 original size:14 final size:15
Alignment explanation
Indices: 58004245--58004274 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58004235 AAAACCACCA
58004245 TTGAAGTAGA-TATC
1 TTGAAGTAGATTATC
58004259 TTGAAGTAGATTATC
1 TTGAAGTAGATTATC
58004274 T
1 T
58004275 CAATTGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
TTGAAGTAGATTATC
Found at i:58006956 original size:46 final size:46
Alignment explanation
Indices: 58006885--58007035 Score: 243
Period size: 46 Copynumber: 3.3 Consensus size: 46
58006875 TATGATCACG
*
58006885 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTACCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
* *
58006929 TATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAGACTACCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
* *
58006975 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
58007021 TATCACTTTGTCACT
1 TATCACTTTGTCACT
58007036 AATCAGAAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
44 6 0.06
45 5 0.05
46 87 0.89
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
Found at i:58012875 original size:22 final size:21
Alignment explanation
Indices: 58012834--58012875 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
58012824 TTCCCAAATA
* *
58012834 TTATTTATTTAATCAACTAAT
1 TTATTTATTAAACCAACTAAT
58012855 TTATTTAATTAAACCAACTAA
1 TTATTT-ATTAAACCAACTAA
58012876 ATTAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATTTATTAAACCAACTAAT
Found at i:58019201 original size:26 final size:26
Alignment explanation
Indices: 58019170--58019220 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
58019160 GATAATTAAG
*
58019170 TGGTATTAAAACTATTTCTATATTAT
1 TGGTATTAAAACTACTTCTATATTAT
* * *
58019196 TGGTATTGAAATTACTTCTTTATTA
1 TGGTATTAAAACTACTTCTATATTA
58019221 CCGAATCTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (26 bp):
TGGTATTAAAACTACTTCTATATTAT
Found at i:58022064 original size:33 final size:33
Alignment explanation
Indices: 58022022--58022088 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
58022012 GAAAGTAAGA
58022022 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
1 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
58022055 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
1 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
58022088 G
1 G
58022089 GCAGAGATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.24, G:0.28, T:0.36
Consensus pattern (33 bp):
GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
Found at i:58023549 original size:29 final size:29
Alignment explanation
Indices: 58023509--58023567 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
58023499 GAATAAAAAC
*
58023509 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
58023538 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
58023567 T
1 T
58023568 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:58026378 original size:44 final size:38
Alignment explanation
Indices: 58026293--58026368 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
58026283 TGTAATGTGT
58026293 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
1 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
58026331 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
1 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
58026369 GTTGACACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (38 bp):
ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
Found at i:58031099 original size:24 final size:23
Alignment explanation
Indices: 58031020--58031096 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 23
58031010 ATTATTATTA
*
58031020 CTATTATAAC-TATTTATATATAT
1 CTATTATATCTTA-TTATATATAT
58031043 CT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
*
58031065 AT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
58031087 CTA-TATATCT
1 CTATTATATCT
58031097 CTTTATAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 45 0.92
23 4 0.08
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
CTATTATATCTTATTATATATAT
Found at i:58031103 original size:10 final size:10
Alignment explanation
Indices: 58031030--58031094 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
58031020 CTATTATAAC
58031030 TATTTATATA
1 TATTTATATA
*
58031040 TATCTTTATATCT
1 TA--TTTATAT-A
58031053 TATTATATATA
1 TATT-TATATA
*
58031064 TATTTATATC
1 TATTTATATA
58031074 T-TATTATATA
1 TAT-TTATATA
*
58031084 TATCTATATA
1 TATTTATATA
58031094 T
1 T
58031095 CTCTTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 1 0.02
10 22 0.50
11 7 0.16
12 12 0.27
13 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:58031103 original size:22 final size:22
Alignment explanation
Indices: 58031033--58031096 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
58031023 TTATAACTAT
58031033 TTATATATATCTTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
58031055 TTATATATATATTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
58031077 TTATATATATCTATATATCT
1 TTATATATATCTTTATATCT
58031097 CTTTATAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATATATCTTTATATCTTA
Found at i:58031294 original size:30 final size:30
Alignment explanation
Indices: 58031237--58031292 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
58031227 TTATATATAT
*
58031237 ATATACATACTTACATTGTTTTATTTTACA
1 ATATACATACTTACATTCTTTTATTTTACA
*
58031267 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
58031293 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACA
Found at i:58033283 original size:19 final size:19
Alignment explanation
Indices: 58033259--58033304 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
58033249 TCTATTTCTT
58033259 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
58033278 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
58033297 TATGCATT
1 TTTGCATT
58033305 AGATTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:58036178 original size:14 final size:14
Alignment explanation
Indices: 58036161--58036240 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 14
58036151 AAAAATGTTT
58036161 AAAAAAAGAGAGAG
1 AAAAAAAGAGAGAG
58036175 AAAAAAA-AGA-AG
1 AAAAAAAGAGAGAG
* *
58036187 -GAAAAAGAAAGA-
1 AAAAAAAGAGAGAG
58036199 AAAATAAAGA-AGAAG
1 AAAA-AAAGAGAG-AG
* * *
58036214 AAGAAAAGAAAAAG
1 AAAAAAAGAGAGAG
58036228 AAAAAAA-AGAGAG
1 AAAAAAAGAGAGAG
58036241 GCCAATGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 12 0.24
14 26 0.51
15 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (14 bp):
AAAAAAAGAGAGAG
Found at i:58036181 original size:15 final size:13
Alignment explanation
Indices: 58036161--58036237 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 13
58036151 AAAAATGTTT
58036161 AAAAAAAGAGAGAGA
1 AAAAAAAGA-AG-GA
58036176 AAAAAAAGAAGGA
1 AAAAAAAGAAGGA
58036189 AAAAGAAAGAA--A
1 AAAA-AAAGAAGGA
58036201 AATAAAGAAGAA-GA
1 AA-AAA-AAGAAGGA
*
58036215 AGAAAAGAA-AAAGA
1 A-AAAA-AAGAAGGA
58036229 AAAAAAAGA
1 AAAAAAAGA
58036238 GAGGCCAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.11
13 20 0.36
14 19 0.35
15 10 0.18
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (13 bp):
AAAAAAAGAAGGA
Found at i:58036191 original size:24 final size:24
Alignment explanation
Indices: 58036164--58036226 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
58036154 AATGTTTAAA
*
58036164 AAAAGAGAGAGAAAAA-AAAGAAGG
1 AAAAGAGAAAGAAAAATAAAGAA-G
58036188 AAAA-AGAAAGAAAAATAAAGAAG
1 AAAAGAGAAAGAAAAATAAAGAAG
58036211 AAGAAGA-AAAGAAAAA
1 AA-AAGAGAAAGAAAAA
58036227 GAAAAAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 13 0.37
24 21 0.60
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AAAAGAGAAAGAAAAATAAAGAAG
Found at i:58036193 original size:10 final size:10
Alignment explanation
Indices: 58036173--58036237 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
58036163 AAAAAGAGAG
58036173 AGAAA-AAAA
1 AGAAAGAAAA
*
58036182 AGAAGGAAAA
1 AGAAAGAAAA
58036192 AGAAAGAAAA
1 AGAAAGAAAA
* *
58036202 ATAAAGAAGA
1 AGAAAGAAAA
58036212 AG-AAGAAAA
1 AGAAAGAAAA
*
58036221 GAAAAAGAAAA
1 -AGAAAGAAAA
58036232 A-AAAGA
1 AGAAAGA
58036238 GAGGCCAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 15 0.33
10 24 0.52
11 7 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:58036228 original size:30 final size:29
Alignment explanation
Indices: 58036181--58036237 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
58036171 AGAGAAAAAA
*
58036181 AAGAAGGAAAAAGAAAGAAAAATAAAGAAG
1 AAGAAGGAAAAAAAAAGAAAAA-AAAGAAG
58036211 AAGAA-GAAAAGAAAAAGAAAAAAAAGA
1 AAGAAGGAAAA-AAAAAGAAAAAAAAGA
58036238 GAGGCCAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (29 bp):
AAGAAGGAAAAAAAAAGAAAAAAAAGAAG
Found at i:58036237 original size:23 final size:23
Alignment explanation
Indices: 58036161--58036237 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
58036151 AAAAATGTTT
58036161 AAAAAAAGAGAGAGAAA-AAAAAG-
1 AAAAAAAGA-AGA-AAAGAAAAAGA
** *
58036184 AAGGAAA-AAG-AAAGAAAAATA
1 AAAAAAAGAAGAAAAGAAAAAGA
*
58036205 AAGAAGAAGAAGAAAAGAAAAAGA
1 AA-AAAAAGAAGAAAAGAAAAAGA
58036229 AAAAAAAGA
1 AAAAAAAGA
58036238 GAGGCCAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.07
20 5 0.12
21 4 0.10
22 3 0.07
23 14 0.34
24 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAGAAAAAGA
Found at i:58037633 original size:45 final size:45
Alignment explanation
Indices: 58037573--58037727 Score: 224
Period size: 45 Copynumber: 3.5 Consensus size: 45
58037563 AGATTCCAGC
* *
58037573 CTTGCCTCCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
* * * *
58037618 CATGCCTTCCTGTACTGACAGCGAAGCGGA-TCGAAGATACCA-AT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACT-GAAGATAGCAGAT
*
58037662 CTTGCCTTCTTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
58037707 CTTGCCTTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAG
58037728 CGAAACAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 38 0.40
45 57 0.60
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
Found at i:58037668 original size:89 final size:89
Alignment explanation
Indices: 58037559--58037731 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 89
58037549 GTGGAGTAGG
* * *
58037559 TCGAAGATTCCAGCCTTGCCTCCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCATGCC
1 TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
58037624 TTCCTGTACTGACAGCGAAGCGGA
66 TTCCTGTACTGACAGCGAAGCGGA
* * * *
58037648 TCGAAGATACCAATCTTGCCTTCTTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCTTGCC
1 TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
58037713 TTCCTGTACTGACAGCGAA
66 TTCCTGTACTGACAGCGAA
58037732 ACAAATCGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (89 bp):
TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
TTCCTGTACTGACAGCGAAGCGGA
Found at i:58038054 original size:50 final size:50
Alignment explanation
Indices: 58037998--58038459 Score: 300
Period size: 50 Copynumber: 9.2 Consensus size: 50
58037988 GTGGTGGAAC
** * *
58037998 AAGATTGAAGCCGCAACGGCGAATCTTGCTTCCCCGACATTGCAGTCAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * **** *
58038048 AAGATTGAAG-TCGCAACGGCTAATCTTACCTTCCCTGGTGGTGCAGTGGAA
1 AAGATTGAAGCT-ACAACGGCGAATCTTA-CTTCCCCGACATTGCAGTGAAA
* * ** * **
58038099 CAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAATTTAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * ** *
58038149 AAGATTGAAGCCACAACGGTGAATCTTACTT-TCCTAGCGGTGCAGTGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGTGAAA
* * * * * *
58038199 CAGATTGAAGCTACAACGACGAGTCTTGCTTCCCCGACATTGCAATTAAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTGAAA
* * * ** * * * * *
58038250 AAGATTAAAGCCACAACGGTGAATCTTACTTTTCTGGCAATGTAG-CAGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGA-AA
* * * * *
58038300 CAGATTGAAGCTACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * * * * * *
58038350 TAGATTGAAGCTACAACAGCAAATCTTACTTTCCTGGCAGTGTAGTGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * *
58038400 TAGATTGAAGCTACGACGGTGAATCTTACTTCCCCGATATTGCAGTTAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
*
58038450 CAGATTGAAG
1 AAGATTGAAG
58038460 AAGCCAATCC
Statistics
Matches: 301, Mismatches: 103, Indels: 16
0.72 0.25 0.04
Matches are distributed among these distances:
49 4 0.01
50 222 0.74
51 74 0.25
52 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
Found at i:58038234 original size:100 final size:100
Alignment explanation
Indices: 58037966--58038459 Score: 544
Period size: 100 Copynumber: 4.9 Consensus size: 100
58037956 ATCAACGACA
* * * **
58037966 GAATCTTACTTTTCTAGGCGATGTGGTGGAACAAGATTGAAGCCGCAACGGCGAATCTTGCTTCC
1 GAATCTTACTTTCCT-GGCGGTGTAGTGGAAC-AGATTGAAGCTACAACGGCGAATCTTGCTTCC
* ** * *
58038031 CCGACATTGCAGTCAAAAAGATTGAAGTCGCAACGGCT
64 CCGACATTGCAATTTAAAAGATTGAAGCCACAACGG-T
* * * * *
58038069 -AATCTTACCTTCCCTGGTGGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCC
1 GAATCTTA-CTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCC
58038133 CGACATTGCAATTTAAAAGATTGAAGCCACAACGGT
65 CGACATTGCAATTTAAAAGATTGAAGCCACAACGGT
* * * *
58038169 GAATCTTACTTTCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAGTCTTGCTTCCCC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58038234 GACATTGCAATTAAAAAAGATTAAAGCCACAACGGT
66 GACATTGCAATT-TAAAAGATTGAAGCCACAACGGT
* ** ** * *
58038270 GAATCTTACTTTTCTGGCAATGTAGCAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCTC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* * * *
58038335 GACATTGC-AGTTAAATAGATTGAAGCTACAACAGC
66 GACATTGCAATTTAAA-AGATTGAAGCCACAACGGT
* * * * * *
58038370 AAATCTTACTTTCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGTGAATCTTACTTCCCC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58038435 GATATTGC-AGTTAAACAGATTGAAG
66 GACATTGCAATTTAAA-AGATTGAAG
58038460 AAGCCAATCC
Statistics
Matches: 335, Mismatches: 52, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
99 3 0.01
100 159 0.47
101 149 0.44
102 19 0.06
103 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
GACATTGCAATTTAAAAGATTGAAGCCACAACGGT
Found at i:58038340 original size:201 final size:202
Alignment explanation
Indices: 58037966--58038449 Score: 562
Period size: 201 Copynumber: 2.4 Consensus size: 202
58037956 ATCAACGACA
* * * **
58037966 GAATCTTACTTTTCTAGGCGATGTGGTGGAACAAGATTGAAGCCGCAACGGCGAATCTTGCTTCC
1 GAATCTTACTTTCCTA-GCGGTGTAGTGGAAC-AGATTGAAGCTACAACGGCGAATCTTGCTTCC
* * * * * *** *
58038031 CCGACATTGC-AGTCAAAAAGATTGAAGTCGCAACGGCTAATCTTACCTTCCCTGGTGGTGCAGT
64 CCGACATTGCAATTAAAAAAGATTAAAGCCACAACGGCTAATCTTACCTTCCCTGGCAATGCAGC
* * *
58038095 GGAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAATTTAAA-AGATTGAAG
129 AGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGC-AGTTAAATAGATTGAAG
* *
58038159 CCACAACGGT
193 CCACAACAGC
* * *
58038169 GAATCTTACTTTCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAGTCTTGCTTCCCC
1 GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
** *
58038234 GACATTGCAATTAAAAAAGATTAAAGCCACAACGG-TGAATCTTA-CTTTTCTGGCAATGTAGCA
66 GACATTGCAATTAAAAAAGATTAAAGCCACAACGGCT-AATCTTACCTTCCCTGGCAATGCAGCA
* * * *
58038297 GAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAATAGATTGAAGCT
130 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCC
58038362 ACAACAGC
195 ACAACAGC
* * * * * * *
58038370 AAATCTTACTTTCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGTGAATCTTACTTCCCC
1 GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58038435 GATATTGCAGTTAAA
66 GACATTGCAATTAAA
58038450 CAGATTGAAG
Statistics
Matches: 237, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
200 6 0.03
201 176 0.74
202 40 0.17
203 15 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (202 bp):
GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
GACATTGCAATTAAAAAAGATTAAAGCCACAACGGCTAATCTTACCTTCCCTGGCAATGCAGCAG
AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCCA
CAACAGC
Found at i:58038518 original size:44 final size:43
Alignment explanation
Indices: 58038464--58038671 Score: 172
Period size: 44 Copynumber: 4.8 Consensus size: 43
58038454 TTGAAGAAGC
* * **
58038464 CAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAACAA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* * *** *
58038507 CAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATC--
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* *
58038549 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA-AC
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AACAA
* * * *
58038593 CAATCTTATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAATGAT
1 CAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAA-CAA
** *
58038637 GGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
58038672 CACATCAGAC
Statistics
Matches: 132, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
41 30 0.23
42 4 0.03
43 5 0.04
44 92 0.70
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
Found at i:58038599 original size:85 final size:85
Alignment explanation
Indices: 58038463--58038618 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
58038453 ATTGAAGAAG
* **
58038463 CCAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAACAACAGATCTTATC-TCTCTAAAG
1 CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTTC-CTAAAG
58038527 TTGCAGTAGAGCAGATCGCAT
65 TTGCAGTAGAGCAGATCGCAT
* * * *
58038548 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA-ACCA-ATCTTATCTTCCTGAA
1 CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AA-AACAACAGATCTTATCTTCCTAAA
58038611 GTTGCAGT
64 GTTGCAGT
58038619 GAAGCGGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
85 52 0.85
86 7 0.11
87 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (85 bp):
CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTTCCTAAAGT
TGCAGTAGAGCAGATCGCAT
Found at i:58038716 original size:129 final size:129
Alignment explanation
Indices: 58038440--58038717 Score: 305
Period size: 129 Copynumber: 2.2 Consensus size: 129
58038430 TCCCCGATAT
* * *
58038440 TGCAGTTAAA-CAGATTGAAGAAGCCAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAA
1 TGCAG-TAAACCAGATTGAAGAAACCAATCCTATCTCTCTAAAGTTGCAGTGAAGCGGATTAAAA
* * *
58038504 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGT
65 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTAAAGA
** * * *
58038569 TGCAGTGGAGCAGATTGAAGAAACCAATCTTATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAA
1 TGCAGTAAACCAGATTGAAGAAACCAATCCTATCTCT-CTAAAGTTGCAGTGAAGCGGATTAAAA
** ** * * * *
58038633 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACAT-CAGA-CTTTATTTTCTTAAA
65 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCA-ATC-TTATCTCCCTAAA
58038696 GA
128 GA
58038698 TGCAGTAAACCA-AGTTGAAG
1 TGCAGTAAACCAGA-TTGAAG
58038718 TTATAGATCT
Statistics
Matches: 123, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
128 7 0.06
129 116 0.94
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (129 bp):
TGCAGTAAACCAGATTGAAGAAACCAATCCTATCTCTCTAAAGTTGCAGTGAAGCGGATTAAAAC
AACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTAAAGA
Found at i:58039055 original size:44 final size:43
Alignment explanation
Indices: 58038873--58039208 Score: 215
Period size: 44 Copynumber: 7.8 Consensus size: 43
58038863 CAGAAGAAAT
* * * *
58038873 CAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAACCA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
58038916 CAGATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGA-TCACATCA
1 CA-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * ** ** *
58038959 -AGTCTTATCTCCCT-AAGCAGCAGTGGAGCAGACAGAAGAAAC-
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCA
* *
58039001 CAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
58039044 CGAATCTTATC-TCTTTGAAGTTGCAGTAGAGTAGATCT--AATC-
1 C-AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT-TAAAATCA
* ***
58039086 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAAAAGT
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAAATCA
* * * ** * *
58039130 CAATCCTATCTTCTTGAAGTTGCAGTGAAGTGGGTTAAAATGA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
58039173 TGAATCTTATC-TCTCTAAAGTTGCAGTAGAGCAGAT
1 -CAATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
58039209 CACATCAGAT
Statistics
Matches: 220, Mismatches: 54, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
40 16 0.07
41 36 0.16
42 9 0.04
43 39 0.18
44 119 0.54
45 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
Found at i:58039140 original size:85 final size:85
Alignment explanation
Indices: 58039000--58039155 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
58038990 ACAGAAGAAA
** * *
58039000 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGAATCTTATC-TCTTTGAAG
1 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATTAAAAACACGAATCCTATCTTC-TTGAAG
58039064 TTGCAGTAGAGTAGATCTAAT
65 TTGCAGTAGAGTAGATCTAAT
* **
58039085 CCAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAAAAGTC-AATCCTATCTTCTTGAAG
1 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATT-AAAAACACGAATCCTATCTTCTTGAAG
58039149 TTGCAGT
65 TTGCAGT
58039156 GAAGTGGGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 55 0.89
86 7 0.11
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (85 bp):
CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATTAAAAACACGAATCCTATCTTCTTGAAGT
TGCAGTAGAGTAGATCTAAT
Found at i:58039168 original size:129 final size:128
Alignment explanation
Indices: 58038791--58039215 Score: 552
Period size: 128 Copynumber: 3.3 Consensus size: 128
58038781 AGAGCCACAG
* * * * * *
58038791 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCTTAGGCAGTAGCG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGTG
* * *
58038856 GAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAACCAC-A
66 GAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
58038918 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGT
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGT
* *
58038983 GGAGCAGACAGAAGAAACCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
65 GGAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
* * * **
58039047 ATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCTA-ATCCAA-TCTTATCTTCCTGAAGTTGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACAT-CAAGTCTTATCTCCCT-AAGCAGCA
** * * * * * *
58039110 GTGGAGCAAATTGAA-AAAGTCAATCCTATCTTCTTGAAGTTGCAGTGAAGTGGGTTAAAATGAT
63 GTGGAGCAAACAGAAGAAA-TCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC
58039174 GA
127 GA
*
58039176 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCA
58039216 GATTTTATTA
Statistics
Matches: 264, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
128 168 0.64
129 96 0.36
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (128 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGTG
GAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
Found at i:58041038 original size:10 final size:10
Alignment explanation
Indices: 58040967--58041029 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
58040957 CTATTATAAC
58040967 TATTTATATA
1 TATTTATATA
* *
58040977 TCTTTATATCT
1 TATTTATAT-A
58040988 TATTATATATA
1 TATT-TATATA
*
58040999 TATTTATATC
1 TATTTATATA
58041009 T-TATTATATA
1 TAT-TTATATA
*
58041019 TATCTATATA
1 TATTTATATA
58041029 T
1 T
58041030 CTCTTTATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 1 0.02
10 28 0.67
11 8 0.19
12 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTATATA
Found at i:58041038 original size:22 final size:22
Alignment explanation
Indices: 58040967--58041031 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
58040957 CTATTATAAC
58040967 TATT-TATATATCTTTATATCT
1 TATTATATATATCTTTATATCT
*
58040988 TATTATATATATATTTATATCT
1 TATTATATATATCTTTATATCT
*
58041010 TATTATATATATCTATATATCT
1 TATTATATATATCTTTATATCT
58041032 CTTTATAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATATATATCTTTATATCT
Found at i:58041067 original size:24 final size:23
Alignment explanation
Indices: 58041040--58041093 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
58041030 CTCTTTATAA
*
58041040 ACATATTTTTTAGCTTAT-ATACAT
1 ACATATGTTTT-G-TTATAATACAT
*
58041064 ACATACGTTTTGTTATACATACAT
1 ACATATGTTTTGTTATA-ATACAT
58041088 ACATAT
1 ACATAT
58041094 ACATCTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 20 0.80
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (23 bp):
ACATATGTTTTGTTATAATACAT
Found at i:58043244 original size:22 final size:22
Alignment explanation
Indices: 58043178--58043245 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
58043168 TATGCACAAA
* * *
58043178 TAAAAGGAGAGCACTTAGGTGC
1 TAAACGGAGAGCACTAACGTGC
* * *
58043200 TATACAGAGAGCAC-AAGCATGC
1 TAAACGGAGAGCACTAA-CGTGC
*
58043222 TAAACGGAGAGCACTGACGTGC
1 TAAACGGAGAGCACTAACGTGC
58043244 TA
1 TA
58043246 GAAAATAGAC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (22 bp):
TAAACGGAGAGCACTAACGTGC
Found at i:58045259 original size:20 final size:21
Alignment explanation
Indices: 58045236--58045283 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
58045226 AATATATATT
*
58045236 TAAAATTTAAGAAAATAA-TA
1 TAAAATTTAAGAAAAGAATTA
*
58045256 T-AAATTT-ATAAAAGAATTA
1 TAAAATTTAAGAAAAGAATTA
58045275 TAAAATTTA
1 TAAAATTTA
58045284 TTTCATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAAATTTAAGAAAAGAATTA
Found at i:58045284 original size:20 final size:19
Alignment explanation
Indices: 58045236--58045284 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
58045226 AATATATATT
*
58045236 TAAAATTTA-AGAAAATAA
1 TAAAATTTATAAAAAATAA
*
58045254 TATAAATTTATAAAAGAATTA
1 TA-AAATTTATAAAA-AATAA
58045275 TAAAATTTAT
1 TAAAATTTAT
58045285 TTCATGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 7 0.27
20 11 0.42
21 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TAAAATTTATAAAAAATAA
Found at i:58047989 original size:24 final size:24
Alignment explanation
Indices: 58047962--58048013 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58047952 TTAGTAAGTC
*
58047962 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58047986 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58048010 AAAT
1 AAAT
58048014 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58049959 original size:24 final size:24
Alignment explanation
Indices: 58049932--58049982 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
58049922 TTAGTAAGTC
*
58049932 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58049956 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58049980 AAA
1 AAA
58049983 GCTTCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58050797 original size:20 final size:19
Alignment explanation
Indices: 58050761--58050800 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
58050751 CCTTGTGGTT
*
58050761 AACCTACACACCTGTGTGC
1 AACCTACACACCCGTGTGC
*
58050780 AACCTCACACGCCCGTGTGC
1 AACCT-ACACACCCGTGTGC
58050800 A
1 A
58050801 TGGACAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (19 bp):
AACCTACACACCCGTGTGC
Found at i:58051840 original size:30 final size:31
Alignment explanation
Indices: 58051786--58051845 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
58051776 AAACATTTTA
*
58051786 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
58051816 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
58051846 TTCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:58051964 original size:17 final size:16
Alignment explanation
Indices: 58051930--58051960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58051920 CCTATTTACT
*
58051930 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
58051946 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
58051961 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:58052522 original size:29 final size:27
Alignment explanation
Indices: 58052489--58052571 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 27
58052479 TTTTTTAAAA
58052489 TTTTAAAAATTAAAAAAAGTTATAAAATT
1 TTTTAAAAATT-AAAAAA-TTATAAAATT
* *
58052518 TTTTAAAAAATT-AAAATTTATTAAATT
1 TTTT-AAAAATTAAAAAATTATAAAATT
*
58052545 TATTTAAAAAGTATAAAAATTATAAAA
1 T-TTTAAAAATTA-AAAAATTATAAAA
58052572 AATACTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
27 16 0.36
28 7 0.16
29 15 0.33
30 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTTAAAAATTAAAAAATTATAAAATT
Found at i:58052574 original size:10 final size:9
Alignment explanation
Indices: 58052485--58052572 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
58052475 ATAGTTTTTT
*
58052485 AAAATTTTA
1 AAAATTATA
*
58052494 AAAATTAAA
1 AAAATTATA
58052503 AAAAGTTATA
1 AAAA-TTATA
* *
58052513 AAATTTTTTA
1 AAA-ATTATA
*
58052523 AAAAAT-TA
1 AAAATTATA
* *
58052531 AAATTTATT
1 AAAATTATA
*
58052540 AAATTTATTTA
1 AAAATTA--TA
*
58052551 AAAAGTATA
1 AAAATTATA
58052560 AAAATTATA
1 AAAATTATA
58052569 AAAA
1 AAAA
58052573 ATACTTCTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
8 6 0.10
9 34 0.57
10 14 0.23
11 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAATTATA
Found at i:58054760 original size:33 final size:34
Alignment explanation
Indices: 58054714--58054787 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
58054704 ATAATATCAT
*
58054714 ATAATAT-TCTATTAGGAATCAAATTGCTAAGAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
*
58054747 ATAATATCT-TATTATGAATCAAATTGCTAAAAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
58054780 ATAATATC
1 ATAATATC
58054788 CCATAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (34 bp):
ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
Found at i:58056647 original size:5 final size:5
Alignment explanation
Indices: 58056637--58056661 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58056627 AAATTGAGGA
58056637 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
58056662 ATAAACACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:58065747 original size:15 final size:15
Alignment explanation
Indices: 58065727--58065760 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58065717 TTTTACGTGT
58065727 AAAAGCCTTATCGAG
1 AAAAGCCTTATCGAG
58065742 AAAAGCCTTATCGAG
1 AAAAGCCTTATCGAG
58065757 AAAA
1 AAAA
58065761 ACCACGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAAGCCTTATCGAG
Found at i:58073535 original size:5 final size:5
Alignment explanation
Indices: 58073525--58073558 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
58073515 CTTTTAAAAA
58073525 TTATT TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT
58073559 CTTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:58074609 original size:19 final size:19
Alignment explanation
Indices: 58074581--58074621 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
58074571 ACAATTAATT
58074581 TTTAA-TTTTTTTAAAAAA
1 TTTAATTTTTTTTAAAAAA
*
58074599 TTTATATTTTTTTTACAAAA
1 TTTA-ATTTTTTTTAAAAAA
58074619 TTT
1 TTT
58074622 TTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 1 0.05
20 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTTTTTTTAAAAAA
Found at i:58074660 original size:20 final size:20
Alignment explanation
Indices: 58074579--58074661 Score: 55
Period size: 20 Copynumber: 4.1 Consensus size: 20
58074569 CAACAATTAA
*
58074579 TTTTTAATTTTTTTAAAAAAT
1 TTTTTAA-TTTTTTATAAAAT
*
58074600 TTATATT--TTTTTTACAAAAT
1 TT-T-TTAATTTTTTATAAAAT
* * * *
58074620 TTTTAAATAATTTTCT-TAAT
1 TTTTTAAT-TTTTTATAAAAT
58074640 TTTTTAATTTTTTATAAAAT
1 TTTTTAATTTTTTATAAAAT
58074660 TT
1 TT
58074662 AATTAATTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
18 1 0.02
19 6 0.13
20 30 0.65
21 6 0.13
22 1 0.02
23 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAATTTTTTATAAAAT
Found at i:58078485 original size:43 final size:43
Alignment explanation
Indices: 58078412--58078555 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
58078402 AACCACAGTA
* * **
58078412 CATCATCGAATAAACCGAATAAAGTGTACTGGCATGCATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
** * *
58078455 CATCATCGAATAAATTGAAGAATGTATACTGGTACACATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
* * ** * * * *
58078498 CATCA-CTGAACAAGCCGAATCAATTATATTAGCACGCATAGTG
1 CATCATC-GAATAAACCGAAGAAAGTATACTGGCACACATAGTG
*
58078541 CATCATCGGATAAAC
1 CATCATCGAATAAAC
58078556 AGAAACAATC
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
42 1 0.01
43 74 0.97
44 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
Found at i:58083702 original size:176 final size:176
Alignment explanation
Indices: 58083408--58083759 Score: 623
Period size: 176 Copynumber: 2.0 Consensus size: 176
58083398 ATCCATTTTT
* *
58083408 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTGTTCCATAACAGAACG
1 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
* *
58083473 ACCAGCAACCATTTGATAATTATTGAAATGGCTGACAAGAAATTTCTTACTTGTAACATCTTTGG
66 ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
*
58083538 TCATGTATCTTGTCTCCAATTTGTCCCATAACTCTTTAACGGTGAC
131 TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
* *
58083584 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGGAATTATTCCATAATAGAACA
1 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
*
58083649 ACCAGCAACTATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
66 ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
*
58083714 TCATGTATCTTGTCTCAAATTTGTCCTATAACTCTTTAACGGTGAC
131 TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
58083760 CTCGTTTTGG
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 167 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (176 bp):
ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
Found at i:58095895 original size:13 final size:13
Alignment explanation
Indices: 58095877--58095942 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
58095867 AGTTTAGCAT
*
58095877 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
58095890 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
58095903 TG-TTGTGGAAAAA
1 TGCTT-TTGAAAAG
* *
58095916 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
58095929 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
58095942 T
1 T
58095943 TTGGTTTAAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:58099608 original size:21 final size:22
Alignment explanation
Indices: 58099579--58099626 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
58099569 AAAGAGAATA
* *
58099579 AAAATAAAA-TTATAACTTTTT
1 AAAAGAAAATTTAAAACTTTTT
58099600 AAAAGAAAATTTTAAAACTTTTT
1 AAAAGAAAA-TTTAAAACTTTTT
58099623 AAAA
1 AAAA
58099627 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAGAAAATTTAAAACTTTTT
Found at i:58101248 original size:13 final size:13
Alignment explanation
Indices: 58101217--58101256 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
58101207 TAAAATCTAA
58101217 ATATTAA-ATAATT
1 ATATTAATA-AATT
58101230 -TATTAATAAATT
1 ATATTAATAAATT
58101242 ATATTAATAAATT
1 ATATTAATAAATT
58101255 AT
1 AT
58101257 TATATGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTAATAAATT
Found at i:58103910 original size:24 final size:24
Alignment explanation
Indices: 58103842--58103911 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 24
58103832 TATAACCATA
*
58103842 GCTGAAAGATGCTATCGCATCATG
1 GCTGAAAGATGCTATAGCATCATG
* * *
58103866 AC-GAAA-ATGAGTA-AG-ACCATG
1 GCTGAAAGATG-CTATAGCATCATG
*
58103887 GCTGAAAGATGCTATGGCATCATG
1 GCTGAAAGATGCTATAGCATCATG
58103911 G
1 G
58103912 TAAATGGGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
21 6 0.18
22 10 0.30
23 10 0.30
24 7 0.21
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.21
Consensus pattern (24 bp):
GCTGAAAGATGCTATAGCATCATG
Found at i:58104151 original size:57 final size:56
Alignment explanation
Indices: 58104058--58104170 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 56
58104048 AACACAAGGT
* * * *
58104058 TATATTGAGTAAGACCATAGTTGAAAGATGTTATGACATCAAAGGATAATTTGATGG
1 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAA-GATAATTCGATGG
*
58104115 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATAGATAATTCGATGG
1 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAAGATAATTCGATGG
58104171 GACATTAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 12 0.24
57 39 0.76
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (56 bp):
TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAAGATAATTCGATGG
Found at i:58105737 original size:448 final size:445
Alignment explanation
Indices: 58104929--58105825 Score: 1704
Period size: 448 Copynumber: 2.0 Consensus size: 445
58104919 TAGTCCGCCA
*
58104929 GGGTGGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
1 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
58104994 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
66 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
* *
58105059 GGCTATTAGTAGGGTAGATTATATGATTACCCTTTTAAAACATGGTGGAAAGAAGATTCCCCTCT
131 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
*
58105124 CTAAAAAAGAAGAAGGAATACGGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
196 CTAAAAAAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
58105189 AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
261 AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
58105254 CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACCCGC
326 CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACCCGC
58105319 ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
391 ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
58105374 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
1 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
58105439 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
66 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
58105504 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
131 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
*
58105569 CTAAAAAAGAAGAAGAAGGAATACATGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAA
196 CT--AAAA-AAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAA
* *
58105634 CCAAAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCTGAAAGCCAATCACTCAACGATT
258 CCAAAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATC
58105699 TATCCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACC
323 TATCCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACC
58105764 CGCACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
388 CGCACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
58105822 GGGT
1 GGGT
58105826 TAAATTTCAA
Statistics
Matches: 442, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
445 194 0.44
447 4 0.01
448 244 0.55
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (445 bp):
GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
CTAAAAAAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACCCGC
ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
Found at i:58110485 original size:15 final size:15
Alignment explanation
Indices: 58110467--58110549 Score: 73
Period size: 15 Copynumber: 5.5 Consensus size: 15
58110457 GTAGTGGCTT
58110467 AGGGTTTTGGGTTTA
1 AGGGTTTTGGGTTTA
*
58110482 AGGGTTTATAGG-TTA
1 AGGGTTT-TGGGTTTA
*
58110497 GGGGTTTATGGGTTTA
1 AGGGTTT-TGGGTTTA
*
58110513 TGGGGTTTTGTGGTTT-
1 -AGGGTTTTG-GGTTTA
*
58110529 AGGGTTTAGGGTTT-
1 AGGGTTTTGGGTTTA
58110543 AGGGTTT
1 AGGGTTT
58110550 AAGATTTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.20
15 27 0.46
16 8 0.14
17 12 0.20
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (15 bp):
AGGGTTTTGGGTTTA
Found at i:58110488 original size:8 final size:8
Alignment explanation
Indices: 58110475--58110552 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 8
58110465 TTAGGGTTTT
58110475 GGGTTTAA
1 GGGTTTAA
58110483 GGGTTTATA
1 GGGTTTA-A
*
58110492 -GG-TTAG
1 GGGTTTAA
*
58110498 GGGTTTAT
1 GGGTTTAA
*
58110506 GGGTTTATG
1 GGGTTTA-A
*
58110515 GGGTTT-T
1 GGGTTTAA
58110522 GTGGTTT-A
1 G-GGTTTAA
58110530 GGGTTT-A
1 GGGTTTAA
58110537 GGGTTT-A
1 GGGTTTAA
58110544 GGGTTTAA
1 GGGTTTAA
58110552 G
1 G
58110553 ATTTATGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
7 25 0.42
8 27 0.46
9 7 0.12
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (8 bp):
GGGTTTAA
Found at i:58110550 original size:7 final size:7
Alignment explanation
Indices: 58110425--58110550 Score: 76
Period size: 7 Copynumber: 16.9 Consensus size: 7
58110415 AAGAGCATAT
58110425 GGTTTAAG
1 GGTTT-AG
58110433 GG-TTATG
1 GGTTTA-G
*
58110440 GGCTTAG
1 GGTTTAG
*
58110447 GGTCTAG
1 GGTTTAG
**
58110454 GGGGTAG
1 GGTTTAG
*
58110461 TGGCTTAG
1 -GGTTTAG
*
58110469 GGTTTTG
1 GGTTTAG
58110476 GGTTTAAG
1 GGTTT-AG
*
58110484 GGTTTATA
1 GGTTTA-G
58110492 GG-TTAGG
1 GGTTTA-G
58110499 GGTTTATG
1 GGTTTA-G
58110507 GGTTTATGG
1 GGTTTA--G
*
58110516 GGTTTTG
1 GGTTTAG
58110523 TGGTTTAG
1 -GGTTTAG
58110531 GGTTTAG
1 GGTTTAG
58110538 GGTTTAG
1 GGTTTAG
58110545 GGTTTA
1 GGTTTA
58110551 AGATTTATGA
Statistics
Matches: 94, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
6 1 0.01
7 53 0.56
8 34 0.36
9 6 0.06
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:58110579 original size:29 final size:29
Alignment explanation
Indices: 58110533--58110595 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
58110523 TGGTTTAGGG
** *
58110533 TTTAGGGTTTAGGGTTTAAGATTTATGAT
1 TTTAGGGTTTAGAATTTAAGATTTACGAT
* * *
58110562 TTTAGGGTTTATAATTTATGATTTACGGT
1 TTTAGGGTTTAGAATTTAAGATTTACGAT
58110591 TTTAG
1 TTTAG
58110596 AGTTAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTAGAATTTAAGATTTACGAT
Found at i:58110594 original size:22 final size:22
Alignment explanation
Indices: 58110540--58110585 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
58110530 GGGTTTAGGG
58110540 TTTAGGGTTTA-AGATTTATGAT
1 TTTAGGGTTTATA-ATTTATGAT
58110562 TTTAGGGTTTATAATTTATGAT
1 TTTAGGGTTTATAATTTATGAT
58110584 TT
1 TT
58110586 ACGGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (22 bp):
TTTAGGGTTTATAATTTATGAT
Found at i:58110848 original size:23 final size:21
Alignment explanation
Indices: 58110822--58110863 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
58110812 ATTTAAGGGT
58110822 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
58110845 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
58110864 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:58111189 original size:114 final size:113
Alignment explanation
Indices: 58111030--58111445 Score: 383
Period size: 115 Copynumber: 3.6 Consensus size: 113
58111020 ATGAGTTATA
* * * * * * *
58111030 TTAGTGGCGTTTCTACGAAAAACGCCGCAATTATGTTTTTTGTCTTTGTTAAACGTTGTCATTTT
1 TTAGTGGCGTTTTTA-TAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTT
* * * * *
58111095 TATCTATGTTTTCAGTGGTGTTTTTTCCAAAACGCCGCAATATGATATGTG
65 TATCTAAGTTTT-AGTGGAGTTTTTACAAAAACGCCGCAA-AGGATATGTG
* **
58111146 TTAGTGGCGTTTTCA-GGTAACGCCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCGTTTT
1 TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTC-TTTGCTAAACGTTGTCGTTTT
* *
58111209 TATCTACA-TTATTAGTGGAATTTTTACAAAAACGCCGCAAAAGGTTATGTG
65 TATCTA-AGTT-TTAGTGGAGTTTTTACAAAAACGCCGC-AAAGGATATGTG
* * * * * * * * *
58111260 GTAGTGGCGTTTTTATAAAAATGTCGTAATTATGTTATAAGTGTTCGCTAAACGTTGTTGTTTTT
1 TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTTT
** * * *
58111325 ATCTAAGTTTTTAGTGCCGTTTGTACTAAAACGCCGGTAAAGGATATG-G
66 ATCTAAG-TTTTAGTGGAGTTTTTACAAAAACGCC-GCAAAGGATATGTG
* *
58111374 TTTAGTGGCGTTTTTATTATAAACGCCGCAATTATGTT-TTAAGTGTTTGCTAAACGTTGTCGTT
1 -TTAGTGGCGTTTTTATAAT-AACGCCGCAATTATGTTATT-AGTCTTTGCTAAACGTTGTCGTT
58111438 TTCTATCT
63 TT-TATCT
58111446 GGGATTTTTT
Statistics
Matches: 244, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
114 92 0.38
115 94 0.39
116 53 0.22
117 5 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (113 bp):
TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTTT
ATCTAAGTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAGGATATGTG
Found at i:58111340 original size:115 final size:115
Alignment explanation
Indices: 58111030--58111445 Score: 408
Period size: 114 Copynumber: 3.6 Consensus size: 115
58111020 ATGAGTTATA
* * * ** * * *
58111030 TTAGTGGCGTTTCTACGAAAAACGCCGCAATTATGTTTTTTGTCTTTGTTAAACGTTGTCATTTT
1 TTAGTGGCGTTTTTA-TAAAAACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTT
* * * * * * *
58111095 TATCTATGTTTTCAGTGGTGTTTTTTCCAAAACGCCGCAATATGATATGTG
65 TATCTAAGTTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAAGGATATGTG
* *** * *
58111146 TTAGTGGCGTTTTCA-GGTAACGCCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCGTTTT
1 TTAGTGGCGTTTTTATAAAAACGCCGCAATTATGTTATAAGT-GTTTGCTAAACGTTGTCGTTTT
* * *
58111209 TATCTACA-TTATTAGTGGAATTTTTACAAAAACGCCGCAAAAGGTTATGTG
65 TATCTA-AGTTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAAGGATATGTG
* * * * * *
58111260 GTAGTGGCGTTTTTATAAAAATGTCGTAATTATGTTATAAGTGTTCGCTAAACGTTGTTGTTTTT
1 TTAGTGGCGTTTTTATAAAAACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTT
** * * **
58111325 ATCTAAGTTTTTAGTGCCGTTTGTACTAAAACGCCGGTAAAGGATATG-G
66 ATCTAAGTTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAAGGATATGTG
* *
58111374 TTTAGTGGCGTTTTTATTATAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGTTT
1 -TTAGTGGCGTTTTTA-TAAAAACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTT
58111439 TCTATCT
64 T-TATCT
58111446 GGGATTTTTT
Statistics
Matches: 244, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
114 94 0.39
115 90 0.37
116 55 0.23
117 5 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (115 bp):
TTAGTGGCGTTTTTATAAAAACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTT
ATCTAAGTTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAAGGATATGTG
Found at i:58111650 original size:16 final size:16
Alignment explanation
Indices: 58111609--58111650 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
58111599 CCCCCAACTT
* *
58111609 CCCCGATTTCATTTAC
1 CCCCAATTTCCTTTAC
*
58111625 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTAC
58111640 CCCCAATTTCC
1 CCCCAATTTCC
58111651 CCAATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.17, C:0.45, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTAC
Found at i:58111675 original size:8 final size:8
Alignment explanation
Indices: 58111662--58111699 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
58111652 CAATTTCATT
58111662 TCCCCAAA
1 TCCCCAAA
58111670 TCCCCAAA
1 TCCCCAAA
58111678 TCCCCAAA
1 TCCCCAAA
*
58111686 TTCCCAAA
1 TCCCCAAA
58111694 TTCCCC
1 -TCCCC
58111700 CTGTCATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 23 0.85
9 4 0.15
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (8 bp):
TCCCCAAA
Found at i:58111682 original size:40 final size:40
Alignment explanation
Indices: 58111597--58111695 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 40
58111587 CCCATTTCCT
* * * * **
58111597 ATCCCCCAACTTCCCCGATTTCATTTACCCCCAATTCCTT
1 ATCCCCCAAATTCCCCAATTTCATTTACCCCAAATCCCAA
* *
58111637 TTCCCCCAATTTCCCCAATTTCATTT-CCCCAAATCCCCAA
1 ATCCCCCAAATTCCCCAATTTCATTTACCCCAAAT-CCCAA
*
58111677 AT-CCCCAAATTCCCAAATT
1 ATCCCCCAAATTCCCCAATT
58111696 CCCCCTGTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 22 0.46
40 26 0.54
ACGTcount: A:0.25, C:0.43, G:0.01, T:0.30
Consensus pattern (40 bp):
ATCCCCCAAATTCCCCAATTTCATTTACCCCAAATCCCAA
Found at i:58115578 original size:17 final size:16
Alignment explanation
Indices: 58115543--58115584 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
58115533 ATAAATAAAT
* *
58115543 AATTAAATCAATTGGA
1 AATTAAATTAATTGAA
58115559 AATTAAATTACATTGAA
1 AATTAAATTA-ATTGAA
58115576 AATTAAATT
1 AATTAAATT
58115585 CGAATATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (16 bp):
AATTAAATTAATTGAA
Found at i:58135807 original size:18 final size:18
Alignment explanation
Indices: 58135784--58135976 Score: 226
Period size: 18 Copynumber: 10.7 Consensus size: 18
58135774 GCATGATTTG
*
58135784 AACTTGGAGCACAGTGCA
1 AACTTGGAGCACAATGCA
* * *
58135802 AACTTGGAACAAAATGCG
1 AACTTGGAGCACAATGCA
*
58135820 AACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCA
58135838 AACTTGGAGCAC-ATGGCA
1 AACTTGGAGCACAAT-GCA
58135856 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* *
58135874 AACTTGGAGCATATTGCA
1 AACTTGGAGCACAATGCA
** * *
58135892 AACTTACAGCAGATTGCA
1 AACTTGGAGCACAATGCA
58135910 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* * *
58135928 AACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCA
*
58135946 AACTTGGAGCACAATGCT
1 AACTTGGAGCACAATGCA
*
58135964 AACTTAGAGCACA
1 AACTTGGAGCACA
58135977 GTGTGGACTC
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
17 1 0.01
18 146 0.98
19 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (18 bp):
AACTTGGAGCACAATGCA
Found at i:58135992 original size:54 final size:54
Alignment explanation
Indices: 58135784--58135976 Score: 253
Period size: 54 Copynumber: 3.6 Consensus size: 54
58135774 GCATGATTTG
* * * *
58135784 AACTTGGAGCACAGTGCAAACTTGGAACAAAATGCGAACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
*
58135838 AACTTGGAGCAC-ATGGCAAACTTGGAGCACAATGCAAACTTGGAGCATATTGCA
1 AACTTGGAGCACAAT-GCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
** * * * *
58135892 AACTTACAGCAGATTGCAAACTTGGAGCACAATGCAAACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
* *
58135946 AACTTGGAGCACAATGCTAACTTAGAGCACA
1 AACTTGGAGCACAATGCAAACTTGGAGCACA
58135977 GTGTGGACTC
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.98
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
Found at i:58149652 original size:25 final size:25
Alignment explanation
Indices: 58149615--58149680 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
58149605 GTATTTTTTT
* * *
58149615 TCCAAATTTTATACTTTGTTTTAGA
1 TCCAAAATGTATACTTTGTTTTACA
* *
58149640 TTCTAAATGTATACTTTGTTTTACA
1 TCCAAAATGTATACTTTGTTTTACA
*
58149665 TCCAAAATGTACACTT
1 TCCAAAATGTATACTT
58149681 ATTTACAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (25 bp):
TCCAAAATGTATACTTTGTTTTACA
Found at i:58154166 original size:26 final size:26
Alignment explanation
Indices: 58154130--58154205 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
58154120 ACATATTTTC
58154130 TCAAAATTTTACCA-AGGGCAAAATCG
1 TCAAAATTTTACCAGA-GGCAAAATCG
* * *
58154156 TCAAAATTTTATCGGAGGTAAAATCG
1 TCAAAATTTTACCAGAGGCAAAATCG
* * *
58154182 TTAAAATTTTACTAGAGGTAAAAT
1 TCAAAATTTTACCAGAGGCAAAAT
58154206 AAAGATGAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
TCAAAATTTTACCAGAGGCAAAATCG
Found at i:58155416 original size:24 final size:25
Alignment explanation
Indices: 58155370--58155416 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
58155360 AGGAATTTGG
*
58155370 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
58155395 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
58155417 TCGGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:58156560 original size:54 final size:53
Alignment explanation
Indices: 58156492--58156620 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 53
58156482 GAACAATGAA
* * * *
58156492 TTACTTAATGCATGACTTCATTAAAAAAAATGCAAACTTTAACTAACATGGGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAAC-TTAACTAACACGAGAG
* * ** *
58156546 TTACATAATGCATGACATAATT---TATGATGCAATCTTAACTAACACGAGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACACGAGAG
* *
58156596 TAACATAATGCATGACTTTATTAAA
1 TTACATAATGCATGACTTAATTAAA
58156621 TGTAGAACAC
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
50 33 0.55
51 8 0.13
54 19 0.32
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (53 bp):
TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACACGAGAG
Found at i:58156671 original size:33 final size:35
Alignment explanation
Indices: 58156620--58156685 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
58156610 ACTTTATTAA
* *
58156620 ATGTAGAACACATAATGCATGTCA-TAATTAAAAG
1 ATGTAGAACACATAATGCAAGACATTAATTAAAAG
*
58156654 ATGTAGATCA-ATAATGCAAGACATTAATTAAA
1 ATGTAGAACACATAATGCAAGACATTAATTAAA
58156686 GATTCATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (35 bp):
ATGTAGAACACATAATGCAAGACATTAATTAAAAG
Found at i:58156687 original size:33 final size:34
Alignment explanation
Indices: 58156598--58156688 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
58156588 CACGAGAGTA
*
58156598 ACATAATGCATGAC-TTTATT-AA-ATGTAGAAC
1 ACATAATGCATGACATTAATTAAAGATGTAGAAC
* *
58156629 ACATAATGCATGTCA-TAATTAAAAGATGTAGATC
1 ACATAATGCATGACATTAATT-AAAGATGTAGAAC
*
58156663 A-ATAATGCAAGACATTAATTAAAGAT
1 ACATAATGCATGACATTAATTAAAGAT
58156689 TCATTTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
31 17 0.34
33 19 0.38
34 14 0.28
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (34 bp):
ACATAATGCATGACATTAATTAAAGATGTAGAAC
Found at i:58160520 original size:14 final size:13
Alignment explanation
Indices: 58160497--58160536 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
58160487 ACAGAAAAGT
*
58160497 AAAATATTTTCCA
1 AAAATATTTTACA
58160510 AAAATTATTTTACAA
1 AAAA-TATTTTAC-A
58160525 AAAATATTTTAC
1 AAAATATTTTAC
58160537 TGACAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTTTACA
Found at i:58160520 original size:34 final size:35
Alignment explanation
Indices: 58160462--58160528 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
58160452 CAAACACCAG
* *
58160462 AAAATATTTTTCAATAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAATAAATCATTTTACAAAAAAGT
*
58160497 AAAATATTTTCCAA-AAATTATTTTACAAAAAA
1 AAAATATTTTCCAATAAATCATTTTACAAAAAA
58160529 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAATAAATCATTTTACAAAAAAGT
Found at i:58164376 original size:18 final size:18
Alignment explanation
Indices: 58164334--58164384 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
58164324 TGATGAGTGA
*
58164334 TGTAAGTCCTAGGATCGC
1 TGTAAGTCCAAGGATCGC
* * * *
58164352 TGCAAGTCCGAGGATTGT
1 TGTAAGTCCAAGGATCGC
58164370 TGTAAGTCCAAGGAT
1 TGTAAGTCCAAGGAT
58164385 ATCTATAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (18 bp):
TGTAAGTCCAAGGATCGC
Found at i:58167374 original size:24 final size:24
Alignment explanation
Indices: 58167341--58167386 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58167331 GGTCAACTAA
*
58167341 ATTATGCTAATAAATACTAAATAT
1 ATTATACTAATAAATACTAAATAT
*
58167365 ATTATACTAATGAATACTAAAT
1 ATTATACTAATAAATACTAAAT
58167387 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:58169303 original size:24 final size:24
Alignment explanation
Indices: 58169275--58169326 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58169265 TTCGTAGGTC
* *
58169275 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
58169299 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
58169323 AAAT
1 AAAT
58169327 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:58180133 original size:20 final size:20
Alignment explanation
Indices: 58180108--58180146 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
58180098 TTGCTTCTTC
58180108 TTTACTTACTCT-CTTATTTG
1 TTTACTTACT-TGCTTATTTG
58180128 TTTACTTACTTGCTTATTT
1 TTTACTTACTTGCTTATTT
58180147 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTACTTACTTGCTTATTTG
Found at i:58180458 original size:50 final size:50
Alignment explanation
Indices: 58180393--58180491 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
58180383 GAGTTCAATA
* *
58180393 TCGGTGCCCATGCCATG-CCTCAAACATGGTCTTACGGGGGACCTCTCATC
1 TCGGTGCCAACGCCATGTCC-CAAACATGGTCTTACGGGGGACCTCTCATC
* *
58180443 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT
1 TCGGTGCCAACGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCAT
58180492 AACCTCAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATC
Found at i:58181597 original size:74 final size:75
Alignment explanation
Indices: 58181496--58181663 Score: 191
Period size: 74 Copynumber: 2.3 Consensus size: 75
58181486 TGTTGCACTC
* * * * * *
58181496 ATTTACAATCTA-AAAAAAAATT-TAAAAATATTTTTGTTGTATTCTATTGTATTTCATATCAAT
1 ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATT-TATTCTATTATATTTCACATCAAT
*
58181559 AATATAT-ACTT
65 AATATATCA-AT
* *
58181570 ATTTACAATCTACGAGAAAAA-TAAAAAAATATTTATATTTATTCTATTATATTTTACATCAATA
1 ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATA
58181634 ATATATCAAT
66 ATATATCAAT
* *
58181644 ATTTACAATTTACCAGAAAA
1 ATTTACAATCTACAAGAAAA
58181664 TGAGAAGTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
74 60 0.75
75 20 0.25
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (75 bp):
ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATA
ATATATCAAT
Found at i:58184442 original size:15 final size:15
Alignment explanation
Indices: 58184419--58184463 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
58184409 TTTCTCCCTC
*
58184419 TTTTGTTTTGTTTTGA
1 TTTT-TTTTATTTTGA
*
58184435 TTTTTTTTATTTTTA
1 TTTTTTTTATTTTGA
58184450 TTTTTTTTTATTTT
1 -TTTTTTTTATTTT
58184464 TTTCCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (15 bp):
TTTTTTTTATTTTGA
Found at i:58186293 original size:19 final size:18
Alignment explanation
Indices: 58186252--58186294 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
58186242 AGCATTGACA
58186252 ATAAT-AATAAAAATAAT
1 ATAATAAATAAAAATAAT
58186269 ATTAATAAATAAAAATAAT
1 A-TAATAAATAAAAATAAT
58186288 GATAATA
1 -ATAATA
58186295 GCAAGGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 17 0.74
20 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAAATAAAAATAAT
Found at i:58188565 original size:35 final size:33
Alignment explanation
Indices: 58188534--58188652 Score: 134
Period size: 34 Copynumber: 3.5 Consensus size: 33
58188524 GATTTAGAAT
*
58188534 TTTTTAAAAAAAATAATTAAATTAGGTTTTAGGG
1 TTTTTAAAAAAAATAATTAAATTAGG-TTTAGAG
* * *
58188568 GTTTTAAATAAAATTAATTAAACTAGGGTTTAGAG
1 TTTTTAAA-AAAAATAATTAAATTA-GGTTTAGAG
* *
58188603 TTTTTAAGAAAATTAATTAAATTATGGTTT--AG
1 TTTTTAAAAAAAATAATTAAATTA-GGTTTAGAG
58188635 TTTTTAAAAAAAATAATT
1 TTTTTAAAAAAAATAATT
58188653 TTGTGTTTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 18 0.25
34 27 0.37
35 26 0.36
36 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.42
Consensus pattern (33 bp):
TTTTTAAAAAAAATAATTAAATTAGGTTTAGAG
Found at i:58188853 original size:126 final size:126
Alignment explanation
Indices: 58188710--58188975 Score: 315
Period size: 126 Copynumber: 2.1 Consensus size: 126
58188700 TTTTGTTTTT
* * * *
58188710 TTTTTCTACAATGGTTCCTGAAAAAATAATTTTGAGAAGACGA-TTTTGAAA-AGATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-GAGTTCT-AAACAAATAATGTAAA
* * * *
58188773 AAACGCTTCAAGT-AGGATGCACTGTCAGCAAAATTATTAAAAAAAGCTCCCACGTG-GACACTC
64 AAACGCTCCAA-TCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAG-CACTC
* * *
58188836 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGAGTTCTAAACAAATAATGTAAAAA
* * * * **
58188901 ATGCTCCAATCAGGATGTATTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGAGTGCTC
66 ACGCTCCAATCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAGCACTC
58188962 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
58188976 CTCTTGTTTG
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
125 5 0.04
126 113 0.95
127 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGAGTTCTAAACAAATAATGTAAAAA
ACGCTCCAATCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAGCACTC
Found at i:58190591 original size:26 final size:24
Alignment explanation
Indices: 58190562--58190618 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
58190552 GAAAGAAAAG
*
58190562 ATATAAATAAGTA-AATAATAATATT
1 ATATAAAT-AGTAGAATAACAA-ATT
*
58190587 AATATTAATAGTAGAATAACAAATT
1 -ATATAAATAGTAGAATAACAAATT
58190612 ATATAAA
1 ATATAAA
58190619 GTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 7 0.26
26 14 0.52
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATAAATAGTAGAATAACAAATT
Found at i:58190657 original size:14 final size:13
Alignment explanation
Indices: 58190635--58190674 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
58190625 AAAAGAAAAG
58190635 ATATATATATAAATA
1 ATATATA-AT-AATA
58190650 ATTATATAATAATA
1 A-TATATAATAATA
58190664 ATATATAATAA
1 ATATATAATAA
58190675 GAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 3 0.12
16 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:58193271 original size:126 final size:126
Alignment explanation
Indices: 58193046--58193431 Score: 562
Period size: 126 Copynumber: 3.1 Consensus size: 126
58193036 TAAGGCCAAA
* * * *
58193046 CAGGAACTACTGCAGAAAAAAAAGCGTTCACGTGGGAGC-TTTTTCA-TCAATTTTGCTGATAGT
1 CAGGAACTACTGTAG-AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGT
* *
58193109 GCATCTTGCTTGAAGAGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
64 GCATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
58193172 CAGGAACTACAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
58193237 ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
58193298 AAAGAACTATTGTAGAAAAAGAGTGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
58193363 ATCCTGCTTGAAACGTTTTTGACATTATCTT-TTCAGAACCGTATTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
58193424 CAGGAACT
1 CAGGAACT
58193432 GTAAAAACAA
Statistics
Matches: 235, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
125 21 0.09
126 211 0.90
127 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:58193555 original size:34 final size:34
Alignment explanation
Indices: 58193498--58193626 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 34
58193488 CACAAAATTA
*
58193498 TTTTTAAAAAA--CTAAACCATAATTTAATTAAT
1 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
58193530 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
* * * * * *
58193564 TTTATTTAAAACCCCTAAAACCTAATTTAATAAAG
1 TTT-TTAAAAAACTCTAAACCCTAATTTAATTAAT
*
58193599 TTTTAAAAAAACTCTAAACCCTAATTTA
1 TTTTTAAAAAACTCTAAACCCTAATTTA
58193627 TTCCCTAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
32 11 0.13
34 43 0.52
35 28 0.34
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.38
Consensus pattern (34 bp):
TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
Found at i:58199530 original size:3 final size:3
Alignment explanation
Indices: 58199522--58199552 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58199512 AGTCCTTTCA
58199522 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58199553 CGAGCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.