Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 88 of 210
Found at i:30533631 original size:22 final size:21
Alignment explanation
Indices: 30533601--30533643 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
30533591 TTTTTAATTA
30533601 AAAATATTTTTAATAATTTTT
1 AAAATATTTTTAATAATTTTT
*
30533622 AAAATAATTTTTTATAATTTTT
1 AAAAT-ATTTTTAATAATTTTT
30533644 TGATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AAAATATTTTTAATAATTTTT
Found at i:30545409 original size:26 final size:26
Alignment explanation
Indices: 30545379--30545489 Score: 91
Period size: 26 Copynumber: 4.3 Consensus size: 26
30545369 ATCCGCTTAT
30545379 GGTCCTCTAACCAACTCAAACTTAAG
1 GGTCCTCTAACCAACTCAAACTTAAG
* * *
30545405 GGTCCT-TGGACCCACTCAAACTCAAG
1 GGTCCTCT-AACCAACTCAAACTTAAG
* * *
30545431 GAAT-CTCCAACCAACTCAAACTTGAG
1 G-GTCCTCTAACCAACTCAAACTTAAG
* * * *
30545457 GTTCCTCGAACCGACTCAAACTTAGG
1 GGTCCTCTAACCAACTCAAACTTAAG
*
30545483 GGACCTC
1 GGTCCTC
30545490 CGACCCATCT
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
25 2 0.03
26 62 0.95
27 1 0.02
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (26 bp):
GGTCCTCTAACCAACTCAAACTTAAG
Found at i:30550007 original size:13 final size:13
Alignment explanation
Indices: 30549958--30550008 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
30549948 AGTTTAGCAA
30549958 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
30549971 TG-TTTTTAAAATG
1 TGCTTTTGAAAA-G
* *
30549984 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
30549997 TGCTTTTGAAAA
1 TGCTTTTGAAAA
30550009 TTTTGGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30550359 original size:19 final size:21
Alignment explanation
Indices: 30550335--30550374 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
30550325 ACACATCTTA
30550335 TTATTTT-AATAAAT-ATTTT
1 TTATTTTCAATAAATAATTTT
*
30550354 TTATTTTCAATTAATAATTTT
1 TTATTTTCAATAAATAATTTT
30550375 AACACATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTCAATAAATAATTTT
Found at i:30550374 original size:20 final size:19
Alignment explanation
Indices: 30550335--30550374 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
30550325 ACACATCTTA
*
30550335 TTATTTTAATAAATATTTT
1 TTATTTTAATAAATAATTT
*
30550354 TTATTTTCAATTAATAATTT
1 TTATTTT-AATAAATAATTT
30550374 T
1 T
30550375 AACACATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTAATAAATAATTT
Found at i:30550743 original size:13 final size:13
Alignment explanation
Indices: 30550725--30550750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30550715 CTAGTCAGCC
30550725 AGAGTTAACCAAT
1 AGAGTTAACCAAT
30550738 AGAGTTAACCAAT
1 AGAGTTAACCAAT
30550751 GATAAGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AGAGTTAACCAAT
Found at i:30563543 original size:27 final size:27
Alignment explanation
Indices: 30563477--30563576 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
30563467 ACACGCTAGA
* * *
30563477 AAATAGAAGCCTTTGGGGCAACCTGTG
1 AAATAGAAGCCTTTGTGGCAATCTATG
* *
30563504 AAAATAAAAGCCTTTATGGCAATCTATG
1 -AAATAGAAGCCTTTGTGGCAATCTATG
*
30563532 AAATAGAAGCCTTTGTAGCAATCTATG
1 AAATAGAAGCCTTTGTGGCAATCTATG
30563559 AAAT-GAAAGCCTTTGTGG
1 AAATAG-AAGCCTTTGTGG
30563577 TGATCTATAG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 39 0.63
28 22 0.35
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (27 bp):
AAATAGAAGCCTTTGTGGCAATCTATG
Found at i:30565257 original size:27 final size:27
Alignment explanation
Indices: 30565219--30565369 Score: 92
Period size: 27 Copynumber: 5.7 Consensus size: 27
30565209 ACCTTGAAAG
*
30565219 AGAAAAATGATAAGTATGACAAAACCT
1 AGAAGAATGATAAGTATGACAAAACCT
* * *
30565246 AGAAGAATGATATGTATGAC-TAACTT
1 AGAAGAATGATAAGTATGACAAAACCT
* * * * *
30565272 TGGAGAATGGTAAATATGACAAACCCT
1 AGAAGAATGATAAGTATGACAAAACCT
* * * * *
30565299 GGAAGAATGATATGTATGGC-TAACTT
1 AGAAGAATGATAAGTATGACAAAACCT
* * * *
30565325 TGAAGAATGGTAAATATG-GAAAACCTT
1 AGAAGAATGATAAGTATGACAAAACC-T
* *
30565352 AAAAGAATGATATGTATG
1 AGAAGAATGATAAGTATG
30565370 GCTAACTACG
Statistics
Matches: 88, Mismatches: 33, Indels: 6
0.69 0.26 0.05
Matches are distributed among these distances:
26 39 0.44
27 49 0.56
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (27 bp):
AGAAGAATGATAAGTATGACAAAACCT
Found at i:30565343 original size:26 final size:26
Alignment explanation
Indices: 30565260--30565342 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
30565250 GAATGATATG
*
30565260 TATGACTAACTTTGGAGAATGGTAAA
1 TATGACTAACTTTGAAGAATGGTAAA
* * * * **
30565286 TATGACAAACCCTGGAAGAATGATATG
1 TATGACTAA-CTTTGAAGAATGGTAAA
*
30565313 TATGGCTAACTTTGAAGAATGGTAAA
1 TATGACTAACTTTGAAGAATGGTAAA
30565339 TATG
1 TATG
30565343 GAAAACCTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
26 24 0.57
27 18 0.43
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (26 bp):
TATGACTAACTTTGAAGAATGGTAAA
Found at i:30565402 original size:106 final size:104
Alignment explanation
Indices: 30565239--30565525 Score: 335
Period size: 106 Copynumber: 2.7 Consensus size: 104
30565229 TAAGTATGAC
* * * *
30565239 AAAACCTAGAAGAATGATATGTATGACTAACTTTG-GAGAATGGTAAATATGACAAACCCTGGAA
1 AAAACCTAGAAGAATGATATGTATGGCTAAC-TCGAG-GAATGGTAAGTATGGCAAACCCTGGAA
* **
30565303 GAATGATATGTATGGCTAACTTTGAAGAATGGTAAATATGG
64 GAATGATATGTATGGCTAACTTTGAAGAATAGTAAATAAAG
* ** *
30565344 AAAACCTTAAAAGAATGATATGTATGGCTAACTACGAGGAACAGTAAGTATGGTAAACCCTGGAA
1 AAAACC-TAGAAGAATGATATGTATGGCTAACT-CGAGGAATGGTAAGTATGGCAAACCCTGGAA
* * * *
30565409 AAATTATATGTATGGCTAACTTTTAATAATAGTAAATAAAG
64 GAATGATATGTATGGCTAACTTTGAAGAATAGTAAATAAAG
* * *
30565450 AAAACCCTGGAAGAATGATATGTATGGCTAAATCTGAGGAATGGTAAGTATGGCAAA-CCTTGAA
1 AAAA-CCTAGAAGAATGATATGTATGGCTAACTC-GAGGAATGGTAAGTATGGCAAACCCTGGAA
30565514 GGAATGATATGT
64 -GAATGATATGT
30565526 GTGACTAGCT
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
105 14 0.09
106 135 0.89
107 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.26
Consensus pattern (104 bp):
AAAACCTAGAAGAATGATATGTATGGCTAACTCGAGGAATGGTAAGTATGGCAAACCCTGGAAGA
ATGATATGTATGGCTAACTTTGAAGAATAGTAAATAAAG
Found at i:30565539 original size:53 final size:53
Alignment explanation
Indices: 30565224--30565554 Score: 281
Period size: 53 Copynumber: 6.2 Consensus size: 53
30565214 GAAAGAGAAA
* * * * * *
30565224 AATGATAAGTATGACAAAACCTAGAAGAATGATATGTATGACTAACTTTG-GAG
1 AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACTCTGAG-G
* * * *
30565277 AATGGTAAATATGACAAACCCTGGAAGAATGATATGTATGGCTAACTTTGAAG
1 AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACTCTGAGG
* * * **
30565330 AATGGTAAATATGGAAAACCTTAAAAGAATGATATGTATGGCTAACTAC-GAGG
1 AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACT-CTGAGG
** * * * * * **
30565383 AACAGTAAGTATGGTAAACCCTGGAAAAATTATATGTATGGCTAACTTTTAAT
1 AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACTCTGAGG
* * ** * *
30565436 AATAGTAAATAAAGAAAACCCTGGAAGAATGATATGTATGGCTAAATCTGAGG
1 AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACTCTGAGG
* * * *
30565489 AATGGTAAGTATGGCAAA-CCTTGAAGGAATGATATGTGTGACTAGCTCTGAAGG
1 AATGGTAAGTATGGCAAACCCTGGAA-GAATGATATGTATGGCTAACTCTG-AGG
* *
30565543 ATTGGTAGGTAT
1 AATGGTAAGTAT
30565555 TGTAAACTTT
Statistics
Matches: 223, Mismatches: 50, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
52 6 0.03
53 204 0.91
54 13 0.06
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (53 bp):
AATGGTAAGTATGGCAAACCCTGGAAGAATGATATGTATGGCTAACTCTGAGG
Found at i:30569168 original size:19 final size:20
Alignment explanation
Indices: 30569137--30569183 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
30569127 TTTTCTCAAG
* *
30569137 TTGGTATCTAAACT-TTTTT
1 TTGGTACCTAAACTATTCTT
*
30569156 TTTGTACCTAAACTATTCTT
1 TTGGTACCTAAACTATTCTT
30569176 TTGGTACC
1 TTGGTACC
30569184 CATTTTACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (20 bp):
TTGGTACCTAAACTATTCTT
Found at i:30569285 original size:10 final size:10
Alignment explanation
Indices: 30569272--30569316 Score: 67
Period size: 9 Copynumber: 4.7 Consensus size: 10
30569262 TAATTTTTAA
30569272 TTCTTTTATT
1 TTCTTTTATT
30569282 TTC-TTTATT
1 TTCTTTTATT
30569291 TTC-TTTATT
1 TTCTTTTATT
*
30569300 TTCTTTTACT
1 TTCTTTTATT
30569310 TTCTTTT
1 TTCTTTT
30569317 TCTATTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (10 bp):
TTCTTTTATT
Found at i:30569296 original size:19 final size:20
Alignment explanation
Indices: 30569272--30569316 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
30569262 TAATTTTTAA
*
30569272 TTCTTTTATTTTC-TTTATT
1 TTCTTTTATTTTCTTTTACT
30569291 TTC-TTTATTTTCTTTTACT
1 TTCTTTTATTTTCTTTTACT
30569310 TTCTTTT
1 TTCTTTT
30569317 TCTATTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 11 0.48
20 3 0.13
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTATTTTCTTTTACT
Found at i:30569311 original size:24 final size:23
Alignment explanation
Indices: 30569275--30569329 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
30569265 TTTTTAATTC
* *
30569275 TTTTATTTTCTTTA-TTTTCTTT
1 TTTTCTTTTCTTTATTTTTCTAT
*
30569297 ATTTTCTTTTACTTTCTTTTTCTAT
1 -TTTTCTTTT-CTTTATTTTTCTAT
30569322 TTTTCTTT
1 TTTTCTTT
30569330 CTTCTTCCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.30
24 12 0.44
25 7 0.26
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTCTTTATTTTTCTAT
Found at i:30569330 original size:28 final size:28
Alignment explanation
Indices: 30569272--30569332 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
30569262 TAATTTTTAA
* * *
30569272 TTCTTTTATTTTCTTTATTTTCTTTATT
1 TTCTTTTACTTTCTTTATTCTATTTATT
*
30569300 TTCTTTTACTTTCTTT-TTCTATTTTTCT
1 TTCTTTTACTTTCTTTATTCTATTTAT-T
30569328 TTCTT
1 TTCTT
30569333 CTTCCTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (28 bp):
TTCTTTTACTTTCTTTATTCTATTTATT
Found at i:30569616 original size:17 final size:18
Alignment explanation
Indices: 30569580--30569617 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
30569570 ATCAGTTTTC
30569580 TTTATTTTTAAATATATTT
1 TTTATTTTT-AATATATTT
*
30569599 TTTATTTTT-ATGTATTT
1 TTTATTTTTAATATATTT
30569616 TT
1 TT
30569618 AATAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTTAATATATTT
Found at i:30574172 original size:30 final size:30
Alignment explanation
Indices: 30574137--30574196 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30574127 ACCAAAGTAA
30574137 AATAATCTAAAATAGAACCAATAATAATTT
1 AATAATCTAAAATAGAACCAATAATAATTT
30574167 AATAATCTAAAATAGAACCAATAATAATTT
1 AATAATCTAAAATAGAACCAATAATAATTT
30574197 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
AATAATCTAAAATAGAACCAATAATAATTT
Found at i:30578201 original size:29 final size:29
Alignment explanation
Indices: 30578159--30578216 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
30578149 CGAAAATGAT
*
30578159 TTATTTTCTACAATGACCATTAGTGTTGC
1 TTATTTTCTACAATGACCATCAGTGTTGC
30578188 TTATTTTCTACAATGACCATCAGTGTTGC
1 TTATTTTCTACAATGACCATCAGTGTTGC
30578217 CATTGCCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (29 bp):
TTATTTTCTACAATGACCATCAGTGTTGC
Found at i:30585864 original size:30 final size:29
Alignment explanation
Indices: 30585828--30585884 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
30585818 ATGGTTACGG
* * *
30585828 GTGACTGATTTATTATTTTTCTAAAGTTTA
1 GTGACTGAGTTATAACTTTTC-AAAGTTTA
30585858 GTGACTGAGTTATAACTTTTCAAAGTT
1 GTGACTGAGTTATAACTTTTCAAAGTT
30585885 GGGTAACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (29 bp):
GTGACTGAGTTATAACTTTTCAAAGTTTA
Found at i:30586294 original size:27 final size:27
Alignment explanation
Indices: 30586256--30586325 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
30586246 TGGCGTCTAT
30586256 CTGGGAGGCGCCAATGGTGGTGCC-TAC
1 CTGGGAGGCGCCAATGGTGGTGCCAT-C
*
30586283 CTGGGAGGCGCCAATGGTGGTGCCATT
1 CTGGGAGGCGCCAATGGTGGTGCCATC
*
30586310 CTGAGAGGCGCCAATG
1 CTGGGAGGCGCCAATG
30586326 CTGTTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.40, T:0.19
Consensus pattern (27 bp):
CTGGGAGGCGCCAATGGTGGTGCCATC
Found at i:30586436 original size:22 final size:23
Alignment explanation
Indices: 30586384--30586436 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
30586374 CTAGAAACGA
*
30586384 AAGAAATAAGAAGGAAGGAAGCAG
1 AAGAAA-AAGAAGGAAGGAAGAAG
30586408 AAG-AAAAGAAGGAAGGAA-AAG
1 AAGAAAAAGAAGGAAGGAAGAAG
30586429 AAGAAAAA
1 AAGAAAAA
30586437 AATTAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 2 0.07
24 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (23 bp):
AAGAAAAAGAAGGAAGGAAGAAG
Found at i:30591935 original size:19 final size:19
Alignment explanation
Indices: 30591911--30592480 Score: 125
Period size: 19 Copynumber: 29.1 Consensus size: 19
30591901 NNNNNNNNNN
30591911 TTACAATATTCATACAAAA
1 TTACAATATTCATACAAAA
*
30591930 TTACAATA-T--TACAATA
1 TTACAATATTCATACAAAA
*
30591946 TT-C-ATA--CA-AAAAAA
1 TTACAATATTCATACAAAA
*
30591960 TTGCAATATTCATACAAAA
1 TTACAATATTCATACAAAA
* * *
30591979 CTATAATATT-ATTACAATA
1 TTACAATATTCA-TACAAAA
30591998 TT-C-ATA--CA-A-AAAA
1 TTACAATATTCATACAAAA
*
30592011 TTTATAATATTCATACAAAA
1 -TTACAATATTCATACAAAA
30592031 TTACAATATTCATACAAAAAA
1 TTACAATATTCATAC--AAAA
* * *
30592052 TTACTA-ATCCAAAACTATAAA
1 TTACAATATTC-ATAC-A-AAA
*
30592073 -TACAAATTTAATT-ATAAAATAA
1 TTAC-AA--T-ATTCATACAA-AA
30592095 TTACAATATTCATACAAAAAA
1 TTACAATATTCATAC--AAAA
* *
30592116 TTATAATATTACAATATATCCCGAAA
1 TTACAATATT-C---ATA---CAAAA
*
30592142 TTACAATATTCATTCAAAA
1 TTACAATATTCATACAAAA
*
30592161 TTACAATA-T--TACAATA
1 TTACAATATTCATACAAAA
*
30592177 TT-C-ATA--CA-AAAAAA
1 TTACAATATTCATACAAAA
*
30592191 TTGCAATATTCATACAAAA
1 TTACAATATTCATACAAAA
* * *
30592210 CTATAATATT-ATTACAATA
1 TTACAATATTCA-TACAAAA
30592229 TT-C-ATA--CA-A-AAAA
1 TTACAATATTCATACAAAA
*
30592242 TTTATAATATTCATACAAAA
1 -TTACAATATTCATACAAAA
30592262 TTACAATATTCATACAAAAAA
1 TTACAATATTCATAC--AAAA
* * *
30592283 TTACTA-ATCCAAAACTATAAA
1 TTACAATATTC-ATAC-A-AAA
*
30592304 -TACAAATTTAATT-ATAAAATAA
1 TTAC-AA--T-ATTCATACAA-AA
30592326 TTACAATATTCATACAAAAAA
1 TTACAATATTCATAC--AAAA
*
30592347 TTACAATATTACAATATATACCGACA
1 TTACAATATT-C-ATACA-A---A-A
30592373 TT-CAATATTCATACAAAATTATAATA
1 TTACAATATTCATAC------A-AA-A
*
30592399 TTACAATATTCATACAACA
1 TTACAATATTCATACAAAA
*
30592418 TTACAATATTCATAAAAAAA
1 TTACAATATTCAT-ACAAAA
*
30592438 TTATAATATTCATACAAAAAA
1 TTACAATATTCATAC--AAAA
*
30592459 TTTAAAATATTCATACAAAA
1 -TTACAATATTCATACAAAA
30592479 TT
1 TT
30592481 CTAATCTAAA
Statistics
Matches: 407, Mismatches: 59, Indels: 170
0.64 0.09 0.27
Matches are distributed among these distances:
13 6 0.01
14 24 0.06
15 4 0.01
16 29 0.07
17 6 0.01
18 12 0.03
19 111 0.27
20 51 0.13
21 63 0.15
22 33 0.08
23 16 0.04
24 1 0.00
25 16 0.04
26 19 0.05
27 12 0.03
28 1 0.00
29 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
TTACAATATTCATACAAAA
Found at i:30591967 original size:22 final size:24
Alignment explanation
Indices: 30591911--30592280 Score: 149
Period size: 22 Copynumber: 15.8 Consensus size: 24
30591901 NNNNNNNNNN
30591911 TTACAATATTCATACAAAATTACAATA
1 TTACAATATTCATAC-AAA--ACAATA
30591938 TTACAATATTCATACAAAA-AA-A
1 TTACAATATTCATACAAAACAATA
*
30591960 TTGCAATATTCATACAAAACTATAATATTA
1 TTACAATATTCATACAAAAC----A-A-TA
30591990 TTACAATATTCATACAAAA-AAT-
1 TTACAATATTCATACAAAACAATA
*
30592012 TTATAATATTCATAC---A-AA-A
1 TTACAATATTCATACAAAACAATA
30592031 TTACAATATTCATACAA-A-AA-A
1 TTACAATATTCATACAAAACAATA
* *
30592052 TTAC--TA---ATCCAAAACTATAA
1 TTACAATATTCATACAAAACAAT-A
* * * *
30592072 ATACAA-ATTTAATTATAAAA-TA-A
1 TTACAATA-TTCA-TACAAAACAATA
30592095 TTACAATATTCATAC-AAA-AA-A
1 TTACAATATTCATACAAAACAATA
* * ***
30592116 TTATAATATTACAATATATCCCGAA-A
1 TTACAATATT-C-ATACAAAAC-AATA
*
30592142 TTACAATATTCATTCAAAATTACAATA
1 TTACAATATTCATAC-AAA--ACAATA
30592169 TTACAATATTCATACAAAA-AA-A
1 TTACAATATTCATACAAAACAATA
*
30592191 TTGCAATATTCATACAAAACTATAATATTA
1 TTACAATATTCATACAAAAC----A-A-TA
30592221 TTACAATATTCATACAAAA-AAT-
1 TTACAATATTCATACAAAACAATA
*
30592243 TTATAATATTCATAC---A-AA-A
1 TTACAATATTCATACAAAACAATA
30592262 TTACAATATTCATACAAAA
1 TTACAATATTCATACAAAA
30592281 AATTACTAAT
Statistics
Matches: 270, Mismatches: 29, Indels: 93
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.02
17 1 0.00
18 1 0.00
19 36 0.13
20 4 0.01
21 23 0.09
22 70 0.26
23 18 0.07
24 7 0.03
25 7 0.03
26 25 0.09
27 33 0.12
28 2 0.01
30 38 0.14
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (24 bp):
TTACAATATTCATACAAAACAATA
Found at i:30591976 original size:41 final size:41
Alignment explanation
Indices: 30591931--30592476 Score: 143
Period size: 52 Copynumber: 12.1 Consensus size: 41
30591921 CATACAAAAT
*
30591931 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
1 TACAATATTACAATATTCATACAAAAAAATTACAATATTCA
* *
30591972 TACAAAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCA
1 T-----AC----A-A-TATTACAATATTCATACAAAAAAATTACAATATTCA
* * *
30592024 TACAAAATTACAATATTCATAC-AAAAAATTACTA-ATCCAA
1 TACAATATTACAATATTCATACAAAAAAATTACAATATTC-A
* * * * * *
30592064 AACTATAAATACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAT-ATTACAATA-TTCA-TACAAAAAAATTACAATATTCA
* * * ***
30592107 TACAAAAAATTATAATATTACAATATATCCCGAAATTACAATATTCATTCAAAA
1 TAC--AATATTACAATATT-C-ATACA--AAAAAATTAC-A-A-T-ATTC---A
*
30592161 TTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
1 -TACAATATTACAATATTCATACAAAAAAATTACAATATTCA
* *
30592203 TACAAAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCA
1 T-----AC----A-A-TATTACAATATTCATACAAAAAAATTACAATATTCA
* * *
30592255 TACAAAATTACAATATTCATAC-AAAAAATTACTA-ATCCAA
1 TACAATATTACAATATTCATACAAAAAAATTACAATATTC-A
* * * * * *
30592295 AACTATAAATACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAT-ATTACAATA-TTCA-TACAAAAAAATTACAATATTCA
* * ** *
30592338 TACAAAAAATTACAATATTACAATATATACCGACATT-CAATATTCA
1 TAC--AATATTACAATATT-C-ATACA-A-AAAAATTACAATATTCA
* * * *
30592384 TACAAAATTATAATATTACAATATTCATACAACATTACAATATTCA
1 TACAATATTACAATATT-C-ATA--CA-AAAAAATTACAATATTCA
* * * * *
30592430 TAAAAAAATTATAATATTCATACAAAAAATTTAAAATATTCA
1 T-ACAATATTACAATATTCATACAAAAAAATTACAATATTCA
30592472 TACAA
1 TACAA
30592477 AATTCTAATC
Statistics
Matches: 376, Mismatches: 69, Indels: 120
0.67 0.12 0.21
Matches are distributed among these distances:
39 6 0.02
40 28 0.07
41 55 0.15
42 22 0.06
43 30 0.08
44 40 0.11
45 25 0.07
46 34 0.09
47 29 0.08
48 2 0.01
49 7 0.02
50 3 0.01
51 10 0.03
52 69 0.18
53 12 0.03
54 1 0.00
55 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (41 bp):
TACAATATTACAATATTCATACAAAAAAATTACAATATTCA
Found at i:30592047 original size:52 final size:51
Alignment explanation
Indices: 30591911--30592047 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
30591901 NNNNNNNNNN
30591911 TTACAATATTCATACAAAATTACAATA-T-TACAATATTCATACAAAAAAA
1 TTACAATATTCATACAAAATTACAATATTATACAATATTCATACAAAAAAA
* * * *
30591960 TTGCAATATTCATACAAAACTATAATATTATTACAATATTCATACAAAAAAT
1 TTACAATATTCATACAAAATTACAATATTA-TACAATATTCATACAAAAAAA
*
30592012 TTATAATATTCATACAAAATTACAATATTCATACAA
1 TTACAATATTCATACAAAATTACAATATT-ATACAA
30592048 AAAATTACTA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 24 0.32
50 1 0.01
52 50 0.66
53 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (51 bp):
TTACAATATTCATACAAAATTACAATATTATACAATATTCATACAAAAAAA
Found at i:30592241 original size:52 final size:51
Alignment explanation
Indices: 30592088--30592271 Score: 184
Period size: 52 Copynumber: 3.7 Consensus size: 51
30592078 ATTTAATTAT
* * * *
30592088 AAAATAATTACAATATTCATACAAAAAATTATAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATACAAAATATAATATTATTACAATATTCATAC
*** *
30592136 -CCGAAATTACAATATTCATTCAAAAT-TACA-A-TATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATATA-ATATTATTACAATATTCATAC
*
30592184 AAAAAAATTGCAATATTCATACAAAACTATAATATTATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAA-TATAATATTATTACAATATTCATAC
* * *
30592236 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAA-TATAATATT
30592272 CATACAAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 10 0.09
46 3 0.03
47 23 0.21
48 1 0.01
49 20 0.18
50 2 0.02
51 3 0.03
52 48 0.44
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (51 bp):
AAAAAAATTACAATATTCATACAAAATATAATATTATTACAATATTCATAC
Found at i:30592278 original size:52 final size:51
Alignment explanation
Indices: 30592139--30592278 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 51
30592129 ATATATCCCG
*
30592139 AAATTACAATATTCATTCAAAATTACAATA-T-TACAATATTCATACAAAA
1 AAATTACAATATTCATACAAAATTACAATATTATACAATATTCATACAAAA
* * *
30592188 AAATTGCAATATTCATACAAAACTATAATATTATTACAATATTCATACAAAA
1 AAATTACAATATTCATACAAAATTACAATATTA-TACAATATTCATACAAAA
* *
30592240 AATTTATAATATTCATACAAAATTACAATATTCATACAA
1 AAATTACAATATTCATACAAAATTACAATATT-ATACAA
30592279 AAAATTACTA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 26 0.33
50 1 0.01
52 50 0.64
53 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (51 bp):
AAATTACAATATTCATACAAAATTACAATATTATACAATATTCATACAAAA
Found at i:30592314 original size:231 final size:231
Alignment explanation
Indices: 30591911--30592480 Score: 970
Period size: 231 Copynumber: 2.5 Consensus size: 231
30591901 NNNNNNNNNN
30591911 TTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
1 TTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
30591976 AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
66 AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
30592041 CATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTC
131 CATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTC
* *
30592106 ATACAAAAAATTATAATATTACAATATATCCCGAAA
196 ATACAAAAAATTACAATATTACAATATATACCGAAA
*
30592142 TTACAATATTCATTCAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
1 TTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
30592207 AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
66 AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
30592272 CATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTC
131 CATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTC
*
30592337 ATACAAAAAATTACAATATTACAATATATACCGACA
196 ATACAAAAAATTACAATATTACAATATATACCGAAA
* * *
30592373 TT-CAATATTCATACAAAATTATAATATTACAATATTCATAC---AACATTACAATATTCAT---
1 TTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
*
30592431 AAA--A-AA-ATTA-T--AATATTCATACAAAAAATTTAAAATATTCATACAAAATT
66 AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATT
30592481 CTAATCTAAA
Statistics
Matches: 330, Mismatches: 9, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
217 38 0.12
219 1 0.00
220 4 0.01
221 2 0.01
222 1 0.00
224 3 0.01
227 15 0.05
230 37 0.11
231 229 0.69
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (231 bp):
TTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACA
AAACTATAATATTATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
CATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTC
ATACAAAAAATTACAATATTACAATATATACCGAAA
Found at i:30592379 original size:46 final size:48
Alignment explanation
Indices: 30592325--30592447 Score: 177
Period size: 46 Copynumber: 2.7 Consensus size: 48
30592315 TTATAAAATA
* *
30592325 ATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATACCGAC
1 ATTACAATATTCATACAAAAAATTATAATATTACAATATTCATA-CAAC
30592372 ATT-CAATATTCATAC--AAAATTATAATATTACAATATTCATACAAC
1 ATTACAATATTCATACAAAAAATTATAATATTACAATATTCATACAAC
30592417 ATTACAATATTCATA-AAAAAATTATAATATT
1 ATTACAATATTCATACAAAAAATTATAATATT
30592448 CATACAAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
44 19 0.28
45 7 0.10
46 26 0.38
47 17 0.25
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (48 bp):
ATTACAATATTCATACAAAAAATTATAATATTACAATATTCATACAAC
Found at i:30592406 original size:27 final size:27
Alignment explanation
Indices: 30592375--30592427 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
30592365 TACCGACATT
*
30592375 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAATATTA
*
30592402 CAATATTCATACAACATTACAATATT
1 CAATATTCATACAAAATTACAATATT
30592428 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAATATTA
Found at i:30592467 original size:22 final size:21
Alignment explanation
Indices: 30592220--30592478 Score: 113
Period size: 22 Copynumber: 12.0 Consensus size: 21
30592210 CTATAATATT
*
30592220 ATTACAATATTCATACAAAAA
1 ATTAAAATATTCATACAAAAA
*
30592241 ATTTATAATATTCATAC--AAA
1 A-TTAAAATATTCATACAAAAA
*
30592261 ATTACAATATTCATACAAAAA
1 ATTAAAATATTCATACAAAAA
** * * * *
30592282 ATTACTA-ATCCAAAACTATAA
1 ATTAAAATATTC-ATACAAAAA
* *
30592303 A-TACAAAT-TTAATTATAAAATA
1 ATTA-AAATATTCA-TACAAAA-A
*
30592325 ATTACAATATTCATACAAAAA
1 ATTAAAATATTCATACAAAAA
* * * *
30592346 ATTACAATATTACAATATATACCGAC
1 ATTAAAATATT-C-ATACA-A--AAA
*
30592372 ATT-CAATATTCATAC--AAA
1 ATTAAAATATTCATACAAAAA
* *
30592390 ATTATAATATTACAATATTCATACAAC
1 ATTAAAATATT-C-ATA--CA-A-AAA
*
30592417 ATTACAATATTCATA-AAAAA
1 ATTAAAATATTCATACAAAAA
*
30592437 ATTATAATATTCATACAAAAA
1 ATTAAAATATTCATACAAAAA
30592458 ATTTAAAATATTCATACAAAA
1 A-TTAAAATATTCATACAAAA
30592479 TTCTAATCTA
Statistics
Matches: 182, Mismatches: 30, Indels: 51
0.69 0.11 0.19
Matches are distributed among these distances:
18 4 0.02
19 20 0.11
20 27 0.15
21 44 0.24
22 45 0.25
23 13 0.07
24 2 0.01
25 10 0.05
26 5 0.03
27 12 0.07
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAAATATTCATACAAAAA
Found at i:30592480 original size:20 final size:20
Alignment explanation
Indices: 30592403--30592480 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
30592393 ATAATATTAC
* *
30592403 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
30592422 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
30592442 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
30592464 AATATTCATACAAAATT
1 AATATTCATACAAAATT
30592481 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:30592654 original size:3 final size:3
Alignment explanation
Indices: 30592648--30592691 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
30592638 TTTTTTTTCT
*
30592648 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
30592692 CCTTTCTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:30592668 original size:14 final size:14
Alignment explanation
Indices: 30592644--30592692 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
30592634 CCTTTTTTTT
30592644 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
30592657 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
30592671 TTCTTCTCCTTC-TC
1 TTCTTCT-CTTCTTC
30592685 TTCTTCTC
1 TTCTTCTC
30592693 CTTTCTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.18
14 24 0.71
15 4 0.12
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:30592673 original size:20 final size:20
Alignment explanation
Indices: 30592648--30592691 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
30592638 TTTTTTTTCT
*
30592648 TTCTTCTTCTTCTTCTCTTC
1 TTCTTCTTCTCCTTCTCTTC
30592668 TTCTTCTTCTCCTTCTCTTC
1 TTCTTCTTCTCCTTCTCTTC
30592688 TTCT
1 TTCT
30592692 CCTTTCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTTCTCCTTCTCTTC
Found at i:30592693 original size:14 final size:15
Alignment explanation
Indices: 30592650--30592695 Score: 78
Period size: 14 Copynumber: 3.2 Consensus size: 15
30592640 TTTTTTCTTT
30592650 CTTCTTCTTCTTCT-
1 CTTCTTCTTCTTCTC
30592664 CTTCTTCTTCTTCTC
1 CTTCTTCTTCTTCTC
30592679 CTTC-TCTTCTTCTC
1 CTTCTTCTTCTTCTC
30592693 CTT
1 CTT
30592696 TCTCTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
CTTCTTCTTCTTCTC
Found at i:30592703 original size:14 final size:13
Alignment explanation
Indices: 30592654--30592703 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 13
30592644 TTCTTTCTTC
*
30592654 TTCTTCTTCTCTT
1 TTCTTCTTCTCCT
30592667 CTTCTTCTTCTCCT
1 -TTCTTCTTCTCCT
30592681 TCTCTTCTTCTCCT
1 T-TCTTCTTCTCCT
30592695 TTCTCTCTT
1 TTCT-TCTT
30592704 TTTTTTCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 4 0.12
14 29 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTTCTCCT
Found at i:30594771 original size:19 final size:19
Alignment explanation
Indices: 30594743--30594802 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
30594733 NTTATAAAAT
30594743 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
*
30594762 AATTATAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
30594783 AATTACAATATACATACAA
1 AATTACAATATTCATACAA
30594802 A
1 A
30594803 GACTTTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 19 0.53
21 17 0.47
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:30594786 original size:21 final size:21
Alignment explanation
Indices: 30594738--30594802 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
30594728 NNNNNNTTAT
30594738 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
*
30594760 --AAAATTATAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
30594779 AAAAAATTACAATATACATAC
1 AAAAAATTACAATATTCATAC
30594800 AAA
1 AAA
30594803 GACTTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 16 0.42
20 2 0.05
21 20 0.53
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:30594847 original size:27 final size:27
Alignment explanation
Indices: 30594804--30594857 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30594794 ACATACAAAG
*
30594804 ACTTTTAATGGCACCTCCTTATAAGGC
1 ACTTTTAATGGCACCTCCCTATAAGGC
** *
30594831 ACTTTTAATGGTGCCTCCCTATGAGGC
1 ACTTTTAATGGCACCTCCCTATAAGGC
30594858 GCCACCCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
ACTTTTAATGGCACCTCCCTATAAGGC
Found at i:30606145 original size:38 final size:38
Alignment explanation
Indices: 30606091--30606187 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 38
30606081 ATTATGGTTG
* *
30606091 TTATGAGCAAAGTGGCGTGTTATCAGATGTAATAACTC
1 TTATGAGCAAACTGGCGTGTTATCAGATGGAATAACTC
* *
30606129 TTATGAGCAAACTGGCGTATTATCGGATGGAATAACTC
1 TTATGAGCAAACTGGCGTGTTATCAGATGGAATAACTC
* *
30606167 TTACGAGCAAGCTGGCGTGTT
1 TTATGAGCAAACTGGCGTGTT
30606188 TTGGTTGGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (38 bp):
TTATGAGCAAACTGGCGTGTTATCAGATGGAATAACTC
Found at i:30610670 original size:5 final size:5
Alignment explanation
Indices: 30610660--30610695 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
30610650 TTTGTACGGT
30610660 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA
30610696 ATAATCGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:30624414 original size:31 final size:31
Alignment explanation
Indices: 30624379--30624440 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30624369 AGAGAAAGAA
30624379 AGGAAAAGAGGGAAAAGAATAAGAAAAATAG
1 AGGAAAAGAGGGAAAAGAATAAGAAAAATAG
30624410 AGGAAAAGAGGGAAAAGAATAAGAAAAATAG
1 AGGAAAAGAGGGAAAAGAATAAGAAAAATAG
30624441 TGGCTGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (31 bp):
AGGAAAAGAGGGAAAAGAATAAGAAAAATAG
Found at i:30633155 original size:18 final size:18
Alignment explanation
Indices: 30633114--30633156 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
30633104 TTTTTAATAA
*
30633114 ATATGTAGTTTATATAGT
1 ATATGTTGTTTATATAGT
* * *
30633132 AAATGTTGTTTATTTATT
1 ATATGTTGTTTATATAGT
30633150 ATATGTT
1 ATATGTT
30633157 TGAATTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
ATATGTTGTTTATATAGT
Found at i:30639254 original size:56 final size:52
Alignment explanation
Indices: 30639174--30639310 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 52
30639164 GGGATGAGAC
* * **
30639174 CCCATGTAAGACCATGTCTAGGACATGGCATTAGCAT-TATTGAGGTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATT-GC-TGTACCGA-G--ATGAGAGGT
30639230 CCCACGTAAGACCATGTCTGGGACATGG---TGCTGGTACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGCT-GTACCGAGATGAGAGGT
*
30639280 CCCCCGTAAGACCATGTCTGGGACATGGCAT
1 CCCACGTAAGACCATGTCTGGGACATGGCAT
30639311 GGGCACCGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
50 36 0.51
51 1 0.01
52 3 0.04
53 5 0.07
56 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (52 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGCTGTACCGAGATGAGAGGT
Found at i:30639319 original size:50 final size:49
Alignment explanation
Indices: 30639221--30639352 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 49
30639211 TATTGAGGTT
*
30639221 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGTGCTGGTACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGTGC-GGCACCGAG
* *
30639271 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATG-GGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGG--TGCGGCACCGAG
** * * *
30639321 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
30639353 TATGACATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
50 69 0.97
52 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGTGCGGCACCGAG
Found at i:30639633 original size:12 final size:12
Alignment explanation
Indices: 30639616--30639643 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30639606 ATGAGTTATT
30639616 TAAGTAAACAAG
1 TAAGTAAACAAG
30639628 TAAGTAAACAAG
1 TAAGTAAACAAG
30639640 TAAG
1 TAAG
30639644 AGAGTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:30645996 original size:23 final size:23
Alignment explanation
Indices: 30645966--30646061 Score: 95
Period size: 23 Copynumber: 4.2 Consensus size: 23
30645956 ACATTACAGG
*
30645966 AATATGCCACAAAGGTATCACAA
1 AATATGCCACAAAGGCATCACAA
* *
30645989 AATATGCCATAAAGGCATCACAG
1 AATATGCCACAAAGGCATCACAA
* * * ** *
30646012 AATACGCTA-AAAAGCAATTGCAG
1 AATATGCCACAAAGGC-ATCACAA
30646035 AATATGCCACAAAGGCATCACAA
1 AATATGCCACAAAGGCATCACAA
30646058 AATA
1 AATA
30646062 GATCCTATCA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
22 5 0.09
23 47 0.82
24 5 0.09
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.17
Consensus pattern (23 bp):
AATATGCCACAAAGGCATCACAA
Found at i:30650510 original size:16 final size:17
Alignment explanation
Indices: 30650468--30650510 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
30650458 TCTTTAATTG
30650468 AAGGAAGAGTACGACTTA
1 AAGGAAGAGTACGAC-TA
30650486 AAGGAAGAGTACGAC-A
1 AAGGAAGAGTACGACTA
*
30650502 AATGAAGAG
1 AAGGAAGAG
30650511 CACGCCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.12
Consensus pattern (17 bp):
AAGGAAGAGTACGACTA
Found at i:30651002 original size:23 final size:23
Alignment explanation
Indices: 30650953--30651024 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
30650943 TGAATAAAAG
** *
30650953 GCCTTTGTGGCATGGTCTGTAAA
1 GCCTTTGTGGCATATTCTGTAAT
*
30650976 GCCTTTGTGGCATATTCTTTAAT
1 GCCTTTGTGGCATATTCTGTAAT
* *
30650999 GCCTGTGTGGCGTATTCTGTAAT
1 GCCTTTGTGGCATATTCTGTAAT
30651022 GCC
1 GCC
30651025 CTTGAGGCGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.39
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTGTAAT
Found at i:30651033 original size:23 final size:23
Alignment explanation
Indices: 30650968--30651033 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
30650958 TGTGGCATGG
* * *
30650968 TCTGTAAAGCCTTTGTGGCATAT
1 TCTGTAATGCCCTTGTGGCGTAT
*
30650991 TCTTTAATG-CCTGTGTGGCGTAT
1 TCTGTAATGCCCT-TGTGGCGTAT
*
30651014 TCTGTAATGCCCTTGAGGCG
1 TCTGTAATGCCCTTGTGGCG
30651034 AGATCTGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 2 0.06
23 30 0.86
24 3 0.09
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.38
Consensus pattern (23 bp):
TCTGTAATGCCCTTGTGGCGTAT
Found at i:30656352 original size:9 final size:9
Alignment explanation
Indices: 30656338--30656431 Score: 118
Period size: 9 Copynumber: 10.4 Consensus size: 9
30656328 GTATTGATTC
30656338 AATTCGGTT
1 AATTCGGTT
*
30656347 AATTCGGGT
1 AATTCGGTT
**
30656356 AATTCGGGG
1 AATTCGGTT
*
30656365 AACTCGGTT
1 AATTCGGTT
30656374 AATTCGGGTT
1 AATTC-GGTT
30656384 -ATTCGGTT
1 AATTCGGTT
30656392 AATTCGGTT
1 AATTCGGTT
30656401 AATTCGGTT
1 AATTCGGTT
* *
30656410 AATTCAGAT
1 AATTCGGTT
30656419 AATTCGGTT
1 AATTCGGTT
30656428 AATT
1 AATT
30656432 TTTATCCAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 4 0.05
9 65 0.89
10 4 0.05
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30656794 original size:27 final size:27
Alignment explanation
Indices: 30656764--30656942 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
30656754 CCCTCGATGT
* *
30656764 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGATCGTAATACCCCTATAGG
* * * *
30656791 GTAAACTAACCGTAATACCCCTGTAGG
1 GTAAAATGATCGTAATACCCCTATAGG
* * *
30656818 GTAAAATAATAGTAATGCCCCTGA-AGGG
1 GTAAAATGATCGTAATACCCCT-ATA-GG
* *
30656846 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGATCGTAATACCCCTATAGG
* * * ***
30656873 GTAAAATAATCATAATGCTTATATAGG
1 GTAAAATGATCGTAATACCCCTATAGG
30656900 GTAAAATGATCGTAATACCCCTATAGG
1 GTAAAATGATCGTAATACCCCTATAGG
*
30656927 GTAAAATGACCGTAAT
1 GTAAAATGATCGTAAT
30656943 GCCCTGGTAG
Statistics
Matches: 118, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
27 97 0.82
28 21 0.18
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAAAATGATCGTAATACCCCTATAGG
Found at i:30656927 original size:54 final size:55
Alignment explanation
Indices: 30656786--30656933 Score: 194
Period size: 55 Copynumber: 2.7 Consensus size: 55
30656776 AAATACCCCC
* * *
30656786 ATAGGGTAAACTAACCGTAATACCCCTGTAGGGTAAAATAATAGTAATGCCCCTG
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATAGTAATGCCCATG
**
30656841 A-AGGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCA-TAATGCTTAT-
1 ATA-GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAAT-AGTAATGCCCATG
* *
30656895 ATAGGGTAAAATGATCGTAATACCCCTATAGGGTAAAAT
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
30656934 GACCGTAATG
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
54 36 0.43
55 46 0.55
56 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (55 bp):
ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATAGTAATGCCCATG
Found at i:30656943 original size:54 final size:55
Alignment explanation
Indices: 30656786--30656961 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
30656776 AAATACCCCC
* * * *
30656786 ATAGGGTAAACTAACCGTAATACCCCTGTAGGGTAAAATAATAGTAATGCCCCTG
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCATG
* **
30656841 A-AGGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCATAATGCTTAT-
1 ATA-GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCATG
* * * *
30656895 ATAGGGTAAAATGATCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCC-TG
1 ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCATG
*
30656949 GTA-GGT-AAATGAC
1 ATAGGGTAAAATGAC
30656962 TATTTTTGCC
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 6 0.06
53 4 0.04
54 46 0.45
55 46 0.45
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (55 bp):
ATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAATCGTAATGCCCATG
Found at i:30657197 original size:27 final size:26
Alignment explanation
Indices: 30657127--30657226 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
30657117 TATGAGGAAG
*
30657127 TACTG-TACTGGTAGCTTTGCCACAA
1 TACTGTTACTGGCAGCTTTGCCACAA
* ** *
30657152 TCACTGTTATTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGCAGCTTTGCCACA-A
* ***
30657180 TACTATTACTGGCAGCTTTGTTGCAA
1 TACTGTTACTGGCAGCTTTGCCACAA
30657206 TACTGTTACTGGCAGCTTTGC
1 TACTGTTACTGGCAGCTTTGC
30657227 TGTGATACTA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.02
26 24 0.41
27 32 0.54
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCCACAA
Found at i:30657235 original size:26 final size:26
Alignment explanation
Indices: 30657179--30657228 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
30657169 TTGGCCACAT
*
30657179 ATACTATTACTGGCAGCTTTGTTGCA
1 ATACTATTACTGGCAGCTTTGCTGCA
*
30657205 ATACTGTTACTGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
30657229 TGATACTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCA
Found at i:30657276 original size:32 final size:32
Alignment explanation
Indices: 30657235--30657475 Score: 118
Period size: 32 Copynumber: 7.6 Consensus size: 32
30657225 GCTGTGATAC
* *
30657235 TACTGATGGCTTTGTGCCGGTTATAGTACCGT
1 TACTGATGGCTTTGTGCCGATTATAATACCGT
* * * *
30657267 TACTGATGGCATTGTACCGCTCATAATACCGT
1 TACTGATGGCTTTGTGCCGATTATAATACCGT
* * * *
30657299 TATTGA-GGCTTTGTGTCGATTACATTACCGT
1 TACTGATGGCTTTGTGCCGATTATAATACCGT
* * * *
30657330 TA-TCGATGGCTATGTGCCGATCAT-TTCACTGT
1 TACT-GATGGCTTTGTGCCGATTATAAT-ACCGT
* * * * *
30657362 TA-TCGATGGCTATATACCGATCAT-ATCACTGT
1 TACT-GATGGCTTTGTGCCGATTATAAT-ACCGT
* * * **
30657394 CACTGATGGTTTTGTGCCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATTATAATACCGT
* * * *
30657426 TACTGATGG-TTGCGTGCCGATCAT-ATCACTGC
1 TACTGATGGCTT-TGTGCCGATTATAAT-ACCGT
*
30657458 TATTGATGGCTTTGTGCC
1 TACTGATGGCTTTGTGCC
30657476 AATCACATTA
Statistics
Matches: 166, Mismatches: 35, Indels: 16
0.76 0.16 0.07
Matches are distributed among these distances:
30 1 0.01
31 27 0.16
32 134 0.81
33 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATTATAATACCGT
Found at i:30657536 original size:21 final size:22
Alignment explanation
Indices: 30657492--30657537 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30657482 ATTACTGTAC
* * *
30657492 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
30657514 TTATAGCTTATAG-CATCCTGT
1 TTATAGCTTATAGCCATCCTGT
30657535 TTA
1 TTA
30657538 CGACTCTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:30657761 original size:28 final size:28
Alignment explanation
Indices: 30657717--30657770 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
30657707 CATACTGATA
* *
30657717 CTGTATCGGGCTTAGGCCCACGCTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
30657745 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
30657771 ATTGTTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:30659475 original size:27 final size:27
Alignment explanation
Indices: 30659408--30659475 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
30659398 TTGATATCTG
*
30659408 GACCAAAATACCCTCAATGGGTAAAAT
1 GACCGAAATACCCTCAATGGGTAAAAT
*
30659435 GATCGAAATACCCT-AATAGGGTAAAAT
1 GACCGAAATACCCTCAAT-GGGTAAAAT
* *
30659462 GACCGTAATGCCCT
1 GACCGAAATACCCT
30659476 GGTGGGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (27 bp):
GACCGAAATACCCTCAATGGGTAAAAT
Found at i:30659809 original size:32 final size:31
Alignment explanation
Indices: 30659763--30659997 Score: 220
Period size: 32 Copynumber: 7.4 Consensus size: 31
30659753 GTTGCAATGC
**
30659763 TACTGATGAATTTGTGCCGATCATAATACTGT
1 TACTGATGGCTTTGTGCCGATCAT-ATACTGT
* *
30659795 TACTGATGGCTTTGTGTCAATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATA-TACTGT
* *
30659827 TACTGATAGCTTTGTGCCGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAT-ACTGT
* *
30659859 TACTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATAT-ACTGT
* ** * **
30659891 CACTGATGGCTTTGTATCGATCATGTTACCAT
1 TACTGATGGCTTTGTGCCGATCAT-ATACTGT
* *
30659923 TACTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATAT-ACTGT
* * *
30659955 TACTGATGGCATTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATA-TACTGT
*
30659986 TACTTATGGCTT
1 TACTGATGGCTT
30659998 GTAGTCATTC
Statistics
Matches: 164, Mismatches: 34, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
31 13 0.08
32 149 0.91
33 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (31 bp):
TACTGATGGCTTTGTGCCGATCATATACTGT
Found at i:30659845 original size:64 final size:64
Alignment explanation
Indices: 30659760--30659996 Score: 273
Period size: 64 Copynumber: 3.7 Consensus size: 64
30659750 TTTGTTGCAA
** * * * *
30659760 TGCTACTGATGAATTTGTGCCGATCATAATACTGTTACTGATGGCTTTGTGTCAATCATAGT-AC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCTGTGTGCCGATCATA-TCAC
* *
30659824 TGTTACTGATAGCTTTGTGCCGATCAT-TTCACTGTTACTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATT-ACTGTTACTGATGGCTGTGTGCCGATCATATCAC
* ** * **
30659888 TGCCACTGATGGCTTTGTATCGATCATGTTACCATTACTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCTGTGTGCCGATCATATCAC
* * * *
30659952 TGCTACTGATGGCATTGTGCCAATCACATTACTG-TACTTATGGCT
1 TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCT
30659997 TGTAGTCATT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
63 12 0.08
64 131 0.90
65 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGCTGTGTGCCGATCATATCAC
Found at i:30659927 original size:96 final size:96
Alignment explanation
Indices: 30659760--30659977 Score: 264
Period size: 96 Copynumber: 2.3 Consensus size: 96
30659750 TTTGTTGCAA
* ** *
30659760 TGCTACTGAT-GAATTTGTGCCGATCATAATACTGTTACTGATGGCTTTGTGTCAATCATAGTAC
1 TGCTACTGATGGCA-TTGTGCCGATCATAATACTGCCACTGATGGCTTTGTATCAATCATAGTAC
** * *
30659824 TGTTACTGATAGCTTTGTGCCGATCATTTCAC
65 CATTACTGATAGCTGTGTGCCGATCATATCAC
* *
30659856 TGTTACTGATGGC-TGTGTGCCGATCAT-ATCACTGCCACTGATGGCTTTGTATCGATCAT-GTT
1 TGCTACTGATGGCAT-TGTGCCGATCATAAT-ACTGCCACTGATGGCTTTGTATCAATCATAG-T
*
30659918 ACCATTACTGATGGCTGTGTGCCGATCATATCAC
63 ACCATTACTGATAGCTGTGTGCCGATCATATCAC
*
30659952 TGCTACTGATGGCATTGTGCCAATCA
1 TGCTACTGATGGCATTGTGCCGATCA
30659978 CATTACTGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
95 4 0.04
96 98 0.94
97 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (96 bp):
TGCTACTGATGGCATTGTGCCGATCATAATACTGCCACTGATGGCTTTGTATCAATCATAGTACC
ATTACTGATAGCTGTGTGCCGATCATATCAC
Found at i:30672696 original size:29 final size:29
Alignment explanation
Indices: 30672664--30672916 Score: 274
Period size: 29 Copynumber: 8.8 Consensus size: 29
30672654 GATGGCTGAA
30672664 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
30672693 ACCATCTCTTTTCATAATCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * *
30672722 ACCATCCCTATTCATAATCGATTGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * ***
30672751 ACCAT-CCTTTTCATATTCGGTAGTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
30672779 ACCATCCCTTTTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
30672808 ACCATCCCTTTTCATATTCGATGATCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * *
30672837 ACCACCCCTTTTCATATGCGATAGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * * **
30672866 ACCATCCCTTTCCATATTTGATAGTGGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
30672895 ACCATCCTTTTTCATATTCGAT
1 ACCATCCCTTTTCATATTCGAT
30672917 CGGCATCGAG
Statistics
Matches: 186, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
28 22 0.12
29 164 0.88
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:30672783 original size:86 final size:86
Alignment explanation
Indices: 30672664--30672861 Score: 254
Period size: 86 Copynumber: 2.3 Consensus size: 86
30672654 GATGGCTGAA
* *** *
30672664 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCTCTTTTCATAATCGATGGTTGTCACCATCC
1 ACCAT-CCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATCGATGGTTGTCACCATCC
30672729 CTATTCATAATCGATTG-TCATC
65 CTATTCATAATCGA-TGATCATC
* *
30672751 ACCATCCTTTTCATATTCGGTAGTCAAAACCATCCCTTTTCATATTCGATGGTTGTCACCATCCC
1 ACCATCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATCGATGGTTGTCACCATCCC
* * *
30672816 TTTTCATATTCGATGATCGTC
66 TATTCATAATCGATGATCATC
* *
30672837 ACCACCCCTTTTCATATGCGATAGT
1 ACCA-TCCTTTTCATATTCGATAGT
30672862 TGTCACCATC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
85 2 0.02
86 72 0.75
87 22 0.23
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (86 bp):
ACCATCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATCGATGGTTGTCACCATCCC
TATTCATAATCGATGATCATC
Found at i:30672868 original size:115 final size:116
Alignment explanation
Indices: 30672662--30672916 Score: 343
Period size: 115 Copynumber: 2.2 Consensus size: 116
30672652 ACGATGGCTG
* * * *
30672662 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCTCTTTTCATAATCGATGGTTGTCACCAT
1 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATGATCGTCACCAC
* * *
30672727 CCCTATTCATAATCGATTGTCATCACCAT-CCTTTTCATATTCGGTAGTCA
66 CCCTATTCATAATCGATAGTCATCACCATCCCTTTCCATATTCGATAGTCA
* *
30672777 AAACCATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTCATATTCGATGATCGTCACCAC
1 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATGATCGTCACCAC
* ** * **
30672842 CCCTTTTCAT-ATGCGATAGTTGTCACCATCCCTTTCCATATTTGATAGTGG
66 CCCTATTCATAAT-CGATAGTCATCACCATCCCTTTCCATATTCGATAGTCA
*
30672893 AAACCATCCTTTTTCATATTCGAT
1 AAACCATCCCTTTTCATATTCGAT
30672917 CGGCATCGAG
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
114 2 0.02
115 81 0.66
116 39 0.32
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (116 bp):
AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATGATCGTCACCAC
CCCTATTCATAATCGATAGTCATCACCATCCCTTTCCATATTCGATAGTCA
Found at i:30685571 original size:25 final size:25
Alignment explanation
Indices: 30685531--30685614 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 25
30685521 TCTTGTACAT
* *
30685531 GTATGCTCATATGAGCTATGAATTG
1 GTATGCTCACACGAGCTATGAATTG
*
30685556 GTGTGCTCACACGAGCTATGAATTG
1 GTATGCTCACACGAGCTATGAATTG
** * * *
30685581 GTATGCTCACATAAGCTGTGAGTCG
1 GTATGCTCACACGAGCTATGAATTG
30685606 GTATGCTCA
1 GTATGCTCA
30685615 TAAGAGTTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATGAATTG
Found at i:30687959 original size:13 final size:13
Alignment explanation
Indices: 30687943--30688008 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
30687933 TTTAAACCGA
30687943 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
30687956 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
*
30687969 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
30687982 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
30687995 ACTTTTGAAAAGC
1 ACTTTTCAAAAGC
30688008 A
1 A
30688009 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 1 0.02
13 41 0.93
14 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:30697386 original size:16 final size:16
Alignment explanation
Indices: 30697365--30697415 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30697355 AATTTTATCA
30697365 TTATAAATTTAAAATT
1 TTATAAATTTAAAATT
*
30697381 TTATAAATTATAAAATA
1 TTATAAATT-TAAAATT
* * *
30697398 ATCTAAATTGAAAATT
1 TTATAAATTTAAAATT
30697414 TT
1 TT
30697416 CCATTTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:30698607 original size:31 final size:31
Alignment explanation
Indices: 30698566--30698669 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
30698556 AGATAATTAC
*
30698566 TAATAGTTTAATGATCAAAATGTAAATTTAT
1 TAATAATTTAATGATCAAAATGTAAATTTAT
* * *
30698597 TAATAATTTAATGATC--ATTTTATAATTTTT
1 TAATAATTTAATGATCAAAATGTA-AATTTAT
* *
30698627 TAA-AATTTAATGATAAAAAGGTAAATTTAT
1 TAATAATTTAATGATCAAAATGTAAATTTAT
* *
30698657 TTATAGTTTAATG
1 TAATAATTTAATG
30698670 TTGAATTATT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
29 15 0.26
30 17 0.29
31 26 0.45
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (31 bp):
TAATAATTTAATGATCAAAATGTAAATTTAT
Found at i:30703731 original size:14 final size:11
Alignment explanation
Indices: 30703679--30703732 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
30703669 AATATAATTT
30703679 CAAAACAA-AA
1 CAAAACAACAA
**
30703689 TCAAAATGACAA
1 -CAAAACAACAA
30703701 C-AAACAACAA
1 CAAAACAACAA
30703711 CAAAACAACAA
1 CAAAACAACAA
*
30703722 CAAAGCAACAA
1 CAAAACAACAA
30703733 TGAAAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 8 0.22
11 26 0.72
12 2 0.06
ACGTcount: A:0.69, C:0.24, G:0.04, T:0.04
Consensus pattern (11 bp):
CAAAACAACAA
Found at i:30706996 original size:13 final size:13
Alignment explanation
Indices: 30706957--30707004 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
30706947 ATACTCAAAT
*
30706957 TTTTCAAAAGCAC
1 TTTTCAAAAGTAC
* *
30706970 TTCTCCACAA-TAC
1 TT-TTCAAAAGTAC
30706983 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
30706996 TTTTCAAAA
1 TTTTCAAAA
30707005 ACAATGAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:30708363 original size:13 final size:13
Alignment explanation
Indices: 30708324--30708371 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
30708314 ATACTCAAAT
*
30708324 TTTTCAAAAGCAC
1 TTTTCAAAAGTAC
* *
30708337 TTCTCCACAA-TAC
1 TT-TTCAAAAGTAC
30708350 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
30708363 TTTTCAAAA
1 TTTTCAAAA
30708372 ACAATGAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:30714313 original size:110 final size:106
Alignment explanation
Indices: 30714091--30714320 Score: 316
Period size: 110 Copynumber: 2.1 Consensus size: 106
30714081 TGGATTGAGA
* * * *
30714091 TTTAAGAGTATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCTAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAGGGCACATTT
* * *
30714156 TCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATAT
66 TCGAATTTCCAAACGCAAAACATTACATTATTTTGAAATAT
* * *
30714197 TCTAAAAGGATATTTGGCTATTTGGTCGAACGACAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACG--AAAAATCGAAACCCAGCACATTAGGGCAC-A
* *
30714262 TTTCTCGAATTTCCAAACGCAAAACATTACATTATTTTGAATTTT
63 TTT-TCGAATTTCCAAACGCAAAACATTACATTATTTTGAAATAT
30714307 TTTAAAAGGATATT
1 TTTAAAAGGATATT
30714321 AACATGCGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
106 28 0.26
108 27 0.25
109 3 0.03
110 49 0.46
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCACATTAGGGCACATTT
TCGAATTTCCAAACGCAAAACATTACATTATTTTGAAATAT
Found at i:30714620 original size:2 final size:2
Alignment explanation
Indices: 30714613--30714640 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30714603 ATGTGTATTG
30714613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30714641 GGATTGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30714672 original size:22 final size:22
Alignment explanation
Indices: 30714647--30714694 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30714637 ATATGGATTG
*
30714647 TAAAAATA-ATGTATGTATATTA
1 TAAAAATATATGCATGTATA-TA
*
30714669 TAAAAATATATGCATGTGTATA
1 TAAAAATATATGCATGTATATA
30714691 TAAA
1 TAAA
30714695 TTATAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
TAAAAATATATGCATGTATATA
Found at i:30714716 original size:3 final size:3
Alignment explanation
Indices: 30714708--30714763 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
30714698 TAAATAAGTA
* * *
30714708 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT GAT -AT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30714754 AAT AAT AAT A
1 AAT AAT AAT A
30714764 TTAAAATGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:30728245 original size:25 final size:24
Alignment explanation
Indices: 30728217--30728278 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
30728207 ACACAATACT
**
30728217 TTTAAAAGTCAAAACCCATTAAAA
1 TTTAAAACCCAAAACCCATTAAAA
*
30728241 CTTTAAAACCCAATACCCATTAAAA
1 -TTTAAAACCCAAAACCCATTAAAA
*
30728266 TTTAAAAACCAAA
1 TTTAAAACCCAAA
30728279 TTGAAATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (24 bp):
TTTAAAACCCAAAACCCATTAAAA
Found at i:30728277 original size:24 final size:25
Alignment explanation
Indices: 30728230--30728277 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
30728220 AAAAGTCAAA
*
30728230 ACCCATTAAAACTTTAAAACCCAAT
1 ACCCATTAAAACTTTAAAAACCAAT
30728255 ACCCATTAAAA-TTTAAAAACCAA
1 ACCCATTAAAACTTTAAAAACCAA
30728278 ATTGAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (25 bp):
ACCCATTAAAACTTTAAAAACCAAT
Found at i:30731808 original size:7 final size:7
Alignment explanation
Indices: 30731796--30731829 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
30731786 AGTTTTTTCG
30731796 AGGTTCC
1 AGGTTCC
30731803 AGGTTCC
1 AGGTTCC
*
30731810 AGGTTCT
1 AGGTTCC
30731817 AGGTTCC
1 AGGTTCC
*
30731824 AAGTTC
1 AGGTTC
30731830 ACGGAACCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (7 bp):
AGGTTCC
Found at i:30732745 original size:12 final size:12
Alignment explanation
Indices: 30732730--30732777 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
30732720 AAGATAAAGG
30732730 CTTGATTAAAAA
1 CTTGATTAAAAA
**
30732742 CTTGA-TGGAAA
1 CTTGATTAAAAA
*
30732753 CTTGCTTAAAAA
1 CTTGATTAAAAA
*
30732765 CTTGATGAAAAA
1 CTTGATTAAAAA
30732777 C
1 C
30732778 ACTTGATGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (12 bp):
CTTGATTAAAAA
Found at i:30732783 original size:14 final size:13
Alignment explanation
Indices: 30732760--30732801 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
30732750 AAACTTGCTT
30732760 AAAAACTTGATGA
1 AAAAACTTGATGA
30732773 AAAACACTTGATGA
1 AAAA-ACTTGATGA
*
30732787 AAGAA-TTGATGA
1 AAAAACTTGATGA
30732799 AAA
1 AAA
30732802 GCTTAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 5 0.19
14 12 0.46
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:30732811 original size:22 final size:23
Alignment explanation
Indices: 30732786--30732830 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
30732776 ACACTTGATG
30732786 AAAGAA-TTGATG-AAAAGCTTAA
1 AAAGAACTTGATGCAAAA-CTTAA
30732808 AAAGAACTTGATGCAAAACTTAA
1 AAAGAACTTGATGCAAAACTTAA
30732831 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 11 0.52
24 4 0.19
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (23 bp):
AAAGAACTTGATGCAAAACTTAA
Found at i:30737476 original size:114 final size:111
Alignment explanation
Indices: 30737271--30737697 Score: 386
Period size: 114 Copynumber: 3.8 Consensus size: 111
30737261 TGGCATGGGA
* * ** *
30737271 ATCTTTTACATGGTC-AAAGTTCATATCTACAGGAATGGTAATGCTCGTCTCTGAGGATGTAACT
1 ATCTTTTACATGGTCTAAA-TTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACT
*
30737335 TTAGCCATAGGAGAAGTTACAGGATTCTTGGGGCTATTGGGCAAACCGTT
65 TTAGCCATAGGATAAGTTACAGGATTCTTGGGG-TATT-GGCAAACC-TT
* * * *
30737385 ATCTGTTACATGGTCTAAATTCGTATCTACTGGAATTGTAACACTCGTCTCTGCGGATTCAACTT
1 ATCTTTTACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTT
* *
30737450 TAGCCATGGGATAACTTACAGGATTCTT--GG-A-T---AAACCTTT
66 TAGCCATAGGATAAGTTACAGGATTCTTGGGGTATTGGCAAACC-TT
* ** * * * *
30737490 ACCTTTTACATATTCTAAATTCGTATTTACCGGAATGGTAACACTTGTCTCTGAGGATGCTACTT
1 ATCTTTTACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTT
* * * * * *
30737555 CAGCCTTGGGATAAGTTACAAGATTCTTGGGGTTGTTGGACAAATCTT
66 TAGCCATAGGATAAGTTACAGGATTCTTGGGG-TATTGG-CAAACCTT
* * * * * * *
30737603 CATCCTTTACATGGTCTAAGTTGGTCTCTACTGGAATGGTAGTAGCAC-CATGCTCCGGGGATGC
1 -ATCTTTTACATGGTCTAAATTCGTATCTACTGGAATGGTA--A-CACTCGT-CTCTGAGGATGC
*
30737667 AACTTTAGCCATAGGATTAGTTACAGGATTC
61 AACTTTAGCCATAGGATAAGTTACAGGATTC
30737698 ATAGAGTTGG
Statistics
Matches: 249, Mismatches: 49, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
105 85 0.34
107 2 0.01
109 1 0.00
110 2 0.01
112 2 0.01
113 2 0.01
114 112 0.45
115 3 0.01
116 2 0.01
117 38 0.15
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (111 bp):
ATCTTTTACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTT
TAGCCATAGGATAAGTTACAGGATTCTTGGGGTATTGGCAAACCTT
Found at i:30740731 original size:92 final size:93
Alignment explanation
Indices: 30740617--30740801 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
30740607 TAATTTAAAT
30740617 AAAATAAACGTAATTATCTAAAAAAAATTAATTCAATAGAAAAATTTCTCAGTAAATAAACATAT
1 AAAATAAACGTAATTATCTAAAAAAAATTAATTCAATAGAAAAATTTCTCAGTAAATAAACATAT
30740682 GAAATATTGAAACCTTTTGAAAAAGAAA
66 GAAATATTGAAACCTTTTGAAAAAGAAA
30740710 AAAATAAACG-AATTATCTAAAAAAAATTAATTCAATAGAAAAATTTCTCAGTAAATAAACATAT
1 AAAATAAACGTAATTATCTAAAAAAAATTAATTCAATAGAAAAATTTCTCAGTAAATAAACATAT
30740774 GAAATATTGAAACCTTTTGAAAAAGAAA
66 GAAATATTGAAACCTTTTGAAAAAGAAA
30740802 GAAAGATGGA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 82 0.89
93 10 0.11
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.28
Consensus pattern (93 bp):
AAAATAAACGTAATTATCTAAAAAAAATTAATTCAATAGAAAAATTTCTCAGTAAATAAACATAT
GAAATATTGAAACCTTTTGAAAAAGAAA
Found at i:30742708 original size:28 final size:28
Alignment explanation
Indices: 30742676--30742734 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30742666 GCTGGATTTA
30742676 TTGCACTGCTAGAAAACCATGGATAGTC
1 TTGCACTGCTAGAAAACCATGGATAGTC
*
30742704 TTGCACTGCTAGAAAACCGTGGATAGTC
1 TTGCACTGCTAGAAAACCATGGATAGTC
30742732 TTG
1 TTG
30742735 TAACCTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
TTGCACTGCTAGAAAACCATGGATAGTC
Found at i:30742885 original size:38 final size:39
Alignment explanation
Indices: 30742843--30742926 Score: 154
Period size: 38 Copynumber: 2.2 Consensus size: 39
30742833 AACAAACTTC
30742843 CTCATACATTTT-CATAACAAACAAACTTACTTTTATGA
1 CTCATACATTTTACATAACAAACAAACTTACTTTTATGA
30742881 CTCATAC-TTTTACATAACAAACAAACTTACTTTTATGA
1 CTCATACATTTTACATAACAAACAAACTTACTTTTATGA
30742919 CTCATACA
1 CTCATACA
30742927 AAATAGTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
37 4 0.09
38 40 0.91
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (39 bp):
CTCATACATTTTACATAACAAACAAACTTACTTTTATGA
Found at i:30743328 original size:38 final size:38
Alignment explanation
Indices: 30743282--30743389 Score: 146
Period size: 38 Copynumber: 2.8 Consensus size: 38
30743272 TATGACATAT
* * *
30743282 ATAACAAACAAACTTACTTTTTTTACTCATGCATTTT-C
1 ATAACAAACAAACTTACTTTTATGACTCATAC-TTTTGC
* *
30743320 ATAACAAACAAACTTACTTTTATGACACTTACTTTTGC
1 ATAACAAACAAACTTACTTTTATGACTCATACTTTTGC
*
30743358 GTAACAAACAAACTTACTTTTATGACTCATAC
1 ATAACAAACAAACTTACTTTTATGACTCATAC
30743390 AAAATAGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.07
38 57 0.93
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAACAAACAAACTTACTTTTATGACTCATACTTTTGC
Found at i:30748955 original size:30 final size:30
Alignment explanation
Indices: 30748899--30748955 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
30748889 ATTAGCAATA
* * *
30748899 AATATCAATTTTATACATGCACTTTGATCC
1 AATATCAATTTTACACATGAAATTTGATCC
30748929 AATATGCAA-TTTACACATGAAATTTGA
1 AATAT-CAATTTTACACATGAAATTTGA
30748956 ATTGTAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (30 bp):
AATATCAATTTTACACATGAAATTTGATCC
Found at i:30761433 original size:32 final size:31
Alignment explanation
Indices: 30761383--30761478 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
30761373 CTTAGATAAT
30761383 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
30761414 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
* *
30761446 TTGAAATAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
30761477 TT
1 TT
30761479 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:30767372 original size:24 final size:25
Alignment explanation
Indices: 30767328--30767377 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
30767318 CATGCCTTTG
*
30767328 TATGACTTTTTTTTTTCTTTTGTTT
1 TATGACTTTTTTTTGTCTTTTGTTT
30767353 TATGA-TTTTTTGTTGT-TTTTGTTT
1 TATGACTTTTTT-TTGTCTTTTGTTT
30767377 T
1 T
30767378 GCCTTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.08, C:0.04, G:0.12, T:0.76
Consensus pattern (25 bp):
TATGACTTTTTTTTGTCTTTTGTTT
Found at i:30769313 original size:42 final size:42
Alignment explanation
Indices: 30769267--30769405 Score: 197
Period size: 42 Copynumber: 3.3 Consensus size: 42
30769257 ATAGCTAGCT
*
30769267 ATGGTCTTACACGATTCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* *
30769309 ATGGTCTTACACGAATCTCATATCGATGTCAATGTCCCAGAT
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* * * * *
30769351 ATGGTCTTACATGAATCACATAACGAAGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
*
30769393 ATGATCTTACACG
1 ATGGTCTTACACG
30769406 TAACCACATC
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:30771091 original size:18 final size:17
Alignment explanation
Indices: 30771058--30771096 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
30771048 TTTTATAAAT
30771058 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
30771076 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
30771093 TGTG
1 TGTG
30771097 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:30771364 original size:23 final size:23
Alignment explanation
Indices: 30771338--30771397 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
30771328 GATGGTCTCG
*
30771338 GCTACATTTCAGTGGTAGCTACA
1 GCTACATATCAGTGGTAGCTACA
*
30771361 GCTACATATCAGTGGTAGCTTCA
1 GCTACATATCAGTGGTAGCTACA
30771384 GCTACATATCAGTG
1 GCTACATATCAGTG
30771398 TGGTACTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
GCTACATATCAGTGGTAGCTACA
Found at i:30773958 original size:139 final size:140
Alignment explanation
Indices: 30773706--30773979 Score: 356
Period size: 139 Copynumber: 2.0 Consensus size: 140
30773696 AGGTTACTAT
* *
30773706 CTCACATAACAAGATCATGATATTTAAATTCATATACATTTACAACAAAATTACTTTACGTCATA
1 CTCACATAACAAGATCATGATATTTAAATTCATATACATGTACAACAAAACTACTTTACGTCATA
* * * * **
30773771 CTATTTAACCTTGTTCAATACGAAAGGGCATCAAAGGAATTTACATTCAATCATTCCATTACCAT
66 CCATTCAACCTTGTTCAATACGAAAGCGCATCAAAGAAATCCACATTCAATCATTCCATTACCAT
30773836 TTAATAGTAC
131 TTAATAGTAC
* * * *
30773846 CTCACATGACAAGATCATGGTA-TT-AATTCCATATACATGTACAACCAAACTACTTTACGTTAT
1 CTCACATAACAAGATCATGATATTTAAATT-CATATACATGTACAACAAAACTACTTTACGTCAT
* * * * *
30773909 ACCATTCAACCTTGTTCAATATGTAAA-CTCATCAACGAAATCCATATTCAATCATTTCATTACC
65 ACCATTCAACCTTGTTCAATACG-AAAGCGCATCAAAGAAATCCACATTCAATCATTCCATTACC
30773973 ATTTAAT
129 ATTTAAT
30773980 TTTCATTTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
138 4 0.03
139 88 0.77
140 23 0.20
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (140 bp):
CTCACATAACAAGATCATGATATTTAAATTCATATACATGTACAACAAAACTACTTTACGTCATA
CCATTCAACCTTGTTCAATACGAAAGCGCATCAAAGAAATCCACATTCAATCATTCCATTACCAT
TTAATAGTAC
Found at i:30774201 original size:71 final size:71
Alignment explanation
Indices: 30774126--30774279 Score: 202
Period size: 71 Copynumber: 2.2 Consensus size: 71
30774116 CGTATGTTGG
* *
30774126 ATCTCAACCATTGATAAAGAATGATTCGATGCTACTCACTCAAGCTATCGAGAAT-TCGCAACAT
1 ATCTCAACCATCGATAAAGAATGATTCGATGATACTCACTCAAGCTATCGAGAATCT-GCAACAT
*
30774190 GTGCTAA
65 ATGCTAA
* * * *
30774197 ATCTCAACCGTCGATAAAGAATGATTTGATGATACTCACTCAAGCTGTTGAGAATCTGCAACATA
1 ATCTCAACCATCGATAAAGAATGATTCGATGATACTCACTCAAGCTATCGAGAATCTGCAACATA
* *
30774262 TGTTAG
66 TGCTAA
*
30774268 ATCTCAGCCATC
1 ATCTCAACCATC
30774280 AAATTAATTC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 70 0.99
72 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (71 bp):
ATCTCAACCATCGATAAAGAATGATTCGATGATACTCACTCAAGCTATCGAGAATCTGCAACATA
TGCTAA
Found at i:30787027 original size:20 final size:22
Alignment explanation
Indices: 30786988--30787027 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30786978 GAAAAATATT
*
30786988 AAATATATATATTTTATTTTTA
1 AAATATATATAGTTTATTTTTA
30787010 AAATATA-ATAGTTT-TTTT
1 AAATATATATAGTTTATTTT
30787028 ATTTTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
AAATATATATAGTTTATTTTTA
Found at i:30789174 original size:28 final size:30
Alignment explanation
Indices: 30789121--30789178 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
30789111 ATAAGAGAAG
*
30789121 AGAATGAAGGAAAAATGATAAAGAAAGGAA
1 AGAATGAAGAAAAAATGATAAAGAAAGGAA
30789151 AGAAT-AAGAAAAAAT-A-AAAGGAAAGGAA
1 AGAATGAAGAAAAAATGATAAA-GAAAGGAA
30789179 GGAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 9 0.35
29 9 0.35
30 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (30 bp):
AGAATGAAGAAAAAATGATAAAGAAAGGAA
Found at i:30797389 original size:2 final size:2
Alignment explanation
Indices: 30797382--30797420 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30797372 TATAATTTGG
30797382 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30797421 TTGTGCACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:30799418 original size:23 final size:23
Alignment explanation
Indices: 30799359--30799426 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
30799349 AAATCAAATT
* * *
30799359 AATATAAATTAATCTAATTAAAC
1 AATAAAAAATAATCCAATTAAAC
30799382 --T-AAAAATCAA-CCAATTAAAC
1 AATAAAAAAT-AATCCAATTAAAC
*
30799402 AATAAAAAATAATCCAATAAAAC
1 AATAAAAAATAATCCAATTAAAC
30799425 AA
1 AA
30799427 GCAAGAGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 3 0.08
23 17 0.47
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
AATAAAAAATAATCCAATTAAAC
Found at i:30799742 original size:15 final size:15
Alignment explanation
Indices: 30799722--30799774 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
30799712 AACCCGTTTT
30799722 CAATGGTATTGGAAA
1 CAATGGTATTGGAAA
*
30799737 CAATGGT-TTCGAGACCA
1 CAATGGTATT-G-GA-AA
30799754 CAA-GGTATTGGAAA
1 CAATGGTATTGGAAA
30799768 CAATGGT
1 CAATGGT
30799775 TTCGAGACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 6 0.19
15 13 0.42
16 6 0.19
17 6 0.19
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (15 bp):
CAATGGTATTGGAAA
Found at i:30799764 original size:31 final size:31
Alignment explanation
Indices: 30799726--30799787 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30799716 CGTTTTCAAT
30799726 GGTATTGGAAACAATGGTTTCGAGACCACAA
1 GGTATTGGAAACAATGGTTTCGAGACCACAA
30799757 GGTATTGGAAACAATGGTTTCGAGACCACAA
1 GGTATTGGAAACAATGGTTTCGAGACCACAA
30799788 TTTTGACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (31 bp):
GGTATTGGAAACAATGGTTTCGAGACCACAA
Found at i:30807333 original size:85 final size:83
Alignment explanation
Indices: 30807192--30807367 Score: 246
Period size: 85 Copynumber: 2.1 Consensus size: 83
30807182 TATGACTTCA
* * * *
30807192 ATCTACTCTACTGCAACTTCATGGGAATGAGATTTGGTTTTAGTCTGCTCCACTGCAACTTCAGG
1 ATCTGCTCTACTGCAACTTCATGGGAATAAGATTTGGTTTTAATCCGCTCCACTGCAACTTCAGG
*
30807257 GAGGTAAGACTGGATGCG
66 GAGATAAGACTGGATGCG
*
30807275 ATCTGCTCTACTGCAACTTCA-GAGGGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
1 ATCTGCTCTACTGCAACTTCATG-GGAATAAGAT-T-TGGTTTTAATCCGCTCCACTGCAACTTC
* *
30807339 AGGGAGATAAGACTTGATGTG
63 AGGGAGATAAGACTGGATGCG
30807360 ATCTGCTC
1 ATCTGCTC
30807368 CACTACTGCT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 1 0.01
83 28 0.34
84 1 0.01
85 52 0.63
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (83 bp):
ATCTGCTCTACTGCAACTTCATGGGAATAAGATTTGGTTTTAATCCGCTCCACTGCAACTTCAGG
GAGATAAGACTGGATGCG
Found at i:30807429 original size:84 final size:84
Alignment explanation
Indices: 30807339--30808230 Score: 1100
Period size: 84 Copynumber: 10.7 Consensus size: 84
30807329 CTGCAACTTC
30807339 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
* *
30807404 GTTTGCTCTACTACTGCTT
66 GTCTGCTCCACTACTGCTT
* * *
30807423 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTACTTAGTGAGATGAGATCTGGTTTCTTTC
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
30807488 GTCTGCTCCACTACTGCTT
66 GTCTGCTCCACTACTGCTT
* ** *
30807507 AGGGAGATAAGACTTAATAAGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTC
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
30807572 GTCTGCTCCACTACTGCTT
66 GTCTGCTCCACTACTGCTT
* * *
30807591 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTATGGAGATAAGATTTGGTTTTTTTC
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
30807656 GTCTGCTCCACTACTGCTT
66 GTCTGCTCCACTACTGCTT
*
30807675 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTC
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
30807740 GTCTGCTCCACTACTGCTT
66 GTCTGCTCCACTACTGCTT
* * *
30807759 AGGGAGATAAGGCTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTC--T
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-GTTTCTTT
30807822 -GTCTGCTCCACTACTGCTT
65 CGTCTGCTCCACTACTGCTT
* * * *
30807841 AGGGAGATGAGACTTGATGCGATTTGCTCCATTACTGCTTAGGGAGATAAGATCTATGG-TTC--
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--TGGTTTCTT
30807903 T-GTCTGCTCCACTACTGCTT
64 TCGTCTGCTCCACTACTGCTT
* * *
30807923 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAATATCT-ATAGT-TTT
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGT-TTCTTT
** * * * **
30807986 AATCCGCTCCATTGCAACTT
65 CGTCTGCTCCACTACTGCTT
* * *
30808006 CAGGGAGATATGA-TTGGTTTTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TT
1 -AGGGAGATAAGACTT-G--ATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
** * * *
30808064 GATGCGATCTACTCCACTACTACTT
61 CTTTCG-TCTGCTCCACTACTGCTT
* * * * * ** *
30808089 AGGGAGATAAGATCTGTGATTTTAATCCGCTCCATTGCAACTTCAGGGAGATATGAT-TGGTTT-
1 AGGGAGATAAGA-CT-TGA-TGTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGGTTTC
30808152 TTTCGTCTGCTCCACTACTGCTT
62 TTTCGTCTGCTCCACTACTGCTT
* *
30808175 AGGGAGATAAGACTTGATGTGGTCTACTCCACTACTGCTTAGGGAGATAAGATCTG
1 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
30808231 TGGTTTTAAT
Statistics
Matches: 700, Mismatches: 81, Indels: 55
0.84 0.10 0.07
Matches are distributed among these distances:
80 1 0.00
81 2 0.00
82 164 0.23
83 62 0.09
84 398 0.57
85 8 0.01
86 59 0.08
87 4 0.01
88 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (84 bp):
AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTC
GTCTGCTCCACTACTGCTT
Found at i:30808038 original size:43 final size:41
Alignment explanation
Indices: 30807323--30808227 Score: 367
Period size: 40 Copynumber: 21.7 Consensus size: 41
30807313 GTTTTAATCC
* * *
30807323 GCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATGT-GATCT
1 GCTCCACTACAACTT-AGGGAGATAAGA-TTGTTTTTTCG-TCT
** *
30807364 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTTT
1 GCTCCACTACAACTTAGGGAGATAAGAT-T-GTTT-TTTCGTCT
* ** * *
30807408 GCTCTACTACTGCTTAGGGAGATAAGACTTG--ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
* * *
30807448 GCTCCACTACTACTTAGTGAGATGAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-T-GTTT-TTTCGTCT
** * ** **
30807492 GCTCCACTACTGCTTAGGGAGATAAGA--CTTAATAAGATCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGTTTTTTCG-TCT
*
30807532 GCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-T-GTTT-TTTCGTCT
** * *
30807576 GCTCCACTACTGCTTAGGGAGATAAGACTTG--ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
** *
30807616 GCTCCACTACTGCTTATGGAGATAAGATTTGGTTTTTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TT-G-TTTTTTCGTCT
** * *
30807660 GCTCCACTACTGCTTAGGGAGATAAGACTTG--ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
*
30807700 GCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-T-GTTT-TTTCGTCT
** * * *
30807744 GCTCCACTACTGCTTAGGGAGATAAGGCTTG--ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAA-GATTGTTTTTTCG-TCT
** **
30807784 GCTCCACTACTGCTTAGGGAGATAAGATT-TGTGGTTCTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGT-TTTTTC-GTCT
** * * * *
30807826 GCTCCACTACTGCTTAGGGAGATGAGACTTG---ATGCGATTT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
* ** * **
30807866 GCTCCATTACTGCTTAGGGAGATAAGATCT-ATGGTTCTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGTTTTTTC-GTCT
** * *
30807908 GCTCCACTACTGCTTAGGGAGATAAGACTTG--ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
** * * * ** *
30807948 GCTCCACTACTGCTTAGGGAGATAATATCTATAGTTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGT-TTTTTCGTCT
* * *
30807991 GCTCCATTGCAACTTCAGGGAGATATGATTGGTTTTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATT-GTTTTTTCGTCT
** * *
30808034 GCTCCACTACTGCTTAGGGAGATAAGACTTG---ATGCGATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCG-TCT
* * * ** *
30808074 ACTCCACTACTACTTAGGGAGATAAGATCTGTGATTTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGT-TTTTTCGTCT
* * *
30808117 GCTCCATTGCAACTTCAGGGAGATATGATTGGTTTTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATT-GTTTTTTCGTCT
** * * *
30808160 GCTCCACTACTGCTTAGGGAGATAAGACTTG--ATGTGGTCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGTTTTTTCGTCT
* **
30808200 ACTCCACTACTGCTTAGGGAGATAAGAT
1 GCTCCACTACAACTTAGGGAGATAAGAT
30808228 CTGTGGTTTT
Statistics
Matches: 681, Mismatches: 114, Indels: 140
0.73 0.12 0.15
Matches are distributed among these distances:
39 21 0.03
40 289 0.42
41 18 0.03
42 84 0.12
43 77 0.11
44 182 0.27
45 10 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (41 bp):
GCTCCACTACAACTTAGGGAGATAAGATTGTTTTTTCGTCT
Found at i:30808364 original size:50 final size:50
Alignment explanation
Indices: 30808308--30808775 Score: 273
Period size: 50 Copynumber: 9.4 Consensus size: 50
30808298 ACAGTATCGC
* * * *
30808308 CAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATTTTTTAAATTGCAATGT
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
* * * * * **** * *
30808358 CGGGGAAGCAAGATTCGCCGTCGTAGCTTTAAT-TTGCCCCACT--ATATCGC
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTT-TTAAATTGCA-AT-GT
* * * *
30808408 CATGGAAGTAAGATTCACCGTTGCAGCTTCAATATTTTTAATTGCAATGT
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
* * ** ** *
30808458 CGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTAATCCATTGC-ATCGC
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAAT-GT
* * * *
30808507 CAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATCT
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
* * * ** ** * * ** *
30808557 CAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGC
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
* * * *
30808607 CAGGGAAGTAAGATTCATCGTTGCGGCTTCAATATTTTAAATTGCAATGT
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
* * * * * ** ** * *
30808657 CGGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTACTCCACTGC-ATCGC
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAAT-GT
* * ** * *
30808707 CATGGAAGTAAGATTTGCCGTTGCGGCTTCAATATTTTAAATTGCAATGT
1 CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
*
30808757 TAGGGAAGCAAGATTCACC
1 CAGGGAAGCAAGATTCACC
30808776 ATCGTAGCTT
Statistics
Matches: 294, Mismatches: 113, Indels: 22
0.69 0.26 0.05
Matches are distributed among these distances:
48 3 0.01
49 42 0.14
50 240 0.82
51 8 0.03
52 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (50 bp):
CAGGGAAGCAAGATTCACCGTTGCAGCTTCAATCTTTTAAATTGCAATGT
Found at i:30808812 original size:50 final size:50
Alignment explanation
Indices: 30808260--30808821 Score: 228
Period size: 50 Copynumber: 11.3 Consensus size: 50
30808250 TGCAATGTCG
** * * * *
30808260 GGGAAGCAAGATTCACTATTGTAGCTTTAATCTGCTCAACAGTATCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * ** * * ** ** * * * *
30808310 GGGAAGTAAGATTCGCCGTTGCGGCTTCAATTTTTTAAATTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * * * ** *
30808360 GGGAAGCAAGATTCGCCGTCGTAGCTTTAATTTGCCCCACTATATCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * * * * ** ** * * * *
30808410 TGGAAGTAAGATTCACCGTTGCAGCTTCAATATTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* ** * *
30808460 GGGAA-CAAGATTCACCGTTGTAGCTTCAATCTAATCCATTGCATCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * ** * ** ** * *
30808509 GGAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATC-TCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAA-CGCCA
* * *
30808559 GGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * ** * * ** ** * * * *
30808609 GGGAAGTAAGATTCATCGTTGCGGCTTCAATATTTTAAATTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * * *
30808659 GGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTACTCCACTGCATCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * ** ** * * ** ** * * **
30808709 TGGAAGTAAGATTTGCCGTTGCGGCTTCAATATTTTAAATTGCAATGTTA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
* * *
30808759 GGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGCACCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
*
30808809 GGGAAGTAAGATT
1 GGGAAGCAAGATT
30808822 TGATATGATC
Statistics
Matches: 348, Mismatches: 161, Indels: 6
0.68 0.31 0.01
Matches are distributed among these distances:
49 38 0.11
50 309 0.89
51 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCAACGCCA
Found at i:30808823 original size:100 final size:100
Alignment explanation
Indices: 30808250--30808821 Score: 786
Period size: 100 Copynumber: 5.7 Consensus size: 100
30808240 TCTGATTAAC
** * * * *
30808250 TGCAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTTAATCTGCTCAACAGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
30808315 GTAAGATTCGCCGTTGCGGCTTCAATTTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
* * * ** *
30808350 TGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATTTGCCCCACTATATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* *
30808415 GTAAGATTCACCGTTGCAGCTTCAATATTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
* * ** * *
30808450 TGCAATGTCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTAATCCATTGCATCGCCAGGAAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
*
30808514 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
* * * *
30808549 TGCAATCTCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
*
30808614 GTAAGATTCATCGTTGCGGCTTCAATATTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
* * * * *
30808649 TGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
**
30808714 GTAAGATTTGCCGTTGCGGCTTCAATATTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
** * *
30808749 TGCAATGTTAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
30808814 GTAAGATT
66 GTAAGATT
30808822 TGATATGATC
Statistics
Matches: 409, Mismatches: 62, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
99 82 0.20
100 327 0.80
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
GTAAGATTCACCGTTGCGGCTTCAATATTTTAAAT
Found at i:30809066 original size:133 final size:132
Alignment explanation
Indices: 30808857--30809133 Score: 419
Period size: 133 Copynumber: 2.1 Consensus size: 132
30808847 TCAGAGAGAT
* * *
30808857 AAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTACATATTCGATCC
* *
30808922 ACTTCCTACCAATATAAGAAGATAGGACCTGCTATCTTCGATCTACTTCACTGCCAACACGGGAA
66 ACTTCCTACCAATATAAGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAACACAGGAA
30808987 GAC
130 GAC
* ** *
30808990 AAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTACATATTTGATCC
1 AAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTACATATTCGATCC
* * * *
30809055 ACTTCCTACCAATATAGGAAGACAGGACCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAG
66 ACTTCCTACCAATATAAGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAACACAGGAAG
30809120 AC
131 AC
*
30809122 AAGATCTACTTT
1 AAGATCTGCTTT
30809134 AATGACTTCA
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
132 24 0.18
133 106 0.82
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (132 bp):
AAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTACATATTCGATCC
ACTTCCTACCAATATAAGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAACACAGGAAG
AC
Found at i:30809111 original size:44 final size:44
Alignment explanation
Indices: 30808857--30809128 Score: 221
Period size: 45 Copynumber: 6.2 Consensus size: 44
30808847 TCAGAGAGAT
* * * * * *
30808857 AAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* * *
30808902 AAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAAGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * **
30808945 AGGACCTGCTATCTTCGATCTACTTCACTGCCAACACGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* * *
30808990 AAGATCTGCTTTCTTCGATCTACTTTGCC-ACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTAC-TT-CCTACCAATATAGGAAGAC
* *
30809035 AAGATCTACATAT-TT-GATCCACTTCCTACCAATATAGGAAGAC
1 AAGATCTGC-TATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * * *
30809078 AGGACCTGCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
30809122 AAGATCT
1 AAGATCT
30809129 ACTTTAATGA
Statistics
Matches: 178, Mismatches: 40, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
42 4 0.02
43 44 0.25
44 61 0.34
45 63 0.35
46 5 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
Found at i:30809335 original size:15 final size:15
Alignment explanation
Indices: 30809295--30809335 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
30809285 TAACTAGATG
*
30809295 TGTATGAAAGATATT
1 TGTATGAATGATATT
*
30809310 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
30809326 TGTATGAATG
1 TGTATGAATG
30809336 TAGAATGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:30810092 original size:13 final size:13
Alignment explanation
Indices: 30810046--30810086 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
30810036 TTGGCCTCTC
30810046 CTTTTC-TTTTTT
1 CTTTTCTTTTTTT
* *
30810058 C-GTTCTTCTTTT
1 CTTTTCTTTTTTT
30810070 CTTTTCTTTTTTT
1 CTTTTCTTTTTTT
30810083 CTTT
1 CTTT
30810087 GTTTTTCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 3 0.13
12 7 0.30
13 13 0.57
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (13 bp):
CTTTTCTTTTTTT
Found at i:30810556 original size:8 final size:8
Alignment explanation
Indices: 30810545--30810582 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
30810535 TTATTTTTGG
30810545 TTTTTG-T
1 TTTTTGTT
30810552 TTTTTGTT
1 TTTTTGTT
30810560 TTTTTGTT
1 TTTTTGTT
*
30810568 TTTTTTTAT
1 TTTTTGT-T
30810577 TTTTTG
1 TTTTTG
30810583 CGTCCACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 15 0.56
9 6 0.22
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (8 bp):
TTTTTGTT
Found at i:30810571 original size:7 final size:7
Alignment explanation
Indices: 30810538--30810571 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
30810528 TTTTCTTTTA
*
30810538 TTTTTGG
1 TTTTTGT
30810545 TTTTTGT
1 TTTTTGT
30810552 TTTTTGTT
1 TTTTTG-T
30810560 TTTTTGT
1 TTTTTGT
30810567 TTTTT
1 TTTTT
30810572 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTTGT
Found at i:30817848 original size:6 final size:6
Alignment explanation
Indices: 30817839--30817876 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
30817829 TTCAAACTCA
* *
30817839 AATTGG AATTGG AATTAG AATTAG AATTAG AATT-G AAT
1 AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG AAT
30817877 ATATTTGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (6 bp):
AATTAG
Found at i:30824458 original size:6 final size:6
Alignment explanation
Indices: 30824449--30824494 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
30824439 TTCAAACTCA
* *
30824449 AATTGG AATTGG AATTAG AATTAG AATTAG AATTAG AATTAG AATT
1 AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG AATTAG AATT
30824495 GAACATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.35
Consensus pattern (6 bp):
AATTAG
Found at i:30828170 original size:41 final size:41
Alignment explanation
Indices: 30828063--30828378 Score: 510
Period size: 41 Copynumber: 7.7 Consensus size: 41
30828053 GACCTTTCGG
* *
30828063 GGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
30828104 GAGC-TTT-GCGGCGTTTTTGAGAAAGCGCCGCTAATACTCA
1 G-GCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
30828144 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
30828185 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
30828226 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
30828267 GGCTTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * *
30828308 GGCTTTTAGCGGTGTTTGTCAGAAAGCGTCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
30828349 GGCTTTTAGCGGTGTTTTTGAAAAAGCGCC
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCC
30828379 ACAAAAACAT
Statistics
Matches: 256, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 34 0.13
41 218 0.85
42 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:30828864 original size:7 final size:7
Alignment explanation
Indices: 30828852--30828877 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30828842 ACAGTAAGGC
30828852 GTTAGGG
1 GTTAGGG
30828859 GTTAGGG
1 GTTAGGG
30828866 GTTAGGG
1 GTTAGGG
30828873 GTTAG
1 GTTAG
30828878 AGATTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (7 bp):
GTTAGGG
Done.