Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2259
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: 410483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 3
Found at i:209976 original size:18 final size:18
Alignment explanation
Indices: 209946--209992 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
209936 ATCTTCTTCT
209946 CTCCTC-CTCCTATCATCC
1 CTCCTCTCT-CTATCATCC
* *
209964 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATCATCC
*
209982 CTCCTGTCTCT
1 CTCCTCTCTCT
209993 CCTCCTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.09, C:0.47, G:0.02, T:0.43
Consensus pattern (18 bp):
CTCCTCTCTCTATCATCC
Found at i:210001 original size:42 final size:42
Alignment explanation
Indices: 209949--210067 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
209939 TTCTTCTCTC
* *
209949 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCGGTCT
* * *
209991 CTCCTCCTATCATTCCTCTTATCTCTACTATCTCTCCGGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCGGTCT
* *
210033 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
210068 TTGAGGGCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCGGTCT
Found at i:213127 original size:13 final size:13
Alignment explanation
Indices: 213109--213134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213099 TACAGCAAGT
213109 ATGTATCGATACA
1 ATGTATCGATACA
213122 ATGTATCGATACA
1 ATGTATCGATACA
213135 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:214354 original size:23 final size:24
Alignment explanation
Indices: 214309--214355 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
214299 CAAAGGATTG
*
214309 AACACAAATTCAATTAAGCATAAA
1 AACACAAATTCAATTAAGAATAAA
214333 AACACAAATT-AATTGAA-AATAAA
1 AACACAAATTCAATT-AAGAATAAA
214356 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.62, C:0.13, G:0.04, T:0.21
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAATAAA
Found at i:216852 original size:34 final size:35
Alignment explanation
Indices: 216814--216880 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
216804 CCTTACAACA
216814 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
216848 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
216881 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:217377 original size:13 final size:13
Alignment explanation
Indices: 217359--217384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217349 CTATTTATGA
217359 TGTATCGATACAC
1 TGTATCGATACAC
217372 TGTATCGATACAC
1 TGTATCGATACAC
217385 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:217528 original size:22 final size:22
Alignment explanation
Indices: 217473--217528 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
217463 ACAATGACCT
217473 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
217495 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
217516 ATGAACAGTGATG
1 ATGAACAGTGATG
217529 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:217535 original size:10 final size:10
Alignment explanation
Indices: 217516--217545 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
217506 GTATCGATAC
217516 ATGAACAGTG
1 ATGAACAGTG
*
217526 ATGAATAGTG
1 ATGAACAGTG
217536 ATGAACAGTG
1 ATGAACAGTG
217546 GAAAATGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:217635 original size:53 final size:53
Alignment explanation
Indices: 217571--217707 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
217561 CTACTTCCAA
217571 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
217624 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
217677 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
217708 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:217740 original size:20 final size:20
Alignment explanation
Indices: 217677--217747 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
217667 GCCAATGTCC
**
217677 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
217697 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
217717 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
217737 TGTATCGATAC
1 TGTATCGATAC
217748 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:217813 original size:21 final size:21
Alignment explanation
Indices: 217787--217827 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
217777 GTCAACCTTG
217787 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
217808 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
217828 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:223446 original size:42 final size:42
Alignment explanation
Indices: 223391--223509 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
223381 TTCTTCTCTC
* * *
223391 CTCCTCCTGTCATCTCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
223433 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
223475 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
223510 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:223450 original size:12 final size:11
Alignment explanation
Indices: 223424--223499 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
223414 TCTATTATCT
*
223424 CTCCTGTCTCTC
1 CTCCTATCTC-C
223436 CTCCTATCATCC
1 CTCCTATC-TCC
223448 CTCCTATCT--
1 CTCCTATCTCC
*
223457 CTACTATCT--
1 CTCCTATCTCC
*
223466 CTCCTGTCTCTC
1 CTCCTATCTC-C
223478 CTCCTATCATCC
1 CTCCTATC-TCC
*
223490 CTCCTCTCTC
1 CTCCTATCTC
223500 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:223451 original size:24 final size:24
Alignment explanation
Indices: 223415--223500 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
223405 TCTCCTCTCT
* *
223415 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
223439 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
223460 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
223481 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
223501 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:223475 original size:9 final size:9
Alignment explanation
Indices: 223402--223479 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
223392 TCCTCCTGTC
223402 ATCTCTCCT
1 ATCTCTCCT
* **
223411 CTCTCTATT
1 ATCTCTCCT
223420 ATCTCTCCT
1 ATCTCTCCT
*
223429 GTCTCTCCT
1 ATCTCTCCT
* *
223438 -CCTAT-C-
1 ATCTCTCCT
*
223444 ATCCCTCCT
1 ATCTCTCCT
*
223453 ATCTCTACT
1 ATCTCTCCT
223462 ATCTCTCCT
1 ATCTCTCCT
*
223471 GTCTCTCCT
1 ATCTCTCCT
223480 CCTATCATCC
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
9 43 0.86
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (9 bp):
ATCTCTCCT
Found at i:223475 original size:18 final size:18
Alignment explanation
Indices: 223402--223476 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 18
223392 TCCTCCTGTC
* *
223402 ATCTCTCCTCTCTCTATT
1 ATCTCTCCTGTCTCTACT
*
223420 ATCTCTCCTGTCTCTCCTCCT
1 ATCTCTCCTG--TCT-CTACT
*
223441 ATCATCCCTCCTATCTCTACT
1 ATC-T--CTCCTGTCTCTACT
223462 ATCTCTCCTGTCTCT
1 ATCTCTCCTGTCTCT
223477 CCTCCTATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 19 0.42
20 4 0.09
21 13 0.29
22 4 0.09
24 5 0.11
ACGTcount: A:0.11, C:0.43, G:0.03, T:0.44
Consensus pattern (18 bp):
ATCTCTCCTGTCTCTACT
Found at i:225696 original size:13 final size:13
Alignment explanation
Indices: 225678--225702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
225668 ACTGAAGCAA
225678 TGTATCGATACAT
1 TGTATCGATACAT
225691 TGTATCGATACA
1 TGTATCGATACA
225703 ATTTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:228756 original size:34 final size:35
Alignment explanation
Indices: 228718--228784 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
228708 CCTTACAACA
228718 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
228752 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
228785 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:229281 original size:13 final size:13
Alignment explanation
Indices: 229263--229288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
229253 CTATTTATGA
229263 TGTATCGATACAC
1 TGTATCGATACAC
229276 TGTATCGATACAC
1 TGTATCGATACAC
229289 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:229433 original size:22 final size:22
Alignment explanation
Indices: 229378--229433 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
229368 ACAATGACCT
229378 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
229400 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
229421 ATGAACAGTGATG
1 ATGAACAGTGATG
229434 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:229440 original size:10 final size:10
Alignment explanation
Indices: 229421--229450 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
229411 GTATCGATAC
229421 ATGAACAGTG
1 ATGAACAGTG
*
229431 ATGAATAGTG
1 ATGAACAGTG
229441 ATGAACAGTG
1 ATGAACAGTG
229451 GAAAATGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:229540 original size:53 final size:53
Alignment explanation
Indices: 229476--229612 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
229466 CTACTTCCAA
229476 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
229529 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
229582 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
229613 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:229645 original size:20 final size:20
Alignment explanation
Indices: 229582--229652 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
229572 GCCAATGTCC
**
229582 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
229602 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
229622 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
229642 TGTATCGATAC
1 TGTATCGATAC
229653 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:229718 original size:21 final size:21
Alignment explanation
Indices: 229692--229732 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
229682 GTCAACCTTG
229692 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
229713 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
229733 TTTTACTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:232145 original size:13 final size:13
Alignment explanation
Indices: 232127--232155 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
232117 AAATAGTAAC
232127 CAATGTATCGATA
1 CAATGTATCGATA
232140 CAATGTATCGATA
1 CAATGTATCGATA
232153 CAA
1 CAA
232156 GGAATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:238167 original size:20 final size:20
Alignment explanation
Indices: 238126--238168 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
238116 ACAAGCAATG
* *
238126 TGTATTGATACAATTCATCA
1 TGTATCGATACAATTCACCA
238146 TGTATCGATACAATGT-ACCA
1 TGTATCGATACAAT-TCACCA
238166 TGT
1 TGT
238169 GTCGTAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATTCACCA
Found at i:241328 original size:52 final size:52
Alignment explanation
Indices: 241243--241367 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
241233 ATATGAAAAG
*
241243 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGCAAAT
1 TTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAAT
* *
241295 TTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAAT
*
241347 TTGCCTGCATGTATCGATACA
1 TTGCTTGCATGTATCGATACA
241368 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCTTGCATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAAT
Found at i:241380 original size:52 final size:51
Alignment explanation
Indices: 241243--241387 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
241233 ATATGAAAAG
241243 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGAGCAAAT
1 TTGCTTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGAGCAAAT
* * *
241295 TTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCTTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGAGCAAAT
* *
241347 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCTTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
241388 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCTTGCATGTATCGATACATTAATAGTGTATCGATACATCTGAGCAAAT
Found at i:241381 original size:20 final size:20
Alignment explanation
Indices: 241356--241421 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
241346 TTTGCCTGCA
241356 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
241376 TGTATCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
241389 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
241409 TGTATCGATACAA
1 TGTATCGATACAA
241422 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 24 0.62
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:241394 original size:13 final size:13
Alignment explanation
Indices: 241376--241433 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
241366 CAAAGATCAG
241376 TGTATCGATACAA
1 TGTATCGATACAA
241389 TGTATCGATACAA
1 TGTATCGATACAA
*
241402 ---A--GAT-CAG
1 TGTATCGATACAA
241409 TGTATCGATACAA
1 TGTATCGATACAA
241422 TGTATCGATACA
1 TGTATCGATACA
241434 TTTGAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 27 0.73
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:241397 original size:33 final size:33
Alignment explanation
Indices: 241355--241433 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
241345 ATTTGCCTGC
241355 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
241388 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
241421 ATGTATCGATACA
1 ATGTATCGATACA
241434 TTTGAGTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACA
Found at i:242138 original size:67 final size:68
Alignment explanation
Indices: 242016--242142 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
242006 ATTGGGTTTT
* * *
242016 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
242081 AGA
66 AGA
* * * *
242084 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
242143 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:242192 original size:55 final size:52
Alignment explanation
Indices: 242092--242511 Score: 355
Period size: 49 Copynumber: 8.6 Consensus size: 52
242082 GAAAAGTGAT
* * * * * * **
242092 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
242146 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
242199 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
242242 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACA-TTGAACTTAAAGATGGA
* *
242293 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
242341 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
242389 AAAGGTGCTAATATGCTGATTCAAGGCCAGCTATATTGGAA--T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGA
* *
242432 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
242482 -AAGGTGCCAATATGTTGATTCAAGGCCAGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGC
242512 GATATTAGGC
Statistics
Matches: 317, Mismatches: 29, Indels: 45
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 69 0.22
44 7 0.02
45 1 0.00
46 1 0.00
48 15 0.05
49 139 0.44
50 3 0.01
51 1 0.00
52 32 0.10
53 6 0.02
54 5 0.02
55 36 0.11
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:242234 original size:22 final size:22
Alignment explanation
Indices: 242209--242274 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
242199 AAAGGTGCCA
242209 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
*
242231 ATAT--TGGACTTAAAGGTGCCA---
1 ATATGCT-GA-TTCAA-G-GCCAGCT
242252 ATATGCTGATTCAAGGCCAGCT
1 ATATGCTGATTCAAGGCCAGCT
242274 A
1 A
242275 CATTTGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 10 0.30
22 11 0.33
23 2 0.06
24 4 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ATATGCTGATTCAAGGCCAGCT
Found at i:242267 original size:21 final size:21
Alignment explanation
Indices: 242200--242267 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
242190 AAAGATGGAA
242200 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* ** *
242221 AA-G-GCCAGCTATATTGGACTTA
1 AAGGTGCCA-ATATGCT-GA-TTC
242243 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
242264 AAGG
1 AAGG
242268 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 5 0.15
21 10 0.29
22 6 0.18
23 5 0.15
24 4 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:242308 original size:49 final size:48
Alignment explanation
Indices: 242155--242511 Score: 455
Period size: 49 Copynumber: 7.5 Consensus size: 48
242145 AAAAGGATGT
* *
242155 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGC
*
242207 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
242250 CAATATGCTGATTCAAGGCCAGCTACATTTGGACTTAAAGGTGAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACA-TTGGACTTAAAGATGAGGTGC
*
242299 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
* * *
242348 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGC
* * *
242397 TAATATGCTGATTCAAGGCCAGCTATATTGGAATT--A-A--AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
*
242440 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
*
242489 CAATATGTTGATTCAAGGCCAGC
1 CAATATGCTGATTCAAGGCCAGC
242512 GATATTAGGC
Statistics
Matches: 271, Mismatches: 20, Indels: 31
0.84 0.06 0.10
Matches are distributed among these distances:
43 69 0.25
44 8 0.03
45 1 0.00
46 3 0.01
47 1 0.00
48 14 0.05
49 142 0.52
50 1 0.00
52 32 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGC
Found at i:242317 original size:92 final size:93
Alignment explanation
Indices: 242146--242517 Score: 518
Period size: 92 Copynumber: 3.9 Consensus size: 93
242136 AAGATGAGAA
* * *
242146 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--AGAAGGTGCCAAT
242211 ATGCTGATTCAAGGCCAGCTATATTGGACTT
63 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
242242 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTTGGACTTAAAGGT-G-AGGTGCCAATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA-TTGGACTTAAAGATAGAAGGTGCCAATAT
*
242305 GCTGATTCAAGGCCAGCTACATTGGACTT
65 GCTGATTCAAGGCCAGCTATATTGGACTT
* *
242334 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAAGGTGCC
*
242398 AATATGCTGATTCAAGGCCAGCTATATTGGAATT
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
242432 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAAGGTGCCAATATG
* *
242496 TTGATTCAAGGCCAGCGATATT
66 CTGATTCAAGGCCAGCTATATT
242518 AGGCTTAGAA
Statistics
Matches: 248, Mismatches: 18, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
92 119 0.48
94 1 0.00
95 28 0.11
96 18 0.07
97 13 0.05
98 69 0.28
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (93 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTT
Found at i:242438 original size:141 final size:137
Alignment explanation
Indices: 242145--242511 Score: 513
Period size: 141 Copynumber: 2.6 Consensus size: 137
242135 AAAGATGAGA
* *
242145 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAA
*
242210 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
62 TATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
*
242275 CATTTGGACTT
127 CATTTGGAATT
242286 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 AAA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * *
242351 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCTAATATGCTGATTCAAGGC
62 TATGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAATATGCTGATTCAAGGC
*
242416 CAGCTATA-TTGGAATT
121 CAGCTACATTTGGAATT
242432 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
*
242496 TTGATTCAAGGCCAGC
66 CTGATTCAAGGCCAGC
242512 GATATTAGGC
Statistics
Matches: 205, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
141 115 0.56
142 1 0.00
143 1 0.00
144 42 0.20
145 5 0.02
146 7 0.03
147 34 0.17
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (137 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT
TGGAATT
Found at i:242816 original size:32 final size:31
Alignment explanation
Indices: 242525--242818 Score: 428
Period size: 32 Copynumber: 9.2 Consensus size: 31
242515 ATTAGGCTTA
*
242525 GAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTG
242556 GAGAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 GA-AGGGTTGCCACCGACTTGTGTGGGCTTTG
*
242588 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTG
1 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
242620 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
242652 AAGAGGGTTGCCATCGACTTGTGTGGGCTTTG
1 GA-AGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
242684 AAGAGGGTTGCCACTGACTTGTGTGGGCTTTG
1 GA-AGGGTTGCCACCGACTTGTGTGGGCTTTG
242716 GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 GAAG--GGTTGCCACCGACTTGTGTGGGCTTT-G
242750 GAAGGG-TGCCACCGACTTGTGTGGGCTTTAG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
242781 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
242813 GAAGGG
1 GAAGGG
242819 AGAAAGATGC
Statistics
Matches: 244, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
31 36 0.15
32 176 0.72
33 27 0.11
34 5 0.02
ACGTcount: A:0.16, C:0.17, G:0.38, T:0.28
Consensus pattern (31 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:242859 original size:34 final size:32
Alignment explanation
Indices: 242821--243219 Score: 337
Period size: 34 Copynumber: 12.3 Consensus size: 32
242811 GGGAAGGGAG
* *
242821 AAAGATGCCACTGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAA-GG-AA
242856 AAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
242889 AAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
*
242923 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAA-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
242957 AAAGGTGCCACGAAGTTGTGGGCTTAGAAGGAGA
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGA-A
* *
242991 AAGGTGCCACAGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
243021 ---GTGCTACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
243052 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
243082 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
243113 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
243143 ---GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
*
243176 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
243210 AAAGGTGCCA
1 AAA-GTGCCA
243220 TAAAGTCGTG
Statistics
Matches: 308, Mismatches: 25, Indels: 63
0.78 0.06 0.16
Matches are distributed among these distances:
27 62 0.20
28 4 0.01
29 6 0.02
30 2 0.01
32 3 0.01
33 63 0.20
34 116 0.38
35 19 0.06
36 12 0.04
37 21 0.07
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:243032 original size:27 final size:27
Alignment explanation
Indices: 242955--243172 Score: 157
Period size: 27 Copynumber: 7.3 Consensus size: 27
242945 CTTTAAAAAG
* *
242955 AAAAAGGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
242982 AGAAGGAGAAAGGTGCCACAGAGTTGTGGGCTT
1 A-AA--AG---GGTGCCACGGAGTTGTGGGCTT
* *
243015 AAAAGGGTGCTACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
243042 AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
*
243076 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
243103 AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAA-A-G-----GGTGCCACGGAGTTGTGGGCTT
*
243137 AAAAGGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT
243165 GAAAAGGG
1 -AAAAGGG
243173 AAAAAGAGTG
Statistics
Matches: 154, Mismatches: 15, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
27 64 0.42
28 6 0.04
29 9 0.06
30 3 0.02
32 4 0.03
33 23 0.15
34 45 0.29
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:243068 original size:61 final size:61
Alignment explanation
Indices: 242955--243205 Score: 337
Period size: 61 Copynumber: 4.1 Consensus size: 61
242945 CTTTAAAAAG
* * * * * *
242955 AAAAAGGTGCCACGAAGTTGTGGGCTTAGAAG--GAGAAAGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTA-AAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
*
243015 AAAAGGGTGCTACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
243076 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* * *
243137 AAAAGGGTGCCACAGAGTTGTGGGCTTTGAAA-AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGA-TGAAAAA-AGTGCCACGGAGTTGTGGGC-T
243201 T
61 T
243202 AAAA
1 AAAA
243206 AGAAAAAGGT
Statistics
Matches: 173, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
59 3 0.02
60 24 0.14
61 108 0.62
62 3 0.02
63 9 0.05
64 20 0.12
65 6 0.03
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:243192 original size:37 final size:34
Alignment explanation
Indices: 243137--243219 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 34
243127 TTGTGGGCTT
* *
243137 AAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAA-AG
*
243173 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAG
243208 AAAAAGGTGCCA
1 AAAAAGGTGCCA
243220 TAAAGTCGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 6 0.14
35 7 0.16
36 9 0.21
37 21 0.49
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.18
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAG
Found at i:243286 original size:30 final size:31
Alignment explanation
Indices: 243223--243306 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 31
243213 GGTGCCATAA
* *
243223 AGTCGTGGACTTTGAGACA-A-AATGCCACTG
1 AGTCGTGGACTTTGAGA-AGAGATTACCACTG
243253 AGTCGTGGACTTTGAGAAGAGATTACCAC-G
1 AGTCGTGGACTTTGAGAAGAGATTACCACTG
* *
243283 AGTCGTGGGCTTTGGGAAGAGATT
1 AGTCGTGGACTTTGAGAAGAGATT
243307 TGAAGAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.85
31 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (31 bp):
AGTCGTGGACTTTGAGAAGAGATTACCACTG
Found at i:244599 original size:15 final size:13
Alignment explanation
Indices: 244581--244635 Score: 67
Period size: 12 Copynumber: 4.2 Consensus size: 13
244571 CCTTTGCACC
244581 TTTTTTGTTTTGT
1 TTTTTTGTTTTGT
244594 TATTTTGTGTTTTGT
1 T-TTTT-TGTTTTGT
244609 TTTTTTGTTTT-T
1 TTTTTTGTTTTGT
**
244621 TTTTTACTTTTGT
1 TTTTTTGTTTTGT
244634 TT
1 TT
244636 ATGTGTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 10 0.27
13 10 0.27
14 8 0.22
15 9 0.24
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.82
Consensus pattern (13 bp):
TTTTTTGTTTTGT
Found at i:247663 original size:13 final size:13
Alignment explanation
Indices: 247647--247676 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
247637 ACAATTCATC
247647 ATGTATCGATACA
1 ATGTATCGATACA
247660 ATGTATCGATACA
1 ATGTATCGATACA
247673 ATGT
1 ATGT
247677 CCTATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:247672 original size:33 final size:33
Alignment explanation
Indices: 247627--247693 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
247617 GTTAAAAGCC
247627 ATGTATCAATACAAT-TCATCATGTATCGATACA
1 ATGTATCAATACAATGTCAT-ATGTATCGATACA
* *
247660 ATGTATCGATACAATGTCCTATGTATCGATACA
1 ATGTATCAATACAATGTCATATGTATCGATACA
247693 A
1 A
247694 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATGTATCAATACAATGTCATATGTATCGATACA
Found at i:247784 original size:32 final size:33
Alignment explanation
Indices: 247743--247816 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 33
247733 ACAATTGTTA
* * *
247743 ATCGATACAATGTATCGATACAATG-A-ACATGT
1 ATCGATACAATGTATCAAGACAAAGCATA-ATGT
247775 ATCGATACAATGTATCAAGACAAAGCATAATGT
1 ATCGATACAATGTATCAAGACAAAGCATAATGT
247808 ATCGATACA
1 ATCGATACA
247817 TCTGGGTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 22 0.59
33 14 0.38
34 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (33 bp):
ATCGATACAATGTATCAAGACAAAGCATAATGT
Found at i:247790 original size:13 final size:13
Alignment explanation
Indices: 247723--247767 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 13
247713 TGTCAGTTTC
247723 ATGTATCGATACA
1 ATGTATCGATACA
247736 ATTGTTAATCGATACA
1 A-TG-T-ATCGATACA
247752 ATGTATCGATACA
1 ATGTATCGATACA
247765 ATG
1 ATG
247768 AACATGTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.45
14 3 0.10
15 3 0.10
16 10 0.34
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:248260 original size:208 final size:208
Alignment explanation
Indices: 247898--248309 Score: 704
Period size: 208 Copynumber: 2.0 Consensus size: 208
247888 AATACCTATG
** * *
247898 TATCGATACTTTGACGTATTTTTTACTTAAAAACGTTTAAATTAAGGTTCAAAAACATTTGTTTA
1 TATCGATACTTTGAAATAGTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTA
*
247963 TAACTCTAAAAACTTCCATTGATAGAAAATTACTTAGAGCATGTTTTTAGAGTGTTTTTGAGTGA
66 TAACTCTAAAAACTTCCATTGATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGA
*
248028 ATAAAACTTGTTTACGATTTTTCAAACATTTTTCGGTTTTATTCAATCTTTG-TATATCAAAACC
131 ATAAAACTTGTTTACGATTTTTCAAACATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACC
248092 AAGATCCTAACAA
196 AAGATCCTAACAA
*
248105 TATCGATACTTTGAAATAGTTTTTACTTAAAAACATTTGAATTAAGGTTCAAAAACATTTGTTTA
1 TATCGATACTTTGAAATAGTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTA
248170 TAACTCT-AAAACTTCCATTGATATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGT
66 TAACTCTAAAAACTTCCATTG--ATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGT
248234 GAATAAAACTTGTTTAC-AGTTTTTCAAACATTTTTCGATTTTATTCAATCTTTGTTATATCAAA
129 GAATAAAACTTGTTTACGA-TTTTTCAAACATTTTTCGATTTTATTCAATCTTTGTTATATCAAA
*
248298 ACTAAGATCCTA
193 ACCAAGATCCTA
248310 GCAGACTCAT
Statistics
Matches: 193, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
206 13 0.07
207 68 0.35
208 92 0.48
209 20 0.10
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (208 bp):
TATCGATACTTTGAAATAGTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTA
TAACTCTAAAAACTTCCATTGATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGA
ATAAAACTTGTTTACGATTTTTCAAACATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACC
AAGATCCTAACAA
Found at i:251589 original size:20 final size:20
Alignment explanation
Indices: 251564--251615 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
251554 TACAAGCCAA
**
251564 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATACTTGG
251584 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
251603 TGTATCGATACAA
1 TGTATCGATACAA
251616 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:251621 original size:19 final size:18
Alignment explanation
Indices: 251564--251621 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
251554 TACAAGCCAA
251564 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
*
251584 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
251603 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
251622 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:254128 original size:13 final size:13
Alignment explanation
Indices: 254110--254135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
254100 ATAATCACCC
254110 TGTATCGATACAA
1 TGTATCGATACAA
254123 TGTATCGATACAA
1 TGTATCGATACAA
254136 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:256223 original size:15 final size:15
Alignment explanation
Indices: 256203--256233 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
256193 ATTTCGTTTG
*
256203 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
256218 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
256233 G
1 G
256234 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:260313 original size:20 final size:20
Alignment explanation
Indices: 260288--260339 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
260278 TACAAGCCAA
**
260288 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATACTTGG
260308 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
260327 TGTATCGATACAA
1 TGTATCGATACAA
260340 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:260345 original size:19 final size:18
Alignment explanation
Indices: 260288--260345 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
260278 TACAAGCCAA
260288 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
*
260308 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
260327 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
260346 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:265329 original size:28 final size:28
Alignment explanation
Indices: 265291--265344 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
265281 CCTTTTTCCC
265291 TTTTTTAGTCCTCAAAAAGCAGGACATT
1 TTTTTTAGTCCTCAAAAAGCAGGACATT
*
265319 TTTTTTAGTCCTCAAAAAGTAGGACA
1 TTTTTTAGTCCTCAAAAAGCAGGACA
265345 CCTTCTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (28 bp):
TTTTTTAGTCCTCAAAAAGCAGGACATT
Found at i:265359 original size:35 final size:35
Alignment explanation
Indices: 265320--265412 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
265310 CAGGACATTT
265320 TTTTTAGTCCTCAAAAAGTAGGACACCT-TCTTTCC
1 TTTTTAGTCCTCAAAAAGTAGGACACCTCT-TTTCC
** * * * * *
265355 TTTTTAGTATTTAAAGAGTATGATACCTCTTTTTC
1 TTTTTAGTCCTCAAAAAGTAGGACACCTCTTTTCC
265390 TTTTTAGTCCTCAAAAAGTAGGA
1 TTTTTAGTCCTCAAAAAGTAGGA
265413 TGCTTTCCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
35 44 0.98
36 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (35 bp):
TTTTTAGTCCTCAAAAAGTAGGACACCTCTTTTCC
Found at i:265516 original size:32 final size:33
Alignment explanation
Indices: 265480--265548 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 33
265470 AGCAGGGCAT
* *
265480 TTACCCTCCTT-AATCCTTAAAAAATAAGATGC
1 TTACCCTACTTCAATCCTCAAAAAATAAGATGC
* * *
265512 TTA-CCTACTTCAATCCTCAAAGAGTAGGATGC
1 TTACCCTACTTCAATCCTCAAAAAATAAGATGC
265544 TTACC
1 TTACC
265549 AACCTAAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 6 0.20
32 23 0.77
33 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.30
Consensus pattern (33 bp):
TTACCCTACTTCAATCCTCAAAAAATAAGATGC
Found at i:265566 original size:32 final size:32
Alignment explanation
Indices: 265493--265663 Score: 98
Period size: 32 Copynumber: 5.3 Consensus size: 32
265483 CCCTCCTTAA
* * * * *
265493 TCCTTAAAAAATAAGATGCTTACCTACTTCAA-
1 TCCTTAAAGAGTAGGATGCTTACCAACCT-AAG
*
265525 TCCTCAAAGAGTAGGATGCTTACCAACCTAAG
1 TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
* *
265557 TCCTTAAAGAGTAAGGCA--CTTACTAACCTCAG
1 TCCTTAAAGAGT-AGG-ATGCTTACCAACCTAAG
* * * *
265589 TCTTTAAAGAGCAGGGTGCTTACTAACCTCAA-
1 TCCTTAAAGAGTAGGATGCTTACCAACCT-AAG
* * * * * * *
265621 TCCTAAAAGAGAAAGATGCCTATCTACCTTAG
1 TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
*
265653 TCCTCAAAGAG
1 TCCTTAAAGAG
265664 CAAGGCACTT
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
31 6 0.06
32 97 0.90
33 4 0.04
34 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (32 bp):
TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
Found at i:265596 original size:96 final size:96
Alignment explanation
Indices: 265496--265703 Score: 229
Period size: 96 Copynumber: 2.2 Consensus size: 96
265486 TCCTTAATCC
* * * * * *
265496 TTAAAAAATAAGATGCTTACCT-ACTTCAATCCTCAAAGAGTAGGATGCTTACCAACCTAAGTCC
1 TTAAAAAATAGGATGCTTA-CTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCC
* * * * *
265560 TTAAAGAGTAAGGCACTTACTAACCTCAGTCT
65 TCAAAGAGCAAGGCACTTACCAACCTCACTCA
* ** * * * *
265592 TTAAAGAGCAGGGTGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTATCTACCTTAGTCCT
1 TTAAAAAATAGGATGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCCT
265657 CAAAGAGCAAGGCACTTACCAACCTCACTCA
66 CAAAGAGCAAGGCACTTACCAACCTCACTCA
*
265688 TCAAAAAATAGGATGC
1 TTAAAAAATAGGATGC
265704 CAACCGACCT
Statistics
Matches: 88, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
95 2 0.02
96 86 0.98
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (96 bp):
TTAAAAAATAGGATGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCCT
CAAAGAGCAAGGCACTTACCAACCTCACTCA
Found at i:265662 original size:64 final size:65
Alignment explanation
Indices: 265525--265683 Score: 157
Period size: 64 Copynumber: 2.5 Consensus size: 65
265515 CCTACTTCAA
* * * *
265525 TCCTCAAAGAGTAGGATGCTTACCAACCT-AAGTCCTTAAAGAGTAAGGCACTTACTAACCTCAG
1 TCCTCAAAGAGCAGGGTGCTTACCAACCTCAAGTCCTAAAAGAGAAAGGCACTTACTAACCTCAG
* * *
265589 TCTTTAAAGAGCAGGGTGCTTACTAACCTCAA-TCCTAAAAGAGAAAGATGC-C-TATCT-ACCT
1 TCCTCAAAGAGCAGGGTGCTTACCAACCTCAAGTCCTAAAAGAGAAAG--GCACTTA-CTAACCT
*
265650 TAG
63 CAG
* **
265653 TCCTCAAAGAGCAAGGCACTTACCAACCTCA
1 TCCTCAAAGAGCAGGGTGCTTACCAACCTCA
265684 CTCATCAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
64 70 0.91
65 5 0.06
66 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (65 bp):
TCCTCAAAGAGCAGGGTGCTTACCAACCTCAAGTCCTAAAAGAGAAAGGCACTTACTAACCTCAG
Found at i:266466 original size:19 final size:19
Alignment explanation
Indices: 266442--266509 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
266432 AATTCAACGA
266442 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
266461 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
266476 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
266493 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
266510 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:266480 original size:32 final size:32
Alignment explanation
Indices: 266444--266506 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
266434 TTCAACGATT
*
266444 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
266476 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
266507 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:266481 original size:13 final size:13
Alignment explanation
Indices: 266463--266487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
266453 ACATAAGTTT
266463 TGTATCGATACAA
1 TGTATCGATACAA
266476 TGTATCGATACA
1 TGTATCGATACA
266488 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:266567 original size:13 final size:13
Alignment explanation
Indices: 266549--266574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
266539 CATTTTTCTG
266549 TGTATCGATACAT
1 TGTATCGATACAT
266562 TGTATCGATACAT
1 TGTATCGATACAT
266575 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:279117 original size:1 final size:1
Alignment explanation
Indices: 279111--279172 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
279101 CCTTCTCTTC
** * * * * * *
279111 AAAAAAAAAAGCAAAAAAAAACAAAAAAAAAAAACAAAACAAAGAAAAAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
279173 TATGCTTAAG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:279128 original size:11 final size:10
Alignment explanation
Indices: 279112--279171 Score: 61
Period size: 11 Copynumber: 5.9 Consensus size: 10
279102 CTTCTCTTCA
279112 AAAAAAAAAGC
1 AAAAAAAAA-C
279123 AAAAAAAAAC
1 AAAAAAAAAC
279133 -AAAAAAAA-
1 AAAAAAAAAC
*
279141 AAAACAAAAC
1 AAAAAAAAAC
*
279151 AAAGAAAAAGAG
1 AAA-AAAAA-AC
279163 AAAAAAAAA
1 AAAAAAAAA
279172 ATATGCTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
9 15 0.36
10 5 0.12
11 18 0.43
12 4 0.10
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:279143 original size:28 final size:28
Alignment explanation
Indices: 279111--279172 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
279101 CCTTCTCTTC
*
279111 AAAAAAA-AAAGCAAAAAAAAACAAAAA
1 AAAAAAACAAAACAAAAAAAAACAAAAA
* * *
279138 AAAAAAACAAAACAAAGAAAAAGAGAAA
1 AAAAAAACAAAACAAAAAAAAACAAAAA
279166 AAAAAAA
1 AAAAAAA
279173 TATGCTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (28 bp):
AAAAAAACAAAACAAAAAAAAACAAAAA
Found at i:279158 original size:18 final size:17
Alignment explanation
Indices: 279123--279169 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 17
279113 AAAAAAAAGC
279123 AAAAAAAAACAAAAAAA
1 AAAAAAAAACAAAAAAA
279140 AAAAACAAAACAAAGAAAA
1 AAAAA-AAAACAAA-AAAA
279159 AGAGAAAAAAA
1 A-A-AAAAAAA
279170 AAATATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 8 0.31
19 5 0.19
20 5 0.19
21 3 0.12
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAA
Found at i:280218 original size:55 final size:54
Alignment explanation
Indices: 280135--280719 Score: 733
Period size: 55 Copynumber: 10.4 Consensus size: 54
280125 CTCCTTCCGC
* *
280135 TTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGAA
1 TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
280189 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
280244 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
280299 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
280354 TTTTGCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
280415 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
280470 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
280525 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
280586 CCTTTCAGTTCC-CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAG-TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
280641 CCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
280696 CTTTTTACTCCTCAATGAGAAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
280720 TACACTTTAT
Statistics
Matches: 474, Mismatches: 37, Indels: 39
0.86 0.07 0.07
Matches are distributed among these distances:
54 12 0.03
55 358 0.76
56 6 0.01
57 2 0.00
59 2 0.00
61 88 0.19
62 6 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:280220 original size:27 final size:27
Alignment explanation
Indices: 280190--280275 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
280180 TTGGTGGAAT
280190 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
280217 TTTCAAAGCCCACATAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
280245 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
280272 TTTC
1 TTTC
280276 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:280710 original size:171 final size:171
Alignment explanation
Indices: 280135--280700 Score: 850
Period size: 171 Copynumber: 3.3 Consensus size: 171
280125 CTCCTTCCGC
* * *
280135 TTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGAATTTTCCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTCCAGTC
* * * *
280199 CTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACATAAGTTGGTGGCA-TTTTCCAGTCCTC
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
280257 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
130 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
280299 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTGCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTCCAGTC
280364 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
280429 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
131 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
280470 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTCCAGTC
*
280535 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTTCC-C
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG-TCCTC
280599 AAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
130 AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
280641 CCTTT-CAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACAC-GAGTTGGTGGCACTTTT
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAG-GTTGGTGGCA-TTTT
280701 TACTCCTCAA
Statistics
Matches: 372, Mismatches: 17, Indels: 18
0.91 0.04 0.04
Matches are distributed among these distances:
164 4 0.01
165 68 0.18
167 1 0.00
170 1 0.00
171 283 0.76
172 15 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (171 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAGGTTGGTGGCATTTTCCAGTC
CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:280710 original size:226 final size:219
Alignment explanation
Indices: 280136--280700 Score: 785
Period size: 226 Copynumber: 2.5 Consensus size: 219
280126 TCCTTCCGCT
* **
280136 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG-AATTTTCCAGTCC
1 TTTCAGTTCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC
*
280200 TCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
65 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
280265 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTT
130 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTT
* * *
280330 TAAAGCCCACACAGGTTGGTGGCAT
195 TAAAGCCCACACAAGTTAGTGGCAC
* *
280355 TTTGCAG-TCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTT-CAGTTCC-CAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
280419 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
58 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* * * *
280484 AAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA
123 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA
**
280549 TGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
188 --C---ACCTTTT-AAAGCCCACACAAGTTAGTGGCA-C
280588 TTTCAGTTCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 TTTCAGTTCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
280652 TCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
65 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
280701 TACTCCTCAA
Statistics
Matches: 307, Mismatches: 20, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
219 5 0.02
220 15 0.05
222 1 0.00
226 227 0.74
227 10 0.03
228 1 0.00
230 1 0.00
231 5 0.02
232 36 0.12
233 6 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (219 bp):
TTTCAGTTCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
GACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTT
AAAGCCCACACAAGTTAGTGGCAC
Found at i:281568 original size:19 final size:19
Alignment explanation
Indices: 281544--281611 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
281534 AATTCAACGA
281544 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
281563 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
281578 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
281595 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
281612 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:281582 original size:32 final size:32
Alignment explanation
Indices: 281546--281608 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
281536 TTCAACGATT
*
281546 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
281578 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
281609 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:281583 original size:13 final size:13
Alignment explanation
Indices: 281565--281589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281555 ACATAAGTTT
281565 TGTATCGATACAA
1 TGTATCGATACAA
281578 TGTATCGATACA
1 TGTATCGATACA
281590 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:281669 original size:13 final size:13
Alignment explanation
Indices: 281651--281676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
281641 CATTTTTCTG
281651 TGTATCGATACAT
1 TGTATCGATACAT
281664 TGTATCGATACAT
1 TGTATCGATACAT
281677 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:281673 original size:33 final size:33
Alignment explanation
Indices: 281631--281697 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
281621 GCCAAGGAAA
***
281631 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
281664 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
281697 T
1 T
281698 TAGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:282976 original size:33 final size:33
Alignment explanation
Indices: 282936--283015 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
282926 TAACATTTTC
* *
282936 TTCAAAATCGACCTCATTCAAGCAAACATCTTA
1 TTCAAAATCGACCTCATTCAAGCAAACAACTCA
* *
282969 TTTAAAATCGACCTCGTTCAAGCAAACAACTCA
1 TTCAAAATCGACCTCATTCAAGCAAACAACTCA
*
283002 TTCAAAATCAACCT
1 TTCAAAATCGACCT
283016 TTGAATCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (33 bp):
TTCAAAATCGACCTCATTCAAGCAAACAACTCA
Found at i:286924 original size:13 final size:13
Alignment explanation
Indices: 286906--286930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286896 ACAGCAAGTT
286906 TGTATCGATACAA
1 TGTATCGATACAA
286919 TGTATCGATACA
1 TGTATCGATACA
286931 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:289172 original size:21 final size:21
Alignment explanation
Indices: 289139--289183 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
289129 TTGCAAGTTG
*
289139 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
289161 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
289181 AAA
1 AAA
289184 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:291008 original size:15 final size:15
Alignment explanation
Indices: 290988--291018 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
290978 TAGAAATGTC
*
290988 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
291003 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
291018 C
1 C
291019 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:293115 original size:20 final size:20
Alignment explanation
Indices: 293036--293115 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
293026 AATGTCCAAA
*
293036 ATGTATCGATACATATTTCT
1 ATGTATCGATACATTTTTCT
* *
293056 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
293081 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
293101 TTGTATCGATACATT
1 ATGTATCGATACATT
293116 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:293119 original size:13 final size:13
Alignment explanation
Indices: 293101--293139 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
293091 ACATTTTTCT
293101 TTGTATCGATACA
1 TTGTATCGATACA
293114 TTGTATCGATACA
1 TTGTATCGATACA
*
293127 CTGTATCGATACA
1 TTGTATCGATACA
293140 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:293310 original size:21 final size:21
Alignment explanation
Indices: 293265--293308 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
293255 AATCTTTTGC
293265 AATATACTTGTTTTTCACTTCA
1 AATATACTTGTTTTTCAC-TCA
293287 AATA-ACTTCGTTTTTCA-TCA
1 AATATACTT-GTTTTTCACTCA
293307 AA
1 AA
293309 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (21 bp):
AATATACTTGTTTTTCACTCA
Found at i:295704 original size:13 final size:13
Alignment explanation
Indices: 295686--295743 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
295676 ACAGCAAGTT
295686 TGTATCGATACAA
1 TGTATCGATACAA
295699 TGTATCGATACACAAAAAA
1 TGTATCGAT--AC----AA
295718 TTGTATCGATACAA
1 -TGTATCGATACAA
295732 TGTATCGATACA
1 TGTATCGATACA
295744 CAAAAAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 9 0.24
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:295724 original size:20 final size:20
Alignment explanation
Indices: 295699--295763 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
295689 ATCGATACAA
295699 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
295719 TGTATCGAT--AC----AA-
1 TGTATCGATACACAAAAAAT
295732 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
295752 TGTATCGATACA
1 TGTATCGATACA
295764 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 21 0.55
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACAAAAAAT
Found at i:295727 original size:33 final size:33
Alignment explanation
Indices: 295685--295763 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
295675 TACAGCAAGT
295685 TTGTATCGATACAATGTATCGATACACAAAAAA
1 TTGTATCGATACAATGTATCGATACACAAAAAA
295718 TTGTATCGATACAATGTATCGATACACAAAAAA
1 TTGTATCGATACAATGTATCGATACACAAAAAA
295751 TTGTATCGATACA
1 TTGTATCGATACA
295764 TTGGCTTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (33 bp):
TTGTATCGATACAATGTATCGATACACAAAAAA
Found at i:302093 original size:22 final size:23
Alignment explanation
Indices: 302054--302106 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
302044 GATTAAAACA
*
302054 CAAAATTAAGCACCAAAT-ATAT
1 CAAAATTAAGCACAAAATCATAT
302076 CAAAATTAAG-ACTAAAATCATAT
1 CAAAATTAAGCAC-AAAATCATAT
302099 CAATAATT
1 CAA-AATT
302107 CACAAACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 14 0.52
23 7 0.26
24 4 0.15
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (23 bp):
CAAAATTAAGCACAAAATCATAT
Found at i:302162 original size:21 final size:20
Alignment explanation
Indices: 302138--302181 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
302128 TTTTTTTGGT
* *
302138 TTTAGAAAAAAATTTCTCATA
1 TTTACAAAAAAATTGC-CATA
*
302159 TTTACACAAAAATTGCCATA
1 TTTACAAAAAAATTGCCATA
302179 TTT
1 TTT
302182 TCTTATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTACAAAAAAATTGCCATA
Found at i:303536 original size:20 final size:19
Alignment explanation
Indices: 303511--303583 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
303501 CTGCCAGTAT
**
303511 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
303531 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
303550 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
303571 -ATGTATCGATACA
1 CATGTATCGATACA
303584 TCTTGATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:310417 original size:15 final size:15
Alignment explanation
Indices: 310399--310433 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
310389 CAAGTCAACT
310399 TCATCATTATCATCA
1 TCATCATTATCATCA
*
310414 TCATCATTATCTTCA
1 TCATCATTATCATCA
310429 TCATC
1 TCATC
310434 TTTTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:312045 original size:20 final size:20
Alignment explanation
Indices: 312020--312073 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
312010 GTTTGGGACA
*
312020 ATGTATCCATACAAT-TCCTC
1 ATGTATCGATACAATGTCC-C
*
312040 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTCCC
312060 ATGTATCGATACAA
1 ATGTATCGATACAA
312074 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:312163 original size:20 final size:20
Alignment explanation
Indices: 312118--312171 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
312108 TATAATTGTG
*
312118 CATGTATCGATACA-GTGAA
1 CATGTATCGATACATCTGAA
*
312137 CATGTATCGATACATCTGGA
1 CATGTATCGATACATCTGAA
*
312157 TATGTATCGATACAT
1 CATGTATCGATACAT
312172 ACAAGGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACATCTGAA
Found at i:312435 original size:14 final size:14
Alignment explanation
Indices: 312418--312446 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
312408 TCTTTGTTAT
312418 ATCCTAACACCAAG
1 ATCCTAACACCAAG
312432 ATCCTAACACCAAG
1 ATCCTAACACCAAG
312446 A
1 A
312447 AAATGGCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.34, G:0.07, T:0.14
Consensus pattern (14 bp):
ATCCTAACACCAAG
Found at i:312715 original size:13 final size:13
Alignment explanation
Indices: 312699--312723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
312689 TTCTTTTTCT
312699 TTTTATTTTTTTG
1 TTTTATTTTTTTG
312712 TTTTATTTTTTT
1 TTTTATTTTTTT
312724 CATGATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:312918 original size:23 final size:22
Alignment explanation
Indices: 312892--312944 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
312882 TGATGAAACT
312892 AGTTAAAAATAAAATAAAATAAA
1 AGTTAAAAATAAAA-AAAATAAA
* *
312915 AGTTCCAAATTAAAAAAAATAAA
1 AGTT-AAAAATAAAAAAAATAAA
312938 A-TTAAAA
1 AGTTAAAA
312945 TTATTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 2 0.08
23 13 0.50
24 8 0.31
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
AGTTAAAAATAAAAAAAATAAA
Found at i:318264 original size:14 final size:14
Alignment explanation
Indices: 318245--318271 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
318235 GTGATAGACA
318245 AAGATTTAATATAC
1 AAGATTTAATATAC
318259 AAGATTTAATATA
1 AAGATTTAATATA
318272 GTTATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAGATTTAATATAC
Found at i:320969 original size:147 final size:148
Alignment explanation
Indices: 320690--320979 Score: 375
Period size: 147 Copynumber: 2.0 Consensus size: 148
320680 TTTTTAAAAA
* * * * *
320690 TTACAAAAATGCCCCTATGAGTATACCTTCGACATAAAAGTATCCCAGTAACCCTAAAGGATTTA
1 TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
* * * * * * * *
320755 AAAGGGATCATAAATGTGATGAATCTCTCCTAAATATCTACCTTTGACGTAAAAGCATTCAAGTG
66 AAAAGGATCATAAATGAGATGAACCTATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGTG
*
320820 ACAACCTAGGACTCAATT
131 ACAAACTAGGACTCAATT
* * * *
320838 TTAC-AAAATACCACTATGGGTATACCTTCAACATGAAAGTATCTCGGTAACCCTAAAAGACTTA
1 TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
* * * *
320902 AAAATGATTATAAATGAGATGAACCTATCCTAAATACCCACCTTTGACATAAAAGCATCCCATTG
66 AAAAGGATCATAAATGAGATGAACCTATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGTG
320967 ACAAACTAGGACT
131 ACAAACTAGGACT
320980 TGGCTCTAGG
Statistics
Matches: 120, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
147 116 0.97
148 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (148 bp):
TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
AAAAGGATCATAAATGAGATGAACCTATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGTG
ACAAACTAGGACTCAATT
Found at i:321104 original size:58 final size:58
Alignment explanation
Indices: 320999--321109 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
320989 GAAAATTACG
* *
320999 AAAATGCCTTTATGGGTATACCTTTGACATGAAAGTATCTTGATAACCCTAAATTATA
1 AAAATACCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAATTATA
* * *
321057 AAAATACCTTTATGGGTATACTTTTGACATGAAAGTATCTCGGTAACCTTAAA
1 AAAATACCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAA
321110 AGACAGAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAATACCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAATTATA
Found at i:323340 original size:137 final size:142
Alignment explanation
Indices: 322976--323347 Score: 387
Period size: 146 Copynumber: 2.6 Consensus size: 142
322966 AATCTAACTA
* * * * * *
322976 AAAAATTTACAGAGTAAAAAACTCTATACTTTAGA-AACATAAAAAATTATAAAACTCATAAAAT
1 AAAAATTTATAGAGTAGAAAACTCCATA-TCTAGATAATAGAAAAAATTATAAAACTCATAAAAT
* ** *
323040 AAATTGAATTTTTTAAAACCGATTTAATATAAATCAAACAATAATATCTGAAGAATTTTAAAAAT
65 AAATTGAATTTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAA-
* *
323105 TATAAGCTTAGCTATCG
129 TAT-A-CCTAGCCA-CG
* * *
323122 AAAAATTTATAGAGTAGAAAACTCCATATTTAGATAATAGAAAAAACTCTAAAACTCATAAAATA
1 AAAAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAATTATAAAACTCATAAAATA
* * * * ** *
323187 AATTGAAATTTTCAAAATTGATTTAATATGAATTAAACAATAATATTTTTAGAATTATGAAAA-A
66 AATTGAATTTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAATA
323251 T-CCTA-CCA-G
131 TACCTAGCCACG
* * ** * * *
323260 AGAAATTTATGGAGTAGAAAACTCTGTATCTCGATAATA-AAAAAATTTTAAAGCTCATAAAATA
1 AAAAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAATTATAAAACTCATAAAATA
*
323324 AATTGAATTTTTCAAAATTTATTT
66 AATTGAATTTTTCAAAATTGATTT
323348 TATGGTATTT
Statistics
Matches: 194, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
137 44 0.23
138 34 0.18
140 2 0.01
141 3 0.02
144 2 0.01
145 6 0.03
146 103 0.53
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (142 bp):
AAAAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAATTATAAAACTCATAAAATA
AATTGAATTTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAATA
TACCTAGCCACG
Found at i:323378 original size:137 final size:137
Alignment explanation
Indices: 323124--323384 Score: 319
Period size: 137 Copynumber: 1.9 Consensus size: 137
323114 AGCTATCGAA
*
323124 AAATTTATAGAGTAGAAAACTCCATATTTAGATAATAGAAAAAACTCTAAAACTCATAAAATAAA
1 AAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAACTCTAAAACTCATAAAATAAA
* **
323189 TTGAAATTTTCAAAATTGATTTAATATGAATTAAACAATAATATTTTTAGAATTATGAAAAATCC
66 TTGAAATTTTCAAAATTGATTT-ATATGAATTAAACAAGAATATTTAAAGAATTATGAAAAATCC
323254 TACCAGAG
130 TACCAGAG
* ** * * * *
323262 AAATTTATGGAGTAGAAAACTCTGTATCTCGATAATA-AAAAAATTTTAAAGCTCATAAAATAAA
1 AAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAACTCTAAAACTCATAAAATAAA
* * * * ** *
323326 TTGAATTTTTCAAAATTTATTT-TATGGTATTTTAAGGAGAATATTTAAAGAATTTTGAA
66 TTGAAATTTTCAAAATTGATTTATAT-G-AATTAAACAAGAATATTTAAAGAATTATGAA
323385 GTTCAAAATT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
135 3 0.03
136 1 0.01
137 67 0.65
138 32 0.31
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (137 bp):
AAATTTATAGAGTAGAAAACTCCATATCTAGATAATAGAAAAAACTCTAAAACTCATAAAATAAA
TTGAAATTTTCAAAATTGATTTATATGAATTAAACAAGAATATTTAAAGAATTATGAAAAATCCT
ACCAGAG
Found at i:324617 original size:66 final size:66
Alignment explanation
Indices: 324220--324641 Score: 296
Period size: 66 Copynumber: 6.4 Consensus size: 66
324210 TGACTAAAAT
* * * *** * *
324220 AAAACCTAAGTCAAAAAGAAATTGTCCAAGGTGGAACCATAACGTCAACTAACAGGTGAAC-AGG
1 AAAACCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAAAGGTG-ACTAGG
*
324284 AC
65 GC
* * * * * *
324286 AAAACCCTAAGTCTAAAAGAGGTTGACTAGGGCAAAACCATCACATCAACTAAAAGGAGACTAAG
1 AAAA-CCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAAAGGTGACTAGG
*
324351 GT
65 GC
* * ** * *** * * * *
324353 GAAACCTTAGTTGAAAAGAAATTGACCAGGATGAAACCATCATGTCAAC-AAACGGGAGACGAGG
1 AAAACCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAA-AGGTGACTAGG
*
324417 GT
65 GC
* * * *
324419 GAAACCTAAGTCAAAAAG-AGATTGACCATGGCAAAACCATCATGTCAACTAAAATGTGACTAGG
1 AAAACCTAAGTCAAAAAGAAG-TTGACCAGGGCAAAACCATCACGTCAACTAAAAGGTGACTAGG
*
324483 GT
65 GC
* * * ** * * * *
324485 GAAACCTTAGTCAGAAAGAAGTTGAATAGGGCAAAATCATCACGTCAACTAAAAGGTAACCAAGG
1 AAAACCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAAAGGTGACTAGGG
324550 C
66 C
* ** * *
324551 AAAACCTAGGTCAAAAAGAAGTTGACCAGGGTGAAACCATCACGTCAA-GAAAGGGGTGACCTA-
1 AAAACCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAA-AGGTGA-CTAG
324614 GGC
64 GGC
* * *
324617 AAAACTTAAGTCGAAAAGAGGTTGA
1 AAAACCTAAGTCAAAAAGAAGTTGA
324642 ATAACATTTG
Statistics
Matches: 276, Mismatches: 72, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
65 7 0.03
66 216 0.78
67 53 0.19
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (66 bp):
AAAACCTAAGTCAAAAAGAAGTTGACCAGGGCAAAACCATCACGTCAACTAAAAGGTGACTAGGG
C
Found at i:325670 original size:21 final size:21
Alignment explanation
Indices: 325646--325685 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
325636 AACAAAAGAC
*
325646 ACAAAGGTATGAATGAAAATG
1 ACAAAGGTATAAATGAAAATG
*
325667 ACAAAGTTATAAATGAAAA
1 ACAAAGGTATAAATGAAAA
325686 AGTGGCGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (21 bp):
ACAAAGGTATAAATGAAAATG
Found at i:332589 original size:20 final size:20
Alignment explanation
Indices: 332564--332613 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
332554 AACAGAATGA
*
332564 ATCGATACATTGAAACATAT
1 ATCGATACATTGAAAAATAT
*
332584 ATCGATACATTGAAAAATGT
1 ATCGATACATTGAAAAATAT
332604 ATCGATACAT
1 ATCGATACAT
332614 CTAGATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCGATACATTGAAAAATAT
Found at i:336231 original size:22 final size:22
Alignment explanation
Indices: 336206--336249 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
336196 ATCCATGCTC
336206 GTATAGAGCTCATCATTCTCTA
1 GTATAGAGCTCATCATTCTCTA
*
336228 GTATAGAGCTTATCATTCTCTA
1 GTATAGAGCTCATCATTCTCTA
336250 AGCCTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (22 bp):
GTATAGAGCTCATCATTCTCTA
Found at i:336723 original size:42 final size:42
Alignment explanation
Indices: 336676--336760 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
336666 CTCATCATTC
*
336676 TCTAAGGCTTTGAGTCTTATTTCTAGTAGCTGTAATTTTTCT
1 TCTAAGGCTTTGAGTCTCATTTCTAGTAGCTGTAATTTTTCT
*
336718 TCTAAGGCTTTGAGTCTCATTTCTAGTAGTTGTAATTTTTCT
1 TCTAAGGCTTTGAGTCTCATTTCTAGTAGCTGTAATTTTTCT
336760 T
1 T
336761 TCTCGATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (42 bp):
TCTAAGGCTTTGAGTCTCATTTCTAGTAGCTGTAATTTTTCT
Found at i:342408 original size:79 final size:79
Alignment explanation
Indices: 342308--342496 Score: 227
Period size: 79 Copynumber: 2.4 Consensus size: 79
342298 AAATTTAATA
**
342308 TTTTGGAAATAAAAACAGGGTTAGAGTATCCCCTTGAAAACAACAAGGTTGGAGTATCCCCGATG
1 TTTTGGAAATAAAAACAGGGTTAGAGTATCCCCTCAAAAACAACAAGGTTGGAGTATCCCCGATG
*
342373 GTGAAAAATCGATC
66 GAGAAAAATCGATC
** * ** **
342387 TTTTGGAAATAAAAATGGGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTTGATG
1 TTTTGGAAATAAAAACAGGGTTAGAGTATCCCCTCAAAAACAACAAGGTTGGAGTATCCCCGATG
*
342452 GAGAAAAATC-AGTG
66 GAGAAAAATCGA-TC
** * *
342466 TTTTAAAAATAAAACCAGGGTTGGAGTATCC
1 TTTTGGAAATAAAAACAGGGTTAGAGTATCC
342497 TCGACGGTGA
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 91 0.99
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (79 bp):
TTTTGGAAATAAAAACAGGGTTAGAGTATCCCCTCAAAAACAACAAGGTTGGAGTATCCCCGATG
GAGAAAAATCGATC
Found at i:342539 original size:52 final size:51
Alignment explanation
Indices: 342430--342548 Score: 130
Period size: 52 Copynumber: 2.3 Consensus size: 51
342420 TCAAAAATAA
* * * *
342430 CGGGGTTGGAGTATCCTTGATGGAGAAAAATCAGTGTTTTAAAAATAAAAC
1 CGGGGTTGGAGTATCCTCGACGGAGAAAAATCAGGGCTTTAAAAATAAAAC
* * * * * *
342481 CAGGGTTGGAGTATCCTCGACGGTGAAAAAATTAGGGCTTTAGAGATAAAAT
1 CGGGGTTGGAGTATCCTCGACGGAG-AAAAATCAGGGCTTTAAAAATAAAAC
*
342533 CGGGGTTGGAATATCC
1 CGGGGTTGGAGTATCC
342549 CCTCGAAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 21 0.38
52 34 0.62
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCTCGACGGAGAAAAATCAGGGCTTTAAAAATAAAAC
Found at i:342570 original size:80 final size:80
Alignment explanation
Indices: 342483--342903 Score: 358
Period size: 80 Copynumber: 5.3 Consensus size: 80
342473 AATAAAACCA
* * **** * *
342483 GGGTTGGAGTATCCTCGACGGTGAAAAAATTAGGGCTTTAGAGATAAAATCGGGGTTGGAATATC
1 GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
342548 CCCTCGAAAATAATG
66 CCCTCGAAAATAATG
* * * ** * * * ** *
342563 GGGTTGGAGTATCCCCGATGGTG-AAAAATCGATGTTTTAGAAACGAAAACCAAGGTTAGAGTAT
1 GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAA-TAAAATCGGGGTTGGAGTAT
* * *
342627 CCCCTCGGAATTGATG
65 CCCCTCGAAAATAATG
* * ** *
342643 GGGTTAGAGTATCC-CCAAGATGAAAATTTTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT-
1 GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
* *
342706 CCCTCAAAAATAACG
66 CCCTCGAAAATAATG
* * *
342721 GGATTGGAGTATCCTC-AAGATGAAAAATTTAATATTTTGGAAATAAAAT-GGGGTTGGAGTATC
1 GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
* * *
342784 TCCTTG-AATTAATG
66 CCCTCGAAAATAATG
** * *
342798 GGGTTGGAGTATCCTC-AAGATGAAAATTTTAATATTTTGGAAATAAAAAT-GGGGCTGGAGTAT
1 GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAAT-AAAATCGGGGTTGGAGTAT
** *
342861 -CCCTTTAGAAATAACG
65 CCCCTCGA-AAATAATG
*
342877 AGGTTGGAGTATCCTCG-AGATGAAAAA
1 GGGTTGGAGTATCCTCGAAGATGAAAAA
342904 TCGATATTTT
Statistics
Matches: 278, Mismatches: 55, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
77 65 0.23
78 72 0.26
79 65 0.23
80 76 0.27
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (80 bp):
GGGTTGGAGTATCCTCGAAGATGAAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTATC
CCCTCGAAAATAATG
Found at i:342817 original size:77 final size:78
Alignment explanation
Indices: 342642--342926 Score: 360
Period size: 77 Copynumber: 3.7 Consensus size: 78
342632 CGGAATTGAT
* * * * *
342642 GGGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTTAGAAATAAAAACGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
**
342707 CCTCAAAAATAAC
66 CCTCTGAAATAAC
*
342720 GGGATTGGAGTATCCTCAAGATGAAAAATTTAATATTTTGGAAAT-AAAATGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
* *
342784 TCCT-TGAATTAAT
66 -CCTCTGAAATAAC
* *
342797 GGGGTTGGAGTATCCTCAAGATGAAAATTTTAATATTTTGGAAATAAAAATGGGGCTGGAGTATC
1 GGGGTTGGAGTATCCTCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
*
342862 CCTTTAGAAATAAC
66 CCTCT-GAAATAAC
* * ** *
342876 GAGGTTGGAGTATCCTCGAGATGAAAAA-TCGATATTTTTGGAAAGAAAAAT
1 GGGGTTGGAGTATCCTCAAGATGAAAAATTTAATA-TTTTGGAAATAAAAAT
342927 TTAGAAATTT
Statistics
Matches: 181, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
77 69 0.38
78 66 0.36
79 46 0.25
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (78 bp):
GGGGTTGGAGTATCCTCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATC
CCTCTGAAATAAC
Found at i:342825 original size:155 final size:157
Alignment explanation
Indices: 342616--342904 Score: 440
Period size: 155 Copynumber: 1.9 Consensus size: 157
342606 CGAAAACCAA
*
342616 GGTTAGAGTATCCCCTCGGAATTGATGGGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTT
1 GGTTAGAGTATCCCCTCGGAATTAATGGGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTT
*
342681 AGAAATAAAAACGGGGTTGGAGTATCCC-TCAAAAATAACG-GGATTGGAGTATCCTCAAGATGA
66 AGAAATAAAAACGGGGCTGGAGTATCCCTTCAAAAATAACGAGG-TTGGAGTATCCTCAAGATGA
342744 AAAATTTAATATTTTGGAAATAAAATGG
130 AAAATTTAATATTTTGGAAATAAAATGG
* * * * *
342772 GGTTGGAGTATCTCCT-TGAATTAATGGGGTTGGAGTATCCTCAAGATGAAAATTTTAATATTTT
1 GGTTAGAGTATCCCCTCGGAATTAATGGGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTT
* * * * *
342836 GGAAATAAAAATGGGGCTGGAGTATCCCTTTAGAAATAACGAGGTTGGAGTATCCTCGAGATGAA
66 AGAAATAAAAACGGGGCTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCAAGATGAA
342901 AAAT
131 AAAT
342905 CGATATTTTT
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
155 69 0.58
156 48 0.40
157 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (157 bp):
GGTTAGAGTATCCCCTCGGAATTAATGGGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTT
AGAAATAAAAACGGGGCTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCAAGATGAA
AAATTTAATATTTTGGAAATAAAATGG
Found at i:345304 original size:32 final size:32
Alignment explanation
Indices: 345263--345366 Score: 172
Period size: 32 Copynumber: 3.2 Consensus size: 32
345253 ATACATTGAG
*
345263 AATGTATCGATACATCTGGGTTAAAAACTCAA
1 AATGTATCGATACATCTGGGTTAAAAACCCAA
*
345295 AATGTATCGATACATCTGGGTTAAAAACCCAG
1 AATGTATCGATACATCTGGGTTAAAAACCCAA
*
345327 AATGTATCGATACATCTGGGTTAAAAACCCAG
1 AATGTATCGATACATCTGGGTTAAAAACCCAA
*
345359 AATATATC
1 AATGTATC
345367 AATGTAATGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (32 bp):
AATGTATCGATACATCTGGGTTAAAAACCCAA
Found at i:345502 original size:13 final size:13
Alignment explanation
Indices: 345484--345508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345474 TTTAGACACA
345484 TATCGATACATTG
1 TATCGATACATTG
345497 TATCGATACATT
1 TATCGATACATT
345509 TACTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:346358 original size:91 final size:91
Alignment explanation
Indices: 346199--346384 Score: 232
Period size: 91 Copynumber: 2.0 Consensus size: 91
346189 GAGGACAAAG
* * * *
346199 GAAAATGAGTACGTCTTGCTCTTTAAGGACAAAGGAAAAAAAATAATGAAATGGGTCATGCTCCT
1 GAAAAGGAGTACGTCCTGCTCTTTAAGGACAAAGGAAAAAAAAGAATGAAATGGGTCATACTCCT
*
346264 TGAGGATAAAGG-AAAAAATGAAAAAA
66 TGAGGACAAAGGAAAAAAAT-AAAAAA
* * ** * **
346290 GAAAAGGAGTACGTCCTG-TGCTTTGAGGATAAAGGAAAAAGGAGAATGAAATGGGTCTTACTTT
1 GAAAAGGAGTACGTCCTGCT-CTTTAAGGACAAAGGAAAAAAAAGAATGAAATGGGTCATACTCC
346354 TTGAGGACAAAGGAAAAAAATAAAAAA
65 TTGAGGACAAAGGAAAAAAATAAAAAA
346381 GAAA
1 GAAA
346385 GTGTCTTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
90 1 0.01
91 73 0.90
92 7 0.09
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (91 bp):
GAAAAGGAGTACGTCCTGCTCTTTAAGGACAAAGGAAAAAAAAGAATGAAATGGGTCATACTCCT
TGAGGACAAAGGAAAAAAATAAAAAA
Found at i:346508 original size:44 final size:44
Alignment explanation
Indices: 346436--346877 Score: 477
Period size: 44 Copynumber: 10.2 Consensus size: 44
346426 TACTTTTTAG
* *
346436 GGACAAA-GGAAAA-AAGAAAATGAAGTGCATCCTACTCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
* *
346478 GGATAAAGGGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
* ** *
346522 GGACAAAGGGAAAAGAAGGAAATAAAGTGTGTCCTACTCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
*
346566 GGACAAA-GG--AAGAAGGAAATGAAGTGCATCCTGCCCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
**
346607 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATTTTGCTCTTCT-A
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTT-TGA
** ** *
346651 GGACAAAGGGAAAAGAAGGAAATGAAGTGTGTTTTGATCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
* * * * * *
346695 GGACAAAAAGGAAAAAAAGGAAATCAAGTGCGTCCTGCTCTATAA
1 GGAC-AAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
** ** * * *
346740 ACACAAAATGAAAAGAAGGAAATGAAATACATCCTGTTCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
* *
346784 AGACAAAAGGGAAAAGAAGGAAATTAAGTGCATCCTGCTCTTTGA
1 GGAC-AAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
* * * * *
346829 AGACAAA-AGAGAA-AAGGAAATAAAGTACATCCTGCTCTTTGA
1 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
346871 GGACAAA
1 GGACAAA
346878 AAGGTGCCAC
Statistics
Matches: 342, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
41 34 0.10
42 41 0.12
43 13 0.04
44 182 0.53
45 72 0.21
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.20
Consensus pattern (44 bp):
GGACAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGA
Found at i:346617 original size:129 final size:131
Alignment explanation
Indices: 346421--346877 Score: 523
Period size: 129 Copynumber: 3.5 Consensus size: 131
346411 AAAAGGAGTA
* * * *
346421 TGTCCTACT-TTTTAGGGAC-AAAGGAAAAAAGAAAATGAAGTGCATCCTACTCTTTGAGGATAA
1 TGTCCTACTCTTTGA-GGACAAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAA
*
346484 AGGGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAG
65 AGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAG
346549 TG
130 TG
* *
346551 TGTCCTACTCTTTGAGGAC-AAAGG-AAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGACAAA
1 TGTCCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAA
** *
346614 GGGAAAAGAAGGAAATGAAGTGCATTTTGCTCTTCT-AGGACAAAGGGAAAAGAAGGAAATGAAG
66 GGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTT-TGAGGACAAAGGGAAAAGAAGGAAATAAAG
346678 TG
130 TG
** * * * * **
346680 TGTTTTGA-TCTTTGAGGACAAAAAGGAAAAAAAGGAAATCAAGTGCGTCCTGCTCTATAAACAC
1 TGTCCT-ACTCTTTGAGGAC-AAAAGG-AAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGAC
** * * * * *
346744 AAAATGAAAAGAAGGAAATGAAATACATCCTGTTCTTTGAAGACAAAAGGGAAAAGAAGGAAATT
63 AAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGAC-AAAGGGAAAAGAAGGAAATA
346809 AAGTG
127 AAGTG
** * * * * *
346814 CATCCTGCTCTTTGAAGACAAAA-GAGAAAAGGAAATAAAGTACATCCTGCTCTTTGAGGACAAA
1 TGTCCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAA
346878 AAGGTGCCAC
Statistics
Matches: 274, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
129 109 0.40
130 20 0.07
131 41 0.15
132 2 0.01
133 66 0.24
134 36 0.13
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (131 bp):
TGTCCTACTCTTTGAGGACAAAAGGAAAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAA
GGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAAGT
G
Found at i:346746 original size:89 final size:87
Alignment explanation
Indices: 346436--346877 Score: 407
Period size: 89 Copynumber: 5.1 Consensus size: 87
346426 TACTTTTTAG
* * * * *
346436 GGACAAA-GGAAAA-AAGAAAATGAAGTGCATCCTACTCTTTGAGGATAAAGGGAAAAGAAGGAA
1 GGACAAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTC-TTAAGGACAAAGGGAAAAGAAGGAA
346499 ATGAAGTGCATCCT-ACTCTTTGA
65 ATGAAGTGCATCCTGA-TCTTTGA
** * *
346522 GGACAAAGGGAAAAGAAGGAAATAAAGTGTGTCCTACTCTTTGAGGACAAA-GG--AAGAAGGAA
1 GGACAAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTC-TTAAGGACAAAGGGAAAAGAAGGAA
**
346584 ATGAAGTGCATCCTGCCCTTTGA
65 ATGAAGTGCATCCTGATCTTTGA
* ** *
346607 GGACAAAGGGAAAAGAAGGAAATGAAGTGCATTTTGCTCTTCTAGGACAAAGGGAAAAGAAGGAA
1 GGACAAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTCTT-AAGGACAAAGGGAAAAGAAGGAA
** **
346672 ATGAAGTGTGTTTTGATCTTTGA
65 ATGAAGTGCATCCTGATCTTTGA
* * * * ** **
346695 GGACAAAAAGGAAAAAAAGGAAATCAAGTGCGTCCTGCTCTATAAACACAAAATGAAAAGAAGGA
1 GGAC-AAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTCT-TAAGGACAAAGGGAAAAGAAGGA
* * *
346760 AATGAAATACATCCTGTTCTTTGA
64 AATGAAGTGCATCCTGATCTTTGA
* * * *
346784 AGACAAAAGGGAAAAGAAGGAAATTAAGTGCATCCTGCTCTTTGAA-GACAAA-AGAGAA-AAGG
1 GGAC-AAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTC-TT-AAGGACAAAGGGAAAAGAAGG
* * *
346846 AAATAAAGTACATCCTGCTCTTTGA
63 AAATGAAGTGCATCCTGATCTTTGA
346871 GGACAAA
1 GGACAAA
346878 AAGGTGCCAC
Statistics
Matches: 295, Mismatches: 50, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
84 2 0.01
85 70 0.24
86 12 0.04
87 37 0.13
88 65 0.22
89 105 0.36
90 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.20
Consensus pattern (87 bp):
GGACAAAGGGAAAAGAAGGAAATAAAGTGCATCCTGCTCTTAAGGACAAAGGGAAAAGAAGGAAA
TGAAGTGCATCCTGATCTTTGA
Found at i:347458 original size:306 final size:304
Alignment explanation
Indices: 346850--347564 Score: 814
Period size: 306 Copynumber: 2.3 Consensus size: 304
346840 AAAAGGAAAT
* * *
346850 AAAGTACATCCTGCTCTTTGAGGACAAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAG
1 AAAG-ACATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAAAAAAAG
** * * * * * *
346915 TGTGTCTTGCTTTTTAAGGACTAAAAGGTGCCACTAACTCGTGTGAGCTTTAAAAAGAGAAAGGC
65 -GCATCCTGCTTTTGAAGGACAAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGAAAAAGGC
* * *** *
346980 ATCTTGCTTTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGAGTC
129 ATCCTACTCGATGAGCACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAAGAGTC
*
347045 CTGCTTTTTAATGACAAAAAGGTGCCACCAACTCATACGGGCTTTAAAAGAAAAAGGCGTCCTAC
194 CTGCTTTTTAAGGACAAAAAGGTGCCACCAACTCATACGGGCTTTAAAAGAAAAAGGCGTCCTAC
* * *
347110 TCTGTGAGGACTAAAAGGTGCCACCAGCTCTTGTGAGCTTTAAAAA
259 TCTGTGAGGACTAAAAGGTGACACCAACTCATGTGAGCTTTAAAAA
* *
347156 GGAAA-ACGTCATGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAAGGAAA
1 --AAAGACATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAA--AAA
* *
347220 AA-GCATCCTGCTCTTTGAA-GACAAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAATAAAAA
62 AAGGCATCCTGCT-TTTGAAGGACAAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGAAAAA
* ** * *
347283 GGCATCCTACTCGATGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGGGAAAGGC
126 GGCATCCTACTCGATGAGCACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAAGA
* * * ** *
347348 GTCCTGCTTTTTGAGGACTAAAAA-GTGTCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGT
191 GTCCTGCTTTTTAAGGAC-AAAAAGGTGCCACCAACTCATACGGGCTTT-AAAAGAAAAAGGCGT
* * *
347412 CCTACTCTTTGAGGATTAAAAGGT-ACACCAACTCATGTGGGCTTTAAAAA
254 CCTACTCTGTGAGGACTAAAAGGTGACACCAACTCATGTGAGCTTTAAAAA
* * * ** * *
347462 AAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTATG-CTTTGAAAGAAAAA
1 AAAGACATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGT-GGACTTT-AAAAAAAAA
** * * *
347526 GGTGTCTTACTCTTT-AAGGACTAAAAGGTGCCACCAACT
64 GGCATCCTGCT-TTTGAAGGACAAAAAGGTGCCACCAACT
347565 TTCTTTTTGA
Statistics
Matches: 344, Mismatches: 53, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
304 10 0.03
305 70 0.20
306 210 0.61
307 46 0.13
308 8 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (304 bp):
AAAGACATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAAAAAAAGG
CATCCTGCTTTTGAAGGACAAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGAAAAAGGCAT
CCTACTCGATGAGCACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAAGAGTCCT
GCTTTTTAAGGACAAAAAGGTGCCACCAACTCATACGGGCTTTAAAAGAAAAAGGCGTCCTACTC
TGTGAGGACTAAAAGGTGACACCAACTCATGTGAGCTTTAAAAA
Done.