Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 39 of 316
Found at i:11320497 original size:9 final size:8
Alignment explanation
Indices: 11320475--11320499 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11320465 AGTAAATATT
11320475 AATTTTTA
1 AATTTTTA
11320483 AATTTTTA
1 AATTTTTA
11320491 AATTTTTA
1 AATTTTTA
11320499 A
1 A
11320500 TCTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATTTTTA
Found at i:11320627 original size:27 final size:27
Alignment explanation
Indices: 11320566--11320627 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
11320556 TGATAATTTG
* * *
11320566 AATATTTTAAAAAACATAATTTATTTC
1 AATATTTTAAAAAACAAAATTGACTTC
* *
11320593 AATTTTTTAATAAAATAAAATTGACTT-
1 AATATTTTAA-AAAACAAAATTGACTTC
11320620 AATATTTT
1 AATATTTT
11320628 CTACATTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATTTTAAAAAACAAAATTGACTTC
Found at i:11339842 original size:46 final size:46
Alignment explanation
Indices: 11339782--11340101 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
11339772 TTTGACATGA
* * * ** * *
11339782 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
11339828 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11339874 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11339920 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
11339966 TGCCATGATGTCTTTCAACGATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11340012 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11340058 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11340102 AGAGCACACT
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 252 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11342594 original size:30 final size:30
Alignment explanation
Indices: 11342527--11342594 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
11342517 CACCCTTAAA
* * *
11342527 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
11342557 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
11342586 AGTATTTAC
1 A-TATTTAC
11342595 TCTTGGTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:11344455 original size:22 final size:22
Alignment explanation
Indices: 11344430--11344475 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11344420 TAGTCCAACT
*
11344430 ATGGTTTTACACAT-ATAATGCC
1 ATGGTCTTACA-ATCATAATGCC
*
11344452 ATGGTCTTACATTCATAATGCC
1 ATGGTCTTACAATCATAATGCC
11344474 AT
1 AT
11344476 AACCCGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (22 bp):
ATGGTCTTACAATCATAATGCC
Found at i:11344521 original size:33 final size:33
Alignment explanation
Indices: 11344452--11344529 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
11344442 ATATAATGCC
* * *
11344452 ATGGTCTTACATTCATAATGCCATAACCCGGTT
1 ATGGTCTTACATTCAGAATGCCATAACCCAGCT
**
11344485 ATGGTCTTATCATT-AGAATGCCATGGCCCAGCT
1 ATGGTCTTA-CATTCAGAATGCCATAACCCAGCT
*
11344518 ATGGTTTTACAT
1 ATGGTCTTACAT
11344530 ACTAATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 31 0.82
34 4 0.11
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAATGCCATAACCCAGCT
Found at i:11352301 original size:13 final size:13
Alignment explanation
Indices: 11352283--11352308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11352273 AAGTAATCGA
11352283 ACACGGGCGTGTC
1 ACACGGGCGTGTC
11352296 ACACGGGCGTGTC
1 ACACGGGCGTGTC
11352309 CCTGCCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:11356656 original size:17 final size:17
Alignment explanation
Indices: 11356636--11356673 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11356626 ATTTCTTTTA
11356636 TTTTTAAGATTCATTCG
1 TTTTTAAGATTCATTCG
*
11356653 TTTTTAAGATTCATTTG
1 TTTTTAAGATTCATTCG
11356670 TTTT
1 TTTT
11356674 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTTAAGATTCATTCG
Found at i:11368390 original size:12 final size:13
Alignment explanation
Indices: 11368365--11368393 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11368355 AAAAAGGGAA
11368365 AAAAATTAGTAAT
1 AAAAATTAGTAAT
11368378 AAAAATTAG-AAT
1 AAAAATTAGTAAT
11368390 AAAA
1 AAAA
11368394 TTTAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:11380009 original size:15 final size:15
Alignment explanation
Indices: 11379989--11380017 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11379979 TATGCATGTA
11379989 AAATATAAAAGACAG
1 AAATATAAAAGACAG
11380004 AAATATAAAAGACA
1 AAATATAAAAGACA
11380018 TAACAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (15 bp):
AAATATAAAAGACAG
Found at i:11381743 original size:22 final size:22
Alignment explanation
Indices: 11381704--11381746 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11381694 AGCAAAATAA
*
11381704 TAGCGAAATGATAATAAAACAG
1 TAGCGAAATGACAATAAAACAG
* *
11381726 TAGCGAAATGGCAGTAAAACA
1 TAGCGAAATGACAATAAAACA
11381747 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (22 bp):
TAGCGAAATGACAATAAAACAG
Found at i:11386925 original size:13 final size:13
Alignment explanation
Indices: 11386907--11386931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11386897 CTTTATATTT
11386907 TTTTAAAATTATA
1 TTTTAAAATTATA
11386920 TTTTAAAATTAT
1 TTTTAAAATTAT
11386932 TAATAATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATTATA
Found at i:11386962 original size:19 final size:20
Alignment explanation
Indices: 11386938--11386976 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11386928 TTATTAATAA
*
11386938 TATAAAT-TTTTAGAATTTT
1 TATAAATATTTTAAAATTTT
11386957 TATAAATATTTTAAAATTTT
1 TATAAATATTTTAAAATTTT
11386977 AAAATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATAAATATTTTAAAATTTT
Found at i:11386973 original size:10 final size:9
Alignment explanation
Indices: 11386941--11386982 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
11386931 TTAATAATAT
11386941 AAATTTTTA
1 AAATTTTTA
*
11386950 GAATTTTTA
1 AAATTTTTA
11386959 TAAATATTTTA
1 -AAAT-TTTTA
11386970 AAA-TTTTA
1 AAATTTTTA
11386978 AAATT
1 AAATT
11386983 AGTTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.29
9 9 0.32
10 6 0.21
11 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
AAATTTTTA
Found at i:11386977 original size:19 final size:19
Alignment explanation
Indices: 11386938--11386982 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11386928 TTATTAATAA
*
11386938 TATAAATTTTTAGAATTTT
1 TATAAATTTTTAGAAATTT
11386957 TATAAATATTTTA-AAATTT
1 TATAAAT-TTTTAGAAATTT
11386976 TA-AAATT
1 TATAAATT
11386983 AGTTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 14 0.58
20 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TATAAATTTTTAGAAATTT
Found at i:11392056 original size:12 final size:12
Alignment explanation
Indices: 11392039--11392063 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11392029 CCTACCTATA
11392039 CTACTCTTTAAG
1 CTACTCTTTAAG
11392051 CTACTCTTTAAG
1 CTACTCTTTAAG
11392063 C
1 C
11392064 CATAGCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (12 bp):
CTACTCTTTAAG
Found at i:11399519 original size:4 final size:4
Alignment explanation
Indices: 11399510--11399586 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
11399500 CCCTTTTCTA
** * * * **
11399510 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
11399560 TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
11399587 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:11406016 original size:47 final size:47
Alignment explanation
Indices: 11405907--11406009 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
11405897 CCGGGATAAG
*
11405907 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * * * *
11405954 CACAAACTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
11406001 CACATAGTG
1 CACATAGTG
11406010 TCTCATCCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:11406788 original size:4 final size:4
Alignment explanation
Indices: 11406779--11406855 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
11406769 CCCTTTTCTA
** * * * **
11406779 TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC TTTC
*
11406829 TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
11406856 TTAACTTACT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:11417056 original size:7 final size:7
Alignment explanation
Indices: 11417044--11417070 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11417034 AGAAAGAGAA
11417044 AAAAAAG
1 AAAAAAG
11417051 AAAAAAG
1 AAAAAAG
11417058 AAAAAAG
1 AAAAAAG
11417065 AAAAAA
1 AAAAAA
11417071 CTAAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11417070 original size:16 final size:17
Alignment explanation
Indices: 11417030--11417063 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11417020 GAGGAGAAGG
*
11417030 AAAGAGAAAGAGAAAAA
1 AAAGAGAAAAAGAAAAA
11417047 AAAGA-AAAAAGAAAAA
1 AAAGAGAAAAAGAAAAA
11417063 A
1 A
11417064 GAAAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAGAAAAAGAAAAA
Found at i:11417076 original size:14 final size:14
Alignment explanation
Indices: 11417044--11417078 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11417034 AGAAAGAGAA
*
11417044 AAAAAAGAAAAAAG
1 AAAAAAGAAAAAAC
11417058 AAAAAAGAAAAAAC
1 AAAAAAGAAAAAAC
11417072 TAAAAAA
1 -AAAAAA
11417079 CATTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAC
Found at i:11418742 original size:20 final size:20
Alignment explanation
Indices: 11418713--11418756 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
11418703 ACATAGTAAG
*
11418713 TTGATTAGTGATAAGGTATA
1 TTGATCAGTGATAAGGTATA
* *
11418733 TTGATCAGTGATATGGTATG
1 TTGATCAGTGATAAGGTATA
11418753 TTGA
1 TTGA
11418757 CTAAGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (20 bp):
TTGATCAGTGATAAGGTATA
Found at i:11425900 original size:16 final size:17
Alignment explanation
Indices: 11425875--11425924 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
11425865 TTTTCTTACT
11425875 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
11425891 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
11425907 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
11425924 T
1 T
11425925 GAACTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:11426078 original size:24 final size:27
Alignment explanation
Indices: 11426051--11426104 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
11426041 TACTTAAAAT
11426051 TTAAG-TA-AAAAGATATTA-TTATTA
1 TTAAGATATAAAAGATATTAGTTATTA
**
11426075 TTAAGATATAAATTATATTAGTTATTA
1 TTAAGATATAAAAGATATTAGTTATTA
11426102 TTA
1 TTA
11426105 TATTATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 2 0.08
26 9 0.36
27 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
TTAAGATATAAAAGATATTAGTTATTA
Found at i:11426082 original size:17 final size:16
Alignment explanation
Indices: 11426060--11426109 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
11426050 TTTAAGTAAA
11426060 AAGATATTATTATTATT
1 AAGATATTATTA-TATT
*
11426077 AAGATATAAATTATATT
1 AAGATAT-TATTATATT
*
11426094 -AGTTATTATTATATT
1 AAGATATTATTATATT
11426109 A
1 A
11426110 TGAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.29
16 5 0.18
17 11 0.39
18 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AAGATATTATTATATT
Found at i:11426244 original size:31 final size:32
Alignment explanation
Indices: 11426187--11426247 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
11426177 ACATTTGCAT
11426187 TATTTATGTATAATTAGTGAAAAGATATTTTA
1 TATTTATGTATAATTAGTGAAAAGATATTTTA
11426219 TATTTAT-TATTAATTAGT-AAAAGATATTT
1 TATTTATGTA-TAATTAGTGAAAAGATATTT
11426248 ATTAGATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (32 bp):
TATTTATGTATAATTAGTGAAAAGATATTTTA
Found at i:11426261 original size:32 final size:31
Alignment explanation
Indices: 11426197--11426271 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
11426187 TATTTATGTA
* *
11426197 TAATTAGTGAAAAGATATTTTATATTTATTAT
1 TAATTAGT-AAAAGATATTTTAGATGTATTAT
11426229 TAATTAGTAAAAGATATTTATTAGATGT-TTAT
1 TAATTAGTAAAAGATA-TT-TTAGATGTATTAT
*
11426261 T-ATTATTAAAA
1 TAATTAGTAAAA
11426272 TTATTAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 17 0.45
32 15 0.39
33 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (31 bp):
TAATTAGTAAAAGATATTTTAGATGTATTAT
Found at i:11426741 original size:21 final size:21
Alignment explanation
Indices: 11426691--11426741 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11426681 TTGAAAAAAT
*
11426691 AATGAATTAGGGATTTAATTG
1 AATGAATTTGGGATTTAATTG
11426712 AATGAATTTGGGATTTAATTG
1 AATGAATTTGGGATTTAATTG
11426733 AATGAATTT
1 AATGAATTT
11426742 TAAGTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (21 bp):
AATGAATTTGGGATTTAATTG
Found at i:11433059 original size:26 final size:26
Alignment explanation
Indices: 11432981--11433162 Score: 237
Period size: 26 Copynumber: 7.2 Consensus size: 26
11432971 GCCTAGCCTA
11432981 TTTT-AAT-AACTAGGGCA-AAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
** *
11433004 TTTTCGGTAAACTGGGGCA-AAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
11433029 TTTTCAATAAACTAGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
** *
11433055 TTTTCGGTAAACTAGGGCATAAGACC
1 TTTTCAATAAACTAGGGCATAAGCCC
11433081 TTTTCAATAAACTAGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
** *
11433107 TTTTCGGTAAACTGGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
* *
11433133 TTTTCAATAAATTGGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
11433159 TTTT
1 TTTT
11433163 GCACTTCCTC
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
23 4 0.03
24 1 0.01
25 31 0.22
26 102 0.74
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (26 bp):
TTTTCAATAAACTAGGGCATAAGCCC
Found at i:11433102 original size:52 final size:52
Alignment explanation
Indices: 11432981--11433162 Score: 300
Period size: 52 Copynumber: 3.6 Consensus size: 52
11432971 GCCTAGCCTA
11432981 TTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCC
* *
11433029 TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGACC
1 TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCC
11433081 TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCC
* *
11433133 TTTTCAATAAATTGGGGCATAAGCCCTTTT
1 TTTTCAATAAACTAGGGCATAAGCCCTTTT
11433163 GCACTTCCTC
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
48 4 0.03
49 3 0.02
50 10 0.08
51 24 0.19
52 83 0.67
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (52 bp):
TTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCC
Found at i:11434022 original size:27 final size:27
Alignment explanation
Indices: 11433945--11434024 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
11433935 TCATGCGGAA
11433945 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
11433970 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
11433997 CCTACAGGGACT-TTACGGTCTTTTTAC
1 CATACAGGG-CTATTACGGTCATTTTAC
11434024 C
1 C
11434025 TAATAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 31 0.69
28 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:11434108 original size:27 final size:27
Alignment explanation
Indices: 11434082--11434534 Score: 161
Period size: 27 Copynumber: 16.7 Consensus size: 27
11434072 ATCTACAAAC
* *
11434082 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
** * *
11434109 CAATAGAATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-CAGTAA-TTTTATAAA-T
* *
11434138 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTATAAAT
* *
11434165 CAAGGGTATTTTAGTAATTTTACAAATT
1 CAAGGGTATTTCAGTAATTTTATAAA-T
* * * *
11434193 GAA-GGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTATAAAT
* **
11434218 CCAGTGGTATTTTGGTAATTTTATAAA-
1 CAAG-GGTATTTCAGTAATTTTATAAAT
* ** * *
11434245 CTAGGGTTATTTTGGTAAATTTACAAAT
1 CAAGGG-TATTTCAGTAATTTTATAAAT
** * * * *
11434273 TGAGGGTATTCCTGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * *
11434300 CAAGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
11434326 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTCAGTAATTTTA-TAAAT
* * * *
11434353 CGAGGGTATTT-TGTTAATTTTGTAAAC
1 CAAGGGTATTTCAG-TAATTTTATAAAT
* * *
11434380 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *** * *
11434407 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
*** *
11434434 CAAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** * *
11434461 CGAGGGTAAAAT-GGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT
* * * *
11434488 CGAGGGTACTTT-GGTAATTTTACAATT
1 CAAGGGTA-TTTCAGTAATTTTATAAAT
** *
11434515 TGAGGGTATTTCAATAATTT
1 CAAGGGTATTTCAGTAATTT
11434535 GGTAAACTAA
Statistics
Matches: 337, Mismatches: 71, Indels: 36
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.00
26 29 0.09
27 268 0.80
28 27 0.08
29 12 0.04
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:11434227 original size:54 final size:53
Alignment explanation
Indices: 11434167--11434414 Score: 196
Period size: 54 Copynumber: 4.6 Consensus size: 53
11434157 TTGTAAATCA
* * *
11434167 AGGGTATTTTAGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACC
* * * * * **
11434220 AGTGGTATTTTGGTAATTTTATAAA-CTAGGGTTATTTTGGTAAATTTACAAATTG
1 AG-GGTATTTTAGTAATTTTACAAATCGAAGG-TATTTTGGTAATTTTACAAA-CC
* * * * *
11434275 AGGGTATTCCT-GTAATTTTACAAA-CCAAGGGTATTTTAGCAATTTTACAAACT
1 AGGGTATT-TTAGTAATTTTACAAATCGAA-GGTATTTTGGTAATTTTACAAACC
* ** * * **
11434328 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGTTAATTTTGTAAACC
1 AGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACC
** *
11434381 GAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 -AGGGTATTTTAGTAATTTTACAAATCGAAGGTA
11434415 AAACAGTAAT
Statistics
Matches: 152, Mismatches: 35, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 42 0.28
54 104 0.68
55 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAACC
Found at i:11434268 original size:81 final size:80
Alignment explanation
Indices: 11434167--11434348 Score: 258
Period size: 81 Copynumber: 2.3 Consensus size: 80
11434157 TTGTAAATCA
* *
11434167 AGGGTATTTTAGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATTGAAGGTATTCCGGTAATTTCACAAACCAAG-GGTATTTT
* * *
11434231 GGTAATTTTATAAACT
65 AGCAATTTTACAAACT
* * * *
11434247 AGGGTTATTTTGGTAAATTTACAAATTGAGGGTATTCCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGG-TATTTTGGTAATTTTACAAATTGAAGGTATTCCGGTAATTTCACAAACCAAGGGTATTTT
11434312 AGCAATTTTACAAACT
65 AGCAATTTTACAAACT
11434328 AGGGTATTTTGGTAATTTTAC
1 AGGGTATTTTGGTAATTTTAC
11434349 TGATCGAGGG
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
80 20 0.22
81 68 0.76
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATTGAAGGTATTCCGGTAATTTCACAAACCAAGGGTATTTTA
GCAATTTTACAAACT
Found at i:11436153 original size:7 final size:7
Alignment explanation
Indices: 11436143--11436221 Score: 56
Period size: 7 Copynumber: 11.7 Consensus size: 7
11436133 GCTAACTCTT
11436143 AACCCTA
1 AACCCTA
*
11436150 AA-CCTT
1 AACCCTA
11436156 AA-C-TA
1 AACCCTA
*
11436161 AACCCCA
1 AACCCTA
*
11436168 CACCCTA
1 AACCCTA
* *
11436175 AATCTTA
1 AACCCTA
*
11436182 AACCTTA
1 AACCCTA
11436189 AACCCTA
1 AACCCTA
11436196 AACCCTA
1 AACCCTA
* *
11436203 AATCATA
1 AACCCTA
*
11436210 CACCCTA
1 AACCCTA
11436217 AACCC
1 AACCC
11436222 CTTATATATG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
5 3 0.06
6 7 0.13
7 44 0.81
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:11436200 original size:28 final size:27
Alignment explanation
Indices: 11436143--11436222 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
11436133 GCTAACTCTT
*
11436143 AACCCTAAACCTT-AA-CTAAACCCCA
1 AACCCTAAATCTTAAACCTAAACCCCA
* *
11436168 CACCCTAAATCTTAAACCTTAAACCCTA
1 AACCCTAAATCTTAAACC-TAAACCCCA
* *
11436196 AACCCTAAATCATACACCCTAAACCCC
1 AACCCTAAATCTTA-AACCTAAACCCC
11436223 TTATATATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 11 0.25
26 2 0.05
27 1 0.02
28 27 0.61
29 3 0.07
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (27 bp):
AACCCTAAATCTTAAACCTAAACCCCA
Found at i:11436729 original size:141 final size:141
Alignment explanation
Indices: 11436453--11437163 Score: 943
Period size: 141 Copynumber: 5.1 Consensus size: 141
11436443 AATATATATA
** * * * * * *
11436453 TCGTCTTAGGACTGGAC-AAATCCAACTATTATTTAAGTGTTGACTTAGGCATACATATACCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * *
11436517 CCTTATACAAAGAGTTGGCC-AAAACATA-AGTTGGCAAGTCTATCCCAACACTTAAGAAAGTGT
66 CCTTATACAAAGAGTT-GCCGAAAGCGTATA-TTGGCATGTCTATCCCAACACTTAAGAAAGTGT
11436580 CGCCACAATAGTG
129 CGCCACAATAGTG
* * *
11436593 TCGTCTTAGGACTACACAAAAGTCAACTCTTATTCAAGCATTGCCTTAGGCATACATATTCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
11436658 CCTTATACAAAGAGTTTCCTAAAGTGTATATTGGCATGTATATCCCAACACTTAAGAAAGTGTCG
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
11436723 CCACAATAGTG
131 CCACAATAGTG
11436734 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
11436799 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACATAAGAAAGTGTCA
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
*
11436864 CCAAAATAGTG
131 CCACAATAGTG
* *
11436875 TCGTCTTAGGACTACACAAAAACCAACTCTTA-TCAAGCATTGCCTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * **
11436939 CCTTATACAAAGAGTTG-CGTAAAGCGTATCTTGGCATGTCTATCGCAACACTTAAAAAAACGTC
66 CCTTATACAAAGAGTTGCCG-AAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTC
*
11437003 GCCATAATAGTG
130 GCCACAATAGTG
* * * * * * *
11437015 TCATCTTAGGGCTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCTTTAAGCATGCATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
11437079 CCTTATACAAAAAGTTGGCGAAAGCGTATGTTGGCCA-GTCTATCCCAACACTTAAGAAAGTGTT
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGG-CATGTCTATCCCAACACTTAAGAAAGTGTC
*
11437143 GCC-CCATAAGTG
130 GCCACAAT-AGTG
*
11437155 TCGTATTAG
1 TCGTCTTAG
11437164 CACTGTTTTG
Statistics
Matches: 507, Mismatches: 56, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
139 17 0.03
140 219 0.43
141 270 0.53
142 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (141 bp):
TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
CCACAATAGTG
Found at i:11439893 original size:13 final size:13
Alignment explanation
Indices: 11439870--11439911 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
11439860 GCTCAGCAGG
*
11439870 GACACGCCCGTGT
1 GACACGACCGTGT
11439883 GACAC-AGCCGTGT
1 GACACGA-CCGTGT
11439896 GACACGACCGTGT
1 GACACGACCGTGT
11439909 GAC
1 GAC
11439912 GTGATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 25 0.96
14 1 0.04
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.14
Consensus pattern (13 bp):
GACACGACCGTGT
Found at i:11446077 original size:28 final size:28
Alignment explanation
Indices: 11446045--11446146 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
11446035 TAATTATATG
** *
11446045 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * *
11446073 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
*
11446101 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
*
11446129 TGGCACTTAGTGTCCGAA
1 TGGCACTTAGTGTGCGAA
11446147 ACATCCAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 59 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:11446131 original size:56 final size:56
Alignment explanation
Indices: 11446045--11446171 Score: 182
Period size: 56 Copynumber: 2.3 Consensus size: 56
11446035 TAATTATATG
** * * * *
11446045 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTCCGAAACATCCAGAA
11446101 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTCCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTCCGAAACATCCAGAA
* *
11446157 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
11446172 AAGGTATAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTCCGAAACATCCAGAA
Found at i:11446163 original size:28 final size:28
Alignment explanation
Indices: 11446072--11446171 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
11446062 AGTATCGGGG
*
11446072 ATGGCACTTAGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
** * * *
11446100 ATGGCACTTAGTGTGCGAAGTAACGAGG
1 ATGGCACTTAGTGTGCGAAACATCCAGA
*
11446128 ATGGCACTTAGTGTCCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
* *
11446156 ACGACACTTAGTGTGC
1 ATGGCACTTAGTGTGC
11446172 AAGGTATAGG
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAACATCCAGA
Found at i:11446285 original size:32 final size:32
Alignment explanation
Indices: 11446249--11446343 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
11446239 TGAGTATAAG
* * * *
11446249 ATTGGTACGAGATGATACAGGTATCTACGGAA
1 ATTGGTACAATATGGTACAGGTATGTACGGAA
*
11446281 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAATATGGTACAGGTATGTACGGAA
*
11446313 ATTGGTACAATATGGTACATGTATGTACGGA
1 ATTGGTACAATATGGTACAGGTATGTACGGA
11446344 GATTCAATTG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAGGTATGTACGGAA
Found at i:11452298 original size:28 final size:28
Alignment explanation
Indices: 11452266--11452367 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
11452256 TAATTATATG
* *
11452266 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAATGTGCGAAGTATCGAGGA
* * *
11452294 TGGCACTTAATGTGCGATA-CATCCAGAA
1 TGGCACTTAATGTGCGA-AGTATCGAGGA
* *
11452322 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAATGTGCGAAGTATCGAGGA
*
11452350 TGGCACTTAGTGTGCGAA
1 TGGCACTTAATGTGCGAA
11452368 ACATCCAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (28 bp):
TGGCACTTAATGTGCGAAGTATCGAGGA
Found at i:11452352 original size:56 final size:56
Alignment explanation
Indices: 11452266--11452427 Score: 186
Period size: 56 Copynumber: 2.9 Consensus size: 56
11452256 TAATTATATG
** * *
11452266 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAATGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAATGTGCGATACATCCAGAA
* *
11452322 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAATGTGCGATACATCCAGAA
* * * *
11452378 CGACACTTAGTGTGC-AAGGTATAGGA-TATGGCA-TCTAATGTGCGATACAT
1 TGGCACTTAGTGTGCGAA-GTA-ACGAGGATGGCACT-TAATGTGCGATACAT
11452428 TGAATATTCA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
55 3 0.03
56 85 0.93
57 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAATGTGCGATACATCCAGAA
Found at i:11452384 original size:28 final size:28
Alignment explanation
Indices: 11452293--11452392 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
11452283 AGTATCGGGG
* *
11452293 ATGGCACTTAATGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
** * * *
11452321 ATGGCACTTAGTGTGCGAAGTAACGAGG
1 ATGGCACTTAGTGTGCGAAACATCCAGA
11452349 ATGGCACTTAGTGTGCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
* *
11452377 ACGACACTTAGTGTGC
1 ATGGCACTTAGTGTGC
11452393 AAGGTATAGG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAACATCCAGA
Found at i:11452544 original size:32 final size:32
Alignment explanation
Indices: 11452470--11452560 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
11452460 TGAGTATGAG
* * * *
11452470 ATTGGTACGAGATGATACAAGTATCTACGGAA
1 ATTGGTACAATATGGTACAAGTATGTACGGAA
*
11452502 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAATATGGTACAAGTATGTACGGAA
* *
11452534 ATTGGTACAATATGGTATATGTATGTA
1 ATTGGTACAATATGGTACAAGTATGTA
11452561 TGGAGATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAAGTATGTACGGAA
Found at i:11456585 original size:156 final size:156
Alignment explanation
Indices: 11456301--11456616 Score: 614
Period size: 156 Copynumber: 2.0 Consensus size: 156
11456291 ATAACTTAGA
11456301 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
1 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
*
11456366 AATTGGTTATTTTTCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGGAGGTATTAATAATT
66 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGGAGGTATTAATAATT
11456431 TATTTTTCCTGATATAAACCTCGAGC
131 TATTTTTCCTGATATAAACCTCGAGC
11456457 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
1 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
*
11456522 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCGAAAATAAACAATGGGAGGTATTAATAATT
66 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGGAGGTATTAATAATT
11456587 TATTTTTCCTGATATAAACCTCGAGC
131 TATTTTTCCTGATATAAACCTCGAGC
11456613 AACT
1 AACT
11456617 AATTCCGGAG
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 158 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (156 bp):
AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGGAGGTATTAATAATT
TATTTTTCCTGATATAAACCTCGAGC
Found at i:11462824 original size:6 final size:6
Alignment explanation
Indices: 11462813--11462929 Score: 234
Period size: 6 Copynumber: 19.5 Consensus size: 6
11462803 TGATGGTTTG
11462813 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11462861 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11462909 GTATAT GTATAT GTATAT GTA
1 GTATAT GTATAT GTATAT GTA
11462930 ATATTTGGTT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 111 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:11466223 original size:22 final size:22
Alignment explanation
Indices: 11466195--11466316 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
11466185 TTCCACATCC
11466195 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
11466217 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
11466241 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
11466264 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
11466288 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
11466311 ATCACA
1 ATCACA
11466317 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:11466230 original size:47 final size:47
Alignment explanation
Indices: 11466167--11466716 Score: 777
Period size: 47 Copynumber: 11.6 Consensus size: 47
11466157 CCCTTCGGGA
* * *
11466167 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11466214 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
11466261 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
11466308 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
11466355 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
11466402 CTTATCTCACATACACA-TGTTCACATTCATCACATTGGCTATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
11466449 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
11466496 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
11466545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
11466592 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
11466641 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
11466690 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
11466717 TATTCAAATA
Statistics
Matches: 477, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 337 0.71
49 138 0.29
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:11468241 original size:56 final size:56
Alignment explanation
Indices: 11468174--11468293 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
11468164 TATTAGTTTA
11468174 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
11468230 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
11468286 TTTCCCAT
1 TTGCCCAT
11468294 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:11474633 original size:14 final size:14
Alignment explanation
Indices: 11474575--11474634 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
11474565 AAACAAATAA
11474575 TTTAAAAT-TAATAT
1 TTTAAAATCTAA-AT
11474589 ATTTAAAAATCATAAAT
1 -TTT-AAAATC-TAAAT
*
11474606 TTT-AAAGCTAAAAT
1 TTTAAAATCT-AAAT
11474620 TTTAAAATCTAAAT
1 TTTAAAATCTAAAT
11474634 T
1 T
11474635 CAAATTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
13 1 0.03
14 16 0.42
15 8 0.21
16 8 0.21
17 2 0.05
18 3 0.08
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (14 bp):
TTTAAAATCTAAAT
Found at i:11475526 original size:18 final size:18
Alignment explanation
Indices: 11475484--11475526 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11475474 TTTATTAAAA
*
11475484 AAAACATTTTTTACATTT
1 AAAATATTTTTTACATTT
*
11475502 AATATATTTTTTA-ATTT
1 AAAATATTTTTTACATTT
11475519 CAAAATAT
1 -AAAATAT
11475527 ATGGTGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATATTTTTTACATTT
Found at i:11475953 original size:13 final size:13
Alignment explanation
Indices: 11475928--11475965 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
11475918 AATTTGGCAA
11475928 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
11475941 TG-TTTTGGAAAAG
1 TGCTTTT-GAAAAG
11475954 TGCTTTTGAAAA
1 TGCTTTTGAAAA
11475966 ATTTGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:11477519 original size:11 final size:10
Alignment explanation
Indices: 11477494--11477529 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
11477484 AATCTGTTAA
11477494 AAAAACAAGT
1 AAAAACAAGT
11477504 AAAAACAAGT
1 AAAAACAAGT
11477514 ATAAAACAAGT
1 A-AAAACAAGT
11477525 AAAAA
1 AAAAA
11477530 AATAGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.11
Consensus pattern (10 bp):
AAAAACAAGT
Found at i:11477520 original size:21 final size:22
Alignment explanation
Indices: 11477495--11477540 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
11477485 ATCTGTTAAA
*
11477495 AAAACAAGTAAAAACA-AGTAT
1 AAAACAAGTAAAAAAATAGTAT
11477516 AAAACAAGTAAAAAAATAGTAT
1 AAAACAAGTAAAAAAATAGTAT
11477538 AAA
1 AAA
11477541 GTTGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.15
Consensus pattern (22 bp):
AAAACAAGTAAAAAAATAGTAT
Found at i:11477530 original size:11 final size:11
Alignment explanation
Indices: 11477493--11477530 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
11477483 CAATCTGTTA
11477493 AAAAAACAAGT
1 AAAAAACAAGT
11477504 -AAAAACAAGT
1 AAAAAACAAGT
*
11477514 ATAAAACAAGT
1 AAAAAACAAGT
11477525 AAAAAA
1 AAAAAA
11477531 ATAGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAAAACAAGT
Found at i:11477753 original size:22 final size:21
Alignment explanation
Indices: 11477718--11477765 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
11477708 TCATTTGGGG
*
11477718 AGAAGAAATGAGAGAA-AAGAA
1 AGAAGAAATAAGAGAAGAAG-A
11477739 AGAAGAAAATAAGAGAAGAAGA
1 AGAAG-AAATAAGAGAAGAAGA
11477761 AGAAG
1 AGAAG
11477766 GAGGAGCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (21 bp):
AGAAGAAATAAGAGAAGAAGA
Found at i:11478227 original size:16 final size:16
Alignment explanation
Indices: 11478206--11478266 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
11478196 AAAATAGTAT
11478206 AAAAAATAAAATATGA
1 AAAAAATAAAATATGA
***
11478222 AAAAAATATCTTAATG-
1 AAAAAATAAAAT-ATGA
*
11478238 AAAAAATAGAATATGA
1 AAAAAATAAAATATGA
*
11478254 AAAAAATACAATA
1 AAAAAATAAAATA
11478267 AAATACGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 3 0.08
16 30 0.83
17 3 0.08
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (16 bp):
AAAAAATAAAATATGA
Found at i:11478623 original size:23 final size:23
Alignment explanation
Indices: 11478574--11478628 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
11478564 ATAAAATACA
*
11478574 AAAATAGT-ATATTTTAAAAAAT
1 AAAATAATAATATTTTAAAAAAT
* *
11478596 AAAATCATAATATTTT-AGAAAT
1 AAAATAATAATATTTTAAAAAAT
11478618 ACAAATAATAA
1 A-AAATAATAA
11478629 AGGGACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATAATAATATTTTAAAAAAT
Found at i:11478655 original size:134 final size:134
Alignment explanation
Indices: 11478298--11478786 Score: 787
Period size: 134 Copynumber: 3.7 Consensus size: 134
11478288 ATAATATAAG
* * * *
11478298 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCA-AAAATTTTA-AAA-ATATA-AAC
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CAGAATATTTTAGAAATACAAATAAT
*
11478359 AAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
65 AAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
11478424 -AAAA
130 AAAAA
11478428 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTC-GAATATTTTAGAAATACAAATAAT
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TCAGAATATTTTAGAAATACAAATAAT
11478492 AAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGA
65 AAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGA
11478557 TAAAAA
129 TAAAAA
* *
11478563 AATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTAGAAATACAAATAATA
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
*
11478628 AAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAGTTATACATTTATGTACTAAAATATA-AT
66 AAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATA-AGAT
11478691 ATAAAA
130 A-AAAA
* *
11478697 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAAATAATA
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
11478762 AAGGGACAAAATTAGGGTTATATAA
66 AAGGGACAAAATTAGGGTTATATAA
11478787 GATAAAAAAT
Statistics
Matches: 336, Mismatches: 12, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
130 46 0.14
131 4 0.01
132 3 0.01
133 63 0.19
134 132 0.39
135 88 0.26
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (134 bp):
AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
AAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGATA
AAAA
Found at i:11478728 original size:269 final size:265
Alignment explanation
Indices: 11478298--11478786 Score: 820
Period size: 269 Copynumber: 1.8 Consensus size: 265
11478288 ATAATATAAG
* * *
11478298 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAATATAAACAAAG
1 AATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAACAAAAACAAAG
*
11478363 GGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGATAAAA
66 GGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGATAAAA
* *
11478428 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTAGAAATACAAATAATA
131 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAAATAATA
11478493 AAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
196 AAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
11478558 AAAAA
261 AAAAA
* *
11478563 AATAAAATACAAAAATAGTATATTTTAAAAAATAAAAT-CATAATATTTTAGAAATACAAATAAT
1 AATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCA-AAAATTTTA-AAA-ACAAA-AAC
* *
11478627 AAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAGTTATACATTTATGTACTAAAATATAAT
62 AAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACT-AAA-ATAAG
11478691 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAA
125 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAA
11478756 ATAATAAAGGGACAAAATTAGGGTTATATAA
190 ATAATAAAGGGACAAAATTAGGGTTATATAA
11478787 GATAAAAAAT
Statistics
Matches: 208, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
264 2 0.01
265 45 0.22
266 3 0.01
267 32 0.15
268 28 0.13
269 98 0.47
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (265 bp):
AATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAAAAACAAAAACAAAG
GGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGATAAAA
AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAAATAATA
AAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
AAAAA
Found at i:11478733 original size:22 final size:21
Alignment explanation
Indices: 11478708--11478758 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
11478698 ATAAAATACG
*
11478708 AAAATAGTATATTTTAAAAAAT
1 AAAATAGAATATTTT-AAAAAT
*
11478730 AAAATCCGAATATTTTAAAAAT
1 AAAAT-AGAATATTTTAAAAAT
11478752 ACAAATA
1 A-AAATA
11478759 ATAAAGGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATAGAATATTTTAAAAAT
Found at i:11478792 original size:97 final size:97
Alignment explanation
Indices: 11478684--11478883 Score: 366
Period size: 97 Copynumber: 2.1 Consensus size: 97
11478674 ATGTACTAAA
*
11478684 ATATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-GAATATTTTAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-CCTGAATATTTTAA
11478748 AAATACAAATAATAAAGGGACAAAATTAGGGTT
65 AAATACAAATAATAAAGGGACAAAATTAGGGTT
*
11478781 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAGA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAAA
11478846 AATACAAATAATAAAGGGACAAAATTAGGGTT
66 AATACAAATAATAAAGGGACAAAATTAGGGTT
11478878 ATATAA
1 ATATAA
11478884 AAAAACACTA
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
96 2 0.02
97 98 0.98
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (97 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAAA
AATACAAATAATAAAGGGACAAAATTAGGGTT
Found at i:11478829 original size:134 final size:131
Alignment explanation
Indices: 11478284--11478830 Score: 567
Period size: 134 Copynumber: 4.1 Consensus size: 131
11478274 AAAAATAGTA
* * * *
11478284 TAAAATAATATAAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTAA
1 TAAAAAAATA-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
* * * * * * *
11478349 AAAT--ATA-AACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTA-ATACAT-TTAT
65 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAATACA-AAATAGTAT
*
11478409 GTAC
129 AT-C
*
11478413 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAA-AA-ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * * *
11478478 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTA-ATACAT-TT
64 AAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAATACA-AAATAGT
*
11478541 ATGTAC
127 ATAT-C
* **
11478547 TAAAATAAGATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCATAATATTTT
1 TAAAA-AA-AT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
* * **
11478612 AGAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAGTTATAC-ATTTA
63 AAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAA---ATACAAAATA
*
11478675 -TGTA-C
125 GTATATC
11478680 TAAAATATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
1 T-AAA-A-AA-ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
*
11478745 TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAGATAAAAAATAAAATACGAAAAT
62 TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAA-A-AAAAACTAAAATAC-AAAAT
*
11478810 AGTATATT
124 AGTATATC
*
11478818 TTAAAAAATAAAA
1 TAAAAAAATAAAA
11478831 CCTGAATATT
Statistics
Matches: 365, Mismatches: 32, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
129 5 0.01
130 54 0.15
131 3 0.01
132 2 0.01
133 39 0.11
134 140 0.38
135 101 0.28
136 7 0.02
137 13 0.04
138 1 0.00
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.28
Consensus pattern (131 bp):
TAAAAAAATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
AATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACTAAAATACAAAATAGTATAT
C
Found at i:11478879 original size:366 final size:366
Alignment explanation
Indices: 11478417--11479350 Score: 1707
Period size: 366 Copynumber: 2.6 Consensus size: 366
11478407 ATGTACTAAA
*
11478417 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TTCGAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCT-GAATATTTTAGAA
*
11478481 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTA
65 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTA
*
11478546 CTAAAATAAGATAAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCATAATATTT
130 CTAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTT
*
11478611 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAGTTATACATTTA
194 TAGAAATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTA
*
11478675 TGTACTAAAATATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAA
259 TGTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAA
*
11478740 TATTTTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
324 TATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
11478783 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAGAAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAGAAA
*
11478848 TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATGTAC
66 TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTAC
**
11478913 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTT
131 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCATAATATTTT
11478978 AGAAATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTAT
195 AGAAATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTAT
11479043 GTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAT
260 GTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAT
11479108 ATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
325 ATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
*
11479150 ATAAGATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCC-GAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-CCTGAATATTTTAGAA
11479214 ATACAAATAATAAAGGGAC-AAATTAGGGTTATAT-AAAAAACACTAAAGTTATACATTTATGTA
65 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTA
11479277 CTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTT
130 CTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTT
11479342 AGAAATACA
195 AGAAATACA
11479351 CCTATTCAAT
Statistics
Matches: 551, Mismatches: 13, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
364 30 0.05
365 99 0.18
366 210 0.38
367 210 0.38
368 2 0.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (366 bp):
ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAACCTGAATATTTTAGAAA
TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTAC
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTATG
TACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATA
TTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
Found at i:11478995 original size:135 final size:136
Alignment explanation
Indices: 11478781--11479153 Score: 664
Period size: 135 Copynumber: 2.8 Consensus size: 136
11478771 AATTAGGGTT
11478781 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-CCTGAATATTTTAG
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-GAATATTTTAG
11478845 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATG
65 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATG
11478910 TACT-AA
130 TACTAAA
11478916 A-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAG
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCCGAATATTTTAG
* *
11478980 AAATACAAATAATAAAGGGACAAAATTAGAGTTATAT-AAAAAACACTAAAGTTATACATTTATG
65 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATG
11479044 TACTAAA
130 TACTAAA
*
11479051 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAGA
*
11479116 AATAAAAATAATAAAGGGACAAAATTAGGGTTATATAA
66 AATACAAATAATAAAGGGACAAAATTAGGGTTATATAA
11479154 GATAAAAAAT
Statistics
Matches: 228, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
134 67 0.29
135 121 0.53
136 40 0.18
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (136 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAGA
AATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATGT
ACTAAA
Found at i:11479168 original size:97 final size:96
Alignment explanation
Indices: 11479051--11479249 Score: 362
Period size: 97 Copynumber: 2.1 Consensus size: 96
11479041 ATGTACTAAA
11479051 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
11479116 AATAAAAATAATAAAGGGACAAAATTAGGGTT
66 AATAAAAATAATAAAGGGAC-AAATTAGGGTT
* *
11479148 ATATAAGATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAGA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
*
11479213 AATACAAATAATAAAGGGACAAATTAGGGTT
66 AATAAAAATAATAAAGGGACAAATTAGGGTT
11479244 ATATAA
1 ATATAA
11479250 AAAACACTAA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 17 0.17
97 82 0.83
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.28
Consensus pattern (96 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
AATAAAAATAATAAAGGGACAAATTAGGGTT
Found at i:11479340 original size:229 final size:233
Alignment explanation
Indices: 11478917--11479348 Score: 791
Period size: 229 Copynumber: 1.9 Consensus size: 233
11478907 ATGTACTAAA
11478917 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAGAA
11478982 ATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
66 ATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
*
11479047 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
131 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTT
11479112 TAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
196 TAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
*
11479150 ATAAGATAAAAAATAAAATATGAAAATAGTATATTTT-AAAAAATAAAATCCGAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAGAA
*
11479214 ATACAAATAATAAAGGGAC-AAATTAGGGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
66 ATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
*
11479278 T-AAA-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTT
131 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTT
*
11479341 TAGAAATA
196 TAAAAATA
11479349 CACCTATTCA
Statistics
Matches: 194, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
229 64 0.33
230 3 0.02
231 45 0.23
232 46 0.24
233 36 0.19
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.28
Consensus pattern (233 bp):
ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAGAA
ATACAAATAATAAAGGGACAAAATTAGAGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTT
TAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
Found at i:11481391 original size:12 final size:12
Alignment explanation
Indices: 11481376--11481414 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
11481366 GCCGATATAG
*
11481376 AGCCCGATCCAT
1 AGCCCGATCCAC
11481388 AGCCCGATCCAC
1 AGCCCGATCCAC
*
11481400 AGCCCGATCTAC
1 AGCCCGATCCAC
11481412 AGC
1 AGC
11481415 TAGATCCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.44, G:0.18, T:0.13
Consensus pattern (12 bp):
AGCCCGATCCAC
Found at i:11485337 original size:122 final size:123
Alignment explanation
Indices: 11485137--11485373 Score: 415
Period size: 122 Copynumber: 1.9 Consensus size: 123
11485127 TATTATAATA
11485137 TGTTATATTTAAAAATAACAAAAAAAATACCTTTAATTTTTTCTTCTCCTTCTTTCTCCCTCTCT
1 TGTTATATTTAAAAATAACAAAAAAAATACCTTTAA--TTTTCTTCTCCTTCTTTCTCCCTCTCT
*
11485202 TCTCTTCTGTAATC-TTTTTTTACTGAAATTTTTTTCCTTCTTTATTTTTTTCAGAAAATC
64 TCTCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTT-TTTTTTTCAGAAAATC
*
11485262 TGTTATATTTAAAAATAAGAAAAAAAATACCTTTAA-TTTCTTCTCCTTCTTTCTCCCTCTCTTC
1 TGTTATATTTAAAAATAACAAAAAAAATACCTTTAATTTTCTTCTCCTTCTTTCTCCCTCTCTTC
11485326 TCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTTT
66 TCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTTT
11485374 CTTTTGTTCT
Statistics
Matches: 109, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
122 45 0.41
123 29 0.27
125 35 0.32
ACGTcount: A:0.24, C:0.19, G:0.03, T:0.53
Consensus pattern (123 bp):
TGTTATATTTAAAAATAACAAAAAAAATACCTTTAATTTTCTTCTCCTTCTTTCTCCCTCTCTTC
TCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTTTTCAGAAAATC
Found at i:11485560 original size:15 final size:15
Alignment explanation
Indices: 11485540--11485589 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
11485530 ATATTTTATT
11485540 ATTTTTTTCAGATTC
1 ATTTTTTTCAGATTC
11485555 ATTTTTTT-A-A--C
1 ATTTTTTTCAGATTC
*
11485566 AGTTTTTTCAGATTC
1 ATTTTTTTCAGATTC
11485581 AATTTTTTT
1 -ATTTTTTT
11485590 AACAGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 2 0.07
14 1 0.04
15 9 0.32
16 7 0.25
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTTTTTCAGATTC
Found at i:11485571 original size:26 final size:27
Alignment explanation
Indices: 11485542--11485594 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
11485532 ATTTTATTAT
11485542 TTTTTTCAGATTC-ATTTTTTTAACAG
1 TTTTTTCAGATTCAATTTTTTTAACAG
11485568 TTTTTTCAGATTCAATTTTTTTAACAG
1 TTTTTTCAGATTCAATTTTTTTAACAG
11485595 ATTGTATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.57
Consensus pattern (27 bp):
TTTTTTCAGATTCAATTTTTTTAACAG
Found at i:11487841 original size:228 final size:225
Alignment explanation
Indices: 11487433--11488781 Score: 1052
Period size: 228 Copynumber: 5.9 Consensus size: 225
11487423 ATTCAAATAG
* * * *
11487433 ATGCAAAT-TTTCGTCAAGACCCTGACCGGCAAGACTATCACCCTT-GAGGTGGAAAGCTCCGAC
1 ATGCAAATCTTT-GTTAAGACCCTGACCGGAAAGACTATCA-CCTTGGAGGTTGAAAGCTCAGAC
* * * * * *
11487496 ACCATCGATAATGTCAAGGCAAAGATCCAAGATAAAGAAGGAATCCCACCAAATCAACAGAGGCT
64 ACCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGG-T
* * * * * * *
11487561 T-ATCTTTGCTA-GTAAGCAGCTAGAATATGGTCGTACACTTGCTGACTACAACATTCAGAAGGA
127 TGATCTTTGC-AGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGA
* * *
11487624 GTCCACCCTGCACTTGGTCCTTCGTTTGAGGAGTGGT
191 ATCCACCCTCCATTTGGTCCTTCGTTTG-GG-GTGGT
* * * *
11487661 ATGCAAATCTTTGTTAAGACCCTCACCGGCAAGACTATCACCCTT-GAGGTGGAAAGCTCGGACA
1 ATGCAAATCTTTGTTAAGACCCTGACCGGAAAGACTATCA-CCTTGGAGGTTGAAAGCTCAGACA
* * * * *
11487725 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAATAAGGGATCCCTCCAGACCAGCAGGGGCTT
65 CCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGG-TT
* * * * * *
11487790 -ATCTTTGCCGGTAAGCAACTAGAAGATGGTCGTACCCTGGCTGATTACAACATCCAAAAGGATT
128 GATCTTTGCAGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAAT
* * * * * *
11487854 CCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGA
193 CCACCCTCCATTTGGTCCTTCG--TTTGGGGTGGT
* * * * * * * *
11487889 ATGCAAATCTTTGTTAAGACCTTGACAGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATCTTTGTTAAGACCCTGACCGGAAAGACTATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * ** *
11487954 CATTGACAATGTCAAGGCTAAGATCCAGGAT-AAGGAGGGTATTCAGCCAGACCAGCAGAGGTTG
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGG-A-TCCCCCAGACCAACAGAGGTTG
* * *
11488018 ATCTTTGCTGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACATCATCCAAAAGGAATC
129 ATCTTTGCAGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATC
*
11488083 CACCCTCTATTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATGTGGTGGT
194 CACCCTCCATTTGGT-C--C-T-T-C---GT--T-TG-----G-GGTGGT
* * * * * * * * *
11488133 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATCTTTGTTAAGACCCTGACCGGAAAGACTATCACCTTGGAGGTTGAAAGCTCAGACAC
* * *
11488198 CATTGACAATGTCAAGGCTAAGATCCAGGACAAAG-AGGGTATTCCCCCAGACCAACAGAGGTTG
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGG-A-TCCCCCAGACCAACAGAGGTTG
* * * *
11488262 ATCTTTGCAGGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAATC
129 ATCTTTGCAGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATC
* * *
11488327 CACCCTCCACTTGGTGCTTCGTCTTTGTGGTGGT
194 CACCCTCCATTTGGTCCTTCG--TTTGGGGTGGT
* * * * * * * * * *
11488361 ATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAGTTCTGACA
1 ATGCAAATCTTTGTTAAGACCCTGACC-GGAAAGACTATCACCTTGGAGGTTGAAAGCTCAGACA
* * * * *
11488425 CTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTATCCCTCCAGACCAACAGAGGTTG
65 CCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGGTTG
** * * * * * * *
11488490 AT-TTTCGTGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-TAAAAGGAA
129 ATCTTT-GCAGGTAAGCAACTAGAAG-ATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAA
* * * *
11488552 TCGACCCTCCATTTGGTTCTTCGTCTTCGTGGTGGG
192 TCCACCCTCCATTTGGTCCTTCGT-TT-GGGGTGGT
* * ** * * * * *
11488588 ATGCAAATTTTTGTGAAGACATTGACAGGAAAGACTATCACTTTGGAAGTTGAAAGCTCGGACAT
1 ATGCAAATCTTTGTTAAGACCCTGACCGGAAAGACTATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * * * *
11488653 TATTGATAATGTGAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCTAGACCAGCAGAGGTTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCCCC-AGACCAACAGAGGTTGA
* * ** * *
11488718 TCTTTGCAGGGAAGCAACTTGAAGATGGAAGGAC-CTTGGCAGACTACAACATCCAGAAA-GAAT
130 TCTTTGCAGGTAAGCAACTAGAAGATGGCCGCACAC-TGGCTGACTACAACATCCA-AAAGGAAT
11488781 C
193 C
11488782 GACTCTGCAC
Statistics
Matches: 941, Mismatches: 137, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
225 1 0.00
226 10 0.01
227 196 0.21
228 504 0.54
229 17 0.02
230 3 0.00
231 1 0.00
232 1 0.00
234 3 0.00
235 3 0.00
237 3 0.00
238 2 0.00
239 1 0.00
240 1 0.00
241 1 0.00
244 191 0.20
245 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (225 bp):
ATGCAAATCTTTGTTAAGACCCTGACCGGAAAGACTATCACCTTGGAGGTTGAAAGCTCAGACAC
CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCCCCAGACCAACAGAGGTTGAT
CTTTGCAGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATCCA
CCCTCCATTTGGTCCTTCGTTTGGGGTGGT
Found at i:11488128 original size:16 final size:16
Alignment explanation
Indices: 11488109--11488140 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11488099 CTTCGTCTCC
11488109 GTGGTGGTATGCAAAT
1 GTGGTGGTATGCAAAT
11488125 GTGGTGGTATGCAAAT
1 GTGGTGGTATGCAAAT
11488141 ATTTGTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (16 bp):
GTGGTGGTATGCAAAT
Found at i:11488318 original size:244 final size:243
Alignment explanation
Indices: 11487889--11488595 Score: 835
Period size: 244 Copynumber: 3.0 Consensus size: 243
11487879 TCGTGGAGGA
* *
11487889 ATGCAAATCTTTGTTAAGAC-CTTGACAGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
1 ATGCAAATATTTGTTAAGACTCTT-ACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
** *
11487953 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCAGCCAGACCAGCAGAGGTTG
65 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTG
* * * * *
11488018 ATCTTTGCTGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACATCATCCAAAAGGAATC
130 ATCTTTGCAGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATC
*
11488083 CACCCTCTATTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATGTGGTGGT
195 CACCCTCCATTTGGTGCTTCGTCT-CGTGGTGGTATGCAAATGTGGTGGT
*
11488133 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
* *
11488198 CATTGACAATGTCAAGGCTAAGATCCAGGACAAAGAGGGTATTCCCCCAGACCAACAGAGGTTGA
66 CATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTGA
* *
11488263 TCTTTGCAGGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAATCC
131 TCTTTGCAGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCC
*
11488328 ACCCTCCACTTGGTGCTTCG--TC-------T-T-----TGTGGTGGT
196 ACCCTCCATTTGGTGCTTCGTCTCGTGGTGGTATGCAAATGTGGTGGT
* * * * * * * * *
11488361 ATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAGTTCTGACA
1 ATGCAAATATTTGTTAAGACTCTTACC-GGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
* * * *
11488425 CTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTA-TCCCTCCAGACCAACAGAGGTT
65 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCC-CCAGACCAACAGAGGTT
** * * * * * *
11488489 GAT-TTTCGTGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-TAAAAGGA
129 GATCTTT-GCAGGTAAGCAACTTGAAG-ATGGCCGCACACTCGCTGACTACAACATCCAAAAGGA
* * *
11488551 ATCGACCCTCCATTTGGTTCTTCGTCTTCGTGGTGGGATGCAAAT
192 ATCCACCCTCCATTTGGTGCTTCGTC-TCGTGGTGGTATGCAAAT
11488596 TTTTGTGAAG
Statistics
Matches: 397, Mismatches: 45, Indels: 43
0.82 0.09 0.09
Matches are distributed among these distances:
227 37 0.09
228 149 0.38
229 5 0.01
230 2 0.01
233 1 0.00
234 1 0.00
238 1 0.00
241 1 0.00
242 1 0.00
243 1 0.00
244 195 0.49
245 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (243 bp):
ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
CATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTGA
TCTTTGCAGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCC
ACCCTCCATTTGGTGCTTCGTCTCGTGGTGGTATGCAAATGTGGTGGT
Found at i:11488672 original size:227 final size:226
Alignment explanation
Indices: 11488125--11488781 Score: 772
Period size: 227 Copynumber: 2.9 Consensus size: 226
11488115 GTATGCAAAT
* * * * *
11488125 GTGGTGGTATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGT
1 GTGGTGGTATGCAAATTTTTGTGAAGACTCTTACAGGAAAGACCATCACTTTGGAAGTTGAGAGT
* * * * * *
11488190 TCAGATACCATTGACAATGTCAAGGCTAAGATCCAGGACAAAGAGGGTATTCCCCCAGACCAACA
66 TCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTA-TCCCCCAGACCAACA
* * * * *
11488255 GAGGTTGATCTTTGCA-GGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAA
130 GAGGTTGATCTTTG-AGGGTAAGCAACTTGAAGATGGCAGGAC-CTTGCAGACTACAACATCCAA
*
11488319 AAGGAATCCACCCTCCACTTGGTGCTTCGTCTTT
193 AAGGAATCCACCCTCCACTTGGTGCTTCGTCTTC
* * *
11488353 GTGGTGGTATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAG
1 GTGGTGGTATGCAAATTTTTGTGAAGACTCTTA-CAGGAAAGACCATCACTTTGGAAGTTGAGAG
* *
11488417 TTCTGACACTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTATCCCTCCAGACCAAC
65 TTCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCC-CCAGACCAAC
* * *
11488482 AGAGGTTGAT-TTTCGTGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-T
129 AGAGGTTGATCTTT-GAGGGTAAGCAACTTGAAG-ATGGCAGGAC-CTTGCAGACTACAACATCC
* * *
11488544 AAAAGGAATCGACCCTCCATTTGGTTCTTCGTCTTC
191 AAAAGGAATCCACCCTCCACTTGGTGCTTCGTCTTC
* * * *
11488580 GTGGTGGGATGCAAATTTTTGTGAAGACAT-TGACAGGAAAGACTATCACTTTGGAAGTTGAAAG
1 GTGGTGGTATGCAAATTTTTGTGAAGAC-TCTTACAGGAAAGACCATCACTTTGGAAGTTGAGAG
* * * * * * * *
11488644 CTCGGACATTATTGATAATGTGAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCTAGACCAGC
65 TTCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCCCC-AGACCAAC
*
11488709 AGAGGTTGATCTTTGCAGGG-AAGCAACTTGAAGATGGAAGGACCTTGGCAGACTACAACATCCA
129 AGAGGTTGATCTTTG-AGGGTAAGCAACTTGAAGATGGCAGGACCTT-GCAGACTACAACATCCA
11488773 GAAA-GAATC
192 -AAAGGAATC
11488782 GACTCTGCAC
Statistics
Matches: 367, Mismatches: 48, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
226 12 0.03
227 185 0.50
228 161 0.44
229 9 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (226 bp):
GTGGTGGTATGCAAATTTTTGTGAAGACTCTTACAGGAAAGACCATCACTTTGGAAGTTGAGAGT
TCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCCCCAGACCAACAG
AGGTTGATCTTTGAGGGTAAGCAACTTGAAGATGGCAGGACCTTGCAGACTACAACATCCAAAAG
GAATCCACCCTCCACTTGGTGCTTCGTCTTC
Found at i:11489860 original size:17 final size:18
Alignment explanation
Indices: 11489821--11489863 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
11489811 GCTCCTATTG
11489821 TCTTTTTTCTTTCCTCTCC
1 TCTTTTTTCTTTCCTCT-C
* *
11489840 TCTTTTTTTTTTGCTCT-
1 TCTTTTTTCTTTCCTCTC
11489857 TCTTTTT
1 TCTTTTT
11489864 CTCCCCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (18 bp):
TCTTTTTTCTTTCCTCTC
Found at i:11492913 original size:26 final size:26
Alignment explanation
Indices: 11492884--11492988 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
11492874 TGGTACAAAT
11492884 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11492910 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11492936 TGATAATGGGTTAGGTAAAAGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11492962 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11492988 T
1 T
11492989 AATGGGCATT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11494617 original size:27 final size:27
Alignment explanation
Indices: 11494585--11494725 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
11494575 AGGAAGCGTC
*
11494585 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
11494612 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
11494638 CCTAGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
11494666 CTGGTGGCTCTACCA-AATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
11494693 CTGGTGGCTCTGCCACAA-TATCAGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
11494720 CTGGTG
1 CTGGTG
11494726 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 5 0.05
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:11494664 original size:54 final size:54
Alignment explanation
Indices: 11494582--11494725 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
11494572 TAGAGGAAGC
* *
11494582 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCAAATATATCT
*
11494636 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCAAATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCAAATATATCT
* * *
11494690 GTTCTGGTGGCTCTGCCACAA-TATCAGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
11494726 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCAAATATATCT
Found at i:11494737 original size:81 final size:80
Alignment explanation
Indices: 11494585--11494743 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
11494575 AGGAAGCGTC
* * *
11494585 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTAT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTCCTAGTGACTAT
11494650 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
11494666 CTGGTGGCTCTACCA-AATATATCTGTTCTGGTGGCTCTGCCACA-ATATCAGTATCTGGTGACT
1 CTGGTGGCTATACCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCAGT-CCTAGTGACT
*
11494729 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
11494744 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 17 0.25
81 50 0.75
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCAGTCCTAGTGACTAT
GCCACAATATCTGAT
Found at i:11501008 original size:26 final size:26
Alignment explanation
Indices: 11500979--11501086 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11500969 TGGTACAACT
*
11500979 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
11501005 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11501031 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11501057 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11501083 TGAT
1 TGAT
11501087 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11502708 original size:27 final size:26
Alignment explanation
Indices: 11502668--11502808 Score: 115
Period size: 27 Copynumber: 5.2 Consensus size: 26
11502658 AGGAAGTGTC
11502668 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTATGCCA-AATTATCTGAT
* *
11502695 CTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGGCTATGCCAAAT-TATCTGAT
* *
11502721 CTTTGTGGGTATGCCACAATTATCTGAT
1 C-TGGTGGCTATGCCA-AATTATCTGAT
* * * * *
11502749 ATGTTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAAAT-TATCTGAT
*
11502776 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCA-AATTATCTG-AT
11502803 CTGGTG
1 CTGGTG
11502809 ACTTCGTCAC
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
26 12 0.13
27 74 0.82
28 4 0.04
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCAAATTATCTGAT
Found at i:11502763 original size:54 final size:54
Alignment explanation
Indices: 11502668--11502808 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
11502658 AGGAAGTGTC
* * *
11502668 CTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
* * *
11502721 CTTTGTGGGTATGCCACAATTATCTGATATGTTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
* *
11502776 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATATGGTG
11502809 ACTTCGTCAC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 7 0.09
54 65 0.88
55 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
Found at i:11502819 original size:27 final size:26
Alignment explanation
Indices: 11502668--11502826 Score: 97
Period size: 27 Copynumber: 5.9 Consensus size: 26
11502658 AGGAAGTGTC
* * * *
11502668 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
11502695 CTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGACTCTGCCACA-ATATCTGTT
* ** * *
11502721 CTTTGTGGGTATGCCACAATTATCTGAT
1 C-TGGTGACTCTGCCACAA-TATCTGTT
* * *
11502749 ATGTTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
11502776 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
11502803 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
11502827 ACAGCCTTGC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
26 12 0.11
27 95 0.86
28 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:11508016 original size:3 final size:3
Alignment explanation
Indices: 11508002--11508319 Score: 74
Period size: 3 Copynumber: 105.3 Consensus size: 3
11507992 AATAGGACGG
* * * * *
11508002 ATA ATA AAA ATA ATA GTA ATG ATA ATA ATA A-A GATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * *
11508047 ATA TTA A-A A-A ATTA AT- ATA ATG ATG ATA ATA GTG TTA A-A A-A
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
11508088 ATA ATA ATA ATA A-A CA-A ACGA CATA TTA ATG ATA ATA GATA ATA ACG
1 ATA ATA ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA ATA
*
11508135 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
11508180 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * * * *
11508227 ATA ATA AT- ATA CGTG CTA ATA ATA ATA ACA AT- ATA A-A AAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
11508270 ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA
11508316 ATA A
1 ATA A
11508320 AAAGGTAAAA
Statistics
Matches: 228, Mismatches: 56, Indels: 62
0.66 0.16 0.18
Matches are distributed among these distances:
2 27 0.12
3 173 0.76
4 20 0.09
5 7 0.03
6 1 0.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:11508292 original size:23 final size:23
Alignment explanation
Indices: 11508259--11508318 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
11508249 TAATAACAAT
*
11508259 ATAAAAA-AATAATACTATATTA
1 ATAAAAATAATAATACTAGATTA
* *
11508281 ATAAAAATAATAATAGTAGGTTA
1 ATAAAAATAATAATACTAGATTA
* *
11508304 ATAATAATAGTAATA
1 ATAAAAATAATAATA
11508319 AAAAGGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (23 bp):
ATAAAAATAATAATACTAGATTA
Found at i:11508430 original size:15 final size:15
Alignment explanation
Indices: 11508399--11508455 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
11508389 AAGCAAACAG
*
11508399 TAATAGTATATAG-AA
1 TAATAGTA-AAAGTAA
11508414 TAATAGTAAAAGTAA
1 TAATAGTAAAAGTAA
*
11508429 TAATA--ATAA-TAA
1 TAATAGTAAAAGTAA
*
11508441 TAATATTAAAAGTAA
1 TAATAGTAAAAGTAA
11508456 CACTCTCCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
14 6 0.17
15 18 0.51
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
TAATAGTAAAAGTAA
Found at i:11508442 original size:27 final size:27
Alignment explanation
Indices: 11508375--11508455 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
11508365 CTACTACTAC
*
11508375 TAATAATAATAATAA-AGCAAACAGTAA
1 TAATAATAATAATAATAGTAAA-AGTAA
* *
11508402 TAGT-ATATAGAATAATAGTAAAAGTAA
1 TAATAATA-ATAATAATAGTAAAAGTAA
*
11508429 TAATAATAATAATAATATTAAAAGTAA
1 TAATAATAATAATAATAGTAAAAGTAA
11508456 CACTCTCCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 34 0.76
28 8 0.18
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
TAATAATAATAATAATAGTAAAAGTAA
Found at i:11508748 original size:24 final size:26
Alignment explanation
Indices: 11508721--11508773 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
11508711 ATCTCGTGTA
*
11508721 TTTCTTGTATT-GAAAGTCTCT-CTT
1 TTTCTTGTATTCGAAACTCTCTCCTT
*
11508745 TTTCTTGTATTCGAATCTCTCTCCTT
1 TTTCTTGTATTCGAAACTCTCTCCTT
11508771 TTT
1 TTT
11508774 TCTCCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 8 0.32
26 6 0.24
ACGTcount: A:0.13, C:0.21, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTCTTGTATTCGAAACTCTCTCCTT
Found at i:11508772 original size:25 final size:24
Alignment explanation
Indices: 11508721--11508772 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
11508711 ATCTCGTGTA
* *
11508721 TTTCTTGTATTGAAAGTCTCTCTT
1 TTTCTTGTATTGAAACTCTCTCCT
*
11508745 TTTCTTGTATTCGAATCTCTCTCCT
1 TTTCTTGTATT-GAAACTCTCTCCT
11508770 TTT
1 TTT
11508773 TTCTCCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.13, C:0.21, G:0.10, T:0.56
Consensus pattern (24 bp):
TTTCTTGTATTGAAACTCTCTCCT
Found at i:11508905 original size:24 final size:24
Alignment explanation
Indices: 11508873--11508922 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11508863 TCTTTTTGCA
11508873 GGCAAGTAGGGTGATGGAGTTAGT
1 GGCAAGTAGGGTGATGGAGTTAGT
11508897 GGCAAGTAGGGTGATGGAGTTAGT
1 GGCAAGTAGGGTGATGGAGTTAGT
11508921 GG
1 GG
11508923 TTGGTTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.24
Consensus pattern (24 bp):
GGCAAGTAGGGTGATGGAGTTAGT
Found at i:11509475 original size:177 final size:176
Alignment explanation
Indices: 11509209--11509556 Score: 507
Period size: 177 Copynumber: 2.0 Consensus size: 176
11509199 GAGAAGAGAT
* * *
11509209 TTGTAGCTTGAAGCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATTTACTCCA
1 TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
* * * * *
11509274 TTGTCGCTACATGGAGATAAGATTCGCCCTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAG
66 TTGCCACTACATGAAGATAAGATTCGCCCTCTTCAATCTGCTCCACTACTACTTAGAGAGATAAG
11509339 ATCTACAATTTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC
131 ATCTACAATTTTCAGTCTGCTCCACTGCAAC-TCAAGGAGATAAGAC
* * * * *
11509386 TTGTATCTTGAACCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCGCCA
1 TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
* * **
11509451 TTGCCACTACATGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTGCTGGTTAGAGAGATAAG
66 TTGCCACTACATGAAGATAAGATTCGCCCTCTTCAATCTGCTCCACTACTACTTAGAGAGATAAG
* * *
11509516 ATCTGCAATTTTCAGTCTGCTTCACTGCAACTCAGGGAGAT
131 ATCTACAATTTTCAGTCTGCTCCACTGCAACTCAAGGAGAT
11509557 GAGGCTAGTA
Statistics
Matches: 151, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
176 9 0.06
177 142 0.94
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (176 bp):
TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
TTGCCACTACATGAAGATAAGATTCGCCCTCTTCAATCTGCTCCACTACTACTTAGAGAGATAAG
ATCTACAATTTTCAGTCTGCTCCACTGCAACTCAAGGAGATAAGAC
Found at i:11509650 original size:88 final size:88
Alignment explanation
Indices: 11509549--11509734 Score: 282
Period size: 88 Copynumber: 2.1 Consensus size: 88
11509539 ACTGCAACTC
*
11509549 AGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATC
1 AGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATC
*
11509614 TTCGATCTGTTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* ** * * *
11509637 AGGGAGATAAGGCTAGTGGTTTAAATCTGCTTCCCTAGTACCTCGGGAAGATAATATTCGCCATC
1 AGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATC
*
11509702 TTCGATCTGCTCCACTACTGTTT
66 TTCGATCTGCTCCACTACTGCTT
*
11509725 AGAGAGATAA
1 AGGGAGATAA
11509735 AATCTGCAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
AGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATC
TTCGATCTGCTCCACTACTGCTT
Found at i:11509689 original size:220 final size:220
Alignment explanation
Indices: 11509463--11509867 Score: 587
Period size: 220 Copynumber: 1.8 Consensus size: 220
11509453 GCCACTACAT
* * *
11509463 GAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTGCTGGTTAGAGAGATAAGATCTGCAATT-T
1 GAAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGGTTAGAGAGATAAAATCTGCAATTAT
* * * * *
11509527 TCAGTCTGCTTCACTGCAACTCAGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCT
66 T-AGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCT
*
11509592 CGGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGGCTAGTGGT
130 CGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGT
11509657 TTAAATCTGCTTCCCTAGTACCTCGG
195 TTAAATCTGCTTCCCTAGTACCTCGG
* * *
11509683 GAAGATAATATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGAGAGATAAAATCTGCAATTAT
1 GAAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGGTTAGAGAGATAAAATCTGCAATTAT
* ** * * * *
11509748 TAGCCCGCTCCGCTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTT
66 TAGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTC
*** *
11509813 GGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
131 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
11509868 ATCTGCAATC
Statistics
Matches: 161, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
220 159 0.99
221 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (220 bp):
GAAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGGTTAGAGAGATAAAATCTGCAATTAT
TAGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTC
GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGTT
TAAATCTGCTTCCCTAGTACCTCGG
Found at i:11509711 original size:45 final size:45
Alignment explanation
Indices: 11509573--11509720 Score: 124
Period size: 44 Copynumber: 3.3 Consensus size: 45
11509563 AGTAGCCTAA
*
11509573 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCG
1 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCG
* * * ** * *** **
11509618 ATCTG-TTCCACTACTGCTTAGGG-AGATAAGGCTAGTGGT-TTAA
1 ATCTGCTTCC-CTACTACCTCGGGAAGATAAGATTCGCCATCTTCG
* *
11509661 ATCTGCTTCCCTAGTACCTCGGGAAGATAATATTCGCCATCTTCG
1 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCG
11509706 ATCTGC-TCCACTACT
1 ATCTGCTTCC-CTACT
11509721 GTTTAGAGAG
Statistics
Matches: 72, Mismatches: 26, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
43 16 0.22
44 29 0.40
45 27 0.38
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCG
Found at i:11509733 original size:132 final size:132
Alignment explanation
Indices: 11509624--11511981 Score: 3221
Period size: 132 Copynumber: 17.9 Consensus size: 132
11509614 TTCGATCTGT
* * *
11509624 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGTTTAAATCTGCTTCCCTAGTACCTCGGGAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * * * *
11509689 AATATTCGCCATCTTCGATCTGCTCCACTACTGTTTAGAGAGATAAAATCTGCAATTATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TCTTAGACC
*
11509753 CGC
130 TGC
* * *
11509756 TCCGCTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * *
11509821 AAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAG-CA
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGACC
*
11509885 TAC
130 TGC
* *
11509888 TCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGGAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * *
11509953 AAGATCCGCCATCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAATCTTCAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGACC
11510017 TGC
130 TGC
* *
11510020 TCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGGAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * * **
11510085 AAGATCCGCCGTCTTTGATCTGCTCCACTACTTCTTAAGGAGATAAGATCTAAAATCTTCAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGACC
11510149 TGC
130 TGC
* * *
11510152 TCCACTACTTCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * *
11510217 AAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TATCA-TC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT-T-AGAC
11510280 CTGC
129 CTGC
* * * *
11510284 TCCACTACTACTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* *
11510349 AAGATTCGCCGTCTTCGATCTGCTCCATTACTGTTTAGGGAGATAAGATCTGCAATCTTTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATC-TTAGACC
11510413 TGC
130 TGC
* *
11510416 TCCACTACTGCTTAGGGAGATAATGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * * *
11510481 AAGATTCACCGTCTTCGATCTGCTCTACTACTACTTAGGGAGATAGGATCTGCAATTATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TCTTAGACC
**
11510545 CAC
130 TGC
* * * * *
11510548 TCCACTACTTCTTAGGGAGATAAAGCTTGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * * * *
11510613 AAGATTCGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTTA-CCC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TCTTAGACC
11510677 TGC
130 TGC
*
11510680 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * * * *
11510745 AAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTGTAATTATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TCTTAGACC
*
11510809 CGC
130 TGC
* * *
11510812 TCTATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCAGAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * *
11510877 AAGATTCGCCGTCTTCGATCTTCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATC-TTAGACC
*
11510941 CGC
130 TGC
* * *
11510944 TCCATTACTGCTTAGGGAGATAAAGCTAGTGGCTTAAATCTACTTCCCTACTACCTC-GAGAAGA
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGA-AAGA
* *
11511008 TAAGATTCGCCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTATTAG-C
65 TAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TCTTAGAC
*
11511072 CCGC
129 CTGC
* *
11511076 TCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* *
11511141 AAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATC-TTAGACC
**
11511205 CAC
130 TGC
* *
11511208 TCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTC-GAGAAGA
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGA-AAGA
* *
11511272 TAAGATTCGCCGTCTTCGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATCTTCAG-C
65 TAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGAC
11511336 CTGC
129 CTGC
*
11511340 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * *
11511405 AAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGAGAGATAGGATCTGCAATCATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATC-TTAGACC
*
11511469 CGC
130 TGC
* * *
11511472 TCCACTACTGCTTAGGGAGATAAGGATAGTGGCTTAAATTTGCTTCTCTACTACCTC-GAGAAGA
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGA-AAGA
* * *
11511536 TAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG-C
65 TAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGAC
11511600 CTGC
129 CTGC
* * *
11511604 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTATTACCTCGAAAAGAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* * *
11511669 AAGATTCACCGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCATTAG-CC
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATC-TTAGACC
*
11511733 CGC
130 TGC
* * *
11511736 TCCATTACTGTTTAGGGAGATAAGGGTAGTGGCTTAAATCTGCTTCCCTACTACCTC-GAGAAGA
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGA-AAGA
* * * * *
11511800 TAAGATTCGCCGTCTTTGATTTGCCCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG-T
65 TAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT-AGAC
*
11511864 CTAC
129 CTGC
* * * * *
11511868 TCAACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTTCTTACTACCTCGGGAATAT
1 TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
* *
11511933 AAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT
66 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
11511982 TTGTAATTTT
Statistics
Matches: 2011, Mismatches: 190, Indels: 50
0.89 0.08 0.02
Matches are distributed among these distances:
131 17 0.01
132 1982 0.99
133 11 0.01
134 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGAT
AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTAGACCT
GC
Found at i:11516459 original size:19 final size:20
Alignment explanation
Indices: 11516435--11516481 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11516425 TTGTGACACT
*
11516435 CAATGCATATG-ATAAAATG
1 CAATGCAAATGCATAAAATG
*
11516454 CAATGCAAATGCATGAAATG
1 CAATGCAAATGCATAAAATG
11516474 -AATGCAAA
1 CAATGCAAA
11516482 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (20 bp):
CAATGCAAATGCATAAAATG
Found at i:11518375 original size:3 final size:3
Alignment explanation
Indices: 11518360--11518690 Score: 132
Period size: 3 Copynumber: 109.7 Consensus size: 3
11518350 AAATAGGACA
* * * **
11518360 AAT AAT AAA AAT AAT AGT AAT GAT AAT AAT AA- ATAT AAT GGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * * ** *
11518405 AAT ATT AA- AAA AATT AAT -AT AAT GAT GAT AAT AGT GTT AAA AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11518449 AAT AAT AAT AAT AA- ACA- AACG ACAT ATT AAT AAT AAT AGAA AAT AAC
1 AAT AAT AAT AAT AAT A-AT AA-T A-AT AAT AAT AAT AAT A-AT AAT AAT
* * *
11518496 GAT AAT AAT AAT AGA- AGT AAT GAA- AAT AAT AAT AAT AGA- AAC AAT
1 AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
11518541 AAA AAT AAA AAT AAT AAT AA- AAT AGAA AAT AAT AAT GAT ACATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-A-T AAT
* * * *
11518588 AAT AAT AAC AAT -AT AA- AA- AAT AAT ACT -AT ATT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11518632 AAT AGT AGGTT AAT AAT AAT AAT AAT AAT AAT AAGGT AAA AAT AAT AAT
1 AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT
*
11518681 GA- AAT AAT AA
1 AAT AAT AAT AA
11518691 AAACACTATT
Statistics
Matches: 243, Mismatches: 57, Indels: 56
0.68 0.16 0.16
Matches are distributed among these distances:
2 20 0.08
3 200 0.82
4 15 0.06
5 8 0.03
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11518610 original size:35 final size:35
Alignment explanation
Indices: 11518550--11518680 Score: 110
Period size: 35 Copynumber: 3.8 Consensus size: 35
11518540 TAAAAATAAA
11518550 AATAATAATAAAATAGAAAATAATAATGA-TACATT
1 AATAATAATAAAATAGAAAATAATAAT-ACTACATT
* *
11518585 AATAATAATAACAATATAAAA-AATAATACTATATT
1 AATAATAATAA-AATAGAAAATAATAATACTACATT
* *** *
11518620 AATAAAAATAATAATAGTAGGTTAATAATAATA-A-T
1 AATAATAATAA-AATAG-AAAATAATAATACTACATT
**
11518655 AATAATAATAAGGTA-AAAATAATAAT
1 AATAATAATAAAATAGAAAATAATAAT
11518681 GAAATAATAA
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
32 8 0.10
34 3 0.04
35 47 0.61
36 10 0.13
37 9 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (35 bp):
AATAATAATAAAATAGAAAATAATAATACTACATT
Found at i:11518630 original size:38 final size:38
Alignment explanation
Indices: 11518544--11518633 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
11518534 AAACAATAAA
* *
11518544 AATAAAAATAATAATAAAATAGAAAATAATAATGATAC
1 AATAAAAATAATAACAAAATAAAAAATAATAATGATAC
* * * * *
11518582 ATTAATAATAATAACAATATAAAAAATAATACT-ATATT
1 AATAAAAATAATAACAAAATAAAAAATAATAATGATA-C
11518620 AATAAAAATAATAA
1 AATAAAAATAATAA
11518634 TAGTAGGTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
37 3 0.07
38 39 0.93
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (38 bp):
AATAAAAATAATAACAAAATAAAAAATAATAATGATAC
Found at i:11518632 original size:23 final size:22
Alignment explanation
Indices: 11518584--11518680 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 22
11518574 AATGATACAT
**
11518584 TAATAATA-ATAACAATATAAAA
1 TAATAATATATATTAATA-AAAA
11518606 -AATAATACTATATTAATAAAAA
1 TAATAATA-TATATTAATAAAAA
** *
11518628 TAATAATAGTAGGTTAATAATAA
1 TAATAATA-TATATTAATAAAAA
*
11518651 TAATAATA-ATAATAAGGTAAAAA
1 TAATAATATATATTAA--TAAAAA
11518674 TAATAAT
1 TAATAAT
11518681 GAAATAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.18
22 4 0.07
23 45 0.75
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (22 bp):
TAATAATATATATTAATAAAAA
Found at i:11518675 original size:26 final size:27
Alignment explanation
Indices: 11518619--11518690 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 27
11518609 AATACTATAT
* *
11518619 TAATAAAAATAATAATAGTAGGTTAATAA
1 TAATAATAATAATAATA--AGGTTAAAAA
11518648 TAATAATAATAATAATAAGG-TAAAAA
1 TAATAATAATAATAATAAGGTTAAAAA
*
11518674 TAATAATGA-AATAATAA
1 TAATAATAATAATAATAA
11518691 AAACACTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.20
26 13 0.32
27 3 0.08
29 16 0.40
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
TAATAATAATAATAATAAGGTTAAAAA
Found at i:11518783 original size:21 final size:22
Alignment explanation
Indices: 11518736--11518791 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
11518726 AAAAGAACAC
* *
11518736 AATAATAGT-ATATAGAATAAT
1 AATAAAAGTAATATAGAATAAA
*
11518757 AGTAAAAGTAATA-AGAATAAA
1 AATAAAAGTAATATAGAATAAA
*
11518778 AATAAAAATAATAT
1 AATAAAAGTAATAT
11518792 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (22 bp):
AATAAAAGTAATATAGAATAAA
Found at i:11518787 original size:18 final size:18
Alignment explanation
Indices: 11518766--11518800 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11518756 TAGTAAAAGT
11518766 AATAAGAATAAAAATAAA
1 AATAAGAATAAAAATAAA
* *
11518784 AATAATATTAAAAATAA
1 AATAAGAATAAAAATAA
11518801 TACTCTCCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAGAATAAAAATAAA
Found at i:11519122 original size:25 final size:25
Alignment explanation
Indices: 11519081--11519133 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
11519071 TCGTGTATTC
*
11519081 CTTGTATTGAAAGTCTCT-TTTTTT
1 CTTGTATTGAAACTCTCTCTTTTTT
*
11519105 CTTGTATTTGAATCTCTCTCCTTTTTT
1 CTTGTA-TTGAAACTCTCT-CTTTTTT
11519132 CT
1 CT
11519134 CCAAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
27 8 0.33
ACGTcount: A:0.13, C:0.19, G:0.09, T:0.58
Consensus pattern (25 bp):
CTTGTATTGAAACTCTCTCTTTTTT
Found at i:11521127 original size:228 final size:228
Alignment explanation
Indices: 11520730--11522312 Score: 1302
Period size: 228 Copynumber: 6.9 Consensus size: 228
11520720 GACACAACAG
* * * * * *
11520730 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* *
11520795 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * *
11520860 TCTTCGCTGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
11520925 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
11520958 ATGCAGATCTTCGTGAAAACCCTCACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * * *
11521023 AATTGATAATGTCAAGGCTAAGATCCAGGATAAGGAAGGGATCCCTCCTGATCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * * *
11521088 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
* *
11521153 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
11521186 ATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * * *
11521251 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * ** * *
11521316 TCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAGTC
* *
11521380 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 TACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
11521414 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGACA
* * * * * *
11521478 CAATTGATAACGTTAAGTCCAAGATTCAGGACAAGG-AGGGCATCCCACCAGACCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGCT
* * * * * * * * *
11521541 TAATTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAA
129 T-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAG
* * *
11521606 TCTACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGT
193 TCTACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGC
* * * * * * * * * *
11521642 ATGCA-AGTTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGAT
1 ATGCAGA-TATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
* * * * * * * * *
11521705 ACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGCT
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCT
* * * ** * * * *
11521770 GATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAA-GAG
129 TATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAG
* * * * *
11521834 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGA
193 TCTACCCTCCATCTT-GTCCTTCGTCT-CAGGGGTGGC
** * * * *
11521870 ATGCAGATATTTGTGAAAACTTTGACCGGTAAA-ACCATTA-CGTTGGAGGTGGAGAGCTCCGAC
1 ATGCAGATATTTGTGAAAACCCTCACTGG-AAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
** * * *
11521933 ACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGG-AGGGTATCCCACCTGACCAACAGAGG-
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGC
* * * * * ** * * * *
11521996 TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACTCTTGCGGACTATAACATTCAAAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* * * * * * * *
11522061 GTCGACCCTGCAT-TTGGT-TTTGCGCCTTAGAGGAGGG
192 GTCTACCCTCCATCTT-GTCCTT-CGTCTCAGGGGTGGC
* * * * * * * *
11522098 ATGCAGATATTTGTCAAGACCTTGACTGGGAAA-ACCATCACCCTGGAGGTTGAGAGCTCGGATA
1 ATGCAGATATTTGTGAAAACCCTCACT-GGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACA
* * * * * * * * *
11522162 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGG-AGGGAATTCCC-CCGGATCAGCAGAGG-
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-A-TCCCACCTGACCAACAGAGGC
* * * * * * *
11522224 TTGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* *
11522289 GTCTACTCTGCATCTTGTCCTTCG
192 GTCTACCCTCCATCTTGTCCTTCG
11522313 CCTCCGTGGT
Statistics
Matches: 1117, Mismatches: 210, Indels: 56
0.81 0.15 0.04
Matches are distributed among these distances:
227 26 0.02
228 1062 0.95
229 29 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (228 bp):
ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:11522104 original size:684 final size:679
Alignment explanation
Indices: 11520729--11522312 Score: 1587
Period size: 684 Copynumber: 2.3 Consensus size: 679
11520719 CGACACAACA
* * * * * * *
11520729 GATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACA
1 GATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATA
* * * * *
11520794 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTT
65 CAATTGATAATGT-AAAGCCAAGATTCAGGACAAGG-AGGGAT-CCCCCAGACCAGCAGAGG-TT
* * * * * * *
11520859 ATCTTCGCTGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTC
126 ATCTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATC
* *
11520924 CACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGGCA
191 CACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAA
* * * *
11520989 AGACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGGAT
256 AGACAATCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGAC
* * * * **
11521054 AAGGAAGGGATCCCTCCTGATCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTCG
321 AAGGAAGGGATCCCACCGGATCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAG
* *
11521119 CACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTG
386 CACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTG
* * *
11521184 GCATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGAC
451 GAATGCAAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGAC
*
11521249 ACAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCT
516 ACAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCT
* * * * * *
11521314 TATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAAGAGT
581 TATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCAGAAAGAGT
* * * *
11521379 CTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGG
646 CGACCCTCCACCTTGTCCTTCGCCTTAGAGGAGG
* ** * *
11521413 CATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCACTTTAGAGGTGGAGAGTTCTGATA
1 GATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATA
* *
11521478 CAATTGATAACGTTAAGTCCAAGATTCAGGACAAGGAGGGCATCCCACCAGACCAGCAGAGGTTA
65 CAATTGATAATGTAAAG-CCAAGATTCAGGACAAGGAGGG-ATCCC-CCAGACCAGCAGAGGTT-
* * *
11521543 ATTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAATC
126 ATCTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATC
* * * * * * *
11521608 TACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGTATGCA-AGTTTTTGTGAAGACCCTCACA
191 CACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGCATGCAGA-TCTTCGTGAAAACCCTCACA
* * * * * * * *
11521669 GGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATACGATTGACAATGTGAAAGCTAAGATCC
252 GGAAAGACAATCACCCTT-GAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCC
* * * * * *
11521733 AGGACAAGGAAGGTATTCCACCGGATCAACAGAGGCTGATTTTTGCTGGCAAGCAGCTGGAGGAT
316 AGGACAAGGAAGGGATCCCACCGGATCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGAT
* * * * *
11521798 GGGAGGACCCTTGCTGATTATAATATTCAGAAAGAGTCAACCCTCCA-CTTGGTGCTTCGCCTGC
381 GGGAGCACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTT-GTGCTTCGCCT-C
* * * * * * * * *
11521862 -GTGGTGGAATGCAGATATTTGTGAAAACT-TTGACCGGTAAAACCATTA-CGTTGGAGGTGGAG
444 AGGGGTGGAATGCAAATATTTGTCAAAACTCTT-ACCGGCAAAACAATCACCCTT-GAAGTGGAA
** * * * *
11521924 AGCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGGAGGGTATCCCACCTGACCA
507 AGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCA
* * * * * * * *
11521989 ACAGAGG-TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACTCTTGCGGACTATAACATT
572 ACAGAGGCTT-ATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATC
* * *
11522053 CA-AAAGGAGTCGACCCTGCA-TTTGGT-TTTGCGCCTTAGAGGAGG
636 CAGAAA-GAGTCGACCCTCCACCTT-GTCCTT-CGCCTTAGAGGAGG
* * * * * * * *
11522097 GATGCAGATATTTGTCAAGACCTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGATA
1 GATGCAGATCTTTGTAAAAACC-TCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATA
* * * * *
11522162 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGGTTG
65 CAATTGATAATGT-AAAGCCAAGATTCAGGACAAGGAGGG-A-TCCCCCAGACCAGCAGAGGTT-
* * * * * * * * *
11522227 ATCTTTGCTGGGAAGC-AGTTGGAGGACGGTC-GAACCCTAGCTGACTACAATATCCAGAAGGAG
126 ATCTTTGCTGGGAAACAACTT-GAAGATGG-CAGAACCCTTGCAGACTACAACATCCAAAAGGAA
* * *
11522290 TCTACTCTGCATCTTGTCCTTCG
189 TCCACCCTCCATCTTGTCCTTCG
11522313 CCTCCGTGGT
Statistics
Matches: 730, Mismatches: 146, Indels: 48
0.79 0.16 0.05
Matches are distributed among these distances:
683 41 0.06
684 674 0.92
685 15 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (679 bp):
GATGCAGATCTTTGTAAAAACCTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
AATTGATAATGTAAAGCCAAGATTCAGGACAAGGAGGGATCCCCCAGACCAGCAGAGGTTATCTT
TGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCCACCC
TCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAAAGACA
ATCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGACAAGGA
AGGGATCCCACCGGATCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAGCACCC
TTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTGGAATG
CAAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGACACAAT
TGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCTTATCT
TTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCAGAAAGAGTCGACC
CTCCACCTTGTCCTTCGCCTTAGAGGAGG
Found at i:11522324 original size:456 final size:453
Alignment explanation
Indices: 11520729--11522316 Score: 1519
Period size: 456 Copynumber: 3.5 Consensus size: 453
11520719 CGACACAACA
* * * * * *
11520729 GATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * * *
11520794 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
* *
11520859 ATCTTCGCTGGGAAACAGCTT-GAGGATGGCCGTACCCTTGCTGACTACAACATCCA-AAAGGAG
131 ATCTTTGCTGGGAAACAG-TTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAA-GAG
* * *
11520922 TCCACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGG
194 TCTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGG
* * * * * * *
11520987 CAAGACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGG
259 AAAAACCATCA-CCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGG
* * * * *
11521052 ATAAGGAAGGGATCCCTCCTGATCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGT
323 ATAAGG-AGGGATCCCACCTGACCAACAGAGG-TTATTTTTGCCGGAAAGCAACTCGAAGATGG-
* * * * * *
11521117 C-GCACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTT-GTGCTT-CGTCTCAG
385 CAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCA-TTTGGT-CTTGCGTCTTAG
*
11521179 GGGTGG
448 AGGTGG
* * * * * *
11521185 CATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * *
11521250 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTA-TCCCTCCTGACCAACAGAGGCT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCC-CCGGACCAACAGAGGCT
* * *
11521314 TATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAAGAGT
130 TATCTTTGCTGGGAAACAGTTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGT
* * * * *
11521379 CTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGCATGCAGATCTTTGTAAAAACGCTCACTGGA
195 CTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGA
* * * * * * *
11521444 AAAACCATCACTTTAGAGGTGGAGAGTTCTGATACAATTGATAACGTTAAGTCCAAGATTCAGGA
260 AAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGA
* * * * *
11521509 CAAGGAGGGCATCCCACCAGACCAGCAGAGGTTAATTTTTGCTGGGAAA-CAACTTGAAGATGGC
324 TAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGC-CGGAAAGCAACTCGAAGATGGC
* * * *
11521573 AGAACCCTTGCAGACTATAACATTCAAAAGGAATCTACCCTCCATTTGGTGTTGCGTCTTCGTGG
386 AGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGG
11521638 TGG
451 TGG
* * * * * * * * * * * * * *
11521641 TATGCA-AGTTTTTGTGAAGACCCTCAC-AGGAAAGACTATTACCTTGGAAGTTGAGAGTTCTGA
1 GATGCAGA-TATTTGTCAAAACTCTTACTGGGAAA-ACCATCACCCTGGAAGTGGAAAGCTCCGA
* * * * * * *
11521704 TACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGC
64 CACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGC
* * * * * ** * * * * *
11521769 TGATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAAGAG
129 TTATCTTTGCTGGGAAACAGTTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* * * * * ** * *
11521834 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGAATGCAGATATTTGTGAAAACTTTGACC
194 TCTACCCTCCATCTT-GTCCTTCGCCT-CAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACT
* * * **
11521897 GGTAAAACCATTACGTTGGAGGTGGAGAGCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCA
257 GGAAAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCA
* * * *
11521962 AGATAAGGAGGGTATCCCACCTGACCAACAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGACG
321 GGATAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGCCGGAAAGCAACTCGAAGATG
* * * * * * * *
11522027 GGAGGACTCTTGCGGACTATAACATTCAAAAGGAGTCGACCCTGCATTTGGTTTTGCGCCTTAGA
384 GCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGA
*
11522092 GGAGG
449 GGTGG
* * * * * *
11522097 GATGCAGATATTTGTCAAGAC-CTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGAT
1 GATGCAGATATTTGTCAAAACTCTT-ACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGAC
* * * * * * * * *
11522161 ACGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGG-T
65 ACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCT
* * * * * *
11522225 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGAG
130 T-ATCTTTGCTGGGAAACAGTTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* *
11522290 TCTACTCTGCATCTTGTCCTTCGCCTC
194 TCTACCCTCCATCTTGTCCTTCGCCTC
11522317 CGTGGTGGTT
Statistics
Matches: 934, Mismatches: 177, Indels: 43
0.81 0.15 0.04
Matches are distributed among these distances:
455 35 0.04
456 880 0.94
457 19 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (453 bp):
GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
ATCTTTGCTGGGAAACAGTTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGTC
TACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGAA
AAACCATCACCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGATA
AGGAGGGATCCCACCTGACCAACAGAGGTTATTTTTGCCGGAAAGCAACTCGAAGATGGCAGAAC
CCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGGTGG
Found at i:11522575 original size:87 final size:87
Alignment explanation
Indices: 11522424--11522606 Score: 330
Period size: 87 Copynumber: 2.1 Consensus size: 87
11522414 TTTTTTAAGG
11522424 TAATGATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
1 TAAT-ATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
11522489 GACTATTTCATAATCTCCTATCC
65 GACTATTTCATAATCTCCTATCC
* *
11522512 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCTACAACTCAGTTACTATATTAAATAAGGTTCGG
1 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
*
11522577 ACTATTTCATAATCTCGTATCC
66 ACTATTTCATAATCTCCTATCC
11522599 TAATATAC
1 TAATATAC
11522607 ATTCATCTTG
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 88 0.96
88 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (87 bp):
TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
ACTATTTCATAATCTCCTATCC
Found at i:11523762 original size:16 final size:16
Alignment explanation
Indices: 11523729--11523762 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11523719 CACTTGTGTT
* *
11523729 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11523745 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11523761 AA
1 AA
11523763 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11526588 original size:21 final size:21
Alignment explanation
Indices: 11526562--11526602 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11526552 AGACGAGCAA
* *
11526562 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11526583 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11526603 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11528541 original size:16 final size:16
Alignment explanation
Indices: 11528508--11528541 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11528498 GGAGATTGTT
* *
11528508 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11528524 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11528540 AA
1 AA
11528542 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11528781 original size:9 final size:9
Alignment explanation
Indices: 11528767--11528798 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11528757 CCATTTGTCC
11528767 TTGCATCTG
1 TTGCATCTG
11528776 TTGCATCTG
1 TTGCATCTG
11528785 TTGCATC-G
1 TTGCATCTG
11528793 TTGCAT
1 TTGCAT
11528799 GTCTTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGCATCTG
Found at i:11530177 original size:30 final size:30
Alignment explanation
Indices: 11530141--11530198 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
11530131 CTTAGCAAGC
11530141 AAATGCCTCTAAAATAATAACAAAATTAAA
1 AAATGCCTCTAAAATAATAACAAAATTAAA
11530171 AAATGCCTCTAAAATAATAACAAAATTA
1 AAATGCCTCTAAAATAATAACAAAATTA
11530199 TCAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAA
Found at i:11530257 original size:22 final size:22
Alignment explanation
Indices: 11530232--11530274 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11530222 TATCCAAACA
11530232 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
11530254 ATAATAATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11530275 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11536375 original size:19 final size:19
Alignment explanation
Indices: 11536351--11536387 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11536341 AAATTCCTTA
11536351 TTCCA-TTCGCCAACTAACT
1 TTCCATTTC-CCAACTAACT
11536370 TTCCATTTCCCAACTAAC
1 TTCCATTTCCCAACTAAC
11536388 ATGTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCCATTTCCCAACTAACT
Found at i:11537475 original size:16 final size:16
Alignment explanation
Indices: 11537454--11537521 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
11537444 TTTGGTTCGC
11537454 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
11537470 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
11537485 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
11537502 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
11537518 TGTA
1 TGTA
11537522 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Done.