Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 24 of 120
Found at i:6257856 original size:24 final size:24
Alignment explanation
Indices: 6257819--6257968 Score: 189
Period size: 24 Copynumber: 6.4 Consensus size: 24
6257809 TCAGGCTCGA
* *
6257819 TTCGTTTA-GTGTTCGCAAACATG
1 TTCGTTTATATGTTCGCGAACATG
* *
6257842 TTTGTTTATATGTTCGTGAACATG
1 TTCGTTTATATGTTCGCGAACATG
*
6257866 TTCGTTTA-ACGTTCGCGAACATG
1 TTCGTTTATATGTTCGCGAACATG
* *
6257889 TTCATTTATACGTTCGCGAACATG
1 TTCGTTTATATGTTCGCGAACATG
* * *
6257913 TTCGTATA-ATGTTCACAAACATG
1 TTCGTTTATATGTTCGCGAACATG
6257936 TTCGTTTATATGTTCGCGAACATG
1 TTCGTTTATATGTTCGCGAACATG
6257960 TTCGTTTAT
1 TTCGTTTAT
6257969 GTTAACTAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
23 46 0.43
24 62 0.57
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCGTTTATATGTTCGCGAACATG
Found at i:6257880 original size:47 final size:47
Alignment explanation
Indices: 6257819--6257971 Score: 218
Period size: 47 Copynumber: 3.3 Consensus size: 47
6257809 TCAGGCTCGA
* * *
6257819 TTCGTTTAGTGTTCGCAAACATGTTTGTTTATATGTTCGTGAACATG
1 TTCGTTTAATGTTCGCAAACATGTTCGTTTATATGTTCGCGAACATG
* * * *
6257866 TTCGTTTAACGTTCGCGAACATGTTCATTTATACGTTCGCGAACATG
1 TTCGTTTAATGTTCGCAAACATGTTCGTTTATATGTTCGCGAACATG
* *
6257913 TTCGTATAATGTTCACAAACATGTTCGTTTATATGTTCGCGAACATG
1 TTCGTTTAATGTTCGCAAACATGTTCGTTTATATGTTCGCGAACATG
6257960 TTCGTTT-ATGTT
1 TTCGTTTAATGTT
6257972 AACTAAAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 5 0.05
47 87 0.95
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (47 bp):
TTCGTTTAATGTTCGCAAACATGTTCGTTTATATGTTCGCGAACATG
Found at i:6262323 original size:31 final size:31
Alignment explanation
Indices: 6262288--6262414 Score: 97
Period size: 32 Copynumber: 4.2 Consensus size: 31
6262278 TTGGTATCTG
6262288 AACTTGACACTTTTTTCTAATTTGATACCTA
1 AACTTGACACTTTTTTCTAATTTGATACCTA
* *
6262319 AACTT----TTTTTTGGTCCAATTT-AGTA-CTCA
1 AACTTGACACTTTTT--TCTAATTTGA-TACCT-A
* * *
6262348 AATTTGACATTTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTT-CTAATTTGATACCTA
* *
6262380 AACTTGACACTTTTTCCTAATTTG-TACTTA
1 AACTTGACACTTTTTTCTAATTTGATACCTA
6262410 AACTT
1 AACTT
6262415 TTTGGGATCC
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
27 5 0.07
28 3 0.04
29 14 0.18
30 10 0.13
31 14 0.18
32 22 0.29
33 8 0.11
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (31 bp):
AACTTGACACTTTTTTCTAATTTGATACCTA
Found at i:6262451 original size:92 final size:88
Alignment explanation
Indices: 6262276--6262469 Score: 232
Period size: 92 Copynumber: 2.1 Consensus size: 88
6262266 TTAATATAAC
* * * * *
6262276 ATTTGGTATCTGAACTTGACACTTTTTTCTAATTTGATACCTAAACTTTTTTTTGGTCCAATTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAAC-TTTTTTGGGTCCAATATA
6262341 GTACTCAAATTTGACATTTTTTTCCTA
65 GTACTCAAATTTGACA---TTTTCCTA
*
6262368 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTG-TACTTAAAC-TTTTTGGGATCCAATATA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTGGG-TCCAATATA
*
6262431 GTACCTGAAA-TTGACTCATTTTCCTA
65 GTA-CTCAAATTTGA--CATTTTCCTA
6262457 ATTTGGTACCTAA
1 ATTTGGTACCTAA
6262470 TTTTTTTAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
89 28 0.31
90 15 0.16
91 13 0.14
92 35 0.38
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (88 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTGGGTCCAATATAG
TACTCAAATTTGACATTTTCCTA
Found at i:6262653 original size:30 final size:29
Alignment explanation
Indices: 6262612--6262714 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 29
6262602 ATTTAATAAA
6262612 TTTAAGTACCAAATTGGATCTAAAAAAAAG
1 TTTAAGTACCAAATTGGATC-AAAAAAAAG
* * *
6262642 TTTAGGTACCAAATTAGA-AAAAAATATCAAG
1 TTTAAGTACCAAATTGGATCAAAAA-A--AAG
* *
6262673 TTTAAGTATCAAATTTGG-TCAAATAAAA-
1 TTTAAGTACCAAA-TTGGATCAAAAAAAAG
*
6262701 TTTAGGTACCAAAT
1 TTTAAGTACCAAAT
6262715 AAAAAAAGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.02
28 16 0.28
29 3 0.05
30 16 0.28
31 15 0.26
32 7 0.12
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (29 bp):
TTTAAGTACCAAATTGGATCAAAAAAAAG
Found at i:6274308 original size:14 final size:14
Alignment explanation
Indices: 6274291--6274322 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6274281 TTGTATGGTT
6274291 TTTTGTAAATGGAC
1 TTTTGTAAATGGAC
6274305 TTTTGTAAATGGAC
1 TTTTGTAAATGGAC
6274319 TTTT
1 TTTT
6274323 AAGTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (14 bp):
TTTTGTAAATGGAC
Found at i:6275059 original size:49 final size:49
Alignment explanation
Indices: 6274927--6275169 Score: 133
Period size: 49 Copynumber: 5.0 Consensus size: 49
6274917 TTTCCTCGAT
* * * * *
6274927 TATCTTCGTAGTACTGGATTCGCTGTTGCGGCTTAAATCC-CTCCCTTTA
1 TATCTTCATGGTACTGGATTCGCCGTTGCGACTTAAA-CCTCTCCCTTTG
* * * * * * *
6274976 TTTTTTGA-GGTACAAGG-TTCGCTGTTGCGGCTTAAACCTCTCCATTTG
1 TATCTTCATGGTAC-TGGATTCGCCGTTGCGACTTAAACCTCTCCCTTTG
* *
6275024 TATCTTCATGGTACTGGATTCGCCGTTGCGACTTAAATCT-TTCCTTT-
1 TATCTTCATGGTACTGGATTCGCCGTTGCGACTTAAACCTCTCCCTTTG
* * * * *
6275071 CACGTCCTC-TGAGGTA-TAAGG-TTCGCCATTGCGAATTAAACCTTTCCCTTTG
1 TA--TCTTCAT--GGTACT--GGATTCGCCGTTGCGACTTAAACCTCTCCCTTTG
* * * * * *
6275123 TATTTTCGTGGTACTGGATTCACCGTTGCGACTCAAATCTTTCCCTT
1 TATCTTCATGGTACTGGATTCGCCGTTGCGACTTAAACCTCTCCCTT
6275170 CAACATAATA
Statistics
Matches: 148, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
47 3 0.02
48 45 0.30
49 63 0.43
50 27 0.18
51 9 0.06
52 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (49 bp):
TATCTTCATGGTACTGGATTCGCCGTTGCGACTTAAACCTCTCCCTTTG
Found at i:6275123 original size:99 final size:98
Alignment explanation
Indices: 6274832--6275171 Score: 371
Period size: 99 Copynumber: 3.5 Consensus size: 98
6274822 TTGCAATGTT
* * * *
6274832 TTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCA-TGCTTCTGAGGTACGAGGT
1 TTCGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCAGT-CTTCTGAGGTACAAGGT
* * *
6274896 TCGTCATTGCGGCTTAAACCTTTTCC-TCGATTATC
65 TCGCCATTGCGGCTTAAACCTTTCCCTTTG--TATC
* * * ** * * *
6274931 TTCGTAGTACTGGATTCGCTGTTGCGGCTTAAATCCCTCCCTTTA-TTTTTTGAGGTACAAGGTT
1 TTCGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCAGTCTTCTGAGGTACAAGGTT
** * *
6274995 CGCTGTTGCGGCTTAAACCTCTCCATTTGTATC
66 CGCCATTGCGGCTTAAACCTTTCCCTTTGTATC
* * * *
6275028 TTCATGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCTTTCACGTCCTCTGAGGTATAAGGT
1 TTCGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCA-GTCTTCTGAGGTACAAGGT
** *
6275093 TCGCCATTGCGAATTAAACCTTTCCCTTTGTATT
65 TCGCCATTGCGGCTTAAACCTTTCCCTTTGTATC
* *
6275127 TTCGTGGTACTGGATTCACCGTTGCGACTCAAATCTTTCCCTTCA
1 TTCGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCA
6275172 ACATAATAAA
Statistics
Matches: 198, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
97 41 0.21
98 34 0.17
99 123 0.62
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (98 bp):
TTCGTGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCAGTCTTCTGAGGTACAAGGTT
CGCCATTGCGGCTTAAACCTTTCCCTTTGTATC
Found at i:6288906 original size:3 final size:3
Alignment explanation
Indices: 6288898--6288948 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
6288888 AGGGAAAAGA
6288898 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
6288944 AAT AA
1 AAT AA
6288949 AGGGTTAACT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6301806 original size:30 final size:31
Alignment explanation
Indices: 6301759--6301818 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
6301749 GGGGGTGGAA
6301759 TGGGAGGAGAGTAAAAGTTTTAGGGGAAAAG
1 TGGGAGGAGAGTAAAAGTTTTAGGGGAAAAG
* *
6301790 TGGGA-GAGAGTGAAAGTTTTGGGGGAAAA
1 TGGGAGGAGAGTAAAAGTTTTAGGGGAAAA
6301819 TAAAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
TGGGAGGAGAGTAAAAGTTTTAGGGGAAAAG
Found at i:6304017 original size:55 final size:56
Alignment explanation
Indices: 6303943--6304047 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
6303933 AATTTGATAC
*
6303943 TTTTTCTTAATTTGATACCTAAA-TTTTTTTATCC-AATTTAATACTTGAATTTACA
1 TTTTTCTTAATTTGATACCTAAACTTTTTTGA-CCTAATTTAATACTTGAATTTACA
* *
6303998 TTTTTCTTAATTTGGTACCTAAACTTTTTTGACCTAATTTGATACTTGAA
1 TTTTTCTTAATTTGATACCTAAACTTTTTTGACCTAATTTAATACTTGAA
6304048 CTTGATATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
55 24 0.53
56 21 0.47
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (56 bp):
TTTTTCTTAATTTGATACCTAAACTTTTTTGACCTAATTTAATACTTGAATTTACA
Found at i:6304345 original size:33 final size:32
Alignment explanation
Indices: 6304276--6304368 Score: 125
Period size: 33 Copynumber: 2.9 Consensus size: 32
6304266 TGGACACCAA
* *
6304276 AAAGTTTAAGTACCAACTTA-AAATAAAGTGT
1 AAAGTTTAAGTACCAAATTAGAAAAAAAGTGT
6304307 AAAGTTTAAGTACCAAATTTAGAAAAAAAGTGT
1 AAAGTTTAAGTACCAAA-TTAGAAAAAAAGTGT
* *
6304340 CAAGTTTGAGTACCAAATTAGACAAAAAA
1 AAAGTTTAAGTACCAAATTAGA-AAAAAA
6304369 AAATTTAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 16 0.29
32 8 0.15
33 31 0.56
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.26
Consensus pattern (32 bp):
AAAGTTTAAGTACCAAATTAGAAAAAAAGTGT
Found at i:6313480 original size:3 final size:3
Alignment explanation
Indices: 6313472--6313535 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
6313462 CATTTAACCC
6313472 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6313520 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
6313536 TGTTATGATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6313701 original size:18 final size:18
Alignment explanation
Indices: 6313678--6313718 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
6313668 CCTCAACTAA
6313678 AGATTTCTCAAATCCACT
1 AGATTTCTCAAATCCACT
6313696 AGATTTCTCAAATCCACT
1 AGATTTCTCAAATCCACT
6313714 AGATT
1 AGATT
6313719 CGAACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (18 bp):
AGATTTCTCAAATCCACT
Found at i:6315760 original size:21 final size:20
Alignment explanation
Indices: 6315717--6315760 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6315707 ATGCAATTTA
*
6315717 TAAATTAATTTAATAATAGT
1 TAAATTAATTTAATAATAAT
* *
6315737 TAAATTATTTTTATAACTAAT
1 TAAATTAATTTAATAA-TAAT
6315758 TAA
1 TAA
6315761 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAATTAATTTAATAATAAT
Found at i:6316165 original size:25 final size:24
Alignment explanation
Indices: 6316137--6316199 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 24
6316127 TAAATTTGAA
* *
6316137 ATTTATTTATTTATTTTTAATTAAT
1 ATTTATTTATTTATTATTAA-AAAT
6316162 ATTTTATATT-TTATATTATTAAAAAT
1 A-TTTAT-TTATT-TATTATTAAAAAT
*
6316188 ATTTATATATTT
1 ATTTATTTATTT
6316200 TTACAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.06
25 8 0.26
26 11 0.35
27 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTATTTATTTATTATTAAAAAT
Found at i:6316196 original size:20 final size:19
Alignment explanation
Indices: 6316167--6316209 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6316157 TTAATATTTT
6316167 ATATTTTATATTATTAAAA
1 ATATTTTATATTATTAAAA
* *
6316186 ATATTTATATATTTTTACAA
1 ATATTT-TATATTATTAAAA
6316206 ATAT
1 ATAT
6316210 AATGATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTTATATTATTAAAA
Found at i:6316772 original size:6 final size:6
Alignment explanation
Indices: 6316754--6316828 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
6316744 TTAAATGGGT
* *
6316754 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTACTCA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
6316801 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
6316829 TCAAATTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 8 0.14
6 39 0.70
8 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:6316786 original size:11 final size:11
Alignment explanation
Indices: 6316754--6316828 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 11
6316744 TTAAATGGGT
6316754 TTTAAATTT-A
1 TTTAAATTTAA
6316764 TTTAAATTTAAA
1 TTTAAATTT-AA
*
6316776 TTT-ATTTTAAA
1 TTTAAATTT-AA
6316787 TTTAAATTTACTCA
1 TTTAAATTTA---A
*
6316801 TTTAAATTTAC
1 TTTAAATTTAA
6316812 TTTAAATTTAA
1 TTTAAATTTAA
6316823 GTTTAA
1 -TTTAA
6316829 TCAAATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.17
11 21 0.39
12 13 0.24
14 11 0.20
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:6316786 original size:17 final size:16
Alignment explanation
Indices: 6316754--6316839 Score: 95
Period size: 17 Copynumber: 5.4 Consensus size: 16
6316744 TTAAATGGGT
6316754 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
6316770 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
* *
6316787 TTTAAATTTA-CT-CA
1 TTTAAATTTATTTAAA
6316801 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
* * *
6316818 TTTAAGTTTAATCAAA
1 TTTAAATTTATTTAAA
6316834 TTTAAA
1 TTTAAA
6316840 ATAATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.19
15 1 0.02
16 20 0.34
17 26 0.45
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:6316805 original size:14 final size:14
Alignment explanation
Indices: 6316786--6316812 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6316776 TTTATTTTAA
6316786 ATTTAAATTTACTC
1 ATTTAAATTTACTC
6316800 ATTTAAATTTACT
1 ATTTAAATTTACT
6316813 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:6316807 original size:31 final size:31
Alignment explanation
Indices: 6316769--6316827 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6316759 ATTTATTTAA
*
6316769 ATTTAAATTTATTTTAAATTTAAATTTACTC
1 ATTTAAATTTACTTTAAATTTAAATTTACTC
*
6316800 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
6316828 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTC
Found at i:6318774 original size:29 final size:28
Alignment explanation
Indices: 6318728--6319119 Score: 229
Period size: 29 Copynumber: 13.5 Consensus size: 28
6318718 AGACTATCCA
6318728 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCC-AAACTTTCC
* **
6318757 AAAATT-CCGTTTTAACCCC--GGTTTCATC
1 AAAATTACCATTTT-ACCCCAAACTTTC--C
*
6318785 AAAAATTACCATTTTACCCTCGAACTTTCC
1 -AAAATTACCATTTTACCC-CAAACTTTCC
6318815 -AAATT-CCATTTTAACCCC-AA-TTTCATC
1 AAAATTACCATTTT-ACCCCAAACTTTC--C
* *
6318842 AAAAATTACCATTTTACCCCCGAACTTCCC
1 -AAAATTACCATTTTA-CCCCAAACTTTCC
*
6318872 AAAATT-CCATTTTAACCCC--AGTTTCATC
1 AAAATTACCATTTT-ACCCCAAACTTTC--C
*
6318900 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTA-CCCCAAACTTTCC
* * *
6318930 CAAATT-CCATTTTTGACCCC-GATTTTACC
1 AAAATTACCA-TTTT-ACCCCAAACTTT-CC
6318959 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCC-AAACTTTCC
** *
6318989 AAAATT-CCATTTTTAACCCCAATTTTATCA
1 AAAATTACCA-TTTT-ACCCCAAACTT-TCC
*
6319019 AAAATTACCATTTTACGCCTAAACTTTCC
1 AAAATTACCATTTTAC-CCCAAACTTTCC
*** *
6319048 AAAATT-CCATTTTTAACCCCAGTTTTATCA
1 AAAATTACCA-TTTT-ACCCCAAACTT-TCC
*
6319078 AAAATTACCATTTTACCCTCGAACTTTCC
1 AAAATTACCATTTTACCC-CAAACTTTCC
*
6319107 AAGATT-CCATTTT
1 AAAATTACCATTTT
6319120 TAACCTCGAT
Statistics
Matches: 287, Mismatches: 34, Indels: 85
0.71 0.08 0.21
Matches are distributed among these distances:
25 4 0.01
26 10 0.03
27 9 0.03
28 48 0.17
29 105 0.37
30 84 0.29
31 15 0.05
32 12 0.04
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAACTTTCC
Found at i:6318796 original size:58 final size:59
Alignment explanation
Indices: 6318726--6319155 Score: 575
Period size: 59 Copynumber: 7.4 Consensus size: 59
6318716 CTAGACTATC
* * **
6318726 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-GTTTTAACCCCGGTTTCAT
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
6318784 CAAAAATTACCATTTTA-CCCTCGAACTTTCC-AAATTCCA-TTTTAACCCCAATTTCAT
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* * *
6318841 CAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCA-TTTTAACCCCAGTTTCAT
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* * * * * *
6318899 CAAAAATTACCATTTTACCCCCGAACTTTCCCAAATTCCATTTTTGACCCCGATTTTAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* *
6318958 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTTAT
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* * * *
6319017 CAAAAATTACCATTTTACGCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTTAT
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* * * *
6319076 CAAAAATTACCATTTTA-CCCTCGAACTTTCCAAGATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
* *
6319135 CAAAAATTAGCATTTTGCCCC
1 CAAAAATTACCATTTTACCCC
6319156 CGCACGTCCA
Statistics
Matches: 334, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
57 52 0.16
58 94 0.28
59 185 0.55
60 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCAT
Found at i:6331226 original size:46 final size:46
Alignment explanation
Indices: 6331176--6331319 Score: 106
Period size: 46 Copynumber: 3.1 Consensus size: 46
6331166 TTGAAGTAAG
6331176 AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
* * * * * *
6331222 AGTAAAGATG--G-A--TA-ATAAGCTTTCGT-CCCTC-AGAAATTGAAGTAA
1 AGTAAA-ATGAAGCACCAACATCA-TTTTCCTATCCTCTTGAAATT---G--A
6331267 GAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 -AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
6331314 AGTAAA
1 AGTAAA
6331320 GCTGGATAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 32
0.61 0.11 0.28
Matches are distributed among these distances:
40 6 0.09
41 7 0.10
42 6 0.09
43 1 0.01
44 1 0.01
45 5 0.07
46 18 0.26
47 5 0.07
48 1 0.01
49 1 0.01
50 6 0.09
51 7 0.10
52 6 0.09
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (46 bp):
AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
Found at i:6331261 original size:92 final size:92
Alignment explanation
Indices: 6331104--6331787 Score: 1174
Period size: 92 Copynumber: 7.4 Consensus size: 92
6331094 AGATCAAACC
* *
6331104 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCATCCCTCAAAAATTG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
6331169 AAGTAAGAGTAAAATGAAGCACCAACA
66 AAGTAAGAGTAAAATGAAGCACCAACA
* * *
6331196 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAATAAGCTTTCGTCCCTCAGAAATTG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
6331261 AAGTAAGAGTAAAATGAAGCACCAACA
66 AAGTAAGAGTAAAATGAAGCACCAACA
* *
6331288 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAAAAATTC
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
*
6331353 AAGTAAGAGTAAAATGAAGCACCAACC
66 AAGTAAGAGTAAAATGAAGCACCAACA
6331380 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
6331445 AAGTAAGAGTAAAATGAAGCACCAACA
66 AAGTAAGAGTAAAATGAAGCACCAACA
* *
6331472 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAACCTTCGTCCCTCAAAAATTG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
* *
6331537 AAGTAGGAGTAGAATGAAGCACCAACA
66 AAGTAAGAGTAAAATGAAGCACCAACA
*
6331564 TGATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
6331629 AAGTAAGAGTAAAATGAAGCACCAACA
66 AAGTAAGAGTAAAATGAAGCACCAACA
* * *
6331656 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTGCGTCCCTCTGAAATCG
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
*
6331721 AAATAAGAGTAAGAA-GAAAG-ACCAACA
66 AAGTAAGAGTAA-AATG-AAGCACCAACA
*
6331748 TCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATA
1 TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
6331788 TCAAATCATT
Statistics
Matches: 561, Mismatches: 29, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
92 556 0.99
93 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (92 bp):
TCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTG
AAGTAAGAGTAAAATGAAGCACCAACA
Found at i:6332130 original size:6 final size:6
Alignment explanation
Indices: 6332110--6332168 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
6332100 TTAAATGGGT
* * *
6332110 TTTAAA TTT-AT TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
6332158 TTTAAA TTTAA
1 TTTAAA TTTAA
6332169 TCAAATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
8 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:6332130 original size:17 final size:16
Alignment explanation
Indices: 6332110--6332179 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 16
6332100 TTAAATGGGT
6332110 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
* *
6332127 TTTAAATTTA-CT-CA
1 TTTAAATTTATTTAAA
6332141 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
* *
6332158 TTTAAATTTAATCAAA
1 TTTAAATTTATTTAAA
6332174 TTTAAA
1 TTTAAA
6332180 ATGATATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 11 0.25
17 21 0.48
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:6332145 original size:14 final size:14
Alignment explanation
Indices: 6332126--6332152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6332116 TTTATTTTAA
6332126 ATTTAAATTTACTC
1 ATTTAAATTTACTC
6332140 ATTTAAATTTACT
1 ATTTAAATTTACT
6332153 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:6333333 original size:15 final size:14
Alignment explanation
Indices: 6333313--6333342 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6333303 TAAAAGATCC
6333313 AAAGAAAAGAATAAA
1 AAAGAAAAGAA-AAA
6333328 AAAGAAAAGAAAAA
1 AAAGAAAAGAAAAA
6333342 A
1 A
6333343 GGGTGGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAGAAAAGAAAAA
Found at i:6334120 original size:59 final size:59
Alignment explanation
Indices: 6333986--6334440 Score: 582
Period size: 59 Copynumber: 7.7 Consensus size: 59
6333976 CTGGACTGTC
* * * * *
6333986 CAAAAATTACCATTTTACCC-CTAAACTTTCCAAAATTCTA-TCTTAACCCCGGTTTCAT
1 CAAAAATTACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
* *
6334044 CAAAAAATACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCAT
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
* * *
6334103 TAAATATTACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCAT
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
* *
6334162 CAAAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCTCGATTTCA-
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
** *
6334220 CAAAAAATTACCATTTTACCCTTAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTCAT
1 C-AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
* * *
6334279 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCAT
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
* * * *
6334338 CAAAAATTACCATTTTA-CCTCCGAACTTTCCAAGATTCCATTTTTAAGC-CAAGTTTCAC
1 CAAAAATTACCATTTTACCCT-CGAACTTTCCAAAATTCCATTTTTAACCTCGA-TTTCAT
* * * *
6334397 CAAAAATTACCATTTTGCCCCCGTAC-GTCCAAAATTACCATTTT
1 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATT-CCATTTT
6334441 GCTCCTGGGT
Statistics
Matches: 351, Mismatches: 37, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
58 100 0.28
59 249 0.71
60 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAT
Found at i:6334290 original size:176 final size:176
Alignment explanation
Indices: 6333986--6334412 Score: 626
Period size: 176 Copynumber: 2.4 Consensus size: 176
6333976 CTGGACTGTC
** * * *
6333986 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTA-TCTTAACCCCGGTTTCATCAAAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCA-CAAAAA
* * *
6334050 A-TACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATTAAATATTACC
64 ATTACCATTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATCAAAAATTACC
* * *
6334114 ATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCAT
129 ATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCAT
*
6334162 CAAAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCTCGATTTCACAAAAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACC-CGATTTCACAAAAAA
*
6334227 TTACCATTTTACCCTTAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTCATCAAAAATTACCA
65 TTACCATTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATCAAAAATTACCA
*
6334291 TTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCAT
130 TTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCAT
* * * * *
6334338 CAAAAATTACCATTTTACCTCCGAACTTTCCAAGATTCCATTTTTAAGCCAAGTTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCGA-TTTCACAAAAAA
6334403 TTACCATTTT
65 TTACCATTTT
6334413 GCCCCCGTAC
Statistics
Matches: 227, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
175 2 0.01
176 182 0.80
177 43 0.19
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (176 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCGATTTCACAAAAAAT
TACCATTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATCAAAAATTACCAT
TTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCAT
Found at i:6334403 original size:235 final size:235
Alignment explanation
Indices: 6333987--6334440 Score: 664
Period size: 235 Copynumber: 1.9 Consensus size: 235
6333977 TGGACTGTCC
* *
6333987 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATCTTAACCCCGGTTTCATCAAAAAAT
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATCTTAACCCCGATTTCATCAAAAAAT
* * * * *
6334052 ACCATTTTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATTAAATATTACCATT
66 ACCATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCATCAAAAATTACCATT
* ** *
6334117 TTACCCTCGAACTTTCTAAAATTCCATTTTTAACCTCGATTTCATCAAAAATTACCATTTTACCC
131 TTACCCTCGAACTTTCCAAAATTCCATTTTTAACCAAGATTTCACCAAAAATTACCATTTTACCC
*
6334182 CCG-AGCTTTCCAAAATT-CCATTTTTAACCTCGATTTCACA
196 CCGTA-C-GTCCAAAATTACCATTTTTAACCTCGATTTCACA
* * * * *
6334222 AAAAATTACCATTTTACCCTTAAACTTTCTAAAATTCCATTTTAACCTCGATTTCATCAAAAATT
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATCTTAACCCCGATTTCATCAAAAAAT
*
6334287 ACCATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGGTTTCATCAAAAATTACCATT
66 ACCATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCATCAAAAATTACCATT
* *
6334352 TTA-CCTCCGAACTTTCCAAGATTCCATTTTTAAGCCAAG-TTTCACCAAAAATTACCATTTTGC
131 TTACCCT-CGAACTTTCCAAAATTCCATTTTTAA-CCAAGATTTCACCAAAAATTACCATTTTAC
6334415 CCCCGTACGTCCAAAATTACCATTTT
194 CCCCGTACGTCCAAAATTACCATTTT
6334441 GCTCCTGGGT
Statistics
Matches: 195, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
234 12 0.06
235 179 0.92
236 4 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (235 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATCTTAACCCCGATTTCATCAAAAAAT
ACCATTTTACCCTCGAACTTTCCAAAATTCCATTATTAACCCCGATTTCATCAAAAATTACCATT
TTACCCTCGAACTTTCCAAAATTCCATTTTTAACCAAGATTTCACCAAAAATTACCATTTTACCC
CCGTACGTCCAAAATTACCATTTTTAACCTCGATTTCACA
Found at i:6337343 original size:6 final size:6
Alignment explanation
Indices: 6337332--6337359 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6337322 GTAAAACATA
6337332 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
6337360 AAAAAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:6339044 original size:19 final size:19
Alignment explanation
Indices: 6339022--6339060 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6339012 TACAATGTAA
6339022 TTAAA-TAATATAAATTAAT
1 TTAAATTAA-ATAAATTAAT
*
6339041 TTAAATTAAATAATTTAAT
1 TTAAATTAAATAAATTAAT
6339060 T
1 T
6339061 AACTATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTAAATAAATTAAT
Found at i:6346714 original size:375 final size:375
Alignment explanation
Indices: 6346083--6346831 Score: 1489
Period size: 375 Copynumber: 2.0 Consensus size: 375
6346073 GCAGTACAAC
6346083 TCTACTTTACACTTCTCCACATAATGGACCTGTCGCCTAGGATAAAAACACCGTCTGACGTCGAT
1 TCTACTTTACACTTCTCCACATAATGGACCTGTCGCCTAGGATAAAAACACCGTCTGACGTCGAT
6346148 TTCCTCGAATCTTGACACATTTGGAAGTTAGAATCAATATATCTTATAGGAGTAAAATCTCTTCC
66 TTCCTCGAATCTTGACACATTTGGAAGTTAGAATCAATATATCTTATAGGAGTAAAATCTCTTCC
6346213 AAAATACACAAGCATATAATCTCACGTTCTTTTTAAATACTTGAGTCGATGCTTAACTGATTGCA
131 AAAATACACAAGCATATAATCTCACGTTCTTTTTAAATACTTGAGTCGATGCTTAACTGATTGCA
6346278 AGTCTTGGTCTTAGATTCACTTGATATCGACTCACCAACCCCATTGCGAAATATATATCTGGATG
196 AGTCTTGGTCTTAGATTCACTTGATATCGACTCACCAACCCCATTGCGAAATATATATCTGGATG
6346343 CGTGCATAACATAATATACATGAGATTTCCTATTGCCGAAGCATAAGGAACTTTTCTCATGTTTT
261 CGTGCATAACATAATATACATGAGATTTCCTATTGCCGAAGCATAAGGAACTTTTCTCATGTTTT
6346408 CTCTTTCTTTCACTGTCTTAGGACAATCCTCCAAAGAAAAATGAAATCCA
326 CTCTTTCTTTCACTGTCTTAGGACAATCCTCCAAAGAAAAATGAAATCCA
6346458 TCTACTTTACACTTCTCCACATAATGGACCTGTCGCCTAGGATAAAAACACCGTCTGACGTCGAT
1 TCTACTTTACACTTCTCCACATAATGGACCTGTCGCCTAGGATAAAAACACCGTCTGACGTCGAT
*
6346523 TTCCTCGAATCTTGACACATTTGGAAGTTAGAATCAATATATCTTTTAGGAGTAAAATCTCTTCC
66 TTCCTCGAATCTTGACACATTTGGAAGTTAGAATCAATATATCTTATAGGAGTAAAATCTCTTCC
6346588 AAAATACACAAGCATATAATCTCACGTTCTTTTTAAATACTTGAGTCGATGCTTAACTGATTGCA
131 AAAATACACAAGCATATAATCTCACGTTCTTTTTAAATACTTGAGTCGATGCTTAACTGATTGCA
6346653 AGTCTTGGTCTTAGATTCACTTGATATCGACTCACCAACCCCATTGCGAAATATATATCTGGATG
196 AGTCTTGGTCTTAGATTCACTTGATATCGACTCACCAACCCCATTGCGAAATATATATCTGGATG
6346718 CGTGCATAACATAATATACATGAGATTTCCTATTGCCGAAGCATAAGGAACTTTTCTCATGTTTT
261 CGTGCATAACATAATATACATGAGATTTCCTATTGCCGAAGCATAAGGAACTTTTCTCATGTTTT
6346783 CTCTTTCTTTCACTGTCTTAGGACAATCCTCCAAAGAAAAATGAAATCC
326 CTCTTTCTTTCACTGTCTTAGGACAATCCTCCAAAGAAAAATGAAATCC
6346832 CGATATAGAA
Statistics
Matches: 373, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
375 373 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (375 bp):
TCTACTTTACACTTCTCCACATAATGGACCTGTCGCCTAGGATAAAAACACCGTCTGACGTCGAT
TTCCTCGAATCTTGACACATTTGGAAGTTAGAATCAATATATCTTATAGGAGTAAAATCTCTTCC
AAAATACACAAGCATATAATCTCACGTTCTTTTTAAATACTTGAGTCGATGCTTAACTGATTGCA
AGTCTTGGTCTTAGATTCACTTGATATCGACTCACCAACCCCATTGCGAAATATATATCTGGATG
CGTGCATAACATAATATACATGAGATTTCCTATTGCCGAAGCATAAGGAACTTTTCTCATGTTTT
CTCTTTCTTTCACTGTCTTAGGACAATCCTCCAAAGAAAAATGAAATCCA
Found at i:6348688 original size:2 final size:2
Alignment explanation
Indices: 6348681--6348708 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6348671 AATTATTCAA
6348681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6348709 TTATTCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6349184 original size:179 final size:179
Alignment explanation
Indices: 6348832--6349163 Score: 567
Period size: 179 Copynumber: 1.9 Consensus size: 179
6348822 TACCTCTAAC
6348832 ATGCTAGTTTGTAACAAAATAGCATATATATGTATTGAACTCAAATAATGAAAGTAAAAACTGTA
1 ATGCTAGTTTGTAACAAAATAGCATATATATGTATTGAACTCAAATAATGAAAGTAAAAACTGTA
* * *
6348897 TTTTTACTTGTCTACGACTCTCGCCTTTTCTTTCTCTCGAGACGGCCTGACGTCCATCTTTAGCT
66 TTTTTACTCGTCTACGACTCTCACCTTTTCTTTCTCTCGAGACGGCCCGACGTCCATCTTTAGCT
*
6348962 TAGGGATTTTGGACTAAACGGAAGAAACCCTAAAGTTTCTTCCTCGAAT
131 TACGGATTTTGGACTAAACGGAAGAAACCCTAAAGTTTCTTCCTCGAAT
* *
6349011 ATGCTAGTTTGTAA-AAAATAGTATATATATGTATTGAACTCAAATAATGAAAGTACAAACTGTA
1 ATGCTAGTTTGTAACAAAATAGCATATATATGTATTGAACTCAAATAATGAAAGTAAAAACTGTA
* *
6349075 TTTTTTACTCGTTTACGACTCTTACCTTTTCTTTCTCTCGAGACGGCCCGACGTCCATCTTTAGC
66 -TTTTTACTCGTCTACGACTCTCACCTTTTCTTTCTCTCGAGACGGCCCGACGTCCATCTTTAGC
*
6349140 TTACGGATTTTGGACTAAATGGAA
130 TTACGGATTTTGGACTAAACGGAA
6349164 AAGGGGCTAA
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
178 48 0.34
179 95 0.66
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (179 bp):
ATGCTAGTTTGTAACAAAATAGCATATATATGTATTGAACTCAAATAATGAAAGTAAAAACTGTA
TTTTTACTCGTCTACGACTCTCACCTTTTCTTTCTCTCGAGACGGCCCGACGTCCATCTTTAGCT
TACGGATTTTGGACTAAACGGAAGAAACCCTAAAGTTTCTTCCTCGAAT
Found at i:6350404 original size:13 final size:14
Alignment explanation
Indices: 6350376--6350419 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
6350366 TTAATTTAAA
6350376 TTTT-ATATAA-AT
1 TTTTAATATAATAT
6350388 TTTTAATA-AATAT
1 TTTTAATATAATAT
*
6350401 TTTTTATATAAT-T
1 TTTTAATATAATAT
6350414 TTTTAA
1 TTTTAA
6350420 GTGTGCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.22
13 18 0.67
14 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAATATAATAT
Found at i:6350457 original size:15 final size:14
Alignment explanation
Indices: 6350436--6350476 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
6350426 CTTATTCTAA
6350436 TATTAATAAACTAT
1 TATTAATAAACTAT
*
6350450 TGATTAATAATCTAT
1 T-ATTAATAAACTAT
*
6350465 TTTTAATAAACT
1 TATTAATAAACT
6350477 TAAATAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (14 bp):
TATTAATAAACTAT
Found at i:6360775 original size:26 final size:25
Alignment explanation
Indices: 6360736--6360789 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
6360726 ACTGACCTAG
6360736 CTAACAGCTTAACTTCTGCTAACTA
1 CTAACAGCTTAACTTCTGCTAACTA
6360761 CTAACAGACTTAACTTCTGCTAACTA
1 CTAACAG-CTTAACTTCTGCTAACTA
6360787 CTA
1 CTA
6360790 CCTATATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (25 bp):
CTAACAGCTTAACTTCTGCTAACTA
Found at i:6364143 original size:26 final size:25
Alignment explanation
Indices: 6364104--6364157 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
6364094 ACTGACCTAG
6364104 CTAACAGCTTAACTTCTGCTAACTA
1 CTAACAGCTTAACTTCTGCTAACTA
6364129 CTAACAGACTTAACTTCTGCTAACTA
1 CTAACAG-CTTAACTTCTGCTAACTA
6364155 CTA
1 CTA
6364158 CCTGTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (25 bp):
CTAACAGCTTAACTTCTGCTAACTA
Found at i:6365096 original size:16 final size:17
Alignment explanation
Indices: 6365075--6365106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6365065 GCTGCTAAAC
6365075 CATCTCA-TTGCATTTT
1 CATCTCATTTGCATTTT
6365091 CATCTCATTTGCATTT
1 CATCTCATTTGCATTT
6365107 AGGTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (17 bp):
CATCTCATTTGCATTTT
Found at i:6365129 original size:15 final size:16
Alignment explanation
Indices: 6365097--6365130 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6365087 TTTTCATCTC
6365097 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
6365113 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
6365128 ATT
1 ATT
6365131 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:6372298 original size:23 final size:23
Alignment explanation
Indices: 6372272--6372392 Score: 138
Period size: 23 Copynumber: 5.2 Consensus size: 23
6372262 ACACTAACGC
6372272 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
6372295 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
6372318 GCTCTCTGTTTAGCA-TGTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
*
6372341 GCTCTCTGTTATTAGCA-TTTCGTGT
1 GCTCTCTG-T-TTAGCACTGT-GTGT
* * *
6372366 GATCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
6372389 GCTC
1 GCTC
6372393 AGTACTTTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
22 4 0.05
23 59 0.69
24 4 0.05
25 17 0.20
26 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:6372379 original size:48 final size:46
Alignment explanation
Indices: 6372274--6372392 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 46
6372264 ACTAACGCGC
* *
6372274 TCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTGTGTGTGC
1 TCTCTGTTTAGCACTGTCTGTGCTCTCTGATTAGCACTGTGTGTGA
*
6372320 TCTCTGTTTAGCA-TGTCTCGTGCTCTCTGTTATTAGCA-TTTCGTGTGA
1 TCTCTGTTTAGCACTGTCT-GTGCTCTCTG--ATTAGCACTGT-GTGTGA
* * *
6372368 TCTCTGATTAGCACTTTGTGTGCTC
1 TCTCTGTTTAGCACTGTCTGTGCTC
6372393 AGTACTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
45 4 0.06
46 23 0.37
47 2 0.03
48 30 0.48
49 3 0.05
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.44
Consensus pattern (46 bp):
TCTCTGTTTAGCACTGTCTGTGCTCTCTGATTAGCACTGTGTGTGA
Found at i:6376408 original size:41 final size:41
Alignment explanation
Indices: 6376363--6376452 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
6376353 TAAGTAACTG
6376363 AATTAGTTGCAACTGAGTTAGTTGAGTTAGTTTTTTGTTAA
1 AATTAGTTGCAACTGAGTTAGTTGAGTTAGTTTTTTGTTAA
6376404 AATTAGTTGCAACTGAGTTAGTTGAGTTAGTTTTTTGTTAA
1 AATTAGTTGCAACTGAGTTAGTTGAGTTAGTTTTTTGTTAA
6376445 AATTAGTT
1 AATTAGTT
6376453 ATACCTATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (41 bp):
AATTAGTTGCAACTGAGTTAGTTGAGTTAGTTTTTTGTTAA
Found at i:6376939 original size:20 final size:22
Alignment explanation
Indices: 6376892--6376944 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
6376882 ATGACAAAAT
6376892 AGTCACTCAA-TTTTCAATTCA
1 AGTCACTCAACTTTTCAATTCA
6376913 AGT-ACTCAACTTTT-AATTC-
1 AGTCACTCAACTTTTCAATTCA
6376932 AGTCACTC-ACTTT
1 AGTCACTCAACTTT
6376945 CAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.27
20 15 0.50
21 7 0.23
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.40
Consensus pattern (22 bp):
AGTCACTCAACTTTTCAATTCA
Found at i:6377765 original size:24 final size:23
Alignment explanation
Indices: 6377720--6377770 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
6377710 AACTTTGATT
*
6377720 TTTTTTTTTCTCTTTTTCTCTTC
1 TTTTTTTTTATCTTTTTCTCTTC
6377743 TTTTTTTTTAT-TTTCTTCTTCTTC
1 TTTTTTTTTATCTTT-TTC-TCTTC
6377767 TTTT
1 TTTT
6377771 AGTGTCGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTTATCTTTTTCTCTTC
Found at i:6379811 original size:36 final size:35
Alignment explanation
Indices: 6379771--6379842 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
6379761 ATATATATTC
*
6379771 ATATTCCACACTAAACTCTAACCCCAAAATCCAAGT
1 ATATTCCACACTAAACCCTAA-CCCAAAATCCAAGT
* *
6379807 ATATTCGACACTAAACCCTAACCCAGAATCCAAGT
1 ATATTCCACACTAAACCCTAACCCAAAATCCAAGT
6379842 A
1 A
6379843 ACTTAGCTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 14 0.42
36 19 0.58
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.21
Consensus pattern (35 bp):
ATATTCCACACTAAACCCTAACCCAAAATCCAAGT
Found at i:6381564 original size:37 final size:34
Alignment explanation
Indices: 6381507--6381581 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
6381497 CATATTTAAT
*
6381507 TATTT-AT-TTTTAATAATATAATAAATTATTAATA
1 TATTTAATATTTTAATAATATAA-AAA-TATGAATA
**
6381541 TAATTTAATATTTTAATTGTATAAAAATATGAATA
1 T-ATTTAATATTTTAATAATATAAAAATATGAATA
6381576 TATTTA
1 TATTTA
6381582 TGTTGGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
34 6 0.17
35 12 0.34
36 5 0.14
37 12 0.34
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (34 bp):
TATTTAATATTTTAATAATATAAAAATATGAATA
Found at i:6387895 original size:17 final size:17
Alignment explanation
Indices: 6387865--6387902 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6387855 AGGCAACGGT
*
6387865 TCGGTTAACAAGTCGGG
1 TCGGTCAACAAGTCGGG
*
6387882 TCGGTCAACGAGTCGGG
1 TCGGTCAACAAGTCGGG
6387899 TCGG
1 TCGG
6387903 GTTCAAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (17 bp):
TCGGTCAACAAGTCGGG
Found at i:6390403 original size:7 final size:7
Alignment explanation
Indices: 6390391--6390417 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6390381 TCTTGATGAT
6390391 TTCTTCA
1 TTCTTCA
6390398 TTCTTCA
1 TTCTTCA
6390405 TTCTTCA
1 TTCTTCA
6390412 TTCTTC
1 TTCTTC
6390418 TATTTATAGG
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:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:6391241 original size:18 final size:18
Alignment explanation
Indices: 6391218--6391266 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6391208 TTATCAAAAA
*
6391218 TTTCTTTCTTTTTTTCTT
1 TTTCTTTCTTTTTTTCAT
*
6391236 TTTCTTCCTTTTTTTCAT
1 TTTCTTTCTTTTTTTCAT
*
6391254 TTTGTTTCTTTTT
1 TTTCTTTCTTTTT
6391267 CAAATGACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTCTTTCTTTTTTTCAT
Found at i:6391261 original size:10 final size:8
Alignment explanation
Indices: 6391222--6391266 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 8
6391212 CAAAAATTTC
6391222 TTTCTTTT
1 TTTCTTTT
6391230 TTTCTTTT
1 TTTCTTTT
6391238 TCTTCCTTTT
1 T-TT-CTTTT
6391248 TTTCATTTT
1 TTTC-TTTT
6391257 GTTTCTTTT
1 -TTTCTTTT
6391266 T
1 T
6391267 CAAATGACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 11 0.33
9 12 0.36
10 10 0.30
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTCTTTT
Found at i:6394213 original size:20 final size:21
Alignment explanation
Indices: 6394188--6394226 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6394178 ATAAGGAATT
6394188 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
6394208 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
6394227 TAAACAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:6400946 original size:7 final size:7
Alignment explanation
Indices: 6400931--6400970 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
6400921 TCTTGATGAT
*
6400931 TTCTACA
1 TTCTTCA
6400938 TTCTTCA
1 TTCTTCA
6400945 TTCTTCA
1 TTCTTCA
*
6400952 TTCCTCA
1 TTCTTCA
6400959 TTCTTCA
1 TTCTTCA
6400966 TTCTT
1 TTCTT
6400971 ATATTTATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (7 bp):
TTCTTCA
Found at i:6421184 original size:80 final size:80
Alignment explanation
Indices: 6421068--6421228 Score: 277
Period size: 80 Copynumber: 2.0 Consensus size: 80
6421058 ATAAATCAAC
* * *
6421068 TACTCGAATAAAAAATCCCCATTTTTTAGTGGAAAAGCTTTGGACCTAATAAAAAATTATTCATT
1 TACTCGAATAAAAAATCCCCATTTTTCAGTGAAAAAGCTTTGGACCGAATAAAAAATTATTCATT
6421133 TAATAAATCAAATAA
66 TAATAAATCAAATAA
* *
6421148 TACTCGAATAAATAATCCCCATTTTTCAGTGAAAAAGCTTTGGACCGGATAAAAAATTATTCATT
1 TACTCGAATAAAAAATCCCCATTTTTCAGTGAAAAAGCTTTGGACCGAATAAAAAATTATTCATT
6421213 TAATAAATCAAATAA
66 TAATAAATCAAATAA
6421228 T
1 T
6421229 CATAAGATAC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (80 bp):
TACTCGAATAAAAAATCCCCATTTTTCAGTGAAAAAGCTTTGGACCGAATAAAAAATTATTCATT
TAATAAATCAAATAA
Found at i:6435998 original size:22 final size:25
Alignment explanation
Indices: 6435932--6435998 Score: 59
Period size: 26 Copynumber: 2.8 Consensus size: 25
6435922 AAAAAATATT
* *
6435932 TAAAATTATTAAATATTAAAATGAAA
1 TAAAATAAATAAATATTAAAA-GAAA
** *
6435958 TAAAATAAATATTTTTTAAAA-AAA
1 TAAAATAAATAAATATTAAAAGAAA
6435982 T-AAA-AAATAAATATTAA
1 TAAAATAAATAAATATTAA
6435999 CGGGTTAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 10 0.30
23 3 0.09
24 4 0.12
26 16 0.48
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (25 bp):
TAAAATAAATAAATATTAAAAGAAA
Found at i:6436928 original size:10 final size:10
Alignment explanation
Indices: 6436915--6436959 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
6436905 AAAATACATA
6436915 AAAAAAATTT
1 AAAAAAATTT
* *
6436925 AAAAATATAT
1 AAAAAAATTT
6436935 AAAAAAATTT
1 AAAAAAATTT
6436945 AAAAAAATTCT
1 AAAAAAATT-T
6436956 AAAA
1 AAAA
6436960 TAATAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 25 0.83
11 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:6436950 original size:21 final size:21
Alignment explanation
Indices: 6436901--6436949 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
6436891 AAATTTATGT
6436901 TTTAAAAATACATAAAAAAAA
1 TTTAAAAATACATAAAAAAAA
*
6436922 TTTAAAAATATAT-AAAAAAA
1 TTTAAAAATACATAAAAAAAA
6436942 TTTAAAAA
1 TTTAAAAA
6436950 AATTCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTTAAAAATACATAAAAAAAA
Found at i:6437003 original size:16 final size:16
Alignment explanation
Indices: 6436982--6437015 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6436972 GACCCAATTA
6436982 ATGGTTCAAATTTATC
1 ATGGTTCAAATTTATC
6436998 ATGGTTCAAATTTATC
1 ATGGTTCAAATTTATC
6437014 AT
1 AT
6437016 ACTCAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
ATGGTTCAAATTTATC
Found at i:6437810 original size:14 final size:14
Alignment explanation
Indices: 6437793--6437869 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 14
6437783 ATTCAGATTC
6437793 ATGAATCTGTATAT
1 ATGAATCTGTATAT
*
6437807 ATGAATCCT-CATAT
1 ATGAAT-CTGTATAT
* *
6437821 ATGAATCTGCATCT
1 ATGAATCTGTATAT
** *
6437835 ACAAATCTGTATTT
1 ATGAATCTGTATAT
*
6437849 ATGAATCTGTATGT
1 ATGAATCTGTATAT
6437863 ATGAATC
1 ATGAATC
6437870 CATACCCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
13 2 0.04
14 48 0.92
15 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (14 bp):
ATGAATCTGTATAT
Found at i:6438182 original size:17 final size:17
Alignment explanation
Indices: 6438117--6438183 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
6438107 GTTTTTAAAT
6438117 TTTAAATTTAAATTTAC
1 TTTAAATTTAAATTTAC
* * *
6438134 TTTGAGTTTAAATTTAT
1 TTTAAATTTAAATTTAC
6438151 TTTAAAAATTTAAATTTAC
1 TTT--AAATTTAAATTTAC
*
6438170 TTTAAATTAAAATT
1 TTTAAATTTAAATT
6438184 AAAAAAGTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 27 0.66
19 14 0.34
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAC
Found at i:6440386 original size:30 final size:29
Alignment explanation
Indices: 6440312--6440443 Score: 89
Period size: 29 Copynumber: 4.5 Consensus size: 29
6440302 CAAAAATTCT
*
6440312 AAAAATTACCATTTTACCCCTG-AA-TATCC
1 AAAAATTACCATTTTAACCC-GAAACT-TCC
6440341 AAAAA-T-CTCACTTTTAATCCCGAAACTTCC
1 AAAAATTAC-CA-TTTTAA-CCCGAAACTTCC
* * * *
6440371 AAAAATTACTATTTTACCCCCG-GA-TGTCT
1 AAAAATTACCATTTTA-ACCCGAAACT-TCC
*
6440400 AAAAATT-CCATTTTAACCTCGAACCTTCC
1 AAAAATTACCATTTTAACC-CGAAACTTCC
6440429 AAAAATTACCATTTT
1 AAAAATTACCATTTT
6440444 TCCCAAGCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 25
0.70 0.09 0.22
Matches are distributed among these distances:
27 3 0.04
28 13 0.16
29 30 0.38
30 30 0.38
31 3 0.04
32 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTAACCCGAAACTTCC
Found at i:6440443 original size:58 final size:59
Alignment explanation
Indices: 6440312--6440443 Score: 171
Period size: 58 Copynumber: 2.3 Consensus size: 59
6440302 CAAAAATTCT
*
6440312 AAAAATTACCATTTTACCCCTGAATATCCAAAAATCTCACTTTTAATCCCGAAACTTCC
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATCTCACTTTTAATCCCGAAACTTCC
* * * * *
6440371 AAAAATTACTATTTTACCCCCGGATGTCTAAAAAT-TC-CATTTTAA-CCTCGAACCTTCC
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATCTCAC-TTTTAATCC-CGAAACTTCC
6440429 AAAAATTACCATTTT
1 AAAAATTACCATTTT
6440444 TCCCAAGCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.05
58 31 0.48
59 30 0.47
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.33
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAATATCCAAAAATCTCACTTTTAATCCCGAAACTTCC
Found at i:6440862 original size:97 final size:97
Alignment explanation
Indices: 6440698--6440891 Score: 268
Period size: 97 Copynumber: 2.0 Consensus size: 97
6440688 GAAACCTTTA
* *
6440698 AAATCGAGGCAATATTCTTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACGAT
1 AAATCAAGGCAATATTCTTTTATTTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGCACGAT
*
6440763 TTTTCTTCGAATC-AGAATAATCGAATACCCTT
66 TTTTCTTCAAATCGAG-ATAATCGAATACCCTT
* * * *
6440795 AAATCAAGGCAATGTT-TCTTTATCTTCGA-TTCTGAAAATTTGTGTCTTAACTTATTAGGCGCG
1 AAATCAAGGCAATATTCT-TTTAT-TTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGCACG
*
6440858 ATTTTTCTTCAAATCGAGATAATCGAATATCCTT
64 ATTTTTCTTCAAATCGAGATAATCGAATACCCTT
6440892 TTCAAACGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
96 1 0.01
97 78 0.91
98 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (97 bp):
AAATCAAGGCAATATTCTTTTATTTCGAGTTCTGAAAATTTGTGCCTTAACTTACTAGGCACGAT
TTTTCTTCAAATCGAGATAATCGAATACCCTT
Found at i:6442768 original size:31 final size:30
Alignment explanation
Indices: 6442733--6442810 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
6442723 TTTTGGGTTC
*
6442733 AATTTGGTACTCAAACTTGACACTTTTTCTT
1 AATTTGGTACTCAAACTTGACACTCTTT-TT
* * *
6442764 AATTTGATAC-CTAACTCGACACTCTTTTT
1 AATTTGGTACTCAAACTTGACACTCTTTTT
* *
6442793 AAGTTGGTACTTAAACTT
1 AATTTGGTACTCAAACTT
6442811 TTTTGGACCT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 10 0.27
30 18 0.49
31 9 0.24
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.42
Consensus pattern (30 bp):
AATTTGGTACTCAAACTTGACACTCTTTTT
Found at i:6443127 original size:25 final size:24
Alignment explanation
Indices: 6443089--6443178 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 24
6443079 AAATTGGGTA
*
6443089 AAAAAAGTTTAAGTACCAAATTAAG
1 AAAAAA-TTCAAGTACCAAATTAAG
*
6443114 AAAAAATGTCAAGTACTAAATTAAG
1 AAAAAAT-TCAAGTACCAAATTAAG
* *
6443139 TAAAAAAAATTTAAATACCAAATTAA-
1 ---AAAAAATTCAAGTACCAAATTAAG
6443165 AAAAAATATCAAGT
1 AAAAAAT-TCAAGT
6443179 TTAGATACCA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
23 7 0.13
24 5 0.09
25 21 0.40
27 13 0.25
28 7 0.13
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (24 bp):
AAAAAATTCAAGTACCAAATTAAG
Found at i:6443127 original size:57 final size:55
Alignment explanation
Indices: 6443031--6443191 Score: 152
Period size: 57 Copynumber: 2.9 Consensus size: 55
6443021 AAACTGAATC
* * * * * **
6443031 TAAAAAAAATTAGGTACCAAATTAGGAAAAAAAGCCAAGTTCAATACCAAATTGGG
1 TAAAAAAATTTAAGTACCAAATTAAGAAAAAATGTCAAGTT-AATACCAAATTAAG
*
6443087 TAAAAAAAGTTTAAGTACCAAATTAAGAAAAAATGTCAAG----TACTAAATTAAG
1 TAAAAAAA-TTTAAGTACCAAATTAAGAAAAAATGTCAAGTTAATACCAAATTAAG
* *
6443139 TAAAAAAAATTTAAATACCAAATTAA-AAAAAATATCAAGTTTAGATACCAAAT
1 T-AAAAAAATTTAAGTACCAAATTAAGAAAAAATGTCAAG-TTA-ATACCAAAT
6443192 GTTATATTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
51 12 0.14
52 26 0.30
53 7 0.08
56 8 0.09
57 33 0.38
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.24
Consensus pattern (55 bp):
TAAAAAAATTTAAGTACCAAATTAAGAAAAAATGTCAAGTTAATACCAAATTAAG
Found at i:6443976 original size:25 final size:25
Alignment explanation
Indices: 6443943--6444000 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
6443933 GTAAGAAGGA
*
6443943 AACAAAAAGTTGGTTGTTGAATGTG
1 AACACAAAGTTGGTTGTTGAATGTG
*
6443968 AGCACAAAGTTGGTTGTTGAATGTG
1 AACACAAAGTTGGTTGTTGAATGTG
6443993 AACACAAA
1 AACACAAA
6444001 TTTTATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (25 bp):
AACACAAAGTTGGTTGTTGAATGTG
Found at i:6444154 original size:31 final size:31
Alignment explanation
Indices: 6444113--6444194 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
6444103 TTTTATTTAA
6444113 AAATAAATAAATTAATCTTTATATATTAAATC
1 AAAT-AATAAATTAATCTTTATATATTAAATC
* *
6444145 AAATAATAAATTAATCATTGTATATTAAATC
1 AAATAATAAATTAATCTTTATATATTAAATC
*
6444176 AAATAGTAAATTAATCTTT
1 AAATAATAAATTAATCTTT
6444195 CTATCGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 42 0.91
32 4 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (31 bp):
AAATAATAAATTAATCTTTATATATTAAATC
Found at i:6445465 original size:30 final size:32
Alignment explanation
Indices: 6445401--6445495 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
6445391 TGCCAACAAA
6445401 ATCAAATTAAAACAATATAAACAAAATCAACT
1 ATCAAATTAAAACAATATAAACAAAATCAACT
**
6445433 ATCAAATTAAAACAATAT-AATGAAAT-AACT
1 ATCAAATTAAAACAATATAAACAAAATCAACT
*
6445463 ATCAAATTAAAACAATATGAACAAAATCAACT
1 ATCAAATTAAAACAATATAAACAAAATCAACT
6445495 A
1 A
6445496 AAATAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 22 0.39
31 12 0.21
32 23 0.40
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (32 bp):
ATCAAATTAAAACAATATAAACAAAATCAACT
Found at i:6446955 original size:25 final size:24
Alignment explanation
Indices: 6446893--6446955 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
6446883 TTTCAATAAA
* *
6446893 TAAAAATATATAAAATTATTAAATAT
1 TAAAAATA-AT-AAATAATTAAAAAT
*
6446919 TAAAATAAAATAAATAATTAAAAAAT
1 TAAAA-ATAATAAATAATT-AAAAAT
6446945 TAAAAATAATA
1 TAAAAATAATA
6446956 TGAGAGGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 12 0.39
26 17 0.55
27 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATAATAAATAATTAAAAAT
Found at i:6450701 original size:888 final size:888
Alignment explanation
Indices: 6448986--6454316 Score: 10653
Period size: 888 Copynumber: 6.0 Consensus size: 888
6448976 TTACCCACAA
6448986 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6449051 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6449116 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6449181 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6449246 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
*
6449311 ACAGGCCTCAATGAATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6449376 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6449441 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6449506 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6449571 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6449636 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6449701 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6449766 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6449831 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6449874 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6449939 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6450004 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6450069 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6450134 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
6450199 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6450264 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6450329 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6450394 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6450459 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6450524 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6450589 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6450654 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6450719 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6450762 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6450827 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6450892 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6450957 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6451022 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
6451087 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6451152 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6451217 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6451282 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6451347 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6451412 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6451477 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6451542 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6451607 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6451650 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6451715 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6451780 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6451845 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6451910 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
6451975 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6452040 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6452105 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6452170 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6452235 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6452300 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6452365 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6452430 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6452495 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6452538 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6452603 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6452668 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6452733 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6452798 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
6452863 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6452928 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6452993 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6453058 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6453123 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6453188 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6453253 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6453318 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6453383 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6453426 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
1 AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
6453491 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
66 TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
6453556 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
131 TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
6453621 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
196 GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
6453686 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
261 GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
6453751 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
326 ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
6453816 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
391 TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
6453881 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
456 CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
6453946 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
521 TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
6454011 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
586 ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
6454076 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
651 GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
6454141 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
716 ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
6454206 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
781 CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
6454271 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
846 AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
6454314 AAC
1 AAC
6454317 GTGATTTGCT
Statistics
Matches: 4442, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
888 4442 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (888 bp):
AACATTATTTTGTAACTCTTCTCATAATGTTTTATTTTAAATTTCATATAACCGTTTCATGAAAT
TTTCACTATAAATAGGCCTCTATTCTTTTCATTTTACACATCACGGGAAGAAGAAACACTTTGTC
TCTCTTTCAAAATTCTCTCAAAAAAAAATAATTCCAATTTTGTTTTTGGTGATAGAGGAGACTTG
GTTAGCATTCGCCTGTTACAAAAGTTATGCTGCATTTGGTAATTGATCGTTGTTATATCCTGGGA
GATAGACGTCCAAAAATTCTTTAGCACCTAGAAGAGGGCGAATCTGTCTTAAGGAGACTATTTAT
ACAGGCCTCAATGGATTTTTATTTACAATCCATCTACAAATACTACGTAAAGTATACTTGTTATT
TATTTTTAAATTTATTATTAAATTTAAATCATATTTTTTTGTTTATACTGCCTTTTGTCTAACAG
CACCTACTTCAAAAGATTCACATAAATGTTCTCTGGCGAAGTCCTTGTTAATCCTACTTCCTCGT
TAATCCTGAGTAGGGAAAATAATTGGAGTAAGTTCATAGAACTTAGTGAGTACCAAGATAGACCA
ACAACAATACACATAATTCAACAAAACTTCTTTACTAAATAAAACACATGATTTGCCCAATGGTG
GACATTGATCGAAAGCGAACTCTAGGTAGTTCGCCCATTGGCTAAACCTAACTTTCTTGCTTTAG
ACAACATCCCTCTTGACACTTATACTTCACCCATGTAACATGCAAACAACCTTCTTCACGTTAGC
CCAACCCTTGACCATTGCATAGATTCTTTCGTTACTTTGTTATGCCCCGCCTATCTGGTTTGCAA
AAATCACTTGTCTTACCAAAGGCTACACAACCATATCTCATAT
Found at i:6459111 original size:18 final size:18
Alignment explanation
Indices: 6459088--6459123 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6459078 ACACGATAAC
6459088 GTAAGTGACTAACACGTA
1 GTAAGTGACTAACACGTA
6459106 GTAAGTGACTAACACGTA
1 GTAAGTGACTAACACGTA
6459124 ACATTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
GTAAGTGACTAACACGTA
Found at i:6465210 original size:99 final size:99
Alignment explanation
Indices: 6465017--6465199 Score: 289
Period size: 99 Copynumber: 1.8 Consensus size: 99
6465007 AAACCTATAG
* *
6465017 TAGTATATATAAACATTAAAAATATTTTAAAATGACCATATATAAAATTTTAATAACTAAAAATA
1 TAGTATATATAAACATTAAAAATA-TTTAAAATGAACATATATAAAATTTTAATAAATAAAAATA
6465082 TTAAATTAAAAATAATATAAATATATTGTTAATAC
65 TTAAATTAAAAATAATATAAATATATTGTTAATAC
* *
6465117 TAGTATGATGTAAACATTAAAAATA-TTAAGATGATAC-TATATAAAATTTTAATAAATAAAAAT
1 TAGTAT-ATATAAACATTAAAAATATTTAAAATGA-ACATATATAAAATTTTAATAAATAAAAAT
6465180 ATTAAATTAAAAATAATATA
64 ATTAAATTAAAAATAATATA
6465200 TATTTTTTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
99 53 0.69
100 7 0.09
101 17 0.22
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (99 bp):
TAGTATATATAAACATTAAAAATATTTAAAATGAACATATATAAAATTTTAATAAATAAAAATAT
TAAATTAAAAATAATATAAATATATTGTTAATAC
Found at i:6469468 original size:102 final size:101
Alignment explanation
Indices: 6469132--6469469 Score: 381
Period size: 102 Copynumber: 3.3 Consensus size: 101
6469122 TCCCGTCAAT
* * * * * * *
6469132 TTATGGCACCCGGTGCCTGGCGGATATACCGCGGTATGTGAGCCAAGCTCTAGTTGGATTATCCA
1 TTATGACACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCC-AGCTCTGGTTGGATTAACCA
*
6469197 ACAATTTGCGCCCAGCGCTAGTCGGATAAA-TCGACGG
65 ACAATTTGCGCCCAGCGCTAGTCAGATAAACT-GACGG
* * * ***
6469234 TTATGCCACCCAATTCCTAGCGGATAAATTACGATATGTGAGCCCAGCTCTGGTTGGATTAACCA
1 TTATGACACCCAGTGCCTAGCGGATAAACCGCGATATGTGAG-CCAGCTCTGGTTGGATTAACCA
** * * * *
6469299 ACGGTTTGCGCCCAGCGCTGGTTAAATAAGCTGACGG
65 ACAATTTGCGCCCAGCGCTAGTCAGATAAACTGACGG
*
6469336 TTATGGCACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCGCAGCTCTGGTTGGATTAACCA
1 TTATGACACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGC-CAGCTCTGGTTGGATTAACCA
* * * *
6469401 ACATTTTACGCCAAGTGCTAGTCAGATAAACTGACGG
65 ACAATTTGCGCCCAGCGCTAGTCAGATAAACTGACGG
* * *
6469438 TTATGACACCTAGTGCTTAACGGATAAACCGC
1 TTATGACACCCAGTGCCTAGCGGATAAACCGC
6469470 AAGAGTGAGC
Statistics
Matches: 195, Mismatches: 38, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
101 1 0.01
102 191 0.98
103 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (101 bp):
TTATGACACCCAGTGCCTAGCGGATAAACCGCGATATGTGAGCCAGCTCTGGTTGGATTAACCAA
CAATTTGCGCCCAGCGCTAGTCAGATAAACTGACGG
Found at i:6470045 original size:136 final size:136
Alignment explanation
Indices: 6469801--6470173 Score: 612
Period size: 132 Copynumber: 2.8 Consensus size: 136
6469791 TTCTTGTTCT
*
6469801 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATGTCAACAATCCAAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
* *
6469866 GATCAATATAATTCACGT-GACAAAAAGCATTTATTTATTTATTTATTTCCAGCCACCAAATATG
66 GTTCAATATAATTCACATAG-CAAAAAGCATTTATTTATTTATTTATTTCCAGCCACCAAATATG
6469930 CATATCA
130 CATATCA
* * *
6469937 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGCATTCAAGTCATTTCAACTATCCAAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
6470002 GTTCAATATAATTCACATAGCAAAAAGC----ATTTATTTATTTATTTCCAGCCACCAAATATGC
66 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTTATTTATTTCCAGCCACCAAATATGC
*
6470063 ATATTA
131 ATATCA
*
6470069 ATATATATAAAAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
1 ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
* *
6470134 ATTCAATATAATTAACATAGCAAAAAGCATTTATTTATTT
66 GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTT
6470174 TTGTTAATGG
Statistics
Matches: 219, Mismatches: 13, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
132 125 0.57
136 93 0.42
137 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (136 bp):
ATATATATAACAATTCAAATCTTTCATTAATCCTTTGTATTCAACTCATTTCAACAATCCAAAAT
GTTCAATATAATTCACATAGCAAAAAGCATTTATTTATTTATTTATTTCCAGCCACCAAATATGC
ATATCA
Found at i:6484474 original size:29 final size:28
Alignment explanation
Indices: 6484420--6484482 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
6484410 AATAGCCTAT
6484420 ATTTTTATAATTTTAAAAGATTAAATCG-A
1 ATTTTTATAATTTT-AAAGATTAAAT-GTA
*
6484449 ATTTTTATCATTTT-AAGATGTAAAATGTA
1 ATTTTTATAATTTTAAAGAT-T-AAATGTA
6484478 ATTTT
1 ATTTT
6484483 ATCTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 23 0.77
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (28 bp):
ATTTTTATAATTTTAAAGATTAAATGTA
Found at i:6493601 original size:39 final size:39
Alignment explanation
Indices: 6493558--6493634 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
6493548 TTTGCTGGCG
6493558 GGCTGTTGATGATGTTACTCGGTGGTGGAGGTGTTGGTT
1 GGCTGTTGATGATGTTACTCGGTGGTGGAGGTGTTGGTT
*
6493597 GGCTGTTGATGATGTTACTTGGTGGTGGAGGTGTTGGT
1 GGCTGTTGATGATGTTACTCGGTGGTGGAGGTGTTGGT
6493635 AGGCCGTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.10, C:0.06, G:0.44, T:0.39
Consensus pattern (39 bp):
GGCTGTTGATGATGTTACTCGGTGGTGGAGGTGTTGGTT
Found at i:6493618 original size:20 final size:20
Alignment explanation
Indices: 6493558--6493618 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
6493548 TTTGCTGGCG
*
6493558 GGCTGTTGATGATGTTACTC
1 GGCTGTTGATGATGTTACTT
* * **
6493578 GG-TGGTGGA-GGTGTTGGTT
1 GGCT-GTTGATGATGTTACTT
6493597 GGCTGTTGATGATGTTACTT
1 GGCTGTTGATGATGTTACTT
6493617 GG
1 GG
6493619 TGGTGGAGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 6
0.66 0.20 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.11, C:0.08, G:0.41, T:0.39
Consensus pattern (20 bp):
GGCTGTTGATGATGTTACTT
Found at i:6494451 original size:2 final size:2
Alignment explanation
Indices: 6494446--6494471 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6494436 ATAAAAAAAA
6494446 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6494472 TTGTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6498606 original size:16 final size:16
Alignment explanation
Indices: 6498585--6498631 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6498575 ACTGAGTCAT
6498585 TTTTATACCTAAATTA
1 TTTTATACCTAAATTA
*
6498601 TTTTATACAT-AA--A
1 TTTTATACCTAAATTA
*
6498614 TTTTATAACTAAATTA
1 TTTTATACCTAAATTA
6498630 TT
1 TT
6498632 CGATAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 2 0.08
16 12 0.48
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTATACCTAAATTA
Found at i:6503644 original size:17 final size:19
Alignment explanation
Indices: 6503622--6503656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6503612 AAAATCAATA
6503622 ATAAAT-ATA-ATATAAGT
1 ATAAATAATATATATAAGT
6503639 ATAAATAATATATATAAG
1 ATAAATAATATATATAAG
6503657 GATTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAGT
Found at i:6509878 original size:59 final size:59
Alignment explanation
Indices: 6509803--6509931 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
6509793 CAGAACATTT
* * * * * * *
6509803 CCAAGTTTAAGGATTAACATGGATAAAAAACAGTTCAGGCTCTAATGTGGAAATAATTG
1 CCAAGTTCAAGAATTAACATGGACAAAAAAAAGTTCAGACTCTAATGTAGAAACAATTG
* * * * *
6509862 CCAAGTTCAAGAATTAACTTGGACAAAAAAAATTTTAGATTCTAATGTAGAAACACTTG
1 CCAAGTTCAAGAATTAACATGGACAAAAAAAAGTTCAGACTCTAATGTAGAAACAATTG
6509921 CCAAGTTCAAG
1 CCAAGTTCAAG
6509932 CCTCAAATAG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (59 bp):
CCAAGTTCAAGAATTAACATGGACAAAAAAAAGTTCAGACTCTAATGTAGAAACAATTG
Found at i:6514831 original size:16 final size:16
Alignment explanation
Indices: 6514810--6514841 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6514800 CATGATTTTT
*
6514810 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
6514826 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
6514842 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:6515336 original size:41 final size:41
Alignment explanation
Indices: 6515277--6515467 Score: 312
Period size: 41 Copynumber: 4.6 Consensus size: 41
6515267 AATCACTTGA
*
6515277 TATATTAAAGGAAAACTCATGTCTCGGGATGAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAT
*
6515318 TATATTAAAGGAAGACTCATGTCTCGGGATAAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAT
*
6515359 TATATTAAAGGAAGACTCATGAT-TCAGGATGAGCATGAGAT
1 TATATTAAAGGAAGACTCATG-TCTCGGGATGAGCATGAGAT
6515400 TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAT
* *
6515441 TATATTTAAAGGAAGACTTATGACTCG
1 TATA-TTAAAGGAAGACTCATGTCTCG
6515468 ATAGAGCATA
Statistics
Matches: 140, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
40 1 0.01
41 118 0.84
42 21 0.15
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAT
Found at i:6515492 original size:82 final size:81
Alignment explanation
Indices: 6515277--6515496 Score: 282
Period size: 82 Copynumber: 2.7 Consensus size: 81
6515267 AATCACTTGA
* * * * *
6515277 TATATTAAAGGAAAACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGTCT
1 TATATTAAAGGAAGACTCATGACTC-AGATGAGCATAAAATTATATTAAAGGAAGACTCATGTCT
6515342 CGGGATAAGCATGAGAT
65 CGGGATAAGCATGAGAT
* * *
6515359 TATATTAAAGGAAGACTCATGATTCAGGATGAGCATGAGATTATATTAAAGGAAGACTCATGTCT
1 TATATTAAAGGAAGACTCATGACTCA-GATGAGCATAAAATTATATTAAAGGAAGACTCATGTCT
*
6515424 CGGGATGAGCATGAGAT
65 CGGGATAAGCATGAGAT
* *
6515441 TATATTTAAAGGAAGACTTATGACTC-GATAGAGCATAAAATTGT-TTAAAAGGAAGA
1 TATA-TTAAAGGAAGACTCATGACTCAGAT-GAGCATAAAATTATATT-AAAGGAAGA
6515497 TCTACGACTC
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
81 5 0.04
82 100 0.81
83 19 0.15
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (81 bp):
TATATTAAAGGAAGACTCATGACTCAGATGAGCATAAAATTATATTAAAGGAAGACTCATGTCTC
GGGATAAGCATGAGAT
Found at i:6518727 original size:82 final size:82
Alignment explanation
Indices: 6518590--6518918 Score: 385
Period size: 82 Copynumber: 4.0 Consensus size: 82
6518580 AAATTAAAAT
**
6518590 TGAATAAATCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTTATTCTATTTTGATTTAGTT
1 TGAATAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCTATTTTGATTTAGTT
*
6518655 TTCAAACAAGAATTAAG
66 TCCAAACAAGAATTAAG
* * * *
6518672 TGAATAAATCTATTTCGGGATTTATTCCCACCATTCAACATATTTTATTCTATTTTGATTTTGTT
1 TGAATAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCTATTTTGATTTAGTT
6518737 TCCAAAACAAG-A-TAAG
66 TCC-AAACAAGAATTAAG
** * *
6518753 TTGAATAAATCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTCTATTTTGTTTTAGT
1 -TGAATAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCTATTTTGATTTAGT
*
6518818 TTCCAAACAAGAATTCAAAT
65 TTCCAAACAAGAATT--AAG
* * * * * * * *
6518838 TAAATAATTTTGTTTCGGTATTTATTCTCACCGTTCAACAGATATTATT-TGATTTTGTTTTTGT
1 TGAATAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCT-ATTTTGATTTAGT
* **
6518902 TTCTAATTAAGAATTAA
65 TTCCAAACAAGAATTAA
6518919 TTAAATTATG
Statistics
Matches: 211, Mismatches: 29, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
81 11 0.05
82 125 0.59
83 9 0.04
84 64 0.30
85 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (82 bp):
TGAATAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCTATTTTGATTTAGTT
TCCAAACAAGAATTAAG
Found at i:6518977 original size:164 final size:163
Alignment explanation
Indices: 6518589--6518956 Score: 431
Period size: 164 Copynumber: 2.3 Consensus size: 163
6518579 AAAATTAAAA
* * *
6518589 TTGAATAAATCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTTATTCTATTTTGATTTAGT
1 TTGAATAAATATGTTTCAGGATTTATTCCTGCCGTTCAACAGATTTTATTCTATTTTGTTTTAGT
* * * *
6518654 TTTCAAACAAGAATTAAGTGAATAAATCTATTTCGGGATTTATTCCCACCATTCAACATATTTTA
66 TTCCAAACAAGAATTAAGTAAATAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATATTA
6518719 TTCTATTTTGATTTTGTTTCCAAAACAAGATAAG
131 TTCTATTTTGATTTTGTTTCCAAAACAAGA-AAG
* * *
6518753 TTGAATAAATCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTCTATTTTGTTTTAGT
1 TTGAATAAATATGTTTCAGGATTTATTCCTGCCGTTCAACAGATTTTATTCTATTTTGTTTTAGT
* * * * * * *
6518818 TTCCAAACAAGAATTCAAATTAAATAATTTTGTTTCGGTATTTATTCTCACCGTTCAACAGATAT
66 TTCCAAACAAGAATT--AAGTAAATAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATAT
* * **
6518883 TATT-TGATTTTGTTTTTGTTT-CTAATTAAG-AA-
129 TATTCT-ATTTTGATTTTGTTTCCAAAACAAGAAAG
* * *
6518915 TT-AATTAAATTATGTTTTAGGATTTAATCATGCCGTTCAACA
1 TTGAA-TAAA-TATGTTTCAGGATTTATTCCTGCCGTTCAACA
6518957 TAATTGATTT
Statistics
Matches: 176, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
161 2 0.01
162 6 0.03
163 28 0.16
164 77 0.44
165 7 0.04
166 56 0.32
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (163 bp):
TTGAATAAATATGTTTCAGGATTTATTCCTGCCGTTCAACAGATTTTATTCTATTTTGTTTTAGT
TTCCAAACAAGAATTAAGTAAATAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATATTA
TTCTATTTTGATTTTGTTTCCAAAACAAGAAAG
Found at i:6526458 original size:51 final size:51
Alignment explanation
Indices: 6526356--6526459 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
6526346 AGATTTGATG
* * ** *
6526356 TTTTAAATAAATATAAATATTTATTTAATTCCTTTTGTTTAAATATGATAT
1 TTTTAAATAAACATAAATATTTATTTAATTCATTTTACTGAAATATGATAT
* * *
6526407 TTTTACATAAACATAAATATTTATTTATATT-ATTTTACTGAGATATTATAT
1 TTTTAAATAAACATAAATATTTATTTA-ATTCATTTTACTGAAATATGATAT
6526458 TT
1 TT
6526460 AATACAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (51 bp):
TTTTAAATAAACATAAATATTTATTTAATTCATTTTACTGAAATATGATAT
Found at i:6526762 original size:83 final size:82
Alignment explanation
Indices: 6526605--6526852 Score: 266
Period size: 83 Copynumber: 3.0 Consensus size: 82
6526595 AAAATTAAAA
* * * *** * *
6526605 TTGAATAAATCTGTTTTGGGATTTATTCCCGCCTTTCAATTTATTTTTACTCTATTTTGATTTAG
1 TTGAATAAATCTATTTCGGGATTTATTCCCGCCGTT-AAACAAATTTTAATCTATTTTGATTTAG
6526670 TTTCTAAACAAGAATTAAG
65 TTTC-AAACAAGAATTAAG
* * * *
6526689 -TGAATAAATCTATTTCGGGATTTATTCCTGCCGTTAAACAAATTTTATTTTATTTTGATTTTGT
1 TTGAATAAATCTATTTCGGGATTTATTCCCGCCGTTAAACAAATTTTAATCTATTTTGATTTAGT
*
6526753 TTCCAAAACAAGTA-TAAG
66 TT-C-AAACAAGAATTAAG
** * * *
6526771 TTGAATAAATCTATTTCAAGATTTATTCCCGTCGTTCAACATATTTTAATCTATTTTGATTTAGT
1 TTGAATAAATCTATTTCGGGATTTATTCCCGCCGTTAAACAAATTTTAATCTATTTTGATTTAG-
*
6526836 TTTCAAATAAGAATTAA
65 TTTCAAACAAGAATTAA
6526853 AATTAAAAAT
Statistics
Matches: 136, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
82 35 0.26
83 98 0.72
84 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (82 bp):
TTGAATAAATCTATTTCGGGATTTATTCCCGCCGTTAAACAAATTTTAATCTATTTTGATTTAGT
TTCAAACAAGAATTAAG
Found at i:6526886 original size:166 final size:166
Alignment explanation
Indices: 6526605--6526911 Score: 377
Period size: 166 Copynumber: 1.8 Consensus size: 166
6526595 AAAATTAAAA
* *** * ** *
6526605 TTGAATAAATCTGTTTTGGGATTTATTCCCGCCTTTCAATTTATTTTTACTCTATTTTGATTTAG
1 TTGAATAAATCTATTTCAAGATTTATTCCCGCCGTTCAACATATTTTTAATCTATTTTGATTTAG
* * * * *
6526670 TTTCTAAACAAGAATTAAGTGAATAAATCTATTTCGGGATTTATTCCTGCCGTTAAACAAATTTT
66 TTTCTAAACAAGAATTAAATGAATAAATCTATTTCGAGATTCAGTCCTGCCATTAAACAAATTTT
6526735 ATTTTATTTTGATTTTGTTTCCAAAACAAGTATAAG
131 ATTTTATTTTGATTTTGTTTCCAAAACAAGTATAAG
*
6526771 TTGAATAAATCTATTTCAAGATTTATTCCCGTCGTTCAACATA-TTTTAATCTATTTTGATTTAG
1 TTGAATAAATCTATTTCAAGATTTATTCCCGCCGTTCAACATATTTTTAATCTATTTTGATTTAG
* * * * * *
6526835 TTT-TCAAATAAGAATTAAAATTAA-AAATTCTATTTTGATATTCAGTCCTGCCATTCAACAGAT
66 TTTCT-AAACAAGAATT-AAATGAATAAA-TCTATTTCGAGATTCAGTCCTGCCATTAAACAAAT
*
6526898 TTTTTTTTATTTTG
128 TTTATTTTATTTTG
6526912 TTTCCAATTT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
164 1 0.01
165 36 0.31
166 80 0.68
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (166 bp):
TTGAATAAATCTATTTCAAGATTTATTCCCGCCGTTCAACATATTTTTAATCTATTTTGATTTAG
TTTCTAAACAAGAATTAAATGAATAAATCTATTTCGAGATTCAGTCCTGCCATTAAACAAATTTT
ATTTTATTTTGATTTTGTTTCCAAAACAAGTATAAG
Found at i:6532558 original size:24 final size:24
Alignment explanation
Indices: 6532531--6532689 Score: 120
Period size: 24 Copynumber: 6.5 Consensus size: 24
6532521 TGCGTTTACA
* *
6532531 CTCGTCAGCTTGCATACGTTTATG
1 CTCGTCAGCTTGCACACATTTATG
** * *
6532555 CTCGTCAGCTTATATATGCATTTATT
1 CTCGTCAGCTTGCACA--CATTTATG
* * *
6532581 CTCGCCAGCTTGCACACGTTTACG
1 CTCGTCAGCTTGCACACATTTATG
* **
6532605 CTCGTCATCTTGCACATGTTTATG
1 CTCGTCAGCTTGCACACATTTATG
* ** **
6532629 CTTGTCAGCTTATATGTGCATTTATG
1 CTCGTCAGCTTGCA--CACATTTATG
*
6532655 CTCGTCAGCTTGCACACATTTACG
1 CTCGTCAGCTTGCACACATTTATG
6532679 CTCGTCAGCTT
1 CTCGTCAGCTT
6532690 ATATGTGTTT
Statistics
Matches: 102, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
24 67 0.66
26 35 0.34
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (24 bp):
CTCGTCAGCTTGCACACATTTATG
Found at i:6532591 original size:50 final size:50
Alignment explanation
Indices: 6532494--6532611 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
6532484 GCTTATATGG
* * *
6532494 GTTTACGCTCGTCAGCTTATATATATATGCGTTTACACTCGTCAGCTTGCATAC
1 GTTTACGCTCGTCAGC---T-TATATATGCATTTACACTCGCCAGCTTGCACAC
* **
6532548 GTTTATGCTCGTCAGCTTATATATGCATTTATTCTCGCCAGCTTGCACAC
1 GTTTACGCTCGTCAGCTTATATATGCATTTACACTCGCCAGCTTGCACAC
6532598 GTTTACGCTCGTCA
1 GTTTACGCTCGTCA
6532612 TCTTGCACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 41 0.72
51 1 0.02
54 15 0.26
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (50 bp):
GTTTACGCTCGTCAGCTTATATATGCATTTACACTCGCCAGCTTGCACAC
Found at i:6532617 original size:74 final size:74
Alignment explanation
Indices: 6532523--6532689 Score: 253
Period size: 74 Copynumber: 2.3 Consensus size: 74
6532513 TATATATATG
* * *
6532523 CGTTTACACTCGTCAGCTTGCATACGTTTATGCTCGTCAGCTTATATATGCATTTATTCTCGCCA
1 CGTTTACGCTCGTCAGCTTGCACACGTTTATGCTCGTCAGCTTATATATGCATTTATGCTCGCCA
6532588 GCTTGCACA
66 GCTTGCACA
* * * * *
6532597 CGTTTACGCTCGTCATCTTGCACATGTTTATGCTTGTCAGCTTATATGTGCATTTATGCTCGTCA
1 CGTTTACGCTCGTCAGCTTGCACACGTTTATGCTCGTCAGCTTATATATGCATTTATGCTCGCCA
6532662 GCTTGCACA
66 GCTTGCACA
*
6532671 CATTTACGCTCGTCAGCTT
1 CGTTTACGCTCGTCAGCTT
6532690 ATATGTGTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 83 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (74 bp):
CGTTTACGCTCGTCAGCTTGCACACGTTTATGCTCGTCAGCTTATATATGCATTTATGCTCGCCA
GCTTGCACA
Found at i:6532658 original size:50 final size:50
Alignment explanation
Indices: 6532599--6532696 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
6532589 CTTGCACACG
* ** * *
6532599 TTTACGCTCGTCATCTTGCACATGTTTATGCTTGTCAGCTTATATGTGCA
1 TTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATGTGCA
*
6532649 TTTATGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATGTG
1 TTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATGTG
6532697 TTTCCTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (50 bp):
TTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATGTGCA
Found at i:6533080 original size:51 final size:51
Alignment explanation
Indices: 6533024--6533141 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
6533014 TTTCAGCTTG
*
6533024 TTTAATTAATTTGTTTTCAAATCTGATAT-TTTAAATAAATATAAATATTTA
1 TTTAATTAATTTGTTTT-AAATCTGATATCTTTAAATAAACATAAATATTTA
** * *
6533075 TTTAATTCGTTT-TGTTTAAATCTGATGTCTTTACATAAACATAAATATTTA
1 TTTAATTAATTTGT-TTTAAATCTGATATCTTTAAATAAACATAAATATTTA
*
6533126 TTTATATTATTTTGTT
1 TTTA-ATTAATTTGTT
6533142 GAGATCTTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 11 0.20
51 37 0.66
52 7 0.12
53 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (51 bp):
TTTAATTAATTTGTTTTAAATCTGATATCTTTAAATAAACATAAATATTTA
Found at i:6535522 original size:20 final size:21
Alignment explanation
Indices: 6535488--6535538 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
6535478 ACAAACAATA
*
6535488 TAAAAAGATAAAAATT-CATT-
1 TAAAAA-ATATAAATTACATTG
6535508 TAAAATAATATAAATTACATTG
1 TAAAA-AATATAAATTACATTG
6535530 TAAAAAATA
1 TAAAAAATA
6535539 ATATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.48
21 9 0.33
22 5 0.19
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAAAAATATAAATTACATTG
Found at i:6536851 original size:62 final size:62
Alignment explanation
Indices: 6536745--6536866 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 62
6536735 CGACTTAGCA
* * * *
6536745 AGGAATTTCTTAAAGTTGGCCCCGTATTCCTTGAGGGTGGCCAAGAATTTCATGAAGTTGGT
1 AGGAATTTCTTAAAGTTGGCCCAGAATTCCTTCAAGGTGGCCAAGAATTTCATGAAGTTGGT
* * * *
6536807 AGGAATTTCTTGAAGTTGG-CCAGAAATTCCTTCAAGTTGTCCAAGAATTTCTTGAAGTTG
1 AGGAATTTCTTAAAGTTGGCCCAG-AATTCCTTCAAGGTGGCCAAGAATTTCATGAAGTTG
6536867 ACCAAGTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 3 0.06
62 48 0.94
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (62 bp):
AGGAATTTCTTAAAGTTGGCCCAGAATTCCTTCAAGGTGGCCAAGAATTTCATGAAGTTGGT
Found at i:6536855 original size:21 final size:21
Alignment explanation
Indices: 6536809--6536877 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
6536799 AAGTTGGTAG
* *
6536809 GAATTTCTTGAAGTTGGCC-A
1 GAATTCCTTGAAGTTGACCAA
* *
6536829 GAAATTCCTTCAAGTTGTCCAA
1 G-AATTCCTTGAAGTTGACCAA
*
6536851 GAATTTCTTGAAGTTGACCAA
1 GAATTCCTTGAAGTTGACCAA
*
6536872 GTATTC
1 GAATTC
6536878 AAGAAGATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (21 bp):
GAATTCCTTGAAGTTGACCAA
Found at i:6537167 original size:18 final size:19
Alignment explanation
Indices: 6537123--6537171 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
6537113 AAATGTTAAG
6537123 AAATAAT-TATTATCGAAA
1 AAATAATATATTATCGAAA
* *
6537141 AATTAA-ATATTTATTGAAA
1 AAATAATATA-TTATCGAAA
6537160 AAATAATA-ATTA
1 AAATAATATATTA
6537172 CAAATTGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (19 bp):
AAATAATATATTATCGAAA
Found at i:6537371 original size:2 final size:2
Alignment explanation
Indices: 6537358--6537394 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6537348 CAGTACTATA
* *
6537358 TG TG TA TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6537395 CTTTTCTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.43, T:0.54
Consensus pattern (2 bp):
TG
Found at i:6540321 original size:3 final size:3
Alignment explanation
Indices: 6540315--6540340 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6540305 ATTATTATTA
6540315 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6540341 ATTAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6540644 original size:6 final size:6
Alignment explanation
Indices: 6540637--6540676 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
6540627 AACTACAATT
* *
6540637 AAAATT AAAATG AAAATG AAAATG AAAATG AAAATT AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
6540677 ATTTATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (6 bp):
AAAATG
Found at i:6540658 original size:18 final size:18
Alignment explanation
Indices: 6540633--6540676 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6540623 AATGAACTAC
*
6540633 AATTAAAATTAAAATGAA
1 AATTAAAATGAAAATGAA
*
6540651 AATGAAAATGAAAATGAA
1 AATTAAAATGAAAATGAA
6540669 AATTAAAA
1 AATTAAAA
6540677 ATTTATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
AATTAAAATGAAAATGAA
Found at i:6541069 original size:21 final size:21
Alignment explanation
Indices: 6541020--6541061 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6541010 AATGTTTTTA
* *
6541020 AAAATTTTAATAAACTTAAAT
1 AAAATTTTAACAAACATAAAT
6541041 AAAATTTTAACAAACATAAAT
1 AAAATTTTAACAAACATAAAT
6541062 TCAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTTTAACAAACATAAAT
Found at i:6541129 original size:27 final size:28
Alignment explanation
Indices: 6541071--6541130 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
6541061 TTCAATTTTT
* *
6541071 AAATTAAAAACATTTTAAATGATTTTTT
1 AAATTAAAAACATTTTAAATGATATTTC
** *
6541099 AAATTAAAAA-ATTTTAGTTTATATTTC
1 AAATTAAAAACATTTTAAATGATATTTC
6541126 AAATT
1 AAATT
6541131 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
AAATTAAAAACATTTTAAATGATATTTC
Found at i:6542390 original size:19 final size:20
Alignment explanation
Indices: 6542336--6542393 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
6542326 ATAGGGTAAG
* *
6542336 ATATATTTTTAAAATTTTTAA
1 ATATATTTTT-ATATTTTCAA
* *
6542357 ATATTTTTTTCTATTTTCAA
1 ATATATTTTTATATTTTCAA
6542377 A-ATATTTTTATATTTTC
1 ATATATTTTTATATTTTC
6542394 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 14 0.45
20 8 0.26
21 9 0.29
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATTTTTATATTTTCAA
Found at i:6542403 original size:19 final size:19
Alignment explanation
Indices: 6542349--6542404 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
6542339 TATTTTTAAA
* *
6542349 ATTTTTAAATATTTTTTTCT
1 ATTTTCAAA-ATTTTTTTAT
*
6542369 ATTTTCAAAATATTTTTAT
1 ATTTTCAAAATTTTTTTAT
*
6542388 ATTTTC-GAATTTTTTTA
1 ATTTTCAAAATTTTTTTA
6542405 AAATTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 9 0.29
19 14 0.45
20 8 0.26
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTCAAAATTTTTTTAT
Found at i:6542459 original size:77 final size:79
Alignment explanation
Indices: 6542368--6542579 Score: 212
Period size: 87 Copynumber: 2.6 Consensus size: 79
6542358 TATTTTTTTC
* *
6542368 TATTTTCAAAATA-TTTTTATATTTTCGAATTTTTTTAAAATTATATTTTCGAAAT-ATTTTATT
1 TATTTTCAAAATATTTTTTACATTTTCGAATTTTTTTAAAATTATATCTTCGAAATAATTTTATT
6542431 ACATATATTTTATA
66 ACATATATTTTATA
* *
6542445 TATTTTCAAAATATTTTTTTAGATTGTCGAATTTTTTTAAAATATTTTTTATATCTTCGAAATAA
1 TATTTTCAAAATA-TTTTTTACATTTTCGAATTTTTTT-AAA-A----TTATATCTTCGAAAT-A
* * *
6542510 ATTTTTTTAGATATATTTTTTA
58 ATTTTATTACATATATTTTATA
* * *
6542532 TATTTTCGAAATAACTTTTTACATTTTTGAAATATTTTTTACAAATTA
1 TATTTTCAAAAT-ATTTTTTACATTTTCG-AAT-TTTTTTA-AAATTA
6542580 AAAATCTTAT
Statistics
Matches: 110, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
77 13 0.12
79 21 0.19
80 3 0.03
81 1 0.01
84 3 0.03
85 14 0.13
87 41 0.37
88 6 0.05
89 8 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (79 bp):
TATTTTCAAAATATTTTTTACATTTTCGAATTTTTTTAAAATTATATCTTCGAAATAATTTTATT
ACATATATTTTATA
Found at i:6542529 original size:35 final size:35
Alignment explanation
Indices: 6542474--6542551 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 35
6542464 TAGATTGTCG
6542474 AATTTTTTTAAAATATTTTTTATATCTTCGAAATA
1 AATTTTTTTAAAATATTTTTTATATCTTCGAAATA
* *
6542509 AATTTTTTTAGATATATTTTTTATATTTTCGAAATA
1 AATTTTTTTA-AAATATTTTTTATATCTTCGAAATA
*
6542545 ACTTTTT
1 AATTTTT
6542552 ACATTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 10 0.26
36 29 0.74
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (35 bp):
AATTTTTTTAAAATATTTTTTATATCTTCGAAATA
Found at i:6542572 original size:20 final size:20
Alignment explanation
Indices: 6542522--6542638 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 20
6542512 TTTTTTAGAT
*
6542522 ATATTTTTTATATTTTCGAA
1 ATATTTTTTACATTTTCGAA
* *
6542542 ATAACTTTTTACATTTTTGAA
1 AT-ATTTTTTACATTTTCGAA
* ***
6542563 ATATTTTTTACAAATTAAAAA
1 ATATTTTTTAC-ATTTTCGAA
* *
6542584 TCTTATATTTTTTATATTTTCAAA
1 ----ATATTTTTTACATTTTCGAA
6542608 ATATTTGTTTACATTTTCGAA
1 ATATTT-TTTACATTTTCGAA
6542629 ATATGTTTTT
1 ATAT-TTTTT
6542639 TACAAATAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
20 16 0.21
21 41 0.55
22 2 0.03
24 6 0.08
25 10 0.13
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (20 bp):
ATATTTTTTACATTTTCGAA
Found at i:6542650 original size:66 final size:66
Alignment explanation
Indices: 6542521--6542649 Score: 190
Period size: 66 Copynumber: 1.9 Consensus size: 66
6542511 TTTTTTTAGA
* *
6542521 TATATTTTTTATATTTTCGAAATAACTTTTTACATTTTTGAAATATTTTTTACAAATTAAAAATC
1 TATATTTTTTATATTTTCAAAATAACTTTTTACATTTTCGAAATATTTTTTACAAATTAAAAATC
6542586 T
66 T
*
6542587 TATATTTTTTATATTTTCAAAAT-ATTTGTTTACATTTTCGAAATATGTTTTTTACAAA-TAAAA
1 TATATTTTTTATATTTTCAAAATAACTT-TTTACATTTTCGAAATA--TTTTTTACAAATTAAAA
6542650 TATTTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
65 3 0.05
66 38 0.67
67 5 0.09
68 11 0.19
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (66 bp):
TATATTTTTTATATTTTCAAAATAACTTTTTACATTTTCGAAATATTTTTTACAAATTAAAAATC
T
Found at i:6543604 original size:30 final size:30
Alignment explanation
Indices: 6543570--6543631 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
6543560 TTTGATTTAT
* *
6543570 TTTCGTTTATTTTTTAAATTTAATTTGTAA
1 TTTCGATTATATTTTAAATTTAATTTGTAA
6543600 TTTCGATTATATTTTAAATTTAATTTGTAA
1 TTTCGATTATATTTTAAATTTAATTTGTAA
6543630 TT
1 TT
6543632 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTCGATTATATTTTAAATTTAATTTGTAA
Found at i:6543878 original size:18 final size:17
Alignment explanation
Indices: 6543853--6543894 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6543843 GAACAACAAT
6543853 AATACAAAATA-AATTAA
1 AATACAAAATATAA-TAA
6543870 AATTAC-AAATATAATAA
1 AA-TACAAAATATAATAA
6543887 AATACAAA
1 AATACAAA
6543895 CATAGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.14
17 14 0.64
18 5 0.23
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AATACAAAATATAATAA
Found at i:6544691 original size:57 final size:56
Alignment explanation
Indices: 6544580--6544709 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 56
6544570 TTGTATCTGA
* *
6544580 CTTGGCAAACACCCAAAAAATATTATTTTTTTGTATCTGATAAAGGAGGTACCATGG
1 CTTGACAAACACCC-AAAAATATTATTTTTTTGTATCTGAAAAAGGAGGTACCATGG
* *
6544637 CTTGACAGACACCCAAAAA-A-TATTTTTTT-TATCTGAAAAAAGGTGTGTCGACCATGG
1 CTTGACAAACACCCAAAAATATTATTTTTTTGTATCTG-AAAAAGGAG-GT--ACCATGG
*
6544694 CTTGTCAAACACCCAA
1 CTTGACAAACACCCAA
6544710 TTTTTTTTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
53 6 0.10
54 16 0.25
55 3 0.05
56 5 0.08
57 33 0.52
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (56 bp):
CTTGACAAACACCCAAAAATATTATTTTTTTGTATCTGAAAAAGGAGGTACCATGG
Found at i:6551299 original size:20 final size:18
Alignment explanation
Indices: 6551271--6551379 Score: 79
Period size: 20 Copynumber: 6.1 Consensus size: 18
6551261 CCACATCAGT
*
6551271 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
6551291 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
*
6551311 AAATTAATTT-AAA-AT-
1 AAATTATTTTAAAATATA
*
6551326 -GATT-TTTTAAAATATA
1 AAATTATTTTAAAATATA
6551342 AAATTA--TTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
6551360 AAATTATTTTAAAATTATA
1 AAATTATTTTAAAA-TATA
6551379 A
1 A
6551380 TCATCATCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
13 3 0.04
14 6 0.08
15 2 0.03
16 8 0.11
17 8 0.11
18 11 0.15
19 3 0.04
20 22 0.30
21 2 0.03
22 8 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:6551323 original size:18 final size:17
Alignment explanation
Indices: 6551300--6551379 Score: 64
Period size: 18 Copynumber: 4.7 Consensus size: 17
6551290 AAAATTATTT
6551300 TTTAAAATATAAAATTAA
1 TTTAAAATATAAAATT-A
6551318 TTTAAAATGAT----TT-
1 TTTAAAAT-ATAAAATTA
6551331 TTTAAAATATAAAATTA
1 TTTAAAATATAAAATTA
6551348 -TTAAAATTATTAAAATTA
1 TTTAAAA-TA-TAAAATTA
6551366 TTTTAAAATTATAA
1 -TTTAAAA-TATAA
6551380 TCATCATCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 19
0.73 0.00 0.27
Matches are distributed among these distances:
12 2 0.04
13 8 0.15
15 2 0.04
16 8 0.15
17 2 0.04
18 16 0.31
19 5 0.10
20 9 0.17
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAAAATATAAAATTA
Done.