Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 44 of 120
Found at i:11791669 original size:56 final size:56
Alignment explanation
Indices: 11791478--11791669 Score: 199
Period size: 56 Copynumber: 3.4 Consensus size: 56
11791468 CTTTGCAGAA
* * * * * *
11791478 TCTTGTTTGAAAGATACTCCATGTGAAATCCTACTTGAAAGATAATCCATGC-AGAC
1 TCTTGCTTGAAAGGTAGTCCATGCGAAATCTTACTTGAAAGATAGTCCATGCGA-AC
* ** * * * **
11791534 TATTGCTTGAAAGGTAGTTTATGC-AGACTCTTAATTGAAGGATAGTCCATGCGGTC
1 TCTTGCTTGAAAGGTAGTCCATGCGA-AATCTTACTTGAAAGATAGTCCATGCGAAC
*
11791590 TCTTGCTTGAAAGGTAATCCATGCGAAATCTTACTTGAAAGATAGTCCATGCGAAC
1 TCTTGCTTGAAAGGTAGTCCATGCGAAATCTTACTTGAAAGATAGTCCATGCGAAC
* *
11791646 TCTTCCTTGAAAAGTAGTCCATGC
1 TCTTGCTTGAAAGGTAGTCCATGC
11791670 AGACTTTTAC
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
55 1 0.01
56 105 0.98
57 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (56 bp):
TCTTGCTTGAAAGGTAGTCCATGCGAAATCTTACTTGAAAGATAGTCCATGCGAAC
Found at i:11794795 original size:28 final size:28
Alignment explanation
Indices: 11794763--11794864 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
11794753 TTTAATAAGT
* *
11794763 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTAACAATTAAAC
* *
11794791 TCGCACACTTAGTGCTTGACCATTAAAC
1 TCGCACACTTAGTGCTTAACAATTAAAC
*
11794819 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATTAAAC
11794847 TCGCACACTTAGTG-TTAA
1 TCGCACACTTAGTGCTTAA
11794865 TCTCATCATC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
27 3 0.04
28 64 0.96
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATTAAAC
Found at i:11797142 original size:26 final size:26
Alignment explanation
Indices: 11797095--11797162 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
11797085 TTTAATATAG
* *
11797095 TAAAATCTAAAAA-AAATTATAACAA
1 TAAAATCTAAAAAGAACTCATAACAA
11797120 TAAAATCTAAAAAGAACTCATAACAA
1 TAAAATCTAAAAAGAACTCATAACAA
* *
11797146 CAAAATCTAATAAGAAC
1 TAAAATCTAAAAAGAAC
11797163 ACAATTACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 13 0.34
26 25 0.66
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (26 bp):
TAAAATCTAAAAAGAACTCATAACAA
Found at i:11810529 original size:93 final size:90
Alignment explanation
Indices: 11810357--11810735 Score: 291
Period size: 93 Copynumber: 4.1 Consensus size: 90
11810347 TAACAAATAG
* * * *
11810357 TATCCACTGAGGGGTGTCTACTTTAAAATTATTGAAATTTGGCTAAGTCCCTTAAG-AGACT-A-
1 TATCCACTAAGGGG-GT-TTCTTTAAAATTACTGAAATTTGGCTAAGTGCCTTAAGAAG-CTAAC
* * **
11810419 GTTGTGTTTATTTTATTAACTTAGCGGGCAA
63 ATT-T-TTT-TTCTATTAACTTAGCAAGCAA
* * * *
11810450 TGTCCACTAAGGGGCGTTTGTTTTAAAATTATTGAAATTTGGCTAAGTGCCTTAATAAGCTAACA
1 TATCCACTAAGGGG-GTTT-CTTTAAAATTACTGAAATTTGGCTAAGTGCCTTAAGAAGCTAACA
*
11810515 TTTTTTTTGCTATTAACTTAACAAGCAA
64 TTTTTTTT-CTATTAACTTAGCAAGCAA
* * * *
11810543 TATCCACTGAA-GGGGTTCTACTTTAACATTACTGAAATTTGGCTAAGTGCTTTAGGAGGCTAGT
1 TATCCACT-AAGGGGGTT-T-CTTTAAAATTACTGAAATTTGGCTAAGTGCCTTAAGAAGC---T
* * * *
11810607 AACGTTTTTCTTCTATTAACTTAGCAAGTAG
60 AACATTTTTTTTCTATTAACTTAGCAAGCAA
* * * *
11810638 TATCCACTTAGGGGTGTCTTCTTTAAAATTACT-AAATTTGGCTAAGTACCTTAAGAGGCTAATA
1 TATCCACTAAGGGG-GT-TTCTTTAAAATTACTGAAATTTGGCTAAGTGCCTTAAGAAGCTAACA
* * * *
11810702 GTATTTCTACTATTAACTTAGCGAGCAA
64 -TTTTTTTTCTATTAACTTAGCAAGCAA
*
11810730 TTTCCA
1 TATCCA
11810736 TTAAAAGGTG
Statistics
Matches: 233, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
91 3 0.01
92 33 0.14
93 111 0.48
94 30 0.13
95 41 0.18
96 14 0.06
97 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (90 bp):
TATCCACTAAGGGGGTTTCTTTAAAATTACTGAAATTTGGCTAAGTGCCTTAAGAAGCTAACATT
TTTTTTCTATTAACTTAGCAAGCAA
Found at i:11813841 original size:13 final size:13
Alignment explanation
Indices: 11813823--11813853 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11813813 TCAACTATTT
11813823 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
*
11813836 TTCTTTTCTTTTC
1 TTCTTTTCTCTTC
11813849 TTCTT
1 TTCTT
11813854 ATTTTTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTTCTCTTC
Found at i:11813873 original size:30 final size:28
Alignment explanation
Indices: 11813834--11813891 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
11813824 TCTTTTCTCT
* *
11813834 TCTTCTTTTCTTTTCTTCTTATTTTTAGAA
1 TCTTATTTTCTTTTATTC-TA-TTTTAGAA
11813864 TCTTATTTTCTTTTATTCTATTTTAGAA
1 TCTTATTTTCTTTTATTCTATTTTAGAA
11813892 AAGATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 16 0.62
ACGTcount: A:0.17, C:0.14, G:0.03, T:0.66
Consensus pattern (28 bp):
TCTTATTTTCTTTTATTCTATTTTAGAA
Found at i:11815239 original size:2 final size:2
Alignment explanation
Indices: 11815232--11815257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11815222 GAAGGGAATA
11815232 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
11815258 TCACTCTTTT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11816167 original size:2 final size:2
Alignment explanation
Indices: 11816160--11816226 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
11816150 GTCTAAAGTT
11816160 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11816202 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
11816227 ACATTATAAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11823712 original size:23 final size:22
Alignment explanation
Indices: 11823686--11823734 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
11823676 AGTTAAACTG
*
11823686 CCAATATAAGTGCAGACAATCCA
1 CCAATAT-AGTGCAGACAAGCCA
*
11823709 CC-A-ATAGTGTAGACAAGCCA
1 CCAATATAGTGCAGACAAGCCA
11823729 CCAATA
1 CCAATA
11823735 ACGATAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
20 15 0.68
21 3 0.14
22 2 0.09
23 2 0.09
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (22 bp):
CCAATATAGTGCAGACAAGCCA
Found at i:11823722 original size:20 final size:20
Alignment explanation
Indices: 11823694--11823734 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11823684 TGCCAATATA
*
11823694 AGTGCAGACAATCCACCAAT
1 AGTGCAGACAAGCCACCAAT
*
11823714 AGTGTAGACAAGCCACCAAT
1 AGTGCAGACAAGCCACCAAT
11823734 A
1 A
11823735 ACGATAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.17, T:0.15
Consensus pattern (20 bp):
AGTGCAGACAAGCCACCAAT
Found at i:11827760 original size:19 final size:19
Alignment explanation
Indices: 11827736--11827774 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11827726 TCAGTGGTCA
11827736 AAGAAACATATTTTTTCTT
1 AAGAAACATATTTTTTCTT
11827755 AAGAAACATATTTTTTCTT
1 AAGAAACATATTTTTTCTT
11827774 A
1 A
11827775 GCATCCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (19 bp):
AAGAAACATATTTTTTCTT
Found at i:11828759 original size:6 final size:6
Alignment explanation
Indices: 11828748--11828803 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
11828738 CCTTATCTTA
* * * *
11828748 TTCATC TTCATC TTCACC TTGAGC TCCATC TTCATC TTCATC TTCATC
1 TTCATC TTCATC TTCATC TTCATC TTCATC TTCATC TTCATC TTCATC
11828796 TTCATC TT
1 TTCATC TT
11828804 GTTCCTCCGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.34, G:0.04, T:0.46
Consensus pattern (6 bp):
TTCATC
Found at i:11830925 original size:17 final size:17
Alignment explanation
Indices: 11830903--11830936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11830893 AAAATTAGAG
11830903 AATTGAGAGAATGGATA
1 AATTGAGAGAATGGATA
*
11830920 AATTGAGAGAATTGATA
1 AATTGAGAGAATGGATA
11830937 GAACTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (17 bp):
AATTGAGAGAATGGATA
Found at i:11836112 original size:26 final size:26
Alignment explanation
Indices: 11836066--11836154 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
11836056 TACACTTTTT
* *
11836066 TATATTTTT-TTACAATTATTATTATCTC
1 TATATTTTTATTA-AA-AATTAATAT-TC
*
11836094 TA-ATTTTTATTAAAAATTAATATTT
1 TATATTTTTATTAAAAATTAATATTC
*
11836119 TATATTTTTATTAAAATTTAATAATTTC
1 TATATTTTTATTAAAAATTAAT-A-TTC
11836147 T-TATTTTT
1 TATATTTTT
11836155 TATCTTTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
25 3 0.06
26 25 0.48
27 16 0.31
28 8 0.15
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TATATTTTTATTAAAAATTAATATTC
Found at i:11836117 original size:29 final size:27
Alignment explanation
Indices: 11836079--11836157 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
11836069 ATTTTTTTAC
*
11836079 AATTATTATTATCTCTAATTTTTATTAAA
1 AATTAATATT-TCT-TAATTTTTATTAAA
11836108 AATTAATA-TT-TTATATTTTTATTAAA
1 AATTAATATTTCTTA-ATTTTTATTAAA
* *
11836134 ATTTAATAATTTCTTATTTTTTAT
1 AATTAAT-ATTTCTTAATTTTTAT
11836158 CTTTATCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 2 0.05
26 19 0.44
27 2 0.05
28 10 0.23
29 10 0.23
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (27 bp):
AATTAATATTTCTTAATTTTTATTAAA
Found at i:11836127 original size:27 final size:27
Alignment explanation
Indices: 11836096--11836154 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
11836086 ATTATCTCTA
11836096 ATTTTTATTAAAAATTAAT-ATTT-TAT
1 ATTTTTATTAAAAATTAATAATTTCT-T
*
11836122 ATTTTTATTAAAATTTAATAATTTCTT
1 ATTTTTATTAAAAATTAATAATTTCTT
11836149 ATTTTT
1 ATTTTT
11836155 TATCTTTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 18 0.60
27 11 0.37
28 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTTTATTAAAAATTAATAATTTCTT
Found at i:11836131 original size:19 final size:21
Alignment explanation
Indices: 11836109--11836151 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
11836099 TTTATTAAAA
* *
11836109 ATTAATATTTTAT-ATTT-TT
1 ATTAAAATTTAATAATTTCTT
11836128 ATTAAAATTTAATAATTTCTT
1 ATTAAAATTTAATAATTTCTT
11836149 ATT
1 ATT
11836152 TTTTATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTAAAATTTAATAATTTCTT
Found at i:11850726 original size:45 final size:45
Alignment explanation
Indices: 11850662--11850752 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
11850652 CTGGTCAACA
* *
11850662 ACACGATGGACCAAACAAAGTGGTGCTGACTTACTTGGGAATTCT
1 ACACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCT
11850707 ACACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCT
1 ACACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCT
11850752 A
1 A
11850753 AGTATTGGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (45 bp):
ACACGATGGACCAAACAAAGTGGTGCTGACTTACTCGGCAATTCT
Found at i:11857997 original size:12 final size:12
Alignment explanation
Indices: 11857976--11858008 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11857966 ATTATTTTAA
11857976 TAATATTTAATAT
1 TAATATTTAAT-T
11857989 TAA-ATTTAATT
1 TAATATTTAATT
11858000 TAATATTTA
1 TAATATTTA
11858009 TTAAGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 12 0.63
13 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:11872568 original size:16 final size:16
Alignment explanation
Indices: 11872544--11872577 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11872534 AACCTGTAAC
*
11872544 CACGTTTACTTTTCAT
1 CACGCTTACTTTTCAT
11872560 CACGCTTACTTTTCAT
1 CACGCTTACTTTTCAT
11872576 CA
1 CA
11872578 ACCCTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (16 bp):
CACGCTTACTTTTCAT
Found at i:11874980 original size:30 final size:28
Alignment explanation
Indices: 11874923--11874992 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
11874913 TGATTTTTCC
*
11874923 CTTAAAATTTTTAGAAAACTTTAATTAAGCT
1 CTTAAAA-TTTTAGAAAACTCTAATTAA--T
* *
11874954 CTTAAAATTTTAGAAAAGTCTCATTAAT
1 CTTAAAATTTTAGAAAACTCTAATTAAT
*
11874982 CTCAAAATTTT
1 CTTAAAATTTT
11874993 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.31
30 17 0.49
31 7 0.20
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (28 bp):
CTTAAAATTTTAGAAAACTCTAATTAAT
Found at i:11879975 original size:2 final size:2
Alignment explanation
Indices: 11879970--11879997 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11879960 ATGAAAATCC
11879970 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
11879998 TATGTTTAAA
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:11880600 original size:16 final size:18
Alignment explanation
Indices: 11880570--11880602 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11880560 CTCAATGTCA
11880570 CAAAGAAAAACAAAATTG
1 CAAAGAAAAACAAAATTG
11880588 CAAA-AAAAA-AAAATT
1 CAAAGAAAAACAAAATT
11880603 ACAGAACGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (18 bp):
CAAAGAAAAACAAAATTG
Found at i:11881479 original size:19 final size:19
Alignment explanation
Indices: 11881457--11881503 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
11881447 TATTTAAAAC
11881457 TTATAAAAAATAAAAATAT
1 TTATAAAAAATAAAAATAT
** *
11881476 TTATAAAATTTTAAAATAT
1 TTATAAAAAATAAAAATAT
*
11881495 ATATAAAAA
1 TTATAAAAA
11881504 TTGACAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTATAAAAAATAAAAATAT
Found at i:11899464 original size:14 final size:14
Alignment explanation
Indices: 11899447--11899479 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11899437 AAAAAACTTC
11899447 ATATAAATA-ATAAT
1 ATATAAATATAT-AT
11899461 ATATAAATATATAT
1 ATATAAATATATAT
11899475 ATATA
1 ATATA
11899480 TGTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:11899562 original size:4 final size:4
Alignment explanation
Indices: 11899553--11899582 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
11899543 AAATGATAAT
11899553 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
11899583 AGCAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:11901902 original size:20 final size:19
Alignment explanation
Indices: 11901878--11901914 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11901868 ATTTTTTTAT
11901878 TTTTTTATTTTTAAAATAC
1 TTTTTTATTTTTAAAATAC
11901897 TTTTTTATTTTTAAAATA
1 TTTTTTATTTTTAAAATA
11901915 AATTTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAC
Found at i:11901920 original size:20 final size:19
Alignment explanation
Indices: 11901878--11901922 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11901868 ATTTTTTTAT
*
11901878 TTTTTTATTTTTAAAATAC
1 TTTTTTATTTTTAAAATAA
11901897 TTTTTTATTTTTAAAATAA
1 TTTTTTATTTTTAAAATAA
*
11901916 ATTTTTA
1 TTTTTTA
11901923 GTGTTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAA
Found at i:11901929 original size:20 final size:19
Alignment explanation
Indices: 11901879--11901929 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11901869 TTTTTTTATT
* **
11901879 TTTTTATTTTTAAAATACT
1 TTTTTATGTTTAAAATAAA
*
11901898 TTTTTATTTTTAAAATAAA
1 TTTTTATGTTTAAAATAAA
11901917 TTTTTAGTGTTTA
1 TTTTTA-TGTTTA
11901930 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTATGTTTAAAATAAA
Found at i:11912480 original size:5 final size:5
Alignment explanation
Indices: 11912470--11912494 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11912460 AAACAATACC
11912470 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
11912495 AGAATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:11914537 original size:22 final size:22
Alignment explanation
Indices: 11914512--11914595 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
11914502 TTTGCAGTAT
**
11914512 GCTCTCATGTTTAACGTACTAA
1 GCTCTCATGGCTAACGTACTAA
** *
11914534 GCTCTCATGTTTAACGAACTAA
1 GCTCTCATGGCTAACGTACTAA
* *
11914556 ACCCTCATGGCTAACGTACTAA
1 GCTCTCATGGCTAACGTACTAA
11914578 GCTCTCATGGCTAACGTA
1 GCTCTCATGGCTAACGTA
11914596 TTAGATTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (22 bp):
GCTCTCATGGCTAACGTACTAA
Found at i:11914737 original size:16 final size:15
Alignment explanation
Indices: 11914712--11914741 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11914702 ATTAAGTTAA
11914712 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
11914727 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
11914742 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:11927425 original size:46 final size:45
Alignment explanation
Indices: 11927372--11927499 Score: 168
Period size: 45 Copynumber: 2.8 Consensus size: 45
11927362 CCAAACAATA
* * * *
11927372 ATGCTCCTAAGTACAAGCTTAAATTGTTCATCCAAAATAAATGATG
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAAT-AATGATC
*
11927418 ATGCTCCTAAGCACGAGCTTAAACTGTT-AGCACAAAATAATGATC
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATC-CAAAATAATGATC
* *
11927463 ATACTCCTAAGCACGAGTTTAAACTGTTCATCCAAAA
1 ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAA
11927500 ACAGATGCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 39 0.54
46 33 0.46
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (45 bp):
ATGCTCCTAAGCACGAGCTTAAACTGTTCATCCAAAATAATGATC
Found at i:11928306 original size:43 final size:43
Alignment explanation
Indices: 11928273--11928374 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 43
11928263 AGCGAACATC
11928273 ATTGATTCAAGATCAAGTCTCAATGACCCTTGAAGCAAACTAA
1 ATTGATTCAAGATCAAGTCTCAATGACCCTTGAAGCAAACTAA
* * *
11928316 ATTGATTCAAGATCAAGTCTCGATGACCCTTAAAGCAAACTAT
1 ATTGATTCAAGATCAAGTCTCAATGACCCTTGAAGCAAACTAA
*
11928359 ATT-ATCCCAAGATCAA
1 ATTGAT-TCAAGATCAA
11928375 ATCTTGACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.04
43 52 0.96
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (43 bp):
ATTGATTCAAGATCAAGTCTCAATGACCCTTGAAGCAAACTAA
Found at i:11932166 original size:12 final size:12
Alignment explanation
Indices: 11932149--11932178 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11932139 GAGTCGTAGG
*
11932149 CACGACTATTGC
1 CACGACTATTGA
11932161 CACGACTATTGA
1 CACGACTATTGA
11932173 CACGAC
1 CACGAC
11932179 AGAAATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (12 bp):
CACGACTATTGA
Found at i:11946069 original size:21 final size:21
Alignment explanation
Indices: 11946045--11946110 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
11946035 CATGCACATG
*
11946045 GGCGTATGAGGTAGTCACACA
1 GGCGTGTGAGGTAGTCACACA
11946066 GGCGTGTGAGGTAGTCACACA
1 GGCGTGTGAGGTAGTCACACA
*
11946087 GGCGTGTG-GGATAGCCACACA
1 GGCGTGTGAGG-TAGTCACACA
11946108 GGC
1 GGC
11946111 TGGGCTCTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 2 0.05
21 40 0.95
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (21 bp):
GGCGTGTGAGGTAGTCACACA
Found at i:11950922 original size:32 final size:32
Alignment explanation
Indices: 11950886--11950989 Score: 90
Period size: 32 Copynumber: 3.3 Consensus size: 32
11950876 CCAACACCGT
11950886 AATGACCCGAATCTAAAATGACCTAAACATGA
1 AATGACCCGAATCTAAAATGACCTAAACATGA
** * *
11950918 AATGAATCGAATCTCAAATGATCC-AAACTTGA
1 AATGACCCGAATCTAAAATGA-CCTAAACATGA
* * * *
11950950 ACA--ATCGGACT-TGAAATGACCTAAACATGA
1 A-ATGACCCGAATCTAAAATGACCTAAACATGA
11950980 AATGACCCGA
1 AATGACCCGA
11950990 GAATAACTAG
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
29 3 0.05
30 15 0.27
31 8 0.15
32 26 0.47
33 3 0.05
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (32 bp):
AATGACCCGAATCTAAAATGACCTAAACATGA
Found at i:11954283 original size:23 final size:23
Alignment explanation
Indices: 11954235--11954284 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11954225 AATAAAATTT
* *
11954235 AATTTAAATGGTAAGTAAATTGA
1 AATTTAAATGGTAAATAAATTCA
*
11954258 AATTTAAATAGGTAAATACA-TCA
1 AATTTAAAT-GGTAAATAAATTCA
11954281 AATT
1 AATT
11954285 AAGAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (23 bp):
AATTTAAATGGTAAATAAATTCA
Found at i:11956593 original size:15 final size:16
Alignment explanation
Indices: 11956561--11956593 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11956551 ACAGAATAAA
11956561 AAGGATATGTTAATTT
1 AAGGATATGTTAATTT
*
11956577 AAGGATAT-TTTATTT
1 AAGGATATGTTAATTT
11956592 AA
1 AA
11956594 ATTAAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (16 bp):
AAGGATATGTTAATTT
Found at i:11958390 original size:2 final size:2
Alignment explanation
Indices: 11958383--11958411 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11958373 GAAAAACCCA
11958383 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11958412 TCAAGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11965450 original size:28 final size:28
Alignment explanation
Indices: 11965410--11965467 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
11965400 TTGCAGATAT
11965410 TTAGAAGTCACAAAAGAAGTTTTCATCC
1 TTAGAAGTCACAAAAGAAGTTTTCATCC
11965438 TTAGAAGTCACAAAAGAAGTTTTCATCC
1 TTAGAAGTCACAAAAGAAGTTTTCATCC
11965466 TT
1 TT
11965468 TCTCCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (28 bp):
TTAGAAGTCACAAAAGAAGTTTTCATCC
Found at i:11970251 original size:5 final size:5
Alignment explanation
Indices: 11970241--11970293 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
11970231 ATGAAGTAAA
11970241 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAACA- AAACA- AAGAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAA-AG AA-AAG
11970286 AAAAG AAA
1 AAAAG AAA
11970294 CAGAGAGCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.09
5 36 0.82
6 4 0.09
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11970342 original size:11 final size:11
Alignment explanation
Indices: 11970316--11970350 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
11970306 CGAAATAGGG
11970316 GAAAAGAAAGAA
1 GAAAAGAAA-AA
11970328 GAAAAGAAAAA
1 GAAAAGAAAAA
11970339 GAAAAGGAAAAA
1 GAAAA-GAAAAA
11970351 CTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:11994925 original size:16 final size:16
Alignment explanation
Indices: 11994904--11994934 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11994894 TTCACTTCTT
*
11994904 CATTTTCTATCTCCTA
1 CATTTTCCATCTCCTA
11994920 CATTTTCCATCTCCT
1 CATTTTCCATCTCCT
11994935 TCACATCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (16 bp):
CATTTTCCATCTCCTA
Found at i:11995749 original size:45 final size:45
Alignment explanation
Indices: 11995700--11995785 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
11995690 TAAATTGTCC
*
11995700 ATCAAAATACAACCAT-TAGAATGATTCAACAAAATAAAACCGTCT
1 ATCAAAATACAACCATCTA-AATGATCCAACAAAATAAAACCGTCT
*
11995745 ATCAAAATACATCCATCTAAATGATCCAACAAAATAAAACC
1 ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACC
11995786 ATCCATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.21
Consensus pattern (45 bp):
ATCAAAATACAACCATCTAAATGATCCAACAAAATAAAACCGTCT
Found at i:11995792 original size:31 final size:28
Alignment explanation
Indices: 11995754--11995812 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
11995744 TATCAAAATA
11995754 CATCCATCTAAATGATCCAACAAAATAAAAC
1 CATCCATC-AAATG-T-CAACAAAATAAAAC
* *
11995785 CATCCATCATATGTTAACAAAATAAAAC
1 CATCCATCAAATGTCAACAAAATAAAAC
11995813 TATCAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 1 0.04
30 4 0.15
31 8 0.31
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (28 bp):
CATCCATCAAATGTCAACAAAATAAAAC
Found at i:11996295 original size:15 final size:15
Alignment explanation
Indices: 11996275--11996305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11996265 GGGTAGGATC
11996275 AAAAGGAGCTGGTGG
1 AAAAGGAGCTGGTGG
*
11996290 AAAAGGAGTTGGTGG
1 AAAAGGAGCTGGTGG
11996305 A
1 A
11996306 GCTACTCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.45, T:0.16
Consensus pattern (15 bp):
AAAAGGAGCTGGTGG
Found at i:11998608 original size:19 final size:21
Alignment explanation
Indices: 11998578--11998621 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
11998568 CAAGGAGTAA
11998578 TTTGGAACAAAAC-AAAAAAT
1 TTTGGAACAAAACTAAAAAAT
*
11998598 TTTGGAA-AAAACTTAAAAAT
1 TTTGGAACAAAACTAAAAAAT
11998618 TTTG
1 TTTG
11998622 AAATAGGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (21 bp):
TTTGGAACAAAACTAAAAAAT
Found at i:12000882 original size:21 final size:21
Alignment explanation
Indices: 12000842--12000882 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12000832 TATTTAAACA
* *
12000842 TTAATATTTCTCAACCAAATT
1 TTAATATTACTCAAACAAATT
*
12000863 TTAATATTACTCAAATAAAT
1 TTAATATTACTCAAACAAAT
12000883 AATAAAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAATATTACTCAAACAAATT
Found at i:12000989 original size:30 final size:30
Alignment explanation
Indices: 12000953--12001013 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
12000943 TGAAAACAAG
12000953 CTGTTACACTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
12000983 CTGTTACACTTACAGTTAACCTTATTTGCT
1 CTGTTACACTTACAGTTAACCTTATTTGCT
12001013 C
1 C
12001014 ATTCTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.43
Consensus pattern (30 bp):
CTGTTACACTTACAGTTAACCTTATTTGCT
Found at i:12001755 original size:29 final size:30
Alignment explanation
Indices: 12001721--12001808 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 30
12001711 AAACATATTT
**
12001721 TAAACAGTGCTAAAC-ATAACATACATACA
1 TAAACAGTAATAAACAATAACATACATACA
12001750 TAAACAGTAATAAACAAT-A-AT--ATACA
1 TAAACAGTAATAAACAATAACATACATACA
* *
12001776 TAAA-AGTAATATACCACATAATATACATACA
1 TAAACAGTAATA-AACA-ATAACATACATACA
12001807 TA
1 TA
12001809 CATACATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
25 7 0.14
26 12 0.24
27 2 0.04
28 3 0.06
29 16 0.33
30 2 0.04
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.24
Consensus pattern (30 bp):
TAAACAGTAATAAACAATAACATACATACA
Found at i:12001807 original size:4 final size:4
Alignment explanation
Indices: 12001798--12002049 Score: 195
Period size: 4 Copynumber: 62.8 Consensus size: 4
12001788 ACCACATAAT
* *
12001798 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAAC AATAAT ATAC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC -AT-AC ATAC ATAC
* * * * *
12001848 ATAAC ATAC ATAAT ATAC ATAC ATTA- A-AC ATGAT AGAA ATTC AT-C
1 AT-AC ATAC AT-AC ATAC ATAC A-TAC ATAC AT-AC ATAC ATAC ATAC
* *
12001893 A-AC AGTA- ATA- A-AC ATA- ATGTAC ATAAT ATAC ATAC ATA- AGA-
1 ATAC A-TAC ATAC ATAC ATAC A--TAC AT-AC ATAC ATAC ATAC ATAC
* * *
12001934 ATA- ATAT ACCAC ATAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC
1 ATAC ATAC A-TAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12001983 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
12002031 ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATA
12002050 TATAACAATA
Statistics
Matches: 206, Mismatches: 21, Indels: 42
0.77 0.08 0.16
Matches are distributed among these distances:
2 2 0.01
3 20 0.10
4 152 0.74
5 27 0.13
6 5 0.02
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:12002222 original size:24 final size:24
Alignment explanation
Indices: 12002121--12002230 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
12002111 TATACTACAT
* * * *
12002121 AACATAC-TAACAGACATATTCAT
1 AACATACATAACAAACATAATAAC
* * *
12002144 AACACACATAACAGACATACTAAC
1 AACATACATAACAAACATAATAAC
12002168 AAGCATACAT---AAACAGTAATATGAC
1 AA-CATACATAACAAACA-TAATA--AC
12002193 AGACATACATAACAAACATAATAAC
1 A-ACATACATAACAAACATAATAAC
12002218 AACATACATAACA
1 AACATACATAACA
12002231 GTAGTATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.06
23 10 0.14
24 27 0.38
25 19 0.27
26 1 0.01
27 5 0.07
28 5 0.07
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.18
Consensus pattern (24 bp):
AACATACATAACAAACATAATAAC
Found at i:12002350 original size:20 final size:18
Alignment explanation
Indices: 12002325--12002370 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
12002315 CCCAATTTCC
12002325 AAAATAATTAAACAGTCCAA
1 AAAATAATTAAA-AG-CCAA
*
12002345 AAAATAAATTACAAGCCAA
1 AAAAT-AATTAAAAGCCAA
12002364 AAAATAA
1 AAAATAA
12002371 AAAAACCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 7 0.29
21 6 0.25
ACGTcount: A:0.65, C:0.13, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAATAATTAAAAGCCAA
Found at i:12003924 original size:35 final size:35
Alignment explanation
Indices: 12003849--12003924 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
12003839 ATGTGTTTTT
* * *
12003849 ATTTATAATTTATATACACATACATCGTTTATATA
1 ATTTACAATTTATATACACATACATCATATATATA
* * *
12003884 TTTTACAATTTATATACATATATA-CATATATATA
1 ATTTACAATTTATATACACATACATCATATATATA
12003918 CATTTAC
1 -ATTTAC
12003925 GTATATCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 8 0.24
35 25 0.76
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (35 bp):
ATTTACAATTTATATACACATACATCATATATATA
Found at i:12004539 original size:70 final size:70
Alignment explanation
Indices: 12004365--12004569 Score: 320
Period size: 70 Copynumber: 2.9 Consensus size: 70
12004355 TCCTTTCAAA
* ** *
12004365 CTCAAGTTTTAAATGATCTCGGGAATTAAGAGGAGATTGTGTCCTAACTTACTGGGCATGATCAT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATC-C
12004430 TTTTTT
65 TTTTTT
** *
12004436 CTCAAGCATTAAACAATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
12004501 TTTTT
66 TTTTT
* *
12004506 CTCAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATTGTGTCATAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
12004570 CCCTTTTTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 65 0.53
71 57 0.47
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (70 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:12010867 original size:17 final size:17
Alignment explanation
Indices: 12010841--12010877 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12010831 TCATTTAATT
*
12010841 AATTAGATTAATTTCTC
1 AATTAAATTAATTTCTC
*
12010858 AATTAAATTATTTTCTC
1 AATTAAATTAATTTCTC
12010875 AAT
1 AAT
12010878 CCAATTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:12012941 original size:39 final size:39
Alignment explanation
Indices: 12012884--12012958 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
12012874 TTTTCCAACA
* * *
12012884 TATATTACCCGAGAATCTACGACAAATGTTAGATCTTGT
1 TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
*
12012923 TATATTACCCAAGGATCTACAACAAATGCTAGATCT
1 TATATTACCCAAGAATCTACAACAAATGCTAGATCT
12012959 CGATATGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (39 bp):
TATATTACCCAAGAATCTACAACAAATGCTAGATCTTGT
Found at i:12013431 original size:19 final size:19
Alignment explanation
Indices: 12013407--12013444 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12013397 GTGACAAAAA
12013407 GGGAAATTTTGAGTTATGG
1 GGGAAATTTTGAGTTATGG
12013426 GGGAAATTTTGAGTTATGG
1 GGGAAATTTTGAGTTATGG
12013445 CAACATTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (19 bp):
GGGAAATTTTGAGTTATGG
Found at i:12015315 original size:2 final size:2
Alignment explanation
Indices: 12015308--12015349 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12015298 GATGATTGAA
12015308 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
12015350 TGGATTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12018328 original size:9 final size:9
Alignment explanation
Indices: 12018312--12018399 Score: 140
Period size: 9 Copynumber: 9.8 Consensus size: 9
12018302 GGTATTTTTC
12018312 GGTAATTCG
1 GGTAATTCG
*
12018321 GTTAATTCG
1 GGTAATTCG
*
12018330 GTTAATTCG
1 GGTAATTCG
12018339 GGTAATTCG
1 GGTAATTCG
12018348 GGTAATTCG
1 GGTAATTCG
*
12018357 GTTAATTCG
1 GGTAATTCG
*
12018366 GGTAATTTG
1 GGTAATTCG
12018375 GGTAATTCG
1 GGTAATTCG
12018384 GGTAATTCG
1 GGTAATTCG
12018393 GGTAATT
1 GGTAATT
12018400 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 73 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:12018577 original size:12 final size:12
Alignment explanation
Indices: 12018560--12018584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12018550 AGTAATTTCG
12018560 GGTCGGTTAACC
1 GGTCGGTTAACC
12018572 GGTCGGTTAACC
1 GGTCGGTTAACC
12018584 G
1 G
12018585 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:12020571 original size:15 final size:14
Alignment explanation
Indices: 12020551--12020589 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
12020541 TATTTGTTTA
12020551 TTGAAATGTTTTTTT
1 TTGAAAT-TTTTTTT
12020566 TTGAAA--TTTTTT
1 TTGAAATTTTTTTT
12020578 TTGAAATTTTTT
1 TTGAAATTTTTT
12020590 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (14 bp):
TTGAAATTTTTTTT
Found at i:12020577 original size:11 final size:12
Alignment explanation
Indices: 12020560--12020589 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12020550 ATTGAAATGT
12020560 TTTTTTTTGAAA
1 TTTTTTTTGAAA
12020572 TTTTTTTTGAAA
1 TTTTTTTTGAAA
12020584 TTTTTT
1 TTTTTT
12020590 ATTATTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTTTGAAA
Found at i:12020578 original size:97 final size:96
Alignment explanation
Indices: 12020485--12020660 Score: 271
Period size: 97 Copynumber: 1.8 Consensus size: 96
12020475 TATTTTTTTT
* * * **
12020485 ATTTGTTTATTATTTGTTTTATTATATTTTATATTTATTTTTTAAATGTTTTATAATATTTGTTT
1 ATTT-TTTATTATTTGTTTTATAATAATTTAAATTTAAATTTTAAATGTTTTATAATATTT-TTT
* *
12020550 ATTGAAATGTTTTTTTTTGAAATTTTTTTTGAA
64 ATTAAAATATTTTTTTTTGAAATTTTTTTTGAA
12020583 ATTTTTTATTATTTGTTTTATAATAATTTAAATTTAAATTTTAAATGTTTTATAATATTTTTTAT
1 ATTTTTTATTATTTGTTTTATAATAATTTAAATTTAAATTTTAAATGTTTTATAATATTTTTTAT
12020648 TAAAATATTTTTT
66 TAAAATATTTTTT
12020661 AATTATATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
96 16 0.23
97 51 0.72
98 4 0.06
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (96 bp):
ATTTTTTATTATTTGTTTTATAATAATTTAAATTTAAATTTTAAATGTTTTATAATATTTTTTAT
TAAAATATTTTTTTTTGAAATTTTTTTTGAA
Found at i:12020813 original size:25 final size:25
Alignment explanation
Indices: 12020785--12020841 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
12020775 ATAAAACAAA
*
12020785 TAAATAATGAAT-AATAAACAAATTT
1 TAAAAAATGAATGAATAAA-AAATTT
* *
12020810 TAAAAAATGATTGAATAAAAAATAT
1 TAAAAAATGAATGAATAAAAAATTT
*
12020835 TATAAAA
1 TAAAAAA
12020842 CATTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (25 bp):
TAAAAAATGAATGAATAAAAAATTT
Found at i:12020859 original size:10 final size:10
Alignment explanation
Indices: 12020828--12020862 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
12020818 GATTGAATAA
12020828 AAAATATTAT
1 AAAATATTAT
*
12020838 AAAACATT-T
1 AAAATATTAT
12020847 AAAATATTAT
1 AAAATATTAT
12020857 AAAATA
1 AAAATA
12020863 AGTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATATTAT
Found at i:12021614 original size:18 final size:17
Alignment explanation
Indices: 12021593--12021680 Score: 68
Period size: 18 Copynumber: 4.9 Consensus size: 17
12021583 ACTATTTTAA
*
12021593 AAAATTAAAAATAATTTT
1 AAAATTAAAAA-AATTAT
* * *
12021611 AAAATCCAAAATATTTAT
1 AAAAT-TAAAAAAATTAT
*
12021629 AAAAATTCAAAAAATTAT
1 -AAAATTAAAAAAATTAT
***
12021647 ATTTTTAAAAAAATTAT
1 AAAATTAAAAAAATTAT
12021664 AATAATTAAAAAAATTA
1 AA-AATTAAAAAAATTA
12021681 AAGAATACAT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
17 14 0.27
18 29 0.56
19 9 0.17
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTAAAAAAATTAT
Found at i:12021659 original size:17 final size:18
Alignment explanation
Indices: 12021625--12021680 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
12021615 TCCAAAATAT
* *
12021625 TTATAAAAATTCAAAAAA
1 TTATAATAATTAAAAAAA
**
12021643 TTAT-ATTTTTAAAAAAA
1 TTATAATAATTAAAAAAA
12021660 TTATAATAATTAAAAAAA
1 TTATAATAATTAAAAAAA
12021678 TTA
1 TTA
12021681 AAGAATACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTATAATAATTAAAAAAA
Found at i:12030326 original size:2 final size:2
Alignment explanation
Indices: 12030319--12030355 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12030309 TTGTTAGAGA
12030319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12030356 AACTATACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12030711 original size:16 final size:17
Alignment explanation
Indices: 12030692--12030723 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12030682 TACAAATAAT
12030692 TTTTAAT-ATTTTAAAG
1 TTTTAATAATTTTAAAG
12030708 TTTTAATAATTTTAAA
1 TTTTAATAATTTTAAA
12030724 AAATCATCTG
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:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTAATAATTTTAAAG
Found at i:12031162 original size:15 final size:15
Alignment explanation
Indices: 12031142--12031172 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12031132 TTGATCAAAG
12031142 GACTTAATTGAATGT
1 GACTTAATTGAATGT
12031157 GACTTAATTGAATGT
1 GACTTAATTGAATGT
12031172 G
1 G
12031173 TTTTTCGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (15 bp):
GACTTAATTGAATGT
Found at i:12033181 original size:29 final size:30
Alignment explanation
Indices: 12033113--12033195 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
12033103 ATAAATAGTA
**
12033113 AATTTATACATGAACTTTGGTTTAATGTGC
1 AATTTATACATGAACTTTAATTTAATGTGC
12033143 AATTTGATACATGAACTTTAATTT-A-GTGC
1 AATTT-ATACATGAACTTTAATTTAATGTGC
*
12033172 AATTATATACATGAAACTTGAATT
1 AATT-TATACATG-AACTTTAATT
12033196 GTGGTTCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.32
30 16 0.34
31 16 0.34
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (30 bp):
AATTTATACATGAACTTTAATTTAATGTGC
Found at i:12042280 original size:9 final size:9
Alignment explanation
Indices: 12042266--12042290 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12042256 TTTATATAGG
12042266 GAGAGTTTA
1 GAGAGTTTA
12042275 GAGAGTTTA
1 GAGAGTTTA
12042284 GAGAGTT
1 GAGAGTT
12042291 CAACTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (9 bp):
GAGAGTTTA
Found at i:12042448 original size:19 final size:18
Alignment explanation
Indices: 12042424--12042517 Score: 68
Period size: 19 Copynumber: 5.2 Consensus size: 18
12042414 TAATTTAAAT
12042424 TTAATATTAAAATAATTA
1 TTAATATTAAAATAATTA
* *
12042442 CTTAATATTAAATTAATAAA
1 -TTAATATTAAAATAAT-TA
* * * *
12042462 ATACTATTAAGATAAGTA
1 TTAATATTAAAATAATTA
*
12042480 TTAA-ATTAAATTTAA-TA
1 TTAATATTAAA-ATAATTA
12042497 TTAACTATTAAAATAA-TA
1 TTAA-TATTAAAATAATTA
12042515 TTA
1 TTA
12042518 TTTTTGGAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
17 11 0.19
18 14 0.24
19 32 0.55
20 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAATATTAAAATAATTA
Found at i:12042452 original size:36 final size:35
Alignment explanation
Indices: 12042415--12042517 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 35
12042405 GATAAACATT
12042415 AATTTAAATTTAATATTAAAATAATTACTTAATATTA
1 AATTTAAATTTAATATTAAAATAATTA-TTAA-ATTA
* * * *
12042452 AATTAATAAA-ATACTATTAAGATAAGTATTAAATTA
1 AATT--TAAATTTAATATTAAAATAATTATTAAATTA
12042488 AATTT-AATATTAACTATTAAAATAA-TATTA
1 AATTTAAAT-TTAA-TATTAAAATAATTATTA
12042518 TTTTTGGAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
33 2 0.04
34 1 0.02
35 7 0.13
36 18 0.33
37 8 0.15
38 14 0.26
39 4 0.07
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (35 bp):
AATTTAAATTTAATATTAAAATAATTATTAAATTA
Found at i:12044139 original size:15 final size:15
Alignment explanation
Indices: 12044100--12044131 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12044090 TATGCATGCA
12044100 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
12044115 AAATACAAAAGACAT
1 AAATATAAAAGACAT
12044130 AA
1 AA
12044132 TAGTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:12049487 original size:16 final size:15
Alignment explanation
Indices: 12049468--12049506 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
12049458 TATGTGTTGG
12049468 ATTAAATTGAATATGA
1 ATTAAATTGAAT-TGA
*
12049484 ATTATATTGAATTGA
1 ATTAAATTGAATTGA
*
12049499 GTTAAATT
1 ATTAAATT
12049507 CATTCGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAAATTGAATTGA
Found at i:12049841 original size:25 final size:25
Alignment explanation
Indices: 12049813--12049874 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
12049803 CACAACTCTT
* *
12049813 ATGAGCTTCTCGATATTTAGCTCAC
1 ATGAGCTTCTCGACACTTAGCTCAC
* * *
12049838 ATGAGTTTCCCGACACTTAGCTCGC
1 ATGAGCTTCTCGACACTTAGCTCAC
12049863 ATGAGCTTCTCG
1 ATGAGCTTCTCG
12049875 TTTATAGCTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCTCGACACTTAGCTCAC
Found at i:12051658 original size:22 final size:22
Alignment explanation
Indices: 12051613--12051675 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
12051603 TATGTATATG
12051613 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
12051639 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
12051660 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
12051676 CATTTCGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:12064022 original size:44 final size:45
Alignment explanation
Indices: 12063937--12064027 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
12063927 CTTGAGCAAT
* **
12063937 AGCGGAGCAGATCGAAGATGGTGAATTTTATCTCCCAGAGATTAC
1 AGCGGAGCAGATCGAAGATAGTGAATCCTATCTCCCAGAGATTAC
* * *
12063982 AGCGGAGCAGATTGAAGCTAGT-AATCCTATCTCCCTGAGATTAC
1 AGCGGAGCAGATCGAAGATAGTGAATCCTATCTCCCAGAGATTAC
12064026 AG
1 AG
12064028 TAGAGCGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 21 0.52
45 19 0.47
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (45 bp):
AGCGGAGCAGATCGAAGATAGTGAATCCTATCTCCCAGAGATTAC
Found at i:12064378 original size:175 final size:175
Alignment explanation
Indices: 12063964--12064562 Score: 1002
Period size: 175 Copynumber: 3.4 Consensus size: 175
12063954 ATGGTGAATT
*
12063964 TTATCTCCCAGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
* * * * *
12064029 AGAGCGGATTACAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGGGTAGATCACATCAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
* * *
12064094 TATCTCCCTGAGATTATAGTGGAAT-GACCGAAGAATTTTAGATC
131 TATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
* *
12064138 TTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
12064203 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
*
12064268 TATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCAGATC
131 TATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
** *
12064313 TTATCTATCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
*
12064378 GGAGCGGATTAAAATAAAGGATCTTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
**
12064443 TATCTCCCTAAGATTACAGTGGAATAGATAGAAGAATTTCAGATC
131 TATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
* *
12064488 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
*
12064553 GGAGCAGATT
66 GGAGCGGATT
12064563 GAAGCTAATA
Statistics
Matches: 397, Mismatches: 27, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
174 144 0.36
175 253 0.64
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
TATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTTCAGATC
Found at i:12064421 original size:219 final size:216
Alignment explanation
Indices: 12064183--12064777 Score: 583
Period size: 219 Copynumber: 2.7 Consensus size: 216
12064173 CTAGTAATCC
* * * *
12064183 TATCTC-CCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAG
1 TATCTCTCCAAAG-TTACAGTAGAGCAGA-TAAAAT-AAGG-TCTTATCTCCCT-AAGATTACAG
* * * * * *
12064246 TAGAGTAGAT-CGCA-TCAGGTCTTATCTCCCTAAAATTACAGTGGAATAGACCGAAGA-ATTTC
61 TAGAATAGATAAGAATTCAGATCTTATCTCCCTAAAATTACAGTGGAACAGACCGAAGATA-GT-
* * *
12064308 AGA-TCTTATCTATCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGAT
124 A-ATTC-TATCTACCTGAGATTACAGCGGAGCAAATTGAAGCTAATAATCCAATCTCCCTGAGAT
12064372 TACAGTGGAGCGGATTAAAATAAAGGATCT
187 TACAGTGGAGCGGATTAAAATAAAGGATCT
* * *** * *
12064402 TATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGTGGAA
1 TATCTCTCCAAAGTTACAGTAGAGCAGATAAAATAAGGTCTTATCTCCCTAAGATTACAGTAGAA
* * * ** *
12064467 TAGATAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATT
66 TAGAT--AAGAA-TTCAGATCTTATCTCCCTAAAATTACAGTGGAACAGACCGAAGATAGTAATT
* * * *
12064532 CTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGT
128 CTATCTACCTGAGATTACAGCGGAGCAAATTGAAGCTAATAATCCAATCTCCCTGAGATTACAGT
12064597 GGAGCGGATTAAAATAAAGGATCT
193 GGAGCGGATTAAAATAAAGGATCT
* * *** * * *
12064621 TATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAA
1 TATCTCTCCAAAGTTACAGTAGAGCAGATAAAATAAGGTCTTATCTCCCTAAGATTACAGTAGAA
* * * * ** *
12064686 TAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATT
66 TAG--ATAAGAA-TTCAGATCTTATCTCCCTAAAATTACAGTGGAACAGACCGAAGATAGTAATT
*
12064751 CTATCT-CCTTGAGATTACAGTGGAGCA
128 CTATCTACC-TGAGATTACAGCGGAGCA
12064778 GATTAAAATA
Statistics
Matches: 330, Mismatches: 34, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
215 3 0.01
216 25 0.08
217 3 0.01
218 5 0.02
219 248 0.75
220 8 0.02
221 37 0.11
222 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (216 bp):
TATCTCTCCAAAGTTACAGTAGAGCAGATAAAATAAGGTCTTATCTCCCTAAGATTACAGTAGAA
TAGATAAGAATTCAGATCTTATCTCCCTAAAATTACAGTGGAACAGACCGAAGATAGTAATTCTA
TCTACCTGAGATTACAGCGGAGCAAATTGAAGCTAATAATCCAATCTCCCTGAGATTACAGTGGA
GCGGATTAAAATAAAGGATCT
Found at i:12064641 original size:394 final size:394
Alignment explanation
Indices: 12064139--12064905 Score: 1291
Period size: 394 Copynumber: 1.9 Consensus size: 394
12064129 TTTTAGATCT
* *
12064139 TATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTG
1 TATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAATAATCCAATCTCCCTAAGATTACAGTG
*
12064204 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTT
* *
12064269 ATCTCCCTAAAATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTATCTGAGATTACAGC
131 ATCTCCCTAAAATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTACCTGAGATTACAGC
*
12064334 GGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
196 GGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* *
12064399 TCTTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGTG
261 TCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGCG
*
12064464 GAATAGATAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
326 GAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
12064529 ATTC
391 ATTC
* * * *
12064533 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTG
1 TATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAATAATCCAATCTCCCTAAGATTACAGTG
*
12064598 GAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTT
* * * *
12064663 ATCTCCCTGAGATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGT
131 ATCTCCCTAAAATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTACCTGAGATTACAGC
* * *
12064728 GGAGCAGATTGAAGCTAGTAATTCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
196 GGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
* * *
12064793 TCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTGAGATTACAGCG
261 TCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGCG
* * *
12064858 GAATAGACCGAAGAATTTTAGATCTTATCTCCTTGAGATTACAGTGGA
326 GAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGA
12064906 ATAGACTGAA
Statistics
Matches: 346, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
394 346 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (394 bp):
TATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAATAATCCAATCTCCCTAAGATTACAGTG
GAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTT
ATCTCCCTAAAATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTACCTGAGATTACAGC
GGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGA
TCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGCG
GAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
ATTC
Found at i:12064714 original size:175 final size:175
Alignment explanation
Indices: 12064533--12064905 Score: 674
Period size: 175 Copynumber: 2.1 Consensus size: 175
12064523 CTAGTAATTC
12064533 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTG
*
12064598 GAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
66 GAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
*
12064663 ATCTCCCTGAGATTACAGTGGAATAGACAGAAGAATTTCAGATCT
131 ATCTCCCTGAGATTACAGCGGAATAGACAGAAGAATTTCAGATCT
* * *
12064708 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATTCTATCTCCTTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTG
12064773 GAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
66 GAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
* *
12064838 ATCTCCCTGAGATTACAGCGGAATAGACCGAAGAATTTTAGATCT
131 ATCTCCCTGAGATTACAGCGGAATAGACAGAAGAATTTCAGATCT
*
12064883 TATCTCCTTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
12064906 ATAGACTGAA
Statistics
Matches: 190, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
175 190 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (175 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTG
GAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTT
ATCTCCCTGAGATTACAGCGGAATAGACAGAAGAATTTCAGATCT
Found at i:12064778 original size:219 final size:219
Alignment explanation
Indices: 12064321--12064781 Score: 823
Period size: 219 Copynumber: 2.1 Consensus size: 219
12064311 TCTTATCTAT
* * * *
12064321 CTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
1 CTGAGATTACAGTGGAGCAGATTGAAGCTAATAATCCAATCTCCCTGAGATTACAGTGGAGCGGA
*
12064386 TTAAAATAAAGGATCTTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCC
66 TTAAAATAAAGGATCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCC
*
12064451 TAAGATTACAGTGGAATAGATAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
131 TAAGATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
12064516 ATTGAAGCTAGTAATTCTATCTCC
196 ATTGAAGCTAGTAATTCTATCTCC
*
12064540 CTGAGATTACAGTGGAGCAGATTGAAGCTAATAATTCAATCTCCCTGAGATTACAGTGGAGCGGA
1 CTGAGATTACAGTGGAGCAGATTGAAGCTAATAATCCAATCTCCCTGAGATTACAGTGGAGCGGA
* *
12064605 TTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCC
66 TTAAAATAAAGGATCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCC
*
12064670 TGAGATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
131 TAAGATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
12064735 ATTGAAGCTAGTAATTCTATCTCC
196 ATTGAAGCTAGTAATTCTATCTCC
*
12064759 TTGAGATTACAGTGGAGCAGATT
1 CTGAGATTACAGTGGAGCAGATT
12064782 AAAATAAAGG
Statistics
Matches: 231, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
219 231 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (219 bp):
CTGAGATTACAGTGGAGCAGATTGAAGCTAATAATCCAATCTCCCTGAGATTACAGTGGAGCGGA
TTAAAATAAAGGATCTTATCTCTCCAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCC
TAAGATTACAGTGGAATAGACAGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
ATTGAAGCTAGTAATTCTATCTCC
Found at i:12064935 original size:46 final size:46
Alignment explanation
Indices: 12064838--12064936 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
12064828 ATCAGGTCTT
* * *
12064838 ATCTCCCTGAGATTACAGCGGAATAGACCGAAGAATTTTAGATCTT
1 ATCTCCCTGAGATTACAGCGGAATAGACCGAAGAATTTCAGACCTG
* * *
12064884 ATCTCCTTGAGATTACAGTGGAATAGACTGAAGAATTTCAGACCTG
1 ATCTCCCTGAGATTACAGCGGAATAGACCGAAGAATTTCAGACCTG
*
12064930 GTCTCCC
1 ATCTCCC
12064937 AGATAATGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (46 bp):
ATCTCCCTGAGATTACAGCGGAATAGACCGAAGAATTTCAGACCTG
Found at i:12066920 original size:22 final size:22
Alignment explanation
Indices: 12066875--12066937 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
12066865 TATGTATATG
12066875 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
12066901 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
12066922 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
12066938 CATTTTGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:12073140 original size:21 final size:21
Alignment explanation
Indices: 12073116--12073163 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12073106 AAATTTTCAT
* * *
12073116 GAGGAAAAAGCTGAGAATTAG
1 GAGGAAAAAACTGAAAATCAG
12073137 GAGGAAAAAACTGAAAATCAG
1 GAGGAAAAAACTGAAAATCAG
12073158 GAGGAA
1 GAGGAA
12073164 GAATTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.31, T:0.10
Consensus pattern (21 bp):
GAGGAAAAAACTGAAAATCAG
Found at i:12073743 original size:11 final size:11
Alignment explanation
Indices: 12073727--12073751 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12073717 TTTTTTTAAC
12073727 TTTAAAATACT
1 TTTAAAATACT
12073738 TTTAAAATACT
1 TTTAAAATACT
12073749 TTT
1 TTT
12073752 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:12073754 original size:40 final size:40
Alignment explanation
Indices: 12073710--12073868 Score: 142
Period size: 50 Copynumber: 3.7 Consensus size: 40
12073700 AATATTTTTA
*
12073710 TTTTTT-ATTTTTTTAACTTTAAAATACTTTTAAAATACT
1 TTTTTTAATTTTTTTAACTTTAAAATATTTTTAAAATACT
*
12073749 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAAATTTTTAAAATACT
1 TTTTTTAATTTTTTTAACTTTAAAA------T----ATTTTTAAAATACT
*
12073799 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAATTTTTTTAACTTTAAAATATTTTTAAAATACT
*
12073838 ATTTTTAATTTTTATTTTAACTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAAC-TTTAAAATA
12073869 AATTTTTGGT
Statistics
Matches: 101, Mismatches: 4, Indels: 26
0.77 0.03 0.20
Matches are distributed among these distances:
39 13 0.13
40 30 0.30
41 3 0.03
42 6 0.06
43 9 0.09
44 1 0.01
46 1 0.01
50 38 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAACTTTAAAATATTTTTAAAATACT
Found at i:12073787 original size:12 final size:11
Alignment explanation
Indices: 12073766--12073815 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
12073756 ATTTTTTTAA
12073766 TTTTAAAATTT
1 TTTTAAAATTT
*
12073777 TTTTAAAA-AT
1 TTTTAAAATTT
12073787 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
12073800 TTTT-TAATTT
1 TTTTAAAATTT
12073810 TTTTAA
1 TTTTAA
12073816 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 15 0.48
11 8 0.26
12 3 0.10
13 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:12073801 original size:50 final size:51
Alignment explanation
Indices: 12073727--12073842 Score: 198
Period size: 50 Copynumber: 2.3 Consensus size: 51
12073717 TTTTTTTAAC
*
12073727 TTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATTTT
1 TTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
*
12073778 TTTAAAA-ATTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
1 TTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
12073828 TTTAAAATACATTTT
1 TTTAAAATAC-TTTT
12073843 TAATTTTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
50 48 0.80
51 8 0.13
52 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (51 bp):
TTTAAAATACTTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAAATATT
Found at i:12073808 original size:21 final size:19
Alignment explanation
Indices: 12073757--12073811 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
12073747 CTTTTTTTAA
12073757 TTTTTTTAA-TTTTAAAAT
1 TTTTTTTAATTTTTAAAAT
*
12073775 TTTTTTAAAAATTTTTAAAAT
1 TTTTTT--TAATTTTTAAAAT
12073796 ACTTTTTTTAATTTTT
1 --TTTTTTTAATTTTT
12073812 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 6 0.20
20 2 0.07
21 16 0.53
23 6 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTTAATTTTTAAAAT
Found at i:12073845 original size:13 final size:11
Alignment explanation
Indices: 12073766--12073836 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 11
12073756 ATTTTTTTAA
*
12073766 TTTTAAAATTT
1 TTTTAAAATAT
12073777 TTTTAAAA-AT
1 TTTTAAAATAT
12073787 TTTTAAAATACT
1 TTTTAAAATA-T
**
12073799 TTTTTTAAT-T
1 TTTTAAAATAT
*
12073809 TTTT----TAA
1 TTTTAAAATAT
12073816 TTTTAAAATAT
1 TTTTAAAATAT
12073827 TTTTAAAATA
1 TTTTAAAATA
12073837 CATTTTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
10 14 0.29
11 21 0.44
12 8 0.17
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12078354 original size:23 final size:23
Alignment explanation
Indices: 12078328--12078443 Score: 81
Period size: 23 Copynumber: 5.0 Consensus size: 23
12078318 GGCATCACAT
*
12078328 AATACGCCACA-AGTTCTTTACAG
1 AATACGCCACATAG-GCTTTACAG
* * *
12078351 AATACACAACATAGGCTTTATAG
1 AATACGCCACATAGGCTTTACAG
* * * *
12078374 AATACGCCACACAAGTTTTACAA
1 AATACGCCACATAGGCTTTACAG
* * * * *
12078397 AATATGTCATACAGGCTTTACAA
1 AATACGCCACATAGGCTTTACAG
* *
12078420 AATATGCCACAAAGGCTTTACAG
1 AATACGCCACATAGGCTTTACAG
12078443 A
1 A
12078444 GAATTACGTC
Statistics
Matches: 72, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
23 70 0.97
24 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.25
Consensus pattern (23 bp):
AATACGCCACATAGGCTTTACAG
Found at i:12081803 original size:2 final size:2
Alignment explanation
Indices: 12081796--12081834 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
12081786 TTTTCGACAA
12081796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12081835 AGGGCTTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12081929 original size:2 final size:2
Alignment explanation
Indices: 12081922--12081956 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12081912 AATAATAGAA
12081922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12081957 AGGGCTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12081994 original size:122 final size:122
Alignment explanation
Indices: 12081800--12082044 Score: 481
Period size: 122 Copynumber: 2.0 Consensus size: 122
12081790 CGACAAATAT
12081800 ATATATATATATATATATATATATATATATATATAAGGGCTTATCTTGGGTGATCAAACTCAATT
1 ATATATATATATATATATATATATATATATATATAAGGGCTTATCTTGGGTGATCAAACTCAATT
*
12081865 TTTGGATTTTGATATTTCTTAAAATCTAATCCTGATTTTATTTATGAAATAATAGAA
66 TTTGGATTTTGATATTTCTTAAAATCTAATCCTCATTTTATTTATGAAATAATAGAA
12081922 ATATATATATATATATATATATATATATATATATAAGGGCTTATCTTGGGTGATCAAACTCAATT
1 ATATATATATATATATATATATATATATATATATAAGGGCTTATCTTGGGTGATCAAACTCAATT
12081987 TTTGGATTTTGATATTTCTTAAAATCTAATCCTCATTTTATTTATGAAATAATAGAA
66 TTTGGATTTTGATATTTCTTAAAATCTAATCCTCATTTTATTTATGAAATAATAGAA
12082044 A
1 A
12082045 CAAAAATGGT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (122 bp):
ATATATATATATATATATATATATATATATATATAAGGGCTTATCTTGGGTGATCAAACTCAATT
TTTGGATTTTGATATTTCTTAAAATCTAATCCTCATTTTATTTATGAAATAATAGAA
Found at i:12090180 original size:10 final size:10
Alignment explanation
Indices: 12090165--12090202 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
12090155 TTAAGTTTCT
12090165 TTAGTTTTAC
1 TTAGTTTTAC
12090175 TTAG-TTT-C
1 TTAGTTTTAC
12090183 TTTAGTTTTAC
1 -TTAGTTTTAC
12090194 TTAGTTTTA
1 TTAGTTTTA
12090203 AGAAAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.04
9 7 0.28
10 16 0.64
11 1 0.04
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.63
Consensus pattern (10 bp):
TTAGTTTTAC
Found at i:12090182 original size:19 final size:19
Alignment explanation
Indices: 12090158--12090200 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
12090148 ATTTTAGTTA
12090158 AGTTTCTTTAGTTTTACTT
1 AGTTTCTTTAGTTTTACTT
12090177 AGTTTCTTTAGTTTTACTT
1 AGTTTCTTTAGTTTTACTT
12090196 AGTTT
1 AGTTT
12090201 TAAGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (19 bp):
AGTTTCTTTAGTTTTACTT
Found at i:12099179 original size:36 final size:36
Alignment explanation
Indices: 12099139--12099214 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
12099129 TGAAACATAG
*
12099139 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
12099175 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
12099212 AAA
1 AAA
12099215 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:12099852 original size:23 final size:22
Alignment explanation
Indices: 12099809--12099866 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12099799 AAAGGGTATC
* *
12099809 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12099830 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12099853 TGCATATCATATCT
1 TACAAATCATATCT
12099867 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12099882 original size:21 final size:21
Alignment explanation
Indices: 12099845--12099899 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
12099835 AATCATATCT
12099845 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
12099864 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
12099885 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
12099900 CCTTGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.32
21 23 0.68
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:12101011 original size:44 final size:44
Alignment explanation
Indices: 12100957--12101058 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
12100947 TTCTGATCCA
* * * *
12100957 CTCCATTGCAACTTCAGGGAGACAGGATTGGTTTCTTCAATCTG
1 CTCCACTGCAACCTCAGGGAGACAAGATTGGTTTATTCAATCTG
* * *
12101001 TTCCACTGCAACCTCAGGGGGATAAGATTGGTTTATTCAATCTG
1 CTCCACTGCAACCTCAGGGAGACAAGATTGGTTTATTCAATCTG
*
12101045 CTACACTGCAACCT
1 CTCCACTGCAACCT
12101059 TGGAGAGATG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACCTCAGGGAGACAAGATTGGTTTATTCAATCTG
Found at i:12101245 original size:45 final size:44
Alignment explanation
Indices: 12101175--12102331 Score: 1231
Period size: 45 Copynumber: 25.7 Consensus size: 44
12101165 TTCTGTCTTC
* * * * * *
12101175 GATCTACTTCGCTGCAAATACAGGAAGATAAGATCTGCTGTTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATTTT
* *
12101219 CGATCTACTTCGCTACCAATATAGGAAGACAAGATCCGTTATCTTC
1 -GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * *
12101265 GATCTACTTTGCTACCAATATAGGAAGCCCAGATCTGCTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* ** *
12101310 GATCTACTTCGCTGCCAATACGGGAAGACAATATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * *
12101355 GATCTACTTCGCTACCAGTATAGGAAGACAACATCTGCTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * * *
12101400 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTAGCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTA-TTTT
*
12101445 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * *
12101490 GATCTACTTCGCTGCCAGTACAAGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * * *
12101535 GATCTACTTCACTGCCAATACAGGAAGACCAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * *
12101580 GATCTACTTCGCTACCAATATAGGAAGATAATATCTGCTATATTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * *
12101625 GATCTACTTCGCTGCCAATAAAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
12101670 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * * * *
12101715 GATCTACTTCACT-TCAGGTACAGAAAGAGAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCA-ATATAGGAAGACAAGATCTGTTAT-TTT
* * * * * *
12101760 GATCTACTTCACTGCCAATACATGAAGACAAGATCTATTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * *
12101805 GATCTACTTCGCAACCAATATAGAAAGACAAGATATGTTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
*
12101850 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* *
12101895 GATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
12101940 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * ** * * * *
12101985 GATTTACTTCACTGTCAATACATGAAGACAAAATCTGTTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * *
12102030 GATCTACTTCGCTACCAATATAGGAAGATAAGGTCTGTTATCTTC
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* *
12102075 GATCTATTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* * * * *
12102120 GATCTAGTTTGCTGCCAATACAAGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTAT-TTT
* *
12102165 GATCTACTTCGCTACCAATATCA-GAAGACAAGATTTGTTGTTTT
1 GATCTACTTCGCTACCAATAT-AGGAAGACAAGATCTGTTATTTT
* * * * * *
12102209 CGATCTACTTCGCTATCAATACATGAATACAATATCTGCTATTTTT
1 -GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTA-TTTT
* *
12102255 GATCTGCTTCGCTACCAATACAGGAAGACAAGATCTGCTGT-TTTT
1 GATCTACTTCGCTACCAATATAGGAAGACAAGATCTG-T-TATTTT
** *
12102300 GATCTACTTCGCTGTCAATACAGGAAGACAAG
1 GATCTACTTCGCTACCAATATAGGAAGACAAG
12102332 CCTGCTGTTT
Statistics
Matches: 949, Mismatches: 152, Indels: 22
0.85 0.14 0.02
Matches are distributed among these distances:
44 6 0.01
45 933 0.98
46 9 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (44 bp):
GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTATTTT
Found at i:12101359 original size:135 final size:135
Alignment explanation
Indices: 12101170--12102331 Score: 1457
Period size: 135 Copynumber: 8.6 Consensus size: 135
12101160 GTTACTTCTG
* * * * * *
12101170 TCTTCGATCTACTTCGCTGCAAATACAGGAAGATAAGATCTGCTGT-TTTCGATCTACTTCGCTA
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTT-GATCTACTTCGCTG
* * * *
12101234 CCAATATAGGAAGACAAGATCCGTTATCTTCGATCTACTTTGCTACCAATATAGGAAGCCCAGAT
65 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGAT
*
12101299 CTGCTA
130 CTGTTA
* * * * *
12101305 TCTTTGATCTACTTCGCTGCCAATACGGGAAGACAATATCTGTTATCTTTGATCTACTTCGCTAC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * * * * * *
12101370 CAGTATAGGAAGACAACATCTGCTATCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
12101435 TGTTA
131 TGTTA
* * *
12101440 GCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * * * * * * *
12101505 CAGTACAAGAAGACAAGATCTGTTATCTTTGATCTACTTCACTGCCAATACAGGAAGACCAGATC
66 CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
12101570 TGTTA
131 TGTTA
* * * * *
12101575 TCTTCGATCTACTTCGCTACCAATATAGGAAGATAATATCTGCTATATTTGATCTACTTCGCTGC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
*
12101640 CAATAAAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
12101705 TGTTA
131 TGTTA
* * * * * * *
12101710 TCTTTGATCTACTTCACT-TCAGGTACAGAAAGAGAAGATCTGTTATCTTTGATCTACTTCACTG
1 TCTTTGATCTACTTCGCTACCA-ATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTG
* * * * *
12101774 CCAATACATGAAGACAAGATCTATTATCTTCGATCTACTTCGCAACCAATATAGAAAGACAAGAT
65 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGAT
*
12101839 ATGTTA
130 CTGTTA
* * *
12101845 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGTTGC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
*
12101910 CAATATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCTACCAATATAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
12101975 TGTTA
131 TGTTA
* * ** * * * * *
12101980 TCTTTGATTTACTTCACTGTCAATACATGAAGACAAAATCTGTTATCTTCGATCTACTTCGCTAC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * *
12102045 CAATATAGGAAGATAAGGTCTGTTATCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATC
66 CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
*
12102110 TGCTA
131 TGTTA
* * * * * *
12102115 TCTTTGATCTAGTTTGCTGCCAATACAAGAAGACAAGATCTGTTATCTTTGATCTACTTCGCTAC
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
* * * * * * * *
12102180 CAATATCA-GAAGACAAGATTTGTTGTTTTCGATCTACTTCGCTATCAATACATGAATACAATAT
66 CAATAT-AGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGAT
*
12102244 CTGCTA
130 CTGTTA
* * * * *
12102250 TTTTTGATCTGCTTCGCTACCAATACAGGAAGACAAGATCTGCTGTTTTTGATCTACTTCGCTGT
1 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
*
12102315 CAATACAGGAAGACAAG
66 CAATATAGGAAGACAAG
12102332 CCTGCTGTTT
Statistics
Matches: 896, Mismatches: 126, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
134 3 0.00
135 887 0.99
136 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (135 bp):
TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTGC
CAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATC
TGTTA
Found at i:12103593 original size:8 final size:9
Alignment explanation
Indices: 12103579--12103611 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
12103569 TTCTTTCTTT
12103579 TTTTTTTGA
1 TTTTTTTGA
12103588 TTTTTTTGA
1 TTTTTTTGA
12103597 TTTTTTTGA
1 TTTTTTTGA
12103606 TTTTTT
1 TTTTTT
12103612 AAGGTGCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:12108648 original size:16 final size:16
Alignment explanation
Indices: 12108624--12108657 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12108614 TCTATGATGC
*
12108624 AATGCCATGCAGTCAA
1 AATGCCATGCAGCCAA
*
12108640 AATGTCATGCAGCCAA
1 AATGCCATGCAGCCAA
12108656 AA
1 AA
12108658 AAAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (16 bp):
AATGCCATGCAGCCAA
Found at i:12110331 original size:23 final size:22
Alignment explanation
Indices: 12110291--12110334 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
12110281 AAATTATAAA
*
12110291 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
12110313 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
12110335 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:12110363 original size:12 final size:12
Alignment explanation
Indices: 12110342--12110409 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
12110332 GTATGTGAAT
12110342 TATA-AAATATA
1 TATATAAATATA
12110353 TATATAAATATACA
1 TATATAAATAT--A
* * *
12110367 TATTTTAATATC
1 TATATAAATATA
*
12110379 TA-ATATATATA
1 TATATAAATATA
* *
12110390 TATATAAGTATG
1 TATATAAATATA
12110402 TATATAAA
1 TATATAAA
12110410 ATTATGAAAC
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
11 11 0.26
12 21 0.50
14 10 0.24
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (12 bp):
TATATAAATATA
Found at i:12111088 original size:21 final size:21
Alignment explanation
Indices: 12111062--12111121 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
12111052 GATTACAAAA
12111062 TCATATCTTCTAAGATTGCAT
1 TCATATCTTCTAAGATTGCAT
12111083 TCATA---TCTAAGATTGCA-
1 TCATATCTTCTAAGATTGCAT
12111100 T-ATATCATATCTAAGATTGCAT
1 TCATATC-T-TCTAAGATTGCAT
12111122 ATCTTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 12 0.36
21 17 0.52
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
TCATATCTTCTAAGATTGCAT
Found at i:12111122 original size:21 final size:20
Alignment explanation
Indices: 12111070--12111123 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
12111060 AATCATATCT
12111070 TCTAAGATTGC--ATTCATA
1 TCTAAGATTGCATATTCATA
12111088 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAT-TCATA
12111109 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
12111124 CTTTGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.33
20 2 0.06
21 20 0.61
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCATATTCATA
Found at i:12112294 original size:23 final size:23
Alignment explanation
Indices: 12112249--12112296 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
12112239 AATAAAATAC
*
12112249 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
12112272 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
12112295 CC
1 CC
12112297 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:12118499 original size:16 final size:16
Alignment explanation
Indices: 12118478--12118508 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12118468 TTAACCCTTC
12118478 TTATTTACATATTTTA
1 TTATTTACATATTTTA
12118494 TTATTTACATATTTT
1 TTATTTACATATTTT
12118509 GCTTCCTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTACATATTTTA
Found at i:12119894 original size:6 final size:6
Alignment explanation
Indices: 12119878--12119918 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
12119868 TTCTTGTTGG
*
12119878 TTCTATT TTCTTT TTCTTT TTCTTT TTCTTT CTCTATT TTC
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT TTCT-TT TTC
12119919 GCATTGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 23 0.74
7 8 0.26
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:12120645 original size:23 final size:24
Alignment explanation
Indices: 12120604--12120654 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
12120594 TGTATTTGTT
* * *
12120604 TTTAAATCTAGCATTA-TTTAACA
1 TTTAAATCTAACATCATTTTAAAA
*
12120627 TTTAAATTTAACATCATTTTAAAA
1 TTTAAATCTAACATCATTTTAAAA
12120651 TTTA
1 TTTA
12120655 TCATTAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAATCTAACATCATTTTAAAA
Found at i:12132773 original size:44 final size:44
Alignment explanation
Indices: 12132624--12132783 Score: 128
Period size: 44 Copynumber: 3.6 Consensus size: 44
12132614 TAGATCGATG
* * *
12132624 AAACCACTAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTA
1 AAACCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTA
* ** * * * * * *
12132668 ACACCACAGGTCTTATCTGCGTGAAGTTCCAATGGAGCAGA-CA
1 AAACCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTA
* * *
12132711 GAAGA-AACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTA
1 -AA-ACCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTA
*
12132756 AAACCACAAATCTTATCT-CTCTGAAGTT
1 AAACCACAAATCCTATCTCCT-TGAAGTT
12132784 ACTGGTAGCT
Statistics
Matches: 85, Mismatches: 26, Indels: 10
0.70 0.21 0.08
Matches are distributed among these distances:
43 4 0.05
44 79 0.93
45 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
AAACCACAAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTA
Found at i:12134933 original size:14 final size:15
Alignment explanation
Indices: 12134914--12134948 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
12134904 TCTTATTCCC
12134914 CTTTTTTTTT-CTTT
1 CTTTTTTTTTCCTTT
12134928 CTTTTTTTTTCCTTT
1 CTTTTTTTTTCCTTT
12134943 -TTTTTT
1 CTTTTTT
12134949 CAAGAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
CTTTTTTTTTCCTTT
Found at i:12139891 original size:42 final size:42
Alignment explanation
Indices: 12139832--12139912 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
12139822 TATCACTGAA
*
12139832 TCGGACCTTTTGTACCTCGATCTTGCTCTCTTCATCGCTGTT
1 TCGGACCTTTTGTACCTCGATCTCGCTCTCTTCATCGCTGTT
*
12139874 TCGGACCTTTTGTACCTCGATCTCGCTTTCTTCATCGCT
1 TCGGACCTTTTGTACCTCGATCTCGCTCTCTTCATCGCT
12139913 CTCTTAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.10, C:0.32, G:0.16, T:0.42
Consensus pattern (42 bp):
TCGGACCTTTTGTACCTCGATCTCGCTCTCTTCATCGCTGTT
Done.