Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 48 of 206
Found at i:13741079 original size:45 final size:45
Alignment explanation
Indices: 13741025--13741135 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
13741015 TGAGTCTGCC
* * *
13741025 ATATCTATGAATCTTCTTTTATGAATCCATATGTATGAGTCCACT
1 ATATCTATGAATCTTCTTCTATGAATCCACATGTATGAGCCCACT
* *
13741070 ATATTTATGAATCTTCTTCTATGAATCCGCATGTATGAGCCCACT
1 ATATCTATGAATCTTCTTCTATGAATCCACATGTATGAGCCCACT
*
13741115 ATATCTATGAATATTCTTCTA
1 ATATCTATGAATCTTCTTCTA
13741136 CAAGTTTGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (45 bp):
ATATCTATGAATCTTCTTCTATGAATCCACATGTATGAGCCCACT
Found at i:13743008 original size:21 final size:20
Alignment explanation
Indices: 13742984--13743042 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
13742974 TCAAATGTAT
13742984 ATAAACATTAAAAATATAAAA
1 ATAAACA-TAAAAATATAAAA
*
13743005 ATAAAAATAAAAATATAAAA
1 ATAAACATAAAAATATAAAA
13743025 A-AAATTCATAAAAATATA
1 ATAAA--CATAAAAATATA
13743043 TATAATGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 14 0.41
21 17 0.50
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAACATAAAAATATAAAA
Found at i:13743074 original size:18 final size:20
Alignment explanation
Indices: 13743034--13743076 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13743024 AAAAATTCAT
*
13743034 AAAAATATATATAATGTAGA
1 AAAAACATATATAATGTAGA
*
13743054 AAAAACATATA-AAT-TATA
1 AAAAACATATATAATGTAGA
13743072 AAAAA
1 AAAAA
13743077 AGTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAACATATATAATGTAGA
Found at i:13743187 original size:19 final size:18
Alignment explanation
Indices: 13743121--13743193 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
13743111 AAATGAAAAG
* *
13743121 AAATTAGTTAAAATTAATA
1 AAATTA-TTAAAAATATTA
* *
13743140 ATATT-TTAAAAATTTTA
1 AAATTATTAAAAATATTA
*
13743157 AAATTTTATAAAAATATTA
1 AAATTAT-TAAAAATATTA
13743176 AAATGTATTAAAAATATT
1 AAAT-TATTAAAAATATT
13743194 TATTAATTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
17 13 0.30
18 1 0.02
19 28 0.64
20 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTATTAAAAATATTA
Found at i:13744112 original size:31 final size:31
Alignment explanation
Indices: 13744055--13744121 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
13744045 TGTAAAACTT
*
13744055 TTATAAAAATTATTAGAAAACTTAAATTAAAA
1 TTATAAAAAGTATTAGAAAACTTAAA-TAAAA
*
13744087 TTATAAAAAGTA-TAG-AAATTATAAATAAAA
1 TTATAAAAAGTATTAGAAAACT-TAAATAAAA
*
13744117 GTATA
1 TTATA
13744122 GCAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 13 0.42
31 7 0.23
32 11 0.35
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (31 bp):
TTATAAAAAGTATTAGAAAACTTAAATAAAA
Found at i:13745009 original size:40 final size:40
Alignment explanation
Indices: 13744965--13745099 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
13744955 TTTTGGAACA
* *
13744965 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTACCC
* * ** *
13745005 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-CCC
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTACCC
* * * * ***
13745044 AGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTATAT
1 A-AAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTACCC
13745084 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
13745100 CCTAAGACCA
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 29 0.38
40 47 0.62
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTACCC
Found at i:13745203 original size:41 final size:41
Alignment explanation
Indices: 13745138--13745416 Score: 296
Period size: 41 Copynumber: 6.8 Consensus size: 41
13745128 TTTTTTAAAC
13745138 CTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * * * *
13745178 ATTTAACGACGTTTTTATCTGAGCGCCGCTAATTCTCTGG-C
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
* *
13745219 CTTTAGCGGCGTTTTTATCTAAGCACCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * *
13745260 CGTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGG-C
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
*
13745301 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
* * * * * * *
13745342 CTTTAGCGGCATTTTTGTCTGAGCGACACTAATTCTCTGG-C
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGAT
* * *
13745383 CTTTAGCAGCGTTTGTAGCTAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG
13745417 TATTTACCTT
Statistics
Matches: 191, Mismatches: 42, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
40 11 0.06
41 175 0.92
42 5 0.03
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
Found at i:13745273 original size:82 final size:82
Alignment explanation
Indices: 13745137--13745416 Score: 427
Period size: 82 Copynumber: 3.4 Consensus size: 82
13745127 ATTTTTTAAA
* * *
13745137 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATATTTAACGACGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTGAG
13745201 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
13745218 CCTTTAGCGGCGTTTTTATCTAAGCACCGCTAATGCTCAGATCGTTAGCGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTGAG
13745283 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
13745300 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTTGGATCTTTAGCGGCATTTTTGTCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTGAG
* *
13745365 CGACACTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
13745382 CCTTTAGCAGCGTTTGTAGCTAAGCGCCGCTAATG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG
13745417 TATTTACCTT
Statistics
Matches: 181, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
81 12 0.07
82 169 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTATCTGAG
CGCCGCTAATTCTCTGG
Found at i:13745374 original size:123 final size:123
Alignment explanation
Indices: 13745140--13745456 Score: 313
Period size: 123 Copynumber: 2.6 Consensus size: 123
13745130 TTTTAAACCT
* ** * * *
13745140 TTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTC-GGATATTTAACGACGTTTTTATCTGAGCG
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG-CCTTTAGCGGCGTTTTTATCTAAGCG
* * * *
13745203 CCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCACCGCTAATGCTCAGATCG
65 CCGCTAATGCTCTGGCCTTTAGCGGCATTTTTATCTAAGCACCACTAATGCTCAGACCG
*
13745262 TTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGC
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGC
* * * * * * *
13745327 CGCTAATGCT-TGGATCTTTAGCGGCATTTTTGTCTGAGCGA-CACTAATTCTCTGGCCT
66 CGCTAATGCTCTGG-CCTTTAGCGGCATTTTTATCTAAGC-ACCACTAATGCTCAGACCG
* * * * ** * *
13745385 TTAGCAGCGTTTGTAGCTAAGCGCCGCTAATGTAT-TTACCTTTAGCGGTGTTTTT-TCCGAAGC
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAAT-TCTCTGGCCTTTAGCGGCGTTTTTAT-CTAAGC
13745448 GCCGCTAAT
64 GCCGCTAAT
13745457 AGTAACAAAA
Statistics
Matches: 162, Mismatches: 27, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
122 13 0.08
123 144 0.89
124 5 0.03
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (123 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGC
CGCTAATGCTCTGGCCTTTAGCGGCATTTTTATCTAAGCACCACTAATGCTCAGACCG
Found at i:13745428 original size:82 final size:82
Alignment explanation
Indices: 13745137--13745456 Score: 389
Period size: 82 Copynumber: 3.9 Consensus size: 82
13745127 ATTTTTTAAA
** * * * *
13745137 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATATTTAACGACGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTATGATCTTTAGCGGCATTTTTATCTGAG
13745201 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
13745218 CCTTTAGCGGCGTTTTTATCTAAGCACCGCTAATGCTCA-GATCGTTAGCGGCGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-ATGATCTTTAGCGGCATTTTTATCTGA
13745282 GCGCCGCTAATTCTCTGG
65 GCGCCGCTAATTCTCTGG
*
13745300 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-TGGATCTTTAGCGGCATTTTTGTCTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTAT-GATCTTTAGCGGCATTTTTATCTGA
* *
13745364 GCGACACTAATTCTCTGG
65 GCGCCGCTAATTCTCTGG
* * * * * ** *
13745382 CCTTTAGCAGCGTTTGTAGCTAAGCGCCGCTAATG-TATTTACCTTTAGCGGTGTTTTT-TCCGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTA-TGATCTTTAGCGGCATTTTTATCTG-
13745445 AGCGCCGCTAAT
64 AGCGCCGCTAAT
13745457 AGTAACAAAA
Statistics
Matches: 210, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
81 16 0.08
82 193 0.92
83 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTATGATCTTTAGCGGCATTTTTATCTGAG
CGCCGCTAATTCTCTGG
Found at i:13745987 original size:15 final size:15
Alignment explanation
Indices: 13745966--13746003 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13745956 TTTAAGGTTA
13745966 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
13745981 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
13745996 ATTTAGGG
1 ATTTAGGG
13746004 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:13746006 original size:14 final size:14
Alignment explanation
Indices: 13745939--13746006 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
13745929 TACGAGGTAT
*
13745939 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
13745953 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
13745965 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
13745979 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
13745994 AGATTTAGGGTTT
1 AGATTTAGGGTTT
13746007 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:13751258 original size:41 final size:41
Alignment explanation
Indices: 13751213--13751392 Score: 270
Period size: 41 Copynumber: 4.4 Consensus size: 41
13751203 CTTCACTTGA
* * * *
13751213 TAGGCTTATAGTTTAATTCCGTTCACCGGCACTTAGCCTGC
1 TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
*
13751254 TAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGC
1 TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
13751295 TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
1 TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
* * *
13751336 TAGACGTATAGTCTGATTCAATTCACCGGCACTTAGCCTGC
1 TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
* *
13751377 TAGACGTATAGTCTGA
1 TAGGCCTATAGTCTGA
13751393 ATAATTTCAC
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
TAGGCCTATAGTCTGATTCAGTTCACCGGCACTTAGCCTGC
Found at i:13751971 original size:2 final size:2
Alignment explanation
Indices: 13751964--13752002 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13751954 CTCATGAACT
13751964 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13752003 TCATACACAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13754402 original size:21 final size:21
Alignment explanation
Indices: 13754376--13754444 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
13754366 CAACTTAAAA
* *
13754376 CAGAGGCGGCAGCGAGGGAAG
1 CAGAGGCTGCAGCGAGAGAAG
*
13754397 CAGAGGATGCAGCGAGAGAAG
1 CAGAGGCTGCAGCGAGAGAAG
13754418 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCTGCAGCGAGAGAAG
13754439 CAGAGG
1 CAGAGG
13754445 TTCAAAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.46, T:0.03
Consensus pattern (21 bp):
CAGAGGCTGCAGCGAGAGAAG
Found at i:13755064 original size:128 final size:127
Alignment explanation
Indices: 13754920--13755171 Score: 357
Period size: 128 Copynumber: 2.0 Consensus size: 127
13754910 TTTGTAGATG
* * * * *
13754920 AAGCGCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTTTACC-AAGCGCCGCTATAGAACATTA
1 AAGCGCCGCTAAAGAACATGATC-ATTAGCGGC-ATTTTTACCTAAGCGCCGCTAAAGAACATGA
* * *
13754983 -CTTTTAGCGGCGTTTTTTTTCCTAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
64 TC-ATTAGCGGCG-TTTTTTTCCTAAACGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTCC
13755047 A
127 A
*
13755048 AAGCGCCGTTAAAGAACATGATCATTAGCGGCATTTTTACCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTACCTAAGCGCCGCTAAAGAACATGATC
*
13755113 ATTAGCGGCGTTTTTTTCCTAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTT
66 ATTAGCGGCGTTTTTTTCCTAAACGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTT
13755172 TCTGTAAGCG
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
127 54 0.49
128 55 0.50
129 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTACCTAAGCGCCGCTAAAGAACATGATC
ATTAGCGGCGTTTTTTTCCTAAACGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTCCA
Found at i:13755169 original size:43 final size:43
Alignment explanation
Indices: 13754876--13755190 Score: 343
Period size: 42 Copynumber: 7.3 Consensus size: 43
13754866 GTTTGTGAAA
* * ***
13754876 TAAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCG-TTTGTAGA
1 TAAGCGCCGCTAAAGAACA-TGACCTTTAGCGGCGTTTTTTTCC
* * *
13754918 TGAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCC
* * *
13754962 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTTTTTTCC
* *
13755005 TAAACGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCC
* * * * * *
13755047 AAAGCGCCGTTAAAGAACATGATCATTAGCGGC-ATTTTTACC
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCC
* *
13755089 TAAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCC
* *
13755132 TAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTC-C
*
13755176 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
13755191 TTAGCGACGT
Statistics
Matches: 240, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
42 109 0.45
43 85 0.35
44 46 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCC
Found at i:13755170 original size:85 final size:85
Alignment explanation
Indices: 13754876--13755170 Score: 355
Period size: 85 Copynumber: 3.5 Consensus size: 85
13754866 GTTTGTGAAA
* * ** *
13754876 TAAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTGTAGATGAAGCGCCGCTAAAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGACCTTTAGCGGCGTTTTTACCT-AAGCGCCGCTAAAGAACATG
*
13754940 A-CTTTTAGCGGCGTTTTTTACC
64 ATC-TTTAGCGGCGTTTTTTTCC
* * * * *
13754962 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTTCCTAAACGCCGCTAAAGAACATG
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG--TTTTTACCTAAGCGCCGCTAAAGAACATG
13755026 ATCTTTAGCGGCG-TTTTTTCC
64 ATCTTTAGCGGCGTTTTTTTCC
* * * * *
13755047 AAAGCGCCGTTAAAGAACATGATCATTAGCGGCATTTTTACCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGAT
*
13755112 CATTAGCGGCGTTTTTTTCC
66 CTTTAGCGGCGTTTTTTTCC
*
13755132 TAAGCGCCACTAAAGAACATGACCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
13755171 TTCTGTAAGC
Statistics
Matches: 179, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
84 40 0.22
85 78 0.44
86 55 0.31
87 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTACCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTTCC
Found at i:13757692 original size:25 final size:23
Alignment explanation
Indices: 13757647--13757693 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
13757637 ATTAGATATT
**
13757647 TATATTTATATTTTTTTTCTTAC
1 TATATTTATATTTTTCATCTTAC
13757670 TATATTTGAATATTTTTCATCTTA
1 TATATTT--ATATTTTTCATCTTA
13757694 ATAAATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTATATTTTTCATCTTAC
Found at i:13761355 original size:16 final size:17
Alignment explanation
Indices: 13761324--13761357 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13761314 TTTATCTAAT
13761324 TATATTTAATAATTTTA
1 TATATTTAATAATTTTA
13761341 TATATTTAA-AATTTTA
1 TATATTTAATAATTTTA
13761357 T
1 T
13761358 TAGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTAATAATTTTA
Found at i:13766496 original size:18 final size:19
Alignment explanation
Indices: 13766455--13766496 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
13766445 TTATTAAAAC
* *
13766455 ATAATATTTAAAATATGAT
1 ATAATATTAAAAATATGAA
*
13766474 GTAATATTAAAAATA-GAA
1 ATAATATTAAAAATATGAA
13766492 ATAAT
1 ATAAT
13766497 GATATAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAATATTAAAAATATGAA
Found at i:13767111 original size:26 final size:26
Alignment explanation
Indices: 13767075--13767125 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13767065 AATTAAGAGT
13767075 ATGCAAATGAGTTTTCTAAAAAAAAC
1 ATGCAAATGAGTTTTCTAAAAAAAAC
*
13767101 ATGCCAATGAGTTTTCTAAAAAAAA
1 ATGCAAATGAGTTTTCTAAAAAAAA
13767126 AAACATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (26 bp):
ATGCAAATGAGTTTTCTAAAAAAAAC
Found at i:13767782 original size:16 final size:16
Alignment explanation
Indices: 13767743--13767784 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
13767733 ACCTAGAGAG
*
13767743 TAGAGGTATATTGGAT
1 TAGAGGTGTATTGGAT
13767759 TAGAGGTGTATTGGAT
1 TAGAGGTGTATTGGAT
13767775 TAGAGGTGTA
1 TAGAGGTGTA
13767785 ATAGCAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TAGAGGTGTATTGGAT
Found at i:13768041 original size:18 final size:17
Alignment explanation
Indices: 13768020--13768054 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13768010 TTATTATTAA
*
13768020 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13768038 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13768055 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13786808 original size:9 final size:9
Alignment explanation
Indices: 13786794--13786986 Score: 79
Period size: 9 Copynumber: 20.6 Consensus size: 9
13786784 TTTTATTTTT
13786794 ATTTTTATA
1 ATTTTTATA
13786803 ATTTTTATA
1 ATTTTTATA
*
13786812 AGTTTATATAA
1 A-TTTTTAT-A
*
13786823 ATTTTAATA
1 ATTTTTATA
* *
13786832 CTTTTTATT
1 ATTTTTATA
13786841 ATTTTTATAGA
1 ATTTTTAT--A
*
13786852 ATTTTAATA
1 ATTTTTATA
*
13786861 TGTTTTTATAA
1 -ATTTTTAT-A
*
13786872 AATTTTA-A
1 ATTTTTATA
* *
13786880 ACATTTTAAA
1 A-TTTTTATA
*
13786890 TATTTTTATT
1 -ATTTTTATA
* **
13786900 AGTTTCGTA
1 ATTTTTATA
*
13786909 ATTCTTAATA
1 ATT-TTTATA
*
13786919 A--TTTATT
1 ATTTTTATA
13786926 ATTTTTATA
1 ATTTTTATA
*
13786935 TTTTTTATA
1 ATTTTTATA
*
13786944 ATATTTAT-
1 ATTTTTATA
13786952 ATTTTTATA
1 ATTTTTATA
*
13786961 AGTTTATATCA
1 A-TTTTTAT-A
*
13786972 ATTTTCATA
1 ATTTTTATA
13786981 TATTTT
1 -ATTTT
13786987 AATATTTAAT
Statistics
Matches: 135, Mismatches: 33, Indels: 31
0.68 0.17 0.16
Matches are distributed among these distances:
7 5 0.04
8 9 0.07
9 59 0.44
10 49 0.36
11 13 0.10
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13786826 original size:29 final size:29
Alignment explanation
Indices: 13786794--13786871 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
13786784 TTTTATTTTT
*
13786794 ATTTTTATAATTTTTATAAGTTTATATA-A
1 ATTTTAATAATTTTTATAA-TTTATATAGA
* * *
13786823 ATTTTAATACTTTTTATTATTTTTATAGA
1 ATTTTAATAATTTTTATAATTTATATAGA
*
13786852 ATTTTAATATGTTTTTATAA
1 ATTTTAATA-ATTTTTATAA
13786872 AATTTTAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 7 0.17
29 26 0.63
30 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (29 bp):
ATTTTAATAATTTTTATAATTTATATAGA
Found at i:13787659 original size:17 final size:17
Alignment explanation
Indices: 13787639--13787677 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13787629 TGAAAAATAC
*
13787639 AAAAATGTGAAAATTTT
1 AAAAATCTGAAAATTTT
**
13787656 AAAAATCTGTTAATTTT
1 AAAAATCTGAAAATTTT
13787673 AAAAA
1 AAAAA
13787678 ATAAAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (17 bp):
AAAAATCTGAAAATTTT
Found at i:13789361 original size:28 final size:29
Alignment explanation
Indices: 13789304--13789367 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
13789294 AACTTATAAA
*
13789304 AAAAATTACTAGTAATTATAACAAGTTGT
1 AAAAATTACTAGTAATTATAACAACTTGT
13789333 AAAAATTACTAGTAATTATAA-AACTTGT
1 AAAAATTACTAGTAATTATAACAACTTGT
13789361 AAAAATT
1 AAAAATT
13789368 TCAAAACAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (29 bp):
AAAAATTACTAGTAATTATAACAACTTGT
Found at i:13789633 original size:19 final size:20
Alignment explanation
Indices: 13789609--13789648 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13789599 ACTGAAAGTT
*
13789609 AAAATTTTTTA-AAATAAAA
1 AAAATTATTTATAAATAAAA
*
13789628 AAAATTATTTATCAATAAAA
1 AAAATTATTTATAAATAAAA
13789648 A
1 A
13789649 GGAGAGAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTATTTATAAATAAAA
Found at i:13789832 original size:10 final size:10
Alignment explanation
Indices: 13789817--13790053 Score: 70
Period size: 10 Copynumber: 23.9 Consensus size: 10
13789807 TTATGATTTC
13789817 TATTTTTATA
1 TATTTTTATA
13789827 TATTTTTATA
1 TATTTTTATA
*
13789837 -ATTTATTAGA
1 TATTT-TTATA
*
13789847 -GTTTTTATA
1 TATTTTTATA
*
13789856 T-TATTTATA
1 TATTTTTATA
13789865 -AGTTTTTATGA
1 TA-TTTTTAT-A
*
13789876 -ATTTTTACA
1 TATTTTTATA
*
13789885 -AGCTTTTATA
1 TA-TTTTTATA
* *
13789895 AAATTTTATA
1 TATTTTTATA
* *
13789905 TA-CTTTAAA
1 TATTTTTATA
*
13789914 CATGTTTT-TA
1 TAT-TTTTATA
*
13789924 TATGCTTTACTA
1 TAT-TTTTA-TA
* *
13789936 -GTTTTTATTT
1 TATTTTTA-TA
13789946 TTATTTTTATA
1 T-ATTTTTATA
13789957 TATTTTTA-A
1 TATTTTTATA
* *
13789966 -GTTTTTATG
1 TATTTTTATA
* *
13789975 GATTCTTTAAA
1 TATT-TTTATA
*
13789986 TATTTTTTTA
1 TATTTTTATA
*
13789996 TCATTTTTCTA
1 T-ATTTTTATA
13790007 TATTTTT-TA
1 TATTTTTATA
** *
13790016 TAAGTTTATT
1 TATTTTTATA
13790026 TATTTATTA-A
1 TATTT-TTATA
13790036 TA-TTTTATA
1 TATTTTTATA
13790045 TATTTTTAT
1 TATTTTTAT
13790054 GATTATATGA
Statistics
Matches: 168, Mismatches: 38, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
8 9 0.05
9 36 0.21
10 87 0.52
11 28 0.17
12 8 0.05
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (10 bp):
TATTTTTATA
Found at i:13789840 original size:19 final size:19
Alignment explanation
Indices: 13789818--13790053 Score: 69
Period size: 19 Copynumber: 11.9 Consensus size: 19
13789808 TATGATTTCT
13789818 ATTTTTATATATTTTTATA
1 ATTTTTATATATTTTTATA
* *
13789837 ATTTATTAGA-GTTTTTAT-
1 ATTT-TTATATATTTTTATA
13789855 ATTATTTATA-AGTTTTTATGA
1 ATT-TTTATATA-TTTTTAT-A
* *
13789876 ATTTTTACA-AGCTTTTATAA
1 ATTTTTATATA-TTTTTAT-A
* * *
13789896 AATTTTATATA-CTTTAAA
1 ATTTTTATATATTTTTATA
*
13789914 CATGTTTT-TATATGCTTTACTA
1 -AT-TTTTATATAT-TTTTA-TA
* *
13789936 GTTTTTATTTTTATTTTTATA
1 ATTTTTA--TATATTTTTATA
* *
13789957 TATTTTTA-A-GTTTTTATGG
1 -ATTTTTATATATTTTTAT-A
* *
13789976 ATTCTTTAAATATTTTTTTATC
1 ATT-TTT--ATATATTTTTATA
*
13789998 ATTTTTCTATATTTTTTATA
1 ATTTTTATATA-TTTTTATA
* * *
13790018 A-GTTTATTTATTTAT-TA
1 ATTTTTATATATTTTTATA
13790035 ATATTTTATATATTTTTAT
1 AT-TTTTATATATTTTTAT
13790054 GATTATATGA
Statistics
Matches: 160, Mismatches: 32, Indels: 49
0.66 0.13 0.20
Matches are distributed among these distances:
17 3 0.02
18 22 0.14
19 51 0.32
20 42 0.26
21 16 0.10
22 15 0.09
23 11 0.07
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTTATATATTTTTATA
Found at i:13789851 original size:29 final size:29
Alignment explanation
Indices: 13789818--13789882 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
13789808 TATGATTTCT
*
13789818 ATTTTTATATATTTTTATAA-TTTATTA-GA
1 ATTTTTATAT-TATTTATAAGTTT-TTATGA
*
13789847 GTTTTTATATTATTTATAAGTTTTTATGA
1 ATTTTTATATTATTTATAAGTTTTTATGA
13789876 ATTTTTA
1 ATTTTTA
13789883 CAAGCTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (29 bp):
ATTTTTATATTATTTATAAGTTTTTATGA
Found at i:13789882 original size:20 final size:19
Alignment explanation
Indices: 13789818--13789895 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
13789808 TATGATTTCT
13789818 ATTTTTATATA-TTTTTATA
1 ATTTTTATA-AGTTTTTATA
*
13789837 ATTTATTA-GAGTTTTTAT-
1 ATTT-TTATAAGTTTTTATA
13789855 ATTATTTATAAGTTTTTATGA
1 ATT-TTTATAAGTTTTTAT-A
* *
13789876 ATTTTTACAAGCTTTTATA
1 ATTTTTATAAGTTTTTATA
13789895 A
1 A
13789896 AATTTTATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 7 0.14
19 23 0.47
20 16 0.33
21 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (19 bp):
ATTTTTATAAGTTTTTATA
Found at i:13790611 original size:2 final size:2
Alignment explanation
Indices: 13790604--13790634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13790594 TTAAGTCTTT
*
13790604 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13790635 TATCAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:13791556 original size:17 final size:19
Alignment explanation
Indices: 13791524--13791558 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13791514 ATGAGAATTT
13791524 TTTTTATATATTTTCTGAA
1 TTTTTATATATTTTCTGAA
13791543 TTTTTA-AT-TTTTCTGA
1 TTTTTATATATTTTCTGA
13791559 TAGATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTTTATATATTTTCTGAA
Found at i:13795675 original size:17 final size:18
Alignment explanation
Indices: 13795644--13795677 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13795634 CTCTAATTTA
*
13795644 CATTATAATTTAGTAAAC
1 CATTATAATTAAGTAAAC
13795662 CATTA-AATTAAGTAAA
1 CATTATAATTAAGTAAA
13795678 TAGTTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
CATTATAATTAAGTAAAC
Found at i:13796830 original size:24 final size:24
Alignment explanation
Indices: 13796802--13796850 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13796792 CGTATCTAAT
*
13796802 TATGAAAATACATTTGACTCTGTA
1 TATGAAAATACATTTGAATCTGTA
* **
13796826 TATGAGAATATGTTTGAATCTGTA
1 TATGAAAATACATTTGAATCTGTA
13796850 T
1 T
13796851 CTAAAAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (24 bp):
TATGAAAATACATTTGAATCTGTA
Found at i:13799988 original size:29 final size:29
Alignment explanation
Indices: 13799951--13800006 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
13799941 AGTCATATGA
13799951 GCTTATGTTAGGCCATGTGGGCCACACGG
1 GCTTATGTTAGGCCATGTGGGCCACACGG
* ***
13799980 GCTTGTGTTAGGTTGTGTGGGCCACAC
1 GCTTATGTTAGGCCATGTGGGCCACAC
13800007 AGACTGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.36, T:0.29
Consensus pattern (29 bp):
GCTTATGTTAGGCCATGTGGGCCACACGG
Found at i:13804239 original size:18 final size:17
Alignment explanation
Indices: 13804210--13804252 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
13804200 TTGTTAACTT
13804210 TGTTGATGTCACATACA
1 TGTTGATGTCACATACA
*
13804227 TGTTGATTGTCACATAGA
1 TGTTGA-TGTCACATACA
13804245 TGTT-ATGT
1 TGTTGATGT
13804253 AAGCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 14 0.58
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (17 bp):
TGTTGATGTCACATACA
Found at i:13804295 original size:18 final size:18
Alignment explanation
Indices: 13804274--13804339 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 18
13804264 TAATTTTTTA
13804274 AAATTTTTTAAAAAATAT
1 AAATTTTTTAAAAAATAT
* *
13804292 AAATATTATAAAAAA-AT
1 AAATTTTTTAAAAAATAT
* * *
13804309 --ATTTTTTAATAATTTT
1 AAATTTTTTAAAAAATAT
13804325 AAA-TTTTTAAAAAAT
1 AAATTTTTTAAAAAAT
13804340 TAATTAATTG
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
15 9 0.25
16 1 0.03
17 12 0.33
18 14 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTTTTAAAAAATAT
Found at i:13804328 original size:33 final size:32
Alignment explanation
Indices: 13804276--13804338 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
13804266 ATTTTTTAAA
13804276 ATTTTTTAAAAAATATAAATATTATAAAAAAAT
1 ATTTTTTAAAAAATATAAAT-TTATAAAAAAAT
* * * *
13804309 ATTTTTTAATAATTTTAAATTTTTAAAAAA
1 ATTTTTTAAAAAATATAAATTTATAAAAAA
13804339 TTAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 9 0.35
33 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTTTTTAAAAAATATAAATTTATAAAAAAAT
Found at i:13805028 original size:21 final size:21
Alignment explanation
Indices: 13805004--13805048 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
13804994 TACACCAAAA
*
13805004 TAGGCTTTTAGCGGCGCTTTT
1 TAGGCCTTTAGCGGCGCTTTT
13805025 TAGGCCTTTAGCGGCGCTTTT
1 TAGGCCTTTAGCGGCGCTTTT
13805046 TAG
1 TAG
13805049 TGCCGCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.40
Consensus pattern (21 bp):
TAGGCCTTTAGCGGCGCTTTT
Found at i:13805259 original size:43 final size:43
Alignment explanation
Indices: 13805205--13805347 Score: 198
Period size: 43 Copynumber: 3.3 Consensus size: 43
13805195 AGACTAAGAC
* * *
13805205 CTTTAGTGGCGTTTGTGGTCAAAACGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTATAGATCAGGGT
* *
13805248 CTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTATAGATCAGGGT
* * *
13805291 CTTTAGCGGCGTTTTTGCGGC-AAGCGCCGCTAAAGATTAGGGT
1 CTTTAGCGGCGTTTGTG-GGCAAAGCGCCGCTATAGATCAGGGT
13805334 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
13805348 CTCCCTAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 87 0.98
44 2 0.02
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTATAGATCAGGGT
Found at i:13805362 original size:43 final size:43
Alignment explanation
Indices: 13805225--13805369 Score: 164
Period size: 43 Copynumber: 3.4 Consensus size: 43
13805215 GTTTGTGGTC
* * * *
13805225 AAAACGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTGTGGGG
1 AAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTCTGCGG
* * *
13805268 AAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGG
1 AAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTCTGCGG
* * * * **
13805311 CAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
1 AAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTCTGCGG
*
13805354 AAAACGCCGCAAAAGA
1 AAAACGCCGCTAAAGA
13805370 CCCTGATCTA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTCTGCGG
Found at i:13805486 original size:42 final size:43
Alignment explanation
Indices: 13805333--13805538 Score: 213
Period size: 43 Copynumber: 4.8 Consensus size: 43
13805323 AAGATTAGGG
* * *
13805333 TCTTTAGCGGCG-TTTCTCCCTA-AAACGCCGCAAAAGACCCTGA
1 TCTTTAGCGGCGCTTT-TACC-ACAAACGCCGCTAAAGAACCTGA
* ** * *
13805376 TCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACCTGA
** * *
13805419 TCTTTAGCGGCGCTTTCCCCACAAACGCTGCGAAAG-ACCATGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACC-TGA
* *
13805462 TCTTTAG-GGCGCTTTTTCCACAAACGCCGCTAAAGAACCTTA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACCTGA
* *
13805504 TCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA
13805539 TTTGGCAGAT
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 37 0.28
43 95 0.71
44 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACCTGA
Found at i:13805507 original size:85 final size:87
Alignment explanation
Indices: 13805333--13805532 Score: 257
Period size: 85 Copynumber: 2.3 Consensus size: 87
13805323 AAGATTAGGG
*
13805333 TCTTTAGCGGCG-TTTCTCCCTAAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCA
1 TCTTTAGCGGCGCTTTCTCCCTAAAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTCGACCA
13805397 CAAACGCCACTAAAGAACCTAA
66 CAAACGCCACTAAAGAACCTAA
* * * ***
13805419 TCTTTAGCGGCGCTTTC-CCC-ACAAACGCTGCGAAAGACCATGATCTTTAG-GGCGCTTTTTCC
1 TCTTTAGCGGCGCTTTCTCCCTA-AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTCGACC
* *
13805481 ACAAACGCCGCTAAAGAACCTTA
65 ACAAACGCCACTAAAGAACCTAA
* *
13805504 TCTTTAGCGGCGCTTT-TACCAAAAACGCC
1 TCTTTAGCGGCGCTTTCTCCCTAAAACGCC
13805533 ACTAAATTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
85 55 0.56
86 40 0.40
87 4 0.04
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (87 bp):
TCTTTAGCGGCGCTTTCTCCCTAAAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTCGACCA
CAAACGCCACTAAAGAACCTAA
Found at i:13805874 original size:21 final size:21
Alignment explanation
Indices: 13805848--13805960 Score: 145
Period size: 21 Copynumber: 5.4 Consensus size: 21
13805838 TTTGACGCTA
13805848 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
13805869 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
13805890 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
13805911 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
13805932 CTGTACTTCTCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
13805953 ATCTGCTT
1 CTCTGCTT
13805961 TCAGTTGTAG
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:13811663 original size:9 final size:9
Alignment explanation
Indices: 13811646--13812028 Score: 118
Period size: 9 Copynumber: 43.2 Consensus size: 9
13811636 TAAGTATAAT
*
13811646 TAAGCTATG
1 TAAGTTATG
13811655 TAAGTTATG
1 TAAGTTATG
13811664 T-A-TTATG
1 TAAGTTATG
13811671 TAAGTTATG
1 TAAGTTATG
13811680 TAAGTTAT-
1 TAAGTTATG
*
13811688 TTA-TTATG
1 TAAGTTATG
* * *
13811696 CAAATTAAG
1 TAAGTTATG
13811705 TAAGTTATG
1 TAAGTTATG
* *
13811714 TAATTTACG
1 TAAGTTATG
*
13811723 -AA-TAAT-
1 TAAGTTATG
***
13811729 TAAAAAAATG
1 T-AAGTTATG
13811739 TAAGTTATG
1 TAAGTTATG
13811748 TAAG-T-TG
1 TAAGTTATG
13811755 TAAGTTATG
1 TAAGTTATG
*
13811764 TAAGTTACG
1 TAAGTTATG
* *
13811773 T-A-TAATAA
1 TAAGTTAT-G
**
13811781 TAA-TTAAC
1 TAAGTTATG
*
13811789 TAATTTATG
1 TAAGTTATG
*
13811798 TAATTTATG
1 TAAGTTATG
*
13811807 TATA-ATAT-
1 TA-AGTTATG
13811815 TAA-TTAAT-
1 TAAGTT-ATG
13811823 TAAGTTATG
1 TAAGTTATG
*
13811832 TAATTTATG
1 TAAGTTATG
13811841 TATA-TTAAT-
1 TA-AGTT-ATG
13811850 TAAGTTATG
1 TAAGTTATG
*
13811859 TAATTTATG
1 TAAGTTATG
*
13811868 TATAATATTAATG
1 --TAA-GTT-ATG
13811881 TAAGTTATG
1 TAAGTTATG
13811890 TAAG-T-TG
1 TAAGTTATG
13811897 TAAGTTATG
1 TAAGTTATG
13811906 TAAGTTATG
1 TAAGTTATG
*
13811915 TATAATATTAATG
1 --TAA-GTT-ATG
13811928 TAAGTTATG
1 TAAGTTATG
*
13811937 TATA-ATAT-
1 TA-AGTTATG
13811945 TAA-TTCAT-
1 TAAGTT-ATG
13811953 TAAGTTATG
1 TAAGTTATG
*
13811962 TAATTTATG
1 TAAGTTATG
*
13811971 TATAATATTAATG
1 --TAA-GTT-ATG
13811984 TAAGTTATG
1 TAAGTTATG
*
13811993 TATA-ATAT-
1 TA-AGTTATG
**
13812001 TAA-TTAAC
1 TAAGTTATG
13812009 TAAGTTATG
1 TAAGTTATG
*
13812018 TAATTTATG
1 TAAGTTATG
13812027 TA
1 TA
13812029 TAATACTAAT
Statistics
Matches: 288, Mismatches: 44, Indels: 84
0.69 0.11 0.20
Matches are distributed among these distances:
7 33 0.11
8 44 0.15
9 165 0.57
10 13 0.05
11 18 0.06
12 6 0.02
13 9 0.03
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13811672 original size:16 final size:16
Alignment explanation
Indices: 13811651--13811681 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13811641 ATAATTAAGC
13811651 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
13811667 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
13811682 AGTTATTTAT
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:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:13811674 original size:25 final size:25
Alignment explanation
Indices: 13811646--13811715 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
13811636 TAAGTATAAT
*
13811646 TAAGCTATGTAAGTTATGTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
*
13811671 TAAGTTATGTAAGTTATTTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
* * *
13811696 CAAATTAAGTAAGTTATGTA
1 TAAGTTATGTAAGTTATGTA
13811716 ATTTACGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTATTATG
Found at i:13811758 original size:16 final size:16
Alignment explanation
Indices: 13811737--13811769 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13811727 ATTAAAAAAA
13811737 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
13811753 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
13811769 T
1 T
13811770 ACGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:13811810 original size:34 final size:33
Alignment explanation
Indices: 13811755--13812088 Score: 241
Period size: 34 Copynumber: 10.3 Consensus size: 33
13811745 ATGTAAGTTG
* * *
13811755 TAAGTTATGTAAGTTACGTATAATAATAATTAA
1 TAAGTTATGTAATTTATGTATAATATTAATTAA
*
13811788 CTAATTTATGTAATTTATGTATAATATTAATTAA
1 -TAAGTTATGTAATTTATGTATAATATTAATTAA
13811822 TTAAGTTATGTAATTTATG--T-ATATTAA-T--
1 -TAAGTTATGTAATTTATGTATAATATTAATTAA
*
13811850 TAAGTTATGTAATTTATGTATAATATTAA-T-G
1 TAAGTTATGTAATTTATGTATAATATTAATTAA
*
13811881 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGT-A-TAA
1 TAAGTTATGTAA-TT-TATG-TA--TAA--TAT-TAATTAA
* *
13811920 T-A-TTAATGTAAGTTATGTATAATATTAATTCAT
1 TAAGTT-ATGTAATTTATGTATAATATTAATT-AA
13811953 TAAGTTATGTAATTTATGTAT-A-A-T-A-T--
1 TAAGTTATGTAATTTATGTATAATATTAATTAA
*
13811979 T-A---ATGTAAGTTATGTATAATATTAATTAA
1 TAAGTTATGTAATTTATGTATAATATTAATTAA
13812008 CTAAGTTATGTAATTTATGTATAATACTAATTAATTAA
1 -TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAA
*
13812046 TTAAGTTATGTAATTTATGTATAATATTAA-T-G
1 -TAAGTTATGTAATTTATGTATAATATTAATTAA
13812078 TAAGTTATGTA
1 TAAGTTATGTA
13812089 TAACATTAAT
Statistics
Matches: 249, Mismatches: 16, Indels: 73
0.74 0.05 0.22
Matches are distributed among these distances:
22 14 0.06
23 1 0.00
24 1 0.00
25 2 0.01
26 2 0.01
27 19 0.08
29 2 0.01
30 12 0.05
31 36 0.14
32 5 0.02
33 10 0.04
34 82 0.33
35 6 0.02
36 8 0.03
37 5 0.02
38 42 0.17
39 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (33 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAA
Found at i:13811812 original size:84 final size:86
Alignment explanation
Indices: 13811652--13811834 Score: 214
Period size: 84 Copynumber: 2.2 Consensus size: 86
13811642 TAATTAAGCT
* ** * * *
13811652 ATGTAAGTTATGT-ATTATGTAAGTTATGTAAGTTATTTATTATGCAAATTAAGTAAGTTATGTA
1 ATGTAAGTTATGTAAGTATGTAAGTTATGTAAGTTACGTATAATGAAAATTAACTAAGTTATGTA
13811716 ATTTACGAATAAT-TAAAAAA
66 ATTTACGAATAATATAAAAAA
*
13811736 ATGTAAGTTATGTAAGT-TGTAAGTTATGTAAGTTACGTATAAT-AATAATTAACTAATTTATGT
1 ATGTAAGTTATGTAAGTATGTAAGTTATGTAAGTTACGTATAATGAA-AATTAACTAAGTTATGT
* * * **
13811799 AATTTATGTATAATATTAATTA
65 AATTTACGAATAATATAAAAAA
13811821 AT-TAAGTTATGTAA
1 ATGTAAGTTATGTAA
13811835 TTTATGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
83 1 0.01
84 75 0.89
85 8 0.10
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (86 bp):
ATGTAAGTTATGTAAGTATGTAAGTTATGTAAGTTACGTATAATGAAAATTAACTAAGTTATGTA
ATTTACGAATAATATAAAAAA
Found at i:13811900 original size:16 final size:16
Alignment explanation
Indices: 13811879--13811911 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13811869 ATAATATTAA
13811879 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
13811895 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
13811911 T
1 T
13811912 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:13811957 original size:56 final size:56
Alignment explanation
Indices: 13811897--13812110 Score: 247
Period size: 56 Copynumber: 3.8 Consensus size: 56
13811887 ATGTAAGTTG
*
13811897 TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTCAT
1 TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
* *
13811953 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
* * * *
13812009 TAAGTTATGTAATTTATGTATAATACTAAT-TAA-TTAAT-TA-AGTTATGTAATTTATGT
1 TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTT-ATGTATA-ATAT-TAA-TTA-AT
* *
13812066 ATAATATTAATGTAAGTTATGTATAACATTAATGTAAGTTATGTA
1 -TAA-GTT-ATGTAAGTTATGTATAATATTAATGTAAGTTATGTA
13812111 ATCTATGTAT
Statistics
Matches: 136, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
53 1 0.01
54 7 0.05
55 8 0.06
56 85 0.62
58 3 0.02
59 2 0.01
60 21 0.15
61 5 0.04
62 4 0.03
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (56 bp):
TAAGTTATGTAAGTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTAAT
Found at i:13811984 original size:22 final size:22
Alignment explanation
Indices: 13811959--13812110 Score: 105
Period size: 22 Copynumber: 6.6 Consensus size: 22
13811949 TCATTAAGTT
13811959 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
13811981 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
* *
13812003 AT-TAACTAAGTTATGTAATTTATGTATA
1 ATGTAA-T---TTATGT-A-TAATAT-TA
* * *
13812031 ATACTAATTAAT-TAATTAA-GTT-
1 AT-GTAATTTATGT-A-TAATATTA
13812053 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
* *
13812075 ATGTAAGTTATGTATAACATTA
1 ATGTAATTTATGTATAATATTA
*
13812097 ATGTAAGTTATGTA
1 ATGTAATTTATGTA
13812111 ATCTATGTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.03
21 13 0.12
22 60 0.56
23 1 0.01
24 2 0.02
25 12 0.11
26 4 0.04
27 4 0.04
28 4 0.04
29 1 0.01
30 3 0.03
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:13812507 original size:13 final size:15
Alignment explanation
Indices: 13812488--13812528 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
13812478 CATATAAGTT
13812488 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
13812502 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
13812516 TTATGTAAGTTAT
1 -TATGTAAGTTAT
13812529 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:13812523 original size:16 final size:16
Alignment explanation
Indices: 13812487--13812565 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
13812477 ACATATAAGT
13812487 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
13812502 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
13812516 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
13812534 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
13812550 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
13812566 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:13816353 original size:10 final size:10
Alignment explanation
Indices: 13816340--13816376 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13816330 AACTATATAT
13816340 ATATATATCC
1 ATATATATCC
*
13816350 ATATATATTC
1 ATATATATCC
13816360 ATATATATCC
1 ATATATATCC
13816370 ATATATA
1 ATATATA
13816377 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:13818235 original size:14 final size:14
Alignment explanation
Indices: 13818216--13818283 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
13818206 ATGACCGTTG
13818216 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
13818230 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
13818245 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
13818258 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
13818271 AAACCTTAAATCT
1 AAACCCTAAATCT
13818284 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:13818239 original size:15 final size:15
Alignment explanation
Indices: 13818219--13818256 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13818209 ACCGTTGAAA
13818219 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
13818234 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
13818249 CCCTAAAT
1 CCCTAAAT
13818257 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:13818944 original size:82 final size:82
Alignment explanation
Indices: 13818824--13819085 Score: 348
Period size: 82 Copynumber: 3.2 Consensus size: 82
13818814 GCTTACCTAT
* * *
13818824 AAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTCAGATAAAAACACCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
13818889 TTAGCGGCGCTTAGA-A
66 TTAGCGGCGCTTAGAGA
* * * *
13818905 AAAATTGCCGCTAAAGGCCAGAGAATTAGTGGCGTTCAGATAAAAACGCCACTAAAGATACGAGC
1 AAAA-CGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAAC
13818970 ATTAGCGGCGCTTAGAGA
65 ATTAGCGGCGCTTAGAGA
* * * *
13818988 AAAACGCCGCTAAAGGTCATAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* * * *
13819052 ATTAGCGGCTCTAAAATA
65 ATTAGCGGCGCTTAGAGA
*
13819070 AAAACACCGCTAAAGG
1 AAAACGCCGCTAAAGG
13819086 TTTAAAAATC
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
81 5 0.03
82 149 0.94
83 5 0.03
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAGA
Found at i:13819055 original size:41 final size:41
Alignment explanation
Indices: 13818764--13819084 Score: 242
Period size: 41 Copynumber: 7.8 Consensus size: 41
13818754 TTTTGTTACT
** * *
13818764 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGGT-AAATGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGATCAGA-GC
* * ** *
13818805 ATTCGCGGCGCTTACCTATAAAACGCCGCTAAA-AGCCAGAGC
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGA-TCAGAGC
* * *
13818847 ATTAGTGGCGCTCAGATAAAAACACCACTAAAGATACTA-A-C
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGAT-C-AGAGC
* * ** *
13818888 ATTAGCGGCGCTTAGA-AAAAATTGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAA-CGCCGCTAAAGATCAGAGC
* * *
13818929 ATTAGTGGCGTTCAGATAAAAACGCCACTAAAGAT-ACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCA-GAGC
* * * *
13818970 ATTAGCGGCGCTTAGAGAAAAACGCCGCTAAAGGTCATAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGAGC
* * *
13819011 ATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATCGGACC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGAGC
* * * *
13819052 ATTAGCGGCTCTAAAATAAAAACACCGCTAAAG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG
13819085 GTTTAAAAAT
Statistics
Matches: 216, Mismatches: 51, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
39 1 0.00
40 9 0.04
41 165 0.76
42 38 0.18
43 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCAGAGC
Found at i:13820199 original size:12 final size:12
Alignment explanation
Indices: 13820182--13820214 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13820172 CACGATATAG
13820182 ATGTAAAAATTT
1 ATGTAAAAATTT
13820194 ATGTAAAAAATTT
1 ATGT-AAAAATTT
13820207 AT-TAAAAA
1 ATGTAAAAA
13820215 CTTAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 5 0.25
13 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (12 bp):
ATGTAAAAATTT
Found at i:13820204 original size:13 final size:13
Alignment explanation
Indices: 13820182--13820214 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
13820172 CACGATATAG
13820182 ATGT-AAAAATTT
1 ATGTAAAAAATTT
13820194 ATGTAAAAAATTT
1 ATGTAAAAAATTT
13820207 AT-TAAAAA
1 ATGTAAAAA
13820215 CTTAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (13 bp):
ATGTAAAAAATTT
Found at i:13826028 original size:21 final size:21
Alignment explanation
Indices: 13825986--13826028 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13825976 ACCTACTATT
**
13825986 TTACTGGTAGTTTATCTGCAA
1 TTACTGGTAGTTTATCCACAA
*
13826007 TTACTGGTGGTTTATCCACAA
1 TTACTGGTAGTTTATCCACAA
13826028 T
1 T
13826029 GCGTTGTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (21 bp):
TTACTGGTAGTTTATCCACAA
Found at i:13837580 original size:31 final size:31
Alignment explanation
Indices: 13837449--13837579 Score: 131
Period size: 31 Copynumber: 4.3 Consensus size: 31
13837439 GTATATATTA
13837449 TATACATTGCTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTTATTTGTATATGGT
* ** * * *
13837480 TATACATTGTTGAAATAGAATTGTATGTGGA
1 TATACATTGCTGAAATTTATTTGTATATGGT
* * * **
13837511 TATA-AGTTGCCGAAA-TAATTCGTATATAAT
1 TATACA-TTGCTGAAATTTATTTGTATATGGT
*
13837541 TATACATTACTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTTATTTGTATATGGT
13837572 TATACATT
1 TATACATT
13837580 ATCGAAGTTG
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
30 19 0.25
31 56 0.75
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (31 bp):
TATACATTGCTGAAATTTATTTGTATATGGT
Found at i:13837612 original size:92 final size:91
Alignment explanation
Indices: 13837439--13837671 Score: 252
Period size: 92 Copynumber: 2.5 Consensus size: 91
13837429 TAATTTAAAT
* * * *
13837439 GTATATATTATATACATTGCTGAAATTTATTTGTATATGGTTATACATTGTTGAAATAGAATTGT
1 GTATATAAT-TATACATT-CTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTAT
** * *
13837504 ATGTGGATATAAGTTGCCGAAATAATTC
64 ATAAGAAAATAAGTTGCCGAAATAATTC
* * *
13837532 GTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAGTTGATTTATA
1 GTATATAATTATACATT-CTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTATA
* * *
13837597 TAAGAAAATAGGTTGCCGAATTGATTC
65 TAAGAAAATAAGTTGCCGAAATAATTC
* * **
13837624 GTATATGATTATACATTGTCG-AATTTGATTCATATATGGTTATACATT
1 GTATATAATTATACATTCT-GAAATTT-ATTTGTATATGGTTATACATT
13837672 GCCAAATTGA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
91 6 0.05
92 105 0.88
93 8 0.07
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (91 bp):
GTATATAATTATACATTCTGAAATTTATTTGTATATGGTTATACATTATCGAAATAGAATTATAT
AAGAAAATAAGTTGCCGAAATAATTC
Found at i:13837653 original size:31 final size:31
Alignment explanation
Indices: 13837528--13837740 Score: 137
Period size: 31 Copynumber: 6.9 Consensus size: 31
13837518 TGCCGAAATA
* *
13837528 ATTCGTATATAATTATACATT-ACTGAAATTT-
1 ATTCGTATATGATTATACATTGTC-G-AATTTG
* * * *
13837559 ATTTGTATATGGTTATACATTATCGAAGTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
** * ** ** *
13837590 ATTTATATAAGAAAATAGGTTGCCGAA-TTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
13837620 ATTCGTATATGATTATACATTGTCGAATTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
* * * *
13837651 ATTCATATATGGTTATACATTG-CCAAATTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
* * ** * *
13837681 ATTTGTGTATGATTATATGTTGCCAAATTTG
1 ATTCGTATATGATTATACATTGTCGAATTTG
* * *
13837712 ATTCGTATATGAATATAAATTGTTGAATT
1 ATTCGTATATGATTATACATTGTCGAATT
13837741 GACTTGAGCA
Statistics
Matches: 136, Mismatches: 42, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
30 48 0.35
31 87 0.64
32 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (31 bp):
ATTCGTATATGATTATACATTGTCGAATTTG
Found at i:13837674 original size:61 final size:61
Alignment explanation
Indices: 13837528--13837742 Score: 178
Period size: 61 Copynumber: 3.5 Consensus size: 61
13837518 TGCCGAAATA
* * * * * * * *
13837528 ATTCGTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAGTTG
1 ATTCATATATGATTATACATTGCCG-AATTGATTTGTATATGATTATACATTGTCGAATTTG
* * ** ** *
13837590 ATTTATATAAGAAAATAGGTTGCCGAATTGATTCGTATATGATTATACATTGTCGAATTTG
1 ATTCATATATGATTATACATTGCCGAATTGATTTGTATATGATTATACATTGTCGAATTTG
* * * ** * *
13837651 ATTCATATATGGTTATACATTGCCAAATTGATTTGTGTATGATTATATGTTGCCAAATTTG
1 ATTCATATATGATTATACATTGCCGAATTGATTTGTATATGATTATACATTGTCGAATTTG
* * * **
13837712 ATTCGTATATGAATATAAATTGTTGAATTGA
1 ATTCATATATGATTATACATTGCCGAATTGA
13837743 CTTGAGCATT
Statistics
Matches: 117, Mismatches: 36, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
61 102 0.87
62 15 0.13
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (61 bp):
ATTCATATATGATTATACATTGCCGAATTGATTTGTATATGATTATACATTGTCGAATTTG
Found at i:13837713 original size:92 final size:91
Alignment explanation
Indices: 13837528--13837740 Score: 223
Period size: 92 Copynumber: 2.3 Consensus size: 91
13837518 TGCCGAAATA
* * ** * * *
13837528 ATTCGTATATAATTATACATT-ACTGAAATTTATTTGTATATGGTTATACATTATCGAAGTTGAT
1 ATTCGTATATGATTATACATTGTC-G-AATTTATTCATATATGGTTATACATTAGCCAAATTGAT
*
13837592 TTATATAAGAAAATAGGTTGCCGAATTG
64 TTATATAAGAAAATAGGTTGCCAAATTG
13837620 ATTCGTATATGATTATACATTGTCGAATTTGATTCATATATGGTTATACATT-GCCAAATTGATT
1 ATTCGTATATGATTATACATTGTCGAATTT-ATTCATATATGGTTATACATTAGCCAAATTGATT
* * * ** *
13837684 TGTGTATGATTATATGTTGCCAAATTTG
65 TATATAAGAAAATAGGTTGCCAAA-TTG
* * *
13837712 ATTCGTATATGAATATAAATTGTTGAATT
1 ATTCGTATATGATTATACATTGTCGAATT
13837741 GACTTGAGCA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
91 31 0.31
92 69 0.68
93 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (91 bp):
ATTCGTATATGATTATACATTGTCGAATTTATTCATATATGGTTATACATTAGCCAAATTGATTT
ATATAAGAAAATAGGTTGCCAAATTG
Found at i:13837904 original size:41 final size:41
Alignment explanation
Indices: 13837859--13838131 Score: 336
Period size: 41 Copynumber: 6.7 Consensus size: 41
13837849 GAACTTCGGA
*
13837859 CGTGTAAGACCATGTCTGGGACATTTGCATCGTATATGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
13837900 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
13837941 CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATT
13837983 ACGTGTAAGACCATGTCT--G-----GGCATCGTATATGATT
1 -CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
13838018 CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATT
*
13838060 CGTGTAAGACCATAG-CTGGG-CTATTGGCATCGATATATGATAG
1 CGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCG-TATATGAT-T
* * *
13838103 CATGTAAGACCATATCTGGGATA-TGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
13838132 TGTGCGAGTT
Statistics
Matches: 207, Mismatches: 5, Indels: 39
0.82 0.02 0.16
Matches are distributed among these distances:
34 17 0.08
35 4 0.02
36 8 0.04
37 4 0.02
40 8 0.04
41 81 0.39
42 45 0.22
43 36 0.17
44 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
Found at i:13838024 original size:34 final size:35
Alignment explanation
Indices: 13837966--13838037 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 35
13837956 CTGGGACATT
13837966 GGCATCGATATGAGATTACGTGTAAGACCATGTCTG
1 GGCATCGATAT-AGATTACGTGTAAGACCATGTCTG
13838002 GGCATCG-TATATGATT-CGTGTAAGACCATGTCTG
1 GGCATCGATATA-GATTACGTGTAAGACCATGTCTG
13838036 GG
1 GG
13838038 ACATTGGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
34 21 0.60
35 7 0.20
36 7 0.20
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (35 bp):
GGCATCGATATAGATTACGTGTAAGACCATGTCTG
Found at i:13838032 original size:77 final size:76
Alignment explanation
Indices: 13837925--13838080 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 76
13837915 CTGGGACATT
13837925 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACGTGTA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATT-CGTGTA
13837990 AGACCAT-GTCTG
65 AGACCATAG-CTG
13838002 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
13838067 GACCATAGCTG
66 GACCATAGCTG
13838078 GGC
1 GGC
13838081 TATTGGCATC
Statistics
Matches: 78, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
76 19 0.24
77 59 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (76 bp):
GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
GACCATAGCTG
Found at i:13838115 original size:119 final size:118
Alignment explanation
Indices: 13837885--13838122 Score: 369
Period size: 119 Copynumber: 2.0 Consensus size: 118
13837875 TGGGACATTT
13837885 GCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCGTGTAAGA
1 GCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCGTGTAAGA
* *
13837950 CCATGTCTGGGACATTGGCATCGATATGAGATTACGTGTAAGACCATGTCTGG
66 CCATGTCTGGGACATTGGCATCGATATGAGATTACATGTAAGACCATATCTGG
13838003 GCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAGATTCGTGTAA
1 GCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT--GATTCGTGTAA
13838067 GACCATAG-CTGGG-CTATTGGCATCGATAT-ATGA-TAGCATGTAAGACCATATCTGG
64 GACCAT-GTCTGGGAC-ATTGGCATCGATATGA-GATTA-CATGTAAGACCATATCTGG
13838122 G
1 G
13838123 ATATGGCATT
Statistics
Matches: 112, Mismatches: 2, Indels: 11
0.90 0.02 0.09
Matches are distributed among these distances:
117 4 0.04
118 51 0.46
119 56 0.50
120 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (118 bp):
GCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCGTGTAAGA
CCATGTCTGGGACATTGGCATCGATATGAGATTACATGTAAGACCATATCTGG
Found at i:13841445 original size:24 final size:23
Alignment explanation
Indices: 13841418--13841464 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
13841408 AAGCCGATGG
*
13841418 TGGAGATGAAGACAAAGATGACAA
1 TGGAGATGAAAACAAAGAT-ACAA
*
13841442 TGGAGATGAAAATAAAGATACAA
1 TGGAGATGAAAACAAAGATACAA
13841465 ATAACAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.53, C:0.06, G:0.26, T:0.15
Consensus pattern (23 bp):
TGGAGATGAAAACAAAGATACAA
Found at i:13842210 original size:25 final size:25
Alignment explanation
Indices: 13842182--13842235 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13842172 ATGTTTTAAT
13842182 TTTTGA-ATTTGATGATGATTTTGTG-
1 TTTTGATA-TTGATGAT-ATTTTGTGA
*
13842207 TTTTGCTATTGATGATATTTTGTGA
1 TTTTGATATTGATGATATTTTGTGA
13842232 TTTT
1 TTTT
13842236 TTTTATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 17 0.65
26 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.20, T:0.59
Consensus pattern (25 bp):
TTTTGATATTGATGATATTTTGTGA
Found at i:13842990 original size:43 final size:44
Alignment explanation
Indices: 13842885--13842999 Score: 155
Period size: 44 Copynumber: 2.6 Consensus size: 44
13842875 TGTGTTGTCG
* *
13842885 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACC
**
13842929 TGTAAGACCTTGTCTGGGAC-AGTGGCATCGA-TATGTGA-TTACC
1 TGTAAGACCACGTCTGGGACGA-TGGCATCGACT-TGTGATTTACC
13842972 TGTAAGACCACGTCTGGGACGATGGCAT
1 TGTAAGACCACGTCTGGGACGATGGCAT
13843000 TGTACGAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 29 0.47
44 33 0.53
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACC
Found at i:13843348 original size:2 final size:2
Alignment explanation
Indices: 13843312--13843337 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13843302 TTTATGCCAA
13843312 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
13843338 GTTTGATATA
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:13844545 original size:24 final size:23
Alignment explanation
Indices: 13844518--13844699 Score: 204
Period size: 23 Copynumber: 7.7 Consensus size: 23
13844508 TATAGAGTTA
*
13844518 TCCAATTTTGGTGCATAAATGCTG
1 TCCAATTTT-GTGTATAAATGCTG
* *
13844542 TCCAATTTTGTATATATATGCTG
1 TCCAATTTTGTGTATAAATGCTG
*
13844565 TCAAATTTTGGTGTATAAATGCTG
1 TCCAATTTT-GTGTATAAATGCTG
* *
13844589 TCCAATTTTGTATATATATGCTG
1 TCCAATTTTGTGTATAAATGCTG
*
13844612 TCAAATTTTAGTGTATAAATGCTG
1 TCCAATTTT-GTGTATAAATGCTG
* *
13844636 TCCAATTTTGTATATATATGCTG
1 TCCAATTTTGTGTATAAATGCTG
*
13844659 TCAAATTTTGGTGTATAAATGCTG
1 TCCAATTTT-GTGTATAAATGCTG
* *
13844683 ACCGA-TTTGATGTATAA
1 TCCAATTTTG-TGTATAA
13844700 GAGCTATCAA
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
22 1 0.01
23 69 0.52
24 63 0.47
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (23 bp):
TCCAATTTTGTGTATAAATGCTG
Found at i:13844710 original size:47 final size:47
Alignment explanation
Indices: 13844521--13844682 Score: 306
Period size: 47 Copynumber: 3.4 Consensus size: 47
13844511 AGAGTTATCC
*
13844521 AATTTTGGTGCATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
1 AATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
13844568 AATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
1 AATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
*
13844615 AATTTTAGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
1 AATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
13844662 AATTTTGGTGTATAAATGCTG
1 AATTTTGGTGTATAAATGCTG
13844683 ACCGATTTGA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (47 bp):
AATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCA
Found at i:13844710 original size:94 final size:93
Alignment explanation
Indices: 13844506--13844710 Score: 304
Period size: 94 Copynumber: 2.2 Consensus size: 93
13844496 TGATGTTTCA
* * *
13844506 TATATAGAGTTATCCAATTTTGGTGCATAAATGCTGTCCAATTTTGTATATATATGCTGTCAAAT
1 TATATAGAGCTATCAAATTTTAGTGCATAAATGCTGTCCAATTTTGTATATATATGCTGTCAAAT
*
13844571 TTTGGTGTATAAATGCTGTCCAATTTTG
66 TTTGGTGTATAAATGCTGACCAATTTTG
* * *
13844599 TATATATATGCTGTCAAATTTTAGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGTCAAA
1 TATATAGA-GCTATCAAATTTTAGTGCATAAATGCTGTCCAATTTTGTATATATATGCTGTCAAA
*
13844664 TTTTGGTGTATAAATGCTGACCGATTTGATG
65 TTTTGGTGTATAAATGCTGACCAATTT--TG
13844695 TATA-AGAGCTATCAAA
1 TATATAGAGCTATCAAA
13844711 ACAGGGTAGA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
93 7 0.07
94 84 0.85
95 2 0.02
96 6 0.06
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (93 bp):
TATATAGAGCTATCAAATTTTAGTGCATAAATGCTGTCCAATTTTGTATATATATGCTGTCAAAT
TTTGGTGTATAAATGCTGACCAATTTTG
Found at i:13852061 original size:27 final size:27
Alignment explanation
Indices: 13852030--13852087 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
13852020 AAAGGTTGTT
13852030 AAATGACCAAAATACCCTCGAAG-GGTA
1 AAATGACCAAAATACCCT-GAAGAGGTA
* *
13852057 AAATGACCAAAATATCCTTAAGAGGTA
1 AAATGACCAAAATACCCTGAAGAGGTA
13852084 AAAT
1 AAAT
13852088 TACTGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATACCCTGAAGAGGTA
Found at i:13857550 original size:30 final size:30
Alignment explanation
Indices: 13857516--13857575 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
13857506 TCTTTCATTC
13857516 TTTGTATATTATTGTC-TGGTATGAACTTTA
1 TTTGTATATTATTG-CATGGTATGAACTTTA
*
13857546 TTTGTATATTATTGCATGTTATGAACTTTA
1 TTTGTATATTATTGCATGGTATGAACTTTA
13857576 GTCCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (30 bp):
TTTGTATATTATTGCATGGTATGAACTTTA
Found at i:13857916 original size:32 final size:33
Alignment explanation
Indices: 13857880--13857952 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
13857870 CAGTTTTTAT
13857880 AAAATATTTT-CAGAAAAT-T-TGCCAAACACTAG
1 AAAATATTTTACAG-AAATCTAT-CCAAACACTAG
*
13857912 AAAATATTTTACAGAGATCTATCCAAACACTAG
1 AAAATATTTTACAGAAATCTATCCAAACACTAG
13857945 AAAATATT
1 AAAATATT
13857953 AACATTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
32 13 0.35
33 23 0.62
34 1 0.03
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (33 bp):
AAAATATTTTACAGAAATCTATCCAAACACTAG
Found at i:13861802 original size:18 final size:18
Alignment explanation
Indices: 13861752--13861802 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
13861742 ATAGGTGGTT
13861752 TTTTTATTTTTTCTATTCA
1 TTTTTATTTTTT-TATTCA
* * *
13861771 TTTCGT-TTTATTTATTTA
1 TTT-TTATTTTTTTATTCA
13861789 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
13861803 AAAAGAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.60
19 8 0.32
20 1 0.04
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTATTTTTTTATTCA
Found at i:13862914 original size:3 final size:3
Alignment explanation
Indices: 13862906--13862974 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
13862896 CAAAATTTAG
* * *
13862906 ATT ATT ATT ATT ATT ATT GTT ATT ATC ATT ATT GTT ATT -TAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * *
13862951 ATC GTT -TT CATC ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT
13862975 GTTTATGCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 3 0.06
3 46 0.90
4 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13862930 original size:15 final size:15
Alignment explanation
Indices: 13862910--13862974 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
13862900 ATTTAGATTA
*
13862910 TTATTATTATTATTG
1 TTATTATCATTATTG
13862925 TTATTATCATTATTG
1 TTATTATCATTATTG
*
13862940 TTATTTAT-ATTATCG
1 TTA-TTATCATTATTG
*
13862955 TT-TTCATCATTATTA
1 TTATT-ATCATTATTG
13862970 TTATT
1 TTATT
13862975 GTTTATGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 32 0.76
16 6 0.14
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (15 bp):
TTATTATCATTATTG
Found at i:13862951 original size:30 final size:30
Alignment explanation
Indices: 13862906--13862974 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
13862896 CAAAATTTAG
*
13862906 ATTATTA-TTATTATTATTGTTATT-ATCATT
1 ATTATTATTTA-TATTATCGTT-TTCATCATT
*
13862936 ATTGTTATTTATATTATCGTTTTCATCATT
1 ATTATTATTTATATTATCGTTTTCATCATT
13862966 ATTATTATT
1 ATTATTATT
13862975 GTTTATGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.06
30 29 0.85
31 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (30 bp):
ATTATTATTTATATTATCGTTTTCATCATT
Found at i:13891064 original size:25 final size:26
Alignment explanation
Indices: 13891034--13891105 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 26
13891024 TATTATTTTG
13891034 TATATATTTATTATTTTTATAA-TTC
1 TATATATTTATTATTTTTATAATTTC
*
13891059 TATATAATTT-TTA--TGTA-AATTTC
1 TATAT-ATTTATTATTTTTATAATTTC
13891082 TATAATTATTTATTATTTTCTATA
1 TAT-A-TATTTATTATTTT-TATA
13891106 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
22 2 0.06
23 9 0.25
24 5 0.14
25 12 0.33
26 4 0.11
27 1 0.03
28 2 0.06
29 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (26 bp):
TATATATTTATTATTTTTATAATTTC
Found at i:13891087 original size:21 final size:19
Alignment explanation
Indices: 13891046--13891111 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
13891036 TATATTTATT
*
13891046 ATTTTTA-TAATTCTATATA
1 ATTTTTATTAATT-TCTATA
13891065 ATTTTTATGTAAATTTCTATA
1 ATTTTTAT-T-AATTTCTATA
*
13891086 ATTATTTATTATTTTCTAT-
1 ATT-TTTATTAATTTCTATA
13891105 ATTTTTA
1 ATTTTTA
13891112 AAAAATCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 4 0.10
19 10 0.24
20 8 0.20
21 10 0.24
22 9 0.22
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTATTAATTTCTATA
Found at i:13891140 original size:9 final size:9
Alignment explanation
Indices: 13890992--13891157 Score: 70
Period size: 9 Copynumber: 17.4 Consensus size: 9
13890982 ATTTTCTATC
*
13890992 TTTTTAGAA
1 TTTTTATAA
*
13891001 TTTTCTTTAA
1 TTTT-TATAA
*
13891011 TTTTTTGTAA
1 -TTTTTATAA
*
13891021 -TTTTATTA
1 TTTTTATAA
13891029 TTTTGTAT-A
1 TTTT-TATAA
* *
13891038 TATTTATTA
1 TTTTTATAA
13891047 TTTTTATAA
1 TTTTTATAA
*
13891056 TTCTATATAA
1 TT-TTTATAA
13891066 TTTTTATGTAAA
1 TTTTTA--T-AA
*
13891078 TTTCTATAA
1 TTTTTATAA
*
13891087 TTATTTATTA
1 TT-TTTATAA
13891097 TTTTCTAT-A
1 TTTT-TATAA
*
13891106 TTTTTAAAAAA
1 TTTTT--ATAA
13891117 TCGTTTTAT-A
1 T--TTTTATAA
13891127 TTTTTATAA
1 TTTTTATAA
*
13891136 TTTTTATTA
1 TTTTTATAA
* *
13891145 CTTTTATTA
1 TTTTTATAA
13891154 TTTT
1 TTTT
13891158 AAAATATTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
8 16 0.13
9 55 0.45
10 32 0.26
11 8 0.07
12 7 0.06
13 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13891157 original size:26 final size:27
Alignment explanation
Indices: 13891120--13891176 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
13891110 TAAAAAATCG
*
13891120 TTTTATATTTTTATAAT-TTTTATTAC-
1 TTTTATATTTTTAAAATATTTT-TTACA
13891146 TTTTAT-TATTTTAAAATATTTTTTACA
1 TTTTATAT-TTTTAAAATATTTTTTACA
13891173 TTTT
1 TTTT
13891177 TAACAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 18 0.67
27 8 0.30
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTATATTTTTAAAATATTTTTTACA
Found at i:13897006 original size:22 final size:22
Alignment explanation
Indices: 13896979--13897035 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13896969 TATCGTATCT
13896979 TATCATATCATATTTCATATAA
1 TATCATATCATATTTCATATAA
* * **
13897001 TGTCATATC-TCATTTTATATCT
1 TATCATATCAT-ATTTCATATAA
13897023 TATCATATCATAT
1 TATCATATCATAT
13897036 CTTAACATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (22 bp):
TATCATATCATATTTCATATAA
Found at i:13897035 original size:15 final size:15
Alignment explanation
Indices: 13896968--13897047 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
13896958 GGCATATCTT
*
13896968 ATATCGTATCTTATC
1 ATATCATATCTTATC
13896983 ATATCATA--TT-TC
1 ATATCATATCTTATC
* * *
13896995 ATATAATGTCATATCTC
1 ATATCATATC-T-TATC
* *
13897012 ATTTTATATCTTATC
1 ATATCATATCTTATC
*
13897027 ATATCATATCTTAAC
1 ATATCATATCTTATC
13897042 ATATCA
1 ATATCA
13897048 ATTCTACCCC
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
12 8 0.16
13 2 0.04
15 29 0.58
16 2 0.04
17 9 0.18
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (15 bp):
ATATCATATCTTATC
Found at i:13900808 original size:9 final size:9
Alignment explanation
Indices: 13900794--13900874 Score: 50
Period size: 9 Copynumber: 9.4 Consensus size: 9
13900784 AATCGATATG
13900794 TTTTATAAT
1 TTTTATAAT
13900803 TTTTAT-AT
1 TTTTATAAT
13900811 TAATTT-TAAT
1 T--TTTATAAT
13900821 TTTTA-AAT
1 TTTTATAAT
13900829 TTTTA-AAT
1 TTTTATAAT
13900837 TTTT-T-AT
1 TTTTATAAT
**
13900844 TTACA-ATAT
1 TTTTATA-AT
*
13900853 TTTTATAGT
1 TTTTATAAT
*
13900862 TTTTATAGT
1 TTTTATAAT
13900871 TTTT
1 TTTT
13900875 TTTTTATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
7 4 0.07
8 21 0.36
9 26 0.45
10 7 0.12
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13901328 original size:3 final size:3
Alignment explanation
Indices: 13901320--13901358 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13901310 AACCTTAAGC
13901320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13901359 ACCAAAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13906072 original size:18 final size:18
Alignment explanation
Indices: 13906049--13906123 Score: 75
Period size: 18 Copynumber: 4.1 Consensus size: 18
13906039 GATTTGAATC
13906049 TTTTTTTATTTATTTATG
1 TTTTTTTATTTATTTATG
13906067 TTTTTTGTA-TTATTTATG
1 TTTTTT-TATTTATTTATG
*
13906085 -TTATTT-TTTATTTGATG
1 TTTTTTTATTTATTT-ATG
*
13906102 TTTTTTTCTTATATTCTATG
1 TTTTTTTATT-TATT-TATG
13906122 TT
1 TT
13906124 GTATTAACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
16 7 0.15
17 7 0.15
18 20 0.42
19 4 0.08
20 9 0.19
21 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTTTTTATTTATTTATG
Found at i:13914788 original size:126 final size:125
Alignment explanation
Indices: 13914427--13915245 Score: 1101
Period size: 126 Copynumber: 6.5 Consensus size: 125
13914417 GATAAAATCA
* ** * * * *
13914427 AAGCAGGATGATTTACCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
13914492 AGGTCTTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTTTAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
* * *
13914552 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
13914617 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCT-GAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TTAAAAAAACGCTTC
* *
13914679 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
13914744 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGT-TAAAAAAACGCTTC
* * *
13914805 AACCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * * **
13914869 TAGGTTCTGGAAAAATAATTTCGACATGACGTTTCTGAGAAAATAG-TATAAAATTGCTTC
65 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
*
13914929 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* **
13914994 AGGTCCTGAAAAAATAATTTTGAGGTGACGTTTCTGAGCAAATAGTATAAAAAAACG-TTAC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGT-TAAAAAAACGCTT-C
* * *
13915055 AAGAAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
13915119 TAGGTCCT-AGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAATCGCTTC
65 TAGGTCCTGA-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
* * *
13915179 TAGCAGGATGCTTTATGAGAAGAATTTGTCAAAGCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
13915244 AG
66 AG
13915246 CATGCTTAGG
Statistics
Matches: 608, Mismatches: 74, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
123 4 0.01
124 173 0.28
125 66 0.11
126 282 0.46
127 83 0.14
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAAAAACGCTTC
Found at i:13915000 original size:250 final size:249
Alignment explanation
Indices: 13914428--13915245 Score: 1235
Period size: 250 Copynumber: 3.3 Consensus size: 249
13914418 ATAAAATCAA
* ** * * * *
13914428 AGCAGGATGATTTACCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* * * * * * * *
13914493 GGTCTTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTTTAAAAAATGCTTCAAGCAA
66 GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTACAA-CAA
* *
13914558 G-ATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTTGGT
130 GCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* * * * *
13914621 CCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAAACGCTTCA
194 CCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAATCGCTTCT
* *
13914680 AGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* *
13914745 GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAACCA
66 GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTACAACAA
*
13914810 GCATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTT
130 GCATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
* * *
13914875 CTGGAAAAATAATTTCGACATGACGTTTCTGAGAAAATAGTATAAAATTGCTTCT
195 CTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
13914930 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* * *
13914995 GGTCCTGAAAAAATAATTTTGAGGTGACGTTTCTGAGCAAATAGTATAAAAAAACGTTACAAGAA
66 GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTACAACAA
13915060 GCATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
130 GCATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
*
13915125 CTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
195 CTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* *
13915180 AGCAGGATGCTTTATGAGAAGAATTTGTCAAAGCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
13915245 G
66 G
13915246 CATGCTTAGG
Statistics
Matches: 522, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
250 308 0.59
251 4 0.01
252 137 0.26
253 71 0.14
254 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (249 bp):
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTACAACAAG
CATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCC
TGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
Found at i:13916466 original size:22 final size:22
Alignment explanation
Indices: 13916414--13916847 Score: 564
Period size: 22 Copynumber: 20.0 Consensus size: 22
13916404 TCAAATTATA
*
13916414 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916435 TTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916457 TTAAAGTTAAGGG-TTATGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916477 TTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
13916498 TTTAAGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
*
13916520 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916542 TTAAAGTTAAGGG-TTAGGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
13916563 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916585 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
13916607 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916629 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916651 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
*
13916673 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916695 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916717 TTAAAATTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13916738 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916760 TTAAAGTCAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
13916781 TTT-AGATTAAGGGGCTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTT
13916803 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13916825 TTTAGGTTTAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
13916847 T
1 T
13916848 AGGGTTTTTA
Statistics
Matches: 360, Mismatches: 41, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
20 19 0.05
21 88 0.24
22 247 0.69
23 6 0.02
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:13916832 original size:15 final size:15
Alignment explanation
Indices: 13916814--13916896 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 15
13916804 TTAAGTTAAG
13916814 GGTTTAGGGTTTTTA
1 GGTTTAGGGTTTTTA
13916829 GGTTTAGGG--TTTA
1 GGTTTAGGGTTTTTA
13916842 GGGTTTAGGGTTTTTA
1 -GGTTTAGGGTTTTTA
** *
13916858 ATTTTAGAG---TTA
1 GGTTTAGGGTTTTTA
* *
13916870 GGGTTAGGGTTTATA
1 GGTTTAGGGTTTTTA
*
13916885 GGTTAAGGGTTT
1 GGTTTAGGGTTT
13916897 AAGATTTGTC
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.15
13 4 0.08
14 9 0.17
15 27 0.52
16 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (15 bp):
GGTTTAGGGTTTTTA
Found at i:13916836 original size:6 final size:7
Alignment explanation
Indices: 13916812--13916854 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
13916802 TTTTAAGTTA
13916812 AGGGTTT
1 AGGGTTT
13916819 AGGGTTTTT
1 AGGG--TTT
13916828 A-GGTTT
1 AGGGTTT
13916834 AGGGTTT
1 AGGGTTT
13916841 AGGGTTT
1 AGGGTTT
13916848 AGGGTTT
1 AGGGTTT
13916855 TTAATTTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.12
7 23 0.70
8 2 0.06
9 4 0.12
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:13917474 original size:18 final size:18
Alignment explanation
Indices: 13917448--13917490 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13917438 GACTCGAAAA
* *
13917448 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
13917466 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
13917484 AGGAAAC
1 AGGAAAC
13917491 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:13919339 original size:11 final size:11
Alignment explanation
Indices: 13919325--13919401 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
13919315 ATAAATATGG
13919325 ATTTGAGAGAA
1 ATTTGAGAGAA
*
13919336 ATTTTGA-AGGA
1 A-TTTGAGAGAA
13919347 ATTTGAGAGCAA
1 ATTTGAGAG-AA
13919359 A-TTGAGAGGAA
1 ATTTGAGA-GAA
13919370 ATTT-AGAAGAA
1 ATTTGAG-AGAA
*
13919381 A-TTAAGAGAAA
1 ATTTGAGAG-AA
13919392 ATTTGAGAGA
1 ATTTGAGAGA
13919402 GGATTAGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
10 9 0.17
11 28 0.52
12 17 0.31
ACGTcount: A:0.47, C:0.01, G:0.26, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:13919373 original size:34 final size:34
Alignment explanation
Indices: 13919325--13919400 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
13919315 ATAAATATGG
* * * *
13919325 ATTTGAGA-GAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGGAAATTTAGAA-GAAATTAAGAGAAA
13919359 A-TTGAGAGGAAATTTAGAAGAAATTAAGAGAAA
1 ATTTGAGAGGAAATTTAGAAGAAATTAAGAGAAA
13919392 ATTTGAGAG
1 ATTTGAGAG
13919401 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.46, C:0.01, G:0.26, T:0.26
Consensus pattern (34 bp):
ATTTGAGAGGAAATTTAGAAGAAATTAAGAGAAA
Found at i:13953318 original size:24 final size:24
Alignment explanation
Indices: 13953278--13953328 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
13953268 GTTCAATCAA
* * *
13953278 TGCTTAGTGGACTGTTTCTGTTAG
1 TGCTTAATGGACTGTTTCCGTCAG
13953302 TGCTTAATGGA-TAGTTTCCGTCAG
1 TGCTTAATGGACT-GTTTCCGTCAG
13953326 TGC
1 TGC
13953329 AAAACATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (24 bp):
TGCTTAATGGACTGTTTCCGTCAG
Found at i:13956027 original size:265 final size:261
Alignment explanation
Indices: 13955549--13956356 Score: 1129
Period size: 265 Copynumber: 3.0 Consensus size: 261
13955539 AGTTATACAC
* *
13955549 AAACACAACCCTCTTTGAAGTGCATTTTTTTTTATAAAAGTTTTATTATTTTTAAAAAAAAAAAA
1 AAACACAA-CCTCTTTGAAGTGCATTTTTTTTTATAAAAGTTTTATTATTTTTCAAAAAAAATAA
* * * *
13955614 AATCTTTAAACTATTCAATTTTCCAGTTTTACTGTTCCAAAAAATCTGGAATTGGAATATTTTTT
65 AATCTTTAAACTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATA--TTTT
* * * **
13955679 TTGGGCTATTGGGGCAGAAATAGTGGGCCATTTTTTTGTG-TTTTTTACTTCTTTGCCCCTACTT
128 TT-GGCTGTT-GGGCAGAAATAGTGGGGCA-ATTTCAGTGCTTTTTTACTTCTTTGCCCCTACTT
* * *
13955743 ATTTACCATTTTGCCCTTCTATTACTCGTATAAATAGATGGTTGATTTCTTCATTCTTTTCACAC
190 ATTTACCGTTTTGCCCTTCTATTACTAGTATAAATAGAGGGTTGATTTCTTCATTCTTTTCACAC
13955808 TGAACAG
255 TGAACAG
*
13955815 AAACACAACTCTTTTTGAAGTGCA-TTTTTTTTATAAAAGTTTTATTATTTTTCAAGAAAGAAAT
1 AAACACAAC-CTCTTTGAAGTGCATTTTTTTTTATAAAAGTTTTATTATTTTTCAA-AAA-AAAT
* * * *
13955879 AAAATCTTTAAATTATTTATTTTTCTAATTTTACTGTTTCGAAAAATCTGGAACTGGAATATTTT
63 AAAATCTTTAAACTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATATTTT
13955944 TTGGCTGTTGGAGCAGAAATAGTGGGGCAATTTCAGTGCATTTTTTACTTCTTTGCCCCTACTTA
128 TTGGCTGTTGG-GCAGAAATAGTGGGGCAATTTCAGTGC-TTTTTTACTTCTTTGCCCCTACTTA
*
13956009 TTTACCGTTTTTCCCTTCTATTACTAGTATAAGATAGAGGGTTGATTTCTTCATTCTTTTCACAC
191 TTTACCGTTTTGCCCTTCTATTACTAGTATAA-ATAGAGGGTTGATTTCTTCATTCTTTTCACAC
*
13956074 TGAACAA
255 TGAACAG
*
13956081 AAACACAACC-CTCTGAAGTGCATATTTTTTTTTATAAAA-TTTTAATTATTTTTCAAAAAAAAT
1 AAACACAACCTCTTTGAAGTGC--ATTTTTTTTTATAAAAGTTTT-ATTATTTTTCAAAAAAAAT
* * *
13956144 AAAATCTTTAAGCTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGAAATTGGAATTTTTT
63 AAAATCTTTAAACTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGGAATTGGAA--TATT
* * * *
13956209 TTTTTGCTGTTGGCCAGAAATAGTAGGGCAATTTCAGTGCGTTTTTTACTTCTTTTCCCCTACTT
126 TTTTGGCTGTTGGGCAGAAATAGTGGGGCAATTTCAGTGC-TTTTTTACTTCTTTGCCCCTACTT
* *
13956274 ATTTACCGTTTTGACCTTCTGTTACTAGTATAAATAGAGGGTTGATTTCTTCATTCTTTTCACAC
190 ATTTACCGTTTTGCCCTTCTATTACTAGTATAAATAGAGGGTTGATTTCTTCATTCTTTTCACAC
*
13956339 TGAATAG
255 TGAACAG
*
13956346 AAATACAACCT
1 AAACACAACCT
13956357 TCTCTGAAAA
Statistics
Matches: 487, Mismatches: 41, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
263 8 0.02
264 31 0.06
265 195 0.40
266 156 0.32
267 97 0.20
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (261 bp):
AAACACAACCTCTTTGAAGTGCATTTTTTTTTATAAAAGTTTTATTATTTTTCAAAAAAAATAAA
ATCTTTAAACTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATATTTTTTG
GCTGTTGGGCAGAAATAGTGGGGCAATTTCAGTGCTTTTTTACTTCTTTGCCCCTACTTATTTAC
CGTTTTGCCCTTCTATTACTAGTATAAATAGAGGGTTGATTTCTTCATTCTTTTCACACTGAACA
G
Found at i:13957485 original size:17 final size:19
Alignment explanation
Indices: 13957463--13957506 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13957453 AATTATTACA
13957463 ATATTTA-AAAT-AAAATC
1 ATATTTATAAATAAAAATC
* *
13957480 ATATTTATATATAAAAATT
1 ATATTTATAAATAAAAATC
13957499 ATATTTAT
1 ATATTTAT
13957507 GTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTTATAAATAAAAATC
Found at i:13962488 original size:44 final size:45
Alignment explanation
Indices: 13962386--13962500 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 45
13962376 TTAATTCGCT
* * * *
13962386 CCACTGCAACTTCAAGGAGATAGGA-TTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCTGCC
*
13962430 CCACTGCAACTTCAGGGAGATAAGACTT-GTATCCTCAATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCTGCC
* *
13962474 CCACTGCAACTTCAGGGGGATCAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
13962501 GGTGGCTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
44 61 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCTGCC
Found at i:13962514 original size:44 final size:43
Alignment explanation
Indices: 13962386--13962516 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
13962376 TTAATTCGCT
* * *
13962386 CCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATA-GACTAGTAGCTTCAATCTGCC
* * *
13962430 CCACTGCAACTTCAGGGAGATAAGACTTGTATCCTCAATCTGCC
1 CCACTGCAACTTCAGGGAGAT-AGACTAGTAGCTTCAATCTGCC
* * * *
13962474 CCACTGCAACTTCAGGGGGATCAGACTGGTGGCTTAAATCTGC
1 CCACTGCAACTTCAGGGAGAT-AGACTAGTAGCTTCAATCTGC
13962517 TTCCCTACTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 72 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAGACTAGTAGCTTCAATCTGCC
Found at i:13962830 original size:45 final size:45
Alignment explanation
Indices: 13962770--13963259 Score: 515
Period size: 45 Copynumber: 10.9 Consensus size: 45
13962760 ACCAGCTTTT
* * * * *
13962770 GATCTGCTTCACTGCCAGTACAAGAAGACAAGATTTGCTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13962815 GATCTACTTCGCTGCCAATACAAGAAGACAAGATCT-ATAATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-ATCTTC
* * * **** * * *
13962860 GACCTACTCCACTGTTGCT-CAGGGAGACAAGATCTGCTATTTTT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13962904 AATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * * *
13962949 GACCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCTTT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * *
13962994 GACCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
** * *
13963039 -AGTCTACTTCGCTATCAATACAGGAAGACAAGACCTGTTATCTTC
1 GA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * *
13963084 GATCTACTTCGCTGCCAATATAGGAAGATAAGATCTGCTATCTTT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13963129 GA-CTTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTT-
1 GATC-TACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * * *
13963173 TAGTCTATTTCGCTGTCAATACAGGAAGACAAGA-CTTACTATCTTC
1 GA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTC
* * *
13963219 GATCTACTTCGCTGCCAATATAGAAAGATAAGATCTGCTAT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
13963260 TTTTAGTCTA
Statistics
Matches: 369, Mismatches: 65, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.09
45 331 0.90
46 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
Found at i:13963239 original size:135 final size:135
Alignment explanation
Indices: 13962788--13963259 Score: 592
Period size: 135 Copynumber: 3.5 Consensus size: 135
13962778 TCACTGCCAG
* * *
13962788 TACAAGAAGACAAGATTTGCTATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCT-A
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGC
* * * **** * * *
13962852 TAATCTTCGACCTACTCCACTGTTGCT-CAGGGAGACAAGATCTGCTATTTTTAATCTACTTCGC
66 T-ATCTTTGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTACTTCGC
*
13962916 TGCCAA
130 TGTCAA
* * *
13962922 TATAGGAAGACAAGA-TCTGCTATCTTCGACCTACTTCGCTGCCAATACAAGAAGACAAGATCTA
1 TACAGGAAGACAAGACT-TGCTATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTG
* * *
13962986 CTATCTTTGACCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTCGC
65 CTATCTTTGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTACTTCGC
*
13963051 TATCAA
130 TGTCAA
* * * * *
13963057 TACAGGAAGACAAGACCTGTTATCTTCGATCTACTTCGCTGCCAATATAGGAAGATAAGATCTGC
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGC
* * * *
13963122 TATCTTTGACTTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTTAGTCTATTTCGCT
66 TATCTTTGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTACTTCGCT
13963187 GTCAA
131 GTCAA
* * *
13963192 TACAGGAAGACAAGACTTACTATCTTCGATCTACTTCGCTGCCAATA-TAGAAAGATAAGATCTG
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAAG-AAGACAAGATCTG
13963256 CTAT
65 CTAT
13963260 TTTTAGTCTA
Statistics
Matches: 293, Mismatches: 40, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
133 1 0.00
134 76 0.26
135 216 0.74
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (135 bp):
TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGC
TATCTTTGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTACTTCGCT
GTCAA
Found at i:13966981 original size:18 final size:17
Alignment explanation
Indices: 13966949--13966982 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13966939 TCTTTTATTT
13966949 TATTTTTTGTATATATG
1 TATTTTTTGTATATATG
*
13966966 TATTTGTTTTTATATAT
1 TATTT-TTTGTATATAT
13966983 AAGATTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TATTTTTTGTATATATG
Found at i:13973154 original size:17 final size:18
Alignment explanation
Indices: 13973127--13973160 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13973117 ACTTACAAAA
*
13973127 TATGTATATATATATAAG
1 TATGTATATATAAATAAG
13973145 TATG-ATATATAAATAA
1 TATGTATATATAAATAA
13973161 ATTTTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TATGTATATATAAATAAG
Found at i:13973584 original size:20 final size:20
Alignment explanation
Indices: 13973549--13973586 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13973539 TAAAAAATAG
**
13973549 CTAAAAATGACTAAATTGAA
1 CTAAAAATGAAAAAATTGAA
13973569 CTAAAAATGAAAAAATTG
1 CTAAAAATGAAAAAATTG
13973587 GGGCAGATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAAAAATGAAAAAATTGAA
Found at i:13975186 original size:44 final size:44
Alignment explanation
Indices: 13974996--13975194 Score: 122
Period size: 44 Copynumber: 4.6 Consensus size: 44
13974986 GATGCAGTCT
* ** *
13974996 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCCATCA-TTTTAATCC
* * * *** * *
13975041 ACTCCACTGCAACCTCA-AGGAGATAGGATTGGTTTC-TTTT-GTCT
1 GCTCCACTGCAACTTCAGA-GAGATAAGA-T-CCATCATTTTAATCC
* * *** *
13975085 GCTCCACTGCAACTTCAGGGAGATAAGA-CCA-GA-TGCGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
* * *
13975126 ACTCTACTGCACCTTCAGAGAGATAAGATCCATCATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
*
13975170 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGAGAGATA
13975195 GAATTATTGG
Statistics
Matches: 112, Mismatches: 33, Indels: 19
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.01
41 27 0.24
42 3 0.03
43 1 0.01
44 51 0.46
45 26 0.23
46 1 0.01
47 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCC
Found at i:13975239 original size:129 final size:130
Alignment explanation
Indices: 13974952--13975241 Score: 352
Period size: 130 Copynumber: 2.2 Consensus size: 130
13974942 TTATCTCTAG
* ** *
13974952 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGATGCAGTCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAGTCTACTCTACTGCAACTTCAGAGA
** * * * * * ***
13975017 GATAAGATCTGTGATTTTTAATCCACTCCACTGCAACCTCAAGGAGATAGGATTGGTTTCTTTTG
66 GATAAGATCCATCATTTTTAATCCACTCCACTGCAACCTCAAGGAGATAGAATTGATTGCCTCAA
*
13975082 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGC-GATCTACTCTACTGCACCTTCAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAG-TCTACTCTACTGCAACTTCAGAG
* * *
13975146 AGATAAGATCCATCA-TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATT-ATTGGCCTC
65 AGATAAGATCCATCATTTTTAATCCACTCCACTGCAACCTCAAGGAGATAGAATTGATT-GCCTC
13975209 AA
129 AA
* * *
13975211 TCTGCTCCGCTGTATCTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
13975242 TTCGTCGTCG
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
128 2 0.01
129 66 0.48
130 69 0.50
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCAGTCTACTCTACTGCAACTTCAGAGA
GATAAGATCCATCATTTTTAATCCACTCCACTGCAACCTCAAGGAGATAGAATTGATTGCCTCAA
Found at i:13975494 original size:50 final size:50
Alignment explanation
Indices: 13975391--13975494 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 50
13975381 TTCAAGCCTT
* * **
13975391 AACGCCAGGGAGATAAGATTTGCCGTCGTGGCTTCAATCTGCTCTGTTAC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
* * ** *
13975441 AACGCCAGGGAAATAAGATTCGCTGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
13975491 AACG
1 AACG
13975495 TAAAGGCGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCATTAC
Found at i:13982120 original size:3 final size:3
Alignment explanation
Indices: 13982112--13982197 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
13982102 TATGTATAGA
*
13982112 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
13982160 AAAT AAT AAAT AAT GGT -AT AAT -AT AAT AAT GAT AAT AA
1 -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13982198 CATTAAAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.88
4 6 0.08
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Done.