Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 120 of 143
Found at i:35973662 original size:28 final size:28
Alignment explanation
Indices: 35973560--35973764 Score: 154
Period size: 30 Copynumber: 7.1 Consensus size: 28
35973550 CCCTAAAGGC
*
35973560 CCCTAAACTGTTCAAAAAT-CATATTTTTA
1 CCCTAAACT-TTCAAAAATAC-CATTTTTA
35973589 CCCCTAAACTTTCCAAAAATTA-CATTTTTGA
1 -CCCTAAACTTT-CAAAAA-TACCATTTTT-A
* **
35973620 -CCTTATTTTTCCAAAAATACCA-TTTTA
1 CCCTAAACTTT-CAAAAATACCATTTTTA
* *
35973647 CCCTCGAACTTTCAAAAATCCCATTTTTGA
1 CCCT-AAACTTTCAAAAATACCATTTTT-A
35973677 CCCTAAACTTTCTAAAAAATA-CATTTTTA
1 CCCTAAACTTTC--AAAAATACCATTTTTA
* *
35973706 CCCCTAAACTTCCAAAAATTCCATTTTTA
1 -CCCTAAACTTTCAAAAATACCATTTTTA
* *
35973735 CCCT-AATTTTCCAAAATTACCA-TTTTA
1 CCCTAAACTTT-CAAAAATACCATTTTTA
35973762 CCC
1 CCC
35973765 CTTGAATGTC
Statistics
Matches: 145, Mismatches: 16, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
27 13 0.09
28 38 0.26
29 42 0.29
30 44 0.30
31 8 0.06
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (28 bp):
CCCTAAACTTTCAAAAATACCATTTTTA
Found at i:35973719 original size:87 final size:89
Alignment explanation
Indices: 35973565--35973738 Score: 221
Period size: 87 Copynumber: 2.0 Consensus size: 89
35973555 AAGGCCCCTA
* * * ***
35973565 AACTGTTCAAAAATCATATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCTTATTTTT
1 AACTGTTCAAAAATCACATTTTTACCCCTAAACTTTCCAAAAAATACATTTTTGACCCTAAACTT
35973630 CCAAAAATACCA-TTTTACCCTCG
66 CCAAAAATACCATTTTTACCCTCG
* *
35973653 AACT-TTCAAAAATCCCATTTTTGA-CCCTAAACTTTCTAAAAAATACATTTTT-ACCCCTAAAC
1 AACTGTTCAAAAATCACATTTTT-ACCCCTAAACTTTCCAAAAAATACATTTTTGA-CCCTAAAC
*
35973715 TTCCAAAAATTCCATTTTTACCCT
64 TTCCAAAAATACCATTTTTACCCT
35973739 AATTTTCCAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
86 1 0.01
87 59 0.80
88 14 0.19
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.37
Consensus pattern (89 bp):
AACTGTTCAAAAATCACATTTTTACCCCTAAACTTTCCAAAAAATACATTTTTGACCCTAAACTT
CCAAAAATACCATTTTTACCCTCG
Found at i:35973750 original size:87 final size:86
Alignment explanation
Indices: 35973560--35973766 Score: 215
Period size: 87 Copynumber: 2.4 Consensus size: 86
35973550 CCCTAAAGGC
* ** * *
35973560 CCCTAAACTGTTCAAAAATCATATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCTTA
1 CCCTCAACT-TTCAAAAATCCCATTTTTACCCCTAAACTTTCCAAAAAATACATTTTTGACCCTA
***
35973625 TTTTTCCAAAAATACCATTTTA
65 AACTTCCAAAAATACCATTTTA
*
35973647 CCCTCGAACTTTCAAAAATCCCATTTTTGA-CCCTAAACTTTCTAAAAAATACATTTTT-ACCCC
1 CCCTC-AACTTTCAAAAATCCCATTTTT-ACCCCTAAACTTTCCAAAAAATACATTTTTGA-CCC
*
35973710 TAAACTTCCAAAAATTCCATTTTTA
63 TAAACTTCCAAAAATACCA-TTTTA
* * *
35973735 CCCT-AATTTTCCAAAATTACCA-TTTTACCCCT
1 CCCTCAACTTT-CAAAAATCCCATTTTTACCCCT
35973767 TGAATGTCTA
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
85 1 0.01
86 14 0.14
87 72 0.71
88 14 0.14
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (86 bp):
CCCTCAACTTTCAAAAATCCCATTTTTACCCCTAAACTTTCCAAAAAATACATTTTTGACCCTAA
ACTTCCAAAAATACCATTTTA
Found at i:35973766 original size:28 final size:29
Alignment explanation
Indices: 35973582--35973766 Score: 154
Period size: 28 Copynumber: 6.4 Consensus size: 29
35973572 CAAAAATCAT
35973582 ATTTTTACCCCTAAACTTTCCAAAAATTA-C
1 ATTTTTACCCCT-AACTTTCCAAAAA-TACC
* **
35973612 ATTTTTGA-CCTTATTTTTCCAAAAATACC
1 ATTTTT-ACCCCTAACTTTCCAAAAATACC
* *
35973641 A-TTTTACCCTCGAACTTT-CAAAAATCCC
1 ATTTTTACCC-CTAACTTTCCAAAAATACC
*
35973669 ATTTTTGA-CCCTAAACTTTCTAAAAAATA-C
1 ATTTTT-ACCCCT-AACTTTC-CAAAAATACC
*
35973699 ATTTTTACCCCTAAAC-TTCCAAAAATTCC
1 ATTTTTACCCCT-AACTTTCCAAAAATACC
* *
35973728 ATTTTTA-CCCTAATTTTCCAAAATTACC
1 ATTTTTACCCCTAACTTTCCAAAAATACC
35973756 A-TTTTACCCCT
1 ATTTTTACCCCT
35973767 TGAATGTCTA
Statistics
Matches: 126, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
27 8 0.06
28 45 0.36
29 41 0.33
30 25 0.20
31 7 0.06
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTTACCCCTAACTTTCCAAAAATACC
Found at i:35973823 original size:116 final size:117
Alignment explanation
Indices: 35973573--35973805 Score: 319
Period size: 116 Copynumber: 2.0 Consensus size: 117
35973563 TAAACTGTTC
* * *
35973573 AAAAATCATATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCTTATTTTTCCAAAAAT
1 AAAAAT-ACATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCCTAATTTTCCAAAAAT
* *
35973638 ACCATTTTACCCTCGAACTTTCAAAAATCCCATTTTTGACCCTAAACTTTCTA
65 ACCATTTTACCCTCGAACTGTCAAAAATCCCATTTTTGACCATAAACTTTCTA
* *
35973691 AAAAATACATTTTTACCCCTAAAC-TTCCAAAAATTCCATTTTT-ACCCTAATTTTCCAAAATTA
1 AAAAATACATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCCTAATTTTCCAAAAATA
* * * *
35973754 CCATTTTACCCCTTGAA-TGTCTAAAAATTCCGTTTTTGACCATGAACTTTCT
66 CCATTTTA-CCCTCGAACTGTC-AAAAATCCCATTTTTGACCATAAACTTTCT
35973806 CGAAATTACT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
115 28 0.27
116 51 0.50
117 17 0.17
118 6 0.06
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.38
Consensus pattern (117 bp):
AAAAATACATTTTTACCCCTAAACTTTCCAAAAATTACATTTTTGACCCTAATTTTCCAAAAATA
CCATTTTACCCTCGAACTGTCAAAAATCCCATTTTTGACCATAAACTTTCTA
Found at i:35975183 original size:27 final size:27
Alignment explanation
Indices: 35975153--35975215 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
35975143 GATCACTGGT
*
35975153 GCCGGTCGTTCATAATGTTTAAGGTAA
1 GCCGATCGTTCATAATGTTTAAGGTAA
*
35975180 GCCGATCATTCATAATGTTTAAGGTAA
1 GCCGATCGTTCATAATGTTTAAGGTAA
35975207 GCCGATCGT
1 GCCGATCGT
35975216 CTCCTTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (27 bp):
GCCGATCGTTCATAATGTTTAAGGTAA
Found at i:35976947 original size:30 final size:29
Alignment explanation
Indices: 35976905--35977302 Score: 179
Period size: 30 Copynumber: 13.4 Consensus size: 29
35976895 TTTCAGGGGT
*
35976905 AAAATGTAATTTTTGGTAGAATTAGGGTTA
1 AAAATGGAATTTTTGG-AGAATTAGGGTTA
* *
35976935 AAAATGGGA-TTTTGGA-AAGTTCAGGGAT-
1 AAAATGGAATTTTTGGAGAA-TT-AGGGTTA
* * *
35976963 AAAATGGTAATTTTTGGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTT-GGAGAATTAG-GGTTA
* *
35976995 AAGATGGGA-TTTTGG-GAAGTTCGAGGG-T-
1 AAAATGGAATTTTTGGAGAA-TT--AGGGTTA
* *
35977023 AAAATGGTAATTTTTGGAGAAATCGGAGTTA
1 AAAATGG-AATTTTTGGAGAATTAGG-GTTA
*
35977054 AAAATGGAA-TTTTGGA-AAGTTTAGGGGTA
1 AAAATGGAATTTTTGGAGAA--TTAGGGTTA
* *
35977083 AAAATGTAATTTTTGGTAAAATTAGGGTTA
1 AAAATGGAATTTTTGG-AGAATTAGGGTTA
*
35977113 AAAATGGAA-TTTTGGA-AAGTTTAAGGG--C
1 AAAATGGAATTTTTGGAGAA--TT-AGGGTTA
* * *
35977141 AAAATGGTATTTTTTGGTGAAATTGGGGTTA
1 AAAATGG-AATTTTTGGAG-AATTAGGGTTA
* *
35977172 AAAATGGAA-TTTTGGA-AAGTACGGAGGT-
1 AAAATGGAATTTTTGGAGAATTA-GG-GTTA
* * *
35977200 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTTGGAGAATTAG-GGTTA
35977231 AAAATGGAA-TTTTGGA-AAGTTTA-GGTGT-
1 AAAATGGAATTTTTGGAGAA--TTAGGGT-TA
* * *
35977259 AAAATGGTAATTTTTGGTGAAATCGGAGTTA
1 AAAATGG-AATTTTTGGAGAATTAGG-GTTA
35977290 AAAATGGAATTTT
1 AAAATGGAATTTT
35977303 GGAAAGTTCG
Statistics
Matches: 279, Mismatches: 42, Indels: 94
0.67 0.10 0.23
Matches are distributed among these distances:
27 7 0.03
28 52 0.19
29 68 0.24
30 92 0.33
31 48 0.17
32 12 0.04
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAGAATTAGGGTTA
Found at i:35977074 original size:59 final size:59
Alignment explanation
Indices: 35976901--35977333 Score: 544
Period size: 59 Copynumber: 7.3 Consensus size: 59
35976891 TGACTTTCAG
* * *
35976901 GGGTAAAAT-GTAATTTTTGGTAGAATTAGG-GTTAAAAATGGGATTTTGGAAAGTTC-A
1 GGGTAAAATGGTAATTTTTGGT-GAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
* * *
35976958 GGGATAAAATGGTAATTTTTGGGTGAAATC-GAGGTTAAAGATGGGATTTTGGGAAGTTCGA
1 GGG-TAAAATGGTAATTTTT-GGTGAAATCGGA-GTTAAAAATGGAATTTTGGAAAGTTCGA
* *
35977019 GGGTAAAATGGTAATTTTTGGAGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTT-TA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
* * **
35977077 GGGGTAAAAAT-GTAATTTTTGGTAAAATTAGG-GTTAAAAATGGAATTTTGGAAAGTTTAA
1 -GGGT-AAAATGGTAATTTTTGGTGAAA-TCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
* * * * *
35977137 GGGCAAAATGGTATTTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTACG-
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
*
35977195 GAGGTAAAATGGTAATTTTTGGTGAAATC-GAGGTTAAAAATGGAATTTTGGAAAGTT-TA
1 G-GGTAAAATGGTAATTTTTGGTGAAATCGGA-GTTAAAAATGGAATTTTGGAAAGTTCGA
35977254 GGTGTAAAATGGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
1 GG-GTAAAATGGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
35977314 GGGTAAAATGGTAATTTTTG
1 GGGTAAAATGGTAATTTTTG
35977334 AATAGTTTAA
Statistics
Matches: 330, Mismatches: 27, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
57 3 0.01
58 19 0.06
59 245 0.74
60 59 0.18
61 4 0.01
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAAGTTCGA
Found at i:35977144 original size:29 final size:29
Alignment explanation
Indices: 35977052--35977345 Score: 134
Period size: 29 Copynumber: 10.0 Consensus size: 29
35977042 AAATCGGAGT
*
35977052 TAAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAGTTTAAGGG
* *
35977081 TAAAAATGTAATTTTTGGTAAA-ATT-AGGG
1 TAAAAATGGAA-TTTTGG-AAAGTTTAAGGG
35977110 TTAAAAATGGAATTTTGGAAAGTTTAAGGG
1 -TAAAAATGGAATTTTGGAAAGTTTAAGGG
* * *
35977140 -CAAAATGGTATTTTTTGGTGAAA--TT-GGGG
1 TAAAAATGG-A-ATTTT-G-GAAAGTTTAAGGG
*
35977169 TTAAAAATGGAATTTTGGAAAG--TACGGAGG
1 -TAAAAATGGAATTTTGGAAAGTTTA-AG-GG
** *
35977199 T-AAAATGGTAATTTTTGGTGAAA--TCGAGGT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTAAGGG
35977229 TAAAAATGGAATTTTGGAAAGTTT-AGGTG
1 TAAAAATGGAATTTTGGAAAGTTTAAGG-G
*** *
35977258 T-AAAATGGTAATTTTTGGTGAAA-TCGGA-GT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTAAGGG
**
35977288 TAAAAATGGAATTTTGGAAAGTTCGAGGG
1 TAAAAATGGAATTTTGGAAAGTTTAAGGG
*
35977317 T-AAAATGGTAATTTTTGAATAGTTTAAGG
1 TAAAAATGG-AATTTTGGAA-AGTTTAAGG
35977346 ACCTATAAGC
Statistics
Matches: 206, Mismatches: 25, Indels: 67
0.69 0.08 0.22
Matches are distributed among these distances:
27 13 0.06
28 40 0.19
29 57 0.28
30 53 0.26
31 30 0.15
32 13 0.06
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTTAAGGG
Found at i:35977213 original size:177 final size:176
Alignment explanation
Indices: 35976899--35977333 Score: 617
Period size: 177 Copynumber: 2.5 Consensus size: 176
35976889 TTTGACTTTC
* * *
35976899 AGGGGTAAAATGTAATTTTTGGTAGAATTAGGGTTAAAAATGGGATTTTGGAAAG-TTCAGGGAT
1 AGGGGTAAAATGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAAGGG-T
* * * * *
35976963 AAAATGGTAATTTTTGGGTGAAATCGAGGTTAAAGATGGGATTTTGGGAAGTTCGAGGGTAAAAT
65 AAAATGGT-ATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTACGAGGGTAAAAT
35977028 GGTAATTTTTGGAGAAATCG-GAGTTAAAAATGGAATTTTGGAAAGTTT
129 GGTAATTTTTGGAGAAATCGAG-GTTAAAAATGGAATTTTGGAAAGTTT
*
35977076 AGGGGTAAAAATGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGC
1 AGGGGT-AAAATGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGT
* *
35977141 AAAATGGTATTTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTACG-GAGGTAAAAT
65 AAAATGGTATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTACGAG-GGTAAAAT
*
35977205 GGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
129 GGTAATTTTTGGAGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * * **
35977253 AGGTGTAAAATGGTAATTTTTGGTGAAA-TCGGAGTTAAAAATGGAATTTTGGAAAGTTCGAGGG
1 AGGGGTAAAAT-GTAATTTTTGGTAAAATTAGG-GTTAAAAATGGAATTTTGGAAAGTTTAAGGG
*
35977317 TAAAATGGTAATTTTTG
64 TAAAATGGTATTTTTTG
35977334 AATAGTTTAA
Statistics
Matches: 233, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
176 9 0.04
177 162 0.70
178 56 0.24
179 6 0.03
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (176 bp):
AGGGGTAAAATGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTA
AAATGGTATTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTACGAGGGTAAAATGG
TAATTTTTGGAGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:35979217 original size:6 final size:6
Alignment explanation
Indices: 35979176--35979307 Score: 94
Period size: 6 Copynumber: 22.0 Consensus size: 6
35979166 AAATTGGACT
* * * * *
35979176 TTTAAT TTTAAG TTTAAG TTTAAA TGTT-AT TTTAAA TTTAAA -GTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA
* * *
35979223 TTTAAA -GTAAA TTTAAA TAGGTAAA TTTAAA TTTAAA -GTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
35979271 TAGGTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAA
1 T--TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
35979308 ATCAATTTAA
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
5 18 0.18
6 70 0.70
7 2 0.02
8 10 0.10
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:35979224 original size:11 final size:11
Alignment explanation
Indices: 35979208--35979284 Score: 70
Period size: 11 Copynumber: 6.9 Consensus size: 11
35979198 AATGTTATTT
35979208 TAAATTTAAAG
1 TAAATTTAAAG
35979219 TAAATTTAAAG
1 TAAATTTAAAG
35979230 TAAATTTAAA-
1 TAAATTTAAAG
** *
35979240 T--AGGTAAATT
1 TAAATTTAAA-G
35979250 TAAATTTAAAG
1 TAAATTTAAAG
35979261 TAAATTTAAATAGG
1 TAAATTT-AA-A-G
35979275 TAAATTTAAA
1 TAAATTTAAA
35979285 TTTAAAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.09
10 2 0.04
11 28 0.52
12 8 0.15
13 3 0.06
14 8 0.15
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAG
Found at i:35979225 original size:42 final size:41
Alignment explanation
Indices: 35979206--35979318 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 41
35979196 TAAATGTTAT
35979206 TTTAAATTTAAAGTAAATTTAAAGTAAATTTAAATAGGTAAA
1 TTTAAATTTAAAGTAAATTTAAAGTAAATTTAAATA-GTAAA
*
35979248 TTTAAATTTAAAGTAAATTTAAATAGGTAAATTTAAATTTAAAATAAA
1 TTTAAATTTAAAGTAAATTT-AA-A-GTAAATTTAAA--T--AGTAAA
* *
35979296 TTTAAATTTAAAATCAATTTAAA
1 TTTAAATTTAAAGTAAATTTAAA
35979319 CTTTTAATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
42 20 0.33
43 2 0.03
44 1 0.02
45 11 0.18
46 1 0.02
47 3 0.05
48 22 0.36
49 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (41 bp):
TTTAAATTTAAAGTAAATTTAAAGTAAATTTAAATAGTAAA
Found at i:35979228 original size:17 final size:17
Alignment explanation
Indices: 35979219--35979318 Score: 113
Period size: 17 Copynumber: 6.2 Consensus size: 17
35979209 AAATTTAAAG
35979219 TAAATTTAAAGTAAATT
1 TAAATTTAAAGTAAATT
*
35979236 TAAA--T-AGGTAAATT
1 TAAATTTAAAGTAAATT
35979250 TAAATTTAAAGTAAATT
1 TAAATTTAAAGTAAATT
*
35979267 TAAA--T-AGGTAAATT
1 TAAATTTAAAGTAAATT
*
35979281 TAAATTTAAAATAAATT
1 TAAATTTAAAGTAAATT
* *
35979298 TAAATTTAAAATCAATT
1 TAAATTTAAAGTAAATT
35979315 TAAA
1 TAAA
35979319 CTTTTAATTA
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 24 0.34
15 2 0.03
16 2 0.03
17 43 0.61
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAATTTAAAGTAAATT
Found at i:35979257 original size:31 final size:31
Alignment explanation
Indices: 35979219--35979302 Score: 159
Period size: 31 Copynumber: 2.7 Consensus size: 31
35979209 AAATTTAAAG
35979219 TAAATTTAAAGTAAATTTAAATAGGTAAATT
1 TAAATTTAAAGTAAATTTAAATAGGTAAATT
35979250 TAAATTTAAAGTAAATTTAAATAGGTAAATT
1 TAAATTTAAAGTAAATTTAAATAGGTAAATT
*
35979281 TAAATTTAAAATAAATTTAAAT
1 TAAATTTAAAGTAAATTTAAAT
35979303 TTAAAATCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (31 bp):
TAAATTTAAAGTAAATTTAAATAGGTAAATT
Found at i:35979297 original size:11 final size:11
Alignment explanation
Indices: 35979208--35979318 Score: 50
Period size: 11 Copynumber: 9.9 Consensus size: 11
35979198 AATGTTATTT
*
35979208 TAAATTTAAAG
1 TAAATTTAAAA
*
35979219 TAAATTTAAAG
1 TAAATTTAAAA
35979230 TAAATTT-AAA
1 TAAATTTAAAA
** *
35979240 T--AGGTAAATT
1 TAAATTTAAA-A
*
35979250 TAAATTTAAAG
1 TAAATTTAAAA
35979261 TAAATTTAAATA
1 TAAATTTAAA-A
*
35979273 GGTAAATTTAAATT
1 --TAAATTTAAA-A
* *
35979287 TAAA-ATAAATT
1 TAAATTTAAA-A
35979298 TAAATTTAAAA
1 TAAATTTAAAA
*
35979309 TCAATTTAAA
1 TAAATTTAAA
35979319 CTTTTAATTA
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.03
9 2 0.03
10 4 0.05
11 47 0.59
12 13 0.16
14 11 0.14
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:35980013 original size:200 final size:200
Alignment explanation
Indices: 35979664--35980292 Score: 876
Period size: 196 Copynumber: 3.2 Consensus size: 200
35979654 CTTCCCTGGG
* * *
35979664 TCTCATCAGGAAAATGACTGCAATC-ATCTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGA
1 TCTCATCAGGAAGATGACTGC-CTCGCT-TGTTTT-ATTCGCTTCTCTGGATCTCCTCAGGAAGA
* * *
35979728 CGAATCTGGTCTACTTCCCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGACTTGCTTC
63 CGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTC
* * * * **
35979793 TCAGTGTCTCGTCTGGAAGCTGGGTTCAAAGATTTGCTGGTGTTTGA-CGCTGAGTTAATGTTCT
128 TCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTGAGTTGGTGTTCT
35979857 TCTCTGTA
193 TCTCTGTA
*
35979865 TCTCATCAGGAAGATGACTGCCTCGCTTGTTTTGATTCGCTTCTCTGGATCTCCTTAGGAAGACG
1 TCTCATCAGGAAGATGACTGCCTCGCTTGTTTT-ATTCGCTTCTCTGGATCTCCTCAGGAAGACG
* * * *
35979930 AATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCTTTTTATTGCTTTGTCCTGCTTCTC
65 AATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTC
*
35979995 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTAAGTTGGTGTTCTTC
130 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTGAGTTGGTGTTCTTC
*
35980060 TCTGCA
195 TCTGTA
* * * *
35980066 TCTCATCATGAAGATGACCGCCTCGCTTG---T-TTCGCTTCTTTGGATCTCCTCAAGAAGACGA
1 TCTCATCAGGAAGATGACTGCCTCGCTTGTTTTATTCGCTTCTCTGGATCTCCTCAGGAAGACGA
* * *
35980127 ATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTCTTTATTACTTCGACCTTCTTCTCA
66 ATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCA
* * * * * *
35980192 GTGTCTCATCAGGAAGCCGGGTTCGAAGATTTGTTCGAGTCTGAGCGTTGAGTTGGTATTCTTCT
131 GTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTGAGTTGGTGTTCTTCT
35980257 CTGTA
196 CTGTA
35980262 TCTCATCAGGAAGATGACCT-CCTCGCTTGTT
1 TCTCATCAGGAAGATGA-CTGCCTCGCTTGTT
35980293 GAACTACTCC
Statistics
Matches: 381, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
196 173 0.45
197 1 0.00
198 1 0.00
200 137 0.36
201 69 0.18
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (200 bp):
TCTCATCAGGAAGATGACTGCCTCGCTTGTTTTATTCGCTTCTCTGGATCTCCTCAGGAAGACGA
ATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCA
GTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGCTGAGTTGGTGTTCTTCT
CTGTA
Found at i:35991479 original size:59 final size:59
Alignment explanation
Indices: 35991411--35991785 Score: 505
Period size: 59 Copynumber: 6.4 Consensus size: 59
35991401 TTTAACTTTT
* * *
35991411 AGGGGTAAAAAT-GTAATTTTTGGTAGAAAT-AGGGTTAAAAATGGGATTTTAGAAAGTTC
1 AGGGGT-AAAATGGTAATTTTTGGT-GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * *
35991470 AGGGATAAAATGGTAATTTTTGGGTGAAATTGGGGTT-AAAAT-GAGATTTTGGGAAGTTC
1 AGGGGTAAAATGGTAATTTTT-GGTGAAATCGGGGTTAAAAATGGA-ATTTTGGAAAGTTC
* * *
35991529 -GAGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTC
1 AG-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
35991588 -GGTGGTAAAAAT-ATAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTC
1 AGG-GGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
35991646 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
35991705 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
35991764 GGGGGTAAAATGGTAATTTTTG
1 AGGGGTAAAATGGTAATTTTTG
35991786 AACAGTTTAA
Statistics
Matches: 284, Mismatches: 20, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
57 5 0.02
58 67 0.24
59 197 0.69
60 15 0.05
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (59 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:35991652 original size:117 final size:117
Alignment explanation
Indices: 35991412--35991785 Score: 519
Period size: 117 Copynumber: 3.2 Consensus size: 117
35991402 TTAACTTTTA
* *
35991412 GGGGTAAAAAT-GTAATTTTTGGTAGAAAT-AGGGTTAAAAATGGGATTTT-AGAAAGTTCAGGG
1 GGGGT-AAAATGGTAATTTTTGG-AGAAATCAGGGTTAAAAATGGAATTTTGA-AAAGTTCGGGG
* *
35991474 -ATAAAATGGTAATTTTTGGGTGAAATTGGGGTTAAAAT-GAGATTTTGGGAAGTTCG
63 TA-AAAATGGTAATTTTT-GGTGAAATCGGGGTTAAAATGGA-ATTTTGGAAAGTTCG
*
35991530 AGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCGGTGGTA
1 GGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCGG-GGTA
*
35991595 AAAAT-ATAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTCG
65 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTCG
* * *
35991647 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT-
1 GGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTC-GGGGTA
* *
35991711 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
65 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTCG
35991765 GGGGTAAAATGGTAATTTTTG
1 GGGGTAAAATGGTAATTTTTG
35991786 AACAGTTTAA
Statistics
Matches: 234, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
116 5 0.02
117 123 0.53
118 97 0.41
119 8 0.03
120 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCGGGGTAA
AAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTCG
Found at i:35991783 original size:176 final size:177
Alignment explanation
Indices: 35991412--35991785 Score: 537
Period size: 176 Copynumber: 2.1 Consensus size: 177
35991402 TTAACTTTTA
*
35991412 GGGGTAAAAATGTAATTTTTGGTAGAAATAGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGATA
1 GGGGTAAAAATGTAATTTTTGGTAGAAATAGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGATA
* *
35991477 AAATGGTAATTTTTGGGTGAAATTGGGGTTAAAATGAGATTTTGGGAAGTTCGAGGGTAAAATGG
66 AAATGGTAATTTTTGGGTGAAATCGGGGTTAAAATGAGATTTTGGAAAGTTCGAGGGTAAAATGG
35991542 TAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCG
131 TAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCG
* * * * * *
35991589 GTGGTAAAAATATAATTTTTGGT-GAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTCGGGGGT
1 GGGGTAAAAATGTAATTTTTGGTAGAAAT-AGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGAT
35991652 AAAATGGTAATTTTT-GGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTC-AGGGGTAAA
65 AAAATGGTAATTTTTGGGTGAAATCGGGGTT-AAAATGAG-ATTTTGGAAAGTTCGA-GGGTAAA
* * *
35991714 ATGGTAATTTTTGGTGAAATC-GAGGTTAAAAATGGAATTTTGGAAAGTTTG
127 ATGGTAATTTTTGGAGAAATCAG-GGTTAAAAATGGAATTTTGAAAAGTTCG
35991765 GGGGT-AAAATGGTAATTTTTG
1 GGGGTAAAAAT-GTAATTTTTG
35991786 AACAGTTTAA
Statistics
Matches: 177, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
175 22 0.12
176 129 0.73
177 26 0.15
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (177 bp):
GGGGTAAAAATGTAATTTTTGGTAGAAATAGGGTTAAAAATGGAATTTTAGAAAGTTCAGGGATA
AAATGGTAATTTTTGGGTGAAATCGGGGTTAAAATGAGATTTTGGAAAGTTCGAGGGTAAAATGG
TAATTTTTGGAGAAATCAGGGTTAAAAATGGAATTTTGAAAAGTTCG
Found at i:35991793 original size:30 final size:28
Alignment explanation
Indices: 35991448--35991792 Score: 197
Period size: 29 Copynumber: 11.8 Consensus size: 28
35991438 AATAGGGTTA
* * * *
35991448 AAAATGGGATTTTAGAAAGTTCAGGGAT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
*
35991476 AAAATGGTAATTTTTGGGTGAAA-TT-GGGGTT
1 AAAATGG-AA-TTTT--G-GAAAGTTCGGGGGT
* *
35991507 AAAAT-GAGATTTTGGGAAGTTCGAGGGT
1 AAAATGGA-ATTTTGGAAAGTTCGGGGGT
* * *
35991535 AAAATGGTAATTTTTGGAGAA-ATCAGGGTT
1 AAAATGG-AA-TTTTGGA-AAGTTCGGGGGT
* *
35991565 AAAAATGGAATTTTGAAAAGTTCGGTGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
** *
35991594 AAAAATATAATTTTTGGTGAAA--TCGGGGTT
1 -AAAATGGAA-TTTT-G-GAAAGTTCGGGGGT
35991624 AAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
*
35991652 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
*
35991682 AAAAATGGAATTTTGGAAAGTTCAGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
* *
35991711 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
*
35991741 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
*
35991770 AAAATGGTAATTTTTGAACAGTT
1 AAAATGG-AATTTTGGAA-AGTT
35991793 TAAGGACCTA
Statistics
Matches: 247, Mismatches: 35, Indels: 68
0.71 0.10 0.19
Matches are distributed among these distances:
26 7 0.03
27 12 0.05
28 52 0.21
29 66 0.27
30 58 0.23
31 35 0.14
32 13 0.05
33 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:35993689 original size:6 final size:6
Alignment explanation
Indices: 35993637--35993736 Score: 66
Period size: 6 Copynumber: 17.0 Consensus size: 6
35993627 AAATTGGACT
* * * * *
35993637 TTTAAT TTTAAG TTTAAG TTTAAA TGTT-AT TTTAAA TTT-GA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA
* * *
35993683 TTTAAA TTTAAA -GTAAA TTTAAA TAGGTAAA TTTAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAAA TTTAAA
35993731 TTTAAA
1 TTTAAA
35993737 ATCAATTTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
4 2 0.03
5 12 0.16
6 53 0.72
7 2 0.03
8 5 0.07
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:35993699 original size:17 final size:17
Alignment explanation
Indices: 35993679--35993736 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
35993669 TAAATTTGAT
35993679 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAG
*
35993696 TAAATTTAAA--T-AGG
1 TAAATTTAAATTTAAAG
*
35993710 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAG
35993727 TAAATTTAAA
1 TAAATTTAAA
35993737 ATCAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 21 0.60
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAG
Found at i:35993732 original size:11 final size:11
Alignment explanation
Indices: 35993716--35993747 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35993706 TAGGTAAATT
35993716 TAAATTTAAAA
1 TAAATTTAAAA
35993727 TAAATTTAAAA
1 TAAATTTAAAA
*
35993738 TCAATTTAAA
1 TAAATTTAAA
35993748 CTTTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:35994509 original size:17 final size:17
Alignment explanation
Indices: 35994473--35994549 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
35994463 CCTTTAATTT
*
35994473 AATTTTAATTTAAAAATA
1 AATTTAAATTT-AAAATA
*
35994491 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
** * *
35994508 AATCCAAATTCAAAATG
1 AATTTAAATTTAAAATA
*
35994525 AATTTGAATTTAAAATA
1 AATTTAAATTTAAAATA
35994542 AATTTAAA
1 AATTTAAA
35994550 CTTATTTAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
17 36 0.78
18 10 0.22
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:36002490 original size:16 final size:16
Alignment explanation
Indices: 36002445--36002492 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
36002435 GTTTAGTTCA
* *
36002445 CTGTAATAGAATAAAA
1 CTGTAATAGAATAGAG
*
36002461 CTGTAATAAAATAGAG
1 CTGTAATAGAATAGAG
*
36002477 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
36002493 ATGAAATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:36002721 original size:19 final size:19
Alignment explanation
Indices: 36002697--36002740 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
36002687 TTAATAAAAA
*
36002697 TAATAAATAATTTAAAATT
1 TAATAAATAATATAAAATT
*
36002716 TAATAAATAATATATAATT
1 TAATAAATAATATAAAATT
36002735 TAATAA
1 TAATAA
36002741 TATTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATAATATAAAATT
Found at i:36002732 original size:26 final size:27
Alignment explanation
Indices: 36002654--36002737 Score: 84
Period size: 26 Copynumber: 3.1 Consensus size: 27
36002644 ATTATTGCTA
* * *
36002654 TTAAAATTTAATAAAATTATTATTAAAT
1 TTAAAATTTAATAAAATAATAAAT-AAT
*
36002682 CT--AATTTAATAAAAATAATAAATAAT
1 TTAAAATTTAAT-AAAATAATAAATAAT
*
36002708 TTAAAATTTAAT-AAATAATATATAAT
1 TTAAAATTTAATAAAATAATAAATAAT
36002734 TTAA
1 TTAA
36002738 TAATATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 29 0.62
27 9 0.19
28 9 0.19
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAAATTTAATAAAATAATAAATAAT
Found at i:36004694 original size:42 final size:41
Alignment explanation
Indices: 36004638--36004978 Score: 331
Period size: 41 Copynumber: 8.3 Consensus size: 41
36004628 CGCTTAATCA
* ***
36004638 CAAGCGCCGCTAAAGGTCAGGTCATTAGCGACGCTTGTGGGT
1 CAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTT-TCCCT
* * *
36004680 GAAGCGCCGCTAAAGGTCGGGTAATTAGCGGCGCTTTCCCT
1 CAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCCT
* *
36004721 TAAGCGCCGCTAAAGGT-AGGATCA-TAGCGGCGCTTTTCCT
1 CAAGCGCCGCTAAAGGTCAGG-TCATTAGCGGCGCTTTCCCT
* *
36004761 CAAGCGCCGCTAAAGGT-GGGATCATTAGCGGCGCTTTTCCT
1 CAAGCGCCGCTAAAGGTCAGG-TCATTAGCGGCGCTTTCCCT
* *
36004802 CAAGCGCCACTAAAGGT-AGGATCTTTAGCGGCGCTTTCCCT
1 CAAGCGCCGCTAAAGGTCAGG-TCATTAGCGGCGCTTTCCCT
* * ***
36004843 CAAGCGCCGCTAAAGGTCGGGTCATTAGCAGCGCTTTATAT
1 CAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCCT
* * *
36004884 ATAAGCGTCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-TCT
1 -CAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCCT
* *
36004925 AGTAAGCGTCGCTAAAGGT---GTGCATTAGCGGCGCTTTCCCAT
1 --CAAGCGCCGCTAAAGGTCAGGT-CATTAGCGGCGCTTTCCC-T
36004967 -AAGCGCCGCTAA
1 CAAGCGCCGCTAA
36004979 TTTATTTAAA
Statistics
Matches: 259, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
39 13 0.05
40 54 0.21
41 107 0.41
42 85 0.33
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (41 bp):
CAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCCT
Found at i:36004852 original size:82 final size:80
Alignment explanation
Indices: 36004612--36004978 Score: 361
Period size: 81 Copynumber: 4.5 Consensus size: 80
36004602 TAGCGGCGCT
* * *
36004612 GTCGGGTCATTAGTGGCGCTTAATCAC--AAGCGCCGCTAAAGGTCAGG-TCATTAGCGACGCTT
1 GTCGGGTCATTAGCGGCGCTT--TCCCTTAAGCGCCGCTAAAGGT-AGGATC-TTAGCGGCGCTT
** *
36004674 GTGGGTGAAGCGCCGCTAAAG
62 -T-CCTCAAGCGCCGCTAAAG
* *
36004695 GTCGGGTAATTAGCGGCGCTTTCCCTTAAGCGCCGCTAAAGGTAGGATCATAGCGGCGCTTTTCC
1 GTCGGGTCATTAGCGGCGCTTTCCCTTAAGCGCCGCTAAAGGTAGGATCTTAGCGGCGC-TTTCC
36004760 TCAAGCGCCGCTAAAG
65 TCAAGCGCCGCTAAAG
* * *
36004776 GT-GGGATCATTAGCGGCGCTTTTCCTCAAGCGCCACTAAAGGTAGGATCTTTAGCGGCGCTTTC
1 GTCGGG-TCATTAGCGGCGCTTTCCCTTAAGCGCCGCTAAAGGTAGGATC-TTAGCGGCGCTTT-
36004840 CCTCAAGCGCCGCTAAAG
63 CCTCAAGCGCCGCTAAAG
* *** *
36004858 GTCGGGTCATTAGCAGCGCTTTATATATAAGCGTCGCTAAAGGTCAGG-TCATTAGCGGCGCTTT
1 GTCGGGTCATTAGCGGCGCTTTCCCT-TAAGCGCCGCTAAAGGT-AGGATC-TTAGCGGCGCTTT
* * *
36004922 TCTAGTAAGCGTCGCTAAAG
63 CCT--CAAGCGCCGCTAAAG
* *
36004942 GT-GTG-CATTAGCGGCGCTTTCCCATAAGCGCCGCTAA
1 GTCGGGTCATTAGCGGCGCTTTCCCTTAAGCGCCGCTAA
36004979 TTTATTTAAA
Statistics
Matches: 241, Mismatches: 31, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
80 3 0.01
81 74 0.31
82 73 0.30
83 73 0.30
84 18 0.07
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (80 bp):
GTCGGGTCATTAGCGGCGCTTTCCCTTAAGCGCCGCTAAAGGTAGGATCTTAGCGGCGCTTTCCT
CAAGCGCCGCTAAAG
Found at i:36007038 original size:18 final size:18
Alignment explanation
Indices: 36007015--36007054 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36007005 CATTTATCAA
*
36007015 ATATATGTATACAAATAT
1 ATATATATATACAAATAT
* *
36007033 ATATATATATATAAATGT
1 ATATATATATACAAATAT
36007051 ATAT
1 ATAT
36007055 TTCCTTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATATATATACAAATAT
Found at i:36008861 original size:15 final size:15
Alignment explanation
Indices: 36008841--36008871 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36008831 CAATACACAT
36008841 ACCTAACCAGCCTGA
1 ACCTAACCAGCCTGA
*
36008856 ACCTAACTAGCCTGA
1 ACCTAACCAGCCTGA
36008871 A
1 A
36008872 AGAAAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.16
Consensus pattern (15 bp):
ACCTAACCAGCCTGA
Found at i:36010457 original size:36 final size:34
Alignment explanation
Indices: 36010415--36010566 Score: 127
Period size: 36 Copynumber: 4.4 Consensus size: 34
36010405 TAATAGGTTT
36010415 AATTATTTAATTATATTAAACTAAATAATTATATTA
1 AATTATTTAATTATATTAAA-TAAATAA-TATATTA
* * * *
36010451 AATTATTTAATTATGTATTTAAT-TATAA-ACAGTA
1 AATTATTTAATTA--TATTAAATAAATAATATATTA
* * *
36010485 CCAATTAATTAAATAT-TTAAATAAAT-AGAT-TT-
1 --AATTATTTAATTATATTAAATAAATAATATATTA
36010517 AATTATTTAATTATATTAAACTAAATAATTATATTA
1 AATTATTTAATTATATTAAA-TAAATAA-TATATTA
36010553 AATTATTTAATTAT
1 AATTATTTAATTAT
36010567 GTTTAATTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
30 12 0.13
31 5 0.05
32 5 0.05
33 8 0.09
34 10 0.11
35 2 0.02
36 42 0.46
37 1 0.01
38 6 0.07
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (34 bp):
AATTATTTAATTATATTAAATAAATAATATATTA
Found at i:36010587 original size:112 final size:112
Alignment explanation
Indices: 36010456--36011166 Score: 1221
Period size: 112 Copynumber: 6.4 Consensus size: 112
36010446 TATTAAATTA
* * * * *
36010456 TTTAATTATGTATTTAATTATAAACAGTACCAATTAATTAAATATTTAA-ATAAATAGATTTAAT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAA-AGATTTAAA
* * *
36010520 TATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATG
65 TATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
* * * *
36010568 TTTAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTTAATT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
*
36010633 ATTTAATTATATTAAAGTAAATGA-T-TATTAAATCAATTAATTATG
66 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
*
36010678 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
36010743 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
66 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
36010790 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
36010855 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
66 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
36010902 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
36010967 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
66 ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
36011014 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
* *
36011079 ATTTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATG
66 ATTTAA-TTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
* *
36011127 TTTAATTATGTATTTAATTGTAAACAATATCAATTAATTA
1 TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTA
36011167 TTTAATTATA
Statistics
Matches: 577, Mismatches: 18, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
110 103 0.18
111 2 0.00
112 391 0.68
113 81 0.14
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (112 bp):
TTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAAT
ATTTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATG
Found at i:36010887 original size:334 final size:335
Alignment explanation
Indices: 36010356--36011166 Score: 1286
Period size: 334 Copynumber: 2.4 Consensus size: 335
36010346 AATAATTAAA
* * * * * * *
36010356 TAATTATATATTTAATTATAAATAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTAT
1 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
* *
36010421 TTAATTATATTAAACTAAATAATTATA-T---T-A--AATTA--TTTAATTATGTATTTAATTAT
66 TTAATTATATTAAAGTAAATAATTATATTAAATAATTAATTATGTTTAATTATGTATTTAATTGT
* *
36010477 AAACAGTACCAATTAATTAAATATTTAAATAAATAGATTTAATTATTTAATTATATTAAACTAAA
131 AAACAGTATCAATTAATTAAATATTTAAATAAATAGATTTAAATATTTAATTATATTAAACTAAA
* *
36010542 TAATTATATTAAATTATTTAATTATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATT
196 TAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATT
* * *
36010607 AAATAATTAATTTAAAATATTTAATTATTTAATTATATTAAAGTAAATGA-T-TATTAAATCAAT
261 AAATAATTAATTTAAAAGATTTAAATATTTAATTATATTAAAGTAAATAATTATATTAAATCAAT
36010670 TAATTATGTT
326 TAATTATGTT
36010680 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
1 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
*
36010745 TTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTG
66 TTAATTATATTAAAGTAAATAATTATATTAAAT-AATTAATTATGTTTAATTATGTATTTAATTG
* *
36010810 TAAACAGTATCAATTAATTAAATATTTAATTTAAA-AGATTTAAATATTTAATTATATTAAAGTA
130 TAAACAGTATCAATTAATTAAATATTTAA-ATAAATAGATTTAAATATTTAATTATATTAAACTA
*
36010874 AATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTGTAAACAGTATCAATTAA
194 AATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAA
*
36010939 TTAAATATTTAATTTAAAAGATTTAAATATTTAATTATATTAAAGTAAATAATTATATTAAATCA
259 TTAAATAATTAATTTAAAAGATTTAAATATTTAATTATATTAAAGTAAATAATTATATTAAATCA
36011004 ATTAATTATGTT
324 ATTAATTATGTT
*
36011016 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATAT
1 TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
*
36011081 TTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
66 TTAA-TTATATTAAAGTAAATAATTATATTAAA-TAATTAATTATGTTTAATTATGTATTTAATT
*
36011146 GTAAACAATATCAATTAATTA
129 GTAAACAGTATCAATTAATTA
36011167 TTTAATTATA
Statistics
Matches: 447, Mismatches: 25, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
324 84 0.19
325 1 0.00
328 1 0.00
330 1 0.00
332 5 0.01
334 183 0.41
335 5 0.01
336 90 0.20
337 76 0.17
338 1 0.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (335 bp):
TAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTAT
TTAATTATATTAAAGTAAATAATTATATTAAATAATTAATTATGTTTAATTATGTATTTAATTGT
AAACAGTATCAATTAATTAAATATTTAAATAAATAGATTTAAATATTTAATTATATTAAACTAAA
TAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATT
AAATAATTAATTTAAAAGATTTAAATATTTAATTATATTAAAGTAAATAATTATATTAAATCAAT
TAATTATGTT
Found at i:36011201 original size:14 final size:12
Alignment explanation
Indices: 36011047--36011205 Score: 73
Period size: 12 Copynumber: 13.2 Consensus size: 12
36011037 ACAGTATCAA
36011047 TTAATTAAATAT
1 TTAATTAAATAT
36011059 TTAATTTAAA-A-
1 TTAA-TTAAATAT
* *
36011070 -GATTTAAATAT
1 TTAATTAAATAT
*
36011081 TTAATT-TATAT
1 TTAATTAAATAT
* * *
36011092 TAAAGTAAATAA
1 TTAATTAAATAT
36011104 TTATATTAAATTAT
1 TTA-ATTAAA-TAT
*
36011118 TTAATT--ATGT
1 TTAATTAAATAT
**
36011128 TTAATTATGTAT
1 TTAATTAAATAT
*
36011140 TTAATTGTAAACAAT
1 TTAA-T-TAAA-TAT
* *
36011155 ATCAATTAATTAT
1 -TTAATTAAATAT
36011168 TTAATT--ATAT
1 TTAATTAAATAT
36011178 TTAATTAAATAT
1 TTAATTAAATAT
36011190 TTAATTTAAAATAT
1 TTAA-TT-AAATAT
36011204 TT
1 TT
36011206 TCCTAAATAA
Statistics
Matches: 107, Mismatches: 23, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
9 5 0.05
10 19 0.18
11 9 0.08
12 32 0.30
13 18 0.17
14 18 0.17
15 3 0.03
16 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:36011276 original size:446 final size:434
Alignment explanation
Indices: 36010369--36011254 Score: 1192
Period size: 446 Copynumber: 2.0 Consensus size: 434
36010359 TTATATATTT
* * * * * *
36010369 AATTATAAATAGTACCAATTAATTAAATATTTAATTTAATAGGTTTAATTATTTAATTATATTAA
1 AATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATATTTAATTATATTAA
*
36010434 ACTAAATAATTATATTAAATTATTTAATTATGTATTTAATTATAAACAGTACCAATTAATTAAAT
66 ACTAAATAATTATATTAAATTATTTAATTATGTATTAAATTATAAACAGTACCAATTAATTAAAT
* * *
36010499 ATTTAAATAAATAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAAT
131 ATTTAAATAAATAGATTTAAATATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAAT
*
36010564 TATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAATATTT
196 TATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTT
* *
36010629 AATTATTTAATTATATTAAAGTAAATGATTATTAAATCAATTAATTATGTTTAATTATGTATTAA
261 AAATATTTAATTATATTAAAGTAAATAATTATTAAATCAATTAATTATGTTTAATTATGTATTAA
* * * *
36010694 ATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAATTATTTAATTATATTAAA
326 ATTGTAAACAATATCAATTAATTAAATAATTAATTTAAAAGATTT-ATAATTTAATAATATTAAA
* * *
36010759 GTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTA
390 CTAAATAAATATATTAAATCAATTAATTATGTTTAATTA-GTACTA
36010805 AATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATATTTAATTATATTAA
1 AATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATATTTAATTATATTAA
* * *
36010870 AGTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTAAATTGTAAACAGTATCAA
66 ACTAAATAATTATA-T---T--A--AATTA--TTTAATTATGTATTAAATTATAAACAGTACCAA
* *
36010935 TTAATTAAATATTTAATTTAAA-AGATTTAAATATTTAATTATATTAAAGTAAATAATTATATTA
121 TTAATTAAATATTTAA-ATAAATAGATTTAAATATTTAATTATATTAAACTAAATAATTATATTA
* *
36010999 AATCAATTAATTATGTTTAATTATGTATTAAATTGTAAACAGTATCAATTAATTAAATATTTAAT
185 AATCAATTAATTATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAAT
* *
36011064 TTAAAAGATTTAAATATTTAATTTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
250 TTAAAAGATTTAAATATTTAA-TTATATTAAAGTAAATAA-T-TATTAAATCAATTAATTATGTT
* **
36011129 TAATTATGTATTTAATTGTAAACAATATCAATTAATTATTTAATTATATTTAATTAA-ATATT-T
312 TAATTATGTATTAAATTGTAAACAATATCAATTAATTAAATAATTA-ATTTAA--AAGAT-TTAT
*** * * *
36011192 AATTTAA-AATATTTTCCTAAATAAATATA-TATAATTATTTAATT-TTTTTAATTA-TACTA
373 AATTTAATAATATTAAACTAAATAAATATATTA-AATCAATTAATTATGTTTAATTAGTACTA
36011251 AATT
1 AATT
36011255 AAATATTTAA
Statistics
Matches: 393, Mismatches: 38, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
436 72 0.18
437 1 0.00
440 1 0.00
442 1 0.00
444 5 0.01
446 174 0.44
447 21 0.05
448 12 0.03
449 87 0.22
450 13 0.03
451 2 0.01
452 4 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (434 bp):
AATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAAGATTTAAATATTTAATTATATTAA
ACTAAATAATTATATTAAATTATTTAATTATGTATTAAATTATAAACAGTACCAATTAATTAAAT
ATTTAAATAAATAGATTTAAATATTTAATTATATTAAACTAAATAATTATATTAAATCAATTAAT
TATGTTTAATTATGTATTAAATTATAAACAGTATCAATTAATTAAATAATTAATTTAAAAGATTT
AAATATTTAATTATATTAAAGTAAATAATTATTAAATCAATTAATTATGTTTAATTATGTATTAA
ATTGTAAACAATATCAATTAATTAAATAATTAATTTAAAAGATTTATAATTTAATAATATTAAAC
TAAATAAATATATTAAATCAATTAATTATGTTTAATTAGTACTA
Found at i:36011338 original size:33 final size:33
Alignment explanation
Indices: 36011291--36011363 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
36011281 AACAACCAAA
*
36011291 ATATTTT--AGTAAAATGTTGTCACTAATATAT
1 ATATTTTAAAGTAAAATGTTATCACTAATATAT
36011322 ATATTTTAAAGTAAAATGTTATCACTAATATAT
1 ATATTTTAAAGTAAAATGTTATCACTAATATAT
36011355 AT-TTTTAAA
1 ATATTTTAAA
36011364 TTTAAATCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 7 0.18
32 7 0.18
33 25 0.64
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATTTTAAAGTAAAATGTTATCACTAATATAT
Found at i:36016863 original size:66 final size:66
Alignment explanation
Indices: 36016716--36016873 Score: 217
Period size: 66 Copynumber: 2.4 Consensus size: 66
36016706 GCAAATTGCT
* * * * *
36016716 CAACTTAAAGAGGAGGCTACAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
36016781 A
66 A
* * * *
36016782 AAACTTAAAAAGGAGGCTGCAGTGAGAGAAGCAAAGTCTCAAAAAAAATATGAAGAACTCCACCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
36016847 A
66 A
* *
36016848 CAACTTAAAGTGGAGGCAGCAGCGAG
1 CAACTTAAAGAGGAGGCTGCAGCGAG
36016874 GCAAGCGGAG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (66 bp):
CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAAAGGCTCAAAAAAAATATGAAGAACTCCACCT
A
Found at i:36016876 original size:11 final size:11
Alignment explanation
Indices: 36016860--36016897 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
36016850 ACTTAAAGTG
36016860 GAGGCAGCAGC
1 GAGGCAGCAGC
36016871 GAGGCA--AGC
1 GAGGCAGCAGC
36016880 GGAGGCAGCAGC
1 -GAGGCAGCAGC
36016892 GAGGCA
1 GAGGCA
36016898 AGCGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.29, C:0.24, G:0.47, T:0.00
Consensus pattern (11 bp):
GAGGCAGCAGC
Found at i:36016885 original size:21 final size:21
Alignment explanation
Indices: 36016859--36016911 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
36016849 AACTTAAAGT
36016859 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
36016880 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
* *
36016901 GAAGGAAGCAG
1 GGAGGCAGCAG
36016912 AGGCTATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGGCAAGC
Found at i:36017374 original size:42 final size:43
Alignment explanation
Indices: 36017194--36017376 Score: 262
Period size: 43 Copynumber: 4.3 Consensus size: 43
36017184 ATCTGTTATA
* *
36017194 TTAGCGGCGCTTTTGGAGAAAGCGCTGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
*
36017237 TTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
* *
36017280 TTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACAAGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
* * **
36017323 TTAGCGGCGCTTGTGG-GAAAAGTGCCGTTAAA-AACATGTTCT
1 TTAGCGGCGCTTGTGGAG-AAAGCGCCGCTAAAGAACATGGCCT
36017365 TTAGCGGCGCTT
1 TTAGCGGCGCTT
36017377 TTCCGCATAA
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
42 20 0.16
43 109 0.84
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCT
Found at i:36018773 original size:16 final size:16
Alignment explanation
Indices: 36018749--36018784 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36018739 CCTTTTAAAT
*
36018749 TTTATATATTTATTTA
1 TTTAAATATTTATTTA
*
36018765 TTTAAATATTTTTTTA
1 TTTAAATATTTATTTA
36018781 TTTA
1 TTTA
36018785 TTTGGTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAAATATTTATTTA
Found at i:36022059 original size:49 final size:49
Alignment explanation
Indices: 36022006--36022474 Score: 330
Period size: 49 Copynumber: 9.6 Consensus size: 49
36021996 TGATACTGGA
* * *
36022006 TTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTCTTGAGGTACAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTCTTGAGGTACAAGG
* * * * * *
36022055 TTCGCCATTGCGACTTAAACCTTTCCCTTTAT-ATCTTTGTGGTACTAGA
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTC-TTGAGGTACAAGG
* *
36022104 TTCGCCCTTGCGGCTTAAATCTTTCCCTTTATGCT-TCTGAGGTACAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTCT-TGAGGTACAAGG
* ** * * * * *
36022153 TTCGTCGTTATGACTTAAA-CATTTCCCTTCAT-ATCTTCGTGGTACTAGA
1 TTCGCCGTTGCGACTTAAATC-TTTCCCTTTATGCTCTT-GAGGTACAAGG
* *
36022202 TTCGCCGTTGCGGCTTAAATCTTTCACTTTATGCT-TCTGAGGTACAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTCT-TGAGGTACAAGG
* * * * * * * * *
36022251 TTTGCCATTGTGACTTAAACCTTTCCCTTTAT-ATCTTCGTGATACTAGA
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTCTT-GAGGTACAAGG
* *
36022300 TTCGCCATTGC-AGCTTAAATCTTTTCCTTTATGCT-TCTGAGGTACAAGG
1 TTCGCCGTTGCGA-CTTAAATCTTTCCCTTTATGCTCT-TGAGGTACAAGG
* * * * * * * *
36022349 TTCGTCGTTGTGACTTAAA-CTTTTCCCTCTAT-ATCTTCGTGGAACTAGA
1 TTCGCCGTTGCGACTTAAATC-TTTCCCTTTATGCTCTT-GAGGTACAAGG
* * * * *
36022398 TTCACCGTTGCGGCTTAAATCTTTTCCTTCATGCATC-TAAGGTACAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGC-TCTTGAGGTACAAGG
* * *
36022447 TTCACCGTTGCGACTAAAACCTTTCCCT
1 TTCGCCGTTGCGACTTAAATCTTTCCCT
36022475 CCAAACCTGT
Statistics
Matches: 318, Mismatches: 81, Indels: 42
0.72 0.18 0.10
Matches are distributed among these distances:
48 12 0.04
49 295 0.93
50 9 0.03
51 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (49 bp):
TTCGCCGTTGCGACTTAAATCTTTCCCTTTATGCTCTTGAGGTACAAGG
Found at i:36022115 original size:98 final size:98
Alignment explanation
Indices: 36021942--36022474 Score: 683
Period size: 98 Copynumber: 5.4 Consensus size: 98
36021932 AGTTCGATGT
** ** * * * * * *
36021942 TTCTGAGGTACCGGGTTCGCCGTTACGATCGT-AACCCTTCCTTTTATATTTTCGTGATACTGGA
1 TTCTGAGGTACAAGGTTCGCCGTTGTGA-CTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
*
36022006 TTCGCCATTGCGGCTTAAATCTTTCCCTTCATGC
65 TTCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
* * *
36022040 -TCTTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTATATCTTTGTGGTACTAGA
1 TTC-TGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGA
*
36022104 TTCGCCCTTGCGGCTTAAATCTTTCCCTTTATGC
65 TTCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
* * * *
36022138 TTCTGAGGTACAAGGTTCGTCGTTATGACTTAAACATTTCCCTTCATATCTTCGTGGTACTAGAT
1 TTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGAT
* *
36022203 TCGCCGTTGCGGCTTAAATCTTTCACTTTATGC
66 TCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
* * *
36022236 TTCTGAGGTACAAGGTTTGCCATTGTGACTTAAACCTTTCCCTTTATATCTTCGTGATACTAGAT
1 TTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGAT
* *
36022301 TCGCCATTGCAGCTTAAATCTTTTCCTTTATGC
66 TCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
* * * *
36022334 TTCTGAGGTACAAGGTTCGTCGTTGTGACTTAAACTTTTCCCTCTATATCTTCGTGGAACTAGAT
1 TTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGAT
* * * *
36022399 TCACCGTTGCGGCTTAAATCTTTTCCTTCATGC
66 TCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
* * * * *
36022432 ATCTAAGGTACAAGGTTCACCGTTGCGACTAAAACCTTTCCCT
1 TTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCT
36022475 CCAAACCTGT
Statistics
Matches: 381, Mismatches: 51, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
97 4 0.01
98 375 0.98
99 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (98 bp):
TTCTGAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGAT
TCGCCATTGCGGCTTAAATCTTTCCCTTTATGC
Found at i:36022924 original size:18 final size:18
Alignment explanation
Indices: 36022897--36022933 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36022887 AATAATTGTC
*
36022897 AAATATTTACAAAGAACA
1 AAATAATTACAAAGAACA
36022915 AAATAATTACAAAGAACA
1 AAATAATTACAAAGAACA
36022933 A
1 A
36022934 TATTAGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAATTACAAAGAACA
Found at i:36028172 original size:38 final size:38
Alignment explanation
Indices: 36028114--36028186 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
36028104 CTAATTAGCT
*
36028114 ATCAATTCAATCATATACTTAAATAATAATATAGTAAA
1 ATCAATTCAATCATACACTTAAATAATAATATAGTAAA
* * *
36028152 ATCAATTTAATCGTACACTTAAATAATAGTATAGT
1 ATCAATTCAATCATACACTTAAATAATAATATAGT
36028187 TGACAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (38 bp):
ATCAATTCAATCATACACTTAAATAATAATATAGTAAA
Found at i:36030177 original size:28 final size:28
Alignment explanation
Indices: 36030146--36030278 Score: 146
Period size: 28 Copynumber: 4.7 Consensus size: 28
36030136 TAGATGCCCG
* *
36030146 AGGGTAAAACGGTAATTTTGGATATTTT
1 AGGGTAAAATGGTAATTTTGGACATTTT
36030174 AGGGTAAAATGGTAATTTTGGACATTTT
1 AGGGTAAAATGGTAATTTTGGACATTTT
* *
36030202 AGGGTAAAATGGTAATTTTGGAAATTCT
1 AGGGTAAAATGGTAATTTTGGACATTTT
* *
36030230 -GAGGTAAAAAATGG-AACTTTTGGATA-TTC
1 AG-GGT--AAAATGGTAA-TTTTGGACATTTT
36030259 AGGGGTAAAATGGTAATTTT
1 A-GGGTAAAATGGTAATTTT
36030279 AGGAAGTTTC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
27 1 0.01
28 66 0.73
29 5 0.05
30 18 0.20
31 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (28 bp):
AGGGTAAAATGGTAATTTTGGACATTTT
Found at i:36030330 original size:118 final size:116
Alignment explanation
Indices: 36030203--36030534 Score: 321
Period size: 118 Copynumber: 2.8 Consensus size: 116
36030193 GGACATTTTA
* *
36030203 GGGTAAAATGGTAATTTTGGAAATTCTGAGGTAAAAAATGGAACTTTTGGATATTCAGGGGTAAA
1 GGGTAAAATGGTAATTTTAGAAATT-TGAGGTCAAAAATGGAACTTTTGGATATTCAGGGGTAAA
* * *
36030268 ATGGTAATTTTAGGAAGTTTCGGGGTAAAAAAATGGAACTTTGGGACATTCGG
65 ATGATAATTTTAGGAAGTTTCGGGGT-AAAAAATGCAACTTTGGGACATTCAG
* * *
36030321 GGGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGAAACTTTTGGATA-TCCGAGGGTA
1 GGGTAAAATGGTAA-TTTTAGAAATTT-GAGGTCAAAAATGGAACTTTTGGATATTCAG-GGGTA
* * * * * *
36030385 AAATGACAATTTTTA-GAAATTTCGGGGTCAAAAATGCCATTTTTGGACATTCAG
63 AAATGATAA-TTTTAGGAAGTTTCGGGGTAAAAAATGCAACTTTGGGACATTCAG
* * * * ** * * * *
36030439 GAGTAAAATTGTGATTTTTGAAAAGATAAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTCA
1 GGGTAAAATGGTAATTTTAG-AAATTTGA-GGTCAAAAATGGAACTTTTGGATATTCAGGGGT-A
* *
36030504 AAAT-ATAATTTTAGTAAGTTT-GGGGTCAAAA
63 AAATGATAATTTTAGGAAGTTTCGGGGTAAAAA
36030535 TATAAATTTT
Statistics
Matches: 175, Mismatches: 30, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
117 21 0.12
118 85 0.49
119 64 0.37
120 5 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (116 bp):
GGGTAAAATGGTAATTTTAGAAATTTGAGGTCAAAAATGGAACTTTTGGATATTCAGGGGTAAAA
TGATAATTTTAGGAAGTTTCGGGGTAAAAAATGCAACTTTGGGACATTCAG
Found at i:36030388 original size:59 final size:58
Alignment explanation
Indices: 36030144--36030456 Score: 253
Period size: 59 Copynumber: 5.4 Consensus size: 58
36030134 TTTAGATGCC
* * * * *
36030144 CGAGGGTAAAACGGTAATTTTGGATATTTTAG-GGT--AAAATGGTAA-TTTTGGACATT
1 CGAGGGTAAAATGGTAATTTTAGA-AGTTTCGAGGTAAAAAATGG-AACTTTTGGATATT
** * *
36030200 TTAGGGTAAAATGGTAATTTTGGAA-ATTCTGAGGTAAAAAATGGAACTTTTGGATATT
1 CGAGGGTAAAATGGTAATTTTAGAAGTTTC-GAGGTAAAAAATGGAACTTTTGGATATT
* * *
36030258 C-AGGGGTAAAATGGTAATTTTAGGAAGTTTCGGGGTAAAAAAATGGAACTTTGGGACATT
1 CGA-GGGTAAAATGGTAATTTTA-GAAGTTTCGAGGT-AAAAAATGGAACTTTTGGATATT
* * * *
36030318 CGGGGGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGAAACTTTTGGATATC
1 CGAGGGTAAAATGGTAA-TTTTAGAAGTTTCGAGGTAAAAAATGGAACTTTTGGATATT
** * * * ** * *
36030377 CGAGGGTAAAATGACAATTTTTAGAAATTTCGGGGTCAAAAATGCCATTTTTGGACATT
1 CGAGGGTAAAATGGTAA-TTTTAGAAGTTTCGAGGTAAAAAATGGAACTTTTGGATATT
* *
36030436 C-AGGAGTAAAATTGTGATTTT
1 CGAGG-GTAAAATGGTAATTTT
36030457 TGAAAAGATA
Statistics
Matches: 212, Mismatches: 33, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
54 2 0.01
55 2 0.01
56 24 0.11
57 3 0.01
58 42 0.20
59 83 0.39
60 51 0.24
61 5 0.02
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (58 bp):
CGAGGGTAAAATGGTAATTTTAGAAGTTTCGAGGTAAAAAATGGAACTTTTGGATATT
Found at i:36030389 original size:119 final size:118
Alignment explanation
Indices: 36030203--36030418 Score: 294
Period size: 119 Copynumber: 1.8 Consensus size: 118
36030193 GGACATTTTA
* * *
36030203 GGGTAAAATGGTAATTTTGGAAATTCTGAGGTAAAAAATGGAACTTTTGGATATTCAGGGGTAAA
1 GGGTAAAATGGTAATTTTAGAAATTCTGAGGTAAAAAATGAAACTTTTGGATATCCAGGGGTAAA
** *
36030268 ATGGTAA-TTTTAGGAAGTTTCGGGGTAAAAAAATGGAACTTTGGGACATTCGG
66 ATGACAATTTTTA-GAAATTTCGGGGTAAAAAAATGGAACTTTGGGACATTCGG
* *
36030321 GGGTAAAATGGTAATTTTTAGAAGTT-TCGAGGTCAAAAATGAAACTTTTGGATATCC-GAGGGT
1 GGGTAAAATGGTAA-TTTTAGAAATTCT-GAGGTAAAAAATGAAACTTTTGGATATCCAG-GGGT
*
36030384 AAAATGACAATTTTTAGAAATTTCGGGGTCAAAAA
63 AAAATGACAATTTTTAGAAATTTCGGGGTAAAAAA
36030419 TGCCATTTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 16 0.19
119 64 0.75
120 5 0.06
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (118 bp):
GGGTAAAATGGTAATTTTAGAAATTCTGAGGTAAAAAATGAAACTTTTGGATATCCAGGGGTAAA
ATGACAATTTTTAGAAATTTCGGGGTAAAAAAATGGAACTTTGGGACATTCGG
Found at i:36030412 original size:29 final size:29
Alignment explanation
Indices: 36030320--36030577 Score: 88
Period size: 29 Copynumber: 8.9 Consensus size: 29
36030310 GGGACATTCG
* *
36030320 GGGGT-AAAATGGTAATTTTTAGAAGTTTC
1 GGGGTCAAAAT-GAAATTTTTAGAAATTTC
* * * * *
36030349 GAGGTCAAAAATGAAACTTTTGGATA-TCC
1 GGGGTC-AAAATGAAATTTTTAGAAATTTC
36030378 GAGGGT-AAAATGACAATTTTTAGAAATTTC
1 G-GGGTCAAAATGA-AATTTTTAGAAATTTC
** * *
36030408 GGGGTCAAAAATGCCATTTTTGGACA-TTC
1 GGGGTC-AAAATGAAATTTTTAGAAATTTC
* ** ** *
36030437 AGGAGT-AAAATTGTGATTTTT-GAAAAGATA
1 -GGGGTCAAAA-TGAAATTTTTAG-AAATTTC
* * * *
36030467 AGGGTCAAAAATGGAATTTTTGGAAATTTA
1 GGGGTC-AAAATGAAATTTTTAGAAATTTC
*
36030497 GGGGTCAAAAT-ATAA-TTTTAGTAAGTTT-
1 GGGGTCAAAATGA-AATTTTTAG-AAATTTC
* * *
36030525 GGGGTCAAAAT-ATAAATTTTGGAAAGTTC
1 GGGGTCAAAATGA-AATTTTTAGAAATTTC
* *
36030554 GAGGTCAAAATGTAATTTTT-GAAA
1 GGGGTCAAAATGAAATTTTTAGAAA
36030578 ACTTTAAGGG
Statistics
Matches: 172, Mismatches: 38, Indels: 39
0.69 0.15 0.16
Matches are distributed among these distances:
28 40 0.23
29 69 0.40
30 47 0.27
31 16 0.09
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (29 bp):
GGGGTCAAAATGAAATTTTTAGAAATTTC
Found at i:36030457 original size:59 final size:59
Alignment explanation
Indices: 36030189--36030577 Score: 266
Period size: 59 Copynumber: 6.6 Consensus size: 59
36030179 AAAATGGTAA
* * * * *
36030189 TTTTGGACATTTTA-GGGTAAAATGGTAA-TTTTGGAAA-TTCTGAGGTAAAAAATGGAAC
1 TTTTGGACA-TTCAGGGGTAAAATGGTAATTTTTAGAAATTTC-GGGGTCAAAAATGAAAC
* * * *
36030247 TTTTGGATATTCAGGGGTAAAATGGTAA-TTTTAGGAAGTTTCGGGGTAAAAAAATGGAAC
1 TTTTGGACATTCAGGGGTAAAATGGTAATTTTTA-GAAATTTCGGGGT-CAAAAATGAAAC
* * * *
36030307 TTTGGGACATTCGGGGGTAAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGAAAC
1 TTTTGGACATTCAGGGGTAAAATGGTAATTTTTAGAAATTTCGGGGTCAAAAATGAAAC
* * ** ** *
36030366 TTTTGGATA-TCCGAGGGTAAAATGACAATTTTTAGAAATTTCGGGGTCAAAAATGCCAT
1 TTTTGGACATTCAG-GGGTAAAATGGTAATTTTTAGAAATTTCGGGGTCAAAAATGAAAC
* * * ** ** * *
36030425 TTTTGGACATTCAGGAGTAAAATTGTGATTTTT-GAAAAGATAAGGGTCAAAAATGGAAT
1 TTTTGGACATTCAGGGGTAAAATGGTAATTTTTAG-AAATTTCGGGGTCAAAAATGAAAC
* * * *
36030484 TTTTGGAAATTTAGGGGTCAAAAT-ATAA-TTTTAGTAAGTTT-GGGGTCAAAATAT-AAA-
1 TTTTGGACATTCAGGGGT-AAAATGGTAATTTTTAG-AAATTTCGGGGTCAAAA-ATGAAAC
* *
36030541 TTTTGGAAAGTTC-GAGGTCAAAAT-GTAATTTTT-GAAA
1 TTTTGGACA-TTCAGGGGT-AAAATGGTAATTTTTAGAAA
36030578 ACTTTAAGGG
Statistics
Matches: 269, Mismatches: 49, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
56 2 0.01
57 26 0.10
58 51 0.19
59 125 0.46
60 60 0.22
61 5 0.02
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (59 bp):
TTTTGGACATTCAGGGGTAAAATGGTAATTTTTAGAAATTTCGGGGTCAAAAATGAAAC
Found at i:36030529 original size:28 final size:28
Alignment explanation
Indices: 36030497--36030577 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
36030487 TGGAAATTTA
* *
36030497 GGGGTCAAAATATAATTTTAGTAAGTTT
1 GGGGTCAAAATATAATTTTAGAAAGTTC
*
36030525 GGGGTCAAAATATAAATTTTGGAAAGTTC
1 GGGGTCAAAATAT-AATTTTAGAAAGTTC
* * *
36030554 GAGGTCAAAATGTAATTTTTGAAA
1 GGGGTCAAAATATAATTTTAGAAA
36030578 ACTTTAAGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 23 0.50
29 23 0.50
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
GGGGTCAAAATATAATTTTAGAAAGTTC
Found at i:36031682 original size:3 final size:3
Alignment explanation
Indices: 36031676--36031723 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
36031666 TTTTTTTAAA
* * * *
36031676 TAT TAT TAT TAA AAA TAT TAT TAT TAC TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
36031722 TA
1 TA
36031724 AGACTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:36031693 original size:15 final size:15
Alignment explanation
Indices: 36031673--36031716 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
36031663 CGGTTTTTTT
36031673 AAATATTATTATTAA
1 AAATATTATTATTAA
*
36031688 AAATATTATTATTAC
1 AAATATTATTATTAA
* *
36031703 TATTATTATTATTA
1 AAATATTATTATTA
36031717 TTTATTAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
AAATATTATTATTAA
Found at i:36032470 original size:17 final size:16
Alignment explanation
Indices: 36032444--36032479 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
36032434 ATTGGACATT
36032444 ATTTAAATAAATTTAA
1 ATTTAAATAAATTTAA
36032460 ATTTAAAATAAATTTAA
1 ATTT-AAATAAATTTAA
36032477 ATT
1 ATT
36032480 CTGTTGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAAATAAATTTAA
Found at i:36036048 original size:31 final size:31
Alignment explanation
Indices: 36036013--36036084 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
36036003 TCAATTTGGT
* *
36036013 TTTTTAAAAATAATTAAATTTGACTCTCAAC
1 TTTTTAAAAATAATCAAATTTGACTATCAAC
* * *
36036044 TTTTTAAAAATAGTCGAATTTGATTATCAAC
1 TTTTTAAAAATAATCAAATTTGACTATCAAC
*
36036075 TTTTTGAAAA
1 TTTTTAAAAA
36036085 GAGTCGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (31 bp):
TTTTTAAAAATAATCAAATTTGACTATCAAC
Found at i:36036090 original size:31 final size:31
Alignment explanation
Indices: 36036029--36036092 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
36036019 AAAATAATTA
* *
36036029 AATTTGACTCTCAACTTTTTAAAAATAGTCG
1 AATTTGACTATCAACTTTTTAAAAAGAGTCG
* *
36036060 AATTTGATTATCAACTTTTTGAAAAGAGTCG
1 AATTTGACTATCAACTTTTTAAAAAGAGTCG
36036091 AA
1 AA
36036093 ATGATATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (31 bp):
AATTTGACTATCAACTTTTTAAAAAGAGTCG
Found at i:36037242 original size:16 final size:16
Alignment explanation
Indices: 36037218--36037248 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36037208 TTTGAATTAC
36037218 TGATAAATATTTTATT
1 TGATAAATATTTTATT
*
36037234 TGATTAATATTTTAT
1 TGATAAATATTTTAT
36037249 CTTTAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TGATAAATATTTTATT
Found at i:36037456 original size:23 final size:23
Alignment explanation
Indices: 36037428--36037484 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
36037418 TGACGTGACA
36037428 TCCAGTCAGCAGCTTCTAGAAAG
1 TCCAGTCAGCAGCTTCTAGAAAG
* * *
36037451 TTCAGTCAGCAGCTTTTAGAAGG
1 TCCAGTCAGCAGCTTCTAGAAAG
36037474 TCCAGTCAGCA
1 TCCAGTCAGCA
36037485 AGGATGGACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
TCCAGTCAGCAGCTTCTAGAAAG
Found at i:36040803 original size:3 final size:3
Alignment explanation
Indices: 36040795--36040831 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
36040785 ACAAACCAAT
*
36040795 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36040832 AAGGAAACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36041903 original size:20 final size:19
Alignment explanation
Indices: 36041878--36041921 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
36041868 AAATTATAAT
36041878 AAAAATT-CAATAAAAATTAC
1 AAAAATTAC-ATAAAAATT-C
36041898 AAAAATTATCATAAAAATTC
1 AAAAATTA-CATAAAAATTC
36041918 AAAA
1 AAAA
36041922 GAATAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.55
21 9 0.41
22 1 0.05
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATTACATAAAAATTC
Found at i:36041931 original size:21 final size:21
Alignment explanation
Indices: 36041887--36041933 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
36041877 TAAAAATTCA
* *
36041887 ATAAAAATTACAAAAATTATC
1 ATAAAAATTACAAAAAATAGC
36041908 ATAAAAATT-CAAAAGAATAGC
1 ATAAAAATTACAAAA-AATAGC
36041929 ATAAA
1 ATAAA
36041934 GTATTTATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (21 bp):
ATAAAAATTACAAAAAATAGC
Found at i:36050548 original size:3 final size:3
Alignment explanation
Indices: 36050540--36050570 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
36050530 GAGTTCTTTA
36050540 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
36050571 GGTGAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36061650 original size:78 final size:78
Alignment explanation
Indices: 36061562--36061734 Score: 337
Period size: 78 Copynumber: 2.2 Consensus size: 78
36061552 TGCATTGCGT
36061562 AAATAAATAAGTAAAAATTGAAAAATAAATAAATAATGAAGGAAAAAACATTCAAACACACCCAA
1 AAATAAATAAGTAAAAATTGAAAAATAAATAAATAATGAAGGAAAAAACATTCAAACACACCCAA
36061627 GCTGTGGGTTGAA
66 GCTGTGGGTTGAA
36061640 AAATAAATAAGTAAAAATTGAAAAATAAATAAATAATGAAGGAAAAAACATTCAAACACACCCAA
1 AAATAAATAAGTAAAAATTGAAAAATAAATAAATAATGAAGGAAAAAACATTCAAACACACCCAA
*
36061705 GCTGTTGGTTGAA
66 GCTGTGGGTTGAA
36061718 AAATAAATAAGTAAAAA
1 AAATAAATAAGTAAAAA
36061735 GGAGGGAGAG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 94 1.00
ACGTcount: A:0.58, C:0.09, G:0.13, T:0.20
Consensus pattern (78 bp):
AAATAAATAAGTAAAAATTGAAAAATAAATAAATAATGAAGGAAAAAACATTCAAACACACCCAA
GCTGTGGGTTGAA
Found at i:36064962 original size:16 final size:17
Alignment explanation
Indices: 36064940--36064980 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
36064930 TTTACTTTAT
*
36064940 ATAATTAATGTAAAGTA
1 ATAATTAATGTAAAATA
*
36064957 AT-ATT-ATTTAAAATA
1 ATAATTAATGTAAAATA
36064972 ATAATTAAT
1 ATAATTAAT
36064981 TAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 10 0.50
16 6 0.30
17 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
ATAATTAATGTAAAATA
Found at i:36068992 original size:97 final size:99
Alignment explanation
Indices: 36068880--36069079 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 99
36068870 TTCATGAAAA
*
36068880 CTTTAAAATCCAGGCAATATTGT-TTTATTTC-GAGTTTTGAAAATTTGTGCCTTAACTTACTAG
1 CTTTAAAATCCAGGCAATATT-TCTTTATCTCTGA-TTTTGAAAATTTGTGCCTTAACTTACTAG
* *
36068943 ACGCGATTTTTCTTCAAATCG-GAATAATCGAATA-C
64 ACGAGACTTTTCTTCAAATCGAG-ATAATCGAATATC
* * * * **
36068978 CTTT-AAATCGAGGCAATGTTTCTTTATCTCTGATTTTGAAAATTTGTTCCTTAACTTGCTAGGT
1 CTTTAAAATCCAGGCAATATTTCTTTATCTCTGATTTTGAAAATTTGTGCCTTAACTTACTAGAC
36069042 GAGACTTTTCTTCAAATCGAGATAATCGAATATC
66 GAGACTTTTCTTCAAATCGAGATAATCGAATATC
36069076 CTTT
1 CTTT
36069080 TCCAAAGTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
96 1 0.01
97 76 0.85
98 12 0.13
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (99 bp):
CTTTAAAATCCAGGCAATATTTCTTTATCTCTGATTTTGAAAATTTGTGCCTTAACTTACTAGAC
GAGACTTTTCTTCAAATCGAGATAATCGAATATC
Found at i:36073869 original size:29 final size:31
Alignment explanation
Indices: 36073837--36073925 Score: 92
Period size: 33 Copynumber: 2.9 Consensus size: 31
36073827 TTTAATATGT
*
36073837 AATTGTATACAT-AAACTTTAATTTGGTAC-
1 AATTATATACATGAAACTTTAATTTGGTACA
* * * *
36073866 AATTATACACATGAAACTCTAATTGTAGTTCA
1 AATTATATACATGAAACTTTAATT-TGGTACA
*
36073898 AATATATATACTTGAAACTTTAATTTGG
1 AAT-TATATACATGAAACTTTAATTTGG
36073926 ATTTAATCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 10 0.21
31 4 0.09
32 5 0.11
33 18 0.38
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (31 bp):
AATTATATACATGAAACTTTAATTTGGTACA
Found at i:36079871 original size:18 final size:18
Alignment explanation
Indices: 36079848--36079890 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36079838 AAATATATTT
36079848 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
36079866 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
36079884 TTAATTA
1 TTAATTA
36079891 TATCTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36083151 original size:17 final size:17
Alignment explanation
Indices: 36083113--36083211 Score: 103
Period size: 17 Copynumber: 5.9 Consensus size: 17
36083103 TTTTTTAAAA
*
36083113 TTTAAATCTAAATTTA-
1 TTTAAATTTAAATTTAT
* *
36083129 TTTAAATTTGAATTTAC
1 TTTAAATTTAAATTTAT
*
36083146 TTTAAATTTAAACTTAT
1 TTTAAATTTAAATTTAT
* * ** *
36083163 TTTGAGTTTGGATTTAA
1 TTTAAATTTAAATTTAT
36083180 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
36083197 TTTAAA-TTAAATTTA
1 TTTAAATTTAAATTTA
36083212 AACTTTAAAT
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
16 23 0.35
17 43 0.65
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:36083184 original size:34 final size:34
Alignment explanation
Indices: 36083111--36083221 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
36083101 ATTTTTTTAA
*
36083111 AATTTAAATCTAAATTTA-TTTAAATTTGAATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
* * * * *
36083144 ACTTTAAATTTAAACTTATTTTGAGTTTGGATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
*
36083178 AATTTAAATTTAAATTTATTTTAAA-TTAAATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
36083211 AAACTTTAAAT
1 -AA-TTTAAAT
36083222 GTCCAAAATA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 21 0.33
34 35 0.56
35 7 0.11
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (34 bp):
AATTTAAATTTAAATTTATTTTAAATTTGAATTT
Found at i:36083206 original size:22 final size:23
Alignment explanation
Indices: 36083175--36083218 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
36083165 TGAGTTTGGA
*
36083175 TTTAATTTAAATTTAAA-TTTAT
1 TTTAAATTAAATTTAAACTTTAT
36083197 TTTAAATTAAATTTAAACTTTA
1 TTTAAATTAAATTTAAACTTTA
36083219 AATGTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATTAAATTTAAACTTTAT
Found at i:36083220 original size:7 final size:6
Alignment explanation
Indices: 36083110--36083221 Score: 76
Period size: 6 Copynumber: 19.7 Consensus size: 6
36083100 AATTTTTTTA
* * *
36083110 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * ** *
36083155 AAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
36083200 AAA-TT AAATTT AAACTTT AAAT
1 AAATTT AAATTT AAA-TTT AAAT
36083222 GTCCAAAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
4 4 0.05
5 20 0.24
6 54 0.64
7 6 0.07
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:36083905 original size:9 final size:9
Alignment explanation
Indices: 36083891--36083952 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
36083881 TTTTCATTGC
36083891 TAATATTAA
1 TAATATTAA
36083900 TAATATTAA
1 TAATATTAA
*
36083909 TAAGTTTTTAA
1 TAA--TATTAA
*
36083920 TAATAATAA
1 TAATATTAA
*
36083929 TAATAATTAG
1 TAAT-ATTAA
*
36083939 TAATATTAT
1 TAATATTAA
36083948 TAATA
1 TAATA
36083953 AAAAAGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
9 29 0.66
10 7 0.16
11 8 0.18
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (9 bp):
TAATATTAA
Found at i:36085094 original size:31 final size:30
Alignment explanation
Indices: 36085039--36085135 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
36085029 TCCAAGAGAT
36085039 CCCT-AAACTTATCCAAAAATCATATTTTGA
1 CCCTCAAACTT-TCCAAAAATCATATTTTGA
*
36085069 CCCTCAAACTTTCCAAAAATACATATTTTTA
1 CCCTCAAACTTTCCAAAAAT-CATATTTTGA
* *
36085100 CCCCCAAAC-TTCCAAAAATTC-CATTTTGA
1 CCCTCAAACTTTCCAAAAA-TCATATTTTGA
36085129 CCC-CAAA
1 CCCTCAAA
36085136 ACTTCTTCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.07
29 9 0.15
30 23 0.38
31 24 0.40
ACGTcount: A:0.38, C:0.30, G:0.02, T:0.30
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATCATATTTTGA
Found at i:36085126 original size:29 final size:29
Alignment explanation
Indices: 36085050--36085338 Score: 123
Period size: 30 Copynumber: 9.8 Consensus size: 29
36085040 CCTAAACTTA
*
36085050 TCCAAAAA-T-CATATTTTGACCCTCAAACTT
1 TCCAAAAATTCCAT-TTTT-ACCCCCAAAC-T
* *
36085080 TCCAAAAATACATATTTTTACCCCCAAACT
1 TCCAAAAATTC-CATTTTTACCCCCAAACT
* *
36085110 TCCAAAAATTCCATTTTGACCCCAAAACT
1 TCCAAAAATTCCATTTTTACCCCCAAACT
* *
36085139 TCTTCTAAAAATTACCA-TTTTA-CCTCGAA-T
1 TC--C-AAAAATT-CCATTTTTACCCCCAAACT
* * *
36085169 ATCAAAAAATTTCATTTTTGACCCCAAAACT
1 -TCCAAAAATTCCATTTTT-ACCCCCAAACT
***
36085200 T--ATAAAATTACCA--TTTACCCTTGAA-T
1 TCCA-AAAATT-CCATTTTTACCCCCAAACT
* * * *
36085226 GTCTAAAAATTCCTTTTTTAACCTCAAAACT
1 -TCCAAAAATTCCATTTTT-ACCCCCAAACT
* * * *
36085257 TCTAAAAATTACATTTTTACCCTCGAACT
1 TCCAAAAATTCCATTTTTACCCCCAAACT
* * * * *
36085286 TCCTAAAACTCCATTTTTGACCTCGAACCT
1 TCCAAAAATTCCATTTTT-ACCCCCAAACT
36085316 TCCAAAAATTACCATTTTT-CCCC
1 TCCAAAAATT-CCATTTTTACCCC
36085339 TGAGCATTCA
Statistics
Matches: 193, Mismatches: 43, Indels: 47
0.68 0.15 0.17
Matches are distributed among these distances:
26 1 0.01
27 11 0.06
28 21 0.11
29 52 0.27
30 62 0.32
31 26 0.13
32 15 0.08
33 5 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTCCATTTTTACCCCCAAACT
Found at i:36085234 original size:57 final size:57
Alignment explanation
Indices: 36085113--36085332 Score: 196
Period size: 57 Copynumber: 3.8 Consensus size: 57
36085103 CCAAACTTCC
36085113 AAAAATTCCA-TTTTGACCCCAAAACTTCTTCTAAAAATTACCATTTTACCTCGAATATCA
1 AAAAATTCCATTTTTGACCCCAAAA---CTTCTAAAAATTACCA-TTTACCTCGAATATCA
* * * * *
36085173 AAAAATTTCATTTTTGACCCCAAAACTTAT-AAAATTACCATTTACCCTTGAATGTCT
1 AAAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTACCATTTA-CCTCGAATATCA
* * * *
36085230 AAAAATTCCTTTTTTAACCTCAAAACTTCTAAAAATTA-CATTTTTACCCTCGAACT-TCC
1 AAAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTACCA--TTTA-CCTCGAA-TATCA
* * * * * *
36085289 TAAAACTCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTT
1 AAAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTACCATTT
36085333 TTCCCCTGAG
Statistics
Matches: 134, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
56 4 0.03
57 46 0.34
58 14 0.10
59 44 0.33
60 12 0.09
61 14 0.10
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (57 bp):
AAAAATTCCATTTTTGACCCCAAAACTTCTAAAAATTACCATTTACCTCGAATATCA
Found at i:36085309 original size:59 final size:60
Alignment explanation
Indices: 36085048--36085339 Score: 232
Period size: 59 Copynumber: 4.9 Consensus size: 60
36085038 TCCCTAAACT
* * * *
36085048 TATCCAAAAA-T-CATATTTTGACCCTC-AAACTTTCCAAAAA-TACATATTTTTACCCCCAAA
1 TATCCAAAAATTCCAT-TTTTGA-CCTCAAAAC-TTCTAAAAATTAC-CATTTTTACCCTCGAA
*
36085108 CT-TCCAAAAATTCCA-TTTTGACCCCAAAACTTCTTCTAAAAATTACCA-TTTTA-CCTCGAA
1 -TATCCAAAAATTCCATTTTTGACCTCAAAA---CTTCTAAAAATTACCATTTTTACCCTCGAA
* * * * *
36085168 TATCAAAAAATTTCATTTTTGACCCCAAAACTTAT-AAAATTACCA--TTTACCCTTGAA
1 TATCCAAAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTTACCCTCGAA
* * * *
36085225 TGTCTAAAAATTCCTTTTTTAACCTCAAAACTTCTAAAAATTA-CATTTTTACCCTCGAA
1 TATCCAAAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTTACCCTCGAA
* * * * * *
36085284 CT-TCCTAAAACTCCATTTTTGACCTCGAACCTTCCAAAAATTACCATTTTTCCCCT
1 -TATCCAAAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTTACCCT
36085340 GAGCATTCAA
Statistics
Matches: 190, Mismatches: 26, Indels: 31
0.77 0.11 0.13
Matches are distributed among these distances:
56 4 0.02
57 46 0.24
58 11 0.06
59 48 0.25
60 45 0.24
61 21 0.11
62 11 0.06
63 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (60 bp):
TATCCAAAAATTCCATTTTTGACCTCAAAACTTCTAAAAATTACCATTTTTACCCTCGAA
Found at i:36085350 original size:29 final size:29
Alignment explanation
Indices: 36085316--36085381 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
36085306 CCTCGAACCT
*
36085316 TCCAAAAATTACCATTTT-TCCCCTGAGCA
1 TCCAAAAATTACCATTTTACCCCCTG-GCA
* *
36085345 TTC-AAAATTACCGTTTTACCCCCTGGCA
1 TCCAAAAATTACCATTTTACCCCCTGGCA
36085373 TCCAAAAAT
1 TCCAAAAAT
36085382 CACACTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCCCTGGCA
Found at i:36096656 original size:68 final size:68
Alignment explanation
Indices: 36096538--36096880 Score: 526
Period size: 68 Copynumber: 5.0 Consensus size: 68
36096528 CTGCAGGTCT
*
36096538 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
36096603 GAG
66 GAG
* *
36096606 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
36096671 GAG
66 GAG
* * *
36096674 CAACGTCATCCCCTTGAAATTGAAGTAGGGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
36096739 GAG
66 GAG
* * *
36096742 CAACGTCGTCCTCTTGAAATTGAAGTAGAGTAGGATAACACATCTTTATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGT-GGATAACACGTCTTTATCTCTGAAATTGAAGTA
36096807 AGAG
65 AGAG
* * * *
36096811 CAACGTCATCCTCTTGAAATTGAAATAGAGTGGATAACGA-GCCTTTGTCTATCTGAAATTGAAG
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAC-ACGTCTTTATC--TCTGAAATTGAAG
36096875 TAAGAG
63 TAAGAG
36096881 TAAGATGAAG
Statistics
Matches: 256, Mismatches: 15, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
68 173 0.68
69 64 0.25
70 19 0.07
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:36096663 original size:37 final size:36
Alignment explanation
Indices: 36096552--36096881 Score: 196
Period size: 31 Copynumber: 9.5 Consensus size: 36
36096542 GTCATCCCCT
* *
36096552 TGAAATTGAAGTAGAGTGGATAACACATCTTTATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * **
36096589 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
36096620 TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * **
36096657 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
*
36096688 TGAAATTGAAGTAGGGTGGATAACATGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * *
36096725 TGAAATTGAAGTA-AG-AG-CAAC-GTCGTCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
* *
36096756 TGAAATTGAAGTAGAGTAGGATAACACATCTTTATCTC
1 TGAAATTGAAGTAGAGT-GGATAACA-GTCTTCATCTC
* * * *
36096794 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
* * **
36096825 TGAAATTGAAATAGAGTGGATAACGAGCCTTTGTCTATC
1 TGAAATTGAAGTAGAGTGGATAAC-AGTCTTCATC--TC
36096864 TGAAATTGAAGTAAGAGT
1 TGAAATTGAAGT-AGAGT
36096882 AAGATGAAGC
Statistics
Matches: 217, Mismatches: 48, Indels: 53
0.68 0.15 0.17
Matches are distributed among these distances:
31 51 0.24
32 33 0.15
33 3 0.01
34 22 0.10
35 7 0.03
36 24 0.11
37 47 0.22
38 14 0.06
39 11 0.05
40 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (36 bp):
TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
Found at i:36097031 original size:76 final size:76
Alignment explanation
Indices: 36096903--36097051 Score: 226
Period size: 76 Copynumber: 2.0 Consensus size: 76
36096893 CTAAGATCAA
** *
36096903 TTCCTATCCTCTTGAAAATGAAGTAAAGTTGGATATCAAGCCGTTATTTCTGAAATTGAAGTAAG
1 TTCCTATCCTCTTGAAAATGAAGTAAAGCGGGATATCAAGCCGTTATCTCTGAAATTGAAGTAAG
36096968 AGCAAGATCGT
66 AGCAAGATCGT
* * * *
36096979 TTCCTATCCTCTTGAAATTGAAGTAAAGCGGGATATTAAGTCTTTATCTCTGAAATTGAAGTAAG
1 TTCCTATCCTCTTGAAAATGAAGTAAAGCGGGATATCAAGCCGTTATCTCTGAAATTGAAGTAAG
*
36097044 AGTAAGAT
66 AGCAAGAT
36097052 AAAGCACCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (76 bp):
TTCCTATCCTCTTGAAAATGAAGTAAAGCGGGATATCAAGCCGTTATCTCTGAAATTGAAGTAAG
AGCAAGATCGT
Found at i:36097623 original size:24 final size:24
Alignment explanation
Indices: 36097596--36097650 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
36097586 ATTCATTTAC
**
36097596 AAATTTGAATTTATCTTAAAATTT
1 AAATTTGAATCAATCTTAAAATTT
* * *
36097620 AAATTTAAATCAATTTTTAAATTT
1 AAATTTGAATCAATCTTAAAATTT
36097644 AAATTTG
1 AAATTTG
36097651 TGTTAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTTGAATCAATCTTAAAATTT
Found at i:36097658 original size:17 final size:17
Alignment explanation
Indices: 36097636--36097668 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36097626 AAATCAATTT
36097636 TTAAATTTAAATTTGTG
1 TTAAATTTAAATTTGTG
36097653 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGT
36097669 TAAATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTAAATTTAAATTTGTG
Found at i:36097737 original size:14 final size:14
Alignment explanation
Indices: 36097718--36097788 Score: 105
Period size: 14 Copynumber: 5.3 Consensus size: 14
36097708 AGTCCAAAGT
36097718 CCAATTACAATGGC
1 CCAATTACAATGGC
36097732 CCAATTA-AA-GGC
1 CCAATTACAATGGC
36097744 CCAATTACAATGGC
1 CCAATTACAATGGC
36097758 CCAAATTA-AA-GGC
1 CC-AATTACAATGGC
36097771 CCAATTACAATGGC
1 CCAATTACAATGGC
36097785 CCAA
1 CCAA
36097789 ATAGGCCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
12 15 0.29
13 11 0.21
14 21 0.40
15 5 0.10
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.18
Consensus pattern (14 bp):
CCAATTACAATGGC
Found at i:36097772 original size:27 final size:27
Alignment explanation
Indices: 36097718--36097790 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
36097708 AGTCCAAAGT
36097718 CCAATTACAATGGCCC-AATTAAAGGC
1 CCAATTACAATGGCCCAAATTAAAGGC
36097744 CCAATTACAATGGCCCAAATTAAAGGC
1 CCAATTACAATGGCCCAAATTAAAGGC
36097771 CCAATTACAATGGCCCAAAT
1 CCAATTACAATGGCCCAAAT
36097791 AGGCCCAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 16 0.35
27 30 0.65
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (27 bp):
CCAATTACAATGGCCCAAATTAAAGGC
Found at i:36099414 original size:30 final size:30
Alignment explanation
Indices: 36099368--36099606 Score: 340
Period size: 30 Copynumber: 8.0 Consensus size: 30
36099358 CCCTAAATTG
36099368 TCCAGAAATTACATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
36099399 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
36099429 TCCAAAATTATATTTTGAGCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
36099459 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
36099489 TCCAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
36099519 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
36099548 TCCTAAAATTACATTTTAACCCTAAAAC-TT
1 TCC-AAAATTACATTTTGACCCCAAAACTTT
* *
36099578 TCAAAAATTATCATTTT-ACCCCTAAACTT
1 TCCAAAATTA-CATTTTGACCCCAAAACTT
36099607 CCCTAAATCC
Statistics
Matches: 190, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.11
30 166 0.87
31 4 0.02
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:36099466 original size:60 final size:60
Alignment explanation
Indices: 36099368--36099685 Score: 343
Period size: 60 Copynumber: 5.3 Consensus size: 60
36099358 CCCTAAATTG
* * *
36099368 TCCAGAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
* *
36099429 TCCAAAATTATATTTTGAGCCC-AAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTT-AACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
*
36099489 TCCAAAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
* *
36099548 TCCTAAAATTACATTTTAACCCTAAAAC-TTTCAAAAATTATCATTTT-ACCCCTAAAC-TT
1 TCC-AAAATTACATTTTAACCCTAAAACTTTTCCAAAATTA-CATTTTGACCCCAAAACTTT
* * ** * * *
36099607 CCCTAAATCCCATTTTAACCC--CAA-TTTCACCAAAATTTACCATTTT-ACCCCCAAATCTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT-TCCAAAA-TTA-CATTTTGA-CCCCAAAACTTT
*
36099667 T--AAAATTCCATTTTAACCC
1 TCCAAAATTACATTTTAACCC
36099686 CGATTTCACC
Statistics
Matches: 227, Mismatches: 21, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
56 4 0.02
57 5 0.02
58 41 0.18
59 40 0.18
60 130 0.57
61 7 0.03
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (60 bp):
TCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:36099651 original size:58 final size:58
Alignment explanation
Indices: 36099460--36099775 Score: 274
Period size: 58 Copynumber: 5.4 Consensus size: 58
36099450 CAAAACTTTT
* ** * *
36099460 CCAAAATTA-CATTTTGACCCCAAAACTTTTCC-AAAATTATATTTTAACCCTAAAACTTT-T
1 CCAAAATTACCATTTT-ACCCCCAAAC-TTTCCTAAAATTCCATTTTAACCC--CAA-TTTCA
* * *
36099520 CCAAAATTA-CATTTTGACCCCAAAACTTTCCTAAAATTACATTTTAACCCTAAAACTTTCA
1 CCAAAATTACCATTTT-ACCCCCAAACTTTCCTAAAATTCCATTTTAACCC--CAA-TTTCA
* * * *
36099581 --AAAATTATCATTTTACCCCTAAACTTCCCT-AAATCCCATTTTAACCCCAATTTCA
1 CCAAAATTACCATTTTACCCCCAAACTTTCCTAAAATTCCATTTTAACCCCAATTTCA
*
36099636 CCAAAATTTACCATTTTACCCCCAAATCTTT--TAAAATTCCATTTTAACCCCGATTTCA
1 CCAAAA-TTACCATTTTACCCCCAAA-CTTTCCTAAAATTCCATTTTAACCCCAATTTCA
* * * *
36099694 CCAAAAATTACCATTTTACCCCCGAA-TTTTCTAAAATTCCATTTTTAACCCCGATTACA
1 CC-AAAATTACCATTTTACCCCCAAACTTTCCTAAAATTCCA-TTTTAACCCCAATTTCA
* *
36099753 CCAAAATTATCATTTTGCCCCCA
1 CCAAAATTACCATTTTACCCCCA
36099776 GGTATCCATA
Statistics
Matches: 227, Mismatches: 17, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
55 5 0.02
56 5 0.02
57 5 0.02
58 103 0.45
59 51 0.22
60 58 0.26
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (58 bp):
CCAAAATTACCATTTTACCCCCAAACTTTCCTAAAATTCCATTTTAACCCCAATTTCA
Found at i:36099656 original size:29 final size:29
Alignment explanation
Indices: 36099520--36099768 Score: 128
Period size: 30 Copynumber: 8.6 Consensus size: 29
36099510 TAAAACTTTT
*
36099520 CCAAAATTA-CATTTTGACCCCAAAACTTTC-
1 CCAAAATTACCATTTTAACCCC--AA-TTTCA
* *
36099550 CTAAAATTA-CATTTTAACCCTAAAACTTTCA
1 CCAAAATTACCATTTTAACCC--CAA-TTTCA
* *
36099581 --AAAATTATCATTTT-ACCCCTAAACTTC-
1 CCAAAATTACCATTTTAACCCC--AATTTCA
* *
36099608 CCTAAA-TCCCATTTTAACCCCAATTTCA
1 CCAAAATTACCATTTTAACCCCAATTTCA
*
36099636 CCAAAATTTACCATTTTACCCCCAAATCTT--
1 CCAAAA-TTACCATTTTAACCCC-AAT-TTCA
** *
36099666 TTAAAATT-CCATTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTAACCCCAATTTCA
* *
36099694 CCAAAAATTACCATTTTACCCCCGAATTT-T
1 CC-AAAATTACCATTTTAACCCC-AATTTCA
* * *
36099724 CTAAAATT-CCATTTTTAACCCCGATTACA
1 CCAAAATTACCA-TTTTAACCCCAATTTCA
*
36099753 CCAAAATTATCATTTT
1 CCAAAATTACCATTTT
36099769 GCCCCCAGGT
Statistics
Matches: 169, Mismatches: 28, Indels: 45
0.70 0.12 0.19
Matches are distributed among these distances:
26 2 0.01
27 7 0.04
28 33 0.20
29 55 0.33
30 63 0.37
31 7 0.04
32 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
CCAAAATTACCATTTTAACCCCAATTTCA
Found at i:36099794 original size:58 final size:59
Alignment explanation
Indices: 36099579--36099807 Score: 173
Period size: 58 Copynumber: 3.9 Consensus size: 59
36099569 CTAAAACTTT
* ** * * * *
36099579 CAAAAATTATCATTTTACCCCTAAACT-TCCCTAAATCCCA-TTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCCGAAGTAT-CCAAAATCCCATTTTTAACCCCGATTACAC
* * * ** * *
36099637 CAAAATTTACCATTTTACCCCC-AAATCTTTTAAAATTCCA-TTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAAGT-ATCCAAAATCCCATTTTTAACCCCGATTACAC
* * * *
36099695 CAAAAATTACCATTTTACCCCCGAATTTTCTAAAATTCCATTTTTAACCCCGATTACAC
1 CAAAAATTACCATTTTACCCCCGAAGTATCCAAAATCCCATTTTTAACCCCGATTACAC
* * * * * *
36099754 C-AAAATTATCATTTTGCCCCC-AGGTATCCATAAGTCCCATTTTTCACTCCGATT
1 CAAAAATTACCATTTTACCCCCGAAGTATCCA-AAATCCCATTTTTAACCCCGATT
36099808 TCATCATTTA
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
57 8 0.06
58 113 0.79
59 22 0.15
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAAGTATCCAAAATCCCATTTTTAACCCCGATTACAC
Found at i:36106580 original size:28 final size:27
Alignment explanation
Indices: 36106549--36106609 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
36106539 GGCCTTTGGT
36106549 TTTAATTAAAGTTTAAATGGATTTTAAA
1 TTTAATTAAA-TTTAAATGGATTTTAAA
* **
36106577 TTTATTTTAAATTTAAATTTATTTTAAA
1 TTTA-ATTAAATTTAAATGGATTTTAAA
36106605 TTTAA
1 TTTAA
36106610 ATTTACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (27 bp):
TTTAATTAAATTTAAATGGATTTTAAA
Found at i:36106589 original size:11 final size:11
Alignment explanation
Indices: 36106569--36106639 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
36106559 GTTTAAATGG
36106569 ATTTTAAATTT
1 ATTTTAAATTT
36106580 ATTTTAAATTT
1 ATTTTAAATTT
* *
36106591 AAATTT-ATTTT
1 -ATTTTAAATTT
*
36106602 AAATTTAAATTT
1 -ATTTTAAATTT
36106614 ACTTATTTAAATTT
1 A--T-TTTAAATTT
*
36106628 ACTTTAAATTT
1 ATTTTAAATTT
36106639 A
1 A
36106640 AATTTAATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 32 0.64
12 8 0.16
14 10 0.20
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:36106591 original size:6 final size:6
Alignment explanation
Indices: 36106571--36106646 Score: 77
Period size: 6 Copynumber: 12.8 Consensus size: 6
36106561 TTAAATGGAT
* * *
36106571 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
*
36106619 TTTAAA TTT-AC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
36106647 TCAAATTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 12 0.21
6 40 0.70
8 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:36106591 original size:17 final size:17
Alignment explanation
Indices: 36106571--36106645 Score: 111
Period size: 17 Copynumber: 4.6 Consensus size: 17
36106561 TTAAATGGAT
36106571 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
36106588 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
36106605 TTTAAATTTA-CTT--A
1 TTTAAATTTATTTTAAA
*
36106619 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
36106636 TTTAAATTTA
1 TTTAAATTTA
36106646 ATCAAATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 2 0.04
17 38 0.72
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:36106625 original size:31 final size:31
Alignment explanation
Indices: 36106587--36106645 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
36106577 TTTATTTTAA
*
36106587 ATTTAAATTTATTTTAAATTTAAATTTACTT
1 ATTTAAATTTACTTTAAATTTAAATTTACTT
36106618 ATTTAAATTTACTTTAAATTTAAATTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
36106646 ATCAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTT
Found at i:36107321 original size:3 final size:3
Alignment explanation
Indices: 36107313--36107347 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
36107303 TTAATGATAT
36107313 TAA TAA TAA CTAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T
36107348 TACAGCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36108714 original size:58 final size:59
Alignment explanation
Indices: 36108430--36108743 Score: 494
Period size: 59 Copynumber: 5.4 Consensus size: 59
36108420 CTTGGACTGT
*
36108430 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* *
36108489 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACGTCAATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* *
36108548 CCAAAAATTACCATTTTACCCTTACACTTTCCAAAATCCCATTTTTAACC-CTGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTC-GATTTCA
*
36108607 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
* *
36108665 CC-AAAATTACCATTTTACCCCTGAA-TTTCCTAAAATCCCATTTTCAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCTCGATTTCA
36108723 CCAAAAATTA-CATTTTTACCC
1 CCAAAAATTACCA-TTTTACCC
36108744 TTGGAAGTCA
Statistics
Matches: 236, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
56 5 0.02
57 30 0.13
58 38 0.16
59 163 0.69
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
Found at i:36108720 original size:28 final size:26
Alignment explanation
Indices: 36108457--36108721 Score: 104
Period size: 28 Copynumber: 9.2 Consensus size: 26
36108447 ACCCCTAAAC
*
36108457 TTTCCAAAATCCCATTTTTAACCCCGA
1 TTTCCAAAATCCCA-TTTTAACCTCGA
* * **
36108484 TTTCACCAAAAATTACCATTTTACCCCTAAA
1 TTT--CC-AAAA-TCCCATTTTA-ACCTCGA
* *
36108515 CTTTCCAAAATCCCATTTTTAACGTCAA
1 -TTTCCAAAATCCCA-TTTTAACCTCGA
* *
36108543 TTTCACCAAAAATTACCATTTTACCCTTAC-A
1 TTT--CC-AAAA-TCCCATTTTAACC-T-CGA
36108574 CTTTCCAAAATCCCATTTTTAACC-CTGA
1 -TTTCCAAAATCCCA-TTTTAACCTC-GA
* * * *
36108602 TTTCACCAAAAATTACCATTTTACCCCCAAA
1 TTT--CC-AAAA-TCCCATTTTAACCTC-GA
36108633 CTTTCCAAAATCCCATTTTAACCTCGA
1 -TTTCCAAAATCCCATTTTAACCTCGA
* *
36108660 TTTCACCAAAATTACCATTTT-ACCCCTGAA
1 TTT--CCAAAA-TCCCATTTTAACCTC-G-A
36108690 TTTCCTAAAATCCCATTTTCAACCTCGA
1 TTTCC-AAAATCCCATTTT-AACCTCGA
36108718 TTTC
1 TTTC
36108722 ACCAAAAATT
Statistics
Matches: 181, Mismatches: 26, Indels: 61
0.68 0.10 0.23
Matches are distributed among these distances:
26 4 0.02
27 10 0.06
28 50 0.28
29 44 0.24
30 44 0.24
31 19 0.10
32 10 0.06
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.34
Consensus pattern (26 bp):
TTTCCAAAATCCCATTTTAACCTCGA
Found at i:36108737 original size:30 final size:28
Alignment explanation
Indices: 36108472--36108738 Score: 95
Period size: 30 Copynumber: 9.1 Consensus size: 28
36108462 AAAATCCCAT
*
36108472 TTTTAACCCCGATTTCACCAAAAATTACCA
1 TTTTAACCTCGATTTCACC-AAAATTA-CA
* ** **
36108502 TTTTACCCCTAAACTTT--CCAAAATCCCA
1 TTTTA-ACCTCGA-TTTCACCAAAATTACA
* *
36108530 TTTTTAACGTCAATTTCACCAAAAATTACCA
1 -TTTTAACCTCGATTTCACC-AAAATTA-CA
* **
36108561 TTTTACCCTTAC-ACTTT--CCAAAATCCCA
1 TTTTAACC-T-CGA-TTTCACCAAAATTACA
36108589 TTTTTAACC-CTGATTTCACCAAAAATTACCA
1 -TTTTAACCTC-GATTTCACC-AAAATTA-CA
* * * **
36108620 TTTTACCCCCAAACTTT--CCAAAATCCCA
1 TTTTAACCTC-GA-TTTCACCAAAATTACA
36108648 TTTTAACCTCGATTTCACCAAAATTACCA
1 TTTTAACCTCGATTTCACCAAAATTA-CA
* * **
36108677 TTTT-ACCCCTGAATTTC-CTAAAATCCCA
1 TTTTAACCTC-G-ATTTCACCAAAATTACA
36108705 TTTTCAACCTCGATTTCACCAAAAATTACA
1 TTTT-AACCTCGATTTCACC-AAAATTACA
36108735 TTTT
1 TTTT
36108739 TACCCTTGGA
Statistics
Matches: 173, Mismatches: 36, Indels: 56
0.65 0.14 0.21
Matches are distributed among these distances:
26 4 0.02
27 7 0.04
28 41 0.24
29 46 0.27
30 54 0.31
31 11 0.06
32 10 0.06
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTTAACCTCGATTTCACCAAAATTACA
Found at i:36110593 original size:27 final size:27
Alignment explanation
Indices: 36110563--36110617 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
36110553 TTTTCGTTTA
*
36110563 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
36110590 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
36110617 A
1 A
36110618 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:36110599 original size:6 final size:6
Alignment explanation
Indices: 36110581--36110674 Score: 88
Period size: 6 Copynumber: 15.8 Consensus size: 6
36110571 TTAAATTGAT
*
36110581 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA
* ** *
36110628 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA
36110675 CATTAAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.05
5 9 0.12
6 50 0.68
7 5 0.07
8 6 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:36110599 original size:17 final size:16
Alignment explanation
Indices: 36110581--36110651 Score: 94
Period size: 17 Copynumber: 4.4 Consensus size: 16
36110571 TTAAATTGAT
36110581 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
36110597 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
36110614 TTT-AA-TTATTTAAA
1 TTTAAATTTATTTAAA
36110628 TTT-AATTTGAATTTAAA
1 TTTAAATTT--ATTTAAA
36110645 TTTAAAT
1 TTTAAAT
36110652 AAAAATTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.22
15 5 0.10
16 12 0.24
17 19 0.38
18 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:36110626 original size:31 final size:31
Alignment explanation
Indices: 36110588--36110649 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
36110578 GATTTTAAAT
*
36110588 TTATTTAAATTTAAATTT-ATTTTAAATTTAA
1 TTATTTAAATTT-AATTTGAATTTAAATTTAA
36110619 TTATTTAAATTTAATTTGAATTTAAATTTAA
1 TTATTTAAATTTAATTTGAATTTAAATTTAA
36110650 ATAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
TTATTTAAATTTAATTTGAATTTAAATTTAA
Found at i:36110669 original size:42 final size:42
Alignment explanation
Indices: 36110581--36110674 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
36110571 TTAAATTGAT
* ** * *
36110581 TTTAAATTT-ATTTAAATTTAAATTTATTTTAAATTTAATTA
1 TTTAAATTTAATTTAAATTTAAATTTAATAAAAATTAAAATA
*
36110622 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAATA
1 TTTAAATTTAATTTAAATTTAAATTT-AATAAAAATTAAAATA
36110665 -TTAAATTTAA
1 TTTAAATTTAA
36110675 CATTAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 9 0.20
42 25 0.56
43 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (42 bp):
TTTAAATTTAATTTAAATTTAAATTTAATAAAAATTAAAATA
Found at i:36110879 original size:16 final size:16
Alignment explanation
Indices: 36110860--36110890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36110850 CGTGCTGCTG
36110860 CCACCACCAGCTCCAT
1 CCACCACCAGCTCCAT
*
36110876 CCACCACCTGCTCCA
1 CCACCACCAGCTCCA
36110891 CCATGCCCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.58, G:0.06, T:0.13
Consensus pattern (16 bp):
CCACCACCAGCTCCAT
Found at i:36111378 original size:13 final size:13
Alignment explanation
Indices: 36111360--36111384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36111350 TAACAGTAGC
36111360 ATTAATTAATAAT
1 ATTAATTAATAAT
36111373 ATTAATTAATAA
1 ATTAATTAATAA
36111385 AAAAAAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAATTAATAAT
Found at i:36112385 original size:30 final size:30
Alignment explanation
Indices: 36112328--36112563 Score: 287
Period size: 30 Copynumber: 7.8 Consensus size: 30
36112318 CCCTAAATTA
*
36112328 TCCAGAAATTATA-TTTAGACCCCAAAACTTT
1 TCCA-AAATTACATTTTA-ACCCCAAAACTTT
* *
36112359 TCTAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
36112389 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
36112419 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * **
36112449 TCCATAATTACATTTTGACCCTGAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
*
36112479 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* * * *
36112509 TCTAAAATCATATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTAACCCCAAAACTTT
* *
36112538 TCAAAAATTACCATTTTACCCCCAAA
1 TCCAAAATTA-CATTTTAACCCCAAA
36112564 CTTCCCTAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
29 10 0.06
30 162 0.91
31 7 0.04
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:36112409 original size:60 final size:60
Alignment explanation
Indices: 36112328--36112563 Score: 321
Period size: 60 Copynumber: 3.9 Consensus size: 60
36112318 CCCTAAATTA
* * * *
36112328 TCCAGAAATTATATTTAGACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
*
36112389 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
* ** *
36112449 TCCATAATTACATTTTGACCCTGAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
* * * * *
36112509 TCTAAAATCATATTTTGACCCCAAAAC-TTTCAAAAATTACCATTTTACCCCCAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTA-CATTTTAACCCCAAA
36112564 CTTCCCTAAA
Statistics
Matches: 155, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
59 11 0.07
60 140 0.90
61 4 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (60 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTT
Found at i:36112486 original size:90 final size:90
Alignment explanation
Indices: 36112328--36112555 Score: 343
Period size: 90 Copynumber: 2.5 Consensus size: 90
36112318 CCCTAAATTA
*
36112328 TCCAGAAATTATA-TTTAGACCCCAAAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCC
1 TCCA-AAATTATATTTTA-ACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCC
36112392 AAAATTACATTTTGACCCCAAAACTTT
64 AAAATTACATTTTGACCCCAAAACTTT
* * *
36112419 TCCAAAATTATATTTTAACCCCAAAACTTTTCCATAATTACATTTTGACCCTGAAACTTTTCCAA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAA
36112484 AATTACATTTTGACCCCAAAACTTT
66 AATTACATTTTGACCCCAAAACTTT
* * * *
36112509 TCTAAAATCATATTTTGACCCCAAAAC-TTTCAAAAATTACCATTTTA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTA-CATTTTA
36112556 CCCCCAAACT
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
89 10 0.08
90 107 0.86
91 8 0.06
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (90 bp):
TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAA
AATTACATTTTGACCCCAAAACTTT
Found at i:36113776 original size:17 final size:17
Alignment explanation
Indices: 36113756--36113814 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
36113746 TCCTTGATTT
36113756 TTAACCTTCTATCTTCC
1 TTAACCTTCTATCTTCC
*
36113773 TTAACC-TC--CCTTGGCC
1 TTAACCTTCTATCTT--CC
36113789 TTTAACCTTCTATCTTCC
1 -TTAACCTTCTATCTTCC
36113807 TTAACCTT
1 TTAACCTT
36113815 TCATATTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 3 0.09
16 4 0.12
17 20 0.59
18 4 0.12
20 3 0.09
ACGTcount: A:0.17, C:0.36, G:0.03, T:0.44
Consensus pattern (17 bp):
TTAACCTTCTATCTTCC
Found at i:36114702 original size:6 final size:6
Alignment explanation
Indices: 36114691--36114718 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36114681 AACAAATCCC
36114691 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
36114719 TTTAATTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:36117945 original size:58 final size:59
Alignment explanation
Indices: 36117854--36117967 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 59
36117844 GACACTTATG
* * * *
36117854 GGAAAGCGCCACTAAAGGTCAGAGCATTAGCGGCGCTTGCGGGAAAGCGTCGCTAAGCA
1 GGAAAGCGCCACTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAAGCA
36117913 GGAAAGCG-CAGCT-AAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAA
1 GGAAAGCGCCA-CTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAA
36117968 AGGTCAGATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 40 0.80
59 10 0.20
ACGTcount: A:0.31, C:0.24, G:0.32, T:0.13
Consensus pattern (59 bp):
GGAAAGCGCCACTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAAGCA
Found at i:36117984 original size:41 final size:41
Alignment explanation
Indices: 36117914--36118132 Score: 237
Period size: 41 Copynumber: 5.4 Consensus size: 41
36117904 CGCTAAGCAG
* *
36117914 GAAAGCGCAGCT-AAGATCAGAGCATTAGCGGCACTTGCGA
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* *
36117954 GAAAGCGCCGCTAAAGGTCAGATCATTAGCGGCGCTTGC-A
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * *
36117994 GGAAAGCACCGCTAACGGTCAGAGCATTAGCAGCGCTTGCG-
1 -GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * *
36118035 GTAAAGCTCCGCTAAAGGTCAGAGAATTAACGGCACTTGTGA
1 G-AAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * *
36118077 GAAAACGCCGCTAAAGATCAGAGCATTAGCGGCACTTGTGG
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* *
36118118 GGAAGCGTCGCTAAA
1 GAAAGCGCCGCTAAA
36118133 AGTGGATTTT
Statistics
Matches: 150, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
40 13 0.09
41 136 0.91
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.30, T:0.17
Consensus pattern (41 bp):
GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
Found at i:36119668 original size:16 final size:16
Alignment explanation
Indices: 36119647--36119710 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
36119637 TAATTTATTT
*
36119647 TAAAATTAAATTTGATA
1 TAAATTTAAATTT-ATA
* *
36119664 TAAATTTAGATTTATT
1 TAAATTTAAATTTATA
*
36119680 TAAATTTAAATTTAAA
1 TAAATTTAAATTTATA
36119696 TTAAACTTTAAATTT
1 -TAAA-TTTAAATTT
36119711 GAATTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 15 0.38
17 15 0.38
18 9 0.23
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAATTTAAATTTATA
Found at i:36119686 original size:6 final size:6
Alignment explanation
Indices: 36119645--36119759 Score: 84
Period size: 6 Copynumber: 20.3 Consensus size: 6
36119635 CTTAATTTAT
* * * *
36119645 TTTAAA ATTAAA TTT-GA TATAAA TTTAGA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
36119690 TTTAAA -TTAAA CTTTAAA TTTGAA TTT-AA TTTGAG TCTAAA TTT--A
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
36119735 TTTAAA TTTAAA ATT-AA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
36119760 AAAGTCCAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
4 8 0.09
5 17 0.20
6 55 0.65
7 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:36119707 original size:18 final size:17
Alignment explanation
Indices: 36119646--36119759 Score: 83
Period size: 17 Copynumber: 6.8 Consensus size: 17
36119636 TTAATTTATT
* *
36119646 TTAAAATTAAATTT-GA
1 TTAAATTTAAATTTAAA
* *
36119662 TATAAATTTAGATTT-AT
1 T-TAAATTTAAATTTAAA
36119679 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
36119696 TTAAACTTTAAATTTGAA
1 TTAAA-TTTAAATTTAAA
* * * *
36119714 TTTAATTTGAGTCTAAA
1 TTAAATTTAAATTTAAA
*
36119731 TT-TATTTAAATTTAAAA
1 TTAAATTTAAATTT-AAA
36119748 TT-AATTTAAATT
1 TTAAATTTAAATT
36119760 AAAGTCCAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
16 20 0.26
17 42 0.55
18 15 0.19
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:36119721 original size:51 final size:53
Alignment explanation
Indices: 36119652--36119757 Score: 119
Period size: 57 Copynumber: 2.0 Consensus size: 53
36119642 TATTTTAAAA
*
36119652 TTAAATTTGATATAAATTT-AG-ATTTATTTAAATTTAAATTTAAATTAAACT
1 TTAAATTTGATATAAATTTGAGAATTTATTTAAATTTAAAATTAAATTAAACT
* *
36119703 TTAAATTTGA-ATTTAATTTGAGTCTAAATTTATTTAAATTTAAAATTAATTTAAA
1 TTAAATTTGATA-TAAATTTGAG----AATTTATTTAAATTTAAAATTAAATTAAA
36119758 TTAAAGTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
50 1 0.02
51 16 0.36
52 2 0.04
57 26 0.58
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (53 bp):
TTAAATTTGATATAAATTTGAGAATTTATTTAAATTTAAAATTAAATTAAACT
Found at i:36121852 original size:59 final size:58
Alignment explanation
Indices: 36121789--36122248 Score: 500
Period size: 59 Copynumber: 7.8 Consensus size: 58
36121779 GAAACTTCTG
* * *
36121789 AAAATTACCGTTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACTCCGATTTTACCA
1 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCCATTTTTAAC-CCGATTTCACCA
* *
36121848 AAAATTACCATTTTACCCCCGAACTTTCCAAAA-TCTCATTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTC-CATTTTTAACC-CGATTTCACCA
* * * * *
36121907 AAAATTATCGTTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCATCA
1 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCC-GATTTCACCA
* * * * *
36121966 AAAATTACCATTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCCAGTTTAATCG
1 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCCGA-TTTCACCA
* ** * * *
36122025 AAAATTACCGTTTTA-CCCTTAAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACCG
1 AAAATTACCATTTTATCCC-CGAACTTTCCAAAATTCCATTTTTAACCC-GATTTCACCA
* * *
36122084 AAAATTACCGTTTTATCCTCGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCACCA
* * * *
36122142 AAAATTACTATTTTA-CCCCTAAACTTTCCAAAATTCTATTTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTATCCCC-GAACTTTCCAAAATTCCATTTTTAA-CCCGATTTCACCA
* *
36122201 AAAATTACCATTTTA-CCCTTGAACCTTCCAAAA-TCTCATTTTTAACCC
1 AAAATTACCATTTTATCCC-CGAACTTTCCAAAATTC-CATTTTTAACCC
36122249 TAAATTTTCC
Statistics
Matches: 345, Mismatches: 43, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
57 3 0.01
58 55 0.16
59 283 0.82
60 4 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (58 bp):
AAAATTACCATTTTATCCCCGAACTTTCCAAAATTCCATTTTTAACCCGATTTCACCA
Done.