Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 89 of 325
Found at i:29847561 original size:88 final size:88
Alignment explanation
Indices: 29846778--29847554 Score: 683
Period size: 88 Copynumber: 8.8 Consensus size: 88
29846768 AGACGAAAAG
* * * * *
29846778 CCTTAACCCCCTAAGTAGTAGGGTAATAGGTTAAAGATTGTAGATCTTGTCTCCCTAAACAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAG
* **
29846843 TGGAGCAAATCGAAGA-A-ACAA
66 TGGAGCAGATCGAAGACAGTGAA
* * * * * * * ** *
29846864 GCCTTAACCCCCTAAGTAGCAGGGTAACAGGTTGAATATTACAGGTCTTGTCTCTTCGAAGTTGC
1 -CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTC-CCTAAGCAGT
* * * *
29846929 AGTGGAACAGATCAAAGACGGTGAG
64 AGTGGAGCAGATCGAAGACAGTGAA
* * * * ** *
29846954 CCTTGACCCTCTAAGCAGTA-GGTAACAGGTTGAAGATTATAGATCTTGTCTCCCTAAACAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAG
* * *
29847018 TGGATCAAATCGAAGA-AG-CAA
66 TGGAGCAGATCGAAGACAGTGAA
** * ** *
29847039 GCCTTAACCCCCTAAGTAGTAAAGTAACAGGCTGAAGATTGCAGA-CTTGTCTCCTCGAAGTTGC
1 -CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCC-CTAAGCAGT
* * * *
29847103 AGTGGAACAGATCAAAGACGGTGAG
64 AGTGGAGCAGATCGAAGACAGTGAA
* * * * ** *
29847128 CCTTGACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCGCCCTGAAGTTGCA
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAGCAGTA
* * * **
29847193 GTGGAACAGATCAAAAATGGT-AA
65 GTGGAGCAGATCGAAGACAGTGAA
* * * *
29847216 GCCTTAACCCCCTAAGTAGCAGGGTAACAGGCTGAATATTGTAGATCTTGTCTCCCTAAACAGTA
1 -CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTA
* *
29847281 GTGGAGCAAATCGAAGA-AG-CAA
65 GTGGAGCAGATCGAAGACAGTGAA
* * * * ** *
29847303 GCCTTAACCCCCTAAGTAGTAGAGTAACAAGCTGAAGATTGCAGATCTTGTTTCCTCAAAGTTGC
1 -CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCC-CTAAGCAGT
* * * *
29847368 AGTGGAACAGATCAAAGACGGTGAG
64 AGTGGAGCAGATCGAAGACAGTGAA
* * * *
29847393 CCTTGACCCCTTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCGCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAG
*
29847458 CGGAGCAGATCGAAGACAGTGAA
66 TGGAGCAGATCGAAGACAGTGAA
* * * *
29847481 CCTTAACCCCCTAAGTAGTAGGGTAAC-GGCCTGAAAATTACAGATCCTATCTCCCTAAGCAGTA
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGG-CTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTA
29847545 GTGGAGCAGA
65 GTGGAGCAGA
29847555 CTGAAGATTA
Statistics
Matches: 551, Mismatches: 123, Indels: 31
0.78 0.17 0.04
Matches are distributed among these distances:
85 1 0.00
86 27 0.05
87 157 0.28
88 213 0.39
89 151 0.27
90 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACAGTGAA
Found at i:29848253 original size:18 final size:16
Alignment explanation
Indices: 29848230--29848275 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
29848220 CCACCAAAAT
29848230 ACAAAATAAATATAAA
1 ACAAAATAAATATAAA
*
29848246 ATCTAAAAAAAATATAAA
1 A-C-AAAATAAATATAAA
29848264 ACAAAATAAATA
1 ACAAAATAAATA
29848276 CTGTCCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 2 0.08
18 14 0.54
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
ACAAAATAAATATAAA
Found at i:29850876 original size:130 final size:128
Alignment explanation
Indices: 29850642--29850946 Score: 463
Period size: 130 Copynumber: 2.4 Consensus size: 128
29850632 CTATTCATTC
29850642 AAAATTCTTTAAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
1 AAAATTC-TTAAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGG-ATCGTGCCCTATCGTGC
* *
29850707 TGGGTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTTT
64 TGGGTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATAT-TTT
29850772 A
128 A
*
29850773 AAAATTCTTCAAAATGAAGGAAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCT
1 AAAATTCTT-AAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCT
* *
29850838 GGGTTGCAATTTCCCGTTTG-CTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTC
65 GGGTTGCAATATCCCGTTTGTC-CAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTA
* * * *
29850902 TAAATTC-TAAAA-CAAGGCAATGTTCAATGTTTGGAAATTCGGGGA
1 AAAATTCTTAAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGGA
29850947 ATTGTGCCTT
Statistics
Matches: 162, Mismatches: 10, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
126 29 0.18
127 4 0.02
128 1 0.01
129 10 0.06
130 75 0.46
131 43 0.27
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (128 bp):
AAAATTCTTAAAATGAAGGCAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCTG
GGTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTA
Found at i:29855948 original size:22 final size:22
Alignment explanation
Indices: 29855923--29855965 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29855913 TTTAGATTTG
**
29855923 GATTTTTGTTGATTCAAATATA
1 GATTTTTACTGATTCAAATATA
29855945 GATTTTTACTGATTCAAATAT
1 GATTTTTACTGATTCAAATAT
29855966 CCGACATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (22 bp):
GATTTTTACTGATTCAAATATA
Found at i:29856315 original size:11 final size:11
Alignment explanation
Indices: 29856299--29856327 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29856289 TTACTCGAAG
29856299 AATTTACAGAT
1 AATTTACAGAT
29856310 AATTTACAGAT
1 AATTTACAGAT
29856321 AATTTAC
1 AATTTAC
29856328 GGATTCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (11 bp):
AATTTACAGAT
Found at i:29857169 original size:20 final size:19
Alignment explanation
Indices: 29857136--29857195 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
29857126 GTGTCTTCTT
* *
29857136 TAAATTTATTAAAAAATTA
1 TAAAATTATAAAAAAATTA
29857155 TAATAATTATAAAAAATATT-
1 TAA-AATTATAAAAAA-ATTA
29857175 TAAAA--ATAAAAAAA-TA
1 TAAAATTATAAAAAAATTA
29857191 TAAAA
1 TAAAA
29857196 CAACATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 1 0.03
16 6 0.17
17 8 0.22
19 5 0.14
20 13 0.36
21 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTATAAAAAAATTA
Found at i:29857189 original size:8 final size:9
Alignment explanation
Indices: 29857145--29857209 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 9
29857135 TTAAATTTAT
29857145 TAAAAAATTA
1 TAAAAAA-TA
* *
29857155 TAATAATTA
1 TAAAAAATA
29857164 TAAAAAATA
1 TAAAAAATA
*
29857173 TTTAAAAATA
1 -TAAAAAATA
29857183 -AAAAAATA
1 TAAAAAATA
29857191 TAAAACAACATA
1 T-AAA-AA-ATA
29857203 TAAAAAA
1 TAAAAAA
29857210 GTTTAATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.16
9 10 0.23
10 18 0.41
11 5 0.11
12 4 0.09
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAATA
Found at i:29857390 original size:5 final size:5
Alignment explanation
Indices: 29857380--29857406 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29857370 TTCGTTGGTT
29857380 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
29857407 TGTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:29858402 original size:20 final size:20
Alignment explanation
Indices: 29858373--29858417 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29858363 TTTTTCAATT
*
29858373 TTTTGAATTTTTGATATACTA
1 TTTTGAATTTTTGAGATA-TA
*
29858394 TTTTG-ATTTTTTAGATATA
1 TTTTGAATTTTTGAGATATA
29858413 TTTTG
1 TTTTG
29858418 GGTGTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.62
Consensus pattern (20 bp):
TTTTGAATTTTTGAGATATA
Found at i:29858804 original size:30 final size:30
Alignment explanation
Indices: 29858770--29858835 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
29858760 TAAAGTAATC
*
29858770 TTAATTAATGTATAATTATATATAT-AAATT
1 TTAATT-ATGTATAATTATATAAATGAAATT
* * *
29858800 TTAATTTTGTGTAATTTTATAAATGAAATT
1 TTAATTATGTATAATTATATAAATGAAATT
29858830 TTAATT
1 TTAATT
29858836 TGATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (30 bp):
TTAATTATGTATAATTATATAAATGAAATT
Found at i:29862096 original size:30 final size:30
Alignment explanation
Indices: 29862043--29862104 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
29862033 TAATAAAAGT
* *
29862043 AAAATTATATTTTATCCCCTAAAAATAATA
1 AAAATTATATTTAATCACCTAAAAATAATA
** *
29862073 AAAATTATATTTAATCATTTAAAAATTATA
1 AAAATTATATTTAATCACCTAAAAATAATA
29862103 AA
1 AA
29862105 GACATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTATATTTAATCACCTAAAAATAATA
Found at i:29863827 original size:15 final size:15
Alignment explanation
Indices: 29863807--29863837 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29863797 TATAAGAGAT
29863807 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
29863822 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
29863837 G
1 G
29863838 GAACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (15 bp):
GTAGAAAACTAACTC
Found at i:29867070 original size:32 final size:32
Alignment explanation
Indices: 29867034--29867097 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
29867024 AACACTGAAG
29867034 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
29867066 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
29867098 CCTCTTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (32 bp):
TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
Found at i:29868241 original size:6 final size:6
Alignment explanation
Indices: 29868232--29868261 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
29868222 ACATGTACAA
*
29868232 TTGTGT TTGTAT TTGTAT TTGTAT TTGTAT
1 TTGTAT TTGTAT TTGTAT TTGTAT TTGTAT
29868262 GGTGAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (6 bp):
TTGTAT
Found at i:29880345 original size:43 final size:43
Alignment explanation
Indices: 29880281--29880367 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 43
29880271 ATATGTGATT
*
29880281 TCGATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGGTTACGAGTAAGACCAC-GTCTGGGACAGTGGCA
*
29880324 TCGATATGTGGTTAC-ATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGGTTACGA-GTAAGACCACGTCTGGGACAGTGGCA
29880367 T
1 T
29880368 TGTACGATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 1 0.03
43 38 0.95
44 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TCGATATGTGGTTACGAGTAAGACCACGTCTGGGACAGTGGCA
Found at i:29883533 original size:10 final size:10
Alignment explanation
Indices: 29883518--29883567 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
29883508 TAATTTTAGG
29883518 ATTTAT-TTT
1 ATTTATCTTT
29883527 CATTTATCTTT
1 -ATTTATCTTT
29883538 ATTTATCTTT
1 ATTTATCTTT
*
29883548 AATTAT-TTGT
1 ATTTATCTT-T
29883558 ATTTATCTTT
1 ATTTATCTTT
29883568 TAGTATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:29883574 original size:20 final size:20
Alignment explanation
Indices: 29883537--29883575 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29883527 CATTTATCTT
*
29883537 TATTTATCTTTAATTATTTG
1 TATTTATCTTTAAGTATTTG
*
29883557 TATTTATCTTTTAGTATTT
1 TATTTATCTTTAAGTATTT
29883576 AATTAGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTTATCTTTAAGTATTTG
Found at i:29884320 original size:17 final size:18
Alignment explanation
Indices: 29884288--29884321 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29884278 TATTCTCCAT
*
29884288 TTTAATTTTGGCAATTTA
1 TTTAATTTTCGCAATTTA
29884306 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
29884322 CAATCCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:29889975 original size:7 final size:7
Alignment explanation
Indices: 29889963--29890065 Score: 67
Period size: 7 Copynumber: 14.9 Consensus size: 7
29889953 TTACTTAATT
29889963 TTTATTA
1 TTTATTA
29889970 TTTATTA
1 TTTATTA
29889977 -TT-TTA
1 TTTATTA
*
29889982 TTTCATTT
1 TTT-ATTA
*
29889990 TATTAGTA
1 T-TTATTA
*
29889998 TCTATTA
1 TTTATTA
29890005 -TT-TTA
1 TTTATTA
29890010 TTTCATT-
1 TTT-ATTA
*
29890017 TTATCAATA
1 TT-T-ATTA
29890026 TTTATTA
1 TTTATTA
29890033 -TT-TTA
1 TTTATTA
29890038 TTTAATTA
1 TTT-ATTA
29890046 TTTATTA
1 TTTATTA
29890053 TTTATTA
1 TTTATTA
29890060 TTTATT
1 TTTATT
29890066 TTGGATATTA
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
5 9 0.12
6 11 0.14
7 33 0.43
8 19 0.25
9 4 0.05
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:29890011 original size:28 final size:28
Alignment explanation
Indices: 29889968--29890066 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 28
29889958 TAATTTTTAT
*
29889968 TATTTATTATTTTATTTCATTTTATTAG
1 TATTTATTATTTTATTTCATTTTATTAA
* *
29889996 TATCTATTATTTTATTTCATTTTATCAA
1 TATTTATTATTTTATTTCATTTTATTAA
* * *
29890024 TATTTATTATTTTATTTAATTAT-TTAT
1 TATTTATTATTTTATTTCATTTTATTAA
29890051 TATTTATTA-TTTATTT
1 TATTTATTATTTTATTT
29890067 TGGATATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 7 0.11
27 11 0.17
28 45 0.71
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (28 bp):
TATTTATTATTTTATTTCATTTTATTAA
Found at i:29890033 original size:23 final size:20
Alignment explanation
Indices: 29890007--29890055 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
29889997 ATCTATTATT
29890007 TTATTTCATTTTATCAATATTTA
1 TTATTTCA-TTTA--AATATTTA
* *
29890030 TTATTTTATTTAATTATTTA
1 TTATTTCATTTAAATATTTA
29890050 TTATTT
1 TTATTT
29890056 ATTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.54
22 4 0.17
23 7 0.29
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTCATTTAAATATTTA
Found at i:29892360 original size:20 final size:20
Alignment explanation
Indices: 29892335--29892375 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29892325 CTATTAGGAT
29892335 GAATAATTATGATTAATAGA
1 GAATAATTATGATTAATAGA
29892355 GAATAATTATGATTAATAGA
1 GAATAATTATGATTAATAGA
29892375 G
1 G
29892376 TTAACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (20 bp):
GAATAATTATGATTAATAGA
Found at i:29893553 original size:10 final size:10
Alignment explanation
Indices: 29893538--29893587 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
29893528 TAATTTTAGA
29893538 ATTTAT-TTT
1 ATTTATCTTT
29893547 CATTTATCTTT
1 -ATTTATCTTT
*
29893558 ATTTATATTT
1 ATTTATCTTT
*
29893568 AATTAT-TTGT
1 ATTTATCTT-T
29893578 ATTTATCTTT
1 ATTTATCTTT
29893588 TAGTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:29893594 original size:20 final size:20
Alignment explanation
Indices: 29893557--29893595 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29893547 CATTTATCTT
*
29893557 TATTTATATTTAATTATTTG
1 TATTTATATTTAAGTATTTG
* *
29893577 TATTTATCTTTTAGTATTT
1 TATTTATATTTAAGTATTT
29893596 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTTATATTTAAGTATTTG
Found at i:29894986 original size:51 final size:52
Alignment explanation
Indices: 29894931--29895040 Score: 159
Period size: 51 Copynumber: 2.1 Consensus size: 52
29894921 TCTTTTTCGT
* * *
29894931 TTTCATTTTTGAGAAAACCACATTCATTTCCAAATGATT-CTATTTCTCCAA
1 TTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCAA
* * *
29894982 TTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTCCAT
1 TTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCAA
29895034 TTTCATT
1 TTTCATT
29895041 ACTTCTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (52 bp):
TTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTCCAA
Found at i:29897730 original size:32 final size:33
Alignment explanation
Indices: 29897686--29897850 Score: 171
Period size: 32 Copynumber: 5.4 Consensus size: 33
29897676 AATATTAATT
29897686 TGGGCCATAGCCCTTTACAGTATCAGGGTATAC
1 TGGGCCATAGCCCTTTACAGTATCAGGGTATAC
*
29897719 TGGGCC-TAGCCC-ATATCAGTATCA----AT-C
1 TGGGCCATAGCCCTTTA-CAGTATCAGGGTATAC
*
29897746 TTGGCCATAGCCCTTTACAGTATCAGGGTATAC
1 TGGGCCATAGCCCTTTACAGTATCAGGGTATAC
*
29897779 TGGGCC-TAGCCC-ATATCAGTATCA----AT-C
1 TGGGCCATAGCCCTTTA-CAGTATCAGGGTATAC
*
29897806 TTGGCCATAGCCCTTTACAGTATCAGGGTATAC
1 TGGGCCATAGCCCTTTACAGTATCAGGGTATAC
29897839 TGGGCC-TAGCCC
1 TGGGCCATAGCCC
29897851 ATATCAGTAT
Statistics
Matches: 108, Mismatches: 8, Indels: 33
0.72 0.05 0.22
Matches are distributed among these distances:
27 12 0.11
28 32 0.30
29 4 0.04
31 4 0.04
32 38 0.35
33 18 0.17
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (33 bp):
TGGGCCATAGCCCTTTACAGTATCAGGGTATAC
Found at i:29897758 original size:28 final size:28
Alignment explanation
Indices: 29897660--29897878 Score: 137
Period size: 28 Copynumber: 7.4 Consensus size: 28
29897650 GAGTTAACTG
* * *
29897660 GGCCTTAGCCCATATCAATATTAAT-TT
1 GGCCATAGCCCATATCAGTATCAATCTT
* *
29897687 GGGCCATAGCCC-TTTACAGTATCAGGGTATACTG
1 -GGCCATAGCCCATAT-CAGTATCA----AT-CTT
29897721 GGCC-TAGCCCATATCAGTATCAATCTT
1 GGCCATAGCCCATATCAGTATCAATCTT
* *
29897748 GGCCATAGCCC-TTTACAGTATCAGGGTATACTG
1 GGCCATAGCCCATAT-CAGTATCA----AT-CTT
29897781 GGCC-TAGCCCATATCAGTATCAATCTT
1 GGCCATAGCCCATATCAGTATCAATCTT
* *
29897808 GGCCATAGCCC-TTTACAGTATCAGGGTATACTG
1 GGCCATAGCCCATAT-CAGTATCA----AT-CTT
29897841 GGCC-TAGCCCATATCAGTATCAATCTT
1 GGCCATAGCCCATATCAGTATCAATCTT
29897868 GGCCATAGCCC
1 GGCCATAGCCC
29897879 TATTTCAAGT
Statistics
Matches: 151, Mismatches: 15, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
27 24 0.16
28 56 0.37
32 48 0.32
33 22 0.15
34 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (28 bp):
GGCCATAGCCCATATCAGTATCAATCTT
Found at i:29897819 original size:120 final size:121
Alignment explanation
Indices: 29897656--29897917 Score: 408
Period size: 120 Copynumber: 2.2 Consensus size: 121
29897646 ATTAGAGTTA
*
29897656 ACTGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCTTTACAGTATCAGGGTATACTG
1 ACTGGGCCTTAGCCCATATCAATATCAATTTGGGCCATAGCCCTTTACAGTATCAGGGTATACTG
29897721 GGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
66 GGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
*
29897777 ACTGGGCC-TAGCCCATATCAGTATCAATCTT-GGCCATAGCCCTTTACAGTATCAGGGTATACT
1 ACTGGGCCTTAGCCCATATCAATATCAAT-TTGGGCCATAGCCCTTTACAGTATCAGGGTATACT
* * *
29897840 GGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTATTTCAAGT-TGA-GATAT
65 GGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCT-TTAC-AGTATCAGGGTAT
*
29897897 ATTGGGCCTT-GCCCATATCAA
1 ACTGGGCCTTAGCCCATATCAA
29897918 CACAGTTGGG
Statistics
Matches: 130, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
120 111 0.85
121 16 0.12
122 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (121 bp):
ACTGGGCCTTAGCCCATATCAATATCAATTTGGGCCATAGCCCTTTACAGTATCAGGGTATACTG
GGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
Found at i:29897916 original size:60 final size:60
Alignment explanation
Indices: 29897656--29897879 Score: 405
Period size: 60 Copynumber: 3.7 Consensus size: 60
29897646 ATTAGAGTTA
* *
29897656 ACTGGGCCTTAGCCCATATCAATATTAAT-TTGGGCCATAGCCCTTTACAGTATCAGGGTAT
1 ACTGGGCC-TAGCCCATATCAGTATCAATCTT-GGCCATAGCCCTTTACAGTATCAGGGTAT
29897717 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
1 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
29897777 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
1 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
29897837 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCT
1 ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCT
29897880 ATTTCAAGTT
Statistics
Matches: 160, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
60 150 0.94
61 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (60 bp):
ACTGGGCCTAGCCCATATCAGTATCAATCTTGGCCATAGCCCTTTACAGTATCAGGGTAT
Found at i:29897932 original size:20 final size:20
Alignment explanation
Indices: 29897907--29897946 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29897897 ATTGGGCCTT
*
29897907 GCCCATATCAACACAGTTGG
1 GCCCATATAAACACAGTTGG
* *
29897927 GCCCATTTAAATACAGTTGG
1 GCCCATATAAACACAGTTGG
29897947 CCTATAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCCATATAAACACAGTTGG
Found at i:29900749 original size:33 final size:33
Alignment explanation
Indices: 29900711--29900784 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
29900701 TTCATGTTTT
*
29900711 TCATATAAATACCAATAATAGTTCACATCGAAC
1 TCATATAAATACCAATAATAATTCACATCGAAC
*
29900744 TCATATAAATACCAATAATAATTCATATCGAAC
1 TCATATAAATACCAATAATAATTCACATCGAAC
29900777 TCATATAA
1 TCATATAA
29900785 TCTCCTAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (33 bp):
TCATATAAATACCAATAATAATTCACATCGAAC
Found at i:29900977 original size:25 final size:25
Alignment explanation
Indices: 29900924--29900981 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
29900914 AAGCTCTTCT
* **
29900924 GAGCTAAATAACAAGAAGCTCATGC
1 GAGCTGAATAACAAGAAGCTCATAA
*
29900949 GAGCTGAATAACAGGAAGCTCATAA
1 GAGCTGAATAACAAGAAGCTCATAA
29900974 GAGCTGAA
1 GAGCTGAA
29900982 ATCGGTGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCTGAATAACAAGAAGCTCATAA
Found at i:29907953 original size:31 final size:31
Alignment explanation
Indices: 29907918--29907983 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
29907908 ACTTTTAGTA
*
29907918 ACAAAAGCATAATTTATTACAATGAGTGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
*
29907949 ACAAAAGCATAATTTATTACTATGAATGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
29907980 ACAA
1 ACAA
29907984 CTCTTGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (31 bp):
ACAAAAGCATAATTTATTACAATGAATGGTG
Found at i:29908543 original size:33 final size:33
Alignment explanation
Indices: 29908501--29908566 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29908491 ACCATAAGCC
29908501 CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
1 CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
29908534 CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
1 CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
29908567 TCTTATTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.21
Consensus pattern (33 bp):
CCACTCTAATGGTGGGGGGAATGTTGAAAACAA
Found at i:29909871 original size:40 final size:39
Alignment explanation
Indices: 29909822--29909905 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 39
29909812 ACTTGATAAA
29909822 AAAATTTTCAATTTAATCTCTGAACTTAATTATCATTCC
1 AAAATTTTCAATTTAATCTCTGAACTTAATTATCATTCC
29909861 AAAATATTTCAATTTAATCTCTGAACTTAATTATCATTCC
1 AAAAT-TTTCAATTTAATCTCTGAACTTAATTATCATTCC
29909901 AAAAT
1 AAAAT
29909906 GTTGATGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.11
40 39 0.89
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (39 bp):
AAAATTTTCAATTTAATCTCTGAACTTAATTATCATTCC
Found at i:29909976 original size:28 final size:27
Alignment explanation
Indices: 29909945--29909998 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
29909935 ATGATCACTT
* *
29909945 AAAAATTAAAAATATATATTATAAAATTA
1 AAAAAATAAAAA-AAATATTA-AAAATTA
29909974 AAAAAATAAAAAAAATATTAAAAAT
1 AAAAAATAAAAAAAATATTAAAAAT
29909999 ATCAATGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 7 0.30
29 11 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAAATAAAAAAAATATTAAAAATTA
Found at i:29914616 original size:23 final size:23
Alignment explanation
Indices: 29914585--29914639 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
29914575 CATGTATTGA
*
29914585 CCTATTCCTCATCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
29914608 CCTACTCCTCATCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
29914631 CCTACTCCT
1 CCTACTCCT
29914640 TACACTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (23 bp):
CCTACTCCTCATCATCCACCTCT
Found at i:29916148 original size:22 final size:22
Alignment explanation
Indices: 29916123--29916164 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29916113 ACTTATATTG
* *
29916123 GACATAAAGTAAAGTACTTTTA
1 GACATAAAGCAAAATACTTTTA
29916145 GACATAAAGCAAAATACTTT
1 GACATAAAGCAAAATACTTT
29916165 ACTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
GACATAAAGCAAAATACTTTTA
Found at i:29926622 original size:22 final size:22
Alignment explanation
Indices: 29926597--29926638 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29926587 TTTAATAATT
* *
29926597 AAAGTATTTTTCTTTATGTCTA
1 AAAGTACTTTACTTTATGTCTA
29926619 AAAGTACTTTACTTTATGTC
1 AAAGTACTTTACTTTATGTC
29926639 CAATATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (22 bp):
AAAGTACTTTACTTTATGTCTA
Found at i:29927795 original size:10 final size:10
Alignment explanation
Indices: 29927769--29927862 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 10
29927759 TTTAATTTTT
29927769 TATAAAAA-C
1 TATAAAAATC
*
29927778 GTATTAAAATTC
1 -TA-TAAAAATC
29927790 TATAAAAATC
1 TATAAAAATC
29927800 -ATAAAAAT-
1 TATAAAAATC
**
29927808 TATAAAAAAA
1 TATAAAAATC
29927818 T-TAAAAAT-
1 TATAAAAATC
*
29927826 TATTAAAAT-
1 TATAAAAATC
*
29927835 TGATATAAA-C
1 T-ATAAAAATC
29927845 TTATAAAAAT-
1 -TATAAAAATC
29927855 TATAAAAA
1 TATAAAAA
29927863 AATCATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
8 1 0.01
9 36 0.54
10 21 0.31
11 8 0.12
12 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (10 bp):
TATAAAAATC
Found at i:29927805 original size:9 final size:9
Alignment explanation
Indices: 29927790--29927862 Score: 76
Period size: 9 Copynumber: 7.9 Consensus size: 9
29927780 ATTAAAATTC
29927790 TATAAAAAT
1 TATAAAAAT
*
29927799 CATAAAAAT
1 TATAAAAAT
29927808 TATAAAAA-
1 TATAAAAAT
*
29927816 AATTAAAAAT
1 TA-TAAAAAT
*
29927826 TATTAAAAT
1 TATAAAAAT
*
29927835 TGATATAAACT
1 T-ATA-AAAAT
29927846 TATAAAAAT
1 TATAAAAAT
29927855 TATAAAAA
1 TATAAAAA
29927863 AATCATAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 1 0.02
9 40 0.77
10 6 0.12
11 5 0.10
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:29927872 original size:10 final size:10
Alignment explanation
Indices: 29927783--29927873 Score: 57
Period size: 9 Copynumber: 9.3 Consensus size: 10
29927773 AAAACGTATT
*
29927783 AAAATTCTATA
1 AAAATTATA-A
*
29927794 AAAATCAT-A
1 AAAATTATAA
29927803 AAAATTATAA
1 AAAATTATAA
*
29927813 AAAA--ATTA
1 AAAATTATAA
*
29927821 AAAATTAT-T
1 AAAATTATAA
*
29927830 AAAATTGATAT
1 AAAATT-ATAA
*
29927841 AAACTTAT-A
1 AAAATTATAA
29927850 AAAATTATAAA
1 AAAATTAT-AA
*
29927861 AAAATCATAA
1 AAAATTATAA
29927871 AAA
1 AAA
29927874 CTTGAATTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.11
9 21 0.33
10 16 0.25
11 20 0.31
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:29928327 original size:9 final size:9
Alignment explanation
Indices: 29928288--29928536 Score: 85
Period size: 9 Copynumber: 27.7 Consensus size: 9
29928278 TTATACCAAA
29928288 TTTAATATT
1 TTTAATATT
*
29928297 TTTATATTGTT
1 TTTA-A-TATT
29928308 TTTCAAT-TT
1 TTT-AATATT
*
29928317 TTTATTATT
1 TTTAATATT
* *
29928326 TTTAAAAAT
1 TTTAATATT
29928335 TTTAATACTT
1 TTTAATA-TT
**
29928345 TTTTTTATT
1 TTTAATATT
29928354 TTTAAATAAGTT
1 TTT-AAT-A-TT
*
29928366 TTT--TAAT
1 TTTAATATT
29928373 TTT-ATATT
1 TTTAATATT
29928381 TTCATAAT-TT
1 TT--TAATATT
** *
29928391 ACTAAAATT
1 TTTAATATT
*
29928400 TTTTATATT
1 TTTAATATT
29928409 TTATAAT-TT
1 TT-TAATATT
*
29928418 TTATAA-GTT
1 TT-TAATATT
29928427 TTT-ATATT
1 TTTAATATT
*
29928435 TTTTATAATT
1 TTTAAT-ATT
* *
29928445 TTAAAAAGTT
1 TTTAATA-TT
* * *
29928455 TATATTAAT
1 TTTAATATT
29928464 TTTAATATT
1 TTTAATATT
*
29928473 TTTAAAATT
1 TTTAATATT
29928482 TTT-A-ATT
1 TTTAATATT
29928489 TTTAATA-T
1 TTTAATATT
*
29928497 ATT--TATT
1 TTTAATATT
29928504 TTTAAT-TT
1 TTTAATATT
*
29928512 TTTTATAATT
1 TTTAAT-ATT
29928522 TTTAATATT
1 TTTAATATT
29928531 TTTAAT
1 TTTAAT
29928537 CATTCTTATG
Statistics
Matches: 176, Mismatches: 38, Indels: 52
0.66 0.14 0.20
Matches are distributed among these distances:
6 2 0.01
7 14 0.08
8 29 0.16
9 82 0.47
10 33 0.19
11 10 0.06
12 6 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTAATATT
Found at i:29928375 original size:28 final size:29
Alignment explanation
Indices: 29928315--29928478 Score: 69
Period size: 29 Copynumber: 5.6 Consensus size: 29
29928305 GTTTTTCAAT
*
29928315 TTTTTATTATTTTTAAA-AA--TTTTAATA
1 TTTTT-TTATTTTTAAATAAGTTTTTTATA
29928342 CTTTTTTTTATTTTTAAATAAGTTTTTTA-A
1 --TTTTTTTATTTTTAAATAAGTTTTTTATA
* *
29928372 -TTTTATATTTTCATAATTTACTAAAATTTTTTATA
1 TTTTTTTATTTT--TAA---A-T-AAGTTTTTTATA
* *
29928407 TTTTATAATTTTT--ATAAG-TTTTTATA
1 TTTTTTTATTTTTAAATAAGTTTTTTATA
*
29928433 TTTTTTATAATTTTAAA-AAGTTTATATTA-A
1 TTTTTT-TATTTTTAAATAAGTTT-T-TTATA
**
29928463 TTTTAATATTTTTAAA
1 TTTTTTTATTTTTAAA
29928479 ATTTTTAATT
Statistics
Matches: 104, Mismatches: 13, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
26 13 0.12
27 17 0.16
28 15 0.14
29 23 0.22
30 7 0.07
31 8 0.08
32 1 0.01
33 1 0.01
34 10 0.10
35 1 0.01
36 8 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTTTATTTTTAAATAAGTTTTTTATA
Found at i:29928430 original size:10 final size:9
Alignment explanation
Indices: 29928315--29928534 Score: 89
Period size: 9 Copynumber: 23.7 Consensus size: 9
29928305 GTTTTTCAAT
*
29928315 TTTTTATTA
1 TTTTTATAA
*
29928324 TTTTTAAAAA
1 TTTTT-ATAA
* *
29928334 TTTTAATAC
1 TTTTTATAA
* *
29928343 TTTTTTTTA
1 TTTTTATAA
29928352 TTTTTAAATAA
1 TTTTT--ATAA
29928363 GTTTTT-TAA
1 -TTTTTATAA
29928372 -TTTTAT-A
1 TTTTTATAA
*
29928379 TTTTCATAA
1 TTTTTATAA
* *
29928388 TTTACTAAAA
1 TTT-TTATAA
29928398 TTTTT-T-A
1 TTTTTATAA
29928405 TATTTTATAA
1 T-TTTTATAA
29928415 TTTTTATAA
1 TTTTTATAA
*
29928424 GTTTTTATAT
1 -TTTTTATAA
29928434 TTTTTATAA
1 TTTTTATAA
* *
29928443 TTTTAAAAA
1 TTTTTATAA
*
29928452 GTTTATATTAA
1 -TTTTTA-TAA
*
29928463 TTTTAAT-A
1 TTTTTATAA
29928471 TTTTTA-AA
1 TTTTTATAA
*
29928479 ATTTT-TAA
1 TTTTTATAA
29928487 TTTTTAATATA
1 TTTTT-ATA-A
*
29928498 TTTATTTTTAA
1 -TT-TTTATAA
29928509 TTTTTTTATAA
1 --TTTTTATAA
29928520 TTTTTA-ATA
1 TTTTTATA-A
29928529 TTTTTA
1 TTTTTA
29928535 ATCATTCTTA
Statistics
Matches: 157, Mismatches: 31, Indels: 46
0.67 0.13 0.20
Matches are distributed among these distances:
7 7 0.04
8 28 0.18
9 63 0.40
10 32 0.20
11 12 0.08
12 12 0.08
13 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:29928431 original size:19 final size:18
Alignment explanation
Indices: 29928315--29928534 Score: 89
Period size: 19 Copynumber: 11.8 Consensus size: 18
29928305 GTTTTTCAAT
* *
29928315 TTTTTATTATTTTTAAAAA
1 TTTTTATAATTTTT-ATAA
* * * *
29928334 TTTTAATACTTTTTTTTA
1 TTTTTATAATTTTTATAA
29928352 TTTTTAAATAAGTTTTT-TAA
1 TTTTT--ATAA-TTTTTATAA
*
29928372 -TTTTAT-ATTTTCATAA
1 TTTTTATAATTTTTATAA
* *
29928388 TTTACTAAAATTTTT-T-A
1 TTT-TTATAATTTTTATAA
29928405 TATTTTATAATTTTTATAA
1 T-TTTTATAATTTTTATAA
*
29928424 GTTTTTATATTTTTTATAA
1 -TTTTTATAATTTTTATAA
* * *
29928443 TTTTAAAAAGTTTATATTAA
1 TTTTTATAA-TTTTTA-TAA
*
29928463 TTTTAAT-ATTTTTA-AA
1 TTTTTATAATTTTTATAA
*
29928479 ATTTT-TAATTTTTAATATA
1 TTTTTATAATTTTT-ATA-A
*
29928498 TTTATTTTTAATTTTTTTATAA
1 -TT-TTTATAA--TTTTTATAA
29928520 TTTTTA-ATATTTTTA
1 TTTTTATA-ATTTTTA
29928535 ATCATTCTTA
Statistics
Matches: 152, Mismatches: 26, Indels: 47
0.68 0.12 0.21
Matches are distributed among these distances:
15 5 0.03
16 15 0.10
17 16 0.11
18 29 0.19
19 45 0.30
20 20 0.13
21 10 0.07
22 4 0.03
23 3 0.02
24 5 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:29928438 original size:36 final size:34
Alignment explanation
Indices: 29928364--29928447 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
29928354 TTTAAATAAG
29928364 TTTTTTA-ATTTTATATTTTCATAATTTACTAAAA
1 TTTTTTATATTTTATATTTTCATAATTTACT-AAA
* * *
29928398 TTTTTTATATTTTATAATTTTTATAAGTTT-TTATA
1 TTTTTTATATTTTAT-ATTTTCATAA-TTTACTAAA
29928433 TTTTTTATAATTTTA
1 TTTTTTAT-ATTTTA
29928448 AAAAGTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
34 7 0.16
35 17 0.40
36 16 0.37
37 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (34 bp):
TTTTTTATATTTTATATTTTCATAATTTACTAAA
Found at i:29928479 original size:28 final size:27
Alignment explanation
Indices: 29928378--29928494 Score: 84
Period size: 28 Copynumber: 4.4 Consensus size: 27
29928368 TTAATTTTAT
* * *
29928378 ATTTTCATAATTTACTAAAATTTTTTAT-
1 ATTTT-ATAATTT-TTAAAAGTTTATATA
* *
29928406 ATTTTATAATTTTTATAAGTTTTTATA
1 ATTTTATAATTTTTAAAAGTTTATATA
* *
29928433 TTTTTTATAATTTTAAAAAGTTTATATTA
1 -ATTTTATAATTTTTAAAAGTTTATA-TA
29928462 ATTTTA-ATATTTTTAAAA-TTT-T-TA
1 ATTTTATA-ATTTTTAAAAGTTTATATA
29928486 ATTTT-TAAT
1 ATTTTATAAT
29928495 ATATTTATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.03
24 8 0.11
26 12 0.16
27 11 0.15
28 40 0.53
29 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTTATAATTTTTAAAAGTTTATATA
Found at i:29928500 original size:91 final size:90
Alignment explanation
Indices: 29928316--29928482 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 90
29928306 TTTTTCAATT
* * *
29928316 TTTTATTATTTTTAAAAATTTTAATACTTTTTTTTATTTTTAAATAAGTTTTTTAATTTTATATT
1 TTTTATAATTTTTAAAAATTTTAATACTTTTTTATAATTTTAAATAAGTTTTTTAATTTTATATT
*
29928381 TTCATAATTTACTAAAATTTTTTATA
66 TTCAAAATTTA-TAAAATTTTTTATA
* * *
29928407 TTTTATAATTTTTATAAGTTTTTATA-TTTTTTATAATTTTAAA-AAGTTTATATTAATTTTAAT
1 TTTTATAATTTTTAAAAATTTTAATACTTTTTTATAATTTTAAATAAGTTT-T-TTAATTTT-AT
*
29928470 ATTTTTAAAATTT
63 ATTTTCAAAATTT
29928483 TTAATTTTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
89 6 0.09
90 16 0.25
91 30 0.46
92 13 0.20
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (90 bp):
TTTTATAATTTTTAAAAATTTTAATACTTTTTTATAATTTTAAATAAGTTTTTTAATTTTATATT
TTCAAAATTTATAAAATTTTTTATA
Found at i:29928504 original size:31 final size:33
Alignment explanation
Indices: 29928469--29928534 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
29928459 TTAATTTTAA
29928469 TATTTTTAA-AATTTT-TAATTTTTAATATATT
1 TATTTTTAATAATTTTATAATTTTTAATATATT
** *
29928500 TATTTTTAATTTTTTTATAATTTTTAATATTTT
1 TATTTTTAATAATTTTATAATTTTTAATATATT
29928533 TA
1 TA
29928535 ATCATTCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 9 0.30
32 4 0.13
33 17 0.57
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (33 bp):
TATTTTTAATAATTTTATAATTTTTAATATATT
Found at i:29928522 original size:40 final size:40
Alignment explanation
Indices: 29928455--29928532 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
29928445 TTAAAAAGTT
29928455 TATATTAATTTTAATATTTTTAAAATTTTTAAT-TTTTAA
1 TATATTAATTTTAATATTTTTAAAATTTTTAATATTTTAA
* * *
29928494 TATATTTATTTTTAATTTTTTTATAATTTTTAATATTTT
1 TATA-TTAATTTTAATATTTTTAAAATTTTTAATATTTT
29928533 TAATCATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 26 0.76
41 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (40 bp):
TATATTAATTTTAATATTTTTAAAATTTTTAATATTTTAA
Found at i:29934569 original size:6 final size:6
Alignment explanation
Indices: 29934545--29934588 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
29934535 ACAGTATCTA
* *
29934545 AACAGT AATCAGA AACAGT AACAGT AACAGT AACAGT AAAAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
29934589 TTCAACACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:29934623 original size:45 final size:45
Alignment explanation
Indices: 29934568--29934678 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
29934558 AACAGTAACA
* * * * *
29934568 GTAACAGTAACAGTAAAAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
* *
29934613 GTAATAGTAACGGTAACAGTATTCGACAAACAAAGTGTCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
29934658 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
29934679 ACAATAGTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACAAACAAAGTGTCGAATCG
Found at i:29934673 original size:12 final size:12
Alignment explanation
Indices: 29934656--29934680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29934646 AGTGTCGAAT
29934656 CGGTAACAGTAA
1 CGGTAACAGTAA
29934668 CGGTAACAGTAA
1 CGGTAACAGTAA
29934680 C
1 C
29934681 AATAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:29934938 original size:40 final size:40
Alignment explanation
Indices: 29934889--29934974 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
29934879 ATTCATTTTA
* * *
29934889 TCAGAAATTTTACAATTCAA-TGCAGTATACATAACAATAT
1 TCAGTAATTTCACAATTCAACT-CAGTATACAAAACAATAT
* * *
29934929 TCAGTAATTTCACAGTTCAACTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAATTCAACTCAGTATACAAAACAATAT
29934969 TCAGTA
1 TCAGTA
29934975 TCCCATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (40 bp):
TCAGTAATTTCACAATTCAACTCAGTATACAAAACAATAT
Found at i:29935769 original size:17 final size:19
Alignment explanation
Indices: 29935749--29935784 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
29935739 GGTTTCTTTG
29935749 TTTTTCTTT-TA-TATTTT
1 TTTTTCTTTGTATTATTTT
29935766 TTTTTCTTTGTATTATTTT
1 TTTTTCTTTGTATTATTTT
29935785 ATCATTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTCTTTGTATTATTTT
Found at i:29936324 original size:10 final size:10
Alignment explanation
Indices: 29936309--29936336 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
29936299 ATATTGCAAG
29936309 TGTATTTTCT
1 TGTATTTTCT
29936319 TGTATTTTCT
1 TGTATTTTCT
29936329 TGTATTTT
1 TGTATTTT
29936337 ACACATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.71
Consensus pattern (10 bp):
TGTATTTTCT
Found at i:29937725 original size:15 final size:18
Alignment explanation
Indices: 29937696--29937740 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
29937686 TAGCATAGCT
*
29937696 TGATCTTCATCATCAATA
1 TGATCCTCATCATCAATA
29937714 TGATCCTCATCATCAATA
1 TGATCCTCATCATCAATA
29937732 TGATCCTCA
1 TGATCCTCA
29937741 ATGTTCTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (18 bp):
TGATCCTCATCATCAATA
Found at i:29947246 original size:16 final size:16
Alignment explanation
Indices: 29947216--29947246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29947206 TTATAATAAA
*
29947216 AAATTATAAAAATATT
1 AAATCATAAAAATATT
29947232 AAATCATAAAAATAT
1 AAATCATAAAAATAT
29947247 AATAATCCAT
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:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATCATAAAAATATT
Found at i:29947352 original size:25 final size:27
Alignment explanation
Indices: 29947324--29947373 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
29947314 CTATTTTAAT
*
29947324 TAAAT-TATTT-TTACATTATTGATCA
1 TAAATATATTTATTACAATATTGATCA
29947349 TAAATATATTTATTACAATATTGAT
1 TAAATATATTTATTACAATATTGAT
29947374 AATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (27 bp):
TAAATATATTTATTACAATATTGATCA
Found at i:29949555 original size:21 final size:21
Alignment explanation
Indices: 29949529--29949579 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
29949519 GGAAAAGCAA
29949529 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
29949550 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
* *
29949571 AAATTATTT
1 TAATAATTT
29949580 TGTAAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (21 bp):
TAATAATTTCACAATGGAGAG
Found at i:29950069 original size:40 final size:40
Alignment explanation
Indices: 29950010--29950086 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
29950000 GAAATTACAG
29950010 AAAAGCACACTGACGTGGGCACGCTTTACCCAATGTTAGC
1 AAAAGCACACTGACGTGGGCACGCTTTACCCAATGTTAGC
* * **
29950050 AAAAGCGCACTGACTTGGGCGTGCTTTACCCAATGTT
1 AAAAGCACACTGACGTGGGCACGCTTTACCCAATGTT
29950087 TTTCCCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAGCACACTGACGTGGGCACGCTTTACCCAATGTTAGC
Found at i:29950415 original size:9 final size:10
Alignment explanation
Indices: 29950388--29950414 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29950378 GGGTTAATTT
29950388 TATTTTTTAA
1 TATTTTTTAA
29950398 TATTTTTTAA
1 TATTTTTTAA
29950408 TATTTTT
1 TATTTTT
29950415 ATTTCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:29952461 original size:59 final size:59
Alignment explanation
Indices: 29952365--29952491 Score: 191
Period size: 59 Copynumber: 2.2 Consensus size: 59
29952355 CATTGATTTT
** * *
29952365 TTTTGAATATATTTGTACAAACTATTTTTATTTTGTTTCATTTAATAAAACATAAGTTG
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
* * *
29952424 TTTTGAATATTTTTGTACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTC
1 TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
29952483 TTTTGAATA
1 TTTTGAATA
29952492 AGACAATACA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAACTATTTTTATACTGTTTCATTTAATAAAACATAAATTC
Found at i:29952502 original size:59 final size:59
Alignment explanation
Indices: 29952380--29952504 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 59
29952370 AATATATTTG
* ** * * ******
29952380 TACAAACTATTTTTATTTTGTTTCATTTAATAAAACATAAGTTGTTTTGAATATTTTTG
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
*
29952439 TACAAATTATTTTTATACTGTTTCATTTAATAAAATATAAATTCTTTTGAATAAGACAA
1 TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
29952498 TACAAAT
1 TACAAAT
29952505 CGAATATTCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (59 bp):
TACAAATTATTTTTATACTGTTTCATTTAATAAAACATAAATTCTTTTGAATAAGACAA
Found at i:29953564 original size:28 final size:27
Alignment explanation
Indices: 29953523--29953591 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
29953513 AATAGACCTT
29953523 AAACCCTAA--TTAATATATATTTTT-A
1 AAACCCTAACCTTAATATAT-TTTTTAA
* *
29953548 AAACCTTAAACCTTAATTTATTTTTTCAA
1 AAACCCT-AACCTTAATATATTTTTT-AA
29953577 AAACCCTAACCTTAA
1 AAACCCTAACCTTAA
29953592 CCCTAAGCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.17
26 2 0.06
27 5 0.14
28 16 0.44
29 7 0.19
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (27 bp):
AAACCCTAACCTTAATATATTTTTTAA
Found at i:29953733 original size:28 final size:29
Alignment explanation
Indices: 29953685--29953790 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 29
29953675 AAATAAAATC
* * * * *
29953685 CATCTCGTCAAAATAATTTTTTCAGAATA
1 CATCACGTCAAATTTATTTTTTCAAAACA
* *
29953714 CATCACGTTAAATTTATTTTTTTAAAACA
1 CATCACGTCAAATTTATTTTTTCAAAACA
* * *
29953743 CATCACGTCAAATTTATTTTTTCATATCC
1 CATCACGTCAAATTTATTTTTTCAAAACA
**
29953772 CATCTTGTCAAATTTATTT
1 CATCACGTCAAATTTATTT
29953791 CTTCTGGAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (29 bp):
CATCACGTCAAATTTATTTTTTCAAAACA
Found at i:29953880 original size:30 final size:31
Alignment explanation
Indices: 29953844--29953901 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
29953834 CAATAGATCC
29953844 TAAACCTTAA-TTATTATTTTTTT-AAAACCT
1 TAAACCTTAATTTATT-TTTTTTTCAAAACCT
29953874 TAAACCTTAATTTATTTTTTTTTCAAAA
1 TAAACCTTAATTTATTTTTTTTTCAAAA
29953902 ATCCTAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (31 bp):
TAAACCTTAATTTATTTTTTTTTCAAAACCT
Found at i:29953895 original size:31 final size:30
Alignment explanation
Indices: 29953844--29953901 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
29953834 CAATAGATCC
*
29953844 TAAACCTTAATTATTATTTTTTTAAAACCT
1 TAAACCTTAATTATTATTTTTTCAAAACCT
*
29953874 TAAACCTTAATTTATTTTTTTTTCAAAA
1 TAAACCTTAA-TTATTATTTTTTCAAAA
29953902 ATCCTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAACCTTAATTATTATTTTTTCAAAACCT
Found at i:29954405 original size:13 final size:13
Alignment explanation
Indices: 29954383--29954424 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
29954373 ATAATAAGAA
29954383 ATTATAAATATATT
1 ATTAT-AATATATT
*
29954397 ATTGTAATATATT
1 ATTATAATATATT
*
29954410 TTTATAATATATT
1 ATTATAATATATT
29954423 AT
1 AT
29954425 CAGTTGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATTATAATATATT
Found at i:29954844 original size:42 final size:42
Alignment explanation
Indices: 29954787--29954866 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
29954777 AAAGATAGGT
29954787 GTATATATATATACATATAACAGAAAAAGGAAACAAAAATAG
1 GTATATATATATACATATAACAGAAAAAGGAAACAAAAATAG
29954829 GTATATATATATACATATAACAGAAAAAGGAAACAAAA
1 GTATATATATATACATATAACAGAAAAAGGAAACAAAA
29954867 TAAAAGAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.21
Consensus pattern (42 bp):
GTATATATATATACATATAACAGAAAAAGGAAACAAAAATAG
Found at i:29957698 original size:11 final size:11
Alignment explanation
Indices: 29957678--29957707 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29957668 TTTTTAATTT
*
29957678 AATATGTTTTA
1 AATATTTTTTA
29957689 AATATTTTTTA
1 AATATTTTTTA
29957700 AATATTTT
1 AATATTTT
29957708 AGCTGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
AATATTTTTTA
Found at i:29958324 original size:30 final size:30
Alignment explanation
Indices: 29958288--29958352 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
29958278 CAACTTAACA
* *
29958288 AACAAATGT-TTCTAAAATAATAACAAAATT
1 AACAAATGTCTT-TAAAATAACAAAAAAATT
29958318 AACAAATGTCTTTAAAATAACAAAAAAATT
1 AACAAATGTCTTTAAAATAACAAAAAAATT
29958348 AACAA
1 AACAA
29958353 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (30 bp):
AACAAATGTCTTTAAAATAACAAAAAAATT
Found at i:29958426 original size:11 final size:11
Alignment explanation
Indices: 29958412--29958437 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29958402 ACATAATAGT
29958412 AAAATAGGGAG
1 AAAATAGGGAG
29958423 AAAATAGGGAG
1 AAAATAGGGAG
29958434 AAAA
1 AAAA
29958438 CAATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:29959737 original size:23 final size:24
Alignment explanation
Indices: 29959700--29959749 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
29959690 ATAATATTTT
*
29959700 GAATGATGTTCGAGAGAATAAGGA
1 GAATGATGTTAGAGAGAATAAGGA
29959724 GAAT-ATGTTAGAGAGAATAAGGA
1 GAATGATGTTAGAGAGAATAAGGA
29959747 GAA
1 GAA
29959750 GCAATTACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.32, T:0.20
Consensus pattern (24 bp):
GAATGATGTTAGAGAGAATAAGGA
Found at i:29962522 original size:25 final size:25
Alignment explanation
Indices: 29962462--29962522 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
29962452 AGACTAGACC
*
29962462 GGTCGGGTTGTCATTAACTCGGACC
1 GGTCGGGTTGTCATTAACTCGGACA
**
29962487 GGTCGAATTGTCATTAAC-CAGGACA
1 GGTCGGGTTGTCATTAACTC-GGACA
29962512 GGTCGGGTTGT
1 GGTCGGGTTGT
29962523 TATTGACCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (25 bp):
GGTCGGGTTGTCATTAACTCGGACA
Found at i:29962901 original size:62 final size:60
Alignment explanation
Indices: 29962738--29962933 Score: 190
Period size: 62 Copynumber: 3.2 Consensus size: 60
29962728 TTCAAAAATA
* * * *
29962738 ATATTATTTTAAT-AATTTAATATTAAATTAAATCTAATACTTATC-T-TAAT-AGTATT
1 ATATTAATTTAATAAATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
* *
29962794 TTATTAATTTAATATTAAAGTGATT-ATCTTAATATTAAATTTAATATTTATCTTGTAAATAAAT
1 ATATTAATTT-A-A-TAAA-T--TTAATATTAA-ATTAAATTTAATATTTATCTTGT-AATAAAT
29962858 ATT
58 ATT
* *
29962861 CTATTATTTTAATAAGATTTAATATTAAATTAAATTTAATATTTATCTTG--ATAAATATT
1 ATATTAATTTAATAA-ATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
29962920 ATATTAATTTAATA
1 ATATTAATTTAATA
29962934 TTAAAGTAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
56 8 0.07
57 1 0.01
58 1 0.01
59 22 0.19
60 2 0.02
61 1 0.01
62 30 0.26
63 25 0.22
64 5 0.04
65 3 0.03
66 4 0.03
67 13 0.11
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTAATTTAATAAATTTAATATTAAATTAAATTTAATATTTATCTTGTAATAAATATT
Found at i:29967264 original size:114 final size:113
Alignment explanation
Indices: 29967143--29967402 Score: 407
Period size: 114 Copynumber: 2.3 Consensus size: 113
29967133 AATCTTAAGA
29967143 TGGTATCGATA-TAGAGGTAAGGTATCAATACCTTAAAGGAAGTATCAGTACCTTAAGTCTAGTA
1 TGGTATCGATACTAGA--TAAGGTATCAATACCTTAAAGGAAGTATCAGTACCTTAAGTCTAGTA
29967207 TCGATACCTTTGGTTTTAAATCAATTTTTCTGAAACATTAAAGCTTAGAT
64 TCGATACCTTTGGTTTTAAATCAATTTTTCTGAAACATTAAAGCTTAGAT
* * *
29967257 TGGTATCGGTACTTAGATGAGGTATCAATACCTTAAAGGAAGTATCAGTACTTTAAGTCTAGTAT
1 TGGTATCGATAC-TAGATAAGGTATCAATACCTTAAAGGAAGTATCAGTACCTTAAGTCTAGTAT
*
29967322 CGATACCTTTGGTTTTAAATCAATTTTTCTGAAACATTGAAGCTTAGAT
65 CGATACCTTTGGTTTTAAATCAATTTTTCTGAAACATTAAAGCTTAGAT
* * *
29967371 TGGTATCGGTACCTAGAT-GGGTATCGATACCT
1 TGGTATCGATA-CTAGATAAGGTATCAATACCT
29967403 GATCTAGAAT
Statistics
Matches: 137, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
113 12 0.09
114 120 0.88
115 1 0.01
116 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (113 bp):
TGGTATCGATACTAGATAAGGTATCAATACCTTAAAGGAAGTATCAGTACCTTAAGTCTAGTATC
GATACCTTTGGTTTTAAATCAATTTTTCTGAAACATTAAAGCTTAGAT
Found at i:29967393 original size:18 final size:18
Alignment explanation
Indices: 29967366--29967402 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29967356 CATTGAAGCT
* *
29967366 TAGATTGGTATCGGTACC
1 TAGATGGGTATCGATACC
29967384 TAGATGGGTATCGATACC
1 TAGATGGGTATCGATACC
29967402 T
1 T
29967403 GATCTAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (18 bp):
TAGATGGGTATCGATACC
Found at i:29969338 original size:95 final size:95
Alignment explanation
Indices: 29969168--29969371 Score: 291
Period size: 95 Copynumber: 2.1 Consensus size: 95
29969158 GATAGTGCAG
* *
29969168 TTAAAATTGCCAAATCGAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGACAGAA
1 TTAAAA-TGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGACAGAA
* *
29969233 ATATGGATAAACCACCATATGGTGAAAATCA
65 ATATGGATAAACAACCATATGGCGAAAATCA
* * * *
29969264 TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCATGTTGCCAGGCATAAA
1 TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGACAGAAA
* * *
29969329 TGTGGATAAACAACCATATGGCGCAGATCA
66 TATGGATAAACAACCATATGGCGAAAATCA
*
29969359 TTAAACTGCCAGA
1 TTAAAATGCCAGA
29969372 ATCTCCTCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 90 0.94
96 6 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (95 bp):
TTAAAATGCCAGATCAAATATATATGGTCAAGCCACTATATTGCAGCCAGGCTGCCAGACAGAAA
TATGGATAAACAACCATATGGCGAAAATCA
Found at i:29970867 original size:36 final size:36
Alignment explanation
Indices: 29970820--29970900 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
29970810 AGAATAAGGG
29970820 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
29970856 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
1 AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
*
29970892 A-AGGAAAAC
1 AGTGGAAAAC
29970901 AAATAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 7 0.16
36 37 0.84
ACGTcount: A:0.47, C:0.04, G:0.30, T:0.20
Consensus pattern (36 bp):
AGTGGAAAACGTGGGTATAGAATTGGGAAAAAAATT
Found at i:29971270 original size:17 final size:17
Alignment explanation
Indices: 29971248--29971282 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29971238 TTGTTAAAAT
*
29971248 AAATTAGAATAAATAAA
1 AAATTAAAATAAATAAA
*
29971265 AAATTAAAATAATTAAA
1 AAATTAAAATAAATAAA
29971282 A
1 A
29971283 TTAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATTAAAATAAATAAA
Found at i:29971287 original size:27 final size:27
Alignment explanation
Indices: 29971241--29971312 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
29971231 GGTTAGATTG
*
29971241 TTAAAATAAATTAGAA-TAAATAA-AAAA
1 TTAAAAT-AATTAAAATTAAA-AATAAAA
*
29971268 TTAAAATAATTAAAATTAAAAATTAAAG
1 TTAAAATAATTAAAATTAAAAA-TAAAA
*
29971296 TTAAGA-AATTAAAATTA
1 TTAAAATAATTAAAATTA
29971313 GGTATCCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 9 0.23
27 22 0.56
28 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (27 bp):
TTAAAATAATTAAAATTAAAAATAAAA
Found at i:29977428 original size:35 final size:35
Alignment explanation
Indices: 29977382--29977452 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
29977372 GAAAAGAACA
29977382 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
29977417 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
1 GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
29977452 G
1 G
29977453 CAACAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.28
Consensus pattern (35 bp):
GTTTTTGGGTGGTACAGACAGATAGATAAATGAGG
Found at i:29980238 original size:6 final size:6
Alignment explanation
Indices: 29980228--29980269 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
29980218 GGGAGTAGTA
* *
29980228 ACTCAA ACTCAA ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
29980270 TTCACTACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (6 bp):
ACTCAC
Found at i:29982424 original size:17 final size:17
Alignment explanation
Indices: 29982397--29982430 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29982387 ATCATACCAT
29982397 CACCAGAGATATAGAAAA
1 CACCAGAGATAT-GAAAA
29982415 CACC-GAGATATGAAAA
1 CACCAGAGATATGAAAA
29982431 TTTCAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.12
Consensus pattern (17 bp):
CACCAGAGATATGAAAA
Found at i:29983690 original size:31 final size:31
Alignment explanation
Indices: 29983653--29983715 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
29983643 TCTATGGTTG
*
29983653 TATTAAATCATTTAAATATCATTTATTATTA
1 TATTAAATCATTTAAATATAATTTATTATTA
* *
29983684 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAATCATTTAAATATAATTTATTATTA
29983715 T
1 T
29983716 GTTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTAAATCATTTAAATATAATTTATTATTA
Found at i:29983729 original size:31 final size:31
Alignment explanation
Indices: 29983653--29983739 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
29983643 TCTATGGTTG
*
29983653 TATT-AAATCATTTAAATATCATTTATTATTA
1 TATTAAAAT-ATTTAAATATAATTTATTATTA
* *
29983684 TATTAAATTATTTAAATATAATTTATTTTTA
1 TATTAAAATATTTAAATATAATTTATTATTA
* *
29983715 TGTTTAAAAT-TTTAAA-ATATTTTAT
1 T-ATTAAAATATTTAAATATAATTTAT
29983740 GTATCATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
30 8 0.17
31 31 0.65
32 9 0.19
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTAAAATATTTAAATATAATTTATTATTA
Found at i:29994726 original size:41 final size:41
Alignment explanation
Indices: 29994682--29995094 Score: 453
Period size: 41 Copynumber: 10.1 Consensus size: 41
29994672 CAAAAATTGT
* **
29994682 AAAACACAGAGCAATAGCGGCG-TTTTACCAAAAGCGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTAGTAAAA-CGCCGCTA
** * * *
29994724 AAAA-TGGAGCAATAGAGGCG-TTTTAGTAAAAAACACCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGT--AAAACGCCGCTA
*
29994765 AAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* * * *
29994805 ATAACCAGATCATTGGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* * *
29994846 AAAACCAGAACATTGGCGGCGCTTTTGGTAAAACG-CGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* * *
29994886 AAAACCAGAGCATTGGTGGCGATTTT-GATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTA
* * * *
29994927 AAAATCAGAGCATTAGCGGCGTTTTTCGTAAAACGCCGCAA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
* *
29994968 AAAACCAGAGCATTGGCTGCGCTTTT-GATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTA
*
29995009 AAAACCAGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGC-TTTTAGTAAAACGCCGCTA
* * *
29995051 AAAACCAGATCATTAGCGGCGCTTTTGGTAAAACACCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
29995092 AAA
1 AAA
29995095 GTCATATAAC
Statistics
Matches: 327, Mismatches: 34, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.00
40 68 0.21
41 204 0.62
42 53 0.16
43 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
Found at i:29994918 original size:122 final size:123
Alignment explanation
Indices: 29994753--29995094 Score: 508
Period size: 122 Copynumber: 2.8 Consensus size: 123
29994743 GTTTTAGTAA
* * *
29994753 AAAACACCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAATAACCAGATCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGATTTTGGTAAAACGCCGCTAAAAACCAGATCA
* *
29994817 TTGGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAACATTGGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAACATTGGCGGCGCTTTTGAT
* * * * *
29994875 AAAACG-CGCTAAAAACCAGAGCATTGGTGGCGATTTTGATAAAACGCCGCTAAAAATCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGATTTTGGTAAAACGCCGCTAAAAACCAGATCA
* * * * *
29994939 TTAGCGGCGTTTTTCGTAAAACGCCGCAAAAAACCAGAGCATTGGCTGCGCTTTTGAT
66 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAACATTGGCGGCGCTTTTGAT
*
29994997 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAAACCAGATC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-ATTTTGGTAAAACGCCGCTAAAAACCAGATC
*
29995062 ATTAGCGGCGCTTTTGGTAAAACACCGCTAAAA
65 ATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
29995095 GTCATATAAC
Statistics
Matches: 192, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
121 9 0.05
122 103 0.54
123 24 0.12
124 56 0.29
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (123 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGATTTTGGTAAAACGCCGCTAAAAACCAGATCA
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAACATTGGCGGCGCTTTTGAT
Found at i:29995009 original size:82 final size:82
Alignment explanation
Indices: 29994753--29995094 Score: 508
Period size: 82 Copynumber: 4.2 Consensus size: 82
29994743 GTTTTAGTAA
* * *
29994753 AAAACACCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAATAACCAGATCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
29994817 TTGGCGGCGCTTTTGGT
66 TTGGCGGCGCTTTTGAT
* *
29994834 AAAACGCCGCTAAAAACCAGAACATTGGCGGCGCTTTTGGTAAAACG-CGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* *
29994898 TTGGTGGCGATTTTGAT
66 TTGGCGGCGCTTTTGAT
* * * *
29994915 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGTTTTTCGTAAAACGCCGCAAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
29994980 TTGGCTGCGCTTTTGAT
66 TTGGCGGCGCTTTTGAT
*
29994997 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTTGGTAAAACGCCGCTAAAAACCAGATC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAACCAGAGC
* *
29995062 ATTAGCGGCGCTTTTGGT
65 ATTGGCGGCGCTTTTGAT
*
29995080 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
29995095 GTCATATAAC
Statistics
Matches: 232, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
81 86 0.37
82 90 0.39
83 56 0.24
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTGGCGGCGCTTTTGAT
Found at i:29995274 original size:14 final size:14
Alignment explanation
Indices: 29995252--29995358 Score: 70
Period size: 14 Copynumber: 7.4 Consensus size: 14
29995242 TTAATTATCA
*
29995252 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
29995266 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
29995280 ATATGATTTAAGGT
1 TTATGGTTTAAGGT
* *
29995294 TTAAGGTTTAGGAGT
1 TTATGGTTTAAG-GT
* *
29995309 TAGCTGTGGTTTAAGAT
1 T---TATGGTTTAAGGT
* * *
29995326 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
*
29995340 TTAAGGTTTAAGGT
1 TTATGGTTTAAGGT
29995354 TTATG
1 TTATG
29995359 AGTTAATTAG
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
14 54 0.82
15 3 0.05
17 1 0.02
18 8 0.12
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:29995294 original size:21 final size:21
Alignment explanation
Indices: 29995265--29995344 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
29995255 TAGTTTAAGG
29995265 TTTATGGTTTAAGATATATGA
1 TTTATGGTTTAAGATATATGA
* * * *
29995286 TTTAAGGTTTAAGGTTTAGGA
1 TTTATGGTTTAAGATATATGA
*
29995307 GTTAGCTGTGGTTTAAGATATATGA
1 -TT---TATGGTTTAAGATATATGA
*
29995332 TTTAGGGTTTAAG
1 TTTATGGTTTAAG
29995345 GTTTAAGGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
21 26 0.59
22 2 0.05
24 2 0.05
25 14 0.32
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TTTATGGTTTAAGATATATGA
Found at i:29995471 original size:21 final size:21
Alignment explanation
Indices: 29995447--29995488 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29995437 TTTAAGGTGC
*
29995447 AAGGGTTTGGGGTTAAGTGTT
1 AAGGGTTTAGGGTTAAGTGTT
*
29995468 AAGGGTTTAGGGTTTAGTGTT
1 AAGGGTTTAGGGTTAAGTGTT
29995489 TATGAGATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
AAGGGTTTAGGGTTAAGTGTT
Found at i:30000047 original size:19 final size:19
Alignment explanation
Indices: 30000025--30000065 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30000015 TTTATTGATA
30000025 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
30000043 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
30000062 TTTT
1 TTTT
30000066 GACTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:30000383 original size:43 final size:43
Alignment explanation
Indices: 30000316--30000417 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
30000306 TTTTGAATTT
* * * *
30000316 CATGACCTTTAG-TGCGTTTTTGGGAAAAGCGCCGCTAAAGGC
1 CATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGC
* *
30000358 CATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGT
1 CATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGC
*
30000401 CATGGCCTTTATCGGCG
1 CATGGCCTTTAGCGGCG
30000418 GCGGAAATAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 11 0.21
43 41 0.79
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (43 bp):
CATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGC
Found at i:30000604 original size:22 final size:22
Alignment explanation
Indices: 30000576--30000622 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
30000566 TTCCATATAA
30000576 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
30000598 TTTCACTTACAAATGAATACAC
1 TTTCACTTACAAATGAATACAC
30000620 TTT
1 TTT
30000623 TCCAAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
TTTCACTTACAAATGAATACAC
Found at i:30002468 original size:17 final size:17
Alignment explanation
Indices: 30002446--30002499 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
30002436 ATGACGATAG
30002446 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
30002463 AAAATATACATATACAT
1 AAAATATACATATACAT
*
30002480 ATATATATATATATATACAT
1 A-A-A-ATATACATATACAT
30002500 GGCATACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 15 0.47
18 3 0.09
19 1 0.03
20 13 0.41
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:30003349 original size:3 final size:3
Alignment explanation
Indices: 30003343--30003408 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
30003333 CATATACTAG
30003343 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30003391 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
30003409 AGTAATGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:30005382 original size:87 final size:87
Alignment explanation
Indices: 30005254--30005413 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
30005244 AATAGACATT
* * *
30005254 AAAAACAGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
30005319 TTGGTTTTTGAAACTTAATTTG
66 TTGATTTTTGAAACTTAATTTG
* * * * * *
30005341 AAAAGCAGAATTTGAAAATACCTC-GACATGTGATCCGAGGCTCCACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG-CATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
30005405 GTTGATTTT
65 GTTGATTTT
30005414 AAAAAACGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
86 1 0.02
87 61 0.98
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAACTTAATTTG
Found at i:30005601 original size:74 final size:74
Alignment explanation
Indices: 30005337--30005782 Score: 487
Period size: 75 Copynumber: 6.0 Consensus size: 74
30005327 TGAAACTTAA
* * * * *
30005337 TTTGAAA-AGCAGAATTTGAAAATACCTCGACATGTGATC-CGAGGCTCCACTCACCTCTTGCAA
1 TTTGAAAGA-CAGAAATTGAAAATACCTC-A-ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAA
30005400 TATGAGTTGA--T
62 TATGAGTTGATTT
* * * * * * *
30005411 TTTAAAAAACGGAGA-TCAAAATTACCTCAACGTGTCCTGAGGCTCAACTTACCTCTCGCAATAT
1 TTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
30005475 GAGTTGATTAT
65 GAGTTGATT-T
* * * *
30005486 TTTGAAAGACAGAAATTTAAATTACCTCAGCGTGTCTTGAGGCTCAACTTACCTCTCGCAATATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
30005551 AGTTGATTT
66 AGTTGATTT
* * * *
30005560 TTTGAAAGAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
30005625 AGTTGAATTT
66 AGTTG-ATTT
* * *
30005635 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
30005700 AGTTGA-AT
66 AGTTGATTT
* * * ***
30005708 TTTG-AA-ACAGAAA-TAAAAACTATCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
30005770 GAGTTGATTT
65 GAGTTGATTT
30005780 TTT
1 TTT
30005783 TTTTAAAGAC
Statistics
Matches: 324, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
70 5 0.02
71 50 0.15
72 40 0.12
73 11 0.03
74 79 0.24
75 135 0.42
76 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (74 bp):
TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:30005607 original size:149 final size:145
Alignment explanation
Indices: 30005377--30005920 Score: 510
Period size: 149 Copynumber: 3.8 Consensus size: 145
30005367 CATGTGATCC
* * * * *
30005377 GAGGCTCCACTCACCTCTTGCAATATGAGTTGA-TTTT-AAAAAACGGAGATCAAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAA--GAAATGAAAACTACCTCA
** *
30005440 ACGTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTTA
64 ACGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAGACAGAAATTTA
30005505 AATTACCTCAGCGTGTCTT
128 AA-TACCTCAGCGTGTCTT
*
30005524 GAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTGAAAGAAAGAAATTGAAAA-TACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-AAAGAAA-TGAAAACTACCTC
*** * * *
30005588 AACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATTG
63 AACGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAGACAGAAATT-
* *
30005653 AAAATACCTCAACGTGTCTT
126 TAAATACCTCAGCGTGTCTT
* * * * * * * *
30005673 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG-AAACAGAAATAAAAACTATCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAGAAATGAAAACTACCTCAAC
* *
30005737 GTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-----------TTTTAAAG
66 GTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTTAAAT
** *
30005791 A-CAGAGCGTGTCCT
131 ACCTCAGCGTGTCTT
**
30005805 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGGCAGAAATTGAAAA-TACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTGAAA-AAAGAAA-TGAAAACTACCT
* * * *
30005869 CAACGTGTCAGTCAAGGCTCAACTTACCTCTCGCAATATGAGCTAATTTTTT
62 CAACGTGTC--CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
30005921 TGAACAGTAG
Statistics
Matches: 336, Mismatches: 46, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
132 38 0.11
133 5 0.01
134 7 0.02
135 2 0.01
136 18 0.05
137 5 0.01
138 37 0.11
145 12 0.04
146 46 0.14
147 32 0.10
148 5 0.01
149 112 0.33
150 14 0.04
151 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (145 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAGAAATGAAAACTACCTCAAC
GTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTTAAAT
ACCTCAGCGTGTCTT
Found at i:30005920 original size:138 final size:132
Alignment explanation
Indices: 30005665--30005921 Score: 345
Period size: 132 Copynumber: 1.9 Consensus size: 132
30005655 AATACCTCAA
* * * *
30005665 CGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTGAAACAGAAATAAAAACTA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATAAAAACTA
* * * *
30005730 TCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAGACAG
66 CCTCAACGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTTTTTAAAGACAG
30005795 AG
131 AG
*
30005797 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAGGCAGAAATTGAA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA--TTTTGAAA--CAGAAA-TAAA
* *
30005862 AA-TACCTCAACGTGTCAGTCAAGGCTCAACTTACCTCTCGCAATATGAGCTAATTTTTTT
61 AACTACCTCAACGTGTC--CCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTT
30005922 GAACAGTAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
132 38 0.36
134 8 0.07
136 18 0.17
137 5 0.05
138 38 0.36
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAACAGAAATAAAAACTA
CCTCAACGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTTTTTTAAAGACAG
AG
Found at i:30018090 original size:17 final size:17
Alignment explanation
Indices: 30018068--30018102 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30018058 ATGACGATAG
30018068 AAAATA-ACAATATACAT
1 AAAATATAC-ATATACAT
30018085 AAAATATACATATACAT
1 AAAATATACATATACAT
30018102 A
1 A
30018103 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATATACATATACAT
Found at i:30018774 original size:28 final size:30
Alignment explanation
Indices: 30018715--30018783 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
30018705 GAAAATAATA
** * *
30018715 AATAAAATATGGTATTAAGAGTATACATAT
1 AATAAAATATAATATTAAAAGTATACACAT
*
30018745 -A-AAAATATAATATTAAAAGTATATACAT
1 AATAAAATATAATATTAAAAGTATACACAT
30018773 AATAAAATATA
1 AATAAAATATA
30018784 GAAATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 22 0.69
29 2 0.06
30 8 0.25
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (30 bp):
AATAAAATATAATATTAAAAGTATACACAT
Found at i:30018947 original size:3 final size:3
Alignment explanation
Indices: 30018939--30018998 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
30018929 ATATACACAT
30018939 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30018986 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
30018999 CATAAAGTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30019564 original size:12 final size:10
Alignment explanation
Indices: 30019537--30019561 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30019527 CGGCCACCGT
30019537 TATATGTGTA
1 TATATGTGTA
30019547 TATATGTGTA
1 TATATGTGTA
30019557 TATAT
1 TATAT
30019562 ATGCACCGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
TATATGTGTA
Found at i:30021303 original size:47 final size:47
Alignment explanation
Indices: 30021252--30021346 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
30021242 AGTCCTTTAC
30021252 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
1 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
*
30021299 TTTTAGAAGAGCCATTGTTCTTTTCTTTTTTTTTTTAACTTTTGTTT
1 TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
30021346 T
1 T
30021347 GAGTTAAAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.15, C:0.11, G:0.12, T:0.63
Consensus pattern (47 bp):
TTTTAGAAGAGCCATTGTTCTTTTCTTTGTTTTTTTAACTTTTGTTT
Found at i:30027102 original size:26 final size:26
Alignment explanation
Indices: 30027026--30027112 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 26
30027016 TATCTTCAAT
*
30027026 AAACTTACATTTTCATTTAAGTTATC
1 AAACTTACATTTTTATTTAAGTTATC
*
30027052 AAACTATTAGAAAATTTGATT-TTTAAGTTATC
1 AAAC--TT---ACATTT--TTATTTAAGTTATC
30027084 AAACTTACATTTTTATTTAAGTTATC
1 AAACTTACATTTTTATTTAAGTTATC
30027110 AAA
1 AAA
30027113 TAATTTTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
25 2 0.04
26 18 0.36
27 5 0.10
28 2 0.04
30 2 0.04
31 5 0.10
32 15 0.30
33 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (26 bp):
AAACTTACATTTTTATTTAAGTTATC
Found at i:30029901 original size:85 final size:86
Alignment explanation
Indices: 30029792--30029962 Score: 299
Period size: 85 Copynumber: 2.0 Consensus size: 86
30029782 AAAAATTAGC
*
30029792 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACGTGTACCTCATGTTGACGTACAT
1 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
30029857 AGACCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
* * *
30029878 TTGGTTGACG-AATAACTAGACAGTGACATGTGACGTGTCCCGTATACCTTATGTTGATGTACAT
1 TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
30029942 AGACCAATTTTAATAACATAA
66 AGACCAATTTTAATAACATAA
30029963 ATGGATAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 71 0.88
86 10 0.12
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (86 bp):
TTGGTTGACGAAATAACTAGACAGTGACATGTGACGTGTCACGTATACCTCATGTTGACGTACAT
AGACCAATTTTAATAACATAA
Found at i:30031122 original size:30 final size:30
Alignment explanation
Indices: 30031049--30031199 Score: 245
Period size: 30 Copynumber: 5.1 Consensus size: 30
30031039 TTTTATTATG
*
30031049 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
30031080 CCAATA-TTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
30031109 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
30031139 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
30031169 -CTATATTTGATA-CCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
30031197 CCA
1 CCA
30031200 TAAATATGGA
Statistics
Matches: 114, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
28 15 0.13
29 40 0.35
30 53 0.46
31 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:30031124 original size:59 final size:60
Alignment explanation
Indices: 30031049--30031199 Score: 245
Period size: 59 Copynumber: 2.5 Consensus size: 60
30031039 TTTTATTATG
*
30031049 CCAATATCTCGATACCCATATCTTTGACTTTCCAATA-TTGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTTCCAATATTTGATACCCATATCTTTGACTTT
30031109 CCAATATTTGATACCCATATCTTTGACTTTCCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTTCCAATATTTGATACCCATATCTTTGACTTT
* *
30031169 -CTATATTTGATA-CCATATCTTTGATTTTCCA
1 CCAATATTTGATACCCATATCTTTGACTTTCCA
30031200 TAAATATGGA
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
58 18 0.21
59 39 0.45
60 30 0.34
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (60 bp):
CCAATATTTGATACCCATATCTTTGACTTTCCAATATTTGATACCCATATCTTTGACTTT
Found at i:30035803 original size:30 final size:30
Alignment explanation
Indices: 30035757--30035880 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
30035747 TTTTATTATG
*
30035757 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
30035788 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
30035818 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
30035848 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
30035878 CCA
1 CCA
30035881 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:30035812 original size:15 final size:15
Alignment explanation
Indices: 30035767--30035874 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
30035757 CCAATATCTC
30035767 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
30035782 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
30035797 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
30035812 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
30035827 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
30035842 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
30035857 GATACCCATATCTTT
1 GATACCCATATCTTT
30035872 GAT
1 GAT
30035875 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:30041435 original size:27 final size:27
Alignment explanation
Indices: 30041390--30041545 Score: 176
Period size: 27 Copynumber: 5.8 Consensus size: 27
30041380 AGGCTGCCAT
* * * *
30041390 ATATTGTGACGGAGTCACCAGATACAA
1 ATATTGTGGCAGAGCCACCAGATACAG
30041417 ATATTGTGGCAGAGCCACCAGA-ACAG
1 ATATTGTGGCAGAGCCACCAGATACAG
30041443 ATATATGTGGCAGAGCCACCAGAT-CAG
1 ATAT-TGTGGCAGAGCCACCAGATACAG
* * *
30041470 ATAATTGTGGCATAGCCACGAG-GACAG
1 AT-ATTGTGGCAGAGCCACCAGATACAG
30041497 ATATATGTGGCAGAGCCACCAGAT-CAG
1 ATAT-TGTGGCAGAGCCACCAGATACAG
*
30041524 ATAATTGTGGCATAGCCACCAG
1 AT-ATTGTGGCAGAGCCACCAG
30041546 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
ATATTGTGGCAGAGCCACCAGATACAG
Found at i:30041548 original size:54 final size:54
Alignment explanation
Indices: 30041405--30041548 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
30041395 GTGACGGAGT
* * *
30041405 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
30041459 CACCAGATCAGATAATTGTGGCATAGCCACGAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
30041513 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
30041549 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:30043192 original size:26 final size:26
Alignment explanation
Indices: 30043161--30043268 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
30043151 TGAAATGTCC
*
30043161 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
30043187 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30043213 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30043239 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30043265 ATCA
1 ATCA
30043269 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30048562 original size:27 final size:27
Alignment explanation
Indices: 30048517--30048670 Score: 156
Period size: 27 Copynumber: 5.7 Consensus size: 27
30048507 GAGGCTGCCA
* * * *
30048517 ATATTGTGACGGAGTCACCAGATACAA
1 ATATTGTGGCAGAGCCACCAGATACAG
30048544 ATATTGTGGCAGAGCCACCAGA-ACAG
1 ATATTGTGGCAGAGCCACCAGATACAG
30048570 ATATATGTGGCAGAGCCACCAGAT-CAG
1 ATAT-TGTGGCAGAGCCACCAGATACAG
* * *
30048597 ATAATTGTGGCATAGCCACGAG-GACAG
1 AT-ATTGTGGCAGAGCCACCAGATACAG
30048624 ATATATGTGGCAGAGCCACCAGAT-CAG
1 ATAT-TGTGGCAGAGCCACCAGATACAG
* *
30048651 ATAATT-TGGGATAGCCACCA
1 AT-ATTGTGGCAGAGCCACCA
30048671 AGACTCTCCT
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
26 21 0.19
27 83 0.77
28 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
ATATTGTGGCAGAGCCACCAGATACAG
Found at i:30048614 original size:54 final size:54
Alignment explanation
Indices: 30048532--30048670 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
30048522 GTGACGGAGT
* *
30048532 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
30048586 CACCAGATCAGATAATTGTGGCATAGCCACGAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
30048640 CACCAGATCAGATAATT-TGGGATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
30048671 AGACTCTCCT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 16 0.21
54 62 0.79
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:30050287 original size:26 final size:26
Alignment explanation
Indices: 30050256--30050363 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
30050246 TGAAATGTCC
30050256 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
30050282 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
30050308 ATCATGGAATATTTTCCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
30050334 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
30050360 ATCA
1 ATCA
30050364 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Done.