Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 34 of 193
Found at i:10551440 original size:20 final size:20
Alignment explanation
Indices: 10551417--10551507 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
10551407 TTTTTAAAAT
*
10551417 TTTTGGTAAATTCA-TATAAA
1 TTTTGGTAAA-TCATTAGAAA
*
10551437 TTTTGATAAATCATTAGAAA
1 TTTTGGTAAATCATTAGAAA
* *
10551457 TATTGGTAAAGTC-TTAGATA
1 TTTTGGTAAA-TCATTAGAAA
* ** * *
10551477 TCTTCATAAATCGTTATAAA
1 TTTTGGTAAATCATTAGAAA
*
10551497 TATTGGTAAAT
1 TTTTGGTAAAT
10551508 TGTTAAAAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 5 0.09
20 48 0.87
21 2 0.04
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTTGGTAAATCATTAGAAA
Found at i:10552923 original size:20 final size:20
Alignment explanation
Indices: 10552886--10552923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10552876 TATTTAATAA
*
10552886 TTATATATTTTTTATTATCG
1 TTATATATTTCTTATTATCG
10552906 TTATATATATTCTT-TTAT
1 TTATATAT-TTCTTATTAT
10552924 TAACTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATATATTTCTTATTATCG
Found at i:10565887 original size:20 final size:21
Alignment explanation
Indices: 10565844--10565901 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
10565834 TACTGTAGCG
* *
10565844 TATCAATATTTTT-TTTAAGG
1 TATCAATATTTTTCGTTAAGA
10565864 TATCAATATTTTTCGTT-AGA
1 TATCAATATTTTTCGTTAAGA
* *
10565884 TATCGATACTTTTC-TTAA
1 TATCAATATTTTTCGTTAA
10565902 AAACGATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (21 bp):
TATCAATATTTTTCGTTAAGA
Found at i:10566801 original size:70 final size:70
Alignment explanation
Indices: 10566727--10566863 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 70
10566717 CCAACACAAA
* *
10566727 AGTGCGATAAAGCCCATATACTCAATACTCGTCAAGCACATAAGTGCGGTAGTAACTCGTCCAGC
1 AGTGCGATAAAGCCCATAGACTCAATACTCGTCAAGCACATAAGTGCGGTAGTAACTCCTCCAGC
10566792 ACATG
66 ACATG
* * * * * *
10566797 AGTGCGGTAAAGCTCATAGGCTCAATACTCGTCCAGCATATAAGTGCGGTATTAACTCCTCCAGC
1 AGTGCGATAAAGCCCATAGACTCAATACTCGTCAAGCACATAAGTGCGGTAGTAACTCCTCCAGC
10566862 AC
66 AC
10566864 CGTAGTACGG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (70 bp):
AGTGCGATAAAGCCCATAGACTCAATACTCGTCAAGCACATAAGTGCGGTAGTAACTCCTCCAGC
ACATG
Found at i:10566911 original size:28 final size:28
Alignment explanation
Indices: 10566823--10566912 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
10566813 TAGGCTCAAT
**
10566823 ACTCGTCCAGCA-TATAAGTGCGGTATTA
1 ACTCGTCCAGCACCGTAA-TGCGGTATTA
* * *
10566851 ACTCCTCCAGCACCGTAGTACGGTATTA
1 ACTCGTCCAGCACCGTAATGCGGTATTA
10566879 ACTCGTCCAGCACCGTAATGCGGTATTA
1 ACTCGTCCAGCACCGTAATGCGGTATTA
10566907 ACTCGT
1 ACTCGT
10566913 ATTTCAATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 51 0.96
29 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (28 bp):
ACTCGTCCAGCACCGTAATGCGGTATTA
Found at i:10570758 original size:22 final size:22
Alignment explanation
Indices: 10570732--10570778 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
10570722 GTAACTAAGT
10570732 AACTGCTACTAACTGAACTATC
1 AACTGCTACTAACTGAACTATC
*
10570754 AACTGCTACTAATTGAACTATC
1 AACTGCTACTAACTGAACTATC
10570776 AAC
1 AAC
10570779 CTTAACTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
AACTGCTACTAACTGAACTATC
Found at i:10576890 original size:4 final size:4
Alignment explanation
Indices: 10576858--10576940 Score: 78
Period size: 4 Copynumber: 20.5 Consensus size: 4
10576848 TTATTTTATT
* * * *
10576858 AATA AA-A AATA AGTA AGTA AATA AGTA AATA AATA ACTA AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA
* * *
10576906 AATA AATA AATAA AATA ACTA TATA TATA AATA AA
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AA
10576941 AATATACATA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
3 3 0.05
4 55 0.83
5 8 0.12
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:10576936 original size:17 final size:17
Alignment explanation
Indices: 10576858--10576923 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
10576848 TTATTTTATT
*
10576858 AATAAA-AAAT-AAGTA
1 AATAAATAAATAAAATA
* *
10576873 AGTAAATAAGT-AAATA
1 AATAAATAAATAAAATA
*
10576889 AATAACTAAATAAAATA
1 AATAAATAAATAAAATA
10576906 AATAAATAAATAAAATA
1 AATAAATAAATAAAATA
10576923 A
1 A
10576924 CTATATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 5 0.12
16 15 0.36
17 22 0.52
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (17 bp):
AATAAATAAATAAAATA
Found at i:10576942 original size:22 final size:22
Alignment explanation
Indices: 10576911--10576962 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
10576901 AAATAAATAA
10576911 ATAAAT-AAAATA-ACTATATAT
1 ATAAATAAAAATATAC-ATATAT
10576932 ATAAATAAAAATATACATATAT
1 ATAAATAAAAATATACATATAT
*
10576954 ATATATAAA
1 ATAAATAAA
10576963 TAAAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.21
22 20 0.71
23 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAATAAAAATATACATATAT
Found at i:10582994 original size:59 final size:59
Alignment explanation
Indices: 10582872--10583303 Score: 643
Period size: 59 Copynumber: 7.3 Consensus size: 59
10582862 ATGGATACCT
* * * * *
10582872 GGGGGCAAAATGGTAATTTT-GGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
*
10582930 GGGGGTAAAATGGCAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAGCTTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
* *
10582988 GGGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGCTTT
1 -GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
* * * *
10583048 GGGGGTAAAATGGTAATTTTTGGAGAAATCAGGGTTAAAAACGGAATTTTAGAAGCTTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
* * * *
10583107 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
* *
10583166 GAGGGTAAAATGGTAATTTTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
* * * *
10583225 GAGGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATAGAATTTTAGAAGCTTC
1 GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
10583284 GGGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
10583304 TGAAAGTTTT
Statistics
Matches: 341, Mismatches: 30, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
58 38 0.11
59 282 0.83
60 21 0.06
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTC
Found at i:10583273 original size:30 final size:30
Alignment explanation
Indices: 10582936--10583274 Score: 114
Period size: 30 Copynumber: 11.4 Consensus size: 30
10582926 ATTCGGGGGT
* *
10582936 AAAATGGCAATTTTCGGTGAAATCGGGGTT-
1 AAAATGG-AATTTTCGATGAAATCAGGGTTA
* * ** * *
10582966 AAAATGGAATTTTAGAAG-CTTCGGGGGGT-
1 AAAATGGAATTTTCGATGAAATC-AGGGTTA
* **
10582995 AAAATGGTAATTTTCGGTGAAATTGGGGTTA
1 AAAATGG-AATTTTCGATGAAATCAGGGTTA
* * ** ** *
10583026 AAAATGGAATTTTAGAAG-CTTTGGGGGT-
1 AAAATGGAATTTTCGATGAAATCAGGGTTA
*
10583054 AAAATGGTAATTTTTGGA-GAAATCAGGGTTA
1 AAAATGG-AA-TTTTCGATGAAATCAGGGTTA
* * * ** * *
10583085 AAAACGGAATTTTAGAAG-CTTCGGGGGT-
1 AAAATGGAATTTTCGATGAAATCAGGGTTA
* * *
10583113 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-AATTTTCGATGAAATCAGGGTTA
* ** * *
10583144 AAAACGGAATTTTAAAAG-ATTCGAGGG-T-
1 AAAATGGAATTTTCGATGAAATC-AGGGTTA
*
10583172 AAAATGGTAATTTTC-AGTGAAATCGGGGTTA
1 AAAATGG-AATTTTCGA-TGAAATCAGGGTTA
* * **
10583203 AAAATGGAATTTTAGAAG-CTTCGAGGG-T-
1 AAAATGGAATTTTCGATGAAATC-AGGGTTA
10583231 AAAATGGTAATTTTCGATGAAATCAGGGTTA
1 AAAATGG-AATTTTCGATGAAATCAGGGTTA
*
10583262 AAAATAGAATTTT
1 AAAATGGAATTTT
10583275 AGAAGCTTCG
Statistics
Matches: 225, Mismatches: 60, Indels: 48
0.68 0.18 0.14
Matches are distributed among these distances:
28 29 0.13
29 80 0.36
30 82 0.36
31 34 0.15
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (30 bp):
AAAATGGAATTTTCGATGAAATCAGGGTTA
Found at i:10583340 original size:30 final size:30
Alignment explanation
Indices: 10583297--10583452 Score: 242
Period size: 30 Copynumber: 5.2 Consensus size: 30
10583287 GGTAAAATGG
* *
10583297 TAATTTTTG-AAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
10583326 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
10583356 TAATTTTGGAAAAGTTTTGGGGTCTAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * *
10583386 TAATTTTGGAAAAGTTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
10583416 TAATTTTGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
10583446 TAATTTT
1 TAATTTT
10583453 TGGACAATTT
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 8 0.07
30 109 0.93
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:10583362 original size:177 final size:172
Alignment explanation
Indices: 10582878--10583362 Score: 591
Period size: 177 Copynumber: 2.7 Consensus size: 172
10582868 ACCTGGGGGC
* * * *
10582878 AAAATGGTAATTTTGGTGTAATC-GGGATTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATG
1 AAAATGGTAATTTTGATGAAATCAGGG-TTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * *
10582942 GCAATTTTCGGTGAAATCGGGGTTAAAATGGAATTTTAGAAGCTTCGGGGGGTAAAATGGTAATT
65 GTAATTTT--GTGAAATCGGGGTAAAAATGGAATTTTAAAAGTTTC--GGGGTAAAATGGTAATT
* * * *
10583007 TTCGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAGCTTTGGGGGT
126 TTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
*
10583054 AAAATGGTAATTTTTGGA-GAAATCAGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAAT
1 AAAATGGTAA-TTTT-GATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAAT
* *
10583118 GGTAATTTTTGGTGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGAGGGTAAAATGGTAAT
64 GGTAA-TTTT-GTGAAATCGGGG-TAAAAATGGAATTTTAAAAGTTTCG-GGGTAAAATGGTAAT
10583183 TTTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
125 TTTCAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
*
10583231 AAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATAGAATTTTAGAAGCTTCGGGGGTAAAATG
1 AAAATGGTAATTTT-GATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* * * * *
10583296 GTAATTTT-TGAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAAT-ATAA
65 GTAATTTTGTGAAA---TCGGGGTAAAAATGGAATTTT--AAAAGTTTCGGGGT-AAAATGGTAA
10583359 TTTT
124 TTTT
10583363 GGAAAAGTTT
Statistics
Matches: 272, Mismatches: 24, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
174 5 0.02
176 33 0.12
177 193 0.71
178 41 0.15
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (172 bp):
AAAATGGTAATTTTGATGAAATCAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATGG
TAATTTTGTGAAATCGGGGTAAAAATGGAATTTTAAAAGTTTCGGGGTAAAATGGTAATTTTCAG
TGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
Found at i:10585344 original size:17 final size:16
Alignment explanation
Indices: 10585301--10585393 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 16
10585291 ACTTTTCTTT
10585301 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
10585318 TTAAATTTTAAATTAAA
1 TTAAA-TTTAAATTAAA
10585335 TTCAAATTTAAACTTAAA
1 TT-AAATTTAAA-TTAAA
* *
10585353 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
10585369 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
10585386 TTTAATTT
1 TTAAATTT
10585394 TCAAATGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.02
16 9 0.14
17 36 0.56
18 18 0.28
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:10585370 original size:11 final size:11
Alignment explanation
Indices: 10585317--10585393 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
10585307 TTATAATAAT
10585317 ATTAAATTTTAA
1 ATTAAA-TTTAA
*
10585329 ATTAAATTCAA
1 ATTAAATTTAA
*
10585340 ATTTAAACTTAA
1 A-TTAAATTTAA
*
10585352 ATTGAATTTAA
1 ATTAAATTTAA
*
10585363 AGTAAATTTAA
1 ATTAAATTTAA
*
10585374 GATTAAA-ATAA
1 -ATTAAATTTAA
*
10585385 ATTTAATTT
1 ATTAAATTT
10585394 TCAAATGGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
10 5 0.10
11 26 0.51
12 20 0.39
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10585772 original size:19 final size:18
Alignment explanation
Indices: 10585736--10585778 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10585726 ATAAAAAAAG
*
10585736 GAATTGAGAAAGATTTGA
1 GAATTGAGAAAGAGTTGA
*
10585754 GAATGTGAGAGAGAGTTGA
1 GAAT-TGAGAAAGAGTTGA
10585773 G-ATTGA
1 GAATTGA
10585779 ATTGAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.26
Consensus pattern (18 bp):
GAATTGAGAAAGAGTTGA
Found at i:10594574 original size:59 final size:58
Alignment explanation
Indices: 10594479--10594870 Score: 345
Period size: 59 Copynumber: 6.7 Consensus size: 58
10594469 ACATTTTGAA
* * * * * *
10594479 GGTAAAATAGTAATTTTCGG-AGGTTCG-GGTTCAAAAATGGAATTTTTGGACACTCGGG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGG-TCAAAAATAGAATTTTTGGA-AATCGTG
* * * *
10594537 GGTAAAATGATAATTTTTGGAAAGTTCGAGGTGAAAAACAGAATTTTTGGAAATCCG-A
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAAT-CGTG
* * *
10594595 GGTAAAATGGTAATTTTTAGG-AAGTTC-AGGGTAAAAAATGGAATTTTTTGGATATTCGTG
1 GGTAAAATGGTAATTTTT-GGAAAGTTCGA-GGTCAAAAATAGAA-TTTTTGGA-AATCGTG
* * * *
10594655 GGTAAAATGGTAATTTTTAGG-AAGTTTG-GAATCAAAAACAGAATATTTGGAAATCCGTG
1 GGTAAAATGGTAATTTTT-GGAAAGTTCGAG-GTCAAAAATAGAATTTTTGGAAAT-CGTG
** ** * *
10594714 ATTAAAATGGTAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTGGACATCCGTG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAAT-CGTG
* * *
10594773 GGTAAAATGGTAATTTTTGGAAAGTT-TAGAGTCAAAAATAGAATTTTAGGAAATTTGTG
1 GGTAAAATGGTAATTTTTGGAAAGTTCGAG-GTCAAAAATAGAATTTTTGGAAA-TCGTG
*
10594832 GGTAAAATGGTAA-TTTTGGAAAGTT-TAGGGTCAAAAATA
1 GGTAAAATGGTAATTTTTGGAAAGTTCGA-GGTCAAAAATA
10594871 AAATGATAAT
Statistics
Matches: 277, Mismatches: 41, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.00
58 82 0.30
59 153 0.55
60 41 0.15
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (58 bp):
GGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATCGTG
Found at i:10594586 original size:118 final size:115
Alignment explanation
Indices: 10594463--10594869 Score: 423
Period size: 118 Copynumber: 3.5 Consensus size: 115
10594453 AAAACGGTAA
* * * *
10594463 TTTTGGACATTTTGAAGGTAAAATAGTAATTTTCGGAGGTTCGGGTTCAAAAATGGAATTTTTGG
1 TTTTGGAAATTTTG-AGGTAAAATGGTAATTTTAGGAAGTTCGGG-TCAAAAATGGAATTTTTGG
* * *
10594528 ACACTCGGGGGTAAAATGATAATTTTTGGAAAGTTCGAG-GTGAAAAACAGAAT
64 ACA-TCGTGGGTAAAATGGTAATTTTTGGAAAGTT-GAGAGTCAAAAACAGAAT
** *
10594581 TTTTGGAAA-TCCGAGGTAAAATGGTAATTTTTAGGAAGTTCAGGGTAAAAAATGGAATTTTTTG
1 TTTTGGAAATTTTGAGGTAAAATGGTAA-TTTTAGGAAGTTC-GGGTCAAAAATGGAA-TTTTTG
* *
10594645 GATATTCGTGGGTAAAATGGTAATTTTTAGG-AAGTTTG-GAATCAAAAACAGAAT
63 GACA-TCGTGGGTAAAATGGTAATTTTT-GGAAAG-TTGAGAGTCAAAAACAGAAT
* ** * *
10594699 ATTTGGAAATCCGTGA-TTAAAATGGTAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTG
1 TTTTGGAAAT-TTTGAGGTAAAATGGTAATTTT-AGGAAGTTCG-GGTCAAAAATGGAATTTTTG
* *
10594763 GACATCCGTGGGTAAAATGGTAATTTTTGGAAAGTTTAGAGTCAAAAATAGAAT
63 GACAT-CGTGGGTAAAATGGTAATTTTTGGAAAGTTGAGAGTCAAAAACAGAAT
* *
10594817 TTTAGGAAATTTGTG-GGTAAAATGGTAATTTT-GGAAAGTTTAGGGTCAAAAAT
1 TTTTGGAAATTT-TGAGGTAAAATGGTAATTTTAGG-AAG-TTCGGGTCAAAAAT
10594870 AAAATGATAA
Statistics
Matches: 241, Mismatches: 31, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
116 14 0.06
117 43 0.18
118 146 0.61
119 36 0.15
120 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (115 bp):
TTTTGGAAATTTTGAGGTAAAATGGTAATTTTAGGAAGTTCGGGTCAAAAATGGAATTTTTGGAC
ATCGTGGGTAAAATGGTAATTTTTGGAAAGTTGAGAGTCAAAAACAGAAT
Found at i:10594612 original size:29 final size:27
Alignment explanation
Indices: 10594512--10595005 Score: 129
Period size: 29 Copynumber: 16.6 Consensus size: 27
10594502 TTCGGGTTCA
* * *
10594512 AAAATGGAATTTTTGGACACTCGGGGGT
1 AAAATGGAATTTTTGGAAATTC-GAGGT
*
10594540 AAAATGATAATTTTTGGAAAGTTCGAGGT
1 AAAATG-GAATTTTTGGAAA-TTCGAGGT
** *
10594569 GAAAAACAGAATTTTTGGAAATCCGAGGT
1 --AAAATGGAATTTTTGGAAATTCGAGGT
*
10594598 AAAATGGTAATTTTTAGGAAGTTC-AGGGT
1 AAAATGG-AATTTTT-GGAAATTCGA-GGT
* *
10594627 AAAAAATGGAATTTTTTGGATATTCGTGGGT
1 --AAAATGGAA-TTTTTGGAAATTCG-AGGT
* * *
10594658 AAAATGGTAATTTTTAGGAAGTTTG-GAAT
1 AAAATGG-AATTTTT-GGAAATTCGAG-GT
** * * * *
10594687 CAAAAACAGAATATTTGGAAATCCGTGATT
1 --AAAATGGAATTTTTGGAAATTCGAG-GT
**
10594717 AAAATGGTAATTTTAAGAAAGTTCGAGGT
1 AAAATGG-AATTTTTGGAAA-TTCGAGGT
* * *
10594746 CAAAAATGGAATTTTTGGACATCCGTGGGT
1 --AAAATGGAATTTTTGGAAATTCG-AGGT
*
10594776 AAAATGGTAATTTTTGGAAAGTT-TAGAGT
1 AAAATGG-AATTTTTGGAAA-TTCGAG-GT
* * * *
10594805 CAAAAATAGAATTTTAGGAAATTTGTGGGT
1 --AAAATGGAATTTTTGGAAATTCG-AGGT
*
10594835 AAAATGGTAA-TTTTGGAAAGTT-TAGGGTCAAAAAT
1 AAAATGG-AATTTTTGGAAA-TTCGA-GG-------T
*
10594870 AAAATGATAATTTTTGGAAAGTTCGAGGT
1 AAAATG-GAATTTTTGGAAA-TTCGAGGT
* *
10594899 CAAAAATGGAATTTTTGAAAATTCGTGGGT
1 --AAAATGGAATTTTTGGAAATTCG-AGGT
* *
10594929 AAAATGGTAATTTTTGAAAAGTT-TAGGGT
1 AAAATGG-AATTTTTGGAAA-TTCGA-GGT
* * *
10594958 CAAAAATAGAATTTTTGGTAATAT-AAGGGT
1 --AAAATGGAATTTTTGGAAAT-TCGA-GGT
10594988 AAAATGGTAATTTTTGGA
1 AAAATGG-AATTTTTGGA
10595006 TGTTCGGGGG
Statistics
Matches: 349, Mismatches: 64, Indels: 105
0.67 0.12 0.20
Matches are distributed among these distances:
27 5 0.01
28 57 0.16
29 112 0.32
30 101 0.29
31 50 0.14
35 9 0.03
36 14 0.04
37 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (27 bp):
AAAATGGAATTTTTGGAAATTCGAGGT
Found at i:10594643 original size:31 final size:30
Alignment explanation
Indices: 10594444--10594680 Score: 124
Period size: 29 Copynumber: 8.0 Consensus size: 30
10594434 TTTTGGATAC
* *
10594444 TCGAGAGGTAAAACGGTAA-TTTT-GGACATT
1 TCGAG-GGTAAAATGGTAATTTTTAGGA-AGT
* * * * *
10594474 TTGAAGGTAAAATAGTAA-TTTTCGGAGGT
1 TCGAGGGTAAAATGGTAATTTTTAGGAAGT
* *
10594503 TCG-GGTTCAAAAATGG-AATTTTT-GGACA-C
1 TCGAGGGT--AAAATGGTAATTTTTAGGA-AGT
* *
10594532 TCGGGGGTAAAATGATAATTTTT-GGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTAGG-AAGT
* ** *
10594562 TCGAGGTGAAAAACAG-AATTTTT-GGAAAT
1 TCGAGG-GTAAAATGGTAATTTTTAGGAAGT
*
10594591 CCGA-GGTAAAATGGTAATTTTTAGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTAGGAAGT
*
10594620 TC-AGGGTAAAAAATGG-AATTTTTTGGATA-T
1 TCGAGGGT--AAAATGGTAATTTTTAGGA-AGT
*
10594650 TCGTGGGTAAAATGGTAATTTTTAGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTAGGAAGT
10594680 T
1 T
10594681 TGGAATCAAA
Statistics
Matches: 158, Mismatches: 30, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.04
28 17 0.11
29 59 0.37
30 59 0.37
31 17 0.11
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (30 bp):
TCGAGGGTAAAATGGTAATTTTTAGGAAGT
Found at i:10594825 original size:30 final size:30
Alignment explanation
Indices: 10594776--10595073 Score: 117
Period size: 30 Copynumber: 9.9 Consensus size: 30
10594766 ATCCGTGGGT
* *
10594776 AAAATGGTAATTTTTGGAAAGTTTAGAGTCA
1 AAAATAGTAA-TTTTGGAAAGTTTAGGGTCA
*
10594807 AAAATAG-AATTTTAGGAAA-TTTGTGGGT--
1 AAAATAGTAATTTT-GGAAAGTTT-AGGGTCA
*
10594835 AAAATGGTAATTTTGGAAAGTTTAGGGTCA
1 AAAATAGTAATTTTGGAAAGTTTAGGGTCA
*
10594865 AAAATAAAATGATAATTTTTGGAAAG-TTCGAGGTCA
1 AAAAT---A-G-TAA-TTTTGGAAAGTTTAG-GGTCA
* * *
10594901 AAAAT-GGAATTTTTGAAAATTCGT-GGGT--
1 AAAATAGTAATTTTGGAAAGTT--TAGGGTCA
* *
10594929 AAAATGGTAATTTTTGAAAAGTTTAGGGTCA
1 AAAATAGTAA-TTTTGGAAAGTTTAGGGTCA
* *
10594960 AAAATAG-AATTTTTGGTAA-TATAAGGGT--
1 AAAATAGTAA-TTTTGGAAAGT-TTAGGGTCA
* * ** *
10594988 AAAATGGTAATTTTTGG-ATGTTCGGGGGCA
1 AAAATAGTAA-TTTTGGAAAGTTTAGGGTCA
* *
10595018 AAAAT-GTAATTTTGTAAAGTTTGGGGGT-A
1 AAAATAGTAATTTTGGAAAGTTT-AGGGTCA
* * *
10595047 AAAAT-GTATTTTTTGGACAGTTCAGGG
1 AAAATAGTA-ATTTTGGAAAGTTTAGGG
10595074 ACCTTCTGGG
Statistics
Matches: 206, Mismatches: 32, Indels: 60
0.69 0.11 0.20
Matches are distributed among these distances:
28 37 0.18
29 62 0.30
30 65 0.32
31 14 0.07
32 1 0.00
34 1 0.00
35 6 0.03
36 20 0.10
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATAGTAATTTTGGAAAGTTTAGGGTCA
Found at i:10594874 original size:35 final size:36
Alignment explanation
Indices: 10594834--10594905 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
10594824 AATTTGTGGG
*
10594834 TAAAATGGTAA-TTTTGGAAAGTTTAG-GGTCAAAAA
1 TAAAATGATAATTTTTGGAAAG-TTAGAGGTCAAAAA
*
10594869 TAAAATGATAATTTTTGGAAAGTTCGAGGTCAAAAA
1 TAAAATGATAATTTTTGGAAAGTTAGAGGTCAAAAA
10594905 T
1 T
10594906 GGAATTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (36 bp):
TAAAATGATAATTTTTGGAAAGTTAGAGGTCAAAAA
Found at i:10594883 original size:94 final size:95
Alignment explanation
Indices: 10594775--10594965 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 95
10594765 CATCCGTGGG
* * *
10594775 TAAAATGGTAATTTTTGGAAAGTTTAGA-GTCAAAAATAGAATTTTAGGAAATTTGTGGGTAAAA
1 TAAAATGATAATTTTTGGAAAG-TTAGAGGTCAAAAATAGAATTTTAGAAAATTCGTGGGTAAAA
*
10594839 TGGTAA-TTTTGGAAAGTTTAGGGTCAAAAA
65 TGGTAATTTTTGAAAAGTTTAGGGTCAAAAA
* * *
10594869 TAAAATGATAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTCGTGGGTAAAAT
1 TAAAATGATAATTTTTGGAAAGTTAGAGGTCAAAAATAGAATTTTAGAAAATTCGTGGGTAAAAT
10594934 GGTAATTTTTGAAAAGTTTAGGGTCAAAAA
66 GGTAATTTTTGAAAAGTTTAGGGTCAAAAA
10594964 TA
1 TA
10594966 GAATTTTTGG
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 4 0.05
94 59 0.67
95 25 0.28
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (95 bp):
TAAAATGATAATTTTTGGAAAGTTAGAGGTCAAAAATAGAATTTTAGAAAATTCGTGGGTAAAAT
GGTAATTTTTGAAAAGTTTAGGGTCAAAAA
Found at i:10594895 original size:153 final size:153
Alignment explanation
Indices: 10594716--10595001 Score: 455
Period size: 153 Copynumber: 1.9 Consensus size: 153
10594706 AATCCGTGAT
* * *
10594716 TAAAATGGTAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTGGACATCCGTGGGTAAAAT
1 TAAAATGATAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATCCGTGGGTAAAAT
* * **
10594781 GGTAATTTTTGGAAAGTTTAGAGTCAAAAATAGAATTTTAGGAAATTTGTGGGTAAAATGGTAAT
66 GGTAATTTTTGAAAAGTTTAGAGTCAAAAATAGAATTTTAGGAAATATAAGGGTAAAATGGTAAT
10594846 TTTGGAAAGTTTAGGGTCAAAAA
131 TTTGGAAAGTTTAGGGTCAAAAA
** *
10594869 TAAAATGATAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTCGTGGGTAAAAT
1 TAAAATGATAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATCCGTGGGTAAAAT
* * *
10594934 GGTAATTTTTGAAAAGTTTAGGGTCAAAAATAGAATTTTTGGTAATATAAGGGTAAAATGGTAAT
66 GGTAATTTTTGAAAAGTTTAGAGTCAAAAATAGAATTTTAGGAAATATAAGGGTAAAATGGTAAT
10594999 TTT
131 TTT
10595002 TGGATGTTCG
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
153 120 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (153 bp):
TAAAATGATAATTTTAAGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATCCGTGGGTAAAAT
GGTAATTTTTGAAAAGTTTAGAGTCAAAAATAGAATTTTAGGAAATATAAGGGTAAAATGGTAAT
TTTGGAAAGTTTAGGGTCAAAAA
Found at i:10594944 original size:59 final size:58
Alignment explanation
Indices: 10594869--10595069 Score: 176
Period size: 59 Copynumber: 3.4 Consensus size: 58
10594859 GGGTCAAAAA
* *
10594869 TAAAATGATAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTCGTGGG
1 TAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATT-GAGGG
* * * ** *
10594928 TAAAATGGTAATTTTTGAAAAGTT-TAGGGTCAAAAATAGAATTTTTGGTAATATAAGGG
1 TAAAATGGTAATTTTTGGAAAGTTCGA-GGTCAAAAATGGAATTTTTGAAAAT-TGAGGG
* * * * * *
10594987 TAAAATGGTAATTTTTGG-ATGTTCGGGGGCAAAAATGTAA-TTTTGTAAAGTTTGGGGG
1 TAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTG-AAA-ATTGAGGG
* *
10595045 TAAAAAT-GTATTTTTTGGACAGTTC
1 T-AAAATGGTAATTTTTGGAAAGTTC
10595070 AGGGACCTTC
Statistics
Matches: 112, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
57 5 0.04
58 32 0.29
59 74 0.66
60 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (58 bp):
TAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTGAGGG
Found at i:10595639 original size:23 final size:23
Alignment explanation
Indices: 10595587--10595641 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
10595577 TCCGTGGCTT
* *
10595587 CGTCGTCCGTCGTTGAGACCCGA
1 CGTCGTTCGTCGCTGAGACCCGA
10595610 CGTCGTTCGTCGCTGAGACCCGA
1 CGTCGTTCGTCGCTGAGACCCGA
10595633 CGTCGTTCG
1 CGTCGTTCG
10595642 ACCGTCGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.11, C:0.35, G:0.31, T:0.24
Consensus pattern (23 bp):
CGTCGTTCGTCGCTGAGACCCGA
Found at i:10599533 original size:28 final size:28
Alignment explanation
Indices: 10599501--10599562 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
10599491 CCAAATTTTT
10599501 AATTAGTCCCTAAAATTCAAA-A-TATTCC
1 AATTAGT-CCTAAAATT-AAAGACTATTCC
*
10599529 AATTA-TCCTTAAATTAAAGTACTATTCC
1 AATTAGTCCTAAAATTAAAG-ACTATTCC
10599557 AATTAG
1 AATTAG
10599563 GTTCTTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 3 0.10
26 8 0.28
27 2 0.07
28 16 0.55
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (28 bp):
AATTAGTCCTAAAATTAAAGACTATTCC
Found at i:10600111 original size:4 final size:4
Alignment explanation
Indices: 10600097--10600131 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
10600087 ATATGTGTGT
*
10600097 ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
10600132 TGTATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:10600885 original size:31 final size:31
Alignment explanation
Indices: 10600849--10600938 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 31
10600839 TGACCTCAAA
*
10600849 AAGTTTAAGTACCAACTTAAAAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
* **
10600880 AAGTTTAAATACCAAATTAGGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
*
10600911 AAGTTTAAGTATCAAATTAGAACAAAAA
1 AAGTTTAAGTACCAAATTA-AA-AAAAA
10600939 AAAGTTTAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 44 0.90
33 5 0.10
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAAAAAAAGTGTC
Found at i:10601213 original size:20 final size:20
Alignment explanation
Indices: 10601190--10601284 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 20
10601180 AAATTCATAT
10601190 AAATTTTGATAAATCGTTAG
1 AAATTTTGATAAATCGTTAG
*
10601210 AAATATTAGA-AAATTC-TTAG
1 AAAT-TTTGATAAA-TCGTTAG
* * * *
10601230 ATATCTTCATAAATCGTTAT
1 AAATTTTGATAAATCGTTAG
* * ** *
10601250 AAATATTGGTAAATTATTAA
1 AAATTTTGATAAATCGTTAG
*
10601270 AAATTTTGATCAATC
1 AAATTTTGATAAATC
10601285 ATATGATGGG
Statistics
Matches: 54, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
19 4 0.07
20 44 0.81
21 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATTTTGATAAATCGTTAG
Found at i:10601264 original size:40 final size:40
Alignment explanation
Indices: 10601175--10601264 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
10601165 TTTAAAATTT
* * *
10601175 TTGGTAAATTCATATAAATTTTGATAAATCGTTAGAAATA
1 TTGGTAAATTCATAGAAATCTTCATAAATCGTTAGAAATA
* * * * *
10601215 TTAGAAAATTCTTAGATATCTTCATAAATCGTTATAAATA
1 TTGGTAAATTCATAGAAATCTTCATAAATCGTTAGAAATA
10601255 TTGGTAAATT
1 TTGGTAAATT
10601265 ATTAAAAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (40 bp):
TTGGTAAATTCATAGAAATCTTCATAAATCGTTAGAAATA
Found at i:10601776 original size:17 final size:17
Alignment explanation
Indices: 10601754--10601789 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10601744 TTGAGTTTGG
10601754 ATTTATCTTAAAATTAA
1 ATTTATCTTAAAATTAA
* *
10601771 ATTTATTTTTAAATTAA
1 ATTTATCTTAAAATTAA
10601788 AT
1 AT
10601790 AATAAGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATCTTAAAATTAA
Found at i:10603714 original size:685 final size:683
Alignment explanation
Indices: 10602392--10603759 Score: 2709
Period size: 685 Copynumber: 2.0 Consensus size: 683
10602382 GTTCAAGCAA
10602392 TAAAGACGTTTAATATATATATATATATACAGTTATTAATAGCAGTAATAATAGTATTATTAATA
1 TAAAGACGTTTAATATATATATATATATACAGTTATTAATAGCAGTAATAATAGTATTATTAATA
10602457 ATAAATACGATGTAGATGACATTAATAGCTTTGATGATGGTTTTTAATAATATCATTAATAACAA
66 ATAAATACGATGTAGATGACATTAATAGCTTTGATGATGGTTTTTAATAATATCATTAATAACAA
10602522 TAATAATAGTGATTATAATAACGATAATAATAATAAATATTTAATAAATAAATAAAAATGAAAAA
131 TAATAATAGTGATTATAATAACGATAATAATAATAAATATTTAATAAATAAATAAAAATGAAAAA
10602587 TGAAAAATGAAGGGACACTTCCTTGGTCGCGCCGCTACCGGAGTGGCCATCGAAACTTCGATCCG
196 TGAAAAATGAAGGGACACTTCCTTGGTCGCGCCGCTACCGGAGTGGCCATCGAAACTTCGATCCG
10602652 CCGTCTGTAGCTGTGAGAATGTCCGTCGGTGACAGATCTACAAGAAACCAGCAACCAAACACAAG
261 CCGTCTGTAGCTGTGAGAATGTCCGTCGGTGACAGATCTACAAGAAACCAGCAACCAAACACAAG
10602717 GGTTTTTTAAAAACGCATAATTTGAAACAAAAAACGAAACAGATCTGATTTGTTTAAAAAAGGGA
326 GGTTTTTTAAAAACGCATAATTTGAAACAAAAAACGAAACAGATCTGATTTGTTTAAAAAAGGGA
10602782 TTTCTTTTTTCGAAGCTTGAAGATCAAAAAATGATGAAATGTTCAAACCTTTTTTTTAAAAAATA
391 TTTCTTTTTTCGAAGCTTGAAGATCAAAAAATGATGAAATGTTCAAACCTTTTTTTTAAAAAATA
10602847 CAAAAAAAAGGAATGAAAAGAAAGGGATAGGGATTTTGGAAATTTTCAGATATGGTAGGAAACCA
456 CAAAAAAAAGGAATGAAAAGAAAGGGATAGGGATTTTGGAAATTTTCAGATATGGTAGGAAACCA
*
10602912 GATCTGATTTTAAATGAAAAGCCAAAAGAAATATGAAAGGATTGTTCTTACCTCCAACGGCGCGT
521 GATCTGATTTTAAATGAAAAGCCAAAAGAAATATGAAAGGATTGTTCTTAACTCCAACGGCGCGT
10602977 TTCGACGGGCGACTGAAGGCGACGGCTGCGGGCGGACCAAGGCTGACCGGAGCAAGGCCGGGAAT
586 TTCGACGGGCGACTGAAGGCGACGGCTGCGGGCGGACCAAGGCTGACCGGAGCAAGGCCGGGAAT
10603042 TCTAGGGGCCGACGCGTACGGCGTGTAGCTTGG
651 TCTAGGGGCCGACGCGTACGGCGTGTAGCTTGG
10603075 TAAAGACGTTTAATATATATATATATATATACAGTTATTAATAGCAGTAATAATAGTATTATTAA
1 TAAAGACGTTT-A-ATATATATATATATATACAGTTATTAATAGCAGTAATAATAGTATTATTAA
10603140 TAATAAATACGATGTAGATGACATTAATAGCTTTGATGATGGTTTTTAATAATATCATTAATAAC
64 TAATAAATACGATGTAGATGACATTAATAGCTTTGATGATGGTTTTTAATAATATCATTAATAAC
10603205 AATAATAATAGTGATTATAATAACGATAATAATAATAAATATTTAATAAATAAATAAAAATGAAA
129 AATAATAATAGTGATTATAATAACGATAATAATAATAAATATTTAATAAATAAATAAAAATGAAA
10603270 AATGAAAAATGAAGGGACACTTCCTTGGTCGCGCCGCTACCGGAGTGGCCATCGAAACTTCGATC
194 AATGAAAAATGAAGGGACACTTCCTTGGTCGCGCCGCTACCGGAGTGGCCATCGAAACTTCGATC
10603335 CGCCGTCTGTAGCTGTGAGAATGTCCGTCGGTGACAGATCTACAAGAAACCAGCAACCAAACACA
259 CGCCGTCTGTAGCTGTGAGAATGTCCGTCGGTGACAGATCTACAAGAAACCAGCAACCAAACACA
10603400 AGGGTTTTTTAAAAACGCATAATTTGAAACAAAAAACGAAACAGATCTGATTTGTTTAAAAAAGG
324 AGGGTTTTTTAAAAACGCATAATTTGAAACAAAAAACGAAACAGATCTGATTTGTTTAAAAAAGG
10603465 GATTTCTTTTTTCGAAGCTTGAAGATCAAAAAATGATGAAATGTTCAAACCTTTTTTTTAAAAAA
389 GATTTCTTTTTTCGAAGCTTGAAGATCAAAAAATGATGAAATGTTCAAACCTTTTTTTTAAAAAA
10603530 TACAAAAAAAAGGAATGAAAAGAAAGGGATAGGGATTTTGGAAATTTTCAGATATGGTAGGAAAC
454 TACAAAAAAAAGGAATGAAAAGAAAGGGATAGGGATTTTGGAAATTTTCAGATATGGTAGGAAAC
10603595 CAGATCTGATTTTAAATGAAAAGCCAAAAGAAATATGAAAGGATTGTTCTTAACTCCAACGGCGC
519 CAGATCTGATTTTAAATGAAAAGCCAAAAGAAATATGAAAGGATTGTTCTTAACTCCAACGGCGC
10603660 GTTTCGACGGGCGACTGAAGGCGACGGCTGCGGGCGGACCAAGGCTGACCGGAGCAAGGCCGGGA
584 GTTTCGACGGGCGACTGAAGGCGACGGCTGCGGGCGGACCAAGGCTGACCGGAGCAAGGCCGGGA
10603725 ATTCTAGGGGCCGACGCGTACGGCGTGTAGCTTGG
649 ATTCTAGGGGCCGACGCGTACGGCGTGTAGCTTGG
10603760 CTACGGCCGG
Statistics
Matches: 682, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
683 11 0.02
684 1 0.00
685 670 0.98
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (683 bp):
TAAAGACGTTTAATATATATATATATATACAGTTATTAATAGCAGTAATAATAGTATTATTAATA
ATAAATACGATGTAGATGACATTAATAGCTTTGATGATGGTTTTTAATAATATCATTAATAACAA
TAATAATAGTGATTATAATAACGATAATAATAATAAATATTTAATAAATAAATAAAAATGAAAAA
TGAAAAATGAAGGGACACTTCCTTGGTCGCGCCGCTACCGGAGTGGCCATCGAAACTTCGATCCG
CCGTCTGTAGCTGTGAGAATGTCCGTCGGTGACAGATCTACAAGAAACCAGCAACCAAACACAAG
GGTTTTTTAAAAACGCATAATTTGAAACAAAAAACGAAACAGATCTGATTTGTTTAAAAAAGGGA
TTTCTTTTTTCGAAGCTTGAAGATCAAAAAATGATGAAATGTTCAAACCTTTTTTTTAAAAAATA
CAAAAAAAAGGAATGAAAAGAAAGGGATAGGGATTTTGGAAATTTTCAGATATGGTAGGAAACCA
GATCTGATTTTAAATGAAAAGCCAAAAGAAATATGAAAGGATTGTTCTTAACTCCAACGGCGCGT
TTCGACGGGCGACTGAAGGCGACGGCTGCGGGCGGACCAAGGCTGACCGGAGCAAGGCCGGGAAT
TCTAGGGGCCGACGCGTACGGCGTGTAGCTTGG
Found at i:10604412 original size:30 final size:29
Alignment explanation
Indices: 10604378--10604485 Score: 146
Period size: 29 Copynumber: 3.7 Consensus size: 29
10604368 AAATTATCTA
10604378 AAAATTACATTTTCGACCCCGAACTTCTCC
1 AAAATTACATTTT-GACCCCGAACTTCTCC
* *
10604408 AAAATTACATTTTTAACCCCGAAGCTTC-CA
1 AAAATTACA-TTTTGACCCCGAA-CTTCTCC
*
10604438 AAAATTACATTTTGACTCCGAACTTCTCC
1 AAAATTACATTTTGACCCCGAACTTCTCC
*
10604467 AAAATTACATTTTAACCCC
1 AAAATTACATTTTGACCCC
10604486 CAAAACTTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.06
29 29 0.43
30 27 0.40
31 8 0.12
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCGAACTTCTCC
Found at i:10604490 original size:20 final size:21
Alignment explanation
Indices: 10604465--10604510 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10604455 CCGAACTTCT
10604465 CCAAAA-TTACATTTTAACCC
1 CCAAAACTTACATTTTAACCC
**
10604485 CCAAAACTTACATTTTTCCCC
1 CCAAAACTTACATTTTAACCC
10604506 CCAAA
1 CCAAA
10604511 CTTTCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (21 bp):
CCAAAACTTACATTTTAACCC
Found at i:10604693 original size:28 final size:28
Alignment explanation
Indices: 10604661--10604722 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
10604651 CCAAATTTTC
10604661 CCAAAATTACCACTTTT-CCCTCGAG-AGT
1 CCAAAATTACCA-TTTTGCCCTCGAGCA-T
10604689 CCAAAATTACCATTTTGCCCTCGAGCAT
1 CCAAAATTACCATTTTGCCCTCGAGCAT
10604717 CCAAAA
1 CCAAAA
10604723 AGTCCCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 4 0.12
28 27 0.84
29 1 0.03
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCTCGAGCAT
Found at i:10604733 original size:29 final size:27
Alignment explanation
Indices: 10604661--10604733 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
10604651 CCAAATTTTC
*
10604661 CCAAAATTACCACTTTTCCCTCGAGAGT
1 CCAAAAGTACCA-TTTTCCCTCGAGAGT
*
10604689 CCAAAATTACCATTTTGCCCTCGAGCA-T
1 CCAAAAGTACCATTTT-CCCTCGAG-AGT
*
10604717 CCAAAAAGTCCCATTTT
1 CC-AAAAGTACCATTTT
10604734 TTTATCCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.10
28 23 0.57
29 13 0.32
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.29
Consensus pattern (27 bp):
CCAAAAGTACCATTTTCCCTCGAGAGT
Found at i:10606751 original size:20 final size:20
Alignment explanation
Indices: 10606714--10606751 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10606704 TATTTAATAA
*
10606714 TTATATATTTTTTATTATCG
1 TTATATATTTCTTATTATCG
10606734 TTATATATATTCTT-TTAT
1 TTATATAT-TTCTTATTAT
10606752 TAACTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATATATTTCTTATTATCG
Found at i:10607622 original size:14 final size:14
Alignment explanation
Indices: 10607600--10607634 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10607590 ATATCAATTT
*
10607600 AATTATAATTTTAAA
1 AATT-TAATCTTAAA
10607615 AATTTAATCTTAAA
1 AATTTAATCTTAAA
10607629 AATTTA
1 AATTTA
10607635 GAAATGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
AATTTAATCTTAAA
Found at i:10612843 original size:21 final size:24
Alignment explanation
Indices: 10612817--10612865 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
10612807 AAAGGTTATC
*
10612817 TACAAATTCA-ATC-TCT-AAGAT
1 TACAAAATCATATCTTCTAAAGAT
10612838 TACAAAATCATATCTTCTAAAGAT
1 TACAAAATCATATCTTCTAAAGAT
10612862 TACA
1 TACA
10612866 TATCAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 3 0.12
24 9 0.38
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (24 bp):
TACAAAATCATATCTTCTAAAGAT
Found at i:10620148 original size:17 final size:17
Alignment explanation
Indices: 10620121--10620154 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
10620111 TTCCAAATTG
10620121 AAATGATGAGAGGAGAGA
1 AAATGATGAGA-GAGAGA
10620139 AAATGA-GAGAGAGAGA
1 AAATGATGAGAGAGAGA
10620155 TATGTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (17 bp):
AAATGATGAGAGAGAGA
Found at i:10622677 original size:60 final size:57
Alignment explanation
Indices: 10622518--10622682 Score: 163
Period size: 60 Copynumber: 2.8 Consensus size: 57
10622508 AATTTGATAT
* * * *
10622518 TTTTTCCTAATTTAGTACCTAAACTTTTTTTTA-CCTAATTTGATACTTGAATTGACA
1 TTTTTCCTAATTTAGTACTTAAACTTTTTTTGATCC-AATTTGGTAATTGAATTGACA
* * *
10622575 CTTTTTCCTAATTTGGTA-TCTAAACCTTTTTTTGGTCCCAATTTGGTAATTGAACTTGGCA
1 -TTTTTCCTAATTTAGTACT-TAAA-CTTTTTTTGAT-CCAATTTGGTAATTGAA-TTGACA
* *
10622636 TTTATTCCTAATTTAGTACTTAAGCTTTTTTTAGATTCAATTTGGTA
1 TTT-TTCCTAATTTAGTACTTAAACTTTTTTT-GATCCAATTTGGTA
10622683 CCTAATTTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
58 20 0.23
59 8 0.09
60 34 0.39
61 25 0.28
62 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (57 bp):
TTTTTCCTAATTTAGTACTTAAACTTTTTTTGATCCAATTTGGTAATTGAATTGACA
Found at i:10622928 original size:17 final size:15
Alignment explanation
Indices: 10622908--10622962 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 15
10622898 TTTATTTTGG
10622908 ATTTAAATTTGTATACA
1 ATTTAAATTT-TATA-A
10622925 ATTTAAATCTATTATAA
1 ATTTAAAT-T-TTATAA
10622942 ATTTAAA-TTTA-AA
1 ATTTAAATTTTATAA
10622955 A-TTAAATT
1 ATTTAAATT
10622963 AAATGTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.14
13 4 0.11
14 3 0.09
15 1 0.03
17 16 0.46
18 5 0.14
19 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTTAAATTTTATAA
Found at i:10624848 original size:58 final size:58
Alignment explanation
Indices: 10624779--10624998 Score: 241
Period size: 58 Copynumber: 3.8 Consensus size: 58
10624769 AAACTATCCA
*
10624779 AAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCAATTTCATC
1 AAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCGATTTCATC
* * * * *
10624837 AAGATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATATCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCGATTTCATC
** * * * * *
10624895 AAAATTACCATTTT-CCCCCAAACTCACC-AAAACCTCA-TTTTAATCTCGATTTTACTA
1 AAAATTACCATTTTACCCCCAAACTTTCCTAAATCC-CATTTTTAACCCCGATTTCA-TC
* * *
10624952 AAAATTATCATTTTACCCCCGAACCTT-CTAAAATCCCATTTTTAACC
1 AAAATTACCATTTTACCCCCAAACTTTCCT-AAATCCCATTTTTAACC
10624999 TCGAATTTTC
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
56 18 0.14
57 27 0.20
58 75 0.57
59 12 0.09
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCGATTTCATC
Found at i:10624922 original size:28 final size:29
Alignment explanation
Indices: 10624779--10624926 Score: 106
Period size: 29 Copynumber: 5.1 Consensus size: 29
10624769 AAACTATCCA
**
10624779 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTACCCCCAAACTCACC
* * * ** *
10624808 TAAA-TCCCATTTTTAACCCCAATTTCATC
1 AAAATTACCA-TTTTACCCCCAAACTCACC
* * **
10624837 AAGATTACCATTTTACCCCCGAACTTTCC
1 AAAATTACCATTTTACCCCCAAACTCACC
* * *
10624866 AAAA-TCCCATTTTTAACCCCGATA-TCACC
1 AAAATTACCA-TTTT-ACCCCCAAACTCACC
10624895 AAAATTACCATTTT-CCCCCAAACTCACC
1 AAAATTACCATTTTACCCCCAAACTCACC
10624923 AAAA
1 AAAA
10624927 CCTCATTTTA
Statistics
Matches: 85, Mismatches: 28, Indels: 13
0.67 0.22 0.10
Matches are distributed among these distances:
27 6 0.07
28 17 0.20
29 48 0.56
30 14 0.16
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCAAACTCACC
Found at i:10624985 original size:115 final size:116
Alignment explanation
Indices: 10624779--10624998 Score: 293
Period size: 115 Copynumber: 1.9 Consensus size: 116
10624769 AAACTATCCA
** * * *
10624779 AAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCAATTTCATCAAGATTA
1 AAAATTACCATTTTACCCCCAAACTCACCTAAAACCCATTTTTAACCCCAATTTCATAAAAATTA
*
10624844 CCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATATCACC
66 CCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCCCGATATCACC
* * * *
10624895 AAAATTACCATTTT-CCCCCAAACTCACC-AAAACCTCA-TTTTAATCTCGATTTTACTAAAAAT
1 AAAATTACCATTTTACCCCCAAACTCACCTAAAACC-CATTTTTAACCCCAATTTCA-TAAAAAT
* *
10624957 TATCATTTTACCCCCGAACCTTCTAAAATCCCATTTTTAACC
64 TACCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACC
10624999 TCGAATTTTC
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
114 18 0.20
115 58 0.64
116 14 0.16
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCCAAACTCACCTAAAACCCATTTTTAACCCCAATTTCATAAAAATTA
CCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCCCGATATCACC
Found at i:10625015 original size:58 final size:57
Alignment explanation
Indices: 10624780--10625028 Score: 231
Period size: 58 Copynumber: 4.3 Consensus size: 57
10624770 AACTATCCAA
* * * * * *
10624780 AAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAACCCCAATTTCATC
1 AAATTACCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCTCGATTTCACC
* * *
10624837 AAGATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATATCACC
1 AA-ATTACCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCTCGATTTCACC
* * * * *
10624895 AAAATTACCATTTT-CCCCC-AAACTCACCAAAA-CCTCA-TTTTAATCTCGATTTTACTAA
1 -AAATTACCATTTTACCCCCGAACCT-TCCAAAATCC-CATTTTTAACCTCGATTTCAC--C
* *
10624953 AAATTATCATTTTACCCCCGAACCTTCTAAAATCCCATTTTTAACCTCGAATTTTC-CC
1 AAATTACCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCTCG-A-TTTCACC
10625011 AAATTA-CATTTTTACCCC
1 AAATTACCA-TTTTACCCC
10625029 TCGAGAGTCA
Statistics
Matches: 159, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
56 19 0.12
57 29 0.18
58 88 0.55
59 18 0.11
60 2 0.01
61 3 0.02
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.34
Consensus pattern (57 bp):
AAATTACCATTTTACCCCCGAACCTTCCAAAATCCCATTTTTAACCTCGATTTCACC
Found at i:10625142 original size:20 final size:19
Alignment explanation
Indices: 10625117--10625170 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 19
10625107 TACTAAATAC
10625117 TTGCATTTATTTTA-ATCATT
1 TTGCATTTATTTTACAT--TT
10625137 TTGCATTTGCATTTTACATTT
1 TTGCATTT--ATTTTACATTT
10625158 TTGCATTCTATTT
1 TTGCATT-TATTT
10625171 ATATGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 12 0.40
21 9 0.30
22 7 0.23
23 2 0.07
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.59
Consensus pattern (19 bp):
TTGCATTTATTTTACATTT
Found at i:10626526 original size:20 final size:20
Alignment explanation
Indices: 10626486--10626526 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10626476 TTAGGAATTG
*
10626486 TGGTAAATTCTTAAAAGTTT
1 TGGTAAATTCTTAAAACTTT
* *
10626506 TGGTAAATTGTTAAATCTTT
1 TGGTAAATTCTTAAAACTTT
10626526 T
1 T
10626527 CATAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TGGTAAATTCTTAAAACTTT
Found at i:10626552 original size:10 final size:10
Alignment explanation
Indices: 10626539--10626572 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10626529 TAAATTTATA
10626539 TAAATATTAG
1 TAAATATTAG
10626549 TAAATCATTAG
1 TAAAT-ATTAG
10626560 -AAATATTAG
1 TAAATATTAG
10626569 TAAA
1 TAAA
10626573 GTGTTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.23
10 12 0.55
11 5 0.23
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (10 bp):
TAAATATTAG
Found at i:10626552 original size:20 final size:20
Alignment explanation
Indices: 10626540--10626646 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
10626530 AAATTTATAT
10626540 AAATATTAGTAAATCATTAG
1 AAATATTAGTAAATCATTAG
* *
10626560 AAATATTAGTAAAGT-GTTAC
1 AAATATTAGTAAA-TCATTAG
* * *
10626580 ATATTTTAGTAAATTATTAG
1 AAATATTAGTAAATCATTAG
* * * *
10626600 ATATTTTGGTAAATTCA-TAT
1 AAATATTAGTAAA-TCATTAG
* *
10626620 AAAT-TTTGATAAATCGTTAG
1 AAATATTAG-TAAATCATTAG
10626640 AAATATT
1 AAATATT
10626647 GATACAATCT
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
19 6 0.09
20 57 0.84
21 5 0.07
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (20 bp):
AAATATTAGTAAATCATTAG
Found at i:10626626 original size:40 final size:40
Alignment explanation
Indices: 10626486--10626626 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 40
10626476 TTAGGAATTG
* * * * *
10626486 TGGTAAATTCTTA-AAAGTTTTGGTAAATTGTTAAATCTTT
1 TGGTAAATTCATATAAA-TTTTAGTAAATTATTAGATATTT
** * * * * *
10626526 TCATAAATTTATATAAATATTAGTAAATCATTAGAAATAT
1 TGGTAAATTCATATAAATTTTAGTAAATTATTAGATATTT
* * ** * *
10626566 TAGTAAAGTGTTACATATTTTAGTAAATTATTAGATATTT
1 TGGTAAATTCATATAAATTTTAGTAAATTATTAGATATTT
10626606 TGGTAAATTCATATAAATTTT
1 TGGTAAATTCATATAAATTTT
10626627 GATAAATCGT
Statistics
Matches: 71, Mismatches: 29, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
40 68 0.96
41 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (40 bp):
TGGTAAATTCATATAAATTTTAGTAAATTATTAGATATTT
Found at i:10626648 original size:20 final size:20
Alignment explanation
Indices: 10626620--10626703 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
10626610 AAATTCATAT
*
10626620 AAATTTTGATAAATCGTTAG
1 AAATATTGATAAATCGTTAG
10626640 AAATATTGATACAATC-TTAG
1 AAATATTGATA-AATCGTTAG
* * * *
10626660 ATATTTTTATAAAT-GTTTAT
1 AAATATTGATAAATCG-TTAG
* *
10626680 AAATATTGATAAATTGTTAA
1 AAATATTGATAAATCGTTAG
10626700 AAAT
1 AAAT
10626704 TTTGGTCAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 3 0.06
20 43 0.84
21 5 0.10
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (20 bp):
AAATATTGATAAATCGTTAG
Found at i:10626706 original size:40 final size:40
Alignment explanation
Indices: 10626620--10626707 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
10626610 AAATTCATAT
*
10626620 AAATTTTGATAAATCGTTAGAAATATTGATACAATCTTAG
1 AAATTTTGATAAATCGTTAGAAATATTGATACAATCTTAA
* * * *
10626660 ATATTTTTATAAAT-GTTTATAAATATTGATA-AATTGTTAA
1 AAATTTTGATAAATCG-TTAGAAATATTGATACAA-TCTTAA
10626700 AAATTTTG
1 AAATTTTG
10626708 GTCAAGTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.08
40 36 0.92
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (40 bp):
AAATTTTGATAAATCGTTAGAAATATTGATACAATCTTAA
Found at i:10626763 original size:20 final size:20
Alignment explanation
Indices: 10626738--10626776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10626728 CAAATGATAT
*
10626738 ACTTAGAAATTTTGGTAAAG
1 ACTTAGAAAATTTGGTAAAG
*
10626758 ACTTAGAAAATTTGTTAAA
1 ACTTAGAAAATTTGGTAAA
10626777 TTTTACGGAA
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:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (20 bp):
ACTTAGAAAATTTGGTAAAG
Found at i:10626869 original size:19 final size:19
Alignment explanation
Indices: 10626847--10626889 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10626837 GTTAATTATT
10626847 GTAAAGCCTTAAAATTTTA
1 GTAAAGCCTTAAAATTTTA
** *
10626866 GTAAATTCTTAAAATTTTG
1 GTAAAGCCTTAAAATTTTA
10626885 GTAAA
1 GTAAA
10626890 TTGTTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (19 bp):
GTAAAGCCTTAAAATTTTA
Found at i:10626890 original size:19 final size:20
Alignment explanation
Indices: 10626854--10626943 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 20
10626844 ATTGTAAAGC
10626854 CTTA-AAATTTTAGTAAATT
1 CTTAGAAATTTTAGTAAATT
*
10626873 CTTA-AAATTTTGGTAAATT
1 CTTAGAAATTTTAGTAAATT
* ** *
10626892 GTTAGAAATAATAGTAAAGT
1 CTTAGAAATTTTAGTAAATT
* * * **
10626912 CTCATAAATTTTGGTAAAGG
1 CTTAGAAATTTTAGTAAATT
*
10626932 CTTAGAAGTTTT
1 CTTAGAAATTTT
10626944 GATAAATGGT
Statistics
Matches: 54, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
19 21 0.39
20 33 0.61
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (20 bp):
CTTAGAAATTTTAGTAAATT
Found at i:10626937 original size:40 final size:39
Alignment explanation
Indices: 10626847--10626938 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 39
10626837 GTTAATTATT
* ** * *
10626847 GTAAAGCCTTA-AAATTTTAGTAAATTCTTAAAATTTTG
1 GTAAAGGCTTAGAAATAATAGTAAAGTCTCAAAATTTTG
*
10626885 GTAAATTG-TTAGAAATAATAGTAAAGTCTCATAAATTTTG
1 GTAAA-GGCTTAGAAATAATAGTAAAGTCTCA-AAATTTTG
10626925 GTAAAGGCTTAGAA
1 GTAAAGGCTTAGAA
10626939 GTTTTGATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
38 8 0.19
39 16 0.37
40 19 0.44
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (39 bp):
GTAAAGGCTTAGAAATAATAGTAAAGTCTCAAAATTTTG
Found at i:10626943 original size:20 final size:20
Alignment explanation
Indices: 10626920--10626965 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10626910 GTCTCATAAA
10626920 TTTTGGTAAA-GGCTTAGAAG
1 TTTTGGTAAATGG-TTAGAAG
*
10626940 TTTTGATAAATGGTTAGAAG
1 TTTTGGTAAATGGTTAGAAG
10626960 TTTTGG
1 TTTTGG
10626966 AAAACCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.41
Consensus pattern (20 bp):
TTTTGGTAAATGGTTAGAAG
Found at i:10630033 original size:102 final size:105
Alignment explanation
Indices: 10629906--10630094 Score: 294
Period size: 106 Copynumber: 1.8 Consensus size: 105
10629896 TCAAGCCTAA
* * *
10629906 CCCATAAACGCCTTTAGGATGATGTATTTTAC-AAA-GTGTTTTTTTT-TCAAAACAGTACAAAT
1 CCCATAAACACCTTTAGGATAATGTATTTTACAAAATCTGTTTTTTTTATCAAAACAGTACAAAT
*
10629968 ACAATTATATTGATAGATAATCACAAAAACTCAAGCTCGG
66 ACAATTATATTAATAGATAATCACAAAAACTCAAGCTCGG
* *
10630008 CCCATAAACACCTTTAGGATAATGTATTTTACAAAATTCTTTTTTTTTTATCAAAAGAGTACAAA
1 CCCATAAACACCTTTAGGATAATGTATTTTACAAAA-TCTGTTTTTTTTATCAAAACAGTACAAA
10630073 TACAATTATATTAATAGATAAT
65 TACAATTATATTAATAGATAAT
10630095 TATAAAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
102 30 0.39
103 3 0.04
105 9 0.12
106 35 0.45
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (105 bp):
CCCATAAACACCTTTAGGATAATGTATTTTACAAAATCTGTTTTTTTTATCAAAACAGTACAAAT
ACAATTATATTAATAGATAATCACAAAAACTCAAGCTCGG
Found at i:10635980 original size:27 final size:27
Alignment explanation
Indices: 10635941--10636019 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
10635931 AACAAAAAGT
10635941 ATATATTTTTAATTAGTGAATTGATCAA
1 ATAT-TTTTTAATTAGTGAATTGATCAA
10635969 ATATTTTTTAATTAGTGAATTGATCAA
1 ATATTTTTTAATTAGTGAATTGATCAA
10635996 ATATTTTTTAATTAGTGAATTGAT
1 ATATTTTTTAATTAGTGAATTGAT
10636020 AAAAAAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 47 0.92
28 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (27 bp):
ATATTTTTTAATTAGTGAATTGATCAA
Found at i:10636515 original size:31 final size:31
Alignment explanation
Indices: 10636480--10636545 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
10636470 AACAGCCTAG
*
10636480 TGACTTAAATAAAAAAATTTAAATAGTTCAA
1 TGACTTAAATAAAAAAATTTAAATAATTCAA
* ** *
10636511 TGACTTAAATGAAAAGTTTTAAATAATTTAA
1 TGACTTAAATAAAAAAATTTAAATAATTCAA
10636542 TGAC
1 TGAC
10636546 CAAATTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAAAATTTAAATAATTCAA
Found at i:10641143 original size:20 final size:21
Alignment explanation
Indices: 10641111--10641149 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10641101 CTAAAGCACC
10641111 TTAAAATTTAAAAAATTAAAA
1 TTAAAATTTAAAAAATTAAAA
*
10641132 TTAAAA-TTAAAATATTAA
1 TTAAAATTTAAAAAATTAA
10641150 TTTCAACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAAAATTTAAAAAATTAAAA
Found at i:10641845 original size:17 final size:17
Alignment explanation
Indices: 10641825--10641872 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
10641815 TTTTCAGTTG
10641825 TAATTAATTTAAAATTT
1 TAATTAATTTAAAATTT
10641842 TAATTAA-TT-AAA-TT
1 TAATTAATTTAAAATTT
* *
10641856 TATTTAATTAAAAATTT
1 TAATTAATTTAAAATTT
10641873 ATTCTCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.31
15 4 0.15
16 5 0.19
17 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAATTTAAAATTT
Found at i:10641870 original size:16 final size:16
Alignment explanation
Indices: 10641828--10641875 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
10641818 TCAGTTGTAA
* *
10641828 TTAATTTAAAATTTTAA
1 TTAA-TTAAAAATTTAT
10641845 TTAATT--AAATTTAT
1 TTAATTAAAAATTTAT
10641859 TTAATTAAAAATTTAT
1 TTAATTAAAAATTTAT
10641875 T
1 T
10641876 CTCATCTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.44
16 11 0.41
17 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTAAAAATTTAT
Found at i:10646171 original size:20 final size:20
Alignment explanation
Indices: 10646140--10646178 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10646130 ATAAATTCAT
10646140 TAAACACTTAATTAACTTAAA
1 TAAACACTTAATTAA-TTAAA
10646161 TAAAC-CTTAATTAATTAA
1 TAAACACTTAATTAATTAA
10646179 TATTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAACACTTAATTAATTAAA
Found at i:10658622 original size:32 final size:32
Alignment explanation
Indices: 10658586--10658653 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
10658576 TTTTTTTGAT
10658586 TTAATTTGGTATCTAAATTTGA-CATTTTTTTC
1 TTAATTTGGTATCTAAATTT-ATCATTTTTTTC
*
10658618 TTAATTTGGTATCTAAATTTATCATTTTTTTT
1 TTAATTTGGTATCTAAATTTATCATTTTTTTC
10658650 TTAA
1 TTAA
10658654 GTTGAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 1 0.03
32 33 0.97
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (32 bp):
TTAATTTGGTATCTAAATTTATCATTTTTTTC
Found at i:10658650 original size:36 final size:35
Alignment explanation
Indices: 10658573--10658651 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 35
10658563 GATAATTAAA
*
10658573 ATTTTTTTTTGATTTAATTTGGTATCTAAATTTGAC
1 ATTTTTTTTT-TTTTAATTTGGTATCTAAATTTGAC
*
10658609 A---TTTTTTTCTTAATTTGGTATCTAAATTT-ATC
1 ATTTTTTTTTTTTTAATTTGGTATCTAAATTTGA-C
10658641 ATTTTTTTTTT
1 ATTTTTTTTTT
10658652 AAGTTGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
31 1 0.03
32 22 0.59
33 6 0.16
35 7 0.19
36 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (35 bp):
ATTTTTTTTTTTTTAATTTGGTATCTAAATTTGAC
Found at i:10659113 original size:25 final size:26
Alignment explanation
Indices: 10659084--10659139 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10659074 TGTATATACA
10659084 AATATAAACTATC-AAA-ATTATATTT
1 AATATAAACT-TCAAAACATTATATTT
***
10659109 AATATTTCCTTCAAAACATTATATTT
1 AATATAAACTTCAAAACATTATATTT
10659135 AATAT
1 AATAT
10659140 TACATTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.08
25 10 0.38
26 14 0.54
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATAAACTTCAAAACATTATATTT
Found at i:10661698 original size:21 final size:22
Alignment explanation
Indices: 10661650--10661699 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
10661640 TGCTAGGGAT
*
10661650 AAGAGTATTGAAGTGCAAATAAC
1 AAGAGTATCGAAGTGCAAAT-AC
10661673 AAGAGTATCGAAGTGCAAAT-C
1 AAGAGTATCGAAGTGCAAATAC
10661694 AAGAGT
1 AAGAGT
10661700 CCCCATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.27
23 19 0.73
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (22 bp):
AAGAGTATCGAAGTGCAAATAC
Found at i:10661950 original size:37 final size:39
Alignment explanation
Indices: 10661887--10661969 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 39
10661877 AAAACTTATC
* *
10661887 TTTTTTAAAAGAAAAAAAATATTATTTCTAGGGTATCTA
1 TTTTTTAAAAGAAAAAAAATATTATTTATAAGGTATCTA
* *
10661926 TTTTTTAGAAAG-GAAAAAA-A-TATTTATAAGGTATTTA
1 TTTTTTA-AAAGAAAAAAAATATTATTTATAAGGTATCTA
10661963 TATTTTT
1 T-TTTTT
10661970 TCATTTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
37 15 0.39
38 6 0.16
39 13 0.34
40 4 0.11
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (39 bp):
TTTTTTAAAAGAAAAAAAATATTATTTATAAGGTATCTA
Found at i:10661988 original size:38 final size:39
Alignment explanation
Indices: 10661943--10662027 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 39
10661933 GAAAGGAAAA
10661943 AAATATTT-ATAAGGTATTTATAT-TTTTT-CATTTTGAT
1 AAATATTTGA-AAGGTATTTATATGTTTTTACATTTTGAT
* *
10661980 AAATTATTTGAAGGGTATTTATATGTTTTTACATTTTGGT
1 AAA-TATTTGAAAGGTATTTATATGTTTTTACATTTTGAT
10662020 AAATATTT
1 AAATATTT
10662028 TTTAGATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
37 3 0.07
38 17 0.40
39 11 0.26
40 11 0.26
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (39 bp):
AAATATTTGAAAGGTATTTATATGTTTTTACATTTTGAT
Found at i:10662848 original size:49 final size:49
Alignment explanation
Indices: 10662774--10662867 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
10662764 AAGTATAAGA
*
10662774 TAATAGAGTTATTTTGCGTAATTATCTAATAATTAAAG-GTCAGATAAAG
1 TAATAGAGTTATTTTACGTAATTATCTAATAATT-AAGTGTCAGATAAAG
* *
10662823 TAATGGAGTTATTTTACGTAGTTATCTAATAATTAAGTGTCAGAT
1 TAATAGAGTTATTTTACGTAATTATCTAATAATTAAGTGTCAGAT
10662868 TATCTAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.39
Consensus pattern (49 bp):
TAATAGAGTTATTTTACGTAATTATCTAATAATTAAGTGTCAGATAAAG
Found at i:10662889 original size:23 final size:23
Alignment explanation
Indices: 10662844--10662890 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10662834 TTTTACGTAG
****
10662844 TTATCTAATAATTAAGTGTCAGA
1 TTATCTAATAATTAAACACCAGA
10662867 TTATCTAATAATTAAACACCAGA
1 TTATCTAATAATTAAACACCAGA
10662890 T
1 T
10662891 AAGGTAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (23 bp):
TTATCTAATAATTAAACACCAGA
Found at i:10663943 original size:26 final size:24
Alignment explanation
Indices: 10663895--10663945 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
10663885 TTGTTATAGC
**
10663895 TTTTTATATTTAATATATTAATTA
1 TTTTTATATTTAATATAAAAATTA
10663919 TTTTTATATTTCATATATAAAAATTA
1 TTTTTATATTT-A-ATATAAAAATTA
10663945 T
1 T
10663946 ATTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTATATTTAATATAAAAATTA
Found at i:10670712 original size:57 final size:57
Alignment explanation
Indices: 10670604--10670714 Score: 172
Period size: 57 Copynumber: 1.9 Consensus size: 57
10670594 CTTCACTTCA
* *
10670604 AAATTTTACATAAAATCTAAAAAATGAAAGAAGTACAAAAAATTTTCAAAAAAAATT
1 AAATTTTACATAAAATCTAAAAAATGAAAAAAGTACAAAAAATATTCAAAAAAAATT
10670661 AAATTTTACATAAAATCTAAAAAAATGAAAAAAAGTACAAAAAA-ATT-AAAAAAA
1 AAATTTTACATAAAATCT-AAAAAATG-AAAAAAGTACAAAAAATATTCAAAAAAA
10670715 TTAGATAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
57 25 0.50
58 10 0.20
59 15 0.30
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (57 bp):
AAATTTTACATAAAATCTAAAAAATGAAAAAAGTACAAAAAATATTCAAAAAAAATT
Found at i:10672761 original size:27 final size:28
Alignment explanation
Indices: 10672723--10672781 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
10672713 TAAAATCGAA
10672723 TTAACCAGTCG-AACTGATCTAATTCGG
1 TTAACCAGTCGTAACTGATCTAATTCGG
* *
10672750 TTAATCAGTCGATTAACTGATCTAATTTGG
1 TTAACCAGTCG--TAACTGATCTAATTCGG
10672780 TT
1 TT
10672782 GGAGGTCGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
30 17 0.63
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (28 bp):
TTAACCAGTCGTAACTGATCTAATTCGG
Found at i:10680561 original size:18 final size:18
Alignment explanation
Indices: 10680522--10680562 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
10680512 AGTTATGTTT
*
10680522 TTTAAAAGCACTTTTAGC
1 TTTAAAAACACTTTTAGC
10680540 -TTAAAAACACTTTTAGC
1 TTTAAAAACACTTTTAGC
10680557 TTTAAA
1 TTTAAA
10680563 GTTGTGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (18 bp):
TTTAAAAACACTTTTAGC
Found at i:10680808 original size:30 final size:30
Alignment explanation
Indices: 10680774--10680847 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
10680764 TTATTTTCTT
10680774 TAATTCTTC-CAT-TATCTTGAAAGTTTTTGC
1 TAATTCTTCTC-TCTATCTT-AAAGTTTTTGC
* *
10680804 TAATTCTTCTCTCTCTCTTAAGGTTTTTGC
1 TAATTCTTCTCTCTATCTTAAAGTTTTTGC
10680834 TAATTCTTCTCTCT
1 TAATTCTTCTCTCT
10680848 CTACTCCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 34 0.85
31 6 0.15
ACGTcount: A:0.18, C:0.22, G:0.08, T:0.53
Consensus pattern (30 bp):
TAATTCTTCTCTCTATCTTAAAGTTTTTGC
Found at i:10681009 original size:19 final size:19
Alignment explanation
Indices: 10680968--10681011 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
10680958 TAACTATACT
10680968 TTTAAAAAACACTTTTAGC
1 TTTAAAAAACACTTTTAGC
*
10680987 -TTAAAAAACACTTTTGGC
1 TTTAAAAAACACTTTTAGC
10681005 TTTAAAA
1 TTTAAAA
10681012 CGATGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (19 bp):
TTTAAAAAACACTTTTAGC
Found at i:10681494 original size:16 final size:16
Alignment explanation
Indices: 10681452--10681494 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10681442 ACAAGCACCA
10681452 TTTGCTTAAAAAAATT
1 TTTGCTTAAAAAAATT
*
10681468 TCTT-CTTAAAAATATT
1 T-TTGCTTAAAAAAATT
*
10681484 TTTGCTCAAAA
1 TTTGCTTAAAA
10681495 TGGAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (16 bp):
TTTGCTTAAAAAAATT
Found at i:10681801 original size:27 final size:27
Alignment explanation
Indices: 10681763--10681825 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
10681753 GTATAAATGG
10681763 GTGGTGCCTACCTGACAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
10681790 GTGGTGCCTACCTGTCAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
10681817 ATGGTGCCT
1 GTGGTGCCT
10681826 TTCTATCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (27 bp):
GTGGTGCCTACCTGACAGGCGGCACCA
Found at i:10681840 original size:27 final size:27
Alignment explanation
Indices: 10681764--10681844 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
10681754 TATAAATGGG
* *
10681764 TGGTGCCTACCTGA-CAGGCGGCACCAG
1 TGGTGCCTACCT-ATCAAGCGGCACCAA
* *
10681791 TGGTGCCTACCTGTCAGGCGGCACCAA
1 TGGTGCCTACCTATCAAGCGGCACCAA
** *
10681818 TGGTGCCTTTCTATCAAGTGGCACCAA
1 TGGTGCCTACCTATCAAGCGGCACCAA
10681845 CTCGTATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (27 bp):
TGGTGCCTACCTATCAAGCGGCACCAA
Found at i:10681909 original size:15 final size:15
Alignment explanation
Indices: 10681866--10681910 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10681856 ATTACAAAAC
10681866 TAATACAAAAAAAATA
1 TAATAC-AAAAAAATA
* **
10681882 TTATACACCAAAATA
1 TAATACAAAAAAATA
10681897 TAATACAAAAAAAT
1 TAATACAAAAAAAT
10681911 TAGTAACTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (15 bp):
TAATACAAAAAAATA
Found at i:10682163 original size:5 final size:5
Alignment explanation
Indices: 10682144--10682182 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
10682134 TTATATATTT
*
10682144 TTAAA TTAAA -AAAA TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
10682183 ATTTGACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
TTAAA
Found at i:10682235 original size:27 final size:27
Alignment explanation
Indices: 10682194--10682251 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
10682184 TTTGACAAGA
10682194 GGTGCCTACTAGGTAGGCGGCACTAGT
1 GGTGCCTACTAGGTAGGCGGCACTAGT
*
10682221 GGTGCCTACTGGGTAGGCGGCACTAGT
1 GGTGCCTACTAGGTAGGCGGCACTAGT
10682248 GGTG
1 GGTG
10682252 TCTTTGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.41, T:0.22
Consensus pattern (27 bp):
GGTGCCTACTAGGTAGGCGGCACTAGT
Found at i:10682317 original size:25 final size:25
Alignment explanation
Indices: 10682289--10682363 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
10682279 CAGATCTGTT
10682289 TAACAGTAAATTTTTGAAGAAGGAA
1 TAACAGTAAATTTTTGAAGAAGGAA
10682314 TAACAGTAAATTTTTGAAGAAGGAA
1 TAACAGTAAATTTTTGAAGAAGGAA
10682339 TAACAGTAAATTTTTGAAGAAGGAA
1 TAACAGTAAATTTTTGAAGAAGGAA
10682364 AGGAAGCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (25 bp):
TAACAGTAAATTTTTGAAGAAGGAA
Found at i:10685256 original size:26 final size:26
Alignment explanation
Indices: 10685207--10685256 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10685197 TCTATTTAAA
**
10685207 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
10685233 TTTGAATTTATTTAATTAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
10685257 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:10685333 original size:6 final size:6
Alignment explanation
Indices: 10685322--10685368 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
10685312 ATATTTGCAT
10685322 ACATAA ACATAA ACATAA ACA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
10685369 TTTAATGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 1 0.03
6 37 0.95
7 1 0.03
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (6 bp):
ACATAA
Found at i:10685804 original size:6 final size:6
Alignment explanation
Indices: 10685795--10685819 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10685785 CTGCGACTGC
10685795 GGCTCA GGCTCA GGCTCA GGCTCA G
1 GGCTCA GGCTCA GGCTCA GGCTCA G
10685820 CCGGCTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (6 bp):
GGCTCA
Found at i:10687785 original size:13 final size:13
Alignment explanation
Indices: 10687769--10687796 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10687759 TAATTTTTCA
10687769 TTTTAAAAAATAT
1 TTTTAAAAAATAT
10687782 TTTTAAAAAATAT
1 TTTTAAAAAATAT
10687795 TT
1 TT
10687797 AATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:10687825 original size:18 final size:17
Alignment explanation
Indices: 10687792--10687835 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
10687782 TTTTAAAAAA
10687792 TATTT-AATATATAAAT
1 TATTTAAATATATAAAT
10687808 TATTTAAATATATCAAAT
1 TATTTAAATATAT-AAAT
* *
10687826 GAATTAAATA
1 TATTTAAATA
10687836 AAATAATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TATTTAAATATATAAAT
Found at i:10689210 original size:2 final size:2
Alignment explanation
Indices: 10689203--10689233 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10689193 TCAAGTTTTA
10689203 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10689234 TAATCACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10692466 original size:13 final size:13
Alignment explanation
Indices: 10692448--10692472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10692438 TTCAGGTTAA
10692448 ACTATTTTTTATT
1 ACTATTTTTTATT
10692461 ACTATTTTTTAT
1 ACTATTTTTTAT
10692473 GTTAGGCTTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
ACTATTTTTTATT
Found at i:10694574 original size:421 final size:418
Alignment explanation
Indices: 10693520--10694592 Score: 1068
Period size: 423 Copynumber: 2.6 Consensus size: 418
10693510 TAGCTTCTTG
* * * * * *
10693520 CTTTTGACTACTAATTTACTTTTTCATCTTCAA-TTTTCTTCTCCCAAACATATTGTATGCTTCC
1 CTTTTGACTATTAATTTATTTTTTCATCTTCAATTTTTCTTCTCCAAAACATATAGTATACTTTC
*
10693584 AATTTC-TTTTTATTTTCTCTTTTAAAGCTGGTTCTCCTTCTCTTTTATTCTT-TTT-ATTCTTC
66 AATTTCTTTTTTATTTTCTCTTTCAAAGCTGGTTCTCCTTCTCTTTTATT-TTCTTTGATTCTTC
* * * *
10693646 AATTTTCTTCAAGGTTTTTG---TTGCTCTCTTTCTTTGTACTCCCTTAATCTTATCTTCTCATT
130 CATTTTCTTCAAGGTTTTTGTTCTTTCTCTCTTTCTTTCTACTCCCTTAATCTCATCTTCTCATT
* * * * * * *
10693708 TCAACTT-CCCATTTAATATTTTT-GTTTTTTGC-CCAATTCAAGTTAAACTATTTTTAGTTGTT
195 TTAA-TTCCCCATTT-ATTTTTTTCGTTTTTT-CTCCATTTCAGGATAAACTATTATTAGTTATT
* * * * * ** * * * *
10693770 ACTTTTTGTATTAGGGTTTGTCTAGTTATGTTTTTGAAAAGCACTTTTGGCTTTAAAGTTGTGCT
257 ACTTCTTGTACTAAGCTCTGTCTAACTATGCTTTTGAAAAGCACTTTTGACTTTAAAATTGTACT
* * *
10693835 AAACAAACATCATTTGCTAGAAAATTTTACATTATGAAAAGTACTTTTTGCTCAAATAAAAAAGT
322 AAACAAACATCATTTGCTAGAAAATTTTACATTATGAAAAGAACCTTTTACTCAAATAAAAAAGT
** * **
10693900 TAAAAAAGTTTAGTTTTTTTTAGTCAAAAGTA
387 TAAAAAAGTTTAACTTTTTTGAGTCAAAAACA
* * * **
10693932 CTTTTGACTGTTATTTTATTTTTTAATCTTCAATTTTT-TTCTCCCAAAACACT-CGGTATACTT
1 CTTTTGACTATTAATTTATTTTTTCATCTTCAATTTTTCTTCT-CCAAAACA-TATAGTATACTT
* * *
10693995 TCAATTTCTTTTTCATTTTTTCTTTCAAAACTGGTTCTCCTTCTCTTTTATTTTCTTTGATTCTT
64 TCAATTTCTTTTTTATTTTCTCTTTCAAAGCTGGTTCTCCTTCTCTTTTATTTTCTTTGATTCTT
* * * *
10694060 TCATTTTCTTCGAGGTGTTTGCTGTTGCTGTTGCTCTCTCTCTTTCTACTCTCTTAATCTCATCT
129 CCATTTTCTTCAAGGT-TTT--TGTT-CT-TT-CTCTCTTTCTTTCTACTCCCTTAATCTCATCT
* * * * ** *
10694125 TCTC-GTTTAACTCTCCATTTAATTTTTTCGTTTTTTCTCCATTTCAGGATATGCTATTATTGGT
188 TCTCATTTTAATTCCCCATTTATTTTTTTCGTTTTTTCTCCATTTCAGGATAAACTATTATTAGT
* * * *
10694189 TATTGCTTCTTGTGCTAAGCTCTGTTTAACTGTGCTTTTGAAAAGCACTTTTGACTTTAAAATTG
253 TATTACTTCTTGTACTAAGCTCTGTCTAACTATGCTTTTGAAAAGCACTTTTGACTTTAAAATTG
* * * * * * * * * *
10694254 TATTAAATAAATATCATTTGCTTGAAAATTTT-TATTTTTAAAA-AACACTTTTACTTAGAT-GA
318 TACTAAACAAACATCATTTGCTAGAAAATTTTACATTATGAAAAGAAC-CTTTTACTCAAATAAA
10694316 AAAGTTAAAAAA-TTTAACTTTTTTGAGTCAAAAACA
382 AAAGTTAAAAAAGTTTAACTTTTTTGAGTCAAAAACA
* * * *
10694352 TTTTTG-CTTATTAATTTATTTTTTCATCTTCAATTTTTCTTTTCCTAAAACATATAATATATTT
1 CTTTTGAC-TATTAATTTATTTTTTCATCTTCAATTTTTCTTCTCC-AAAACATATAGTATACTT
* * *
10694416 TCAAATTCTTTTTTATTTTCTCTTTCAAAGCTGGTTCTCCTTCTATTTTATTTTCTTTGTTTCTT
64 TCAATTTCTTTTTTATTTTCTCTTTCAAAGCTGGTTCTCCTTCTCTTTTATTTTCTTTGATTCTT
* * * * * *
10694481 CCATTTTCTTAAAAGTTTTTGTTATCTCTCTCTCTCTTTCTTTTTATTCCCTTAATCACATCCTC
129 CCATTTTCTTCAAGGTTTTTG-T-TCT-T-TCTCTCTTTCTTTCTACTCCCTTAATCTCATCTTC
* *
10694546 TCATTTTAATTCCCCATTTATTTTTTTTC-ATTTTTCTCTATTTCAGG
190 TCATTTTAATTCCCCATTTA-TTTTTTTCGTTTTTTCTCCATTTCAGG
10694593 TTAAGTTAAT
Statistics
Matches: 532, Mismatches: 101, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
412 32 0.06
413 27 0.05
414 43 0.08
415 19 0.04
416 3 0.01
418 4 0.01
419 35 0.07
420 89 0.17
421 108 0.20
422 26 0.05
423 114 0.21
424 32 0.06
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.51
Consensus pattern (418 bp):
CTTTTGACTATTAATTTATTTTTTCATCTTCAATTTTTCTTCTCCAAAACATATAGTATACTTTC
AATTTCTTTTTTATTTTCTCTTTCAAAGCTGGTTCTCCTTCTCTTTTATTTTCTTTGATTCTTCC
ATTTTCTTCAAGGTTTTTGTTCTTTCTCTCTTTCTTTCTACTCCCTTAATCTCATCTTCTCATTT
TAATTCCCCATTTATTTTTTTCGTTTTTTCTCCATTTCAGGATAAACTATTATTAGTTATTACTT
CTTGTACTAAGCTCTGTCTAACTATGCTTTTGAAAAGCACTTTTGACTTTAAAATTGTACTAAAC
AAACATCATTTGCTAGAAAATTTTACATTATGAAAAGAACCTTTTACTCAAATAAAAAAGTTAAA
AAAGTTTAACTTTTTTGAGTCAAAAACA
Found at i:10699533 original size:29 final size:28
Alignment explanation
Indices: 10699495--10699549 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
10699485 AACTTTAAAA
* *
10699495 TATTTAATTAAATTATCACAATATTATT
1 TATTTAATTAAATTAACAAAATATTATT
*
10699523 TATTCTAATTAAGTTAACAAAATATTA
1 TATT-TAATTAAATTAACAAAATATTA
10699550 GTGTAATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (28 bp):
TATTTAATTAAATTAACAAAATATTATT
Found at i:10710280 original size:26 final size:26
Alignment explanation
Indices: 10710244--10710301 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
10710234 GCTGGGAACT
10710244 GATATTTTTGGATCAGAAAAGTAAGA
1 GATATTTTTGGATCAGAAAAGTAAGA
10710270 GATATTTTTGGATCAGAAAAGTAAGA
1 GATATTTTTGGATCAGAAAAGTAAGA
10710296 GATATT
1 GATATT
10710302 CTTGAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (26 bp):
GATATTTTTGGATCAGAAAAGTAAGA
Found at i:10712940 original size:85 final size:84
Alignment explanation
Indices: 10712766--10712940 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 84
10712756 ACTATCTGTT
* *
10712766 TTATTTTTGGATTAATTTCATCATATTTCCTTAAACTATGACCCAAATTTTAGATTGATCCCAAA
1 TTATTTTTGGATTAATTTCATCATATATCCTTAAACTATGACCCAAATTTTAGATTCATCCCAAA
*** **
10712831 CTTCCGCATTTTACTATATT
66 CTTCAAAATTTTAC-ATAAG
* * *
10712851 TTATTTTTGGATTAATTTCATCA-ATATCCTTAAACTATTACCCCAATTTTAGATTCATCTCAAA
1 TTATTTTTGGATTAATTTCATCATATATCCTTAAACTATGACCCAAATTTTAGATTCATCCCAAA
*
10712915 TTTCAAAATGTATTA-ATCAAG
66 CTTCAAAAT-T-TTACAT-AAG
10712936 TTATT
1 TTATT
10712941 CCGTCAATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
84 43 0.57
85 30 0.39
86 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (84 bp):
TTATTTTTGGATTAATTTCATCATATATCCTTAAACTATGACCCAAATTTTAGATTCATCCCAAA
CTTCAAAATTTTACATAAG
Found at i:10714238 original size:23 final size:26
Alignment explanation
Indices: 10714211--10714272 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 26
10714201 TTATTTAAAC
10714211 AAATATTCATA-TTTATA-TAA-TTA
1 AAATATTCATATTTTATACTAAGTTA
10714234 AAATATTCATATTTTTATACTAAGTTA
1 AAATATTCATA-TTTTATACTAAGTTA
10714261 AAATATGTCATA
1 AAATAT-TCATA
10714273 AGTTAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.32
25 6 0.18
26 3 0.09
27 9 0.26
28 5 0.15
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (26 bp):
AAATATTCATATTTTATACTAAGTTA
Found at i:10728600 original size:17 final size:18
Alignment explanation
Indices: 10728578--10728612 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10728568 TCTAACTTCA
10728578 AGCATATA-AATCCAGCC
1 AGCATATACAATCCAGCC
*
10728595 AGCATATACATTCCAGCC
1 AGCATATACAATCCAGCC
10728613 TCCCTCCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (18 bp):
AGCATATACAATCCAGCC
Found at i:10737027 original size:31 final size:30
Alignment explanation
Indices: 10736979--10737088 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 30
10736969 CTTTTGACTC
* *
10736979 AATTTGGTACATGAGCTTGACATTTTTTCCT
1 AATTTGGTACCTAAGCTTG-CATTTTTTCCT
* *
10737010 AATTTGGTACCTAAGCTT---TTTTTGGACCC
1 AATTTGGTACCTAAGCTTGCATTTTT--TCCT
*
10737039 AATTTGGTACTTGAA-CTTGGCATTTTTTTCCT
1 AATTTGGTACCT-AAGCTT-GCA-TTTTTTCCT
*
10737071 AATTTAGTACCTAAGCTT
1 AATTTGGTACCTAAGCTT
10737089 TTTTTTAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
27 5 0.08
29 16 0.26
30 2 0.03
31 18 0.30
32 15 0.25
34 5 0.08
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (30 bp):
AATTTGGTACCTAAGCTTGCATTTTTTCCT
Found at i:10737042 original size:60 final size:60
Alignment explanation
Indices: 10736922--10737093 Score: 222
Period size: 60 Copynumber: 2.9 Consensus size: 60
10736912 GCATTGTTTT
** * * * *
10736922 TTTGGTACCGGAACTTGACATTTTTT-CTAATTTGATACCTAA-TTTTTCTTTTGACTCAA
1 TTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTACCTAAGCTTTT-TTTGGACCCAA
*
10736981 TTTGGTACATGAGCTTGACATTTTTTCCTAATTTGGTACCTAAGCTTTTTTTGGACCCAA
1 TTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTACCTAAGCTTTTTTTGGACCCAA
* * *
10737041 TTTGGTACTTGAACTTGGCATTTTTTTCCTAATTTAGTACCTAAGCTTTTTTT
1 TTTGGTACATGAACTTGACA-TTTTTTCCTAATTTGGTACCTAAGCTTTTTTT
10737094 TAAGATTCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
59 23 0.23
60 41 0.41
61 35 0.35
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.48
Consensus pattern (60 bp):
TTTGGTACATGAACTTGACATTTTTTCCTAATTTGGTACCTAAGCTTTTTTTGGACCCAA
Found at i:10737380 original size:30 final size:30
Alignment explanation
Indices: 10737344--10737403 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
10737334 TAAAAGAAAG
* *
10737344 TGTCAAGTTTAGGTACCAAATTAGGA-AAAA
1 TGTCAAGCTTAAGTACCAAATT-GGACAAAA
10737374 TGTCAAGCTTAAGTACCAAATTGGACAAAA
1 TGTCAAGCTTAAGTACCAAATTGGACAAAA
10737404 AAAACTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (30 bp):
TGTCAAGCTTAAGTACCAAATTGGACAAAA
Found at i:10738320 original size:23 final size:22
Alignment explanation
Indices: 10738286--10738346 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
10738276 GTTGACATTA
*
10738286 AATATTTCAAAATTAACAAAGAT
1 AATATTT-AAAATTAAAAAAGAT
*
10738309 AATATTGTAAAA-TAAAAAAGTT
1 AATATT-TAAAATTAAAAAAGAT
*
10738331 CATAATTTAAAATTAA
1 AAT-ATTTAAAATTAA
10738347 TATTTATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 15 0.47
23 16 0.50
24 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
AATATTTAAAATTAAAAAAGAT
Found at i:10739975 original size:17 final size:18
Alignment explanation
Indices: 10739944--10739978 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10739934 ACTGAGACTT
10739944 TTAATATTAAATTTACAA
1 TTAATATTAAATTTACAA
*
10739962 TTAAT-TTAACTTTACAA
1 TTAATATTAAATTTACAA
10739979 AAAATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATATTAAATTTACAA
Found at i:10740729 original size:13 final size:13
Alignment explanation
Indices: 10740679--10740731 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
10740669 CTTTAACTAA
*
10740679 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
**
10740692 ACTTTTTCACCA-C
1 AC-TTTTCAAAAGC
*
10740705 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
10740718 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
10740731 A
1 A
10740732 ATACTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 6 0.19
13 19 0.59
14 7 0.22
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:10752751 original size:13 final size:12
Alignment explanation
Indices: 10752722--10752779 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
10752712 CATTTTCTAA
* *
10752722 ATATATATTAAT
1 ATATTTATTATT
10752734 ATATTTATTTATT
1 ATATTTA-TTATT
10752747 ATA-TTATTATT
1 ATATTTATTATT
*
10752758 GTCATTTATTATT
1 AT-ATTTATTATT
*
10752771 TTATTTATT
1 ATATTTATT
10752780 TCGAAACGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 6 0.15
12 17 0.44
13 16 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:10753727 original size:30 final size:29
Alignment explanation
Indices: 10753694--10753883 Score: 199
Period size: 30 Copynumber: 6.4 Consensus size: 29
10753684 ATTTTTGTTA
*
10753694 AAAATTATATTTTGACCCCTAAACTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTCC
*
10753723 AAAAATTACA-TTTGACCCCTAAACTATTTC
1 -AAAATTACATTTTGACCCCTAAACT-TTCC
* *
10753753 AAAATTACA-TTTAACCCCTAAACTTTTAC
1 AAAATTACATTTTGACCCCTAAAC-TTTCC
*
10753782 AAAATTACATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAAC-TTTCC
* *
10753812 AAAATTGA-ATTTTGACCCTTAAACTTTTCT
1 AAAATT-ACATTTTGACCCCTAAAC-TTTCC
* * *
10753842 AAAATTATATGTT-AACCCTAAAACTTTCC
1 AAAATTACATTTTGACCCCT-AAACTTTCC
10753871 AAAATTACATTTT
1 AAAATTACATTTT
10753884 TACTCAAAAA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
29 69 0.49
30 70 0.50
31 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAAACTTTCC
Found at i:10753798 original size:59 final size:59
Alignment explanation
Indices: 10753694--10753883 Score: 210
Period size: 59 Copynumber: 3.2 Consensus size: 59
10753684 ATTTTTGTTA
* *
10753694 AAAATTATATTTTGACCCCTAAACTTTCCAAAAATTACA-TTTGACCCCTAAACTATTTC
1 AAAATTACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTGACCCCTAAACT-TTTC
* *
10753753 AAAATTACA-TTTAACCCCTAAACTTTT-ACAAAATTACATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTTCA-AAAATTACATTTTGACCCCTAAACTTTT-C
* * * * * *
10753812 AAAATTGA-ATTTTGACCCTTAAACTTTTCTAAAATTATATGTT-AACCCTAAAACTTTCC
1 AAAATT-ACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTGACCCCT-AAACTTTTC
10753871 AAAATTACATTTT
1 AAAATTACATTTT
10753884 TACTCAAAAA
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
57 1 0.01
58 29 0.26
59 46 0.41
60 35 0.32
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (59 bp):
AAAATTACATTTTGACCCCTAAACTTTTCAAAAATTACATTTTGACCCCTAAACTTTTC
Found at i:10764013 original size:3 final size:3
Alignment explanation
Indices: 10764005--10764031 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10763995 TTATGATATT
10764005 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
10764032 ATGGATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10765357 original size:42 final size:40
Alignment explanation
Indices: 10765292--10765370 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 40
10765282 ATATTTCGCC
* *
10765292 TAAAGAAAAAAGATCGAGATGAAAACCCGTAAAGGGCGTT
1 TAAAAAAAAAAGATCAAGATGAAAACCCGTAAAGGGCGTT
10765332 TAAAAAAAAAAGAGGTCAAGATGAAAACCCGTAAAGGGC
1 TAAAAAAAAAAGA--TCAAGATGAAAACCCGTAAAGGGC
10765371 TTCTTGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 12 0.34
42 23 0.66
ACGTcount: A:0.51, C:0.13, G:0.24, T:0.13
Consensus pattern (40 bp):
TAAAAAAAAAAGATCAAGATGAAAACCCGTAAAGGGCGTT
Found at i:10766533 original size:85 final size:85
Alignment explanation
Indices: 10766406--10766572 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
10766396 CAAACCCTAT
* *
10766406 CTTTCTGATGAGATACAAAGAAATGGGTCAAAGCAATAAAGCGGCCATCTTCCTGATGAGATACA
1 CTTTCTGATGAGAGACAAAGAAATGGATCAAAGCAATAAAGCGGCCATCTTCCTGATGAGATACA
*
10766471 AAGAAGTGGACCAAATCCGC
66 AAGAAGTAGACCAAATCCGC
* * * * * * *
10766491 CTTTCTGATGAGAGATAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
1 CTTTCTGATGAGAGACAAAGAAATGGATCAAAGCAATAAAGCGGCCATCTTCCTGATGAGATACA
*
10766556 GAGAAGTAGACCAAATC
66 AAGAAGTAGACCAAATC
10766573 AACGAAGTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (85 bp):
CTTTCTGATGAGAGACAAAGAAATGGATCAAAGCAATAAAGCGGCCATCTTCCTGATGAGATACA
AAGAAGTAGACCAAATCCGC
Found at i:10766686 original size:48 final size:45
Alignment explanation
Indices: 10766610--10766770 Score: 140
Period size: 48 Copynumber: 3.6 Consensus size: 45
10766600 ACTTCAAACC
*
10766610 TCATCTTCCTGATGAGATACAGATAAGTGGGTCAAAGCAATAAAGTAG
1 TCATCTTCCTGATGAGATACAGAGAAGTGGGT-AAA-CAATAAAGT-G
* *
10766658 TCATCTTCTTGATGAGATACAGAGAAGT-GG---AC--CAAA-T-
1 TCATCTTCCTGATGAGATACAGAGAAGTGGGTAAACAATAAAGTG
** * *
10766695 TCGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATAAAGCG
1 TCATCTTCCTGATGAGATACAGAGAAGTGG-GTAAA-CAATAAAGTG
*
10766742 ATCATCTTCTTGATGAGATACAGAGAAGT
1 -TCATCTTCCTGATGAGATACAGAGAAGT
10766771 AGACCGAAGT
Statistics
Matches: 90, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
37 25 0.28
38 1 0.01
39 1 0.01
40 3 0.03
42 2 0.02
43 2 0.02
45 3 0.03
47 2 0.02
48 51 0.57
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (45 bp):
TCATCTTCCTGATGAGATACAGAGAAGTGGGTAAACAATAAAGTG
Found at i:10766690 original size:208 final size:208
Alignment explanation
Indices: 10766325--10766908 Score: 864
Period size: 208 Copynumber: 2.8 Consensus size: 208
10766315 AACATCAAAA
* * * * * *
10766325 GGTCATTTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAATCTCAATACAAATG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAAGAAGTGAAGCTCAATACGAATG
* * * * *
10766390 AGATTTCAAACCCTATCTTTCTGATGAGATACAAAGAAATGGGTCAAAGCAATAAAGCGGCCATC
66 AGACTTCAAACCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
* * *
10766455 TTCCTGATGAGATACAAAGAAGTGGACCAAATCCGCCTTTCTGATGAGAGATAGAGAAGTGGATT
131 TTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGAGACAGAGAAGTGGATT
*
10766520 AAATCAATGAAGC
196 AAATCAATAAAGC
*
10766533 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGTGAAGCTCAATACGAATG
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAAGAAGTGAAGCTCAATACGAATG
* **
10766598 AGACTTCAAA-CCTCATCTTCCTGATGAGATACAGATAAGTGGGTCAAAGCAATAAAGTAGTCAT
66 AGACTTCAAACCCT-ATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCAT
* * *
10766662 CTTCTTGATGAGATACAGAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTGGAT
130 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGAGACAGAGAAGTGGAT
10766727 TAAATCAATAAAGC
195 TAAATCAATAAAGC
* * *
10766741 GATCATCTTCTTGATGAGATACAGAGAAGTAGACCGAAGTAACAAAGTAAAGTGAAGCTCAATAC
1 GGTCATCTTCCTGATGAGATACAGAGAAGTAGACC-AA--ATCAAAG--AAGTGAAGCTCAATAC
*
10766806 GAATGAGACTTCAAACCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGG
61 GAATGAGACTTCAAACCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGG
*
10766871 TCATCTTCCTGATGAGATAAAGAGAAGTGGACCAAATC
126 TCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
10766909 AATGAAACAA
Statistics
Matches: 337, Mismatches: 32, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
207 3 0.01
208 216 0.64
209 2 0.01
211 5 0.01
213 108 0.32
214 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (208 bp):
GGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAAGAAGTGAAGCTCAATACGAATG
AGACTTCAAACCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATC
TTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGAGACAGAGAAGTGGATT
AAATCAATAAAGC
Found at i:10766757 original size:85 final size:85
Alignment explanation
Indices: 10766614--10766775 Score: 254
Period size: 85 Copynumber: 1.9 Consensus size: 85
10766604 CAAACCTCAT
* * *
10766614 CTTCCTGATGAGATACAGATAAGTGGGTCAAAGCAATAAAGTAGTCATCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGGAGTCATCTTCTTGATGAGATACA
*
10766679 GAGAAGTGGACCAAATTCGC
66 GAGAAGTAGACCAAATTCGC
* *
10766699 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATAAAGCGA-TCATCTTCTTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAG-GAGTCATCTTCTTGATGAGATAC
10766763 AGAGAAGTAGACC
65 AGAGAAGTAGACC
10766776 GAAGTAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
85 69 0.99
86 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGGAGTCATCTTCTTGATGAGATACA
GAGAAGTAGACCAAATTCGC
Found at i:10766896 original size:48 final size:48
Alignment explanation
Indices: 10766825--10766962 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
10766815 TTCAAACCCT
* ** **
10766825 ATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAAT-AAAGCGGTC
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAGCAATGAAA-CAATC
* *
10766873 ATCTTCCTGATGAGATAAAGAGAAGTGGACCAAATCAATGAAACAATC
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAGCAATGAAACAATC
* * *
10766921 ATCTTCCTAATGAGATACAGAGAAGTAGACCAAATCAATGAA
1 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAGCAATGAA
10766963 GCTAAGTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 76 0.96
49 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (48 bp):
ATCTTCCTGATGAGATACAGAGAAGTGGACCAAAGCAATGAAACAATC
Found at i:10770274 original size:195 final size:194
Alignment explanation
Indices: 10769888--10770325 Score: 483
Period size: 195 Copynumber: 2.2 Consensus size: 194
10769878 CGATGTCTAG
* * * *
10769888 GGTACTGCATATGTTACGAGTCCTCGACAACTCGTGTGAGCAGCATCGTGAGTCAGGAAATGAGA
1 GGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAGGAAATGAGA
* ** * *
10769953 AAAGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGAGATTTATGCATAAGCGTATATTCTC
66 AAAGAATCCAAGAATGGATTACAAGCCCTACGATGACTGAGATCTATGCATAAGCG-ATACTCTC
* * *
10770018 GACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTATTTGCACATATACAATATCGATGGCTGA
130 GACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTATTAGCACAAATACAATACCGATGGCTGA
* *
10770083 GGTACCGCATATGTTGCTAGTCCTCGACAGCTCGTGTGAGCAGCATTGTGACT-AGGGAAA-GAG
1 GGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCA-GGAAATGAG
* * * * * * *
10770146 ATATGGATCCTA-AATGGATTATAAGCCCTACGATGACTGAGA-CTATGCTTTATGC-ATACTCT
65 AAAAGAATCCAAGAATGGATTACAAGCCCTACGATGACTGAGATCTATGC-ATAAGCGATACTCT
* * * *
10770208 TGACAGCTTGTGTGAGCAGCATCGTTAGGGAACAGTT-TATAGTACAAATAGGCACTGTACCGAT
129 CGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTAT-TAGCACAAATA--CA--ATACCGAT
*
10770272 GGCTGT
189 GGCTGA
** * * *
10770278 GGTACCGCATACATTGCGAGTCCTCGATAGCTCATGTAAGCAGCATCG
1 GGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
10770326 AGTATTGGTA
Statistics
Matches: 203, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
190 1 0.00
191 49 0.24
192 5 0.02
193 32 0.16
194 12 0.06
195 104 0.51
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (194 bp):
GGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCAGGAAATGAGA
AAAGAATCCAAGAATGGATTACAAGCCCTACGATGACTGAGATCTATGCATAAGCGATACTCTCG
ACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTATTAGCACAAATACAATACCGATGGCTGA
Found at i:10771129 original size:21 final size:21
Alignment explanation
Indices: 10771078--10771129 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
10771068 AGAGTTTTTA
10771078 GTATCGGTAGAAGTATGACAT
1 GTATCGGTAGAAGTATGACAT
* * * *
10771099 GTTTCAGTAGAGGTCAT-ACTT
1 GTATCGGTAGAAGT-ATGACAT
10771120 GTATCGGTAG
1 GTATCGGTAG
10771130 TATTGTCCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTATGACAT
Found at i:10772640 original size:29 final size:29
Alignment explanation
Indices: 10772569--10772699 Score: 124
Period size: 30 Copynumber: 4.5 Consensus size: 29
10772559 GTTTTTATTA
* * * *
10772569 AAAAATTATATTTTAACCCTTAAAATTTTT
1 AAAAATTACATTTTGACCCCT-AAACTTTT
*
10772599 AAAAATTATATTTTGACCCC-AAACTTTT
1 AAAAATTACATTTTGACCCCTAAACTTTT
* *
10772627 ATAAAATTACATTTTAACCCCTAATCTTTT
1 A-AAAATTACATTTTGACCCCTAAACTTTT
* *
10772657 CCAAAATTACATTTTG-CCCCTAAATTTTT
1 -AAAAATTACATTTTGACCCCTAAACTTTT
10772686 AAAAACTT-CATTTT
1 AAAAA-TTACATTTT
10772700 TAACCCCATT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
28 18 0.21
29 30 0.35
30 38 0.44
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCCTAAACTTTT
Found at i:10772663 original size:59 final size:58
Alignment explanation
Indices: 10772569--10772706 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 58
10772559 GTTTTTATTA
* * * *
10772569 AAAAATTATATTTTAACCCTTAAAATTTTTAAAAATTATATTTTGACCCC-AAACTTTT
1 AAAAATTACATTTTAACCCCTAAAATTTTCAAAAATTACATTTTG-CCCCTAAACTTTT
** * *
10772627 ATAAAATTACATTTTAACCCCTAATCTTTTCCAAAATTACATTTTGCCCCTAAATTTTT
1 A-AAAATTACATTTTAACCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAACTTTT
10772686 AAAAACTT-CATTTTTAACCCC
1 AAAAA-TTACA-TTTTAACCCC
10772707 ATTTTTTGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 11 0.16
59 57 0.84
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (58 bp):
AAAAATTACATTTTAACCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAACTTTT
Done.