Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 119 of 143
Found at i:35796232 original size:14 final size:14
Alignment explanation
Indices: 35796213--35796240 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35796203 CTTAAATTTA
35796213 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
35796227 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
35796241 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:35796645 original size:52 final size:50
Alignment explanation
Indices: 35796578--35796794 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 50
35796568 TAAAGACTTG
35796578 TTATCCAACTTTACTTCAATTTCAAGAGGATAGAAAAAGATGTTTGATGCT
1 TTATCCAACTTTACTTCAATTTCAAGAGGATAGAAAAAGAT-TTTGATGCT
* * *
35796629 TTATCTAACTCTTACTTCAATTTC-AGA-G--AGATAAAGA--CT--TGC-
1 TTATCCAACT-TTACTTCAATTTCAAGAGGATAGAAAAAGATTTTGATGCT
* *
35796671 -TATCCAACTTTACTTCAATTTCAAGATGATAGAAAATGATATTTGATGCT
1 TTATCCAACTTTACTTCAATTTCAAGAGGATAGAAAAAGAT-TTTGATGCT
* * * *
35796721 TTATCTAGCTCTTACTTCAATTTC-AGA-G--AGATAAAGA--CT--TGC-
1 TTATCCAACT-TTACTTCAATTTCAAGAGGATAGAAAAAGATTTTGATGCT
35796763 -TATCCAACTTTACTTCAATTTCAAGAGGATAG
1 TTATCCAACTTTACTTCAATTTCAAGAGGATAG
35796795 GAAATGATGT
Statistics
Matches: 135, Mismatches: 14, Indels: 41
0.71 0.07 0.22
Matches are distributed among these distances:
40 26 0.19
41 21 0.16
42 2 0.01
43 6 0.04
44 9 0.07
45 2 0.01
47 1 0.01
48 15 0.11
49 3 0.02
50 2 0.01
51 22 0.16
52 26 0.19
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (50 bp):
TTATCCAACTTTACTTCAATTTCAAGAGGATAGAAAAAGATTTTGATGCT
Found at i:35796695 original size:92 final size:92
Alignment explanation
Indices: 35796534--35796891 Score: 551
Period size: 92 Copynumber: 3.9 Consensus size: 92
35796524 TGATGTCGAG
* * *
35796534 GCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
35796599 TCAAGAGGATAGAAAAAGATGTTTGAT
66 TCAAGAGGATAGAAAAAGATGTTTGAT
*
35796626 GCTTTATCTAACTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
* * *
35796691 TCAAGATGATAGAAAATGATATTTGAT
66 TCAAGAGGATAGAAAAAGATGTTTGAT
35796718 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
* *
35796783 TCAAGAGGATAGGAAATGATG-TT--T
66 TCAAGAGGATAGAAAAAGATGTTTGAT
* * * * * *
35796807 GCTCTGTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTATTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
*
35796872 TCAAGAGGATAGGAAAAGAT
66 TCAAGAGGATAGAAAAAGAT
35796892 CTTGCTCTTA
Statistics
Matches: 248, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
89 79 0.32
91 2 0.01
92 167 0.67
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (92 bp):
GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
TCAAGAGGATAGAAAAAGATGTTTGAT
Found at i:35796945 original size:76 final size:76
Alignment explanation
Indices: 35796813--35797578 Score: 1271
Period size: 76 Copynumber: 10.1 Consensus size: 76
35796803 GTTTGCTCTG
*
35796813 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTATTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
*
35796878 GGATAGGAAAAGA
64 GGATAGGAAATGA
*
35796891 TCTTGCTCTTACTTCAATTTTAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35796956 ATAGGAAATGA
66 ATAGGAAATGA
* * * *
35796967 TCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797032 ATAGGAAATGA
66 ATAGGAAATGA
*
35797043 TCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797108 ATAGGAAATGA
66 ATAGGAAATGA
* * * *
35797119 CCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797184 ATAGGAAATGA
66 ATAGGAAATGA
* * *
35797195 TCTTGCTCTTATTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCCATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797260 ATAGGAAATGA
66 ATAGGAAATGA
* * * *
35797271 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797336 ATAGGAAATGA
66 ATAGGAAATGA
*
35797347 TCTTGCTCTTACTTCAATTTCAGAGATACAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797412 ATAGGAAATGA
66 ATAGGAAATGA
* * * * * *
35797423 TCTTGTTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTAAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797488 ATAGGAAATGA
66 ATAGGAAATGA
*
35797499 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
35797564 ATAGGAAATGA
66 ATAGGAAATGA
35797575 TCTT
1 TCTT
35797579 TGATTCATCA
Statistics
Matches: 637, Mismatches: 51, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
76 617 0.97
78 20 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
ATAGGAAATGA
Found at i:35809336 original size:59 final size:59
Alignment explanation
Indices: 35809199--35809625 Score: 574
Period size: 59 Copynumber: 7.3 Consensus size: 59
35809189 TACCCGGGGC
* * * * **
35809199 AAATGGTAATTTTAGTTGAAATTG-GGTTAAAAATGGGATTTT-TAGAAGTTCGGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGA-AAGTTTAGGGGTA
* *
35809257 AAATGGTAATTTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTGGAAAGTTCAGGGGTA
1 AAATGGTAA-TTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
* * * * *
35809317 AAATGGTATTTTTTGGTGAAATCGGGGTT-GAAATGGGATTTTGGGAAGTTTGGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
* * * *
35809375 AAATGGTAATTTTTGGTAAAATTGAGGTT-AAAATGGGATTTTAGAAAGTCTAGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
* * *
35809433 AAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGCGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
* * * *
35809492 AAATTGTAATTTTTGGTAAAATCGAGGTTAAAAATAGGATTTTGGAAAGTTTGGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
* *
35809551 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAATTTTAGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
35809610 AAATGGTAATTTTTGG
1 AAATGGTAATTTTTGG
35809626 ACAGTCTAGG
Statistics
Matches: 326, Mismatches: 39, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
58 110 0.34
59 178 0.55
60 37 0.11
61 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (59 bp):
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTA
Found at i:35809351 original size:30 final size:30
Alignment explanation
Indices: 35809248--35809593 Score: 124
Period size: 30 Copynumber: 11.7 Consensus size: 30
35809238 TTTTAGAAGT
* *
35809248 TCGGGGGTAAAATGGTAATTTTTTGGTGAAA
1 TCGGGGTTAAAATGG-GATTTTTTGGTGAAA
*
35809279 TCGAGGTTGAAAATGGGA--TTTT-G-GAAA
1 TCGGGGTT-AAAATGGGATTTTTTGGTGAAA
*
35809306 GTTCAGGGG-TAAAATGGTATTTTTTGGTGAAA
1 --TC-GGGGTTAAAATGGGATTTTTTGGTGAAA
* *
35809338 TCGGGGTTGAAATGGGA--TTTTGG-GAAGT
1 TCGGGGTTAAAATGGGATTTTTTGGTGAA-A
* * * * *
35809366 TTGGGGGTAAAATGGTAATTTTTGGTAAAA
1 TCGGGGTTAAAATGGGATTTTTTGGTGAAA
* * *
35809396 TTGAGGTTAAAATGGGA--TTTT--AGAAA
1 TCGGGGTTAAAATGGGATTTTTTGGTGAAA
* *
35809422 GTCTAGGGG-TAAAATGGTAATTTTTGGTGAAA
1 -TC--GGGGTTAAAATGGGATTTTTTGGTGAAA
*
35809454 TTGGGGTTAAAAATGGGA--TTTT-G-GAAA
1 TCGGGGTT-AAAATGGGATTTTTTGGTGAAA
* * * * * *
35809481 GTTTAGGCG-TAAAATTGTAATTTTTGGTAAAA
1 ---TCGGGGTTAAAATGGGATTTTTTGGTGAAA
* *
35809513 TCGAGGTTAAAAATAGGA--TTTT-G-GAAA
1 TCGGGGTT-AAAATGGGATTTTTTGGTGAAA
* * * *
35809540 GTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
1 --TCGGGGTTAAAATGGGATTTTTTGGTGAAA
35809572 TCGGGGTTAAAAATGGGATTTT
1 TCGGGGTT-AAAATGGGATTTT
35809594 GGAAATTTTA
Statistics
Matches: 232, Mismatches: 45, Indels: 76
0.66 0.13 0.22
Matches are distributed among these distances:
26 3 0.01
27 15 0.06
28 57 0.25
29 35 0.15
30 61 0.26
31 39 0.17
32 22 0.09
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.35
Consensus pattern (30 bp):
TCGGGGTTAAAATGGGATTTTTTGGTGAAA
Found at i:35810358 original size:17 final size:17
Alignment explanation
Indices: 35810330--35810372 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
35810320 TTACTTTAAC
*
35810330 TTTTCTTT-TCTCCTTTT
1 TTTTCTTTCTCT-CTTTA
35810347 TTTATCTTTCTCTCTTTA
1 TTT-TCTTTCTCTCTTTA
35810365 TTTTCTTT
1 TTTTCTTT
35810373 TTTAAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 12 0.52
19 3 0.13
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTTA
Found at i:35811509 original size:6 final size:6
Alignment explanation
Indices: 35811494--35811552 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
35811484 TTAAATTTGA
* * *
35811494 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
35811542 ATAAAT TTAAA
1 TTAAAT TTAAA
35811553 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:35811528 original size:14 final size:14
Alignment explanation
Indices: 35811509--35811536 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35811499 CTTAAATTTA
35811509 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
35811523 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
35811537 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:35813052 original size:21 final size:21
Alignment explanation
Indices: 35813013--35813052 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35813003 CTTTTTTATT
*
35813013 TATTTTTAGGTTTTAATATGG
1 TATTTTTAGGTTATAATATGG
35813034 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
35813053 ATTTGTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGG
Found at i:35813356 original size:68 final size:67
Alignment explanation
Indices: 35813238--35813367 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 67
35813228 TAGTAATATT
* * *
35813238 AATTATTATTAATTTGTTGTATGTACTTCCACCTAACAACTTGACTTCTTAGTTTACTATATTTA
1 AATTATTATTAATTTGTTGTATGTACTTCCACCTAACAACATGACGTCTTAATTTACTATATTTA
35813303 TG
66 TG
* * *
35813305 AATTAATTATTAATTTGTTTTATGTACTTCCATCC-ACCAACCAT-ACGTCTTAATTTGCTATAT
1 AATT-ATTATTAATTTGTTGTATGTACTTCCA-CCTAACAA-CATGACGTCTTAATTTACTATAT
35813368 ACTTGCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
67 4 0.07
68 46 0.85
69 4 0.07
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (67 bp):
AATTATTATTAATTTGTTGTATGTACTTCCACCTAACAACATGACGTCTTAATTTACTATATTTA
TG
Found at i:35813672 original size:21 final size:20
Alignment explanation
Indices: 35813627--35813682 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
35813617 TTTAAACATT
*
35813627 ATAAAAATATAAAAAAATTCA
1 ATAAAAAT-TACAAAAATTCA
35813648 ATAAAAATTACAAAAATGATC-
1 ATAAAAATTACAAAAAT--TCA
35813669 ATAAAAATT-CAAAA
1 ATAAAAATTACAAAA
35813683 GAATAGCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 13 0.41
21 17 0.53
22 2 0.06
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAAATTACAAAAATTCA
Found at i:35814877 original size:11 final size:11
Alignment explanation
Indices: 35814854--35814914 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
35814844 TGAACTTTTG
35814854 ATTAATGTTTAA
1 ATTAAT-TTTAA
35814866 ATTAATTTTAA
1 ATTAATTTTAA
*
35814877 ATTTATTTTTAA
1 A-TTAATTTTAA
* *
35814889 ATTTAAATTTAT
1 A-TTAATTTTAA
* *
35814901 CTTAAATTTAA
1 ATTAATTTTAA
35814912 ATT
1 ATT
35814915 TATCTATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
11 17 0.41
12 24 0.59
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTAATTTTAA
Found at i:35814907 original size:17 final size:17
Alignment explanation
Indices: 35814867--35814966 Score: 96
Period size: 17 Copynumber: 5.6 Consensus size: 17
35814857 AATGTTTAAA
* *
35814867 TTAATTTTAAATTTATTT
1 TTAAATTTAAATTTA-TC
35814885 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
35814902 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
35814919 TATTTTAAATTTAAATTTA-C
1 ----TTAAATTTAAATTTATC
*
35814939 TTTAAATTTAAAATTAT-
1 -TTAAATTTAAATTTATC
*
35814956 ATAAATTTAAA
1 TTAAATTTAAA
35814967 ATTGAATTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
16 10 0.14
17 33 0.45
18 14 0.19
20 1 0.01
21 15 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:35814916 original size:29 final size:29
Alignment explanation
Indices: 35814861--35814916 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
35814851 TTGATTAATG
* **
35814861 TTTAAATTAATTTTAAATTTATTTTTAAA
1 TTTAAATTAATCTTAAATTTAAATTTAAA
*
35814890 TTTAAATTTATCTTAAATTTAAATTTA
1 TTTAAATTAATCTTAAATTTAAATTTA
35814917 TCTATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTAAATTAATCTTAAATTTAAATTTAAA
Found at i:35814931 original size:38 final size:36
Alignment explanation
Indices: 35814867--35814955 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 36
35814857 AATGTTTAAA
*
35814867 TTAATTTTAAATTTA-TTTTTAAATTTAAATTTA-T
1 TTAAATTTAAATTTATTTTTTAAATTTAAATTTACT
35814901 CTTAAATTTAAATTTATCTATTTTAAATTTAAATTTACT
1 -TTAAATTTAAATTTAT-T-TTTTAAATTTAAATTTACT
*
35814940 TTAAATTTAAAATTAT
1 TTAAATTTAAATTTAT
35814956 ATAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 14 0.29
37 1 0.02
38 32 0.67
39 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (36 bp):
TTAAATTTAAATTTATTTTTTAAATTTAAATTTACT
Found at i:35814966 original size:6 final size:6
Alignment explanation
Indices: 35814861--35814950 Score: 71
Period size: 6 Copynumber: 15.0 Consensus size: 6
35814851 TTGATTAATG
* **
35814861 TTTAAA -TTAAT TTTAAA TTTATT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* *
35814907 TTTAAA TTTATCTAT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA
1 TTTAAA TTTA---AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
35814951 ATTATATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
4 2 0.03
5 10 0.15
6 47 0.71
7 2 0.03
9 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:35815786 original size:7 final size:7
Alignment explanation
Indices: 35815774--35815815 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
35815764 TCAATATTTG
35815774 TTAATAA
1 TTAATAA
35815781 TTAATAA
1 TTAATAA
35815788 -TAATAA
1 TTAATAA
*
35815794 TTAATAT
1 TTAATAA
35815801 TATAATAA
1 T-TAATAA
35815809 TTAATAA
1 TTAATAA
35815816 AAAGGAAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTAATAA
Found at i:35815807 original size:15 final size:13
Alignment explanation
Indices: 35815775--35815815 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
35815765 CAATATTTGT
35815775 TAATAATTAATAA
1 TAATAATTAATAA
35815788 TAATAATTAATATTA
1 TAATAATTAATA--A
35815803 TAATAATTAATAA
1 TAATAATTAATAA
35815816 AAAGGAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.50
15 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:35816861 original size:29 final size:28
Alignment explanation
Indices: 35816828--35817182 Score: 309
Period size: 29 Copynumber: 12.1 Consensus size: 28
35816818 GATTTCACCG
* *
35816828 AAAATTACCGTTTTACCCTCAAACTTCCT
1 AAAATTACCATTTTACCC-CAAACTTCCA
35816857 AAAATT-CCATCTTTGACCCCGAAACTTCCA
1 AAAATTACCAT-TTT-ACCCC-AAACTTCCA
35816887 AAAATTACCATTTTACCCCAAACTTTCC-
1 AAAATTACCATTTTACCCCAAAC-TTCCA
* *
35816915 AAAATT-TCATTTTTGACCCTAAAACTTCCA
1 AAAATTACCA-TTTT-ACCC-CAAACTTCCA
35816945 AAAATTACCATTTTACCCCAAACTTTCC-
1 AAAATTACCATTTTACCCCAAAC-TTCCA
* **
35816973 AAAATT-GCATTTTTGACCTTGAAACTTCCA
1 AAAATTACCA-TTTT-ACC-CCAAACTTCCA
35817003 AAAATTACCATTTTACCCCTAAACTTTCC-
1 AAAATTACCATTTTACCCC-AAAC-TTCCA
35817032 AAAATT-CCATTTTAACCCCAAAACTTCCA
1 AAAATTACCATTTT-ACCCC-AAACTTCCA
*
35817061 AAAATTACTATTTTACCCCCAAACTTTCC-
1 AAAATTACCATTTTA-CCCCAAAC-TTCCA
*
35817090 AAAATT-CCATTTTTAACCCTAAAACTTCCA
1 AAAATTACCA-TTTT-ACCC-CAAACTTCCA
*
35817120 AAAATTACCATTTTACTTCCAAACTTTCC-
1 AAAATTACCATTTTAC-CCCAAAC-TTCCA
35817149 AAAATT-CCATTTTTAACCCCGAAACTTCCA
1 AAAATTACCA-TTTT-ACCCC-AAACTTCCA
35817179 AAAA
1 AAAA
35817183 CATTTTACCC
Statistics
Matches: 273, Mismatches: 19, Indels: 67
0.76 0.05 0.19
Matches are distributed among these distances:
27 4 0.01
28 47 0.17
29 114 0.42
30 97 0.36
31 11 0.04
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAACTTCCA
Found at i:35816940 original size:58 final size:58
Alignment explanation
Indices: 35816828--35817223 Score: 525
Period size: 58 Copynumber: 6.8 Consensus size: 58
35816818 GATTTCACCG
* * * *
35816828 AAAATTACCGTTTTACCCTCAAAC-TTCCTAAAATTCCATCTTTGACCCCGAAACTTCCA
1 AAAATTACCATTTTACCC-CAAACTTTCC-AAAATTCCATTTTTAACCCCAAAACTTCCA
* * *
35816887 AAAATTACCATTTTACCCCAAACTTTCCAAAATTTCATTTTTGACCCTAAAACTTCCA
1 AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
* * ***
35816945 AAAATTACCATTTTACCCCAAACTTTCCAAAATTGCATTTTTGACCTTGAAACTTCCA
1 AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
35817003 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCAAAACTTCCA
1 AAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
* *
35817061 AAAATTACTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
* *
35817120 AAAATTACCATTTTACTTCCAAACTTTCCAAAATTCCATTTTTAACCCCGAAACTTCC-
1 AAAATTACCATTTTAC-CCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
* **
35817178 AAAA--A-CATTTTACCCCTAAACTTTTCAAAATTCTTTTTTTAACCCC
1 AAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCC
35817224 GATTTCACCA
Statistics
Matches: 308, Mismatches: 23, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
54 2 0.01
55 34 0.11
56 1 0.00
58 158 0.51
59 113 0.37
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCA
Found at i:35826160 original size:200 final size:200
Alignment explanation
Indices: 35825795--35826399 Score: 937
Period size: 200 Copynumber: 3.0 Consensus size: 200
35825785 GGAGTAGTTC
* * * ** * * * *
35825795 AACAAGTGAGGCGGTCATCTTCCTGATGAGATGCAGAGAAGAGCACCAACTCAGCACTCAAACAC
1 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCT-TAACGC
* * * * *
35825860 GAGCAAATCTTCATAACC-AGCTTCCAGAGGAGACACTGAGAAGCAGGTCGAAACAATAAAACGG
65 GAGCAAATCTTC-GAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGG
*
35825924 TTAGCTTCCTGATGAGATACA-AAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAG
129 TTAGCTTCCTGATGAGATACAGAA-AAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAG
*
35825988 TGAATTAA
193 AGAATTAA
35825996 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
1 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
*
35826061 AGCAAATCTTCGAACCAAGCTTCCGGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
66 AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
* *
35826126 AGCTTCCGGATGAGATACAGAAAAGTGAACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGA
131 AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGA
35826191 ATTAA
196 ATTAA
*
35826196 AACAAGCGAGGCGATCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
1 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
* * *
35826261 AGCAAATCTTTGAACCAAGCTTCCTGATGAGACACTGAGAAGTAAGTCGAAGCAATAAAATGGTT
66 AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
*
35826326 AGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGCA-
131 AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAG-AG
35826390 AATTAA
195 AATTAA
35826396 AACA
1 AACA
35826400 GATGATTGCA
Statistics
Matches: 375, Mismatches: 26, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
199 4 0.01
200 317 0.85
201 54 0.14
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (200 bp):
AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGAGA
ATTAA
Found at i:35826794 original size:6 final size:6
Alignment explanation
Indices: 35826774--35826863 Score: 71
Period size: 6 Copynumber: 15.0 Consensus size: 6
35826764 TTGGTTAATG
* **
35826774 TTTAAA -TTAAT TTTAAA TTTATT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* *
35826820 TTTAAA TTTATCTAT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA
1 TTTAAA TTTA---AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
35826864 ATTGAATTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
4 2 0.03
5 10 0.15
6 47 0.71
7 2 0.03
9 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:35826820 original size:17 final size:18
Alignment explanation
Indices: 35826780--35826863 Score: 109
Period size: 17 Copynumber: 4.6 Consensus size: 18
35826770 AATGTTTAAA
* *
35826780 TTAATTTTAAATTTATTT
1 TTAAATTTAAATTTATCT
35826798 TTAAATTTAAATTTATC-
1 TTAAATTTAAATTTATCT
35826815 TTAAATTTAAATTTATCTATT
1 TTAAATTTAAATTTATC---T
35826836 TTAAATTTAAATTTA-CT
1 TTAAATTTAAATTTATCT
35826853 TTAAATTTAAA
1 TTAAATTTAAA
35826864 ATTGAATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
17 29 0.48
18 15 0.25
20 1 0.02
21 15 0.25
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAATTTAAATTTATCT
Found at i:35826829 original size:29 final size:29
Alignment explanation
Indices: 35826774--35826829 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
35826764 TTGGTTAATG
* **
35826774 TTTAAATTAATTTTAAATTTATTTTTAAA
1 TTTAAATTAATCTTAAATTTAAATTTAAA
*
35826803 TTTAAATTTATCTTAAATTTAAATTTA
1 TTTAAATTAATCTTAAATTTAAATTTA
35826830 TCTATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTAAATTAATCTTAAATTTAAATTTAAA
Found at i:35826844 original size:38 final size:35
Alignment explanation
Indices: 35826780--35826863 Score: 116
Period size: 38 Copynumber: 2.3 Consensus size: 35
35826770 AATGTTTAAA
*
35826780 TTAATTTTAAATTTATTTTTAAATTTAAATTTA-T
1 TTAAATTTAAATTTATTTTTAAATTTAAATTTACT
35826814 CTTAAATTTAAATTTATCTATTTTAAATTTAAATTTACT
1 -TTAAATTTAAATTTA--T-TTTTAAATTTAAATTTACT
35826853 TTAAATTTAAA
1 TTAAATTTAAA
35826864 ATTGAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
35 14 0.32
37 1 0.02
38 28 0.64
39 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (35 bp):
TTAAATTTAAATTTATTTTTAAATTTAAATTTACT
Found at i:35827692 original size:15 final size:17
Alignment explanation
Indices: 35827650--35827698 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
35827640 ATAATAACTG
35827650 TGTTAATAATATCAATATT
1 TGTTAATAAT-T-AATATT
35827669 TGTTAATAATTAATA-T
1 TGTTAATAATTAATATT
35827685 TG-TAATAATTAATA
1 TGTTAATAATTAATA
35827699 AAAAGGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.40
16 3 0.10
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (17 bp):
TGTTAATAATTAATATT
Found at i:35828744 original size:29 final size:28
Alignment explanation
Indices: 35828711--35828984 Score: 259
Period size: 29 Copynumber: 9.5 Consensus size: 28
35828701 GATTTAACCA
*
35828711 AAAATTACCATTTTACCCTTAAACTTCCC
1 AAAATT-CCATTTTACCCCTAAACTTCCC
* * *
35828740 AAAATTCCATTTTTAACCTCGAAACTTCCA
1 AAAATTCCA-TTTT-ACCCCTAAACTTCCC
*
35828770 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCCTAAACTTCCC
* *
35828799 AAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTCCA-TTTTACCCCT-AAACTTCCC
* * *
35828829 AAAATTACTATTTTACCCCCAAACTTTCC
1 AAAATT-CCATTTTACCCCTAAACTTCCC
* *
35828858 AAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTCCA-TTTT-ACCCCTAAACTTCCC
* *
35828888 AAAATTACCATTTTACCCCTAAACTTTCT
1 AAAATT-CCATTTTACCCCTAAACTTCCC
35828917 AAAATTCCATTTTTGA-CCCTGAAACTT-CC
1 AAAATTCCA-TTTT-ACCCCT-AAACTTCCC
* *
35828946 AAAA--ACATTTTACCCCTAAACTTTCC
1 AAAATTCCATTTTACCCCTAAACTTCCC
35828972 AAAATTCCATTTT
1 AAAATTCCATTTT
35828985 TAACCTCGAT
Statistics
Matches: 203, Mismatches: 26, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
25 7 0.03
26 14 0.07
27 2 0.01
28 17 0.08
29 84 0.41
30 71 0.35
31 8 0.04
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTAAACTTCCC
Found at i:35828771 original size:59 final size:58
Alignment explanation
Indices: 35828708--35828989 Score: 419
Period size: 59 Copynumber: 4.9 Consensus size: 58
35828698 CCCGATTTAA
* *
35828708 CCAAAAATTACCATTTTACCCTTAAACTTCCCAAAATTCCATTTTTAACCTCGAAACTT
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC-CGAAACTT
*
35828767 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCC-GAAACTT
* * * *
35828826 CCAAAAATTACTATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAAAACTT
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTT-AACCCGAAACTT
* *
35828885 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTGACCCTGAAACTT
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCC-GAAACTT
35828944 CC-AAAA--A-CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC
35828990 TCGATTTCAC
Statistics
Matches: 206, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
55 37 0.18
56 1 0.00
58 8 0.04
59 156 0.76
60 4 0.02
ACGTcount: A:0.36, C:0.29, G:0.01, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCGAAACTT
Found at i:35829033 original size:28 final size:28
Alignment explanation
Indices: 35828971--35829041 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
35828961 CTAAACTTTC
**
35828971 CAAAATTCCATTTTTAACCTCGATTTCA
1 CAAAATTCCATTTTTAACCTCGAAGTCA
*
35828999 CCAAAATTCCATTTTTACCCTCGGAAGTCA
1 -CAAAATTCCATTTTTAACCTC-GAAGTCA
35829029 -AAAATTACCATTT
1 CAAAATT-CCATTT
35829042 CACCCCCAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 6 0.16
29 26 0.70
30 5 0.14
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (28 bp):
CAAAATTCCATTTTTAACCTCGAAGTCA
Found at i:35831684 original size:71 final size:71
Alignment explanation
Indices: 35831557--35831738 Score: 244
Period size: 71 Copynumber: 2.6 Consensus size: 71
35831547 TATATTACTA
* ** *
35831557 TATTTATTAATTATTAATTTGTTGCATGTAC-T-C-CCACCTAACAACTTGATTTCTTAGTTTAC
1 TATTAATTAATTATTAATTTGTTTAATGTACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
35831619 TATATT
66 TATATT
* *
35831625 TATTAATTAATTATTAATTTGTTTTATGCACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
1 TATTAATTAATTATTAATTTGTTTAATGTACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
35831690 TATATT
66 TATATT
* * *
35831696 TACTGAATTAATTATCAATTTCTTTAATGTACTTCCAACCACC
1 TA-TTAATTAATTATTAATTTGTTTAATGTACTTCC-ACCACC
35831739 AACCTGACGT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
68 27 0.27
69 1 0.01
70 1 0.01
71 36 0.36
72 28 0.28
73 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.46
Consensus pattern (71 bp):
TATTAATTAATTATTAATTTGTTTAATGTACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
TATATT
Found at i:35835103 original size:2 final size:2
Alignment explanation
Indices: 35835096--35835149 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
35835086 AGCCATTCAT
35835096 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35835138 TC TC TC TC TC TC
1 TC TC TC TC TC TC
35835150 ATTCCTTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:35836102 original size:21 final size:21
Alignment explanation
Indices: 35836063--35836102 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35836053 CTTCTTTATT
*
35836063 TATTTTTAGGTTCTAATATGA
1 TATTTTTAGGTTATAATATGA
35836084 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
35836103 TTCTGCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGA
Found at i:35841643 original size:17 final size:17
Alignment explanation
Indices: 35841621--35841654 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35841611 CTAAGAATTT
35841621 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
35841638 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
35841655 GTATTAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:35842246 original size:23 final size:23
Alignment explanation
Indices: 35842219--35842276 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
35842209 CGTCTATCCT
35842219 TGCTGACTAGATCTTCTAGAAGC
1 TGCTGACTAGATCTTCTAGAAGC
* * *
35842242 TGCTGATTGGACCTTCTAGAAGC
1 TGCTGACTAGATCTTCTAGAAGC
*
35842265 TGCTAACTAGAT
1 TGCTGACTAGAT
35842277 GCCACATCAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
TGCTGACTAGATCTTCTAGAAGC
Found at i:35844244 original size:17 final size:17
Alignment explanation
Indices: 35844218--35844254 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
35844208 GTTCAATACA
*
35844218 AGCAAAAAAAGAAAATAG
1 AGCAAAAAAA-AAAAAAG
35844236 AGCAAAAAAAAAAAAAG
1 AGCAAAAAAAAAAAAAG
35844253 AG
1 AG
35844255 TGAAGTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (17 bp):
AGCAAAAAAAAAAAAAG
Found at i:35853482 original size:30 final size:30
Alignment explanation
Indices: 35853286--35853488 Score: 229
Period size: 30 Copynumber: 6.8 Consensus size: 30
35853276 GGATTTAGGG
*
35853286 AAGTTTGGGGGT-AGAAATGATAATTTT-G-A
1 AAGTTTTGGGGTCA-AAATG-TAATTTTGGAA
* *
35853315 AAGTTTTAGGGT-AAAATTTAATTTTTTGG-A
1 AAGTTTTGGGGTCAAAATGTAA--TTTTGGAA
* *
35853345 AA-TTTTGGGGTCAAAATATGATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35853374 AAGTTTTAGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
35853404 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
35853434 AAGTTTTAGGGTTAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
35853464 AAGTTTTGGGGTCGAAATGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
35853489 CTAGACAATT
Statistics
Matches: 150, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.02
28 10 0.07
29 26 0.17
30 111 0.74
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.39
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:35854226 original size:22 final size:23
Alignment explanation
Indices: 35854192--35854234 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
35854182 CCCCTTTTCT
*
35854192 TTTCTTTTGTTTTGTTTTTTTTA
1 TTTCTTTTGTTTTGTGTTTTTTA
35854215 TTTCTTTT-TTTTGTGTTTTT
1 TTTCTTTTGTTTTGTGTTTTT
35854235 AAAGAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (23 bp):
TTTCTTTTGTTTTGTGTTTTTTA
Found at i:35854452 original size:38 final size:38
Alignment explanation
Indices: 35854385--35854463 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
35854375 CAAATAGCAA
* *
35854385 CGACGATGGTGTCTCCGGCGGCGGCGCATCAACGACGG
1 CGACGATGGTGTCTCCGACAGCGGCGCATCAACGACGG
*
35854423 CGACGATGGTGGT-TCCGACAGCGGTGCATCAACGACGG
1 CGACGATGGT-GTCTCCGACAGCGGCGCATCAACGACGG
35854461 CGA
1 CGA
35854464 AGCAACAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.19, C:0.29, G:0.38, T:0.14
Consensus pattern (38 bp):
CGACGATGGTGTCTCCGACAGCGGCGCATCAACGACGG
Found at i:35854530 original size:13 final size:13
Alignment explanation
Indices: 35854509--35854546 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
35854499 TTGTTATTAG
*
35854509 ATTATTAATATTT
1 ATTAATAATATTT
35854522 ATTAATAATATTT
1 ATTAATAATATTT
*
35854535 ATTAGTAATATT
1 ATTAATAATATT
35854547 AATGTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTAATAATATTT
Found at i:35855870 original size:68 final size:68
Alignment explanation
Indices: 35855761--35856574 Score: 1245
Period size: 68 Copynumber: 11.9 Consensus size: 68
35855751 GGAAATGATC
* * *
35855761 TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTTCTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
35855826 ACA
66 ACG
* * *
35855829 TTGCTCTTACTTCAATTTTAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGACG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
35855894 ACA
66 ACG
* * *
35855897 TTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTACTTCAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
35855962 ACG
66 ACG
* * * *
35855965 CTGCTCTTACTTCAATTTCATAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAA-ATGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGA-GGAT
35856029 GACG
65 GACG
*
35856033 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
35856098 ACG
66 ACG
*
35856101 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
35856166 ACG
66 ACG
* * *
35856169 TTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
* *
35856234 AACA
65 GACG
* * *
35856238 TTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTACTTCAACTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
35856303 ACG
66 ACG
* * * *
35856306 TTGGTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAA-ACGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGA-GGAT
35856370 GACG
65 GACG
* *
35856374 TTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTTTCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
35856439 ACA
66 ACG
* *
35856442 TTGCTCTTACTTCAATTTCAGACATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
35856507 ACG
66 ACG
* * *
35856510 TTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
35856575 AGGAAATAAT
Statistics
Matches: 677, Mismatches: 63, Indels: 11
0.90 0.08 0.01
Matches are distributed among these distances:
67 2 0.00
68 593 0.88
69 82 0.12
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:35856383 original size:341 final size:340
Alignment explanation
Indices: 35855686--35856575 Score: 1433
Period size: 341 Copynumber: 2.6 Consensus size: 340
35855676 CTTCATCTTA
* * *
35855686 CTCTTACTTCAATTTCAGAGGGACAAAG-GGTTGATATCCAGCTCTACTTCAATTTCAAGAGGAT
1 CTCTTACTTCAATTTCAGA--GATAAAGACG-TGTTATCCA-CTCTACTTCAATTTC-A-AGG--
* * *
35855750 AGGAAATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTTCTTCAATT
58 -GG--ATGA-CTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATT
* * * * * * *
35855815 TCAAGAGGATGACATTGCTCTTACTTCAATTTTAGAGATAAAGACATGTTATCCA-CTCTACTTC
119 TCAAGGGGATGACGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTC
**
35855879 AATTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTAC
184 AATTTCAAGAGGATAACATTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTAC
*
35855944 TTCAACTTCAAGAGGATGACGCTGCTCTTACTTCAATTTCATAGATGAAGACTTGTTATCCACTC
249 TTCAACTTCAAGAGGATGACGCTGCTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCACTC
*
35856009 TACTTCAATTTCAAATGGATGACGTTG
314 TACTTCAATTTCAAACGGATGACGTTG
35856036 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGAC-
35856101 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
65 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
35856166 ACGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAG
130 ACGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAG
35856231 GATAACATTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTACTTCAACTTCAA
195 GATAACATTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTACTTCAACTTCAA
* *
35856296 GAGGATGACGTTGGTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCACTCTACTTCAATTT
260 GAGGATGACGCTGCTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCACTCTACTTCAATTT
35856361 CAAACGGATGACGTTG
325 CAAACGGATGACGTTG
* * *
35856377 CTCTTACTTCAATTTCAGAGATAAAGATGTGTTTTCCACTCTACTTCAATTTCAAGAGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGAC-
*
35856442 TTGCTCTTACTTCAATTTCAGACATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
65 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
35856507 ACGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAG
130 ACGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAG
35856572 GATA
195 GATA
35856576 GGAAATAATC
Statistics
Matches: 513, Mismatches: 24, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
339 1 0.00
340 104 0.20
341 353 0.69
342 2 0.00
345 3 0.01
346 1 0.00
347 15 0.03
348 14 0.03
349 1 0.00
350 19 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (340 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACT
TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
CGTTGCTCTTAGTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGG
ATAACATTGCTCTTACTTCAATTTCAGAGATAAAAACGTATTATCCACTCTACTTCAACTTCAAG
AGGATGACGCTGCTCTTACTTCAATTTCAAAGATGAAGACTTGTTATCCACTCTACTTCAATTTC
AAACGGATGACGTTG
Found at i:35868314 original size:60 final size:61
Alignment explanation
Indices: 35868248--35868531 Score: 356
Period size: 60 Copynumber: 4.8 Consensus size: 61
35868238 TTGGGGGTAG
*
35868248 AAATGATAATTTT-G-AAAGTTTTAGGGT-AAAATGCAATTTTTTGGAAA-TTTTAGGGTCA
1 AAATGATAATTTTAGAAAAGTTTTAGGGTCAAAATGTAA-TTTTTGGAAAGTTTTAGGGTCA
* * * *
35868306 AAAT-ATGATTTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTTGGAAAAGTTTTAGGCTCA
1 AAATGATAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTTGG-AAAGTTTTAGGGTCA
* *
35868366 AAATG-TAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCA
1 AAATGATAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTTAGGGTCA
* * * *
35868426 AAAT-ATAATTTTGGAAAAGTTTTAGGGTCGAAATATAA-TTTTGGAAAAGTTTTGGGGTCA
1 AAATGATAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTTGG-AAAGTTTTAGGGTCA
35868486 AAATG-TAATTTCTAG-AAAGTTTTAGGGTCAAAATGTAATTTTTGGA
1 AAATGATAATTT-TAGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGA
35868532 CAATTTAGGG
Statistics
Matches: 197, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
57 7 0.04
58 11 0.06
59 20 0.10
60 146 0.74
61 13 0.07
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (61 bp):
AAATGATAATTTTAGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTTAGGGTCA
Found at i:35868317 original size:30 final size:29
Alignment explanation
Indices: 35868248--35868531 Score: 270
Period size: 30 Copynumber: 9.5 Consensus size: 29
35868238 TTGGGGGTAG
*
35868248 AAATGATAATTTT-GAAAGTTTTAGGGT-A
1 AAATG-TATTTTTGGAAAGTTTTAGGGTCA
*
35868276 AAATGCAATTTTTTGGAAA-TTTTAGGGTCA
1 AAATG-TA-TTTTTGGAAAGTTTTAGGGTCA
* *
35868306 AAATATGA-TTTTGGAAAAGTTTTGGGGTCA
1 AAATGT-ATTTTTGG-AAAGTTTTAGGGTCA
* *
35868336 AAATGTAATTTTGGAAAAGTTTTAGGCTCA
1 AAATGTATTTTTGG-AAAGTTTTAGGGTCA
* * *
35868366 AAATGTAATTTTAGAAAAGTTTTGGGGTCA
1 AAATGT-ATTTTTGGAAAGTTTTAGGGTCA
*
35868396 AAATGTAATTTTTAGAAAGTTTTAGGGTCA
1 AAATGT-ATTTTTGGAAAGTTTTAGGGTCA
* * *
35868426 AAATATAATTTTGGAAAAGTTTTAGGGTCG
1 AAATGTATTTTTGG-AAAGTTTTAGGGTCA
* * *
35868456 AAATATAATTTTGGAAAAGTTTTGGGGTCA
1 AAATGTATTTTTGG-AAAGTTTTAGGGTCA
* *
35868486 AAATGTAATTTCTAGAAAGTTTTAGGGTCA
1 AAATGT-ATTTTTGGAAAGTTTTAGGGTCA
35868516 AAATGTAATTTTTGGA
1 AAATGT-ATTTTTGGA
35868532 CAATTTAGGG
Statistics
Matches: 215, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
28 12 0.06
29 23 0.11
30 170 0.79
31 10 0.05
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (29 bp):
AAATGTATTTTTGGAAAGTTTTAGGGTCA
Found at i:35868395 original size:90 final size:89
Alignment explanation
Indices: 35868248--35868527 Score: 354
Period size: 90 Copynumber: 3.1 Consensus size: 89
35868238 TTGGGGGTAG
* * * *
35868248 AAATGATAATTTT-G-AAAGTTTTAGGGT-AAAATGCAATTTTTTGGAAA-TTTTAGGGTCAAAA
1 AAATG-TAATTTTGGAAAAGTTTTAGGGTCAAAATGTAA-TTTTAGAAAAGTTTTGGGGTCAAAA
* * *
35868309 TATGATTTTGGAAAAGTTTTGGGGTCA
64 TGTAATTTT-GAAAAGTTTTAGGGTCA
*
35868336 AAATGTAATTTTGGAAAAGTTTTAGGCTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATG
1 AAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATG
*
35868401 TAATTTTTAGAAAGTTTTAGGGTCA
66 TAATTTTGA-AAAGTTTTAGGGTCA
* * * *
35868426 AAATATAATTTTGGAAAAGTTTTAGGGTCGAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATG
1 AAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATG
35868491 TAATTTCT-AGAAAGTTTTAGGGTCA
66 TAATTT-TGA-AAAGTTTTAGGGTCA
35868516 AAATGTAATTTT
1 AAATGTAATTTT
35868528 TGGACAATTT
Statistics
Matches: 171, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
87 7 0.04
88 6 0.04
89 21 0.12
90 136 0.80
91 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.38
Consensus pattern (89 bp):
AAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATG
TAATTTTGAAAAGTTTTAGGGTCA
Found at i:35869568 original size:13 final size:13
Alignment explanation
Indices: 35869547--35869584 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
35869537 TTGTTATTAG
*
35869547 ATTATTAATATTT
1 ATTAATAATATTT
35869560 ATTAATAATATTT
1 ATTAATAATATTT
*
35869573 ATTAGTAATATT
1 ATTAATAATATT
35869585 AATGTCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTAATAATATTT
Found at i:35870003 original size:25 final size:26
Alignment explanation
Indices: 35869954--35870003 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
35869944 GGGCTGCCTC
*
35869954 TATTGATTTTCAGGAACGGGTTTTTT
1 TATTGATTTTCAAGAACGGGTTTTTT
35869980 TATTGATTTT-AAGAACAGGGTTTT
1 TATTGATTTTCAAGAAC-GGGTTTT
35870004 CTCTCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (26 bp):
TATTGATTTTCAAGAACGGGTTTTTT
Found at i:35870410 original size:11 final size:11
Alignment explanation
Indices: 35870352--35870421 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 11
35870342 ATTCAAATTC
35870352 AAATTTAAAAT
1 AAATTTAAAAT
*
35870363 AAACTTAAATAAGT
1 AAA-TTTAA-AA-T
* *
35870377 AATTTTAAATTTT
1 AAATTTAAA--AT
35870390 AAATTTTAAAAT
1 AAA-TTTAAAAT
35870402 AAATTTAAAAT
1 AAATTTAAAAT
*
35870413 TAATTTAAA
1 AAATTTAAA
35870422 CTCAAAGCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
11 19 0.41
12 9 0.20
13 9 0.20
14 9 0.20
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:35875474 original size:30 final size:31
Alignment explanation
Indices: 35875435--35875497 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
35875425 TTCCCTTAAA
35875435 CTACTTGATGTTCTCTAACCTTATAAGTTTT
1 CTACTTGATGTTCTCTAACCTTATAAGTTTT
35875466 CTAC-TGATGTTCTCTAACCTTATAAGTTTT
1 CTACTTGATGTTCTCTAACCTTATAAGTTTT
35875496 CT
1 CT
35875498 TCTCACTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.48
Consensus pattern (31 bp):
CTACTTGATGTTCTCTAACCTTATAAGTTTT
Found at i:35876665 original size:29 final size:28
Alignment explanation
Indices: 35876627--35876910 Score: 139
Period size: 29 Copynumber: 9.8 Consensus size: 28
35876617 TTTGGATGCC
*
35876627 CGAGGATAAAATGATAATTTTTGGAGATT
1 CGAGGGTAAAATG-TAATTTTTGGAGATT
* *
35876656 CTG-GGGTAAAATGGTAATTTTTGGACACT
1 C-GAGGGTAAAAT-GTAATTTTTGGAGATT
* ** *
35876685 CG-GGGGAAAATGCGATTTTTGGAAAGTT
1 CGAGGGTAAAATGTAATTTTTGGAGA-TT
* *
35876713 CGAGGATAAAATGGTAATTTTTGAAG-TT
1 CGAGGGTAAAAT-GTAATTTTTGGAGATT
* *
35876741 TGAGGGTAAAATGTAATTTTTGGAAGTTT
1 CGAGGGTAAAATGTAATTTTTGG-AGATT
* ** *
35876770 AGAGGCAAAAATGTAATTTTTGTTA-AGTT
1 CGAGGGTAAAATGTAATTTTTG-GAGA-TT
* * * *
35876799 CAAGGGTCAAAATATAATTTTTGAAAAGTT
1 CGAGGGT-AAAATGTAATTTTTGGAGA-TT
* *
35876829 CG-GGATCAAAAAT-TAAATTTTTGGAAATT
1 CGAGGGT--AAAATGT-AATTTTTGGAGATT
* * *
35876858 CAAGGGTAAAATGGTATTTTTTGGAAATT
1 CGAGGGTAAAAT-GTAATTTTTGGAGATT
** *
35876887 TAAGGGTCAAAAATATAATTTTTG
1 CGAGGGT--AAAATGTAATTTTTG
35876911 AAAATTCAAG
Statistics
Matches: 199, Mismatches: 38, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
27 21 0.11
28 31 0.16
29 84 0.42
30 58 0.29
31 5 0.03
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (28 bp):
CGAGGGTAAAATGTAATTTTTGGAGATT
Found at i:35876781 original size:86 final size:86
Alignment explanation
Indices: 35876627--35876823 Score: 206
Period size: 86 Copynumber: 2.3 Consensus size: 86
35876617 TTTGGATGCC
* * **
35876627 CGAGGATAAAATGATAATTTTTGGAGATTCTGGGGTAAAATGGTAATTTTTGGACACTCGGGGGA
1 CGAGGATAAAATGATAATTTTTGAAGATTCTGGGGTAAAATGGTAATTTTTGGACACTAGGGCAA
*
35876692 AAATGCGATTTTTGGAAAGTT
66 AAATGCAATTTTTGGAAAGTT
* *
35876713 CGAGGATAAAATGGTAATTTTTGAAG-TT-TGAGGGTAAAAT-GTAATTTTTGGA-AGTTTAGAG
1 CGAGGATAAAATGATAATTTTTGAAGATTCTG-GGGTAAAATGGTAATTTTTGGACA--CTAG-G
* **
35876774 GCAAAAATGTAATTTTTGTTAAGTT
62 GCAAAAATGCAATTTTTGGAAAGTT
* *
35876799 CAAGGGTCAAAAT-ATAATTTTTGAA
1 CGAGGAT-AAAATGATAATTTTTGAA
35876824 AAGTTCGGGA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
83 1 0.01
84 14 0.15
85 13 0.14
86 60 0.65
87 5 0.05
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (86 bp):
CGAGGATAAAATGATAATTTTTGAAGATTCTGGGGTAAAATGGTAATTTTTGGACACTAGGGCAA
AAATGCAATTTTTGGAAAGTT
Found at i:35876860 original size:59 final size:59
Alignment explanation
Indices: 35876743--35877030 Score: 172
Period size: 59 Copynumber: 4.9 Consensus size: 59
35876733 TTGAAGTTTG
* * * *
35876743 AGGGTAAAATG-TAATTTTTG-GAAGTTTAGAGG-CAAAAATGT-AATTTTTGTTAAGTTCA
1 AGGGTAAAATGATAATTTTTGAAAAGTTAAG-GGTCAAAAAT-TAAATTTTTG-AAAATTCA
* *
35876801 AGGGTCAAAAT-ATAATTTTTGAAAAGTT-CGGGATCAAAAATTAAATTTTTGGAAATTCA
1 AGGGT-AAAATGATAATTTTTGAAAAGTTAAGGG-TCAAAAATTAAATTTTTGAAAATTCA
* * * *
35876860 AGGGTAAAATGGTATTTTTTGGAAATTTAAGGGTCAAAAA-TATAATTTTTGAAAATTCA
1 AGGGTAAAATGATAATTTTTGAAAAGTTAAGGGTCAAAAATTA-AATTTTTGAAAATTCA
* ** * * * * * * *
35876919 AGAGTAATGTGGTAAGTTTTGGAAAGTTTAGGGGC-AAAATTATAATTTTTTGGAAGTTC-
1 AGGGTAAAATGATAATTTTTGAAAAGTTAAGGGTCAAAAATTA-AA-TTTTTGAAAATTCA
* *
35876978 -GGGTAAAAATG-TAATTTTT-AGAAAGTTTAGGGGT-TAAAATGT-AATTTTTGAAA
1 AGGGT-AAAATGATAATTTTTGA-AAAG-TTAAGGGTCAAAAAT-TAAATTTTTGAAA
35877031 GGTTTGGGGG
Statistics
Matches: 185, Mismatches: 29, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
57 8 0.04
58 34 0.18
59 108 0.58
60 35 0.19
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (59 bp):
AGGGTAAAATGATAATTTTTGAAAAGTTAAGGGTCAAAAATTAAATTTTTGAAAATTCA
Found at i:35876916 original size:30 final size:29
Alignment explanation
Indices: 35876720--35877027 Score: 170
Period size: 30 Copynumber: 10.5 Consensus size: 29
35876710 GTTCGAGGAT
* *
35876720 AAAATGGTAATTTTT-GAAGTTTGAGGGT-
1 AAAAT-GTAATTTTTGGAAATTTAAGGGTC
*
35876748 AAAATGTAATTTTTGGAAGTTT-AGAGG-C
1 AAAATGTAATTTTTGGAAATTTAAG-GGTC
* * *
35876776 AAAAATGTAATTTTTGTTAAGTTCAAGGGTC
1 -AAAATGTAATTTTTG-GAAATTTAAGGGTC
* * * *
35876807 AAAATATAATTTTTGAAAAGTT-CGGGATC
1 AAAATGTAATTTTTGGAAATTTAAGGG-TC
*
35876836 AAAAAT-TAAATTTTTGGAAATTCAAGGGT-
1 -AAAATGT-AATTTTTGGAAATTTAAGGGTC
*
35876865 AAAATGGTATTTTTTGGAAATTTAAGGGTC
1 AAAAT-GTAATTTTTGGAAATTTAAGGGTC
* * * *
35876895 AAAAATATAATTTTTGAAAATTCAAGAGT-
1 -AAAATGTAATTTTTGGAAATTTAAGGGTC
** * *
35876924 AATGTGGTAAGTTTTGGAAAGTTT-AGGGGC
1 AAAAT-GTAATTTTTGGAAA-TTTAAGGGTC
* * * *
35876954 AAAATTATAATTTTTTGG-AAGTT-CGGGTA
1 AAAA-TGTAA-TTTTTGGAAATTTAAGGGTC
* * *
35876983 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAA-TTTAAGGGTC
35877013 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
35877028 AAAGGTTTGG
Statistics
Matches: 216, Mismatches: 41, Indels: 44
0.72 0.14 0.15
Matches are distributed among these distances:
27 17 0.08
28 31 0.14
29 65 0.30
30 85 0.39
31 18 0.08
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAATTTAAGGGTC
Found at i:35878900 original size:11 final size:11
Alignment explanation
Indices: 35878886--35878956 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
35878876 ATTAAATTTT
35878886 AATTTAAAATA
1 AATTTAAAATA
35878897 AATTT-AAAT-
1 AATTTAAAATA
35878906 --TTTAAAATA
1 AATTTAAAATA
*
35878915 AATTTAAACTCA
1 AATTTAAAAT-A
* **
35878927 AA-ATAAGTTTA
1 AATTTAA-AATA
35878938 AATTTAAAATA
1 AATTTAAAATA
35878949 AATTTAAA
1 AATTTAAA
35878957 CTTAAAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
10 4 0.09
11 28 0.61
12 7 0.15
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:35878900 original size:17 final size:17
Alignment explanation
Indices: 35878878--35878990 Score: 138
Period size: 17 Copynumber: 6.6 Consensus size: 17
35878868 AACTTTTGAT
*
35878878 TAAATTTTAATTTAAAA
1 TAAATTTAAATTTAAAA
35878895 TAAATTTAAATTTTAAAA
1 TAAATTTAAA-TTTAAAA
* *
35878913 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
*
35878930 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
35878947 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
35878964 TAAATTGAAATTTTAAAA
1 TAAATTTAAA-TTTAAAA
*
35878982 -AAATCTAAA
1 TAAATTTAAA
35878991 ATTGGGTTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
17 59 0.72
18 23 0.28
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:35878917 original size:35 final size:35
Alignment explanation
Indices: 35878878--35878990 Score: 158
Period size: 34 Copynumber: 3.3 Consensus size: 35
35878868 AACTTTTGAT
* *
35878878 TAAATTTTAATTTAAAATAAATTTAAATTTTAAAA
1 TAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
* *
35878913 TAAATTTAAACTCAAAATAAGTTTAAA-TTTAAAA
1 TAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
*
35878947 TAAATTTAAACTTAAAATAAATTGAAATTTTAAAA
1 TAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
*
35878982 -AAATCTAAA
1 TAAATTTAAA
35878991 ATTGGGTTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 39 0.57
35 30 0.43
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (35 bp):
TAAATTTAAACTTAAAATAAATTTAAATTTTAAAA
Found at i:35879758 original size:21 final size:21
Alignment explanation
Indices: 35879719--35879758 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35879709 TTTCTTTATT
*
35879719 TATTTTTAGGTTCTAATATGG
1 TATTTTTAGGTTATAATATGG
35879740 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
35879759 ATATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGG
Found at i:35880143 original size:68 final size:68
Alignment explanation
Indices: 35880010--35880144 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 68
35880000 TGTATTACTA
* * * * * *
35880010 TATTTATTAATTATTAATTTATTTTATGTACTTCCACCCACCAATCTGACGTCTTAGTCTATTAT
1 TATTAATTAATTATTAATTTATTTTACGTACTTCCACCCACCAACCAGACCTCTTAATCTATTAT
35880075 ATT
66 ATT
* * * *
35880078 TATTAATTAATTATTAATTTGTTTTACGTACTTCCACCTACCAACCAGACCTCTTAATTTGTTAT
1 TATTAATTAATTATTAATTTATTTTACGTACTTCCACCCACCAACCAGACCTCTTAATCTATTAT
35880143 AT
66 AT
35880145 ACTTGCATGT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.47
Consensus pattern (68 bp):
TATTAATTAATTATTAATTTATTTTACGTACTTCCACCCACCAACCAGACCTCTTAATCTATTAT
ATT
Found at i:35880419 original size:11 final size:10
Alignment explanation
Indices: 35880384--35880453 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 10
35880374 ATGTTACATC
35880384 AAAAATTAATT
1 AAAAATTAA-T
*
35880395 TAAAATT-AT
1 AAAAATTAAT
35880404 AAAAAATATAAT
1 -AAAAAT-TAAT
35880416 AAAAATTCAAT
1 AAAAATT-AAT
*
35880427 AAAAATT-AC
1 AAAAATTAAT
*
35880436 AAAAATATCAT
1 AAAAAT-TAAT
35880447 AAAAATT
1 AAAAATT
35880454 CAAAAGAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
9 8 0.16
10 9 0.18
11 30 0.61
12 2 0.04
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:35880440 original size:31 final size:32
Alignment explanation
Indices: 35880396--35880456 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
35880386 AAATTAATTT
35880396 AAAATTATAAAAAATATAATAAAAATTCAATA
1 AAAATTATAAAAAATATAATAAAAATTCAATA
* *
35880428 AAAATTA-CAAAAATATCATAAAAATTCAA
1 AAAATTATAAAAAATATAATAAAAATTCAA
35880457 AAGAATAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (32 bp):
AAAATTATAAAAAATATAATAAAAATTCAATA
Found at i:35880441 original size:20 final size:19
Alignment explanation
Indices: 35880416--35880458 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
35880406 AAAATATAAT
35880416 AAAAAT-TCAATAAAAATTAC
1 AAAAATATC-ATAAAAATT-C
35880436 AAAAATATCATAAAAATTC
1 AAAAATATCATAAAAATTC
35880455 AAAA
1 AAAA
35880459 GAATAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATATCATAAAAATTC
Found at i:35883524 original size:17 final size:17
Alignment explanation
Indices: 35883497--35883606 Score: 80
Period size: 17 Copynumber: 7.0 Consensus size: 17
35883487 GCCTTAGATT
*
35883497 TTAATTTTTAAGTTTAAA
1 TTAA-TTTTAAATTTAAA
35883515 TTAATTTTAAA-TT---
1 TTAATTTTAAATTTAAA
35883528 TT-A-TTTAAATTTAAA
1 TTAATTTTAAATTTAAA
*
35883543 TTTATTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
*
35883560 TTTA-TTT--ATTTAAA
1 TTAATTTTAAATTTAAA
* *
35883574 TTTATCTTAAATTTAAA
1 TTAATTTTAAATTTAAA
35883591 TTTAA--TTAAATTTAAA
1 -TTAATTTTAAATTTAAA
35883607 AATAATATTT
Statistics
Matches: 79, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
11 6 0.08
12 3 0.04
13 2 0.03
14 11 0.14
15 4 0.05
16 17 0.22
17 29 0.37
18 7 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAATTTTAAATTTAAA
Found at i:35883540 original size:28 final size:28
Alignment explanation
Indices: 35883503--35883556 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35883493 GATTTTAATT
*
35883503 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAAATTTAAATTAATTTTAAATTTTA
*
35883531 TTTAAATTTAAATTTATTTTAAATTT
1 TTTAAATTTAAATTAATTTTAAATTT
35883557 AAATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTAAATTTAAATTAATTTTAAATTTTA
Found at i:35883576 original size:6 final size:6
Alignment explanation
Indices: 35883503--35883606 Score: 87
Period size: 6 Copynumber: 18.0 Consensus size: 6
35883493 GATTTTAATT
* * * *
35883503 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
35883548 TTTAAA TTTAAA TTTATTTA TTTAAA TTT--A TCTTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
35883596 -TTAAA TTTAAA
1 TTTAAA TTTAAA
35883607 AATAATATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 50 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:35884456 original size:9 final size:9
Alignment explanation
Indices: 35884442--35884492 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
35884432 TCAGGATATT
35884442 TTAATAATA
1 TTAATAATA
*
35884451 TTAATATTA
1 TTAATAATA
35884460 TTAATAATTAA
1 TTAATAA-T-A
35884471 TATAATAATA
1 T-TAATAATA
35884481 TT-A-AATA
1 TTAATAATA
35884488 TTAAT
1 TTAAT
35884493 CTTCTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
7 6 0.17
8 2 0.06
9 15 0.43
10 3 0.09
11 3 0.09
12 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAATAATA
Found at i:35884492 original size:21 final size:22
Alignment explanation
Indices: 35884446--35884492 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
35884436 GATATTTTAA
*
35884446 TAATATTAATATTATTAATAAT
1 TAATATTAATAATATTAATAAT
35884468 TAATA-TAATAATATTAA-ATAT
1 TAATATTAATAATATTAATA-AT
35884489 TAAT
1 TAAT
35884493 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTAATAATATTAATAAT
Found at i:35885450 original size:162 final size:163
Alignment explanation
Indices: 35885267--35885606 Score: 520
Period size: 163 Copynumber: 2.1 Consensus size: 163
35885257 TGTTTTCAAT
* * * *
35885267 TTAATCATTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCA-ATTTTTGGCTTATTTCTGC
1 TTAATCCTTTGACTGTTTGACTGCACCAGAAGCTGCCACGTGTCATATTTTTGGCTTACTTATGC
* * * *
35885331 ATTTAATCCCTGACATTTTTGATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACA
66 ATCTAACCCCTGACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACA
* *
35885396 AAATTAGCCCAAGAATTTTTCAAGGTTTATAAA
131 AAATTAGCCCAAGAATTTTTCAAGATTTACAAA
*
35885429 TTAATCCTTTGACTGTTTGACTGCACCAGAAGCTGCCACGTGTCATTTTTTTGGCTTACTTATGC
1 TTAATCCTTTGACTGTTTGACTGCACCAGAAGCTGCCACGTGTCATATTTTTGGCTTACTTATGC
* * *
35885494 ATCTAGCCCCTGACATTTCTAATTTGTTTTAATTTAATCCTTAAATCAACTTCTATTTAATTACA
66 ATCTAACCCCTGACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACA
* *
35885559 AAATTGGCCCAAGAATTTTTCAAGATTTACAAT
131 AAATTAGCCCAAGAATTTTTCAAGATTTACAAA
*
35885592 TTAATCCCTTGACTG
1 TTAATCCTTTGACTG
35885607 CTGGATGCCT
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
162 43 0.27
163 117 0.73
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (163 bp):
TTAATCCTTTGACTGTTTGACTGCACCAGAAGCTGCCACGTGTCATATTTTTGGCTTACTTATGC
ATCTAACCCCTGACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACA
AAATTAGCCCAAGAATTTTTCAAGATTTACAAA
Found at i:35885749 original size:28 final size:28
Alignment explanation
Indices: 35885708--35885915 Score: 118
Period size: 29 Copynumber: 7.2 Consensus size: 28
35885698 AAAATTTTAG
35885708 AAAATTACCATTTTACCCTCGAACCTTCT
1 AAAATTACCATTTTACCC-CGAACCTTCT
** * *
35885737 AAAA-TACCATTTTAACCCCGATTTCATCG
1 AAAATTACCATTTT-ACCCCGA-ACCTTCT
* *
35885766 AAAATTACCATTTTACCCCCAAACTTTCT
1 AAAATTACCATTTTA-CCCCGAACCTTCT
** ** *
35885795 AAAA-TACCATTTTTAACCCCGATTTCACCC
1 AAAATTACCA-TTTT-ACCCCGA-ACCTTCT
* * *
35885825 AAAATTACCATTTTACCCCCAAACTTCC
1 AAAATTACCATTTTACCCCGAACCTTCT
** ** *
35885853 AAAATT-CCATTTTAACCCCGATTTCACCC
1 AAAATTACCATTTT-ACCCCGA-ACCTTCT
*
35885882 AAAATTACCATTTTACCCCTGAA-CTTCC
1 AAAATTACCATTTTACCCC-GAACCTTCT
35885910 AAAATT
1 AAAATT
35885916 CTATTTTTAA
Statistics
Matches: 137, Mismatches: 30, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
27 7 0.05
28 41 0.30
29 51 0.37
30 33 0.24
31 5 0.04
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACCTTCT
Found at i:35885838 original size:59 final size:58
Alignment explanation
Indices: 35885708--35886136 Score: 497
Period size: 58 Copynumber: 7.4 Consensus size: 58
35885698 AAAATTTTAG
* * * * *
35885708 AAAATTACCATTTTACCCTCGAACCTTCTAAAATACCA-TTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAA-CTTCCAAAATTCCATTTTTAACCCCGATTTCACCC
* * *
35885766 AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCC
1 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCC
*
35885825 AAAATTACCATTTTACCCCCAAACTTCCAAAATTCCA-TTTTAACCCCGATTTCACCC
1 AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCC
* * * *
35885882 AAAATTACCATTTTACCCCTGAACTTCCAAAATTCTATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCC
* * * *
35885940 AAAATTACCGTTTTGCCCCTGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCC
* ** * * * * *
35885998 AAGATTACCATTTTACCCCTAAACTTTCTAAAATACCATTTTAAACCCC-AGTTTCATCA
1 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTCCATTTTTAACCCCGA-TTTCACCC
* * * * *
35886057 AAAATTATCGTTTTACCCCCGAACTCTCAAAAATTCTATTTTTTAACCCCGACTTCA-CC
1 AAAATTACCATTTTACCCCCGAACT-TCCAAAATTCCA-TTTTTAACCCCGATTTCACCC
*
35886116 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
35886137 GGTGTCCAAA
Statistics
Matches: 324, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
57 55 0.17
58 138 0.43
59 116 0.36
60 14 0.04
61 1 0.00
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCACCC
Found at i:35887886 original size:31 final size:29
Alignment explanation
Indices: 35887830--35887902 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 29
35887820 AACAACACTA
* *
35887830 AAAATCTACAACATATTTGAAACTTAAGTCC
1 AAAATCTCCAA-ATATTTGAAACTTAAAT-C
*
35887861 AGAAAATCTCCAAAT-TTTTAAACTTAAATC
1 --AAAATCTCCAAATATTTGAAACTTAAATC
35887891 AAAATCTCCAAA
1 AAAATCTCCAAA
35887903 CCTCGAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 12 0.32
30 1 0.03
31 12 0.32
32 2 0.05
33 10 0.27
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAATCTCCAAATATTTGAAACTTAAATC
Found at i:35890283 original size:19 final size:17
Alignment explanation
Indices: 35890250--35890284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
35890240 AAAAATTATA
35890250 TTATTTTTTAATTTAAT
1 TTATTTTTTAATTTAAT
35890267 TTATATTTTTAAGTTTAA
1 TTAT-TTTTTAA-TTTAA
35890285 ATTTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTATTTTTTAATTTAAT
Found at i:35891491 original size:17 final size:18
Alignment explanation
Indices: 35891456--35891498 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
35891446 CCACGTCAGC
*
35891456 AAAAAA-AATTTAAACTT
1 AAAAAATAAATTAAACTT
*
35891473 AAAATATAAATTAAA-TT
1 AAAAAATAAATTAAACTT
35891490 AAAAAATAA
1 AAAAAATAA
35891499 TATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATAAATTAAACTT
Found at i:35893496 original size:71 final size:71
Alignment explanation
Indices: 35893369--35893546 Score: 236
Period size: 71 Copynumber: 2.5 Consensus size: 71
35893359 TTTATTACTA
* * *
35893369 TATTTATTAATTATTAATTTGTTGTATGTAC-T-C-CCACATAACAACTTGATTTCTTAGTTTAC
1 TATTAATTAATTATTAATTTGTTTTATGTACTTCCACCACATAACAACTTGACTTCTTAGTTTAC
*
35893431 TATATT
66 CATATT
* *
35893437 TATTAATTAATTATTAATTTGTTTTATGCACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
1 TATTAATTAATTATTAATTTGTTTTATGTACTTCCACCACATAACAACTTGACTTCTTAGTTTAC
35893502 CATATT
66 CATATT
* * * *
35893508 TACTGAATTAATTATCAATTTCTTTAATGTACTTCCACC
1 TA-TTAATTAATTATTAATTTGTTTTATGTACTTCCACC
35893547 TACCAACCTG
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 28 0.29
69 1 0.01
70 1 0.01
71 34 0.36
72 31 0.33
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (71 bp):
TATTAATTAATTATTAATTTGTTTTATGTACTTCCACCACATAACAACTTGACTTCTTAGTTTAC
CATATT
Found at i:35894191 original size:95 final size:97
Alignment explanation
Indices: 35894065--35894260 Score: 281
Period size: 95 Copynumber: 2.0 Consensus size: 97
35894055 TTAATTCATC
* * *
35894065 TTTTTAATTAATAACTTTTTTATTTATATAAATAAAATAATAAATATGTAATTAAATAAT--AAA
1 TTTTTAAATAATAACTCTTTTATTTAGATAAATAAAATAATAAATATGTAATTAAATAATGAAAA
35894128 TATATATTTATATATATAATTATGTTAAA-ATA
66 TAT-TATTTATATATATAATTATGTTAAATATA
* * *
35894160 TTTTTAAATAATAACTCTTTTATTTAGATAAATAAATTAATAAATATTTAATTATATAATGAAAA
1 TTTTTAAATAATAACTCTTTTATTTAGATAAATAAAATAATAAATATGTAATTAAATAATGAAAA
* * *
35894225 TATTTTTTATATTTATCATTATGTTAAATATA
66 TATTATTTATATATATAATTATGTTAAATATA
35894257 TTTT
1 TTTT
35894261 ATTTTTTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 54 0.61
96 22 0.25
97 13 0.15
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (97 bp):
TTTTTAAATAATAACTCTTTTATTTAGATAAATAAAATAATAAATATGTAATTAAATAATGAAAA
TATTATTTATATATATAATTATGTTAAATATA
Found at i:35896271 original size:20 final size:20
Alignment explanation
Indices: 35896248--35896290 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
35896238 AAGTAGAACT
35896248 TAATAA-AGAAAACGACTTGC
1 TAATAAGAG-AAACGACTTGC
**
35896268 TAATCTGAGAAACGACTTGC
1 TAATAAGAGAAACGACTTGC
35896288 TAA
1 TAA
35896291 CCGTCCTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.23
Consensus pattern (20 bp):
TAATAAGAGAAACGACTTGC
Found at i:35902839 original size:16 final size:16
Alignment explanation
Indices: 35902818--35902873 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
35902808 CGTTTAGTTC
*
35902818 GCTGTAATGAAATAAA
1 GCTGTAATAAAATAAA
*
35902834 GCTGTAATAAAATAGA
1 GCTGTAATAAAATAAA
* * *
35902850 GCTATAATAGAATAGA
1 GCTGTAATAAAATAAA
*
35902866 GATGTAAT
1 GCTGTAAT
35902874 TAGTAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (16 bp):
GCTGTAATAAAATAAA
Found at i:35906289 original size:21 final size:20
Alignment explanation
Indices: 35906251--35906289 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
35906241 TATTTATGTC
*
35906251 ATGTCATATTGTATTATTAT
1 ATGTCATATTGTACTATTAT
*
35906271 ATGTACATATTGTGCTATT
1 ATGT-CATATTGTACTATT
35906290 TCATTTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (20 bp):
ATGTCATATTGTACTATTAT
Found at i:35908495 original size:42 final size:38
Alignment explanation
Indices: 35908412--35908501 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 38
35908402 TTTAGAAAAA
* * *
35908412 TTTTAAAATTTTAACTTTTTTTATATATTATTTAGAAT
1 TTTTAAAATTTTAAATTTTTTTAAATATAATTTAGAAT
* *
35908450 TTTTAAAAGTTATTATAATTTTTTTAAATATAAATTTGGACT
1 TTTTAAAA-TT-TTA-AATTTTTTTAAATAT-AATTTAGAAT
35908492 TTTTATAAAT
1 TTTTA-AAAT
35908502 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
38 8 0.19
39 2 0.05
40 3 0.07
41 13 0.31
42 13 0.31
43 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (38 bp):
TTTTAAAATTTTAAATTTTTTTAAATATAATTTAGAAT
Found at i:35913600 original size:18 final size:18
Alignment explanation
Indices: 35913577--35913622 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
35913567 ATTATTTAAA
*
35913577 TATAAATTTTGAAAATTT
1 TATAAATTTTGAAAAATT
*
35913595 TATAAATATTTTAAAAATT
1 TATAAAT-TTTGAAAAATT
35913614 TA-AAATTTT
1 TATAAATTTT
35913623 TTCAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAAATTTTGAAAAATT
Found at i:35915834 original size:24 final size:24
Alignment explanation
Indices: 35915807--35915861 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
35915797 ATTCATTTAC
**
35915807 AAATTTGAATTTATCTTAAAATTT
1 AAATTTGAATCAATCTTAAAATTT
* * *
35915831 AAATTTAAATCAATTTTTAAATTT
1 AAATTTGAATCAATCTTAAAATTT
35915855 AAATTTG
1 AAATTTG
35915862 TGTTAAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTTGAATCAATCTTAAAATTT
Found at i:35915869 original size:17 final size:17
Alignment explanation
Indices: 35915847--35915879 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35915837 AAATCAATTT
35915847 TTAAATTTAAATTTGTG
1 TTAAATTTAAATTTGTG
35915864 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGT
35915880 TAAATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTAAATTTAAATTTGTG
Found at i:35915948 original size:14 final size:14
Alignment explanation
Indices: 35915929--35915999 Score: 105
Period size: 14 Copynumber: 5.3 Consensus size: 14
35915919 AGTCCAAAGT
35915929 CCAATTACAATGGC
1 CCAATTACAATGGC
35915943 CCAATTA-AA-GGC
1 CCAATTACAATGGC
35915955 CCAATTACAATGGC
1 CCAATTACAATGGC
35915969 CCAAATTA-AA-GGC
1 CC-AATTACAATGGC
35915982 CCAATTACAATGGC
1 CCAATTACAATGGC
35915996 CCAA
1 CCAA
35916000 ATAGGCCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
12 15 0.29
13 11 0.21
14 21 0.40
15 5 0.10
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.18
Consensus pattern (14 bp):
CCAATTACAATGGC
Found at i:35915983 original size:27 final size:27
Alignment explanation
Indices: 35915929--35916001 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
35915919 AGTCCAAAGT
35915929 CCAATTACAATGGCCC-AATTAAAGGC
1 CCAATTACAATGGCCCAAATTAAAGGC
35915955 CCAATTACAATGGCCCAAATTAAAGGC
1 CCAATTACAATGGCCCAAATTAAAGGC
35915982 CCAATTACAATGGCCCAAAT
1 CCAATTACAATGGCCCAAAT
35916002 AGGCCCAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 16 0.35
27 30 0.65
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (27 bp):
CCAATTACAATGGCCCAAATTAAAGGC
Found at i:35916076 original size:18 final size:17
Alignment explanation
Indices: 35916053--35916089 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
35916043 CCCCACGTGC
35916053 CTCTGCTGCCACCACCAG
1 CTCT-CTGCCACCACCAG
35916071 --CTCTGCCACCACCAG
1 CTCTCTGCCACCACCAG
35916086 CTCT
1 CTCT
35916090 ATCCACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 5
0.77 0.00 0.23
Matches are distributed among these distances:
15 13 0.76
16 2 0.12
17 2 0.12
ACGTcount: A:0.16, C:0.51, G:0.14, T:0.19
Consensus pattern (17 bp):
CTCTCTGCCACCACCAG
Found at i:35916078 original size:15 final size:15
Alignment explanation
Indices: 35916058--35916089 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35916048 CGTGCCTCTG
35916058 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
35916073 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
35916088 CT
1 CT
35916090 ATCCACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.53, G:0.12, T:0.16
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:35917322 original size:34 final size:32
Alignment explanation
Indices: 35917259--35917323 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
35917249 TGCACGATTG
* *
35917259 GTCCTTCCGCATTTTTTATTTGCTTCAATTTA
1 GTCCTTCCGCATTTTTTAATTACTTCAATTTA
* *
35917291 GTCCTTTCTGCATTTTTTAATTATTTGCAATTT
1 GTCC-TTCCGCATTTTTTAATTACTT-CAATTT
35917324 TGCCATGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.17, C:0.18, G:0.09, T:0.55
Consensus pattern (32 bp):
GTCCTTCCGCATTTTTTAATTACTTCAATTTA
Found at i:35917638 original size:30 final size:30
Alignment explanation
Indices: 35917597--35917805 Score: 307
Period size: 30 Copynumber: 7.0 Consensus size: 30
35917587 CCCTAAATTG
35917597 TCCAGAAATTACATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
35917628 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
35917658 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
35917688 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
35917718 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
35917747 TCTTAAAATTACATTTTGACCCCAAAAC-TT
1 TC-CAAAATTACATTTTGACCCCAAAACTTT
* * *
35917777 TCAAAAATCATCATTTT-ACCCCTAAACTT
1 TCCAAAATTA-CATTTTGACCCCAAAACTT
35917806 CCCTAAATCC
Statistics
Matches: 167, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
29 19 0.11
30 144 0.86
31 4 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:35917850 original size:30 final size:29
Alignment explanation
Indices: 35917815--35917969 Score: 131
Period size: 30 Copynumber: 5.2 Consensus size: 29
35917805 TCCCTAAATC
*
35917815 CCATTTTAAACCCGATTTCACCAAAATTTA
1 CCATTTTAACCCCGATTTCACCAAAA-TTA
* *
35917845 CCATTTTACCCCCGAATCTT--TCAAAATT-
1 CCATTTTAACCCCG-AT-TTCACCAAAATTA
*
35917873 CCATTTTTAACCCTGATTTCACCGAAAATTA
1 CCA-TTTTAACCCCGATTTCACC-AAAATTA
* * *
35917904 CCATTTTACCCCCCGAATTT-TCTAAAATT-
1 CCATTTTA-ACCCCG-ATTTCACCAAAATTA
*
35917933 CCATTTTTAACCCCGATTACACCAAAATTA
1 CCA-TTTTAACCCCGATTTCACCAAAATTA
35917963 CCATTTT
1 CCATTTT
35917970 GCCCCCAGGT
Statistics
Matches: 99, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
27 2 0.02
28 8 0.08
29 31 0.31
30 42 0.42
31 10 0.10
32 6 0.06
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (29 bp):
CCATTTTAACCCCGATTTCACCAAAATTA
Found at i:35917931 original size:60 final size:58
Alignment explanation
Indices: 35917810--35917975 Score: 237
Period size: 59 Copynumber: 2.8 Consensus size: 58
35917800 AAACTTCCCT
* *
35917810 AAATCCCATTTTAAACCCGATTTCACCAAAATTTACCATTTTA-CCCCCGAATCTTTCA
1 AAATTCCATTTTTAACCCGATTTCACCAAAA-TTACCATTTTACCCCCCGAATCTTTCA
35917868 AAATTCCATTTTTAACCCTGATTTCACCGAAAATTACCATTTTACCCCCCGAAT-TTTCTA
1 AAATTCCATTTTTAACCC-GATTTCACC-AAAATTACCATTTTACCCCCCGAATCTTTC-A
* *
35917928 AAATTCCATTTTTAACCCCGATTACACCAAAATTACCATTTTGCCCCC
1 AAATTCCATTTTTAA-CCCGATTTCACCAAAATTACCATTTTACCCCC
35917976 AGGTATCCAT
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
58 16 0.16
59 43 0.43
60 37 0.37
61 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.34
Consensus pattern (58 bp):
AAATTCCATTTTTAACCCGATTTCACCAAAATTACCATTTTACCCCCCGAATCTTTCA
Found at i:35932667 original size:16 final size:16
Alignment explanation
Indices: 35932646--35932678 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35932636 GTAATTAAGG
35932646 ATAAAACA-TTAATCAA
1 ATAAAACACTT-ATCAA
35932662 ATAAAACACTTATCAA
1 ATAAAACACTTATCAA
35932678 A
1 A
35932679 GATAGTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAACACTTATCAA
Found at i:35939296 original size:49 final size:49
Alignment explanation
Indices: 35939071--35939406 Score: 237
Period size: 49 Copynumber: 6.8 Consensus size: 49
35939061 TACAGGTTTA
* * * * *
35939071 AAGGGAAAGGTTTAAGCCACAACGGCGAACCTTGTACCTCAGGAGCACG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAGGAGCATG
* * * ** *
35939120 AAGGCAAAGATTTAAGCCGCAACGGCGAATCC-AATACCACGAAGATAACG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTAGTACCAC-AGGAGCATG
* * * **
35939170 AAGGGAAAGATTTAAGCTGCAACGGTGAATCC-AGTACCACGAAGATAATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTAGTACCAC-AGGAGCATG
** * * * * * *
35939220 GCGAGAAAGGTTTAAGCTGCAAAGGCGAACCTTGTACCTCAGGAGCATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAGGAGCATG
* * * *
35939269 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GAAGATATA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAGGAG-CATG
* * * * * * * * *
35939318 AAAGGAAAGGTTTAAGTCGTAATGGCAAACCTTGTACCTCAGAAGCATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAGGAGCATG
* * * *
35939367 AAGGGAAAGATTTGAGCTGCAACGACGAATCTAGTACCAC
1 AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCAC
35939407 GAAGATATGG
Statistics
Matches: 222, Mismatches: 60, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
48 3 0.01
49 133 0.60
50 86 0.39
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGCCGCAACGGCGAACCTAGTACCACAGGAGCATG
Found at i:35939378 original size:98 final size:100
Alignment explanation
Indices: 35939169--35939414 Score: 347
Period size: 98 Copynumber: 2.5 Consensus size: 100
35939159 CGAAGATAAC
* * ***
35939169 GAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTACCACGAAGATA-ATGGCGAGAAAGGTTT
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATATAAAGAGAAAGGTTT
* *
35939233 AAGCTGCAAAGGCGAACCTTGTACCTCAGGAGCAT
66 AAGCTGCAAAGGCAAACCTTGTACCTCAGAAGCAT
*
35939268 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATA-AAAG-GAAAGGTTT
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATATAAAGAGAAAGGTTT
* *
35939331 AAG-TCGTAATGGCAAACCTTGTACCTCAGAAGCAT
66 AAGCT-GCAAAGGCAAACCTTGTACCTCAGAAGCAT
* *
35939366 GAAGGGAAAGATTTGAGCTGCAACGACGAATCTAGTACCACGAAGATAT
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATAT
35939415 GGAGTGAAGG
Statistics
Matches: 132, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
97 1 0.01
98 84 0.64
99 46 0.35
100 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.19
Consensus pattern (100 bp):
GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATATAAAGAGAAAGGTTT
AAGCTGCAAAGGCAAACCTTGTACCTCAGAAGCAT
Found at i:35939454 original size:98 final size:96
Alignment explanation
Indices: 35939169--35939446 Score: 322
Period size: 98 Copynumber: 2.8 Consensus size: 96
35939159 CGAAGATAAC
* * * * *
35939169 GAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTACCACGAAGATAATGGCGAGAAAGGTTTA
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGAT-ATGGAG-GAAGGGTTAA
* *
35939234 AGCTGCAAAGGCGAACCTTGTACCTCAGGAGCAT
64 ATC-GCAAAGGCGAACCTTGTACCTCAGAAGCAT
* ** *
35939268 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATATAAAAGGAAAGGTTTAA
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATAT-GGAGG-AAGGGTTAA
* * * *
35939333 GTCGTAATGGCAAACCTTGTACCTCAGAAGCAT
64 ATCGCAAAGGCGAACCTTGTACCTCAGAAGCAT
* *
35939366 GAAGGGAAAGATTTGAGCTGCAACGACGAATCTAGTACCACGAAGATATGGAGTGAAGGGTTACA
1 GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAG-GAAGGGTTA-A
* *
35939431 ATCGCAACGACGAACC
64 ATCGCAAAGGCGAACC
35939447 CGGTACCTTA
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
97 9 0.06
98 88 0.59
99 52 0.35
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (96 bp):
GAAGGGAAAGATTTAAGCTGCAACGGCGAATCTAGTACCACGAAGATATGGAGGAAGGGTTAAAT
CGCAAAGGCGAACCTTGTACCTCAGAAGCAT
Found at i:35948379 original size:51 final size:52
Alignment explanation
Indices: 35948281--35948540 Score: 188
Period size: 51 Copynumber: 5.0 Consensus size: 52
35948271 CCCATGGCTC
* * * ***
35948281 TTTTATCTGATAAAATATTTTTTTGTGTTGCTCAAGCCATAATCGACACCCT
1 TTTTATCTGATAAAATATTTTTTTGTGTCGCCCATGCCATGGCCGACACCCT
* *
35948333 TTTTATTTGATAAAAT-TTTTTTTGTGTCGCCCATGCCACGGCCGACA--CT
1 TTTTATCTGATAAAATATTTTTTTGTGTCGCCCATGCCATGGCCGACACCCT
* *
35948382 TCCTTTATCTGATAAAAAAATATTTTTTTGGTGTCGCCCATGCCATGGCCGAGACCCC
1 T--TTTATCTGAT---AAAATATTTTTTT-GTGTCGCCCATGCCATGGCCGACACCCT
** * * * ** * *
35948440 TTTTATCTGATAAAA-A-AATTTTGTATCGTCCATTCCATGATCGAGACCCC
1 TTTTATCTGATAAAATATTTTTTTGTGTCGCCCATGCCATGGCCGACACCCT
* ** * * **
35948490 CTTTATCTGATAATTTTTTTTTTTGGTGTCTCCCATGCCATGATCGACACC
1 TTTTATCTGATAAAATATTTTTTT-GTGTCGCCCATGCCATGGCCGACACC
35948541 AACTATCCCT
Statistics
Matches: 166, Mismatches: 30, Indels: 23
0.76 0.14 0.11
Matches are distributed among these distances:
49 3 0.02
50 35 0.21
51 37 0.22
52 20 0.12
53 25 0.15
54 5 0.03
55 7 0.04
56 32 0.19
58 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (52 bp):
TTTTATCTGATAAAATATTTTTTTGTGTCGCCCATGCCATGGCCGACACCCT
Found at i:35948422 original size:56 final size:54
Alignment explanation
Indices: 35948280--35948461 Score: 178
Period size: 56 Copynumber: 3.4 Consensus size: 54
35948270 GCCCATGGCT
* * * * ****
35948280 CTTTTATCTGAT-AAAATA-TTTTTTTGTGTTGCTCAAGCCATAATCGACACCC
1 CTTTTATCTGATAAAAAAATTTTTTTTGTGTCGCCCATGCCACGGCCGACACCC
* * *
35948332 TTTTTATTTGAT---AAAATTTTTTTTGTGTCGCCCATGCCACGGCCGACACTTC
1 CTTTTATCTGATAAAAAAATTTTTTTTGTGTCGCCCATGCCACGGCCGACAC-CC
* *
35948384 C-TTTATCTGATAAAAAAATATTTTTTTGGTGTCGCCCATGCCATGGCCGAGACCC
1 CTTTTATCTGATAAAAAAAT-TTTTTTT-GTGTCGCCCATGCCACGGCCGACACCC
35948439 CTTTTATCTGATAAAAAAATTTT
1 CTTTTATCTGATAAAAAAATTTT
35948462 GTATCGTCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
50 3 0.03
51 34 0.32
52 11 0.10
54 5 0.05
55 12 0.11
56 41 0.39
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (54 bp):
CTTTTATCTGATAAAAAAATTTTTTTTGTGTCGCCCATGCCACGGCCGACACCC
Found at i:35950428 original size:18 final size:18
Alignment explanation
Indices: 35950395--35950430 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35950385 GACACGTGTG
*
35950395 TATTTTTTTTAAATACGA
1 TATTTTTTTGAAATACGA
*
35950413 TATTTTTTTGATATACGA
1 TATTTTTTTGAAATACGA
35950431 AAATACGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTTTTTTGAAATACGA
Found at i:35950657 original size:62 final size:62
Alignment explanation
Indices: 35950591--35950759 Score: 234
Period size: 61 Copynumber: 2.7 Consensus size: 62
35950581 TCGACCATGC
*
35950591 AAAAATTTCAATTTTTTTTTGTGTTGGACATCAAATGGCTGACACCCCCTATTCTCGAGA-AA
1 AAAAATTTCAATTTTTTTTTGTGTTGGCCATCAAATGGCTGACACCCCCTATTCTCGA-ATAA
* * * * * *
35950653 AAAAA-TTAAAATTTTTTTGGTGTTGGCCATCAAATGGCTGACATCCCCTTTTTTCGAATAA
1 AAAAATTTCAATTTTTTTTTGTGTTGGCCATCAAATGGCTGACACCCCCTATTCTCGAATAA
* *
35950714 AAAAATTCCAATTTTTTTTTGTGTTGGCCATCAAATGGCCGACACC
1 AAAAATTTCAATTTTTTTTTGTGTTGGCCATCAAATGGCTGACACC
35950760 AGCTTCTCCT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 1 0.01
61 52 0.57
62 39 0.42
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (62 bp):
AAAAATTTCAATTTTTTTTTGTGTTGGCCATCAAATGGCTGACACCCCCTATTCTCGAATAA
Found at i:35954257 original size:12 final size:12
Alignment explanation
Indices: 35954215--35954262 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
35954205 TTTTGTGTAA
*
35954215 AAATTAATTTGA
1 AAATTAATTTGG
35954227 AAATTAATTTAAGTTG
1 AAATTAATTT--G--G
35954243 AAATTAATTTGG
1 AAATTAATTTGG
35954255 AAATTAAT
1 AAATTAAT
35954263 GAACATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
AAATTAATTTGG
Found at i:35954506 original size:72 final size:70
Alignment explanation
Indices: 35954428--35954652 Score: 211
Period size: 83 Copynumber: 3.0 Consensus size: 70
35954418 TATTGTATTA
* * *
35954428 ATTTGACAATATATTATTTATCAAATTTTCATA-TTTAAAGT-ACAAATTATTATTATATTATAA
1 ATTTGACAATACATTATTTAT-AAATTTT-ATACTTTAAA-TAAAAAAAT-TTATTATATTATAA
35954491 TTTTTATCG
62 TTTTTATCG
*
35954500 ATTTGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTATAATTT
1 ATTTGACAATACATTATTTATAAATTTTATA-CTTTAAATAAAAAAATTTATTATATTATAATTT
35954565 TTATCATATAATGTGTTG
65 TTATC------------G
* * *
35954583 ATTTGACAATACATTATTTATTAATTTTGTATCTTTAAATAAAAAAATTTATTATATTACAATTT
1 ATTTGACAATACATTATTTATAAATTTTATA-CTTTAAATAAAAAAATTTATTATATTATAATTT
35954648 TTATC
65 TTATC
35954653 ATATTTTAAA
Statistics
Matches: 132, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
70 3 0.02
71 29 0.22
72 31 0.23
83 69 0.52
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (70 bp):
ATTTGACAATACATTATTTATAAATTTTATACTTTAAATAAAAAAATTTATTATATTATAATTTT
TATCG
Found at i:35954592 original size:83 final size:83
Alignment explanation
Indices: 35954499--35954656 Score: 298
Period size: 83 Copynumber: 1.9 Consensus size: 83
35954489 AATTTTTATC
*
35954499 GATTTGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTATAATT
1 GATTTGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTACAATT
35954564 TTTATCATATAATGTGTT
66 TTTATCATATAATGTGTT
*
35954582 GATTTGACAATACATTATTTATTAATTTTGTATCTTTAAATAAAAAAATTTATTATATTACAATT
1 GATTTGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTACAATT
35954647 TTTATCATAT
66 TTTATCATAT
35954657 TTTAAATTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (83 bp):
GATTTGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTACAATT
TTTATCATATAATGTGTT
Found at i:35956377 original size:24 final size:24
Alignment explanation
Indices: 35956333--35956389 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
35956323 ATTCAGATTC
*
35956333 CGAGCCCGAGGATGAGCCCAATGA
1 CGAGCCCGAGGACGAGCCCAATGA
* * *
35956357 CGAGCCCGCGGACGAGGCCAATTA
1 CGAGCCCGAGGACGAGCCCAATGA
*
35956381 CTAGCCCGA
1 CGAGCCCGA
35956390 TTACGAGTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.33, G:0.32, T:0.09
Consensus pattern (24 bp):
CGAGCCCGAGGACGAGCCCAATGA
Found at i:35957938 original size:61 final size:61
Alignment explanation
Indices: 35957788--35958030 Score: 314
Period size: 61 Copynumber: 4.0 Consensus size: 61
35957778 AGGAGAAGTT
* * * * * * *
35957788 GGTGTCGGCCATTTGATGGCC-A-ATATAAAAAAATTGGAATTTTTTTATTCGAGAAAAGAG
1 GGTGTCGACCATTTGATGGCCAACACAAAAAAAAATTAGAATTTTTTT-CTCGAGAATAGGG
*
35957848 GGTGTCGACCATTTGATGGCCAACA-AAAAAAAAATTAGAATTTTTTTCTTGAGAATAGGG
1 GGTGTCGACCATTTGATGGCCAACACAAAAAAAAATTAGAATTTTTTTCTCGAGAATAGGG
* * * *
35957908 GGTGTCGGCCATTTGGTGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGG
1 GGTGTCGACCATTTGATGGCCAACACAAAAAAAAATTAGAATTTTTTTCTCGAGAATAGGG
* * *
35957969 GGTGTCGACCATTTGATGGCCAACACCAAAATAATTTA-AATTTTTTTCTCGAGAATAGGG
1 GGTGTCGACCATTTGATGGCCAACACAAAAAAAAATTAGAATTTTTTTCTCGAGAATAGGG
35958029 GG
1 GG
35958031 ATGGCCGACA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
60 76 0.46
61 87 0.53
62 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (61 bp):
GGTGTCGACCATTTGATGGCCAACACAAAAAAAAATTAGAATTTTTTTCTCGAGAATAGGG
Found at i:35958042 original size:47 final size:48
Alignment explanation
Indices: 35957983--35958078 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
35957973 TCGACCATTT
*
35957983 GATGGCCAACACCAAAATAATTT-AAATTTTTTTCTCGAGAATAGGGG
1 GATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGG
*
35958030 GATGGCCGACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGG
1 GATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGG
35958078 G
1 G
35958079 TGTCGGCCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 21 0.46
48 25 0.54
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGGCCAACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGG
Found at i:35958051 original size:108 final size:109
Alignment explanation
Indices: 35957924--35958124 Score: 359
Period size: 108 Copynumber: 1.9 Consensus size: 109
35957914 GGCCATTTGG
35957924 TGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGACCATTTGATGGC
1 TGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGACCATTTGATGGC
*
35957989 CAACACCAAAATAATTT-AAATTTTTTTCTCGAGAATAGGGGGA
66 CAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGA
* * *
35958032 TGGCCGACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGGCCATTTGATGGC
1 TGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGACCATTTGATGGC
35958097 CAACACCAAAAAAATTTGAAATTTTTTT
66 CAACACCAAAAAAATTTGAAATTTTTTT
35958125 TTCTGGAACA
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 78 0.89
109 10 0.11
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (109 bp):
TGGCCAACACAAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGACCATTTGATGGC
CAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAATAGGGGGA
Found at i:35958106 original size:61 final size:61
Alignment explanation
Indices: 35958030--35958292 Score: 230
Period size: 61 Copynumber: 4.2 Consensus size: 61
35958020 AGAATAGGGG
* * *
35958030 GATGGCCGACACCAAAAAAATTTAAAATTTTTTTCTCGAGAATAGGGGGTGTCGGCCATTT
1 GATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTT
*
35958091 GATGGCCAACACCAAAAAAATTTGAAATTTTTTTTTCTG-GAACAGGGGGTGTCGGCCATGTCGG
1 GATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTC-GAGAACAGGGGGTGTCGGCCAT-T---
35958155 CCAT
61 ---T
* * * * * *
35958159 GCAATGGCCAACACC-CAAAAA--TGCAATTTTTTTTCTCGAAAAAAAGGAGTGTCGGCCATTT
1 G--ATGGCCAACACCAAAAAAATTTG-AAATTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTT
* * * * * **
35958220 GATGGCTAACACCAAAAAATTTTGAAATTTTTTTTTTGA-AACAGGGGATGTCGGCCATGC
1 GATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTT
*
35958280 AATGGCCAACACC
1 GATGGCCAACACC
35958293 CCAAATTTTT
Statistics
Matches: 162, Mismatches: 25, Indels: 31
0.74 0.11 0.14
Matches are distributed among these distances:
59 11 0.07
60 30 0.19
61 67 0.41
62 4 0.02
67 4 0.02
68 29 0.18
69 5 0.03
70 12 0.07
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (61 bp):
GATGGCCAACACCAAAAAAATTTGAAATTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTT
Found at i:35958212 original size:59 final size:58
Alignment explanation
Indices: 35958148--35958293 Score: 159
Period size: 59 Copynumber: 2.5 Consensus size: 58
35958138 GGTGTCGGCC
*
35958148 ATGTCGGCCATGCAATGGCCAACACCCAAAAA-TGCAATTTTTTTTCTCGAAAAAAAGG
1 ATGTCGGCCATGCAATGGCCAACACCCAAAAATTGAAATTTTTTTT-TCGAAAAAAAGG
*** * * * * **
35958206 AGTGTCGGCCATTTGATGGCTAACACCAAAAAATTTTGAAATTTTTTTTTTGAAACAGGGG
1 A-TGTCGGCCATGCAATGGCCAACACCCAAAAA--TTGAAATTTTTTTTTCGAAAAAAAGG
35958267 ATGTCGGCCATGCAATGGCCAACACCC
1 ATGTCGGCCATGCAATGGCCAACACCC
35958294 CAAATTTTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
58 1 0.01
59 26 0.38
60 21 0.30
61 9 0.13
62 12 0.17
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (58 bp):
ATGTCGGCCATGCAATGGCCAACACCCAAAAATTGAAATTTTTTTTTCGAAAAAAAGG
Found at i:35959988 original size:46 final size:46
Alignment explanation
Indices: 35959921--35960012 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
35959911 TTGTTCTCCA
35959921 ATCTTCATCTTTTTCTAGAAAACATCACAAACCCAGAAGCTCATCT
1 ATCTTCATCTTTTTCTAGAAAACATCACAAACCCAGAAGCTCATCT
* *
35959967 ATCTTCATCTTTTTCTAGAAAATATCACAAACCCAGAAGTTCATCT
1 ATCTTCATCTTTTTCTAGAAAACATCACAAACCCAGAAGCTCATCT
35960013 CTCAATCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (46 bp):
ATCTTCATCTTTTTCTAGAAAACATCACAAACCCAGAAGCTCATCT
Found at i:35966994 original size:28 final size:30
Alignment explanation
Indices: 35966962--35967023 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
35966952 AGCGGGGTTA
* * *
35966962 AAAACAGAGTTTTGGA-GAATTT-GGGATG
1 AAAACAGAATTTTCGAGGAATTTAGGGATC
*
35966990 AAAACATAATTTTCGAGGAATTTAGGGATC
1 AAAACAGAATTTTCGAGGAATTTAGGGATC
35967020 AAAA
1 AAAA
35967024 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 6 0.21
30 9 0.32
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
AAAACAGAATTTTCGAGGAATTTAGGGATC
Found at i:35967313 original size:118 final size:117
Alignment explanation
Indices: 35967103--35967383 Score: 354
Period size: 118 Copynumber: 2.4 Consensus size: 117
35967093 GGATGGTTGG
* * * * *
35967103 GGGT-AAAATAGTGATTTT-TGGAAGTTCAGGGGTAAAAAGGTA-ATTTTGTGAAGATTGTGGGT
1 GGGTAAAAAT-GT-ATTTTATGGAAGTTCAGGGGCAAAAATGTATTTTTTCTGAAGATTGAGGGT
* ** *
35967165 AAAAATGTGATTTTTGGAAGTATGGGGGTAAAAACGTGATTTTTAGAAGTTCAA
64 AAAAATATGATTTTTGGAAGTACAGGGGTAAAAACGTGATTTTTACAAGTTCAA
* * * *
35967219 GGGTAAAAATTTGTTTTATGGAATTTCAGGGGCAAAAATGTAGTTTTTTCTGAAGTTTGAGGGTA
1 GGGTAAAAATGTATTTTATGGAAGTTCAGGGGCAAAAATGTA-TTTTTTCTGAAGATTGAGGGTA
* *
35967284 AAAATATGATTTTTGGAAGTACAGGGGTAAAAATGTGATTTTTACAAGTTCGA
65 AAAATATGATTTTTGGAAGTACAGGGGTAAAAACGTGATTTTTACAAGTTCAA
* *
35967337 GGGTAAAAATGTATTTTATGGAAGTTCGGGGGC-AAAATGTAATTTTT
1 GGGTAAAAATGTATTTTATGGAAGTTCAGGGGCAAAAATGTATTTTTT
35967384 GAGAAGTTTA
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
115 4 0.03
116 31 0.22
117 13 0.09
118 93 0.66
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (117 bp):
GGGTAAAAATGTATTTTATGGAAGTTCAGGGGCAAAAATGTATTTTTTCTGAAGATTGAGGGTAA
AAATATGATTTTTGGAAGTACAGGGGTAAAAACGTGATTTTTACAAGTTCAA
Found at i:35967405 original size:30 final size:29
Alignment explanation
Indices: 35967073--35967623 Score: 352
Period size: 29 Copynumber: 18.7 Consensus size: 29
35967063 GGGAAAATTG
* * *
35967073 GGGGT-AAAATGGTAATTTTTGGATGGTTG
1 GGGGTAAAAAT-GTAATTTTTGGAAGTTTA
* *
35967102 GGGGT-AAAATAGTGATTTTTGGAAGTTCA
1 GGGGTAAAAAT-GTAATTTTTGGAAGTTTA
* *
35967131 GGGGTAAAAAGGTAA-TTTTGTGAAGATT-
1 GGGGTAAAAATGTAATTTTTG-GAAGTTTA
* * *
35967159 GTGGGTAAAAATGTGATTTTTGGAAGTATG
1 G-GGGTAAAAATGTAATTTTTGGAAGTTTA
* * * *
35967189 GGGGTAAAAACGTGATTTTTAGAAGTTCA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTA
* **
35967218 AGGGTAAAAAT-TTGTTTTATGGAA-TTTCA
1 GGGGTAAAAATGTAATTTT-TGGAAGTTT-A
* * *
35967247 GGGGCAAAAATGTAGTTTTTTCTGAAGTTT-
1 GGGGTAAAAATGTA-ATTTTT-GGAAGTTTA
* * **
35967277 GAGGGTAAAAATATGATTTTTGGAAGTACA
1 G-GGGTAAAAATGTAATTTTTGGAAGTTTA
* ** *
35967307 GGGGTAAAAATGTGATTTTTACAAG-TTC
1 GGGGTAAAAATGTAATTTTTGGAAGTTTA
*
35967335 GAGGGTAAAAATGT-ATTTTATGGAAG-TTC
1 G-GGGTAAAAATGTAATTTT-TGGAAGTTTA
**
35967364 GGGGGCAAAATGTAATTTTTGAGAAGTTTA
1 GGGGTAAAAATGTAATTTTTG-GAAGTTTA
* ** **
35967394 GGGGTCAAAATGTAATTTTTAAAAGCCTA
1 GGGGTAAAAATGTAATTTTTGGAAGTTTA
* * *
35967423 AGGGTTAAAATGTAATTTTTTGAAAGTTT-
1 GGGGTAAAAATGTAA-TTTTTGGAAGTTTA
*
35967452 GGGTGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGG-GTAAAAATGTAATTTTTGG-AAGTTTA
*
35967483 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGGGTAAAAATGTAATTTTTGG-AAGTTTA
* * * *
35967513 AGGGTTAAAATGTAATTTTTAGAAAATTT-
1 GGGGTAAAAATGTAATTTTT-GGAAGTTTA
** *
35967542 GGATGGTCGAAATATAATTTTTGGAAAGTTTA
1 GG--GGTAAAAATGTAATTTTTGG-AAGTTTA
* *
35967574 GGGGTTAAAATATAATTTTTGGAAAGTTTA
1 GGGGTAAAAATGTAATTTTTGG-AAGTTTA
* **
35967604 GGGGTTAAAACATAATTTTT
1 GGGGTAAAAATGTAATTTTT
35967624 TAATAGTTTA
Statistics
Matches: 423, Mismatches: 72, Indels: 53
0.77 0.13 0.10
Matches are distributed among these distances:
28 31 0.07
29 181 0.43
30 165 0.39
31 41 0.10
32 5 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTA
Found at i:35967495 original size:60 final size:60
Alignment explanation
Indices: 35967101--35967636 Score: 324
Period size: 60 Copynumber: 9.1 Consensus size: 60
35967091 TTGGATGGTT
* * * * * * *
35967101 GGGGGTAAAATAGTGATTTTTGG-AAGTTCAGGGGTAAAAAGGTAATTTTGTG-AAGATT-
1 GGGGTTAAAAT-GTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAAAGTTTA
* * * * * * * * *
35967159 GTGGGTAAAAATGTGATTTTTGG-AAGTATGGGGGTAAAAACGTGATTTTTAG-AAGTTCA
1 G-GGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAAAGTTTA
* * ** ** *
35967218 AGGGTAAAAAT-TTGTTTTATGG-AA-TTTCAGGGGCAAAAATGTAGTTTTTTCTG-AAGTTT-
1 GGGGTTAAAATGTAATTTT-TGGAAAGTTT-AGGGGTTAAAATGTA-ATTTTT-TGAAAGTTTA
* * * ** * * *
35967277 GAGGGTAAAAATATGATTTTTGG-AAGTACAGGGGTAAAAATGTGA-TTTTT-ACAAG-TTC
1 G-GGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGA-AAGTTTA
* * **
35967335 GAGGGTAAAAATGT-ATTTTATGG-AAG-TTCGGGGGCAAAATGTAA-TTTTTGAGAAGTTTA
1 G-GGGTTAAAATGTAATTTT-TGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGA-AAGTTTA
* * ** *
35967394 GGGGTCAAAATGTAATTTTT-AAAAGCCTAAGGGTTAAAATGTAATTTTTTGAAAGTTT-
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAAAGTTTA
*
35967452 GGGTGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGG-GTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAAAGTTTA
* * * ** * *
35967513 AGGGTTAAAATGTAATTTTTAGAAAATTT-GGATGGTCGAAATATAATTTTTGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTAGG--GGTTAAAATGTAATTTTTTGAAAGTTTA
* **
35967574 GGGGTTAAAATATAATTTTTGGAAAGTTTAGGGGTTAAAACATAATTTTTT-AATAGTTTA
1 GGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAA-AGTTTA
35967634 GGG
1 GGG
35967637 ACCTTTTGGG
Statistics
Matches: 386, Mismatches: 66, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
57 32 0.08
58 112 0.29
59 60 0.16
60 122 0.32
61 58 0.15
62 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (60 bp):
GGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTTGAAAGTTTA
Found at i:35967563 original size:31 final size:30
Alignment explanation
Indices: 35967364--35967623 Score: 197
Period size: 30 Copynumber: 8.7 Consensus size: 30
35967354 ATGGAAGTTC
* * *
35967364 GGGGGCAAAATGTAATTTTT-GAGAAGTTTA
1 GGGGTCAAAATATAATTTTTGGA-AAATTTA
* **
35967394 GGGGTCAAAATGTAATTTTT--AAAAGCCTA
1 GGGGTCAAAATATAATTTTTGGAAAA-TTTA
* * * * *
35967423 AGGGTTAAAATGTAATTTTTTGAAAGTTT-
1 GGGGTCAAAATATAATTTTTGGAAAATTTA
* * *
35967452 GGGTGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGG-GTCAAAATATAATTTTTGGAAAATTTA
* * *
35967483 GGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 GGGGTCAAAATATAATTTTTGGAAAATTTA
* * * *
35967513 AGGGTTAAAATGTAATTTTTAGAAAATTT-
1 GGGGTCAAAATATAATTTTTGGAAAATTTA
* *
35967542 GGATGGTCGAAATATAATTTTTGGAAAGTTTA
1 GG--GGTCAAAATATAATTTTTGGAAAATTTA
* *
35967574 GGGGTTAAAATATAATTTTTGGAAAGTTTA
1 GGGGTCAAAATATAATTTTTGGAAAATTTA
* *
35967604 GGGGTTAAAACATAATTTTT
1 GGGGTCAAAATATAATTTTT
35967624 TAATAGTTTA
Statistics
Matches: 199, Mismatches: 23, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
28 2 0.01
29 24 0.12
30 143 0.72
31 28 0.14
32 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.39
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTTGGAAAATTTA
Found at i:35967582 original size:91 final size:90
Alignment explanation
Indices: 35967369--35967623 Score: 352
Period size: 91 Copynumber: 2.8 Consensus size: 90
35967359 AGTTCGGGGG
* * **
35967369 CAAAATGTAATTTTT-GAGAAGTTTAGGGGTCAAAATGTAATTTTT-AAAAGCCTAAGGGTTAAA
1 CAAAATGTAATTTTTGGA-AAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAA
* * *
35967432 ATGTAATTTTTTGAAAGTTTGGGTGT
65 ATGTAATTTTTAGAAAATTTGGATGT
*
35967458 TAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAA
1 CAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAA
35967523 TGTAATTTTTAGAAAATTTGGATGGT
66 TGTAATTTTTAGAAAATTTGGAT-GT
* * * *
35967549 CGAAATATAATTTTTGGAAAGTTTAGGGGTTAAAATATAATTTTTGGAAAGTTTAGGGGTTAAAA
1 CAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAA
**
35967614 CATAATTTTT
66 TGTAATTTTT
35967624 TAATAGTTTA
Statistics
Matches: 148, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
89 40 0.27
90 38 0.26
91 70 0.47
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (90 bp):
CAAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAA
TGTAATTTTTAGAAAATTTGGATGT
Found at i:35967632 original size:30 final size:30
Alignment explanation
Indices: 35967010--35967636 Score: 322
Period size: 29 Copynumber: 21.2 Consensus size: 30
35967000 TTTCGAGGAA
* * * *
35967010 TTTAGGGATCAAAATTTAAATTTTTGGAAAA
1 TTTAGGGGTTAAAATGT-AATTTTTGGAAAG
* * *
35967041 TTT-GGGATTAAAAT-TGAACTTTGGGAAA-
1 TTTAGGGGTTAAAATGT-AATTTTTGGAAAG
* * *
35967069 ATT-GGGGGTAAAATGGTAATTTTTGG-ATG
1 TTTAGGGGTTAAAAT-GTAATTTTTGGAAAG
* * *
35967098 GTT-GGGGGTAAAATAGTGATTTTTGG-AAG
1 TTTAGGGGTTAAAAT-GTAATTTTTGGAAAG
* * *
35967127 TTCAGGGGTAAAAAGGTAA-TTTTGTG-AAG
1 TTTAGGGGTTAAAATGTAATTTTTG-GAAAG
* * *
35967156 ATT-GTGGGTAAAAATGTGATTTTTGG-AAG
1 TTTAG-GGGTTAAAATGTAATTTTTGGAAAG
* * * * * *
35967185 TATGGGGGTAAAAACGTGATTTTTAG-AAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
* * * **
35967214 TTCAAGGGTAAAAAT-TTGTTTTATGG-AA-
1 TTTAGGGGTTAAAATGTAATTTT-TGGAAAG
** * *
35967242 TTTCAGGGGCAAAAATGTAGTTTTTTCTG-AAG
1 TTT-AGGGGTTAAAATGTA-ATTTTT-GGAAAG
* * *
35967274 TTT-GAGGGTAAAAATATGATTTTTGG-AAG
1 TTTAG-GGGTTAAAATGTAATTTTTGGAAAG
** * *
35967303 TACAGGGGTAAAAATGTGATTTTT--ACAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGA-AAG
* *
35967332 -TTCGAGGGTAAAAATGT-ATTTTATGG-AAG
1 TTTAG-GGGTTAAAATGTAATTTT-TGGAAAG
* **
35967361 -TTCGGGGGCAAAATGTAATTTTT-GAGAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGA-AAG
* *
35967390 TTTAGGGGTCAAAATGTAATTTTT-AAAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
** * *
35967419 CCTAAGGGTTAAAATGTAATTTTTTGAAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
35967449 TTT-GGGTGTTAAAATGTAATTTTTGGAAAG
1 TTTAGGG-GTTAAAATGTAATTTTTGGAAAG
35967479 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
* * *
35967509 TTTAAGGGTTAAAATGTAATTTTTAGAAAA
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
** *
35967539 TTT-GGATGGTCGAAATATAATTTTTGGAAAG
1 TTTAGG--GGTTAAAATGTAATTTTTGGAAAG
*
35967570 TTTAGGGGTTAAAATATAATTTTTGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAAAG
** *
35967600 TTTAGGGGTTAAAACATAATTTTT-TAATAG
1 TTTAGGGGTTAAAATGTAATTTTTGGAA-AG
35967630 TTTAGGG
1 TTTAGGG
35967637 ACCTTTTGGG
Statistics
Matches: 483, Mismatches: 80, Indels: 67
0.77 0.13 0.11
Matches are distributed among these distances:
27 1 0.00
28 42 0.09
29 197 0.41
30 193 0.40
31 45 0.09
32 5 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTTGGAAAG
Found at i:35969308 original size:6 final size:6
Alignment explanation
Indices: 35969243--35969292 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
35969233 AAATTTAGGA
*
35969243 TAAATT TAAATT TAAGA-A TAAATT TAAATT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAA-ATT TAAATT TAAATT TAAATT TAAATT TAAATT
35969290 TAA
1 TAA
35969293 TAAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 6 0.15
6 32 0.82
7 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:35969314 original size:12 final size:11
Alignment explanation
Indices: 35969243--35969314 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
35969233 AAATTTAGGA
35969243 TAAATTTAAATT
1 TAAATTTAAA-T
*
35969255 TAAGA-ATAAATT
1 TAA-ATTTAAA-T
35969267 TAAATTTAAAT
1 TAAATTTAAAT
35969278 TAAATTTAAAT
1 TAAATTTAAAT
* * *
35969289 TTAA-TAAAAA
1 TAAATTTAAAT
35969299 TAAATTTAAACT
1 TAAATTTAAA-T
35969311 TAAA
1 TAAA
35969315 ATAAATCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 7 0.15
11 20 0.42
12 20 0.42
13 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:35969315 original size:17 final size:17
Alignment explanation
Indices: 35969228--35969325 Score: 106
Period size: 17 Copynumber: 5.5 Consensus size: 17
35969218 GAACATTATT
**
35969228 AATTTAAATTTAGGATA
1 AATTTAAATTTAAAATA
35969245 AATTTAAATTTAAGAATA
1 AATTTAAATTTAA-AATA
*
35969263 AATTTAAATTTAAATTA
1 AATTTAAATTTAAAATA
35969280 AATTTAAATTTAATAAAAATA
1 AATTTAAA-TT--T-AAAATA
*
35969301 AATTTAAACTTAAAATA
1 AATTTAAATTTAAAATA
*
35969318 AATCTAAA
1 AATTTAAA
35969326 ATAAAATGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
17 36 0.51
18 19 0.27
20 2 0.03
21 13 0.19
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:35969320 original size:21 final size:22
Alignment explanation
Indices: 35969273--35969320 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
35969263 AATTTAAATT
*
35969273 TAAATTAAATTTAAATTTAATAA
1 TAAA-TAAATTTAAACTTAATAA
35969296 -AAATAAATTTAAACTTAA-AA
1 TAAATAAATTTAAACTTAATAA
35969316 TAAAT
1 TAAAT
35969321 CTAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 18 0.78
22 3 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATAAATTTAAACTTAATAA
Found at i:35971840 original size:17 final size:17
Alignment explanation
Indices: 35971818--35971918 Score: 94
Period size: 17 Copynumber: 5.9 Consensus size: 17
35971808 TGTGGATTGT
*
35971818 TTTTAAATTTTAATTTA
1 TTTTAAATTTAAATTTA
*
35971835 TTTTAAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
* * *
35971852 TCTTAAATTTAAACTCA
1 TTTTAAATTTAAATTTA
* ***
35971869 CTTTGGGTTTAAATTTA
1 TTTTAAATTTAAATTTA
35971886 TTTTAAAATTTAAATTTA
1 TTTT-AAATTTAAATTTA
* *
35971904 CTTTAAATTAAAATT
1 TTTTAAATTTAAATT
35971919 AAAAAAAGTC
Statistics
Matches: 64, Mismatches: 19, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
17 51 0.80
18 13 0.20
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:35973659 original size:29 final size:29
Alignment explanation
Indices: 35973560--35973764 Score: 169
Period size: 29 Copynumber: 7.1 Consensus size: 29
35973550 CCCTAAAGGC
*
35973560 CCCTAAACTGTT-CAAAAAT-CATATTTTTA
1 CCCTAAACT-TTCCAAAAATAC-CATTTTTA
35973589 CCCCTAAACTTTCCAAAAATTA-CATTTTTGA
1 -CCCTAAACTTTCCAAAAA-TACCATTTTT-A
* **
35973620 -CCTTATTTTTCCAAAAATACCA-TTTTA
1 CCCTAAACTTTCCAAAAATACCATTTTTA
* *
35973647 CCCTCGAACTTT-CAAAAATCCCATTTTTGA
1 CCCT-AAACTTTCCAAAAATACCATTTTT-A
*
35973677 CCCTAAACTTTCTAAAAAATA-CATTTTTA
1 CCCTAAACTTTC-CAAAAATACCATTTTTA
*
35973706 CCCCTAAAC-TTCCAAAAATTCCATTTTTA
1 -CCCTAAACTTTCCAAAAATACCATTTTTA
* *
35973735 CCCT-AATTTTCCAAAATTACCA-TTTTA
1 CCCTAAACTTTCCAAAAATACCATTTTTA
35973762 CCC
1 CCC
35973765 CTTGAATGTC
Statistics
Matches: 145, Mismatches: 16, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
27 11 0.08
28 41 0.28
29 44 0.30
30 41 0.28
31 8 0.06
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATACCATTTTTA
Done.