Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr7
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: 32089248
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 951031 characters in sequence are not A, C, G, or T
File 82 of 100
Found at i:26765806 original size:46 final size:45
Alignment explanation
Indices: 26765753--26765969 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 45
26765743 ATTGTGAACT
* *
26765753 AGTGTAAGACATGTCTGGGGCATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGAGCC
* * * *
26765799 AGTGTAAGACCATGT-TCAGGACATAGCATTGG-CAGTAAGATGAGAGCT
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGGCCA--CAGATGAGAGCC
* * *
26765847 AGTGTAGGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGATG-AGAGCC
* * * *
26765893 AGTGTAAGACATGTCTGGGATATGCATCGGCTAC-GAGTTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-TGAGAGCC
*
26765937 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
26765970 ATCCTATCCC
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 15 0.11
45 13 0.09
46 60 0.44
47 25 0.18
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGAGCC
Found at i:26773423 original size:46 final size:45
Alignment explanation
Indices: 26773370--26773536 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
26773360 ATTGTGAGTT
* * *
26773370 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCA-GATGAGAGCC
** * * *
26773416 AGTGTAAGACCATGTCCAGTACATGGCATCGGCAGTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TCAGATGAGAGCC
* * *
26773464 AATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATC-AGATG-AGAGCC
*
26773510 AGTGTAAGACATGTCTGGGATATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
26773537 TAGCTACGAG
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 49 0.50
47 23 0.23
48 24 0.24
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAGATGAGAGCC
Found at i:26773461 original size:48 final size:46
Alignment explanation
Indices: 26773409--26773583 Score: 126
Period size: 46 Copynumber: 3.8 Consensus size: 46
26773399 GCAACATTAC
* * *
26773409 GAGAGCCAGTGTAAGACCATGTCCAGTACATGGCATCGGCAGT-GAGAT
1 GAGAGCCAGTGTAAGA-CATGTCCAGGACAT-GCATCAGC-CTCGAGAT
* * **
26773457 GAGAGCTAATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT
1 GAGAGCCAGTGTAAGACATGTCCAGGACATGCATCAGCCTCGAGAT
** * *
26773503 GTA-AGCCAGTGTAAGACATGTCTGGGATATGCATTAG-CTACGAG-T
1 G-AGAGCCAGTGTAAGACATGTCCAGGACATGCATCAGCCT-CGAGAT
* * *
26773548 TA-AGCTAGTGTAAGACCATGTTCAGGACATGGCATC
1 GAGAGCCAGTGTAAGA-CATGTCCAGGACAT-GCATC
26773584 GGCATCCTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 13 0.12
45 14 0.13
46 51 0.49
47 12 0.12
48 14 0.13
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCCAGGACATGCATCAGCCTCGAGAT
Found at i:26774589 original size:28 final size:29
Alignment explanation
Indices: 26774548--26774603 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
26774538 ACACAGGCTA
*
26774548 GGACACGGGTGTGT-C-ATGGCCGTGTGAG
1 GGACACGGGCGTGTGCTA-GGCCGTGTGAG
26774576 GGACACGGGCGTGTGCTAGGCCGTGTGA
1 GGACACGGGCGTGTGCTAGGCCGTGTGA
26774604 AAGCCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 11 0.44
30 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCGTGTGAG
Found at i:26777383 original size:5 final size:4
Alignment explanation
Indices: 26777357--26777390 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
26777347 AATTGTGTGA
26777357 AAAT AAAT AAAT AAAT AAAT AAAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT
26777391 GGTGACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:26781700 original size:15 final size:15
Alignment explanation
Indices: 26781682--26781714 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
26781672 TGAATGTTCT
26781682 AATGT-TGAGATTATG
1 AATGTGTGA-ATTATG
26781697 AATGTGTGAATTATG
1 AATGTGTGAATTATG
26781712 AAT
1 AAT
26781715 TAGTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (15 bp):
AATGTGTGAATTATG
Found at i:26783679 original size:46 final size:46
Alignment explanation
Indices: 26783620--26783790 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
26783610 ACATTTCATA
26783620 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * *
26783666 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
* * * *
26783712 GCCGATGCCATGTCCCAGACACGGTCTTAAACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTCTCAT-CTCGAG
* *
26783760 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
26783791 AGCGCACAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
46 56 0.53
47 26 0.25
48 22 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:26783767 original size:94 final size:92
Alignment explanation
Indices: 26783524--26783798 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 92
26783514 TAGGATGTAG
* * * * * **
26783524 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGACTATCAAAATCAAGACCGACACTATGTCC
1 TGCCGATGCCATGTCCCAGACA-GGTCTTAAACTGGCT-TCATAATCGAGGCCGATGC-ATGTCC
*
26783589 CAGACATGGTCTTACACT-G-ACACATTTCA
63 CAGACAT-GTCTTACACTAGCACACATCTCA
* * *
26783618 TAGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACAT-CTCGAGGCCGATGCATGTCCC
1 T-GCCGATGCCATGTCCCAGACAGGTCTTAAACTGGCTT-CATAATCGAGGCCGATGCATGTCCC
* * *
26783681 AGACATGTCTTACACTAGCTCTCGTCTCAA
64 AGACATGTCTTACACTAGCACACATCTC-A
* * *
26783711 TGCCGATGCCATGTCCCAGACACGGTCTTAAACTGGCTCTCATAAT-GTGGCTGATGCATGTCCT
1 TGCCGATGCCATGTCCCAGACA-GGTCTTAAACTGGCT-TCATAATCGAGGCCGATGCATGTCCC
*
26783775 AGACATGTCTTACACTAGCGCACA
64 AGACATGTCTTACACTAGCACACA
26783799 AATGACCCAA
Statistics
Matches: 150, Mismatches: 22, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
90 10 0.07
91 14 0.09
92 22 0.15
93 29 0.19
94 66 0.44
95 9 0.06
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACAGGTCTTAAACTGGCTTCATAATCGAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCA
Found at i:26785297 original size:40 final size:40
Alignment explanation
Indices: 26785253--26785400 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
26785243 GCAAACACAT
* * * *
26785253 TTGCCTTCTGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26785293 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
26785333 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
26785373 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
26785401 TCCAATGCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:26789851 original size:56 final size:56
Alignment explanation
Indices: 26789765--26789875 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
26789755 AAGTAGCTTC
26789765 GTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCATCGGTAATAACCGGT
1 GTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCATCGGTAATAACCGGT
* *
26789821 GTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGG
1 GTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCATCGGTAATAACCGG
26789876 CGAGCCCCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (56 bp):
GTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCATCGGTAATAACCGGT
Found at i:26801546 original size:20 final size:20
Alignment explanation
Indices: 26801516--26801567 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
26801506 ATATCATTAT
26801516 TATTT-ATTTATGTATTTTC
1 TATTTAATTTATGTATTTTC
* *
26801535 TATTTAATTTATTTTTTTTC
1 TATTTAATTTATGTATTTTC
26801555 TATCTTTAATTTA
1 TA--TTTAATTTA
26801568 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 14 0.50
22 9 0.32
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTAATTTATGTATTTTC
Found at i:26802269 original size:10 final size:10
Alignment explanation
Indices: 26802235--26802288 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
26802225 AAAAATCTTT
26802235 TAAAAATACA
1 TAAAAATACA
26802245 -AAAAGATCACA
1 TAAAA-AT-ACA
26802256 -AAAAATACA
1 TAAAAATACA
*
26802265 TAAAAATAAA
1 TAAAAATACA
*
26802275 TAAAAATAAA
1 TAAAAATACA
26802285 TAAA
1 TAAA
26802289 TTTTAGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
9 7 0.17
10 26 0.65
11 7 0.17
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (10 bp):
TAAAAATACA
Found at i:26803229 original size:18 final size:19
Alignment explanation
Indices: 26803206--26803242 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
26803196 GAATTTCTAA
26803206 AATTTTAGTTTTTT-TAAT
1 AATTTTAGTTTTTTGTAAT
26803224 AATTTTAGTTTTTTGTAAT
1 AATTTTAGTTTTTTGTAAT
26803243 TTATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
AATTTTAGTTTTTTGTAAT
Found at i:26803272 original size:18 final size:17
Alignment explanation
Indices: 26803208--26803274 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
26803198 ATTTCTAAAA
*
26803208 TTTTAGTTTTTTTAATAA
1 TTTTAGTTTTTTTAAT-T
26803226 TTTTAGTTTTTTGTAATT
1 TTTTAGTTTTTT-TAATT
* *
26803244 TATTA-TATTTTTAATGT
1 TTTTAGTTTTTTTAAT-T
26803261 TTTTAGGTTTTTTT
1 TTTTA-GTTTTTTT
26803275 GGATGACGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.10
17 10 0.25
18 16 0.40
19 10 0.25
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTTAGTTTTTTTAATT
Found at i:26803577 original size:17 final size:16
Alignment explanation
Indices: 26803555--26803589 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26803545 TGAAAAATAC
*
26803555 ATTATATTTGACATATA
1 ATTATATTAGA-ATATA
26803572 ATTATATTAGAATATA
1 ATTATATTAGAATATA
26803588 AT
1 AT
26803590 GCAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTATATTAGAATATA
Found at i:26803755 original size:16 final size:16
Alignment explanation
Indices: 26803734--26803769 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
26803724 AGAACACCTA
26803734 CAAGGTTAAGACTTTG
1 CAAGGTTAAGACTTTG
26803750 CAAGGTTAAGACTTTG
1 CAAGGTTAAGACTTTG
26803766 CAAG
1 CAAG
26803770 CCCACAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (16 bp):
CAAGGTTAAGACTTTG
Found at i:26806063 original size:40 final size:41
Alignment explanation
Indices: 26805992--26806072 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
26805982 GTTTACTGAT
* * ** **
26805992 TAATGTATATCTGATATTGTTACTGTGATGGG-TTAGGCCC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTTAGGCCC
26806032 TAATGCATATCTGATACTGAAACTGAAATGGGCTTAGGCCC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTTAGGCCC
26806073 AGACTGCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (41 bp):
TAATGCATATCTGATACTGAAACTGAAATGGGCTTAGGCCC
Found at i:26815868 original size:76 final size:76
Alignment explanation
Indices: 26815742--26815929 Score: 340
Period size: 76 Copynumber: 2.5 Consensus size: 76
26815732 TGAATACAAT
*
26815742 TTAAATAATAAAATGTAAGATTTGAAACTAATAATAGCATATGAATACAATTTACTTAAGTAATT
1 TTAAATAATGAAATGTAAGATTTGAAACTAATAATAGCATATGAATACAATTTACTTAAGTAATT
26815807 TATCAAAACAC
66 TATCAAAACAC
26815818 TTAAATAATGAAATGTAAGATTTGAAACTAATAATAGCATATGAATACAATTTACTTAAGTAATT
1 TTAAATAATGAAATGTAAGATTTGAAACTAATAATAGCATATGAATACAATTTACTTAAGTAATT
26815883 TATCAAAACAC
66 TATCAAAACAC
* **
26815894 TAAAATAATGAAATGTAAGATTCAAAACTAATAATA
1 TTAAATAATGAAATGTAAGATTTGAAACTAATAATA
26815930 ACACATATGC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 108 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (76 bp):
TTAAATAATGAAATGTAAGATTTGAAACTAATAATAGCATATGAATACAATTTACTTAAGTAATT
TATCAAAACAC
Found at i:26835257 original size:15 final size:16
Alignment explanation
Indices: 26835237--26835274 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
26835227 TTAATTTTGT
*
26835237 ATTTTAATTTC-ATCA
1 ATTTTAATTTCTATAA
26835252 ATTTTAATTTCTATAA
1 ATTTTAATTTCTATAA
26835268 ATTTTAA
1 ATTTTAA
26835275 AATTTTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAATTTCTATAA
Found at i:26842888 original size:16 final size:16
Alignment explanation
Indices: 26842867--26842897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26842857 TGCATTGGCG
*
26842867 AACACACATGGCGAAC
1 AACACAAATGGCGAAC
26842883 AACACAAATGGCGAA
1 AACACAAATGGCGAA
26842898 AATATATGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (16 bp):
AACACAAATGGCGAAC
Found at i:26845640 original size:25 final size:24
Alignment explanation
Indices: 26845606--26845652 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
26845596 GTGTGGGTCC
26845606 TAATCTGTATCTGTTTG-ATGTTTGA
1 TAATCTGTA--TGTTTGCATGTTTGA
26845631 TAATCTGTATGTTTGCATGTTT
1 TAATCTGTATGTTTGCATGTTT
26845653 AATGCTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (24 bp):
TAATCTGTATGTTTGCATGTTTGA
Found at i:26846179 original size:54 final size:54
Alignment explanation
Indices: 26846092--26846199 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
26846082 TTTTATCGAG
*
26846092 TTAGCTCCGTTTTCAAAATCCCTTTCATATGACATCGCTAGATTCGGCCATAAC
1 TTAGCTCCGTTTTCAAAATCCCTTTCATATGACATCGCCAGATTCGGCCATAAC
* *
26846146 TTAGCTCCGTTTTCAAAATTCCTTTCATGTGACATCGCCAGATTCGGCCATAAC
1 TTAGCTCCGTTTTCAAAATCCCTTTCATATGACATCGCCAGATTCGGCCATAAC
26846200 GTCTACGTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (54 bp):
TTAGCTCCGTTTTCAAAATCCCTTTCATATGACATCGCCAGATTCGGCCATAAC
Found at i:26851278 original size:47 final size:46
Alignment explanation
Indices: 26851204--26851332 Score: 138
Period size: 48 Copynumber: 2.8 Consensus size: 46
26851194 CTCAATCGAT
*
26851204 AAGTATTTATACCAT--CCGTAGCCAAATCAAGGTA-ACTTATCCA
1 AAGTACTTATACCATGGCCGTAGCCAAATCAAGGTACACTTATCCA
* * * *
26851247 GGAGTACTTATACCATGGCTCGTAGCTAAATCAAGGTATCTCTTCTCCA
1 -AAGTACTTATACCATGGC-CGTAGCCAAATCAAGGTA-CACTTATCCA
* *
26851296 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACTTATACCATGG-CCGTAGCCAAATCAAGGTA
26851333 TAAATTATAC
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
44 13 0.19
46 1 0.01
47 17 0.24
48 31 0.44
49 8 0.11
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (46 bp):
AAGTACTTATACCATGGCCGTAGCCAAATCAAGGTACACTTATCCA
Found at i:26851470 original size:21 final size:21
Alignment explanation
Indices: 26851444--26851501 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
26851434 TTTCCAATAC
26851444 CAAATCATAGTCGAATCA-TTT
1 CAAATCAT-GTCGAATCATTTT
*
26851465 CAAATCACTGTCAAATCATTTT
1 CAAATCA-TGTCGAATCATTTT
26851487 CAAATCATGGTCGAA
1 CAAATCAT-GTCGAA
26851502 CAAGTTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAATCATGTCGAATCATTTT
Found at i:26851494 original size:11 final size:11
Alignment explanation
Indices: 26851457--26851494 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26851447 ATCATAGTCG
26851457 AATCA-TTTCA
1 AATCATTTTCA
* *
26851467 AATCACTGTCA
1 AATCATTTTCA
26851478 AATCATTTTCA
1 AATCATTTTCA
26851489 AATCAT
1 AATCAT
26851495 GGTCGAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (11 bp):
AATCATTTTCA
Found at i:26852103 original size:21 final size:22
Alignment explanation
Indices: 26852054--26852101 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
26852044 TAGTATGCAT
26852054 AAAAACATAGAAATCCGACTAC
1 AAAAACATAGAAATCCGACTAC
26852076 AAAAACATAGAAATCCGAGCT-C
1 AAAAACATAGAAATCCGA-CTAC
26852098 AAAA
1 AAAA
26852102 CACTTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAACATAGAAATCCGACTAC
Found at i:26854885 original size:21 final size:21
Alignment explanation
Indices: 26854861--26854904 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
26854851 TTGTCTGTTC
*
26854861 TTTCTTTCTT-TTTCTATTTTA
1 TTTCTTTATTATTT-TATTTTA
26854882 TTTCTTTATTATTTTATTTTA
1 TTTCTTTATTATTTTATTTTA
26854903 TT
1 TT
26854905 ATTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTATTATTTTATTTTA
Found at i:26854896 original size:16 final size:16
Alignment explanation
Indices: 26854865--26854909 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
26854855 CTGTTCTTTC
*
26854865 TTTCTTTTTCTATTTTA
1 TTTCTTTAT-TATTTTA
26854882 TTTCTTTATTATTTTA
1 TTTCTTTATTATTTTA
26854898 TTT-TATTATTAT
1 TTTCT-TTATTAT
26854910 ATTTTAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 17 0.65
17 8 0.31
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTATTATTTTA
Found at i:26854902 original size:13 final size:13
Alignment explanation
Indices: 26854886--26854937 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
26854876 ATTTTATTTC
26854886 TTTATTATTTTAT
1 TTTATTATTTTAT
*
26854899 TTTATTATTATAT
1 TTTATTATTTTAT
*
26854912 TTTAGTAATTATTATT
1 TTTA-TTATT-TTA-T
26854928 TTTATTATTT
1 TTTATTATTT
26854938 ACTTATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 16 0.50
14 5 0.16
15 6 0.19
16 5 0.16
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:26854943 original size:17 final size:17
Alignment explanation
Indices: 26854891--26854944 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
26854881 ATTTCTTTAT
*
26854891 TATTTTATTTTATTATTA
1 TATTTTATTAT-TTATTA
* *
26854909 TATTTTAGTAATTATTA
1 TATTTTATTATTTATTA
26854926 T-TTTTATTATTTACTTA
1 TATTTTATTATTTA-TTA
26854943 TA
1 TA
26854945 ATATAAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 10 0.34
17 11 0.38
18 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTATTATTTATTA
Found at i:26855139 original size:20 final size:21
Alignment explanation
Indices: 26855114--26855166 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
26855104 TAATCCTTAC
26855114 ACTAAATTAACCTTAATT-AA
1 ACTAAATTAACCTTAATTAAA
*
26855134 ACTAAATTTA-CTTAATTAAA
1 ACTAAATTAACCTTAATTAAA
26855154 ATCT-AATTAACCT
1 A-CTAAATTAACCT
26855167 CTCACTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 7 0.25
20 17 0.61
21 4 0.14
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (21 bp):
ACTAAATTAACCTTAATTAAA
Found at i:26862094 original size:17 final size:18
Alignment explanation
Indices: 26862060--26862095 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26862050 TAACTTTTCC
*
26862060 CTTTTTCTTTTCTCATTT
1 CTTTTTCTTTCCTCATTT
26862078 CTTTTTCTTTCCT-ATTT
1 CTTTTTCTTTCCTCATTT
26862095 C
1 C
26862096 ATTCCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTCCTCATTT
Found at i:26862138 original size:24 final size:24
Alignment explanation
Indices: 26862122--26862183 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
26862112 TCTTTCTTTC
26862122 TTTT-TTATTTTATTTCTTTATTA
1 TTTTATTATTTTATTTCTTTATTA
*
26862145 TTTTATTATTTTATTATATTATATTA
1 TTTTATTATTTTATT-TCTT-TATTA
26862171 TTATTA-TATTTTA
1 TT-TTATTATTTTA
26862184 GTAATTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.12
24 10 0.29
25 3 0.09
26 14 0.41
27 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTATTATTTTATTTCTTTATTA
Found at i:26862149 original size:8 final size:8
Alignment explanation
Indices: 26862122--26862199 Score: 72
Period size: 8 Copynumber: 9.4 Consensus size: 8
26862112 TCTTTCTTTC
26862122 TTTT-TTA
1 TTTTATTA
26862129 TTTTATT-
1 TTTTATTA
26862136 TCTTTATTA
1 T-TTTATTA
26862145 TTTTATTA
1 TTTTATTA
26862153 TTTTATTA
1 TTTTATTA
26862161 TATTATATTA
1 T-TT-TATTA
26862171 TTATTA-TA
1 TT-TTATTA
*
26862179 TTTTAGTAA
1 TTTTA-TTA
26862188 TTATTATTA
1 TT-TTATTA
26862197 TTT
1 TTT
26862200 ACTTATAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
7 8 0.13
8 29 0.48
9 13 0.22
10 10 0.17
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (8 bp):
TTTTATTA
Found at i:26862153 original size:3 final size:3
Alignment explanation
Indices: 26862139--26862198 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
26862129 TTTTATTTCT
26862139 TTA TTA TT- TTA TTA TT- TTA TTA -TA TTA -TA TTA TTA TTA -TA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
26862181 TTA GTAA TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TT
26862199 TACTTATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 12 0.25
3 34 0.71
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26862164 original size:13 final size:13
Alignment explanation
Indices: 26862142--26862198 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
26862132 TATTTCTTTA
*
26862142 TTATTTTATTATT
1 TTATTATATTATT
*
26862155 TTATTATATTATA
1 TTATTATATTATT
26862168 TTATTAT-TATATT
1 TTATTATAT-TATT
*
26862181 TTAGTA-ATTATT
1 TTATTATATTATT
26862193 ATTATT
1 -TTATT
26862199 TACTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 5 0.14
13 31 0.86
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TTATTATATTATT
Found at i:26862198 original size:26 final size:27
Alignment explanation
Indices: 26862139--26862199 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
26862129 TTTTATTTCT
*
26862139 TTATTATTTTATTATTTTATTATATTA
1 TTATTATTTTATTATTTTAGTATATTA
26862166 -TATTATTATTA-TATTTTAGTA-ATTA
1 TTATTATT-TTATTATTTTAGTATATTA
26862191 TTATTATTT
1 TTATTATTT
26862200 ACTTATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 5 0.16
26 23 0.74
27 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATTATTTTATTATTTTAGTATATTA
Found at i:26862403 original size:20 final size:20
Alignment explanation
Indices: 26862378--26862428 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
26862368 ATCCTTACAC
*
26862378 TAAATTAACCTTAATTAAGA
1 TAAATTAACCTTAATTAAAA
*
26862398 TAAATTTA-CTTAATTAAAA
1 TAAATTAACCTTAATTAAAA
*
26862417 TCTAATTAACCT
1 T-AAATTAACCT
26862429 CTCACTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 11 0.44
20 12 0.48
21 2 0.08
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAATTAACCTTAATTAAAA
Found at i:26863668 original size:15 final size:15
Alignment explanation
Indices: 26863648--26863677 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26863638 CAATTTATTT
*
26863648 ATATTAGGATAATTA
1 ATATTAAGATAATTA
26863663 ATATTAAGATAATTA
1 ATATTAAGATAATTA
26863678 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:26863705 original size:27 final size:26
Alignment explanation
Indices: 26863644--26863706 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
26863634 ACTCCAATTT
26863644 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
26863671 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
26863699 ATTTTATT
1 ATTTTATT
26863707 TTAATTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:26866497 original size:20 final size:22
Alignment explanation
Indices: 26866457--26866497 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
26866447 TTAACCCCAT
26866457 ATGGTGTGTAGGGATGGATGGAG
1 ATGGTGTGTA-GGATGGATGGAG
26866480 ATGGTGTGTA-GA-GGATGG
1 ATGGTGTGTAGGATGGATGG
26866498 GGCTATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
23 10 0.56
ACGTcount: A:0.22, C:0.00, G:0.51, T:0.27
Consensus pattern (22 bp):
ATGGTGTGTAGGATGGATGGAG
Found at i:26868295 original size:35 final size:35
Alignment explanation
Indices: 26868251--26868319 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
26868241 TCTCCGGAGT
*
26868251 TTGGAAAATATGGAAAGTAATCTTCAAAGATATGC
1 TTGGAAAATATGGAAAGGAATCTTCAAAGATATGC
* * * *
26868286 TTGGCAAATATGGAATGGGATCTTGAAAGATATG
1 TTGGAAAATATGGAAAGGAATCTTCAAAGATATG
26868320 TGATCCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (35 bp):
TTGGAAAATATGGAAAGGAATCTTCAAAGATATGC
Found at i:26883328 original size:16 final size:17
Alignment explanation
Indices: 26883309--26883342 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26883299 ATTTGGAAAA
26883309 TCTAT-TATTGGCAAAC
1 TCTATATATTGGCAAAC
*
26883325 TCTATATTTTGGCAAAC
1 TCTATATATTGGCAAAC
26883342 T
1 T
26883343 TTACCCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TCTATATATTGGCAAAC
Found at i:26884569 original size:34 final size:34
Alignment explanation
Indices: 26884526--26884615 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
26884516 TAGTTCACTT
* * *
26884526 ATAACATAGGTTTGCATATCAGCATAAGTCATAC
1 ATAACATAGGTTCGCATAACAGAATAAGTCATAC
* * *
26884560 ATAACATAGGCTCGTATAACAGAATAATTCATAC
1 ATAACATAGGTTCGCATAACAGAATAAGTCATAC
*
26884594 ATAACATAGGTTCGCATCACAG
1 ATAACATAGGTTCGCATAACAG
26884616 TATAGTTTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (34 bp):
ATAACATAGGTTCGCATAACAGAATAAGTCATAC
Found at i:26884630 original size:34 final size:34
Alignment explanation
Indices: 26884558--26884690 Score: 106
Period size: 34 Copynumber: 3.9 Consensus size: 34
26884548 CATAAGTCAT
* * * * * * *
26884558 ACATAACATAGGCTCGTATAACAGAATAATTCAT
1 ACATAACATAGGTTCGCATCACAGTATAGTTTAC
*
26884592 ACATAACATAGGTTCGCATCACAGTATAGTTTGC
1 ACATAACATAGGTTCGCATCACAGTATAGTTTAC
** * **
26884626 ACATAGTATAGGTTCGCAT-ATAACATAGGTTTAC
1 ACATAACATAGGTTCGCATCACAGTATA-GTTTAC
* * *
26884660 ATATCACATGGGTTCGCATCACAGTATAGTT
1 ACATAACATAGGTTCGCATCACAGTATAGTT
26884691 CGCATATAGT
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
33 5 0.07
34 65 0.87
35 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (34 bp):
ACATAACATAGGTTCGCATCACAGTATAGTTTAC
Found at i:26884655 original size:17 final size:17
Alignment explanation
Indices: 26884633--26884737 Score: 86
Period size: 17 Copynumber: 6.2 Consensus size: 17
26884623 TGCACATAGT
26884633 ATAGGTTCGCATATAAC
1 ATAGGTTCGCATATAAC
** *
26884650 ATAGGTTTACATATCAC
1 ATAGGTTCGCATATAAC
* * **
26884667 ATGGGTTCGCATCACAGT
1 ATAGGTTCGCAT-ATAAC
**
26884685 ATA-GTTCGCATATAGT
1 ATAGGTTCGCATATAAC
* *
26884701 ATAGGTTTGCATATCAC
1 ATAGGTTCGCATATAAC
*
26884718 ATAGATTCGCATATAAC
1 ATAGGTTCGCATATAAC
26884735 ATA
1 ATA
26884738 ACAGGGCTCG
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
16 7 0.10
17 57 0.85
18 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (17 bp):
ATAGGTTCGCATATAAC
Found at i:26884692 original size:51 final size:52
Alignment explanation
Indices: 26884630--26884729 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
26884620 GTTTGCACAT
* *
26884630 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATGGGTTCGCATCAC
1 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCATCAC
** *
26884682 AGTATA-GTTCGCATATAGTATAGGTTTGCATATCACATAGATTCGCAT
1 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCAT
26884730 ATAACATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 37 0.86
52 6 0.14
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCATCAC
Found at i:26884697 original size:34 final size:33
Alignment explanation
Indices: 26884593--26884712 Score: 100
Period size: 34 Copynumber: 3.6 Consensus size: 33
26884583 ATAATTCATA
26884593 CATA-ACATAGGTTCGCATCACAGTATAGTTTG
1 CATATACATAGGTTCGCATCACAGTATAGTTTG
* * * ** *
26884625 CACATAGTATAGGTTCGCAT-ATAACATAGGTTTA
1 CATATA-CATAGGTTCGCATCACAGTATA-GTTTG
* *
26884659 CATATCACATGGGTTCGCATCACAGTATAGTTCG
1 CATAT-ACATAGGTTCGCATCACAGTATAGTTTG
* *
26884693 CATATAGTATAGGTTTGCAT
1 CATATA-CATAGGTTCGCAT
26884713 ATCACATAGA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.05
33 7 0.11
34 49 0.75
35 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (33 bp):
CATATACATAGGTTCGCATCACAGTATAGTTTG
Found at i:26884731 original size:68 final size:68
Alignment explanation
Indices: 26884594--26884737 Score: 207
Period size: 68 Copynumber: 2.1 Consensus size: 68
26884584 TAATTCATAC
* * *
26884594 ATAACATAGGTTCGCATCACAGTATAGTTTGCACATAGTATAGGTTCGCATATAACATAGGTTTA
1 ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
26884659 CAT
66 CAT
* * * * * *
26884662 ATCACATGGGTTCGCATCACAGTATAGTTCGCATATAGTATAGGTTTGCATATCACATAGATTCG
1 ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
26884727 CAT
66 CAT
26884730 ATAACATA
1 ATAACATA
26884738 ACAGGGCTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (68 bp):
ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
CAT
Found at i:26889839 original size:50 final size:49
Alignment explanation
Indices: 26889674--26889847 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 49
26889664 CTTCTCGATC
* ** *
26889674 AGTGGTTTACCCACAACATATTTTAGTC-GC-CAGTCACCTGTTTGACT
1 AGTGGTTTATCCACAATGTATTTTAGTCAGCACAGTCACCTGCTTGACT
* * *
26889721 AGTGGTTTATCCATAACT-TATTTTAGTCA--ACAGTCACCTACTCGAAC-
1 AGTGGTTTATCCACAA-TGTATTTTAGTCAGCACAGTCACCTGCTTG-ACT
* * * *
26889768 AGTGGTTTATCTACAACGTATTTTAGTCAGCAGTAGTCACTTGCTTGACT
1 AGTGGTTTATCCACAATGTATTTTAGTCAGCA-CAGTCACCTGCTTGACT
*
26889818 AGTGGTATATCCACAATGTATTTTAG-CAGC
1 AGTGGTTTATCCACAATGTATTTTAGTCAGC
26889848 TTTTATTTGT
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
47 60 0.59
48 2 0.02
49 7 0.07
50 33 0.32
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (49 bp):
AGTGGTTTATCCACAATGTATTTTAGTCAGCACAGTCACCTGCTTGACT
Found at i:26889841 original size:97 final size:94
Alignment explanation
Indices: 26889667--26889843 Score: 230
Period size: 97 Copynumber: 1.9 Consensus size: 94
26889657 AGTTTATCTT
* * *
26889667 CTCGATCAGTGGTTTACCCACAACATATTTTAGTCGCCAGTCACCTGTTTGACTAGTGGTTTATC
1 CTCGAACAGTGGTTTACCCACAACATATTTTAGTCGCCAGTCACCTGCTTGACTAGTGGTATATC
*
26889732 CATAACTTATTTTAGTCAACAGTCACCTA
66 CACAACTTATTTTAGTCAACAGTCACCTA
* * * * *
26889761 CTCGAACAGTGGTTTATCTACAACGTATTTTAGTCAGCAGTAGTCACTTGCTTGACTAGTGGTAT
1 CTCGAACAGTGGTTTACCCACAACATATTTTAGTC-GC--CAGTCACCTGCTTGACTAGTGGTAT
26889826 ATCCACAA-TGTATTTTAG
63 ATCCACAACT-TATTTTAG
26889844 CAGCTTTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 31 0.44
95 2 0.03
96 1 0.01
97 36 0.51
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (94 bp):
CTCGAACAGTGGTTTACCCACAACATATTTTAGTCGCCAGTCACCTGCTTGACTAGTGGTATATC
CACAACTTATTTTAGTCAACAGTCACCTA
Found at i:26895084 original size:27 final size:27
Alignment explanation
Indices: 26895054--26895182 Score: 159
Period size: 27 Copynumber: 4.7 Consensus size: 27
26895044 AAATTGTACA
26895054 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
26895081 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
26895108 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
* *
26895135 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
26895163 GCACTAAGTGTGCGATTTGA
1 GCACTAAGTGTGCGATTTGA
26895183 TTACGNNNNN
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 64 0.74
28 22 0.26
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:26917101 original size:13 final size:13
Alignment explanation
Indices: 26917083--26917107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26917073 GGTTTGTTTA
26917083 TTAAACTAATTAT
1 TTAAACTAATTAT
26917096 TTAAACTAATTA
1 TTAAACTAATTA
26917108 ATGGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:26919481 original size:18 final size:18
Alignment explanation
Indices: 26919458--26919494 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
26919448 TCAATTCTTT
26919458 AAGGTCCTATAATCAATA
1 AAGGTCCTATAATCAATA
26919476 AAGGTCCTATAATCAATA
1 AAGGTCCTATAATCAATA
26919494 A
1 A
26919495 TCATGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AAGGTCCTATAATCAATA
Found at i:26920064 original size:6 final size:6
Alignment explanation
Indices: 26920055--26920112 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
26920045 AATAAAATTG
* * * *
26920055 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AAATAA AACTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
26920103 ATA-AA AAATA
1 AAATAA AAATA
26920113 GGAGGATTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:26920070 original size:12 final size:11
Alignment explanation
Indices: 26920035--26920112 Score: 59
Period size: 12 Copynumber: 6.5 Consensus size: 11
26920025 TATGTCTTTC
26920035 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
26920048 AAAATTGAAAT
1 AAAATAAAAAT
26920059 GAAAATAAAAAT
1 -AAAATAAAAAT
*
26920071 CAAAAGAAAAAT
1 -AAAATAAAAAT
26920083 AAAAATAAAAAT
1 -AAAATAAAAAT
26920095 AAAACTAAATAA-
1 AAAA-TAAA-AAT
26920107 AAAATA
1 AAAATA
26920113 GGAGGATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
11 9 0.17
12 38 0.70
13 7 0.13
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:26921642 original size:20 final size:20
Alignment explanation
Indices: 26921604--26921642 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26921594 GGCTGTTGTA
* **
26921604 TGGTGGGCACGGGTGTGTGG
1 TGGTGAGCACGGGCATGTGG
26921624 TGGTGAGCACGGGCATGTG
1 TGGTGAGCACGGGCATGTG
26921643 ACGCGGAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.54, T:0.23
Consensus pattern (20 bp):
TGGTGAGCACGGGCATGTGG
Found at i:26925447 original size:13 final size:13
Alignment explanation
Indices: 26925429--26925466 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
26925419 GGTTTGTTTA
26925429 TTAAACTAATTAT
1 TTAAACTAATTAT
26925442 TTAAACTAATTAT
1 TTAAACTAATTAT
26925455 TTAAACTAATTA
1 TTAAACTAATTA
26925467 ACGGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:26931125 original size:19 final size:19
Alignment explanation
Indices: 26931098--26931134 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26931088 ATTCAATTTT
26931098 GAAAAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAAAGAAAA
* *
26931117 GAAAGAAAAAGAAAGAAA
1 GAAAAAAAAAAAAAGAAA
26931135 GAAGAAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAAAAGAAAA
Found at i:26931126 original size:10 final size:10
Alignment explanation
Indices: 26931098--26931140 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
26931088 ATTCAATTTT
*
26931098 GAAAAAAAAA
1 GAAAGAAAAA
*
26931108 AAAAG-AAAA
1 GAAAGAAAAA
26931117 GAAAGAAAAA
1 GAAAGAAAAA
26931127 GAAAGAAAGAA
1 GAAAGAAA-AA
26931138 GAA
1 GAA
26931141 GAAGAAGCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.29
10 15 0.54
11 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:26931146 original size:23 final size:23
Alignment explanation
Indices: 26931098--26931143 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26931088 ATTCAATTTT
26931098 GAAAAAAAAAAAAAGAAAAGAAA
1 GAAAAAAAAAAAAAGAAAAGAAA
* *
26931121 GAAAAAGAAAGAAAGAAGAAGAA
1 GAAAAAAAAAAAAAGAA-AAGAA
26931144 GAAGCGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAAAAAAAGAAAAGAAA
Found at i:26931477 original size:12 final size:12
Alignment explanation
Indices: 26931462--26931512 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
26931452 AGAAGAATAG
26931462 TAATATTATTAT
1 TAATATTATTAT
26931474 TAATATTGA-TAT
1 TAATATT-ATTAT
*
26931486 TAATAATATATTAA
1 TAAT-AT-TATTAT
*
26931500 TAATAATATTAT
1 TAATATTATTAT
26931512 T
1 T
26931513 GTTGCTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 20 0.62
13 5 0.16
14 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
TAATATTATTAT
Found at i:26934914 original size:27 final size:26
Alignment explanation
Indices: 26934897--26934966 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
26934887 ATATTAAGTC
26934897 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
26934924 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
26934952 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
26934967 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:26934960 original size:28 final size:28
Alignment explanation
Indices: 26934897--26934994 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
26934887 ATATTAAGTC
*
26934897 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26934924 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26934952 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26934981 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26934995 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26938422 original size:39 final size:40
Alignment explanation
Indices: 26938366--26938445 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
26938356 TAGGGTATAA
*
26938366 AATAAAATAATCCCAGAAAAATAATTAAAATGGCCTTATT
1 AATAAAATAATCCCAGAAAAATAATTAAAATGACCTTATT
*
26938406 AATAAAAT-ATCCCAGAAAAATAATTAAAATGATCTTATT
1 AATAAAATAATCCCAGAAAAATAATTAAAATGACCTTATT
26938445 A
1 A
26938446 CAACCCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (40 bp):
AATAAAATAATCCCAGAAAAATAATTAAAATGACCTTATT
Found at i:26938974 original size:27 final size:27
Alignment explanation
Indices: 26938944--26939139 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
26938934 GTGGTATCTC
26938944 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* * *
26938971 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
26938998 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
** * * * *
26939025 AATATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
*
26939052 GGTAACTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
*
26939079 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* **
26939106 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTT
26939133 GGTAATT
1 GGTAATT
26939140 TTGTAAACTA
Statistics
Matches: 145, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.02
27 142 0.98
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTT
Found at i:26939018 original size:54 final size:54
Alignment explanation
Indices: 26938936--26939112 Score: 264
Period size: 54 Copynumber: 3.3 Consensus size: 54
26938926 CACACCATGT
* *
26938936 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAG
* * * *
26938990 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATATTTCTACCTTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAG
* * *
26939044 GGTATTTCGGTAACTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAG
*
26939098 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
26939113 TTACAAACTA
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAG
Found at i:26939126 original size:54 final size:54
Alignment explanation
Indices: 26938960--26939409 Score: 267
Period size: 54 Copynumber: 8.3 Consensus size: 54
26938950 TCTACCCTAC
* * * * * * **
26938960 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC-
1 AGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTTGGTAATTTTA-CAAACT
*** * * * * * * **
26939014 AGGGGTATTTCAATATTTCTACCTTACAAGGGTATTTCGGTAACTCTACCCTAC-
1 AGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTTGGTAATTTTA-CAAACT
* *
26939068 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACAAACT
*** * * *
26939122 AGGGGTATTTTGGTAATT-TTGTAAACTAAGGGTATTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTCTACCATAC-AGGGGTATTTTGGTAATTTTACAAACT
* ** * *
26939175 CGAGGGTATTTCAGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTTATAAACT
1 AG-GGGTATTTTGGTAATTCTAC-CATA-CAGGGGTATTTTGGTAATTTTACAAACT
* * * * ** *
26939230 AAGGGTATTTTGGTAATTTTA-CAAACCAGGAGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTCTACCATA-CAGGGGTATTTTGGTAATTTTACAAACT
* * * * ** *
26939284 AAGGGTCTTTTGGTAATTTTACAAGT-C-GAGGGTATTTCAGTAATTTCACAAA-T
1 AGGGGTATTTTGGTAATTCTACCA-TACAG-GGGTATTTTGGTAATTTTACAAACT
* * *
26939337 CAGGGGTATTTTGGTAATT-T-CACAAACTAGGGGTATTTTGATAATTTTACAAACC
1 -AGGGGTATTTTGGTAATTCTAC-CATAC-AGGGGTATTTTGGTAATTTTACAAACT
26939392 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
26939410 TTGCTAATCG
Statistics
Matches: 320, Mismatches: 59, Indels: 34
0.77 0.14 0.08
Matches are distributed among these distances:
52 1 0.00
53 14 0.04
54 298 0.93
55 7 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTCTACCATACAGGGGTATTTTGGTAATTTTACAAACT
Found at i:26939140 original size:27 final size:27
Alignment explanation
Indices: 26939068--26939411 Score: 347
Period size: 27 Copynumber: 12.7 Consensus size: 27
26939058 TCTACCCTAC
* * **
26939068 AGGGGTATTTTAGTAATTCTACCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACT
26939095 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
**
26939122 AGGGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
26939149 AAGGGTATTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
26939175 CGAGGGTATTTCAGTAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
26939202 CAGGGGTATTTTGGTAATTTTATAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
26939230 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
26939257 AGGAGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
26939284 AAGGGTCTTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
26939310 CGAGGGTATTTCAGTAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
26939337 CAGGGGTATTTTGGTAATTTCACAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
26939365 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
26939392 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
26939412 GCTAATCGAG
Statistics
Matches: 261, Mismatches: 47, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.03
27 245 0.94
28 8 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:26939464 original size:135 final size:134
Alignment explanation
Indices: 26939095--26939412 Score: 555
Period size: 135 Copynumber: 2.4 Consensus size: 134
26939085 TCTACCCTAC
*
26939095 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC-AAGGGTATTTT
* *
26939160 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTAT
65 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
26939225 AAACT
130 AAACT
* * *
26939230 AAGGGTATTTTGGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTGTAAACCAAGGGTCTTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAA-CAAGGGTATTTT
26939295 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
65 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
26939360 AAACT
130 AAACT
*
26939365 AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
26939413 CTAATCGAGG
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
135 172 0.99
136 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (134 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACAAGGGTATTTTG
GTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCACA
AACT
Found at i:26942378 original size:20 final size:21
Alignment explanation
Indices: 26942355--26942404 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
26942345 AATAAACACC
*
26942355 AAAAAATTATTTTAAAA-ATA
1 AAAAAAGTATTTTAAAAGATA
26942375 AAAAAAGTATTTTAAAAGATA
1 AAAAAAGTATTTTAAAAGATA
26942396 ATAAAAAGT
1 A-AAAAAGT
26942405 GGTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 16 0.59
21 4 0.15
22 7 0.26
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAGATA
Found at i:26942465 original size:23 final size:23
Alignment explanation
Indices: 26942417--26942462 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
26942407 TTATATTAAA
**
26942417 ATTAAAAATAAAATGTAAATATT
1 ATTAAAAATAAAATAAAAATATT
26942440 ATTAAAAATAAAAATAAAAATAT
1 ATTAAAAAT-AAAATAAAAATAT
26942463 ATTTAGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATT
Found at i:26943506 original size:7 final size:7
Alignment explanation
Indices: 26943494--26943526 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
26943484 TACAGCTGCA
26943494 TCTTTGT
1 TCTTTGT
26943501 TCTTTGT
1 TCTTTGT
26943508 TCTTTGT
1 TCTTTGT
*
26943515 TCTTCGT
1 TCTTTGT
26943522 TCTTT
1 TCTTT
26943527 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.70
Consensus pattern (7 bp):
TCTTTGT
Found at i:26945389 original size:46 final size:45
Alignment explanation
Indices: 26945322--26945412 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
26945312 CATCAACAAT
26945322 CGTTAAATCATGTTATTCCATTAACAAAAAAGTTAACGTGTAGGG
1 CGTTAAATCATGTTATTCCATTAACAAAAAAGTTAACGTGTAGGG
26945367 NCGTTAAATCATGTTATTCCATTAACAAAAAAGTTAACGTGTAGGG
1 -CGTTAAATCATGTTATTCCATTAACAAAAAAGTTAACGTGTAGGG
26945413 ATTGAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (45 bp):
CGTTAAATCATGTTATTCCATTAACAAAAAAGTTAACGTGTAGGG
Found at i:26949939 original size:21 final size:22
Alignment explanation
Indices: 26949915--26949959 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
26949905 TATTTAAACC
*
26949915 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
26949936 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
26949958 AA
1 AA
26949960 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:26953814 original size:17 final size:16
Alignment explanation
Indices: 26953792--26953823 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
26953782 TCCTTAAATG
26953792 GTTTATTTACCATTTAA
1 GTTTATTTACC-TTTAA
26953809 GTTTATTTACCTTTA
1 GTTTATTTACCTTTA
26953824 TTCATTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
GTTTATTTACCTTTAA
Found at i:26955667 original size:15 final size:15
Alignment explanation
Indices: 26955647--26955678 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26955637 TAAATTAGTT
26955647 CAAACTATAGAAACA
1 CAAACTATAGAAACA
*
26955662 CAAACTGTAGAAACA
1 CAAACTATAGAAACA
26955677 CA
1 CA
26955679 GTGCGGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.09, T:0.12
Consensus pattern (15 bp):
CAAACTATAGAAACA
Found at i:26955824 original size:20 final size:20
Alignment explanation
Indices: 26955796--26955833 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26955786 TACAGAATAA
26955796 AATAAAC-AACACATTTCATC
1 AATAAACAAACA-ATTTCATC
*
26955816 AATACACAAACAATTTCA
1 AATAAACAAACAATTTCA
26955834 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAACAAACAATTTCATC
Found at i:26960290 original size:28 final size:28
Alignment explanation
Indices: 26960248--26960308 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
26960238 CTATTCAGTA
* * *
26960248 ACAGT-ACAGTGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
26960275 ACAGTAACAATGTGGGCCTTAACCCAAT
1 ACAGTAACAATGTGGGCCTTAACCCAAT
*
26960303 ATAGTA
1 ACAGTA
26960309 TCGGTGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAACCCAAT
Found at i:26960445 original size:26 final size:26
Alignment explanation
Indices: 26960416--26960496 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
26960406 AACACACCAA
*
26960416 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
26960442 TATCGCAGCGAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
26960468 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
26960494 TAT
1 TAT
26960497 ACTTCTTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:26960763 original size:27 final size:27
Alignment explanation
Indices: 26960662--26960772 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
26960652 GTATAACAGC
* *
26960662 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
26960689 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
*
26960716 CATTTTACCTTATGGGGGTAATTCGGT
1 CATTTTACCCTATGGGGGTAATTCGGT
* *
26960743 CCTTTTACCCTATGGGGGTAATTCAGT
1 CATTTTACCCTATGGGGGTAATTCGGT
26960770 CAT
1 CAT
26960773 ACCAGTGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTAATTCGGT
Found at i:26961652 original size:18 final size:18
Alignment explanation
Indices: 26961629--26961670 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
26961619 TTCGGTAATC
*
26961629 AAAGAAG-AGAGAAAGTAA
1 AAAGAAGAAGAAAAAG-AA
26961647 AAAGAAAGAAGAAAAAGAA
1 AAAG-AAGAAGAAAAAGAA
26961666 AAAGA
1 AAAGA
26961671 TGAGGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAGAA
Found at i:26965896 original size:21 final size:20
Alignment explanation
Indices: 26965872--26965913 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
26965862 TAGAGACAAA
26965872 ATCAGATAAAC-AACACATTTC
1 ATCA-ATAAACAAACA-ATTTC
*
26965893 ATCAATACACAAACAATTTC
1 ATCAATAAACAAACAATTTC
26965913 A
1 A
26965914 CATTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (20 bp):
ATCAATAAACAAACAATTTC
Found at i:26966681 original size:18 final size:19
Alignment explanation
Indices: 26966646--26966683 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26966636 TCTTGTGTTA
*
26966646 TCTTCTATTCTTCTGTTGC
1 TCTTCTATTCTTCAGTTGC
*
26966665 TCTTTTATT-TTCAGTTGC
1 TCTTCTATTCTTCAGTTGC
26966683 T
1 T
26966684 TCCATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.21, G:0.11, T:0.61
Consensus pattern (19 bp):
TCTTCTATTCTTCAGTTGC
Found at i:26973169 original size:29 final size:29
Alignment explanation
Indices: 26973133--26973207 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
26973123 ATGGGAAGCA
*
26973133 AAAATCAAAGAACCACTTCAATAGAAGAG
1 AAAATCAAGGAACCACTTCAATAGAAGAG
* ** * *
26973162 GAAATCAAGGAACTTCTTCAATATAAGAT
1 AAAATCAAGGAACCACTTCAATAGAAGAG
*
26973191 AAAATCAAGGAATCACT
1 AAAATCAAGGAACCACT
26973208 ACACCTAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (29 bp):
AAAATCAAGGAACCACTTCAATAGAAGAG
Found at i:26978987 original size:138 final size:138
Alignment explanation
Indices: 26978735--26979010 Score: 543
Period size: 138 Copynumber: 2.0 Consensus size: 138
26978725 TCTTAACATA
26978735 ATGTCCATATGATCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCATTTATATAAT
1 ATGTCCATATGATCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCATTTATATAAT
*
26978800 TTATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCTAAATCTACATCACTGCTGCT
66 TTATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCAAAATCTACATCACTGCTGCT
26978865 GCCAGCAT
131 GCCAGCAT
26978873 ATGTCCATATGATCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCATTTATATAAT
1 ATGTCCATATGATCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCATTTATATAAT
26978938 TTATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCAAAATCTACATCACTGCTGCT
66 TTATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCAAAATCTACATCACTGCTGCT
26979003 GCCAGCAT
131 GCCAGCAT
26979011 CTGCCTTTAA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.42
Consensus pattern (138 bp):
ATGTCCATATGATCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCATTTATATAAT
TTATTCATTATTTAATTCCAATCCTACTATTTTTAGTGATTTTCAAAATCTACATCACTGCTGCT
GCCAGCAT
Found at i:26988945 original size:40 final size:40
Alignment explanation
Indices: 26988824--26988945 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
26988814 CCGAATGCAC
26988824 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
26988864 AACACCAGTACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
26988904 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
26988944 AT
1 AT
26988946 AACTCTCAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:26990277 original size:37 final size:37
Alignment explanation
Indices: 26990220--26990320 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
26990210 CGAATAGTCC
* * * *
26990220 CCACACGTAGTTATCAGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
* *
26990257 CCACACGTAGTCATCGGGTCTTACCCGAACATAATTT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
26990294 CCACACGTAGTCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
26990321 GAATATATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
Found at i:26990331 original size:37 final size:36
Alignment explanation
Indices: 26990220--26990333 Score: 140
Period size: 37 Copynumber: 3.1 Consensus size: 36
26990210 CGAATAGTCC
* * * * *
26990220 CCACACGTAGTTATCAGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGA-AATATTT
26990257 CCACACGTAGTCATCGGGTCTTACCC-GAACATAATTT
1 CCACACGTAGTCATCGGGTCTTACCCGGAA-AT-ATTT
26990294 CCACACGTAGTCATCGGGTCTTACCCGGAATATATTT
1 CCACACGTAGTCATCGGGTCTTACCCGGAA-ATATTT
26990331 CCA
1 CCA
26990334 AGTTTCATGT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
35 1 0.01
36 3 0.04
37 59 0.87
38 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (36 bp):
CCACACGTAGTCATCGGGTCTTACCCGGAAATATTT
Found at i:26990524 original size:48 final size:48
Alignment explanation
Indices: 26990463--26991223 Score: 1261
Period size: 48 Copynumber: 15.9 Consensus size: 48
26990453 ATATACACAC
* *
26990463 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
26990511 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
26990559 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
26990607 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
26990655 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
26990703 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
26990751 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
26990799 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
26990847 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
26990895 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
26990943 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
26990991 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
26991039 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
26991087 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
26991135 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
26991183 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
26991224 CACATATATA
Statistics
Matches: 677, Mismatches: 36, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 677 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:26991473 original size:44 final size:44
Alignment explanation
Indices: 26991418--26991504 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
26991408 ATAGACTCAT
* * *
26991418 ATATCTTCCATCCATAAAATTTTCAGAATTTTAGGTTTTGCCAG
1 ATATATTCCATCCATAAAATTTCCAGAATTTTAGGTTTGGCCAG
26991462 ATATATTCCATCCATAAAATTTCCAGAATTTTAGGTTTGGCCA
1 ATATATTCCATCCATAAAATTTCCAGAATTTTAGGTTTGGCCA
26991505 ATCAATACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (44 bp):
ATATATTCCATCCATAAAATTTCCAGAATTTTAGGTTTGGCCAG
Found at i:26994876 original size:40 final size:40
Alignment explanation
Indices: 26994694--26994876 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 40
26994684 CCAGCATGAT
* * * * *
26994694 TGCTCTTCGGGACCTAGCCCGGGTATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*** *
26994734 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
26994774 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
26994814 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
26994855 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
26994877 CATCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 109 0.89
41 8 0.07
42 6 0.05
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:26995221 original size:29 final size:29
Alignment explanation
Indices: 26995182--26995260 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
26995172 CTTAATAATC
*
26995182 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
26995212 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
26995241 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
26995261 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:26995295 original size:43 final size:43
Alignment explanation
Indices: 26995242--26995344 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
26995232 TGCATTTCAA
*
26995242 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACATTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26995285 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
26995328 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
26995345 TGATAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:27000094 original size:19 final size:19
Alignment explanation
Indices: 27000070--27000106 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27000060 AGTATGGGGT
27000070 ACACAATTAGGGTTAGAAA
1 ACACAATTAGGGTTAGAAA
27000089 ACACAATTAGGGTTAGAA
1 ACACAATTAGGGTTAGAA
27000107 TGCTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
ACACAATTAGGGTTAGAAA
Found at i:27007453 original size:27 final size:27
Alignment explanation
Indices: 27007414--27007493 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
27007404 AATTTTTGAG
*
27007414 TTTGACTATGTAGCACTAAGTGTGCGA
1 TTTGATTATGTAGCACTAAGTGTGCGA
*
27007441 TTTGATTACGTAGCACTAAGTGTGCGA
1 TTTGATTATGTAGCACTAAGTGTGCGA
* * *
27007468 GTTGATTATATAGCACTGAGTGTGCG
1 TTTGATTATGTAGCACTAAGTGTGCG
27007494 GACTCAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (27 bp):
TTTGATTATGTAGCACTAAGTGTGCGA
Found at i:27015341 original size:27 final size:27
Alignment explanation
Indices: 27015282--27015433 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
27015272 TAAATTGTAC
*
27015282 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
27015310 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
27015337 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
27015364 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
27015392 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
27015419 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27015434 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:27015348 original size:55 final size:55
Alignment explanation
Indices: 27015282--27015433 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
27015272 TAAATTGTAC
27015282 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
27015337 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
27015392 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
27015434 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:27015396 original size:82 final size:82
Alignment explanation
Indices: 27015282--27015433 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
27015272 TAAATTGTAC
* *
27015282 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
27015347 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
27015364 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
27015429 GTGCG
66 GTGCG
27015434 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:27017738 original size:12 final size:12
Alignment explanation
Indices: 27017723--27017753 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27017713 CATGTCCTAG
*
27017723 CCCGTGTCTTTA
1 CCCGTGTCCTTA
27017735 CCCGTGTCCTTA
1 CCCGTGTCCTTA
27017747 CCCGTGT
1 CCCGTGT
27017754 AACACCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.35
Consensus pattern (12 bp):
CCCGTGTCCTTA
Found at i:27027353 original size:43 final size:43
Alignment explanation
Indices: 27027300--27027567 Score: 218
Period size: 43 Copynumber: 6.4 Consensus size: 43
27027290 GAAACGCCAT
* * *
27027300 TAAAAAACATGACCTTTAGTGGCTCTTTTCCCACAAACTCCGC
1 TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACTCCGC
* * ** * *
27027343 TAAAGAACATGACCTTTAGTGGCGCTTTTATCACAAACGCCGT
1 TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACTCCGC
* * * *
27027386 TAAAGAACATGACCTTTAACGGCACTTTTCCCACAAGCCCCAC
1 TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACTCCGC
**
27027429 TAAAGAACATGACCTTT------ACTTTTCCCACAAA-TGTTGC
1 TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACT-CCGC
* * *
27027466 TAAAGAACATGACCTTTAGCGACGC-TTTCCCACAAA-TGCCAC
1 TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACT-CCGC
* * *
27027508 TATA-AA-ATAAACCTTTAGCGGCACTTTTCTCACAAACGT-CGC
1 TAAAGAACAT-GACCTTTAGCGGCACTTTTCCCACAAAC-TCCGC
*
27027550 TAAAGAATATGACCTTTA
1 TAAAGAACATGACCTTTA
27027568 AAAATATATA
Statistics
Matches: 180, Mismatches: 32, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
37 31 0.17
40 2 0.01
41 14 0.08
42 32 0.18
43 98 0.54
44 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (43 bp):
TAAAGAACATGACCTTTAGCGGCACTTTTCCCACAAACTCCGC
Found at i:27029801 original size:14 final size:14
Alignment explanation
Indices: 27029782--27029813 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27029772 ATAAGTCGAG
27029782 ATTATGTATATGAT
1 ATTATGTATATGAT
27029796 ATTATGTATATGAT
1 ATTATGTATATGAT
27029810 ATTA
1 ATTA
27029814 ATACCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATTATGTATATGAT
Found at i:27031507 original size:15 final size:15
Alignment explanation
Indices: 27031489--27031541 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
27031479 TGCTAAAATA
* *
27031489 TTAAATATTAAATTT
1 TTAAATTTTTAATTT
*
27031504 TTAAGTTTTTAATTT
1 TTAAATTTTTAATTT
* *
27031519 TTTAATTTTTTATTT
1 TTAAATTTTTAATTT
27031534 TTAAATTT
1 TTAAATTT
27031542 CAAAATTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:27031569 original size:9 final size:8
Alignment explanation
Indices: 27031496--27031576 Score: 67
Period size: 8 Copynumber: 9.9 Consensus size: 8
27031486 ATATTAAATA
27031496 TTAAATTT
1 TTAAATTT
*
27031504 TTAAGTTT
1 TTAAATTT
27031512 TT-AATTT
1 TTAAATTT
*
27031519 TTTAATTT
1 TTAAATTT
*
27031527 TT-TATTT
1 TTAAATTT
27031534 TTAAATTT
1 TTAAATTT
**
27031542 CAAAATTTT
1 TTAAA-TTT
27031551 TTGAAGATTT
1 TT-AA-ATTT
27031561 TTATAATTT
1 TTA-AATTT
27031570 TTAAATT
1 TTAAATT
27031577 AAAGTATAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
7 12 0.20
8 27 0.46
9 11 0.19
10 8 0.14
11 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (8 bp):
TTAAATTT
Found at i:27032232 original size:21 final size:21
Alignment explanation
Indices: 27032208--27032254 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27032198 CCCAAATATC
* *
27032208 AAACCCCAAATCCTAGTCCAT
1 AAACCCCAAATCATAGACCAT
*
27032229 AAACCCTAAATCATAGACCAT
1 AAACCCCAAATCATAGACCAT
27032250 AAACC
1 AAACC
27032255 TACACCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (21 bp):
AAACCCCAAATCATAGACCAT
Found at i:27032627 original size:7 final size:7
Alignment explanation
Indices: 27032617--27032648 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27032607 AAACCCTAAA
27032617 CCCCTAT
1 CCCCTAT
27032624 CCCCTAT
1 CCCCTAT
27032631 CCCCTAT
1 CCCCTAT
27032638 CCCCTAT
1 CCCCTAT
27032645 CCCC
1 CCCC
27032649 ATAAACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.62, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCCTAT
Found at i:27032665 original size:14 final size:14
Alignment explanation
Indices: 27032647--27032758 Score: 70
Period size: 14 Copynumber: 7.9 Consensus size: 14
27032637 TCCCCTATCC
27032647 CCATAAACCCTAAA
1 CCATAAACCCTAAA
* ***
27032661 TCATAAAATATAAA
1 CCATAAACCCTAAA
27032675 CCATAAACCC-ATAA
1 CCATAAACCCTA-AA
*
27032689 CCATTAATCCCT-AA
1 CCA-TAAACCCTAAA
* *
27032703 CTCCTAAACCTTAAAA
1 C-CATAAACCCT-AAA
*
27032719 CC--CAACCCTTAAA
1 CCATAAACCC-TAAA
*
27032732 CCATAAACCATAAA
1 CCATAAACCCTAAA
27032746 CCATAAACCCTAA
1 CCATAAACCCTAA
27032759 TGATAATTAA
Statistics
Matches: 72, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
13 10 0.14
14 47 0.65
15 12 0.17
16 3 0.04
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (14 bp):
CCATAAACCCTAAA
Found at i:27032686 original size:8 final size:7
Alignment explanation
Indices: 27032647--27032754 Score: 60
Period size: 7 Copynumber: 15.3 Consensus size: 7
27032637 TCCCCTATCC
27032647 CCATAAA
1 CCATAAA
*
27032654 CCCTAAA
1 CCATAAA
*
27032661 TCATAAA
1 CCATAAA
**
27032668 ATATAAA
1 CCATAAA
27032675 CCATAAA
1 CCATAAA
27032682 CCCAT-AA
1 -CCATAAA
*
27032689 CCATTAAT
1 CCA-TAAA
*
27032697 CCCT-AA
1 CCATAAA
*
27032703 CTCCTAAA
1 C-CATAAA
*
27032711 CCTTAAAA
1 CCAT-AAA
* *
27032719 CC-CAAC
1 CCATAAA
*
27032725 CCTTAAA
1 CCATAAA
27032732 CCATAAA
1 CCATAAA
27032739 CCATAAA
1 CCATAAA
27032746 CCATAAA
1 CCATAAA
27032753 CC
1 CC
27032755 CTAATGATAA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
6 9 0.12
7 54 0.69
8 15 0.19
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (7 bp):
CCATAAA
Found at i:27033120 original size:40 final size:40
Alignment explanation
Indices: 27033065--27033247 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 40
27033055 TTTTGCGGCG
* * *
27033065 TTTTCATAAA-CGCCGCTAAAGCTCGATCTATAGCGGCAT
1 TTTTCAAAAACCGCCGCTAATGCTCGACCTATAGCGGCAT
* * * *
27033104 TTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGTGGCGT
1 TTTTCAAAAACCGCCGCTAATGCTCGACCTATAGCGGCAT
* *
27033144 TTTTCAAAAACCGTCC-CTAATGGTCGACCTATAACGGCATT
1 TTTTCAAAAACCG-CCGCTAATGCTCGACCTATAGCGGCA-T
* * * * *
27033185 TTTTTAAAAACCGCCGCTAATGCTCAATCTATAGCAGCGT
1 TTTTCAAAAACCGCCGCTAATGCTCGACCTATAGCGGCAT
*
27033225 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAACCGCCGCTAATGC
27033248 CTCTAAAGCT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.07
40 80 0.66
41 32 0.26
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
TTTTCAAAAACCGCCGCTAATGCTCGACCTATAGCGGCAT
Found at i:27033245 original size:81 final size:79
Alignment explanation
Indices: 27033065--27033247 Score: 215
Period size: 81 Copynumber: 2.3 Consensus size: 79
27033055 TTTTGCGGCG
* * * * * * *
27033065 TTTTCATAAACGCCGCTAAAGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCCGCTAATGGTCG
1 TTTTCAAAAACGCCGCTAATGCTCGACCTATAACGGCATTTTTCAAAAACCGCCGCTAATGCTCA
**
27033130 ACCTATAGTGGCGT
66 ACCTATAGCAGCGT
* *
27033144 TTTTCAAAAACCGTCC-CTAATGGTCGACCTATAACGGCATTTTTTTAAAAACCGCCGCTAATGC
1 TTTTCAAAAA-CG-CCGCTAATGCTCGACCTATAACGGCA-TTTTTCAAAAACCGCCGCTAATGC
*
27033208 TCAATCTATAGCAGCGT
63 TCAACCTATAGCAGCGT
27033225 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAA-CGCCGCTAATGC
27033248 CTCTAAAGCT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 9 0.10
80 23 0.27
81 54 0.63
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (79 bp):
TTTTCAAAAACGCCGCTAATGCTCGACCTATAACGGCATTTTTCAAAAACCGCCGCTAATGCTCA
ACCTATAGCAGCGT
Found at i:27033312 original size:75 final size:75
Alignment explanation
Indices: 27033218--27033396 Score: 277
Period size: 75 Copynumber: 2.4 Consensus size: 75
27033208 TCAATCTATA
* * *
27033218 GCAGCGTTTTTCAAAAAGCGCCGCTAATGCCTCTAAAGCTCAACACAAAACAATAGCGTTGTGCT
1 GCAGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
27033283 AAATTTTTTT
66 AAATTTTTTT
*
27033293 GCAGCGTTTTTCAAAAAGCGCCACTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
1 GCAGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
*
27033358 TAATTTTTTT
66 AAATTTTTTT
** * *
27033368 GTGGCGTTTTTCAAAAAGTGCCGCCAATG
1 GCAGCGTTTTTCAAAAAGCGCCGCTAATG
27033397 GTCGACCTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (75 bp):
GCAGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
AAATTTTTTT
Found at i:27033414 original size:40 final size:40
Alignment explanation
Indices: 27033370--27033449 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
27033360 ATTTTTTTGT
*
27033370 GGCGTTTTTCAAAAAGTGCCGCCAATGGTCGACCTATAGC
1 GGCGTTTTTCAAAAAGTGCCGCCAATGCTCGACCTATAGC
* * * * *
27033410 GGCGTTTTTTAGAAGGTGCCGCTAATGCTCGATCTATAGC
1 GGCGTTTTTCAAAAAGTGCCGCCAATGCTCGACCTATAGC
27033450 TAATGCTCGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGTGCCGCCAATGCTCGACCTATAGC
Found at i:27033453 original size:18 final size:18
Alignment explanation
Indices: 27033430--27033467 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27033420 AGAAGGTGCC
27033430 GCTAATGCTCGATCTATA
1 GCTAATGCTCGATCTATA
27033448 GCTAATGCTCGATCTATA
1 GCTAATGCTCGATCTATA
27033466 GC
1 GC
27033468 GGCGTTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (18 bp):
GCTAATGCTCGATCTATA
Found at i:27033749 original size:28 final size:28
Alignment explanation
Indices: 27033717--27033772 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
27033707 CATTTCCAGA
*
27033717 GATTCTTGTCAAGTTCCCTTGTTTGATT
1 GATTCTTGTCAAGTTCCCTTGTTCGATT
*
27033745 GATTCTTGTTAAGTTCCCTTGTTCGATT
1 GATTCTTGTCAAGTTCCCTTGTTCGATT
27033773 ACTCTACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (28 bp):
GATTCTTGTCAAGTTCCCTTGTTCGATT
Found at i:27037498 original size:19 final size:19
Alignment explanation
Indices: 27037474--27037515 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
27037464 TAAGAAAAAT
27037474 CAATAGCATACAACTTTTA
1 CAATAGCATACAACTTTTA
27037493 CAATAGCATACAACTTTTA
1 CAATAGCATACAACTTTTA
27037512 CAAT
1 CAAT
27037516 TTTTACGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (19 bp):
CAATAGCATACAACTTTTA
Found at i:27043512 original size:40 final size:40
Alignment explanation
Indices: 27043467--27043651 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
27043457 CTTGCGCAAG
* * *
27043467 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
27043507 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
27043547 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
27043587 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
27043628 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27043652 CATTCGAATA
Statistics
Matches: 121, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 29 0.24
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:27053197 original size:40 final size:40
Alignment explanation
Indices: 27053151--27053375 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
27053141 CTTGCACAAG
* * *
27053151 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
27053191 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
27053231 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
27053271 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
27053311 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
27053352 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27053376 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:27053246 original size:80 final size:80
Alignment explanation
Indices: 27053115--27053375 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
27053105 CTCAAGTAAT
* * * * * * *
27053115 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
27053178 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
27053193 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
27053257 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
27053273 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
27053338 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
27053354 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27053376 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:27057895 original size:15 final size:16
Alignment explanation
Indices: 27057875--27057904 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27057865 CAATTTTCTC
27057875 CCCTTTTA-CCTTTTA
1 CCCTTTTACCCTTTTA
27057890 CCCTTTTACCCTTTT
1 CCCTTTTACCCTTTT
27057905 CTTTATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (16 bp):
CCCTTTTACCCTTTTA
Found at i:27057896 original size:8 final size:8
Alignment explanation
Indices: 27057875--27057904 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
27057865 CAATTTTCTC
27057875 CCCTTTTA
1 CCCTTTTA
27057883 -CCTTTTA
1 CCCTTTTA
27057890 CCCTTTTA
1 CCCTTTTA
27057898 CCCTTTT
1 CCCTTTT
27057905 CTTTATCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (8 bp):
CCCTTTTA
Done.