Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 41 of 100
Found at i:10640195 original size:57 final size:57
Alignment explanation
Indices: 10640107--10640222 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
10640097 GCTCATAAAA
*
10640107 GAGATAGTTTTTTCTAACACACTTGTCTTTTATTGAAAACCAAGCATGGCTTAACAT
1 GAGATAGTTTTTTCTAAAACACTTGTCTTTTATTGAAAACCAAGCATGGCTTAACAT
10640164 GAGATAGTTTTTTCTAAAACACTTGTCTTTTATTGAAAACCAAGCATGGCTTAACAT
1 GAGATAGTTTTTTCTAAAACACTTGTCTTTTATTGAAAACCAAGCATGGCTTAACAT
10640221 GA
1 GA
10640223 TAGTTCAATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (57 bp):
GAGATAGTTTTTTCTAAAACACTTGTCTTTTATTGAAAACCAAGCATGGCTTAACAT
Found at i:10641751 original size:17 final size:17
Alignment explanation
Indices: 10641731--10641775 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
10641721 TTTATAGAGA
*
10641731 TTTTTATTTGAAAAGAC
1 TTTTTTTTTGAAAAGAC
* *
10641748 TTTTTTTATTGAAAGGAT
1 TTTTTTT-TTGAAAAGAC
10641766 TTTTTTTTTG
1 TTTTTTTTTG
10641776 TTTTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (17 bp):
TTTTTTTTTGAAAAGAC
Found at i:10641759 original size:18 final size:18
Alignment explanation
Indices: 10641731--10641775 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
10641721 TTTATAGAGA
10641731 TTTTTATTTGAAAAGACTT
1 TTTTTATTTGAAAAGA-TT
*
10641750 TTTTTA-TTGAAAGGATT
1 TTTTTATTTGAAAAGATT
10641767 TTTTT-TTTG
1 TTTTTATTTG
10641776 TTTTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (18 bp):
TTTTTATTTGAAAAGATT
Found at i:10641960 original size:5 final size:5
Alignment explanation
Indices: 10641941--10641981 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
10641931 AAAAAAACTA
* *
10641941 AAAAT AAAAT -GAAT AAAAT AAAAT AAAAT AATA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
10641982 TGGAAAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10641965 original size:19 final size:19
Alignment explanation
Indices: 10641941--10641981 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10641931 AAAAAAACTA
10641941 AAAATAAAATGAAT-AAAAT
1 AAAATAAAAT-AATAAAAAT
10641960 AAAATAAAATAATAAAAAT
1 AAAATAAAATAATAAAAAT
10641979 AAA
1 AAA
10641982 TGGAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAATAAAAAT
Found at i:10642826 original size:9 final size:9
Alignment explanation
Indices: 10642809--10642840 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10642799 TATTATAATA
10642809 ATAATGATG
1 ATAATGATG
*
10642818 ATGATGATG
1 ATAATGATG
10642827 ATAATGATG
1 ATAATGATG
10642836 ATAAT
1 ATAAT
10642841 ACTAATAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (9 bp):
ATAATGATG
Found at i:10642869 original size:3 final size:3
Alignment explanation
Indices: 10642861--10642902 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10642851 TATGTACATT
10642861 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10642903 CTATACTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10643670 original size:86 final size:86
Alignment explanation
Indices: 10643514--10643672 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 86
10643504 TTGCAAGATT
* * * * * * * **
10643514 GAAATATTCGTAAGATTTCAAGTTTTGTAAAGGTTCTAGATTCGCAAAGAAGTAAGGTTTGCAAG
1 GAAAAATTCGCAAGACTCCAAGTTTCGTAAAGGTTCTAGATTCGCAAAGAAGCAAGATTCACAAG
10643579 AATTTTCAGGTTCACAAAAAA
66 AATTTTCAGGTTCACAAAAAA
* *
10643600 GAAAAATTCGCAAGACTCCAAGTTTCGTAAAGGTTCTAGATTCGTAAAGATGCAAGATTCACAA-
1 GAAAAATTCGCAAGACTCCAAGTTTCGTAAAGGTTCTAGATTCGCAAAGAAGCAAGATTCACAAG
10643664 AGATTTTCA
66 A-ATTTTCA
10643673 TAACAAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 1 0.02
86 60 0.98
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (86 bp):
GAAAAATTCGCAAGACTCCAAGTTTCGTAAAGGTTCTAGATTCGCAAAGAAGCAAGATTCACAAG
AATTTTCAGGTTCACAAAAAA
Found at i:10644673 original size:16 final size:15
Alignment explanation
Indices: 10644645--10644681 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
10644635 CCTTTGTCTC
10644645 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
*
10644660 TTTTTGTTTGTTTTTT
1 TTTTT-TTTCTTTTTT
10644676 TTTTTT
1 TTTTTT
10644682 ACTTTTTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:10644705 original size:28 final size:28
Alignment explanation
Indices: 10644674--10644737 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
10644664 TGTTTGTTTT
10644674 TTTTTTTTACTTTTTGCCTTTTTTCCCC
1 TTTTTTTTACTTTTTGCCTTTTTTCCCC
* * *
10644702 TTTTTTTTGCTTTTTGCTTTTTTTCTCC
1 TTTTTTTTACTTTTTGCCTTTTTTCCCC
10644730 TTTTTTTT
1 TTTTTTTT
10644738 TTTGTACACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.75
Consensus pattern (28 bp):
TTTTTTTTACTTTTTGCCTTTTTTCCCC
Found at i:10644732 original size:18 final size:17
Alignment explanation
Indices: 10644701--10644734 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10644691 CTTTTTTCCC
*
10644701 CTTTTTTTTGCTTTTTG
1 CTTTTTTTTCCTTTTTG
10644718 CTTTTTTTCTCCTTTTT
1 CTTTTTTT-TCCTTTTT
10644735 TTTTTTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (17 bp):
CTTTTTTTTCCTTTTTG
Found at i:10645132 original size:52 final size:51
Alignment explanation
Indices: 10645024--10645133 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 51
10645014 TTTTTTTTTG
*
10645024 TTTTTTTTATAGAGCACATTGGCATTTTGCCCTAACAATTTCTCTCCATTTT
1 TTTTTTTTATAGAGCACATTGGCATTTTGCCCTAACAATTTCTCTCCA-TTC
* * * * * *
10645076 TTTTTTTTGTGGAGCATATTGGCATTTTGCCTTATCAATTTACTTTCTC-TTC
1 TTTTTTTTATAGAGCACATTGGCATTTTGCCCTAACAATTT-CTCTC-CATTC
10645128 TTTTTT
1 TTTTTT
10645134 CAATAAAAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
52 44 0.90
53 4 0.08
54 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.11, T:0.54
Consensus pattern (51 bp):
TTTTTTTTATAGAGCACATTGGCATTTTGCCCTAACAATTTCTCTCCATTC
Found at i:10650070 original size:16 final size:18
Alignment explanation
Indices: 10650041--10650113 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 18
10650031 AATTTATGAA
*
10650041 TTTATTTTGCAAAA-ATT
1 TTTATTTTGAAAAATATT
10650058 TTTA-TTTGAAAAATATT
1 TTTATTTTGAAAAATATT
*
10650075 TTT-TTATT-AAAAGGATTTT
1 TTTATT-TTGAAAA--ATATT
*
10650094 TTTATTTT-ATAAATATT
1 TTTATTTTGAAAAATATT
10650111 TTT
1 TTT
10650114 TAAAAAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
16 8 0.17
17 22 0.48
18 2 0.04
19 12 0.26
20 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTATTTTGAAAAATATT
Found at i:10650080 original size:19 final size:18
Alignment explanation
Indices: 10650056--10650114 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
10650046 TTTGCAAAAA
10650056 TTTTTATTTGAAAAATATT
1 TTTTTATTT-AAAAATATT
**
10650075 TTTTTA-TTAAAAGGATT
1 TTTTTATTTAAAAATATT
*
10650092 TTTTTATTTTATAAATATT
1 TTTTTA-TTTAAAAATATT
10650111 TTTT
1 TTTT
10650115 AAAAAACTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 13 0.39
18 2 0.06
19 18 0.55
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTATTTAAAAATATT
Found at i:10650813 original size:15 final size:16
Alignment explanation
Indices: 10650793--10650826 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10650783 AAATCAATTT
10650793 TAGAATCCCA-AAACC
1 TAGAATCCCATAAACC
*
10650808 TAGAATCCTATAAACC
1 TAGAATCCCATAAACC
10650824 TAG
1 TAG
10650827 TACTACCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (16 bp):
TAGAATCCCATAAACC
Found at i:10651147 original size:3 final size:3
Alignment explanation
Indices: 10651139--10651283 Score: 168
Period size: 3 Copynumber: 48.0 Consensus size: 3
10651129 AATAAAAAAG
*
10651139 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
10651187 ATG ATA ATA ATT CTA ATA ATA ATA ATA CTA ATA GACT- ATGT ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA AT-A ATA ATA
* *
10651233 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10651281 ATA
1 ATA
10651284 CTATAATATA
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
2 3 0.02
3 118 0.95
4 2 0.02
5 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10651296 original size:12 final size:11
Alignment explanation
Indices: 10651142--10651299 Score: 55
Period size: 12 Copynumber: 14.2 Consensus size: 11
10651132 AAAAAAGATA
*
10651142 ATAATAATAAT
1 ATAATAATACT
*
10651153 AATAATAATAAT
1 -ATAATAATACT
*
10651165 AATAATAATAAT
1 -ATAATAATACT
10651177 AATAATAATGA-T
1 -ATAATAAT-ACT
*
10651189 GATAATAATTCT
1 -ATAATAATACT
*
10651201 AATAATAATAAT
1 -ATAATAATACT
*
10651213 ACTAAT-AGACT
1 A-TAATAATACT
*
10651224 AT-GTACA-A-T
1 ATAATA-ATACT
10651233 ATAATAATA--
1 ATAATAATACT
10651242 ATAATAATA--
1 ATAATAATACT
*
10651251 ATAATAATAAT
1 ATAATAATACT
* * *
10651262 AATAACAACAAT
1 -ATAATAATACT
10651274 AATAATAATACT
1 -ATAATAATACT
10651286 ATAATATATACT
1 ATAATA-ATACT
10651298 AT
1 AT
10651300 GTTAGTATAC
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
9 23 0.19
10 5 0.04
11 12 0.10
12 80 0.66
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (11 bp):
ATAATAATACT
Found at i:10655346 original size:92 final size:92
Alignment explanation
Indices: 10655250--10655433 Score: 325
Period size: 92 Copynumber: 2.0 Consensus size: 92
10655240 ATAACATACC
10655250 TCAAAGAAAATTTATTGGATGGACTTTTTTATCTA-TTTTTTTTCATTTTTTCCTTTTATTCTTC
1 TCAAAGAAAATTTATTGGATGGAC-TTTTTATCTATTTTTTTTTCATTTTTTCCTTTTATTCTTC
*
10655314 TTCTACCTACTACTTATTTCGGACCATT
65 TTCTACCTACTACTTATTTCAGACCATT
*
10655342 TCAAAGAAAATTTATTGGATGGACTTTTTATCTATTTTTTTTTCATTTTTTCCTTTTGTTCTTCT
1 TCAAAGAAAATTTATTGGATGGACTTTTTATCTATTTTTTTTTCATTTTTTCCTTTTATTCTTCT
*
10655407 TCTATCTACTACTTATTTCAGACCATT
66 TCTACCTACTACTTATTTCAGACCATT
10655434 CTTTGACTTC
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
91 10 0.11
92 78 0.89
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.54
Consensus pattern (92 bp):
TCAAAGAAAATTTATTGGATGGACTTTTTATCTATTTTTTTTTCATTTTTTCCTTTTATTCTTCT
TCTACCTACTACTTATTTCAGACCATT
Found at i:10656212 original size:10 final size:9
Alignment explanation
Indices: 10656170--10656211 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
10656160 TAAAAGAATA
10656170 TTTTTCTTT
1 TTTTTCTTT
*
10656179 TATTTCTCTT
1 TTTTTCT-TT
10656189 TTTTTCTTT
1 TTTTTCTTT
10656198 TTTTTCTTT
1 TTTTTCTTT
10656207 TTTTT
1 TTTTT
10656212 TAACATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:10656212 original size:19 final size:19
Alignment explanation
Indices: 10656170--10656210 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
10656160 TAAAAGAATA
10656170 TTTTTCTTTTATTTCTCTT
1 TTTTTCTTTTATTTCTCTT
10656189 TTTTTCTTTT-TTT-TCTT
1 TTTTTCTTTTATTTCTCTT
10656206 TTTTT
1 TTTTT
10656211 TTAACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTATTTCTCTT
Found at i:10664938 original size:5 final size:5
Alignment explanation
Indices: 10664928--10664973 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
10664918 ATATATAAGT
* *
10664928 AAAGG AAAGG AAAGG AGAGG AAAGG AAAAG AAAGG AAAGG AAAGG A
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG A
10664974 TACATGTACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:10674057 original size:2 final size:2
Alignment explanation
Indices: 10674050--10674081 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10674040 TTCCGTTGAA
10674050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10674082 CCCTCAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10682135 original size:30 final size:30
Alignment explanation
Indices: 10682100--10682163 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
10682090 TCTTATAGCC
10682100 TTTATGTATTGTATTGCTGTTGTAAGCTTA
1 TTTATGTATTGTATTGCTGTTGTAAGCTTA
10682130 TTTATGTATTGTATTGCTGTTGTAAGCTTA
1 TTTATGTATTGTATTGCTGTTGTAAGCTTA
10682160 TTTA
1 TTTA
10682164 ATTTTAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.06, G:0.19, T:0.55
Consensus pattern (30 bp):
TTTATGTATTGTATTGCTGTTGTAAGCTTA
Found at i:10685069 original size:24 final size:22
Alignment explanation
Indices: 10685023--10685070 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
10685013 ATTTTAATAC
* *
10685023 TTACAATTTTTTTTTCTTTAAA
1 TTACAATTTTTTTTTCATAAAA
10685045 TTACAACTTTTTTTTATCATAAAA
1 TTACAA-TTTTTTTT-TCATAAAA
10685069 TT
1 TT
10685071 TAATGCCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 8 0.36
24 8 0.36
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (22 bp):
TTACAATTTTTTTTTCATAAAA
Found at i:10687487 original size:29 final size:30
Alignment explanation
Indices: 10687455--10687524 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 30
10687445 GATTTTATAT
*
10687455 TATATTTTTTAAAATTTTTAACAT-TATCA
1 TATATTTTTTAAAATTTTTAAAATATATCA
* * *
10687484 TATA--CTTTATAATTTTTAAAATATTTCA
1 TATATTTTTTAAAATTTTTAAAATATATCA
10687512 TATAATTTTTTAA
1 TAT-ATTTTTTAA
10687525 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
27 15 0.48
28 7 0.23
29 5 0.16
31 4 0.13
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
TATATTTTTTAAAATTTTTAAAATATATCA
Found at i:10687513 original size:28 final size:28
Alignment explanation
Indices: 10687462--10687535 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
10687452 TATTATATTT
* *
10687462 TTTAAAATTTTTAACATTATCATAT-AC
1 TTTATAATTTTTAAAATTATCATATAAC
* *
10687489 TTTATAATTTTTAAAATATTTCATATAAT
1 TTTATAATTTTTAAAAT-TATCATATAAC
* *
10687518 TTTTTAATTTTAAAAATT
1 TTTATAATTTTTAAAATT
10687536 TTTAGAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 15 0.38
28 8 0.21
29 16 0.41
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTATAATTTTTAAAATTATCATATAAC
Found at i:10687547 original size:27 final size:28
Alignment explanation
Indices: 10687517--10687574 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
10687507 TTTCATATAA
10687517 TTTTTTAATTTTAAAAATTTTT-AGAAT
1 TTTTTTAATTTTAAAAATTTTTGAGAAT
* *
10687544 TTTTTTAATTTTGAAATTTTTTGAGAAT
1 TTTTTTAATTTTAAAAATTTTTGAGAAT
10687572 TTT
1 TTT
10687575 AAAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTTTTAATTTTAAAAATTTTTGAGAAT
Found at i:10687619 original size:19 final size:18
Alignment explanation
Indices: 10687535--10687627 Score: 68
Period size: 19 Copynumber: 5.2 Consensus size: 18
10687525 TTTTAAAAAT
* *
10687535 TTTTAGAATTTTTT-TAA
1 TTTTAAAATTTTTTAGAA
*
10687552 TTTTGAAATTTTTTGAGAA
1 TTTTAAAATTTTTT-AGAA
10687571 TTTTAAAATTTTTT---A
1 TTTTAAAATTTTTTAGAA
* ***
10687586 TTTAAAAAAAATTTAGAA
1 TTTTAAAATTTTTTAGAA
10687604 TTTTTAAAATTTTTTAAGAA
1 -TTTTAAAATTTTTT-AGAA
10687624 TTTT
1 TTTT
10687628 TTTGAAGTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
15 11 0.19
17 12 0.21
18 1 0.02
19 29 0.51
20 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTAAAATTTTTTAGAA
Found at i:10689390 original size:16 final size:16
Alignment explanation
Indices: 10689369--10689420 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
10689359 GATTATCATA
10689369 TAATTTTTTATTATAT
1 TAATTTTTTATTATAT
* * *
10689385 TAATTTATTATTTTTT
1 TAATTTTTTATTATAT
* *
10689401 TAAATTTTAATTA-AT
1 TAATTTTTTATTATAT
10689416 TAATT
1 TAATT
10689421 AATAATAATC
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTTTATTATAT
Found at i:10690969 original size:2 final size:2
Alignment explanation
Indices: 10690962--10690998 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10690952 TTGACACAAC
*
10690962 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10690999 CAGAATAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10694302 original size:6 final size:6
Alignment explanation
Indices: 10694291--10694317 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10694281 CCTCAGCTTG
10694291 TCTGTC TCTGTC TCTGTC TCTGTC TCT
1 TCTGTC TCTGTC TCTGTC TCTGTC TCT
10694318 TCTGTCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
TCTGTC
Found at i:10695313 original size:17 final size:18
Alignment explanation
Indices: 10695291--10695324 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10695281 CTGAATTGTC
10695291 TTATTC-TCCACCAAAAG
1 TTATTCATCCACCAAAAG
10695308 TTATTCATCCACCAAAA
1 TTATTCATCCACCAAAA
10695325 AGTAAGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TTATTCATCCACCAAAAG
Found at i:10701006 original size:154 final size:154
Alignment explanation
Indices: 10700725--10701034 Score: 593
Period size: 154 Copynumber: 2.0 Consensus size: 154
10700715 ATAATAGCAA
*
10700725 GAAAAGTAATGCAAGTATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
1 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
10700790 TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGCGGGATAT
66 TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGCGGGATAT
10700855 CTTCAATTGCCACAATTTCCATAT
131 CTTCAATTGCCACAATTTCCATAT
10700879 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
1 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
*
10700944 TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGTGGGATAT
66 TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGCGGGATAT
*
10701009 CTTCAATTGCCACAGTTTCCATAT
131 CTTCAATTGCCACAATTTCCATAT
10701033 GA
1 GA
10701035 GATATAGCAG
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 153 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (154 bp):
GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGCGGGATAT
CTTCAATTGCCACAATTTCCATAT
Found at i:10701208 original size:189 final size:189
Alignment explanation
Indices: 10700879--10701265 Score: 695
Period size: 189 Copynumber: 2.0 Consensus size: 189
10700869 ATTTCCATAT
10700879 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
1 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
* *
10700944 TCAATACTGTAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGTGGGATAT
66 TCAATACTATAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGAGGGATAT
*
10701009 CTTCAATTGCCACAGTTTCCATATGAGATATAGCAGGTCAAACAAAGTTATAATAGCAA
131 CTTCAATTGCCACAGTTTCCACATGAGATATAGCAGGTCAAACAAAGTTATAATAGCAA
* *
10701068 GAAAAGTAATGCAAGTATTCTAGGGAAACCCTGCACCCTATATGATTCACTCTCCAGCATATTCA
1 GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
*
10701133 TCAATACTATAAAACTACAATTGTCAGGTGGATATCAGTTTTCAGTGAGTTTTAGAGCAGGGA-A
66 TCAATACTATAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAG-AGGGATA
*
10701197 TCTTTAATTGCCACAGTTTCCACATGAGATATAGCAGGTCAAACAAAGTTATAATAGCAA
130 TCTTCAATTGCCACAGTTTCCACATGAGATATAGCAGGTCAAACAAAGTTATAATAGCAA
10701257 GAAAAGTAA
1 GAAAAGTAA
10701266 CACACATGTT
Statistics
Matches: 190, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
189 186 0.98
190 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (189 bp):
GAAAAGTAATGCAAGCATTCTAGGGAAACCCTGCAACCTATATGATTCACTCTCCAGCATATTCA
TCAATACTATAAAACTACAATTGTCAGATGGATATCAGTTTTCAGTGAGTTTTAGAGAGGGATAT
CTTCAATTGCCACAGTTTCCACATGAGATATAGCAGGTCAAACAAAGTTATAATAGCAA
Found at i:10702561 original size:16 final size:15
Alignment explanation
Indices: 10702529--10702569 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
10702519 TTAGTTTGAA
*
10702529 AATATAAAAATTTAT
1 AATATAAAAAATTAT
10702544 AATATAAAATAATTAT
1 AATATAAAA-AATTAT
*
10702560 AATTTAAAAA
1 AATATAAAAA
10702570 GGAATCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAAAAAATTAT
Found at i:10706386 original size:21 final size:23
Alignment explanation
Indices: 10706357--10706413 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
10706347 AATTATTTTG
* *
10706357 TATATAAATTTATTTAAA-AATA
1 TATAAAAATTTATTAAAATAATA
* *
10706379 TTTAAAATTTTATTAAAATAATA
1 TATAAAAATTTATTAAAATAATA
10706402 TATAAAAATTTA
1 TATAAAAATTTA
10706414 AAATTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATAAAAATTTATTAAAATAATA
Found at i:10706407 original size:23 final size:21
Alignment explanation
Indices: 10706357--10706413 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
10706347 AATTATTTTG
*
10706357 TATAT-AAATTTATTTAAAAA
1 TATATAAAATTTATTAAAAAA
*
10706377 TATTTAAAATTTTATTAAAATAA
1 TATATAAAA-TTTATTAAAA-AA
10706400 TATATAAAAATTTA
1 TATAT-AAAATTTA
10706414 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 3 0.10
22 9 0.30
23 10 0.33
24 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAAAATTTATTAAAAAA
Found at i:10716885 original size:27 final size:27
Alignment explanation
Indices: 10716854--10716927 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 27
10716844 TTAATGTAAA
*
10716854 TAATTTTAAATATAAAATATTAAATTT
1 TAATTTCAAATATAAAATATTAAATTT
** *
10716881 TAATTTCAGTTATGAAAAT-TCAAATTTT
1 TAATTTCAAATAT-AAAATATTAAA-TTT
10716909 ATCAATTTCAAATATAAAA
1 -T-AATTTCAAATATAAAA
10716928 AAATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 14 0.38
28 8 0.22
29 5 0.14
30 10 0.27
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (27 bp):
TAATTTCAAATATAAAATATTAAATTT
Found at i:10718045 original size:17 final size:19
Alignment explanation
Indices: 10718011--10718056 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10718001 AATTATAATA
10718011 AAATATTAATATAATATTT
1 AAATATTAATATAATATTT
10718030 AAATATTAA-A-AATATTT
1 AAATATTAATATAATATTT
10718047 -AATA-TAATAT
1 AAATATTAATAT
10718057 TTAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 5 0.20
17 7 0.28
18 1 0.04
19 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTAATATAATATTT
Found at i:10718068 original size:29 final size:29
Alignment explanation
Indices: 10717997--10718069 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
10717987 ATCAATGAGT
10717997 TTTAAATTATAATAAAATATTAATATAATA
1 TTTAAATTATAA-AAAATATTAATATAATA
*
10718027 TTTAAA-TATTAAAAATATTTAATATAATA
1 TTTAAATTATAAAAAATA-TTAATATAATA
10718056 TTTAAATTATAAAA
1 TTTAAATTATAAAA
10718070 TTTACCGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 6 0.15
29 21 0.54
30 12 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTAAATTATAAAAAATATTAATATAATA
Found at i:10718666 original size:30 final size:30
Alignment explanation
Indices: 10718630--10718686 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10718620 CAAAATTAAT
* * *
10718630 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
10718660 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
10718687 ATAATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:10725556 original size:15 final size:14
Alignment explanation
Indices: 10725533--10725576 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
10725523 AATTTCTTAA
10725533 AATTAATAATTAAAT
1 AATTAATAA-TAAAT
*
10725548 AATTGATAATAAAT
1 AATTAATAATAAAT
*
10725562 TATTAAGTAATAAAT
1 AATTAA-TAATAAAT
10725577 TTAATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (14 bp):
AATTAATAATAAAT
Found at i:10725575 original size:29 final size:29
Alignment explanation
Indices: 10725534--10725593 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 29
10725524 ATTTCTTAAA
10725534 ATTAATAATTAAA-TAATTGATAATAAATT
1 ATTAATAATTAAATTAATTGATAA-AAATT
*
10725563 ATTAAGTAA-TAAATTTAATTGATTAAAATT
1 ATTAA-TAATTAAA-TTAATTGATAAAAATT
10725593 A
1 A
10725594 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.33
30 9 0.33
31 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (29 bp):
ATTAATAATTAAATTAATTGATAAAAATT
Found at i:10733013 original size:25 final size:25
Alignment explanation
Indices: 10732966--10733021 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10732956 ATCATTTAAC
* **
10732966 AAATCATTTAGAAATACTTTTCAGA
1 AAATCATTTAGAAACACCATTCAGA
*
10732991 AAATCATTTAGAAACACCATTCAGT
1 AAATCATTTAGAAACACCATTCAGA
10733016 AAATCA
1 AAATCA
10733022 ATATCATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATCATTTAGAAACACCATTCAGA
Found at i:10743427 original size:16 final size:16
Alignment explanation
Indices: 10743406--10743436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10743396 GTGTGTTTGA
10743406 GAGGGACAGAGAGAGG
1 GAGGGACAGAGAGAGG
*
10743422 GAGGGACAGGGAGAG
1 GAGGGACAGAGAGAG
10743437 TGAAACCTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.58, T:0.00
Consensus pattern (16 bp):
GAGGGACAGAGAGAGG
Found at i:10745558 original size:16 final size:18
Alignment explanation
Indices: 10745539--10745577 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10745529 GGATTTTACG
10745539 AAAATT-ATTTTT-TCTA
1 AAAATTAATTTTTATCTA
*
10745555 AAAATTAATTTTTATTTA
1 AAAATTAATTTTTATCTA
10745573 AAAAT
1 AAAAT
10745578 CATAAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATTAATTTTTATCTA
Found at i:10745638 original size:43 final size:42
Alignment explanation
Indices: 10745565--10745660 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
10745555 AAAATTAATT
* * *
10745565 TTTATTTAAAAATCATAAGATTTTCTAATATGTTGATAAAAA
1 TTTATTTAAAAATCATAAGACTTTCCAATATATTGATAAAAA
* * *
10745607 TTTATCTTAAAAATCA-AATTACTTTCCAATATATTGATAAGAT
1 TTTAT-TTAAAAATCATAA-GACTTTCCAATATATTGATAAAAA
*
10745650 TTTATTGAAAA
1 TTTATTTAAAA
10745661 CTATTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (42 bp):
TTTATTTAAAAATCATAAGACTTTCCAATATATTGATAAAAA
Found at i:10745712 original size:117 final size:117
Alignment explanation
Indices: 10745516--10745764 Score: 288
Period size: 117 Copynumber: 2.1 Consensus size: 117
10745506 AATTATCTCT
* * * * *
10745516 CAATATGTTGGTAGGATTTTACGAAAATTATTTTTTCTAAAAATTAATTTTTATTTAAAAATCAT
1 CAATATATTGGTAAGATTTTACGAAAACTATTTTTTCTAAAAATTAATTTTTATTAAAAAATAAT
* * * *
10745581 AAGATTTTCTAATATGTTGATAAAAATTTATCTTAAAAATCAAATTACTTTC
66 AAGATTCTCCAATATATTGATAAAAATTTATCTTAAAAATCAAATTACCTTC
* * *
10745633 CAATATATTGATAAGATTTTATTGAAAACTATTTTTT-T-AAAATTTATTTTTCA-TAAAAAATT
1 CAATATATTGGTAAGATTTTA-CGAAAACTATTTTTTCTAAAAATTAATTTTT-ATTAAAAAA-T
* * * * *
10745695 AATAAGGTTCTCCAATATATTGGTAAAACTTTATTTTAAAAATCAAATTGCCTTC
63 AATAAGATTCTCCAATATATTGATAAAAATTTATCTTAAAAATCAAATTACCTTC
*
10745750 CATTATATTGGTAAG
1 CAATATATTGGTAAG
10745765 GCTTTTTTTT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
116 18 0.16
117 79 0.72
118 13 0.12
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (117 bp):
CAATATATTGGTAAGATTTTACGAAAACTATTTTTTCTAAAAATTAATTTTTATTAAAAAATAAT
AAGATTCTCCAATATATTGATAAAAATTTATCTTAAAAATCAAATTACCTTC
Found at i:10745830 original size:59 final size:59
Alignment explanation
Indices: 10745757--10745892 Score: 140
Period size: 59 Copynumber: 2.4 Consensus size: 59
10745747 TTCCATTATA
* * *
10745757 TTGGTAAGGCTTTTTTTTATTAAAACAATTTA-TT-A-AAATTTTGAA-TCTTTCAATATG
1 TTGGCAAGACTTTTTTTTATTAAAA-AATTTATTTAAGAAAATTTGAACTC-TTCAATATG
* *
10745814 TTGGCAAGA-TTTTTTTTATTTAAATATTTATTTTAAGAAAATTTGAACTCTTCAATATG
1 TTGGCAAGACTTTTTTTTATTAAAAAATTTA-TTTAAGAAAATTTGAACTCTTCAATATG
* *
10745873 TTGGTAAGA-TTCTTTTTATT
1 TTGGCAAGACTTTTTTTTATT
10745893 TTATTTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
55 5 0.07
56 14 0.21
57 9 0.13
58 1 0.01
59 36 0.54
60 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (59 bp):
TTGGCAAGACTTTTTTTTATTAAAAAATTTATTTAAGAAAATTTGAACTCTTCAATATG
Found at i:10745918 original size:4 final size:4
Alignment explanation
Indices: 10745911--10745994 Score: 50
Period size: 4 Copynumber: 20.8 Consensus size: 4
10745901 AAATATTTAC
* * *
10745911 AAAT AAAT GAAT -AAT AAAT AACAT -AAT AAA- AAGAT AGA- AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AA-AT AAAT AAAT AAAT
* *
10745957 AAAT AAAC AACT AAACAT AAAT AAAAT AAAT AAAT AAA
1 AAAT AAAT AAAT -AA-AT AAAT -AAAT AAAT AAAT AAA
10745995 CAAGAAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
3 9 0.14
4 42 0.67
5 11 0.17
6 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:10745983 original size:23 final size:22
Alignment explanation
Indices: 10745953--10745996 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
10745943 GATAGAAAAC
*
10745953 AAATAAATAAACAACTAAACAT
1 AAATAAATAAACAAATAAACAT
*
10745975 AAATAAAATAAATAAATAAACA
1 AAAT-AAATAAACAAATAAACA
10745997 AGAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (22 bp):
AAATAAATAAACAAATAAACAT
Found at i:10751298 original size:24 final size:24
Alignment explanation
Indices: 10751255--10751300 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10751245 CATGATAGGT
*
10751255 TATTACACCTTATTGTCACTCATG
1 TATTACACCTTATTGGCACTCATG
10751279 TATTAGCACCTT-TTGGCACTCA
1 TATTA-CACCTTATTGGCACTCA
10751301 ATACTCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (24 bp):
TATTACACCTTATTGGCACTCATG
Found at i:10752084 original size:15 final size:14
Alignment explanation
Indices: 10752059--10752092 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
10752049 TATCACTTTG
10752059 AAATTTGGCTTGTA
1 AAATTTGGCTTGTA
*
10752073 AAATTATGGCTTGTG
1 AAATT-TGGCTTGTA
10752088 AAATT
1 AAATT
10752093 GATATATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (14 bp):
AAATTTGGCTTGTA
Found at i:10754863 original size:6 final size:6
Alignment explanation
Indices: 10754852--10754884 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10754842 GATTAAATTT
10754852 TAAAAA T-AAAA -AAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
10754885 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 8 0.32
6 17 0.68
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:10754871 original size:16 final size:17
Alignment explanation
Indices: 10754852--10754886 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
10754842 GATTAAATTT
10754852 TAAAAATAAAAA-AAAA
1 TAAAAATAAAAATAAAA
10754868 TAAAAATAAAAATAAAA
1 TAAAAATAAAAATAAAA
10754885 TA
1 TA
10754887 TTTTTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
TAAAAATAAAAATAAAA
Found at i:10755158 original size:26 final size:24
Alignment explanation
Indices: 10755114--10755168 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
10755104 CAATAATGAG
**
10755114 ATTTTTAAAAATTTCAAATGGTAA
1 ATTTTTAAAAATTTCAAATGAAAA
*
10755138 ATTTTTATAAAATTCTTAAATGAAAA
1 ATTTTTA-AAAATT-TCAAATGAAAA
10755164 ATTTT
1 ATTTT
10755169 GTCTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 6 0.23
26 13 0.50
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (24 bp):
ATTTTTAAAAATTTCAAATGAAAA
Found at i:10755228 original size:190 final size:188
Alignment explanation
Indices: 10754904--10755405 Score: 686
Period size: 189 Copynumber: 2.6 Consensus size: 188
10754894 AGAAGAAATA
* *
10754904 ATAATTATCTAATGATGA-ACTTTTTAAAAATTTCAAATGATAAATTTCTATAAAAATTCTTAAG
1 ATAATTATCCAATAATGAGA-TTTTTAAAAATTTCAAATGATAAATTTCTAT-AAAATTCTTAAG
* * * *
10754968 TGAGAAATTTTTTCTAAATTTATCCCAAATTATGGAATAATTTAGATAAAATTTCAATAATAATA
64 TGAGAAA-TTTTTCTAAATTTATCCTAAATTGTGGAATAATTTAGATAAAATTTCAATAACAACA
* * *
10755033 ATTAATATTTATTCTCAAACAAAAAAAAAAGAATAACAAAATTTTCTTATTGAAAATATTTG
128 ATTAATATTTATTCTCAAAC-AAAAAAAAAGAAGAACAAAATTTTCTGATTGAAAACATTTG
* * *
10755095 ATAATTATCCAATAATGAGATTTTTAAAAATTTCAAATGGTAAATTTTTATAAAATTCTTAAATG
1 ATAATTATCCAATAATGAGATTTTTAAAAATTTCAAATGATAAATTTCTATAAAATTCTTAAGTG
* *
10755160 AAAAATTTTGTCTAAATTTATCCTAAATTGTAGAATAATTTAGATAAAATTTCAATAACAACAAT
66 AGAAATTTT-TCTAAATTTATCCTAAATTGTGGAATAATTTAGATAAAATTTCAATAACAACAAT
* *
10755225 TAATATTTATTCTCAAACAAAAAAAAAGAAGAATAAAATTTTCTGGTTGAAAACATTTG
130 TAATATTTATTCTCAAACAAAAAAAAAGAAGAACAAAATTTTCTGATTGAAAACATTTG
* * * *
10755284 ATAATTATCCAATTATGAGACTTTTAGAAATTTCAAATGATAAATTTCTA-AAAAATCTTTAAGT
1 ATAATTATCCAATAATGAGATTTTTAAAAATTTCAAATGATAAATTTCTATAAAATTC-TTAAGT
* * * * * *
10755348 GAGAAATTTCTT-TAAATTTGTCTTAAATAGTGGAAGAATTTAAATAGAATTTCAATAA
65 GAGAAATTT-TTCTAAATTTATCCTAAATTGTGGAATAATTTAGATAAAATTTCAATAA
10755406 AAAAAATAAT
Statistics
Matches: 276, Mismatches: 31, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
188 45 0.16
189 99 0.36
190 86 0.31
191 45 0.16
192 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (188 bp):
ATAATTATCCAATAATGAGATTTTTAAAAATTTCAAATGATAAATTTCTATAAAATTCTTAAGTG
AGAAATTTTTCTAAATTTATCCTAAATTGTGGAATAATTTAGATAAAATTTCAATAACAACAATT
AATATTTATTCTCAAACAAAAAAAAAGAAGAACAAAATTTTCTGATTGAAAACATTTG
Found at i:10755493 original size:53 final size:51
Alignment explanation
Indices: 10755435--10755582 Score: 127
Period size: 52 Copynumber: 2.8 Consensus size: 51
10755425 ATTTTCTTTC
*
10755435 TAAAAACAAAAAAAGAAAAAAAATTTCTAAATAAGCCCAAATAGTGAAAATTT
1 TAAAAACAAAAAAA-AAAAAAAATTTCTAAATAAGCCCAAATA-TGAAAAATT
**** * *
10755488 TAAAAATTTCAAAAAAAAAAATTTTCTAAAT-TGACCCAAATTATGAAAAATT
1 TAAAAACAAAAAAAAAAAAAAATTTCTAAATAAG-CCCAAA-TATGAAAAATT
** * * *
10755540 TAGAAGTCCAAAAAAAAAAAAGAATTTCTAACTAGGCCCAAAT
1 TA-AA-AACAAAAAAAAAAAAAAATTTCTAAATAAGCCCAAAT
10755583 GGTGGAGAAT
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
51 1 0.01
52 32 0.44
53 15 0.21
54 24 0.33
55 1 0.01
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (51 bp):
TAAAAACAAAAAAAAAAAAAAATTTCTAAATAAGCCCAAATATGAAAAATT
Found at i:10755552 original size:51 final size:51
Alignment explanation
Indices: 10755450--10755559 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
10755440 ACAAAAAAAG
* * *
10755450 AAAAAAAATTTCTAAATAAGCCCAAATAGTGAAAATTTTAAAAATTTCAAA
1 AAAAAAAATTTCTAAATAAGCCCAAATAGTGAAAAATTTAAAAAGTCCAAA
* *
10755501 AAAAAAAATTTTCTAAAT-TGACCCAAATTA-TGAAAAATTT-AGAAGTCCAAA
1 AAAAAAAA-TTTCTAAATAAG-CCCAAA-TAGTGAAAAATTTAAAAAGTCCAAA
10755552 AAAAAAAA
1 AAAAAAAA
10755560 AGAATTTCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
51 25 0.49
52 24 0.47
53 2 0.04
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.25
Consensus pattern (51 bp):
AAAAAAAATTTCTAAATAAGCCCAAATAGTGAAAAATTTAAAAAGTCCAAA
Found at i:10756643 original size:43 final size:43
Alignment explanation
Indices: 10756593--10756678 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
10756583 AGACGTAACC
* *
10756593 TGAAGTTAGGACATAAGAAGGAATAATTTGTCTGATATATGGT
1 TGAAGTTAGGACATAAGAAGGAACAATTTGTATGATATATGGT
10756636 TGAAGTTAGGACATAAGAAGGAACAATTTGTATGATATATGGT
1 TGAAGTTAGGACATAAGAAGGAACAATTTGTATGATATATGGT
10756679 AATCTAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (43 bp):
TGAAGTTAGGACATAAGAAGGAACAATTTGTATGATATATGGT
Found at i:10759698 original size:15 final size:15
Alignment explanation
Indices: 10759678--10759713 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10759668 CTAATGGATG
*
10759678 AAAAAAATGAAAAAA
1 AAAAAAAGGAAAAAA
10759693 AAAAAAAGGAAAAAA
1 AAAAAAAGGAAAAAA
10759708 AAAAAA
1 AAAAAA
10759714 GAATGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (15 bp):
AAAAAAAGGAAAAAA
Found at i:10759714 original size:14 final size:14
Alignment explanation
Indices: 10759678--10759716 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
10759668 CTAATGGATG
*
10759678 AAAAAAATGAAAAA
1 AAAAAAAAGAAAAA
*
10759692 AAAAAAAAGGAAAA
1 AAAAAAAAGAAAAA
10759706 AAAAAAAAGAA
1 AAAAAAAAGAA
10759717 TGAAAGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:10761059 original size:21 final size:21
Alignment explanation
Indices: 10761020--10761060 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10761010 ATTTTTTAGT
* * *
10761020 TTTCAAATGAGAGTTTTTGAA
1 TTTCAAATAAGAATCTTTGAA
10761041 TTTCAAATAAGAATCTTTGA
1 TTTCAAATAAGAATCTTTGA
10761061 GGTGTAAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (21 bp):
TTTCAAATAAGAATCTTTGAA
Found at i:10761484 original size:41 final size:41
Alignment explanation
Indices: 10761420--10761670 Score: 274
Period size: 41 Copynumber: 6.1 Consensus size: 41
10761410 CATGATTATC
* *
10761420 GATGAACCTTTTA-TTTTCAAAGTTGTTGTGCCTCTATTTA
1 GATGAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
* * * *
10761460 AATGAGCCTTTTATTTTTCAAAGTTATTATACCTCTGTTTA
1 GATGAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
* * * *
10761501 GAGGAGCATTTTA-TTTTCAAAAGTTATAGTGCCTCTGTTTA
1 GATGAGCCTTTTATTTTTC-AAAGTTGTTGTGCCTCTGTTTA
* *
10761542 GAAGA-CCGTTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTA
1 GATGAGCC-TTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
* * *
10761583 GAGGAGTCTTTTATTTTTCAAAAGTTGTTGTGCATCTGTTTA
1 GATGAGCCTTTTATTTTTC-AAAGTTGTTGTGCCTCTGTTTA
* ** * *
10761625 GATGAGCCTTTTATTTTTTAAAGTTGTTAAGCCTCTATTCA
1 GATGAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
10761666 GATGA
1 GATGA
10761671 ACTTTATTTA
Statistics
Matches: 177, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
40 17 0.10
41 118 0.67
42 42 0.24
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (41 bp):
GATGAGCCTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTA
Found at i:10761659 original size:83 final size:81
Alignment explanation
Indices: 10761427--10761660 Score: 303
Period size: 82 Copynumber: 2.9 Consensus size: 81
10761417 ATCGATGAAC
* * *
10761427 CTTTTATTTTC-AAAGTTGTTGTGCCTCTATTTAAATGAGCCTTTTATTTTTCAAAGTTATTATA
1 CTTTTATTTTCAAAAGTTGTTGTGCCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTA-A
10761491 -CCTCTGTTTAGAGGAG
65 GCCTCTGTTTAGAGGAG
* * * **
10761507 CATTTTATTTTCAAAAGTTATAGTGCCTCTGTTTAGAAGA-CCGTTTTATTTTTCAAAGTTGTGG
1 C-TTTTATTTTCAAAAGTTGTTGTGCCTCTGTTTAGATGAGCC-TTTTATTTTTCAAAGTTGTTA
*
10761571 TGCCTCTGTTTAGAGGAG
64 AGCCTCTGTTTAGAGGAG
* *
10761589 TCTTTTATTTTTCAAAAGTTGTTGTGCATCTGTTTAGATGAGCCTTTTATTTTTTAAAGTTGTTA
1 -CTTTTA-TTTTCAAAAGTTGTTGTGCCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTA
10761654 AGCCTCT
64 AGCCTCT
10761661 ATTCAGATGA
Statistics
Matches: 130, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
80 1 0.01
81 12 0.09
82 61 0.47
83 54 0.42
84 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (81 bp):
CTTTTATTTTCAAAAGTTGTTGTGCCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTAAG
CCTCTGTTTAGAGGAG
Found at i:10762723 original size:26 final size:26
Alignment explanation
Indices: 10762668--10762724 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10762658 AGCCGTTATG
* *
10762668 TTTTTTTTGTATTTTTTGTTATTTTC
1 TTTTTTTTGTATTTTGTGTTATTTTA
10762694 TTTTTTTT-TATTTATGTGTT-TGTTTA
1 TTTTTTTTGTATTT-TGTGTTAT-TTTA
10762720 TTTTT
1 TTTTT
10762725 AGGAGTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.81
Consensus pattern (26 bp):
TTTTTTTTGTATTTTGTGTTATTTTA
Found at i:10763093 original size:187 final size:187
Alignment explanation
Indices: 10762751--10763098 Score: 443
Period size: 188 Copynumber: 1.9 Consensus size: 187
10762741 GATTAAATTT
* * * * *
10762751 AAAAAAATAAAAATAAAATATTTTTTTGAGAATAAATAATAATTGTCTAATGATGAAATTTTTAA
1 AAAAAAAGAAAAATAAAATATTTTTTTGAAAATAAATAATAATTATCCAATGATGAAACTTTTAA
* * *
10762816 AAATTTCAAATAATAAATTTTTATAAAATTTTTAAGTGAGAAATTTTGTCTAAATTTATCCCAAA
66 AAATTTCAAATAATAAATTCTTATAAAATCTCTAAGTGAGAAATTTTGTCTAAATTTATCCCAAA
* * *
10762881 TTGTGAAATAATTTAGATAAAATTTCAATAACAATAATTAATATTTATTCTCAAACA
131 TGGTGAAAGAATTTAAATAAAATTTCAATAACAATAATTAATATTTATTCTCAAACA
** * *
10762938 AAAAAAAGAAAAATAAAAT-TTTTTAGTTGAAAATATTTTATAATTATCCAATGATGAGACTTTT
1 AAAAAAAGAAAAATAAAATATTTTT--TTGAAAATAAATAATAATTATCCAATGATGAAACTTTT
* * * *
10763002 AGAAATTTCAAATGATAAATTCTTA-AGAAATCTCTAGGTGAGAAATTTCT-T-TAAATTTGTCC
64 AAAAATTTCAAATAATAAATTCTTATA-AAATCTCTAAGTGAGAAATTT-TGTCTAAATTTATCC
* *
10763064 CAAATGGTGGAAGAATTTAAATGAAATTTCAATAA
127 CAAATGGTGAAAGAATTTAAATAAAATTTCAATAA
10763099 AAAATATTGT
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
186 5 0.04
187 59 0.43
188 71 0.52
189 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (187 bp):
AAAAAAAGAAAAATAAAATATTTTTTTGAAAATAAATAATAATTATCCAATGATGAAACTTTTAA
AAATTTCAAATAATAAATTCTTATAAAATCTCTAAGTGAGAAATTTTGTCTAAATTTATCCCAAA
TGGTGAAAGAATTTAAATAAAATTTCAATAACAATAATTAATATTTATTCTCAAACA
Found at i:10773931 original size:17 final size:18
Alignment explanation
Indices: 10773904--10773939 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10773894 ATTTAAAAAC
*
10773904 ATTTTTATATATTTATAT
1 ATTTTTATATATATATAT
10773922 ATTTTT-TATATATATAT
1 ATTTTTATATATATATAT
10773939 A
1 A
10773940 AATGTAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATATATATATAT
Found at i:10775260 original size:8 final size:8
Alignment explanation
Indices: 10775249--10775283 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
10775239 TTTAATAAAT
10775249 TATATTTA
1 TATATTTA
*
10775257 TATAATTA
1 TATATTTA
10775265 TATATTTA
1 TATATTTA
*
10775273 AATATTTA
1 TATATTTA
10775281 TAT
1 TAT
10775284 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATTTA
Found at i:10775407 original size:21 final size:22
Alignment explanation
Indices: 10775345--10775412 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
10775335 ATATCAAATC
10775345 AAATAAAATATAAAA-AAAATTT
1 AAAT-AAATATAAAATAAAATTT
* * * *
10775367 AAATTAATTTAAATTTAAATTT
1 AAATAAATATAAAATAAAATTT
*
10775389 -AATAAATATAAAATCAAA-TT
1 AAATAAATATAAAATAAAATTT
10775409 AAAT
1 AAAT
10775413 TCAAAACGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 2 0.06
21 24 0.67
22 10 0.28
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAATATAAAATAAAATTT
Found at i:10777809 original size:2 final size:2
Alignment explanation
Indices: 10777804--10777841 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
10777794 TTTCATAATC
10777804 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10777842 ACGTATATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10778479 original size:233 final size:234
Alignment explanation
Indices: 10778067--10778743 Score: 792
Period size: 239 Copynumber: 2.9 Consensus size: 234
10778057 CATTGCATCG
*
10778067 TCTCAATTTAAAATCAATTTT-AAGATAATTTATTTTTTTAATTTATCTGAAGTTAACATGAGTC
1 TCTCAATTTAAAATCAATTTTAAAG-TAATTTATTTTTTTAATTTATCTG-AGTTAACATGAGTA
*
10778131 TTTAAATTTATCATAACTTTT-AAAATATTATTTAATATCTTTAATATTTTTTATAAATAATCTT
64 TTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATCAT
* *
10778195 TGTATTATCTTTAGTTTTTAAATATATTTCACAAAATAAAATGTGAAAAAAAA-ATATAAATATC
129 TATATTATCTTTAGTTTTTAAATATATTTCACAAAA-AAAATATGAAAAAAAATATATAAATA-C
*
10778259 AGAACAACTTTAGAAAAATTTTCCTATACATC-A-TC-T-CA-
192 AAAACAACTTTAGAAAAATTTTCCTATACATCAATTCTTACAT
10778297 TCTCAATTTAAAATCAATTTTAAAGTAATTTATTTTTTTCAATTTATCTGCAGTTAACATGAGTA
1 TCTCAATTTAAAATCAATTTTAAAGTAATTTATTTTTTT-AATTTATCTG-AGTTAACATGAGTA
*
10778362 TTTAAATTTATCACAACTTTTAAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATTC
64 TTTAAATTTATCATAACTTTT-AAAAATATTATTTAATATCTTTAATATTTTTTATAAATAA-TC
* * * **
10778427 -TTACATTATCTTCAGCTTTTAAATATATTTCGTAAAAAAAATATGAAAAAAAATATATAAATAC
127 ATTATATTATCTTTAGTTTTTAAATATATTTCACAAAAAAAATATGAAAAAAAATATATAAATA-
* ** * *
10778491 CAAAACAACTTAAGGAAAGCTTTTCTTGTACATCAAGTTTCTTTTGTACAT
191 CAAAACAACTTTA-GAAAAATTTTCCTATACATCAA--TTC---T-TACAT
* * * * *
10778542 TACCTCATCTTTTAACATCAATTTTAAAGTAATTTA-TGTTTT--TTTA----ATTTATCATGAG
1 T--CTCA--ATTTAAAATCAATTTTAAAGTAATTTATTTTTTTAATTTATCTGAGTTAACATGAG
* *
10778600 TATTTAAAATTATCATAACTTTTAAAAATATTATTTTATATCTTTAATATTTTTTATAAATAATC
62 TATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATC
* * * * *
10778665 ATTATATTATTTTTAATTTTTAAATATATTTCACAAAATAAATATGAAAAAATATACATAAATAC
127 ATTATATTATCTTTAGTTTTTAAATATATTTCACAAAAAAAATATGAAAAAAAATATATAAATAC
*
10778730 TATAACAACTTTAG
192 -AAAACAACTTTAG
10778744 GAAAGCCCTC
Statistics
Matches: 386, Mismatches: 37, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
230 35 0.09
231 46 0.12
232 15 0.04
233 90 0.23
234 18 0.05
235 1 0.00
238 6 0.02
239 102 0.26
240 31 0.08
243 1 0.00
244 2 0.01
245 5 0.01
247 4 0.01
248 5 0.01
249 25 0.06
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.45
Consensus pattern (234 bp):
TCTCAATTTAAAATCAATTTTAAAGTAATTTATTTTTTTAATTTATCTGAGTTAACATGAGTATT
TAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAATAATCATTA
TATTATCTTTAGTTTTTAAATATATTTCACAAAAAAAATATGAAAAAAAATATATAAATACAAAA
CAACTTTAGAAAAATTTTCCTATACATCAATTCTTACAT
Found at i:10780944 original size:18 final size:16
Alignment explanation
Indices: 10780921--10780960 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10780911 TTGATATCAT
10780921 AATTAAAAATAATTATAA
1 AATTAAAAAT-A-TATAA
*
10780939 AATTAATAATATATAA
1 AATTAAAAATATATAA
10780955 AATTAA
1 AATTAA
10780961 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAAAATATATAA
Found at i:10780953 original size:16 final size:15
Alignment explanation
Indices: 10780928--10780963 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
10780918 CATAATTAAA
10780928 AATAATTATAAAATT
1 AATAATTATAAAATT
10780943 AATAATATATAAAATT
1 AATAAT-TATAAAATT
10780959 AATAA
1 AATAA
10780964 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATTATAAAATT
Found at i:10781290 original size:27 final size:27
Alignment explanation
Indices: 10781236--10781290 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
10781226 TTTATTATAT
*
10781236 TTATTAAAATATAAATATTATTTCTAA
1 TTATTAAAATATAAATATGATTTCTAA
10781263 TTATTAAAATATAAATTATGATTT-TAA
1 TTATTAAAATATAAA-TATGATTTCTAA
10781290 T
1 T
10781291 AAAATGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TTATTAAAATATAAATATGATTTCTAA
Found at i:10783125 original size:15 final size:15
Alignment explanation
Indices: 10783092--10783138 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
10783082 TCATTCGAAT
* *
10783092 AATTCAATTAATTTTA
1 AATTAAATT-ATTTAA
10783108 AATTAAATTATTTAA
1 AATTAAATTATTTAA
*
10783123 AATTAAATTAATTAA
1 AATTAAATTATTTAA
10783138 A
1 A
10783139 TTATGATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATTATTTAA
Found at i:10800237 original size:57 final size:57
Alignment explanation
Indices: 10800168--10800282 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
10800158 AATTCATAAA
*
10800168 TAATTTCTCTAAGCAACTAGAGGAAATGCTAAATTGAATTCAAGG-CATGCACAGGTT
1 TAATTTCTCTAAGCAACTAGAGGAAATGCTAAATCGAATTC-AGGACATGCACAGGTT
* *
10800225 TAATTTCTCTAAGCAACTAGAGGAAATGCTCAATCGAATTCAGGACTTGCACAGGTT
1 TAATTTCTCTAAGCAACTAGAGGAAATGCTAAATCGAATTCAGGACATGCACAGGTT
10800282 T
1 T
10800283 TCAGCTACAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 3 0.06
57 51 0.94
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (57 bp):
TAATTTCTCTAAGCAACTAGAGGAAATGCTAAATCGAATTCAGGACATGCACAGGTT
Found at i:10802309 original size:29 final size:29
Alignment explanation
Indices: 10802267--10802324 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10802257 GTTTCTACTA
*
10802267 CATAAACCCAAAAATCTATAATTCAAAAC
1 CATAAACCCAAAAAACTATAATTCAAAAC
10802296 CATAAACGCC-AAAAACTATAATTCAAAAC
1 CATAAAC-CCAAAAAACTATAATTCAAAAC
10802325 TATGATGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.55, C:0.24, G:0.02, T:0.19
Consensus pattern (29 bp):
CATAAACCCAAAAAACTATAATTCAAAAC
Found at i:10803124 original size:19 final size:19
Alignment explanation
Indices: 10803100--10803146 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
10803090 AAAATTACAT
10803100 TGAAAACCCAATATTTCTC
1 TGAAAACCCAATATTTCTC
10803119 TGAAAACCCAATATTTCTC
1 TGAAAACCCAATATTTCTC
10803138 TGAAAACCC
1 TGAAAACCC
10803147 TTTCTACTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (19 bp):
TGAAAACCCAATATTTCTC
Found at i:10805630 original size:14 final size:13
Alignment explanation
Indices: 10805613--10805649 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
10805603 ATGTATATAG
10805613 TTATATATTTATTA
1 TTAT-TATTTATTA
10805627 TTATTATATTATTA
1 TTATTAT-TTATTA
10805641 TTATTATTT
1 TTATTATTT
10805650 TTTTTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:10806173 original size:31 final size:31
Alignment explanation
Indices: 10806138--10806208 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
10806128 AATTTCCAGA
* ** *
10806138 TTCCGGCGAAA-ATTCCGGCTAAGTTTGAATT
1 TTCCGGC-AAACATTCCGGCCAACATTGAAGT
10806169 TTCCGGCAAACATTCCGGCCAACATTGAAGT
1 TTCCGGCAAACATTCCGGCCAACATTGAAGT
10806200 TTCCGGCAA
1 TTCCGGCAA
10806209 CCAGCCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (31 bp):
TTCCGGCAAACATTCCGGCCAACATTGAAGT
Found at i:10806401 original size:18 final size:18
Alignment explanation
Indices: 10806378--10806416 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10806368 GAAAAAGATA
*
10806378 GAGGAGGAATCTGAATAG
1 GAGGAGGAATCCGAATAG
10806396 GAGGAGGAATCCGAATAG
1 GAGGAGGAATCCGAATAG
10806414 GAG
1 GAG
10806417 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.41, T:0.13
Consensus pattern (18 bp):
GAGGAGGAATCCGAATAG
Found at i:10808391 original size:62 final size:62
Alignment explanation
Indices: 10808289--10808566 Score: 347
Period size: 62 Copynumber: 4.5 Consensus size: 62
10808279 TTCCTTAAAT
**
10808289 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAGGTTTCCAAAAAAAAAA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCCAAAAAAAAAA
*
10808351 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAAAAAA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA-TTTCCAAAAAAAAAA
* * *
10808414 ATATTTTTAGGGAAAAGTTGAAAGCATCAATTTTCCTT-AGAAAT--AAATTTTCAAAAAAAATA
1 AT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTCCAAAAAAAA-A
10808476 A
62 A
* * * *
10808477 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAATTT-C--AAGAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAAAAA
*
10808535 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
10808567 TCCTGAACAA
Statistics
Matches: 194, Mismatches: 13, Indels: 22
0.85 0.06 0.10
Matches are distributed among these distances:
58 32 0.16
59 5 0.03
60 4 0.02
61 27 0.14
62 63 0.32
63 26 0.13
64 6 0.03
65 31 0.16
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (62 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAAAAA
Found at i:10808511 original size:126 final size:119
Alignment explanation
Indices: 10808285--10808566 Score: 372
Period size: 126 Copynumber: 2.3 Consensus size: 119
10808275 TGGCTTCCTT
* *
10808285 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATCAAGGTTTCCAAAAAAAAA
1 AAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCTTAGAAAATCAAGATTTCCAAAAAAAAA
*
10808350 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAAAAA
65 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATCAAAA-TTTC-----AAAA
* *
10808412 AAATATTTTTAGGGAAAAGTTGAAAGCATCAATTTTCCTTAG-AAAT-AA-ATTTTCAAAAAAAA
1 AAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTT-CTTAGAAAATCAAGATTTCCAAAAAAAA
* *
10808474 TAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCAAGA
64 -AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATCAAAATTTCAAAA
10808531 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTT
10808567 TCCTGAACAA
Statistics
Matches: 143, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
119 37 0.26
124 4 0.03
125 20 0.14
126 40 0.28
127 37 0.26
128 5 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (119 bp):
AAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTAGAAAATCAAGATTTCCAAAAAAAAAA
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATCAAAATTTCAAAA
Found at i:10811224 original size:76 final size:76
Alignment explanation
Indices: 10811122--10811267 Score: 186
Period size: 76 Copynumber: 1.9 Consensus size: 76
10811112 ATCTTTGTAA
* * * * *
10811122 ATTTTAAATGAACTTTCAAATAATCTAAACA-ATATCTTTTTAAATTTAAAATTTTTAAATATAG
1 ATTTAAAATGAACTTTCAAATAATCTAAACATATATCTTTTGAAATATAAAAATCTTAAAT-TAG
10811186 TGATATTTTATC
65 TGATATTTTATC
* * * * *
10811198 ATTTAAAATGAATTTTCTAATCATCTAAATATATATCTTTTGAAATATAAAAATCTTGAATTAGT
1 ATTTAAAATGAACTTTCAAATAATCTAAACATATATCTTTTGAAATATAAAAATCTTAAATTAGT
10811263 GATAT
66 GATAT
10811268 ATCTTTTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 35 0.59
77 24 0.41
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (76 bp):
ATTTAAAATGAACTTTCAAATAATCTAAACATATATCTTTTGAAATATAAAAATCTTAAATTAGT
GATATTTTATC
Found at i:10811698 original size:17 final size:18
Alignment explanation
Indices: 10811678--10811712 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10811668 TTATTATGTT
10811678 ATATTTA-AATTTAAAAA
1 ATATTTACAATTTAAAAA
10811695 ATATTTATCAATTTAAAA
1 ATATTTA-CAATTTAAAA
10811713 GTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTTACAATTTAAAAA
Found at i:10812278 original size:12 final size:12
Alignment explanation
Indices: 10812261--10812285 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10812251 TTAAAATGCA
10812261 TTTTTTTCTTTT
1 TTTTTTTCTTTT
10812273 TTTTTTTCTTTT
1 TTTTTTTCTTTT
10812285 T
1 T
10812286 ATAATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:10813782 original size:20 final size:21
Alignment explanation
Indices: 10813743--10813780 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10813733 GCCATGTCAG
10813743 ATTTTTTAAATAATCATTTAT
1 ATTTTTTAAATAATCATTTAT
10813764 ATTTTTTAAA-AAT-ATTT
1 ATTTTTTAAATAATCATTT
10813781 TAAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTAAATAATCATTTAT
Found at i:10815422 original size:29 final size:29
Alignment explanation
Indices: 10815372--10815431 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
10815362 TTTCTACTAC
10815372 ATAAACCCAAAAATCTACAATTCAAAACT
1 ATAAACCCAAAAATCTACAATTCAAAACT
*
10815401 ATAAACCCCAAAAA-CTATAATTCAAAACT
1 ATAAA-CCCAAAAATCTACAATTCAAAACT
10815430 AT
1 AT
10815432 GATGGAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.22
Consensus pattern (29 bp):
ATAAACCCAAAAATCTACAATTCAAAACT
Found at i:10819358 original size:608 final size:608
Alignment explanation
Indices: 10818204--10819407 Score: 2040
Period size: 608 Copynumber: 2.0 Consensus size: 608
10818194 TTTTTTATTC
* * * * * *
10818204 GAGTGTTATCCAAATCTAACATCTCTATGTTCTCCGGAACAATCGGAAAATTTTTTATGTTTGGG
1 GAGTGTTATCCAAATATAACACCTCTATCTTCGCCGGAACAATCGGAAAATTTGTGATGTTTGGG
* *
10818269 CAATCACGGAGCCGGATGTCTTTAAGGGCATGCAACTGAATAATAGTGCTTGGAATATTACGAAT
66 CAATCACAGAGCCGGATGTCTTTAAGGGCATGCAACTGAATAATAGTGCTTGGAAGATTACGAAT
*
10818334 TCGGCCACCAATCATATCCAAAAATGCAAATTGATGGAGAAACCCGATTGACTCCGGAATTTCTT
131 TCGGCCACCAATCATATCCAAAAAAGCAAATTGATGGAGAAACCCGATTGACTCCGGAATTTCTT
10818399 CTATTGCAGTGCCTGTTAAAATCAACTCTTCAATATGCTGTGGGAGCTCAGGAAATTTCTTCAAA
196 CTATTGCAGTGCCTGTTAAAATCAACTCTTCAATATGCTGTGGGAGCTCAGGAAATTTCTTCAAA
* * * *
10818464 TTTGTTAACCCTTCACCTCTTAGGCGAGAGAGAAGAGATTTCAAATGAACCATGGATGGGAGTTC
261 TTTGTTAAACCTACACCGCTTAGGCGAAAGAGAAGAGATTTCAAATGAACCATGGATGGGAGTTC
10818529 AACCAAGCTCTCGCATCCACTAATTTCCAGTTGTTCAATATTTTTGGACGCTGACAAACTTGGGA
326 AACCAAGCTCTCGCATCCACTAATTTCCAGTTGTTCAATATTTTTGGACGCTGACAAACTTGGGA
*
10818594 TCCTCGTTAAATTCTTGCAAAACCGAAGATCTAGCACTCTTAAATTCTCAAGATTCTGTGCAATG
391 TCCTCGTTAAATTCTTGCAAAACCGAAGATCAAGCACTCTTAAATTCTCAAGATTCTGTGCAATG
* *
10818659 AAAGCGAAGAAACAATATGAGATTAGTTTAAACTTTAAAGCCTTTAAACTTATAGGGTACTACAA
456 AAAGCGAAGAAACAATATGAGATTAGTTTAAACTTTAAAGCCTCTAAACTTATAAGGTACTACAA
*
10818724 AAATAAAAATTAAAAACAATAAATATTATTTTTTATGAAAATAAAATGTTAAAGAATACCTGGTC
521 AAATAAAAATTAAAAACAATAAATATTATTTTTTATGAAAATAAAATGTTAAAGAATACCTGATC
10818789 TCCAGTCCAAAATTCTTCTACTG
586 TCCAGTCCAAAATTCTTCTACTG
*
10818812 GAGTGTTATCCAAATATAAGACCTCTATCTTCGCCGGAACAATCGGAAAATTTGTGATGTTTGGG
1 GAGTGTTATCCAAATATAACACCTCTATCTTCGCCGGAACAATCGGAAAATTTGTGATGTTTGGG
* *
10818877 CAATCACAGAGTCGGATGTCTTTAAGGGCATGCAACTGAATAATAGTGCTTGGAAGATTATGAAT
66 CAATCACAGAGCCGGATGTCTTTAAGGGCATGCAACTGAATAATAGTGCTTGGAAGATTACGAAT
* *
10818942 TCGGCCACCACTCATATCCAAAAAAGCAAGTTGATGGAGAAACCCGATTGACTCCGGAATTTCTT
131 TCGGCCACCAATCATATCCAAAAAAGCAAATTGATGGAGAAACCCGATTGACTCCGGAATTTCTT
* * *
10819007 CTATTGCAGTGTCTGTTAAAATCAAC-CTTTTAGTATGCTGTGGGAGCTCAGGAAATTTCTTCAA
196 CTATTGCAGTGCCTGTTAAAATCAACTC-TTCAATATGCTGTGGGAGCTCAGGAAATTTCTTCAA
* *
10819071 ATTTTTTAAACC-ACAACCGCTTAGGCTAAAGCA-AAGAGATTTCAAATGAACCATGGATGGGAG
260 ATTTGTTAAACCTAC-ACCGCTTAGGCGAAAG-AGAAGAGATTTCAAATGAACCATGGATGGGAG
* *
10819134 TTCAACCAAGCTTTCGCA-CCAACTAATTTCCAGTTGTTCAATATTTTTGGATGCTGACAAACTT
323 TTCAACCAAGCTCTCGCATCC-ACTAATTTCCAGTTGTTCAATATTTTTGGACGCTGACAAACTT
*
10819198 GGGATCCTGGTTAAATTCTTGCAAAA-CGAAAGATCAAGCACTCTTAAATTCTCAAGATTCTGTG
387 GGGATCCTCGTTAAATTCTTGCAAAACCG-AAGATCAAGCACTCTTAAATTCTCAAGATTCTGTG
*
10819262 CAATGAAAGCGAAGAAACAATATGAGATTAGTTTAAATTTTAAAGCCTCTAAACTTATAAGGTAC
451 CAATGAAAGCGAAGAAACAATATGAGATTAGTTTAAACTTTAAAGCCTCTAAACTTATAAGGTAC
10819327 TACAAAAATAAAAATTAAAAACAATAAATATTATTTTTTATGAAAATAAAATGTTAAAGAATACC
516 TACAAAAATAAAAATTAAAAACAATAAATATTATTTTTTATGAAAATAAAATGTTAAAGAATACC
*
10819392 TGATCTCCATTCCAAA
581 TGATCTCCAGTCCAAA
10819408 GTTGTTCAAA
Statistics
Matches: 559, Mismatches: 32, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
607 6 0.01
608 552 0.99
609 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (608 bp):
GAGTGTTATCCAAATATAACACCTCTATCTTCGCCGGAACAATCGGAAAATTTGTGATGTTTGGG
CAATCACAGAGCCGGATGTCTTTAAGGGCATGCAACTGAATAATAGTGCTTGGAAGATTACGAAT
TCGGCCACCAATCATATCCAAAAAAGCAAATTGATGGAGAAACCCGATTGACTCCGGAATTTCTT
CTATTGCAGTGCCTGTTAAAATCAACTCTTCAATATGCTGTGGGAGCTCAGGAAATTTCTTCAAA
TTTGTTAAACCTACACCGCTTAGGCGAAAGAGAAGAGATTTCAAATGAACCATGGATGGGAGTTC
AACCAAGCTCTCGCATCCACTAATTTCCAGTTGTTCAATATTTTTGGACGCTGACAAACTTGGGA
TCCTCGTTAAATTCTTGCAAAACCGAAGATCAAGCACTCTTAAATTCTCAAGATTCTGTGCAATG
AAAGCGAAGAAACAATATGAGATTAGTTTAAACTTTAAAGCCTCTAAACTTATAAGGTACTACAA
AAATAAAAATTAAAAACAATAAATATTATTTTTTATGAAAATAAAATGTTAAAGAATACCTGATC
TCCAGTCCAAAATTCTTCTACTG
Found at i:10822520 original size:9 final size:11
Alignment explanation
Indices: 10822486--10822522 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
10822476 ATCGGTATCT
*
10822486 TATTTTATATTA
1 TATTTTA-AATA
10822498 TATTTTAAATA
1 TATTTTAAATA
10822509 TATTTTAAATA
1 TATTTTAAATA
10822520 TAT
1 TAT
10822523 AAATTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTAAATA
Found at i:10828341 original size:26 final size:26
Alignment explanation
Indices: 10828288--10828341 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
10828278 GAATTTAAAC
* *
10828288 ATAAATAATTAAATTTTTTATTTAAT
1 ATAAAAAATTAAATTTATTATTTAAT
10828314 ATAAAAAATTAAATTTATT-TTTATAT
1 ATAAAAAATTAAATTTATTATTTA-AT
10828340 AT
1 AT
10828342 TAATCGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAAAAATTAAATTTATTATTTAAT
Found at i:10828574 original size:14 final size:14
Alignment explanation
Indices: 10828533--10828575 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10828523 TTTATTGAGA
10828533 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
**
10828546 TTAACTTATAATTAT
1 TTATTTTA-AATTAT
10828561 TTATTTTAAATTAT
1 TTATTTTAAATTAT
10828575 T
1 T
10828576 AAATATGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 9 0.38
15 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:10830717 original size:15 final size:15
Alignment explanation
Indices: 10830697--10830753 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
10830687 TAAATCTCAT
10830697 AAAATAATATATTTA
1 AAAATAATATATTTA
*
10830712 AAAATAATA-ATATA
1 AAAATAATATATTTA
*
10830726 AAAATGAAT-TAATTA
1 AAAAT-AATATATTTA
10830741 AAAA-AATAATATT
1 AAAATAAT-ATATT
10830754 ATTTACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 22 0.65
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATAATATATTTA
Found at i:10830754 original size:14 final size:14
Alignment explanation
Indices: 10830697--10830755 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
10830687 TAAATCTCAT
*
10830697 AAAATAATATATTTA
1 AAAATAATAT-TATA
*
10830712 AAAATAATAATATA
1 AAAATAATATTATA
*
10830726 AAAATGAATTAATTAAA
1 AAAAT-AA-T-ATTATA
10830743 AAAATAATATTAT
1 AAAATAATATTAT
10830756 TTACCAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 12 0.33
15 12 0.33
16 3 0.08
17 9 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AAAATAATATTATA
Found at i:10834143 original size:80 final size:79
Alignment explanation
Indices: 10834007--10834192 Score: 318
Period size: 80 Copynumber: 2.3 Consensus size: 79
10833997 GACCCCCAGT
* * *
10834007 CTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCACTGCTTGAAGTTGATCCGTCAGAAG
1 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAG
10834072 GGACTACGCCCAGAA
66 GGACTACG-CCAGAA
* *
10834087 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
1 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAG
10834152 GGACTACGCCAGAA
66 GGACTACGCCAGAA
10834166 CTGGATGCGCCCAAATCTGGTTCCAAC
1 CTGGATGCGCCCAAATCTGGTTCCAAC
10834193 AAGACCCTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 33 0.33
80 68 0.67
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.18
Consensus pattern (79 bp):
CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAG
GGACTACGCCAGAA
Found at i:10834236 original size:198 final size:198
Alignment explanation
Indices: 10833892--10834389 Score: 876
Period size: 198 Copynumber: 2.5 Consensus size: 198
10833882 CTAGCAGACA
*
10833892 ATGCGTCCCAAATTTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGA
1 ATGCG-CCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGA
*
10833957 TTACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCCCAGTCTGGATGCGCCCGAA
65 CTACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCCCAGTCTGGATGCGCCCGAA
* *
10834022 TCTGGTTCCAACCAGTCGCCCACCACTGCTTGAAGTTGATCCGTCAGAAGGGACTACGCCCAGAA
130 TCTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAGGGACTACGCCCAGAA
10834087 CTGG
195 CTGG
10834091 ATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGAC
1 ATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGAC
*
10834156 TACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCTCAGTCTGGATGCGCCCGAAT
66 TACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCCCAGTCTGGATGCGCCCGAAT
* *
10834221 CTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGACTACGCCCAGAAC
131 CTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAGGGACTACGCCCAGAAC
10834286 TGG
196 TGG
*
10834289 ATGC-CCCTAAATCT-GTTCCAACCAGTCGCCCACCACTGCTTGAGGTCGATCCGTCGGAAGGGA
1 ATGCGCCC-AAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGA
10834352 CTACGCCCAGAACTGGATGCGCCCAAATCT-GTTCCAAC
65 CTACG-CCAGAACTGGATGCGCCCAAATCTGGTTCCAAC
10834390 CAGTCGCCCA
Statistics
Matches: 289, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
197 64 0.22
198 220 0.76
199 5 0.02
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.18
Consensus pattern (198 bp):
ATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGGGAC
TACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCCCAGTCTGGATGCGCCCGAAT
CTGGTTCCAACCAGTCGCCCACCACTGCCTGAAGTCGATCCGTCAGAAGGGACTACGCCCAGAAC
TGG
Found at i:10834307 original size:118 final size:118
Alignment explanation
Indices: 10834087--10834310 Score: 407
Period size: 118 Copynumber: 1.9 Consensus size: 118
10834077 ACGCCCAGAA
10834087 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
1 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
10834152 GGACTACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCTCAGT
66 GGACTACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCTCAGT
*
10834205 CTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
1 CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
10834270 GGACTACGCCCAGAACTGGATGC-CCCTAAATCT-GTTCCAAC
66 GGACTACG-CCAGAACTGGATGCGCCC-AAATCTGGTTCCAAC
10834311 CAGTCGCCCA
Statistics
Matches: 103, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
118 83 0.81
119 20 0.19
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (118 bp):
CTGGATGCGCCCAAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
GGACTACGCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACCCTCAGT
Found at i:10834337 original size:79 final size:79
Alignment explanation
Indices: 10834205--10834414 Score: 368
Period size: 79 Copynumber: 2.6 Consensus size: 79
10834195 GACCCTCAGT
*
10834205 CTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
1 CTGGATGCGCCCAAATCT-GTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
10834270 GGACTACGCCCAGAA
65 GGACTACGCCCAGAA
*
10834285 CTGGATGC-CCCTAAATCTGTTCCAACCAGTCGCCCACCACTGCTTGAGGTCGATCCGTCGGAAG
1 CTGGATGCGCCC-AAATCTGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAG
10834349 GGACTACGCCCAGAA
65 GGACTACGCCCAGAA
*
10834364 CTGGATGCGCCCAAATCTGTTCCAACCAGTCGCCCACCACTACCTGAGGTC
1 CTGGATGCGCCCAAATCTGTTCCAACCAGTCGCCCACCACTGCCTGAGGTC
10834415 CAGTCGCCCA
Statistics
Matches: 124, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
79 108 0.87
80 16 0.13
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (79 bp):
CTGGATGCGCCCAAATCTGTTCCAACCAGTCGCCCACCACTGCCTGAGGTCGATCCGTCGGAAGG
GACTACGCCCAGAA
Found at i:10834419 original size:25 final size:25
Alignment explanation
Indices: 10834389--10834439 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10834379 TCTGTTCCAA
10834389 CCAGTCGCCCACCACTACCTGAGGT
1 CCAGTCGCCCACCACTACCTGAGGT
*
10834414 CCAGTCGCCCACCACTGCCTGAGGT
1 CCAGTCGCCCACCACTACCTGAGGT
10834439 C
1 C
10834440 GATCCGTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.16
Consensus pattern (25 bp):
CCAGTCGCCCACCACTACCTGAGGT
Found at i:10835264 original size:21 final size:21
Alignment explanation
Indices: 10835223--10835264 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10835213 TATTTTTATT
* *
10835223 TTTTTAAATTAATTTTTAAAA
1 TTTTTAAATTAATATTAAAAA
10835244 TTTTTAAA-TATATATTAAAAA
1 TTTTTAAATTA-ATATTAAAAA
10835265 AACATATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAAATTAATATTAAAAA
Found at i:10836497 original size:2 final size:2
Alignment explanation
Indices: 10836492--10836518 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10836482 CATATATTCT
10836492 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10836519 GATTGATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10838802 original size:18 final size:18
Alignment explanation
Indices: 10838773--10838813 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10838763 TAAAATGATT
10838773 AAATTTTAAAATTATAATA
1 AAATTTTAAAATT-TAATA
*
10838792 AAATTTT-AAATTTTATA
1 AAATTTTAAAATTTAATA
10838809 AAATT
1 AAATT
10838814 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
19 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTTAAAATTTAATA
Found at i:10841087 original size:11 final size:11
Alignment explanation
Indices: 10841064--10841095 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10841054 AATAAAAAGA
10841064 TAATTTTTT-T
1 TAATTTTTTAT
10841074 TAATTTTTTAT
1 TAATTTTTTAT
10841085 TAATTTTTTAT
1 TAATTTTTTAT
10841096 AAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TAATTTTTTAT
Found at i:10841264 original size:15 final size:15
Alignment explanation
Indices: 10841244--10841275 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10841234 GGCAAAAAAC
10841244 AAGATGCAAGATAAA
1 AAGATGCAAGATAAA
*
10841259 AAGATGCAGGATAAA
1 AAGATGCAAGATAAA
10841274 AA
1 AA
10841276 TTCAGTTGAG
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:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (15 bp):
AAGATGCAAGATAAA
Found at i:10841454 original size:3 final size:3
Alignment explanation
Indices: 10841446--10841489 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
10841436 TAAACACCAT
*
10841446 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10841490 TTCCTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10842586 original size:17 final size:17
Alignment explanation
Indices: 10842564--10842598 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10842554 TTATTGTTTT
10842564 ATAATAATAA-ATAATAA
1 ATAATAA-AATATAATAA
10842581 ATAATAAAATATAATAA
1 ATAATAAAATATAATAA
10842598 A
1 A
10842599 AAGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAAAATATAATAA
Found at i:10847723 original size:24 final size:25
Alignment explanation
Indices: 10847696--10847742 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10847686 AAATAAGTTG
*
10847696 AAAAATATAAAATAAAAT-AAAAGC
1 AAAAAAATAAAATAAAATGAAAAGC
*
10847720 AAAAAAATAAAGTAAAATGAAAA
1 AAAAAAATAAAATAAAATGAAAA
10847743 AAGAAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (25 bp):
AAAAAAATAAAATAAAATGAAAAGC
Found at i:10848034 original size:31 final size:31
Alignment explanation
Indices: 10847999--10848065 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
10847989 CACCTGAAAG
*
10847999 TTCATACTTCACCAAAAAATTCATCGAAAAA
1 TTCATACTTCACCAAAAAATTCATCAAAAAA
***
10848030 TTCATACTTCATTGAAAAATTCATCAAAAAA
1 TTCATACTTCACCAAAAAATTCATCAAAAAA
10848061 TTCAT
1 TTCAT
10848066 CCAAAACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.31
Consensus pattern (31 bp):
TTCATACTTCACCAAAAAATTCATCAAAAAA
Found at i:10848559 original size:25 final size:25
Alignment explanation
Indices: 10848524--10848574 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10848514 AATTCACGCC
*
10848524 AAAAATCAAAAAGGGAAAAAAAGAA
1 AAAAATCAAAAAAGGAAAAAAAGAA
* * *
10848549 AAAAATGAAAAAATGAAAAATAGAA
1 AAAAATCAAAAAAGGAAAAAAAGAA
10848574 A
1 A
10848575 TAATGATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (25 bp):
AAAAATCAAAAAAGGAAAAAAAGAA
Found at i:10848574 original size:16 final size:16
Alignment explanation
Indices: 10848524--10848580 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
10848514 AATTCACGCC
* **
10848524 AAAAATCAAAAAGGGA
1 AAAAATGAAAAAAAGA
*
10848540 AAAAAAGAAAAAAATGA
1 AAAAATGAAAAAAA-GA
*
10848557 AAAAATGAAAAATAGA
1 AAAAATGAAAAAAAGA
*
10848573 AATAATGA
1 AAAAATGA
10848581 TAATAATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
16 19 0.58
17 14 0.42
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAAATGAAAAAAAGA
Found at i:10848588 original size:3 final size:3
Alignment explanation
Indices: 10848573--10848629 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
10848563 GAAAAATAGA
*
10848573 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10848621 AAT AAT AAT
1 AAT AAT AAT
10848630 GTAATACTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10848912 original size:32 final size:32
Alignment explanation
Indices: 10848820--10848914 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 32
10848810 TCAATGAGTA
* * * *
10848820 AAAATGACAAAGACGAAATCACGAGTCAAGAAT
1 AAAATAACCAAGATGAAATCA-GAGTCAAAAAT
* *
10848853 AAAATGACCAAGATCG-AGTC-GAGGTCAAAAAT
1 AAAATAACCAAGAT-GAAATCAGA-GTCAAAAAT
10848885 -AAATAACCAAGATGAAATCATGAGTCAAAA
1 AAAATAACCAAGATGAAATCA-GAGTCAAAA
10848915 GAAATAATCT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
30 1 0.02
31 17 0.33
32 15 0.29
33 17 0.33
34 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.18, T:0.15
Consensus pattern (32 bp):
AAAATAACCAAGATGAAATCAGAGTCAAAAAT
Found at i:10849078 original size:119 final size:119
Alignment explanation
Indices: 10848834--10849324 Score: 488
Period size: 119 Copynumber: 4.1 Consensus size: 119
10848824 TGACAAAGAC
* * * * * *
10848834 GAAATCACGAGTCAAGAATAAAATGACCAAGATCGAGTCGAGGTCAAAAATAAATAACCAAGATG
1 GAAATCATGAGTCAA-AATGAAATGACCAAGACCGAGTCGAGGTAAAAAATAAATGACCAGGATG
* * *
10848899 AAATCATGAGTCAAAAGAAATAATCTGGA-TCGAGCCAATATCGAGTGACCGAGAT
65 AAATCATGAGTCATAAGAAATGATCTGGACT-GAGCCAAGATCGAGTGACCGAGAT
* ** * *
10848954 AAAATCATGAGTCAAAATGAGGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATCAGGATGA
1 GAAATCATGAGTCAAAATGAAATGACCAAGACCGAGTCGAGGTAAAAAATAAATGACCAGGATGA
* * * * * *
10849019 AA-CTTTGAGTCATAAGAAATGATCTAGACTGAGTCAAGATTGAGTGATCGGGAT
66 AATC-ATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGACCGAGAT
* * ** * * * *
10849073 GAAATCACT-AGTTAAAAATGAAA-CAATAGGACCGAGTCGAGGTCAAAATTAAATGATC-GAGA
1 GAAATCA-TGAG-TCAAAATGAAATGACCAAGACCGAGTCGAGGTAAAAAATAAATGACCAG-GA
* * ** *
10849135 TAAAACCATGAGTCATAAGAAATGATCTGGACTGAGCCAATTTCGAGTGACCAAGAT
63 TGAAATCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGACCGAGAT
* * * * * * * *
10849192 GACACCATGAGTCAAAATGAAATGACTAAAACCAATTCGAGGTAAAAAATAAATGACCTGAATGA
1 GAAATCATGAGTCAAAATGAAATGACCAAGACCGAGTCGAGGTAAAAAATAAATGACCAGGATGA
* * * *
10849257 AATCACGAATCATAAGAAATGATTTGGATTGAGCCAAGATCGAGTGACCGAGAT
66 AATCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGACCGAGAT
10849311 GAAATCATGAGTCA
1 GAAATCATGAGTCA
10849325 TAAAAAATGA
Statistics
Matches: 299, Mismatches: 63, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
118 13 0.04
119 261 0.87
120 25 0.08
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (119 bp):
GAAATCATGAGTCAAAATGAAATGACCAAGACCGAGTCGAGGTAAAAAATAAATGACCAGGATGA
AATCATGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGACCGAGAT
Found at i:10849314 original size:238 final size:238
Alignment explanation
Indices: 10848867--10849317 Score: 573
Period size: 238 Copynumber: 1.9 Consensus size: 238
10848857 TGACCAAGAT
* *
10848867 CGAGTCGAGGTCAAAAATAAATAACCAAGATGAAATCATGAGTCAAAAGAAATAATCTGGATCGA
1 CGAGTCGAGGTCAAAAATAAATAACCAAGATAAAACCATGAGTCAAAAGAAATAATCTGGATCGA
* * ** * * *
10848932 GCCAATATCGAGTGACCGAGATAAAATCATGAGTCAAAATGAGGTGACCAAGATCGAGTCGAGGT
66 GCCAATATCGAGTGACCAAGATAAAACCATGAGTCAAAATGAAATGACCAAAACCAAGTCGAGGT
* * ** * * *
10848997 AAAAAATAAATGATCAGGATGAAACTTTGAGTCATAAGAAATGATCTAGACTGAGTCAAGATTGA
131 AAAAAATAAATGACCAGAATGAAACTACGAATCATAAGAAATGATCTAGACTGAGCCAAGATCGA
* *
10849062 GTGATCGGGATGAAATCACTAGTTAAAAATGAAACAATAGGAC
196 GTGACCGAGATGAAATCACTAGTTAAAAATGAAACAATAGGAC
* * * * * *
10849105 CGAGTCGAGGTCAAAATTAAATGATCGAGATAAAACCATGAGTCATAAGAAATGATCTGGA-CTG
1 CGAGTCGAGGTCAAAAATAAATAACCAAGATAAAACCATGAGTCAAAAGAAATAATCTGGATC-G
* * * * *
10849169 AGCCAATTTCGAGTGACCAAGATGACACCATGAGTCAAAATGAAATGACTAAAACCAATTCGAGG
65 AGCCAATATCGAGTGACCAAGATAAAACCATGAGTCAAAATGAAATGACCAAAACCAAGTCGAGG
* * * *
10849234 TAAAAAATAAATGACCTGAATGAAA-TCACGAATCATAAGAAATGATTTGGATTGAGCCAAGATC
130 TAAAAAATAAATGACCAGAATGAAACT-ACGAATCATAAGAAATGATCTAGACTGAGCCAAGATC
10849298 GAGTGACCGAGATGAAATCA
194 GAGTGACCGAGATGAAATCA
10849318 TGAGTCATAA
Statistics
Matches: 178, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
237 2 0.01
238 176 0.99
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (238 bp):
CGAGTCGAGGTCAAAAATAAATAACCAAGATAAAACCATGAGTCAAAAGAAATAATCTGGATCGA
GCCAATATCGAGTGACCAAGATAAAACCATGAGTCAAAATGAAATGACCAAAACCAAGTCGAGGT
AAAAAATAAATGACCAGAATGAAACTACGAATCATAAGAAATGATCTAGACTGAGCCAAGATCGA
GTGACCGAGATGAAATCACTAGTTAAAAATGAAACAATAGGAC
Found at i:10849333 original size:56 final size:56
Alignment explanation
Indices: 10849245--10849380 Score: 166
Period size: 56 Copynumber: 2.4 Consensus size: 56
10849235 AAAAAATAAA
* * * * *
10849245 TGACCTGA-ATGAAATCACGAATCATAAGAAATGATTTGGATTGAGCCAAGATCGAG
1 TGACC-GAGATGAAATCACGAGTCATAAAAAATGATCTAGATTAAGCCAAGATCGAG
* *
10849301 TGACCGAGATGAAATCATGAGTCATAAAAAATGATCTAGATTAAGTCAAGATCGAG
1 TGACCGAGATGAAATCACGAGTCATAAAAAATGATCTAGATTAAGCCAAGATCGAG
* * *
10849357 TAACCAAGATGAAACCACGAGTCA
1 TGACCGAGATGAAATCACGAGTCA
10849381 AAATGAAGTG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 2 0.03
56 66 0.97
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (56 bp):
TGACCGAGATGAAATCACGAGTCATAAAAAATGATCTAGATTAAGCCAAGATCGAG
Found at i:10850149 original size:18 final size:19
Alignment explanation
Indices: 10850123--10850169 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
10850113 TTAGTATAAG
10850123 TCTTCCTTTTTCC-TTCTTTT
1 TCTT-CTTTTTCCATT-TTTT
10850143 TC-TC-TTTTCCATTTTTT
1 TCTTCTTTTTCCATTTTTT
10850160 TCTTCTTTTT
1 TCTTCTTTTT
10850170 TTTGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 12 0.50
18 5 0.21
19 5 0.21
20 2 0.08
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTCTTTTTCCATTTTTT
Found at i:10850177 original size:20 final size:19
Alignment explanation
Indices: 10850154--10850259 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 19
10850144 CTCTTTTCCA
10850154 TTTTTTTCTTCTTTTTTTTG
1 TTTTTTTCTT-TTTTTTTTG
*
10850174 TTTTTTCCTTTTTTCTTTT-
1 TTTTTTTCTTTTTT-TTTTG
* *
10850193 TCTTTTTCCTTTTTGCTTCTTG
1 T-TTTTTTCTTTTT--TTTTTG
*
10850215 ATTTTTTT-TTTTGCTTTTTG
1 -TTTTTTTCTTTT-TTTTTTG
10850235 CTTTTTTT-TTCTTTTTTTT-
1 -TTTTTTTCTT-TTTTTTTTG
10850254 TTTTTT
1 TTTTTT
10850260 ACACTTTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
18 6 0.08
19 5 0.07
20 44 0.62
21 9 0.13
22 6 0.08
23 1 0.01
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTTTG
Found at i:10850185 original size:27 final size:27
Alignment explanation
Indices: 10850125--10850271 Score: 106
Period size: 27 Copynumber: 5.4 Consensus size: 27
10850115 AGTATAAGTC
* *
10850125 TTCCTTTTTCCTTC-TTTTTCT-C-TT
1 TTCCTTTTTTCTTCTTTTTTTTGCTTT
*
10850149 TTCCATTTTTTTCTTCTTTTTTTTGTTTT
1 TTCC--TTTTTTCTTCTTTTTTTTGCTTT
*
10850178 TTCCTTTTTTCTT-TTTCTTTTTCCTTT
1 TTCCTTTTTTCTTCTTT-TTTTTGCTTT
* * ** *
10850205 TTGCTTCTTGATTTTTTTTTTTGCTTT
1 TTCCTTTTTTCTTCTTTTTTTTGCTTT
* * *
10850232 TTGCTTTTTTTTTCTTTTTTTT-TTTT
1 TTCCTTTTTTCTTCTTTTTTTTGCTTT
10850258 TTACACTTTTTTCT
1 TT-C-CTTTTTTCT
10850272 CATTTCTTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
24 4 0.04
26 17 0.18
27 59 0.61
28 11 0.11
29 6 0.06
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (27 bp):
TTCCTTTTTTCTTCTTTTTTTTGCTTT
Found at i:10850192 original size:5 final size:6
Alignment explanation
Indices: 10850136--10850259 Score: 64
Period size: 6 Copynumber: 20.2 Consensus size: 6
10850126 TCCTTTTTCC
* *
10850136 TTCTTT TTCTCTT TTCCATTT TT-TTC TTCTTT TT-TTT GTT-TTT TCCTTTT
1 TTCTTT TTCT-TT TT-C-TTT TTCTTT TTCTTT TTCTTT -TTCTTT TTC-TTT
** *
10850186 TTCTTT TTCTTT TTCCTTT TTGCTTCT TGATTT TTTTTT TTGCTTT TTGC-TT
1 TTCTTT TTCTTT TT-CTTT TT-CTT-T TTCTTT TTCTTT TT-CTTT TT-CTTT
10850238 TT-TTT TTCTTT TT-TTT TT-TTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT T
10850260 ACACTTTTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
5 21 0.22
6 40 0.42
7 27 0.28
8 7 0.07
9 1 0.01
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.80
Consensus pattern (6 bp):
TTCTTT
Done.