Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 212 of 292
Found at i:62605002 original size:2 final size:2
Alignment explanation
Indices: 62604990--62605031 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
62604980 TTTTATGTAC
* *
62604990 AT AT GT AT AT AT AT AT AT AC 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 AT AT AT AT AT
62605032 TGTACATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62605082 original size:15 final size:14
Alignment explanation
Indices: 62605060--62605090 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62605050 ATATTATTGT
62605060 TGTATAT-TTTTTA
1 TGTATATATTTTTA
62605073 TGTATATATTTTTA
1 TGTATATATTTTTA
62605087 TGTA
1 TGTA
62605091 CGTTTCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (14 bp):
TGTATATATTTTTA
Found at i:62605149 original size:37 final size:37
Alignment explanation
Indices: 62605107--62605208 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
62605097 CTAATATTTT
62605107 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
62605144 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
62605187 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
62605209 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:62607417 original size:37 final size:38
Alignment explanation
Indices: 62607317--62607418 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
62607307 ATATATTTGG
62607317 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
62607353 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
62607395 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
62607419 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:62607466 original size:13 final size:15
Alignment explanation
Indices: 62607435--62607464 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62607425 TTAGGAAACG
62607435 TACATAAAAAATATA
1 TACATAAAAAATATA
62607450 TACATAAAAAATATA
1 TACATAAAAAATATA
62607465 CAACAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:62607717 original size:39 final size:39
Alignment explanation
Indices: 62607631--62607717 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
62607621 AAAAAAAAAT
* * *
62607631 ATATATATATATATAATAGTATTTAAGAATATATACATA
1 ATATATATATATATAATAGCATTAAAAAATATATACATA
* * *
62607670 AGAAATATATA-ACTAATGGCATTAAAAAATATATACATA
1 ATATATATATATA-TAATAGCATTAAAAAATATATACATA
62607709 ATATATATA
1 ATATATATA
62607718 AAATACCTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATATATATATATATAATAGCATTAAAAAATATATACATA
Found at i:62608267 original size:16 final size:14
Alignment explanation
Indices: 62608248--62608282 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
62608238 TTCTTCTTTT
62608248 TTTTTTTTGGGTTAGG
1 TTTTTTTT-GG-TAGG
62608264 TTTTTTTTGGTAGG
1 TTTTTTTTGGTAGG
62608278 TTTTT
1 TTTTT
62608283 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 2 0.11
16 8 0.42
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.69
Consensus pattern (14 bp):
TTTTTTTTGGTAGG
Found at i:62608287 original size:16 final size:17
Alignment explanation
Indices: 62608247--62608287 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
62608237 TTTCTTCTTT
62608247 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
62608264 -TTTTTTTT-GG-TAGG
1 TTTTTTTTTGGGTTAGG
62608278 TTTTTCTTTT
1 TTTTT-TTTT
62608288 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 12 0.55
ACGTcount: A:0.05, C:0.02, G:0.22, T:0.71
Consensus pattern (17 bp):
TTTTTTTTTGGGTTAGG
Found at i:62608297 original size:16 final size:16
Alignment explanation
Indices: 62608278--62608314 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
62608268 TTTTGGTAGG
62608278 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
62608294 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
62608310 TTTTT
1 TTTTT
62608315 TGGGTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:62610151 original size:17 final size:18
Alignment explanation
Indices: 62610118--62610150 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
62610108 CGGGTAAGTC
62610118 CCCTTCTTTGATTTTTTA
1 CCCTTCTTTGATTTTTTA
62610136 CCCTT-TTTG-TTTTTT
1 CCCTTCTTTGATTTTTT
62610151 TTTTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (18 bp):
CCCTTCTTTGATTTTTTA
Found at i:62611464 original size:52 final size:52
Alignment explanation
Indices: 62611386--62611490 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
62611376 TTTTGTATTT
62611386 CGAAGACACTGCTAAATACTCCCTCTGAAAACTTAGTTTGCAAAACTAACCA
1 CGAAGACACTGCTAAATACTCCCTCTGAAAACTTAGTTTGCAAAACTAACCA
62611438 CGAAGACACTGCTAAATACTCCCTCTGAAAACTTAGTTTGCAAAACTAACCA
1 CGAAGACACTGCTAAATACTCCCTCTGAAAACTTAGTTTGCAAAACTAACCA
62611490 C
1 C
62611491 AAAAGATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (52 bp):
CGAAGACACTGCTAAATACTCCCTCTGAAAACTTAGTTTGCAAAACTAACCA
Found at i:62613594 original size:23 final size:24
Alignment explanation
Indices: 62613568--62613612 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
62613558 ATAGTTTACC
*
62613568 TTATTAAAAAAC-TAAATATATAT
1 TTATCAAAAAACATAAATATATAT
* *
62613591 TTATCAAACAACATAATTATAT
1 TTATCAAAAAACATAAATATAT
62613613 TCATTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (24 bp):
TTATCAAAAAACATAAATATATAT
Found at i:62613739 original size:5 final size:6
Alignment explanation
Indices: 62613722--62613747 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62613712 ACCTCCATTC
62613722 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
62613748 TACAGGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:62615168 original size:3 final size:3
Alignment explanation
Indices: 62615138--62615249 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
62615128 GACGAAAGCG
* * * *
62615138 ATA AAA ATA ATA GTA ATA CA-A ATG ATA ATA ATA GTA A-A AT- ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
62615181 ATA ATA CTA AT- TTA ATA GTA GTA ATA ATA ATA ATA GAGTA ATGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA AT-A ATA
* *
62615228 ATG ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
62615250 GGAAGAAAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 6 0.07
3 69 0.83
4 6 0.07
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62615229 original size:21 final size:18
Alignment explanation
Indices: 62615138--62615249 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 18
62615128 GACGAAAGCG
*
62615138 ATAAAAATAATAGTAATACAA
1 ATAATAATAATAGTAAT---A
*
62615159 ATGATAATAATAGTAA-A
1 ATAATAATAATAGTAATA
*
62615176 AT-ATAATAATACTAAT-
1 ATAATAATAATAGTAATA
*
62615192 -T--TAATAGTAGTAATA
1 ATAATAATAATAGTAATA
*
62615207 ATAATAAT-AGAGTAATGA
1 ATAATAATAATAGTAAT-A
*
62615225 ATAATGATAATAGTAATA
1 ATAATAATAATAGTAATA
62615243 ATAATAA
1 ATAATAA
62615250 GGAAGAAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
16 13 0.18
17 9 0.12
18 19 0.26
19 7 0.09
21 14 0.19
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAATAATAATAGTAATA
Found at i:62615648 original size:3 final size:3
Alignment explanation
Indices: 62615616--62615670 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
62615606 AAATATGGGT
* * * *
62615616 ATA AT- ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA AAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
62615661 ATA ATA ATA A
1 ATA ATA ATA A
62615671 CAAAGTAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62615663 original size:16 final size:16
Alignment explanation
Indices: 62615642--62615690 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
62615632 AGTAATAATG
62615642 ATAATAATAAAAATAA
1 ATAATAATAAAAATAA
* *
62615658 ATAATAATAATAACAA
1 ATAATAATAAAAATAA
* *
62615674 AGTAGTAATGAAAATAA
1 A-TAATAATAAAAATAA
62615691 GAAGAAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (16 bp):
ATAATAATAAAAATAA
Found at i:62616685 original size:34 final size:34
Alignment explanation
Indices: 62616641--62616705 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
62616631 TTGGCAGAAA
62616641 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
* *
62616675 TCGGTGGTGGAGCAGAGGGGAGCACCTGCTG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTG
62616706 CGGCTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.48, T:0.15
Consensus pattern (34 bp):
TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
Found at i:62617949 original size:86 final size:86
Alignment explanation
Indices: 62617804--62618220 Score: 663
Period size: 86 Copynumber: 4.8 Consensus size: 86
62617794 TTTCAGCCTA
* * * * * * * * *
62617804 TTACCCTACTGCTTAGGGGGTTAAGGCCCATCTTCTTTGATCTGTTTCTCTACTGCTTAGGGGGT
1 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
*
62617869 TAAGATCTTCAATTCGGTCTG
66 TAAGATCTGCAATTCGGTCTG
* *
62617890 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTTTTCGATCTGTTTCCTTACTGCTTAGGGAGA
1 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
62617955 TAAGATCTGCAATTCGGTCTG
66 TAAGATCTGCAATTCGGTCTG
*
62617976 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
1 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
*
62618041 TAAGATCTACAATTCGGTCTG
66 TAAGATCTGCAATTCGGTCTG
62618062 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
1 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
*
62618127 TAAGATCTGCAATTCGATCTG
66 TAAGATCTGCAATTCGGTCTG
* * * *
62618148 TTACCCTACCGATTAGGGGTTTAAGACTCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
62618213 TAAGATCT
66 TAAGATCT
62618221 ATAAATCTTC
Statistics
Matches: 308, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 308 1.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TTACCCTACTGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
TAAGATCTGCAATTCGGTCTG
Found at i:62619090 original size:1 final size:1
Alignment explanation
Indices: 62619084--62619108 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
62619074 GCCTCTCTCC
62619084 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
62619109 AGGCGAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:62630193 original size:3 final size:3
Alignment explanation
Indices: 62630163--62630274 Score: 70
Period size: 3 Copynumber: 37.3 Consensus size: 3
62630153 GACGAAAGCG
* * * *
62630163 ATA AAA ATA ATA GTA ATA CA-A ATG ATA ATA ATA GTA A-A AT- ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
62630206 ATA ATA CTA AT- TTA ATA GTA GTA ATA ATA ATA ATA GAGTA ATGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA AT-A ATA
* *
62630253 ATG ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
62630275 GGTAAGAAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
2 6 0.07
3 69 0.83
4 6 0.07
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62630254 original size:21 final size:18
Alignment explanation
Indices: 62630163--62630274 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 18
62630153 GACGAAAGCG
*
62630163 ATAAAAATAATAGTAATACAA
1 ATAATAATAATAGTAAT---A
*
62630184 ATGATAATAATAGTAA-A
1 ATAATAATAATAGTAATA
*
62630201 AT-ATAATAATACTAAT-
1 ATAATAATAATAGTAATA
*
62630217 -T--TAATAGTAGTAATA
1 ATAATAATAATAGTAATA
*
62630232 ATAATAAT-AGAGTAATGA
1 ATAATAATAATAGTAAT-A
*
62630250 ATAATGATAATAGTAATA
1 ATAATAATAATAGTAATA
62630268 ATAATAA
1 ATAATAA
62630275 GGTAAGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
16 13 0.18
17 9 0.12
18 19 0.26
19 7 0.09
21 14 0.19
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAATAATAATAGTAATA
Found at i:62630673 original size:3 final size:3
Alignment explanation
Indices: 62630641--62630695 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
62630631 AAATATGGGT
* * * *
62630641 ATA AT- ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA AAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
62630686 ATA ATA ATA A
1 ATA ATA ATA A
62630696 CAAAGTAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62630688 original size:16 final size:16
Alignment explanation
Indices: 62630667--62630715 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
62630657 AGTAATAATG
62630667 ATAATAATAAAAATAA
1 ATAATAATAAAAATAA
* *
62630683 ATAATAATAATAACAA
1 ATAATAATAAAAATAA
* *
62630699 AGTAGTAATGAAAATAA
1 A-TAATAATAAAAATAA
62630716 GAAGAAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (16 bp):
ATAATAATAAAAATAA
Found at i:62631707 original size:34 final size:34
Alignment explanation
Indices: 62631663--62631727 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
62631653 CTGGTAGAAA
62631663 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
* *
62631697 TCGGTGGTGGAGCAGAGGGGAGCACCTGCTG
1 TCGGTAGTGGAGCAGAGGGGAGCACATGCTG
62631728 CGGCTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.48, T:0.15
Consensus pattern (34 bp):
TCGGTAGTGGAGCAGAGGGGAGCACATGCTGGCG
Found at i:62634101 original size:2 final size:2
Alignment explanation
Indices: 62634094--62634121 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62634084 TTTGAGTTAA
62634094 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
62634122 TTTGGGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62636873 original size:9 final size:9
Alignment explanation
Indices: 62636790--62636878 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 9
62636780 AAATAAATGG
62636790 AATAATAATA
1 AATAATAA-A
**
62636800 AATACCAAA
1 AATAATAAA
*
62636809 AACAA-AAA
1 AATAATAAA
*
62636817 AATAAAAAAA
1 AAT-AATAAA
*
62636827 AATAATAAT
1 AATAATAAA
*
62636836 AATAATGCAAGG
1 AATAAT--AA-A
62636848 AATAATAAA
1 AATAATAAA
62636857 AA-AATAAA
1 AATAATAAA
*
62636865 AATATTAAA
1 AATAATAAA
62636874 AATAA
1 AATAA
62636879 AATAACAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
8 13 0.21
9 27 0.44
10 14 0.23
11 2 0.03
12 6 0.10
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.19
Consensus pattern (9 bp):
AATAATAAA
Found at i:62636900 original size:19 final size:20
Alignment explanation
Indices: 62636857--62636904 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
62636847 GAATAATAAA
62636857 AAAATAAAAATATTAAAAAT
1 AAAATAAAAATATTAAAAAT
*
62636877 AAAATAACAA-ATT-AAAAT
1 AAAATAAAAATATTAAAAAT
62636895 ATAAATAAAA
1 A-AAATAAAA
62636905 TTAAGGGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 10 0.40
20 9 0.36
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATAAAAATATTAAAAAT
Found at i:62636952 original size:3 final size:3
Alignment explanation
Indices: 62636939--62637121 Score: 84
Period size: 3 Copynumber: 59.3 Consensus size: 3
62636929 TATACTATAG
* * * * *
62636939 ATA ACA ATA ATA ATAA ATA ATA GTA AGA AAA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
62636985 ATA ATG GTA CAAA ATA ATA ATA GTA A-A A-A AGTA ATA GTA ATA ATG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * *
62637030 ATA GAAA ATA ATA ATA GA-A CTG ATA ATA ATA ATA ATG ATA ATG ATA
1 ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
62637076 ATA ATA GTTT ATA AAA ATA ATA ATAA ATA ATG ATA TTA ATA TATA A
1 ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA A
62637122 ATAGAAATAG
Statistics
Matches: 129, Mismatches: 41, Indels: 20
0.68 0.22 0.11
Matches are distributed among these distances:
2 4 0.03
3 109 0.84
4 16 0.12
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:62637041 original size:13 final size:13
Alignment explanation
Indices: 62636944--62637158 Score: 70
Period size: 13 Copynumber: 15.7 Consensus size: 13
62636934 TATAGATAAC
62636944 AATAATAATA-AA
1 AATAATAATAGAA
* *
62636956 TAATAGTAAGA-AA
1 -AATAATAATAGAA
*
62636969 AATAATAATAATAA
1 AATAATAAT-AGAA
** *
62636983 CAATAATGGTACAA
1 -AATAATAATAGAA
62636997 AATAATAATAGTAA
1 AATAATAATAG-AA
*
62637011 AA-AAGTAATAG-T
1 AATAA-TAATAGAA
*
62637023 AATAATGATAGAA
1 AATAATAATAGAA
62637036 AATAATAATAGAA
1 AATAATAATAGAA
* *
62637049 CTGATAATAATA-AT
1 --AATAATAATAGAA
* *
62637063 AATGATAAT-GAT
1 AATAATAATAGAA
62637075 AATAATAGTTTATA-AA
1 AATAATA----ATAGAA
62637091 AATAATAATA-AA
1 AATAATAATAGAA
*
62637103 TAATGATATTAATATATA
1 -AAT-A-A-TAATAGA-A
62637121 AATAGA-AATAGAA
1 AATA-ATAATAGAA
62637134 ATATAATACATAGAA
1 A-ATAATA-ATAGAA
62637149 ATATAATAAT
1 A-ATAATAAT
62637159 GATAGAAACA
Statistics
Matches: 156, Mismatches: 22, Indels: 47
0.69 0.10 0.21
Matches are distributed among these distances:
12 34 0.22
13 41 0.26
14 28 0.18
15 31 0.20
16 17 0.11
17 4 0.03
18 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (13 bp):
AATAATAATAGAA
Found at i:62637148 original size:21 final size:20
Alignment explanation
Indices: 62637113--62637151 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
62637103 TAATGATATT
62637113 AATATATAAATAGAAATAGA
1 AATATATAAATAGAAATAGA
*
62637133 AATATAATACATAGAAATA
1 AATAT-ATAAATAGAAATA
62637152 TAATAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
AATATATAAATAGAAATAGA
Found at i:62637166 original size:17 final size:15
Alignment explanation
Indices: 62637128--62637156 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62637118 ATAAATAGAA
62637128 ATAGAAATATAATAC
1 ATAGAAATATAATAC
62637143 ATAGAAATATAATA
1 ATAGAAATATAATA
62637157 ATGATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (15 bp):
ATAGAAATATAATAC
Found at i:62638816 original size:43 final size:44
Alignment explanation
Indices: 62638695--62638988 Score: 191
Period size: 45 Copynumber: 6.5 Consensus size: 44
62638685 CCAATATAAT
* * * ** *
62638695 TTCAGGGAGGA-AAGATTTGTAACTTCGATCTACTCCGTTGGAAC
1 TTCAGGGA-GATAAGATTTGTAACTTTGACCTGCTCCACTGCAAC
* * * * ** *
62638739 TTAAAGGAGATCAGAATTAGTAACTTCAACCTGCTCCACTGCAAA
1 TTCAGGGAGATAAG-ATTTGTAACTTTGACCTGCTCCACTGCAAC
* * *
62638784 TTCAGGGAGATAAGGTTTGTGTA-TTT-TCCTGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTTGT-AACTTTGACCTGCTCCACTGCAAC
* *
62638827 TTCAAGGAGATAAGATTTGTAACTTTGACCTGCTCCACTACAAC
1 TTCAGGGAGATAAGATTTGTAACTTTGACCTGCTCCACTGCAAC
* * * * * *
62638871 TTCAGGGAAACAAGGTCTGCAATTTGTAGCTCTAATCTGCTCCACTGCAAC
1 TTCAGGGAGATAA-----G--ATTTGTAACTTTGACCTGCTCCACTGCAAC
* * * *
62638922 TTCAGGGAGATAAGATTTGCTATCTTT-AGTCTGCTCCATTACAAC
1 TTCAGGGAGATAAGATTTG-TAACTTTGA-CCTGCTCCACTGCAAC
*
62638967 TTCAGGGAGATAAGATCTGTAA
1 TTCAGGGAGATAAGATTTGTAA
62638989 TTATAGCTTC
Statistics
Matches: 195, Mismatches: 41, Indels: 28
0.74 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 38 0.19
44 47 0.24
45 71 0.36
46 1 0.01
49 1 0.01
51 36 0.18
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGTAACTTTGACCTGCTCCACTGCAAC
Found at i:62638865 original size:87 final size:90
Alignment explanation
Indices: 62638736--62638980 Score: 239
Period size: 87 Copynumber: 2.7 Consensus size: 90
62638726 ACTCCGTTGG
* * * * * *
62638736 AACTTAAAGGAGATCAGAATTAGTAACTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAGGT-
1 AACTTCAAGGAGATAAG-ATTTGTAACTT-TACCTGCTCCACTACAACTTCAGGGAGATAAGGTC
*
62638800 T-TGTGTA-T-T-TTCCTGCTCCACTGC
64 TATGTGTACTCTAAT-CTGCTCCACTGC
* *
62638824 AACTTCAAGGAGATAAGATTTGTAACTTTGACCTGCTCCACTACAACTTCAGGGAAACAAGGTCT
1 AACTTCAAGGAGATAAGATTTGTAACTTT-ACCTGCTCCACTACAACTTCAGGGAGATAAGGTCT
*
62638889 GCAATTTGTAGCTCTAATCTGCTCCACTGC
65 ---ATGTGTA-CTCTAATCTGCTCCACTGC
* * * *
62638919 AACTTCAGGGAGATAAGATTTGCTATCTTTAGTCTGCTCCATTACAACTTCAGGGAGATAAG
1 AACTTCAAGGAGATAAGATTTG-TAACTTTA-CCTGCTCCACTACAACTTCAGGGAGATAAG
62638981 ATCTGTAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
87 39 0.30
88 16 0.12
92 5 0.04
94 1 0.01
95 35 0.27
96 33 0.26
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (90 bp):
AACTTCAAGGAGATAAGATTTGTAACTTTACCTGCTCCACTACAACTTCAGGGAGATAAGGTCTA
TGTGTACTCTAATCTGCTCCACTGC
Found at i:62638996 original size:95 final size:96
Alignment explanation
Indices: 62638812--62639039 Score: 275
Period size: 95 Copynumber: 2.4 Consensus size: 96
62638802 GTGTATTTTC
* *
62638812 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-TAACTTTGACCTGCTCCACTACAACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTGACCTGCTCCACTACAACTTCAG
* *
62638876 GGAAACAAGGTCTGCAATTTGTAGC-TCTAAT
66 GGAAACAAGATCTGCAATTTATAGCTTC-AAT
* *
62638907 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT-AGTCTGCTCCATTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTGA-CCTGCTCCACTACAACTTCA
* * *
62638971 GGGAGATAAGATCTGTAA-TTATAGCTTCAAT
65 GGGAAACAAGATCTGCAATTTATAGCTTCAAT
* * * * * *
62639002 TTGTTCCATTGCAACTTCAGGAAAATAAGATTCGCTAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
62639040 TATAACCTCA
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
95 75 0.65
96 40 0.35
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (96 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTGACCTGCTCCACTACAACTTCAG
GGAAACAAGATCTGCAATTTATAGCTTCAAT
Found at i:62639051 original size:50 final size:50
Alignment explanation
Indices: 62638956--62639051 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
62638946 TTTAGTCTGC
* * * *
62638956 TCCATTACAACTTCAGGGAGATAAGATCTGTAATTATAGCTTCAATTTGT
1 TCCATTACAACTTCAGGAAAATAAGATCTGTAATTATAACCTCAATTTGT
*
62639006 TCCATTGCAACTTCAGGAAAATAAGAT-TCGCT-ATTATAACCTCAAT
1 TCCATTACAACTTCAGGAAAATAAGATCT-G-TAATTATAACCTCAAT
62639052 CCATTCTACT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
49 1 0.03
50 37 0.95
51 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (50 bp):
TCCATTACAACTTCAGGAAAATAAGATCTGTAATTATAACCTCAATTTGT
Found at i:62646411 original size:8 final size:8
Alignment explanation
Indices: 62646398--62646426 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
62646388 TTATGTTTAG
62646398 TATATTAT
1 TATATTAT
62646406 TATATTAT
1 TATATTAT
62646414 TATATTAT
1 TATATTAT
62646422 TATAT
1 TATAT
62646427 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:62646459 original size:5 final size:5
Alignment explanation
Indices: 62646449--62646496 Score: 87
Period size: 5 Copynumber: 9.4 Consensus size: 5
62646439 GTATGTTTTA
62646449 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT
62646497 AAACTAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 37 0.88
6 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:62646844 original size:15 final size:15
Alignment explanation
Indices: 62646826--62646875 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
62646816 TTTATTGAGT
62646826 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
62646841 TTATTTTGATTGAAT
1 TTATATTGATTGAAA
62646856 TTATATTGATTG-AA
1 TTATATTGATTGAAA
62646870 TTATAT
1 TTATAT
62646876 AATATATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:62647284 original size:23 final size:23
Alignment explanation
Indices: 62647258--62647318 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
62647248 AGACACATTA
62647258 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
62647281 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
62647302 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
62647319 TTTATGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.72
22 1 0.03
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:62647326 original size:21 final size:21
Alignment explanation
Indices: 62647257--62647331 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
62647247 CAGACACATT
62647257 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGT-TTT-AGGCACCTC
* * *
62647280 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTTTTAGGCACCTC
* * *
62647301 GTGTGTCGTTTTAGGCACTTT
1 ATGTGTCGTTTTAGGCACCTC
62647322 ATGTGTCGTT
1 ATGTGTCGTT
62647332 GATCAGGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 35 0.80
22 1 0.02
23 8 0.18
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (21 bp):
ATGTGTCGTTTTAGGCACCTC
Found at i:62653736 original size:26 final size:26
Alignment explanation
Indices: 62653705--62653812 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
62653695 TGAAATGCCC
*
62653705 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
62653731 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
62653757 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
62653783 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62653809 ATCA
1 ATCA
62653813 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62655904 original size:26 final size:26
Alignment explanation
Indices: 62655868--62655920 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
62655858 TGGTAGCGCC
*
62655868 TATATAAGTAAAGACATTAAAAATTT
1 TATATAAGTAAAAACATTAAAAATTT
62655894 TATATAAGTAAAAACATTAAAAATTT
1 TATATAAGTAAAAACATTAAAAATTT
62655920 T
1 T
62655921 CATTTTAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TATATAAGTAAAAACATTAAAAATTT
Found at i:62656493 original size:16 final size:17
Alignment explanation
Indices: 62656444--62656493 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
62656434 TTTTTCTTTT
62656444 TCTTTT-TTGTTTCTGC
1 TCTTTTGTTGTTTCTGC
*
62656460 TCTACTATGTTGTTTCTGC
1 TCT--TTTGTTGTTTCTGC
62656479 TCTTTTGTT-TTTCTG
1 TCTTTTGTTGTTTCTG
62656494 TTTGCAGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 2 0.07
19 13 0.45
ACGTcount: A:0.04, C:0.18, G:0.14, T:0.64
Consensus pattern (17 bp):
TCTTTTGTTGTTTCTGC
Found at i:62659624 original size:25 final size:24
Alignment explanation
Indices: 62659596--62659693 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 24
62659586 ATGAGCTAAT
62659596 ATCGAGAAACTTCAGAGAGCCATTA
1 ATCGAGAAAC-TCAGAGAGCCATTA
* *
62659621 ATCGA-AAAGCTCATACGAGCCATAA
1 ATCGAGAAA-CTCAGA-GAGCCATTA
* * *
62659646 AACGGGAAACTCAAGAAAGCCATTA
1 ATCGAGAAACTC-AGAGAGCCATTA
* * *
62659671 ATTGAGAAGCTCATGAAAGCCAT
1 ATCGAGAAACTCA-GAGAGCCAT
62659694 ATAACGGGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
24 8 0.14
25 44 0.77
26 5 0.09
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (24 bp):
ATCGAGAAACTCAGAGAGCCATTA
Found at i:62660210 original size:16 final size:16
Alignment explanation
Indices: 62660189--62660227 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
62660179 GTTTGGTTCA
*
62660189 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
62660205 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
62660221 CTGTAAT
1 CTGTAAT
62660228 CAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:62660301 original size:44 final size:46
Alignment explanation
Indices: 62660209--62660302 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
62660199 ATAGGGCTGT
*
62660209 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
***
62660255 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
62660299 AATG
1 AATG
62660303 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:62660496 original size:17 final size:17
Alignment explanation
Indices: 62660474--62660508 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62660464 AATTATTATT
62660474 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
62660491 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
62660508 A
1 A
62660509 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:62664693 original size:14 final size:14
Alignment explanation
Indices: 62664676--62664702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62664666 ATTATTTTCC
62664676 TTATTTTATCATCA
1 TTATTTTATCATCA
62664690 TTATTTTATCATC
1 TTATTTTATCATC
62664703 TTTCCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTTATCATCA
Found at i:62667607 original size:17 final size:18
Alignment explanation
Indices: 62667585--62667619 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62667575 GATATGATAC
*
62667585 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
62667602 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
62667620 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:62667908 original size:22 final size:21
Alignment explanation
Indices: 62667873--62667948 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
62667863 AAAAGTTATC
* *
62667873 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
62667894 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
62667917 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
62667936 TGC-AATCATATCT
1 TACAAATCATATCT
62667949 AAAATTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:62667945 original size:18 final size:19
Alignment explanation
Indices: 62667909--62667963 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
62667899 AATCATATCT
62667909 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62667928 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
62667946 TCTAAAATTGCATATCAT
1 TCTAAGATTGCATATCAT
62667964 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62668120 original size:21 final size:20
Alignment explanation
Indices: 62668082--62668121 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62668072 TTGGACTTCG
* *
62668082 TTTTTTTTTTTGGTTTATTA
1 TTTTTGTTTTTGGCTTATTA
62668102 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGG-CTTATT
62668122 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTGTTTTTGGCTTATTA
Found at i:62668368 original size:45 final size:45
Alignment explanation
Indices: 62668313--62668586 Score: 252
Period size: 45 Copynumber: 6.1 Consensus size: 45
62668303 AGGAAGCGAT
* * * *
62668313 ATCTGCTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
62668358 ATCTGTTATCTTCGATTTGCTCTCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
62668403 ATCTGCT-TCTTCAATCTGTTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
62668447 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * * * *
62668492 AACTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* *
62668537 ATCTGATATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
62668584 ATC
1 ATC
62668587 ATCATGGATC
Statistics
Matches: 184, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
43 6 0.03
44 45 0.24
45 101 0.55
46 2 0.01
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:62668655 original size:78 final size:78
Alignment explanation
Indices: 62668526--62668898 Score: 561
Period size: 78 Copynumber: 4.8 Consensus size: 78
62668516 ATGTAAACAC
*
62668526 ATGAAGGTCAGATCTGA-TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCT-ACTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATC
*
62668590 ATGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
62668604 ATGAATGTCAGATCTACTGTGTCTTCAATCTGCTC-CCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCC-GTCTAATACAGAGATGCCAAATCATC
62668668 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * **
62668682 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
62668747 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
62668760 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATTATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
62668825 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
62668838 ATGAATGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATC
62668899 TGTTTATTCG
Statistics
Matches: 267, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
77 3 0.01
78 262 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:62668714 original size:37 final size:37
Alignment explanation
Indices: 62668666--62668793 Score: 107
Period size: 37 Copynumber: 3.4 Consensus size: 37
62668656 TGCCAAATCA
*
62668666 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* ** * * *
62668703 TCTTCGATCTGCTCTCCATCGAATATGGAGA--TGCCAAATCA
1 TCTTCGATCTGCT-TCAAT-GAAGGT-CAGATCTG-C-TAT-G
* *
62668744 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
62668781 TCTTCGATCTGCT
1 TCTTCGATCTGCT
62668794 CTCCGTCTAA
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
37 24 0.36
38 10 0.15
39 10 0.15
40 11 0.16
41 12 0.18
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (37 bp):
TCTTCGATCTGCTTCAATGAAGGTCAGATCTGCTATG
Found at i:62668871 original size:37 final size:37
Alignment explanation
Indices: 62668666--62668871 Score: 103
Period size: 37 Copynumber: 5.4 Consensus size: 37
62668656 TGCCAAATCA
* * *
62668666 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTCGATCTGCTTCAATGAATGTCAGATCTACTATG
* * * * * *
62668703 TCTTCGATCTGCTCTCCATCGAATATGGAGATGCCA-AATCA
1 TCTTCGATCTGCT-TCAAT-GAATGT-CAGAT-CTACTAT-G
* * * *
62668744 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG
1 TCTTCGATCTGCTTCAATGAATGTCAGATCTACTATG
** * * * * *
62668781 TCTTCGATCTGCTCTCCGTCTAAT-ACAGAGATGCCA-AATTA
1 TCTTCGATCTGCT-TCAAT-GAATGTC--AGAT-CTACTA-TG
*
62668822 TCTTGGATCTGCTTCAATGAATGTCAGATCTACTATG
1 TCTTCGATCTGCTTCAATGAATGTCAGATCTACTATG
62668859 TCTTCGATCTGCT
1 TCTTCGATCTGCT
62668872 CTCCGTCGAA
Statistics
Matches: 116, Mismatches: 39, Indels: 28
0.63 0.21 0.15
Matches are distributed among these distances:
37 40 0.34
38 18 0.16
39 13 0.11
40 18 0.16
41 27 0.23
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (37 bp):
TCTTCGATCTGCTTCAATGAATGTCAGATCTACTATG
Found at i:62669145 original size:76 final size:78
Alignment explanation
Indices: 62669018--62669487 Score: 724
Period size: 76 Copynumber: 6.1 Consensus size: 78
62669008 TCAACGCAAG
**
62669018 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTATTATGTCTTCGATCTGCTCC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCC
62669082 CCGTCTAATACAGA
65 CCGTCTAATACAGA
* * * *
62669096 GATG-CAAATCATCTT-GATCTACTTCAATGAAGGTCTGATCTGCTGTGTCTTCGATCTACT-CC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
*
62669158 CATCTAATACAGA
66 CGTCTAATACAGA
*
62669171 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
62669236 CGTCTAAT--AGA
66 CGTCTAATACAGA
*
62669247 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
*
62669312 CGTCGAAT--AGA
66 CGTCTAATACAGA
*
62669323 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTT-GATCTGCTCCC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
*
62669387 TGTCTAATACAGA
66 CGTCTAATACAGA
*
62669400 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
* **
62669465 CGTCGAATATGGA
66 CGTCTAATACAGA
62669478 GATGCCAAAT
1 GATGCCAAAT
62669488 TGTTTCTTCG
Statistics
Matches: 361, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
75 35 0.10
76 178 0.49
77 107 0.30
78 41 0.11
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
CGTCTAATACAGA
Found at i:62669274 original size:153 final size:153
Alignment explanation
Indices: 62669018--62669487 Score: 729
Period size: 153 Copynumber: 3.1 Consensus size: 153
62669008 TCAACGCAAG
**
62669018 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTATTATGTCTTCGATCTGCTCC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCT-C
* * *
62669082 CCGTCTAATACAGAGATG-CAAATCATCTT-GATCTACTTCAATGAAGGTCTGATCTGCTGTGTC
64 CCGTCTAATA-AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTC
* * *
62669145 TTCGATCTACTC-CCATCTAATACAGA
128 TTCGATCTGCTCTCCGTCGAATA-AGA
62669171 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-C
62669236 CGTCTAAT-AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTT
65 CGTCTAATAAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTT
62669300 CGATCTGCTCTCCGTCGAAT-AGA
130 CGATCTGCTCTCCGTCGAATAAGA
*
62669323 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTT-GATCTGCTCCC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
62669387 TGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCT
66 -GTCTAATA-AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCT
*
62669452 TCGATCTGCTCTCCGTCGAATATGGA
129 TCGATCTGCTCTCCGTCGAATA-AGA
62669478 GATGCCAAAT
1 GATGCCAAAT
62669488 TGTTTCTTCG
Statistics
Matches: 297, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
150 2 0.01
151 23 0.08
152 69 0.23
153 184 0.62
154 7 0.02
155 12 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (153 bp):
GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCC
GTCTAATAAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTC
GATCTGCTCTCCGTCGAATAAGA
Found at i:62669352 original size:229 final size:229
Alignment explanation
Indices: 62669018--62669487 Score: 777
Period size: 229 Copynumber: 2.0 Consensus size: 229
62669008 TCAACGCAAG
*
62669018 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTATTATGTCTTCGATCTGCTCCC
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCC
* *
62669083 CGTCTAATACAGAGATGCAAATCATCTTGATCTACTTCAATGAAGGTCTGATCTGCTGTGTCTTC
66 CGTCGAATA-AGAGATGCAAATCATCTTGATCTACTTCAATGAAGGTCAGATCTGCTGTGTCTT-
62669148 GATCTACTCCC-ATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGAT
129 GATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGAT
*
62669212 CTGCTATGTCTTCGATCTGCTCTCCGTCTAATA-GA
194 CTGCTATGTCTTCGATCTGCTCTCCGTCGAATAGGA
* *
62669247 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCT
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTACTATGTCTTCGATCTGCTCC
*
62669311 CCGTCGAAT-AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCT
65 CCGTCGAATAAGAGATG-CAAATCATCTT-GATCTACTTCAATGAAGGTCAGATCTGCTGTGTCT
* *
62669375 TGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGA
128 TGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGA
62669440 TCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGA
193 TCTGCTATGTCTTCGATCTGCTCTCCGTCGAATA-GGA
62669478 GATGCCAAAT
1 GATGCCAAAT
62669488 TGTTTCTTCG
Statistics
Matches: 226, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
227 7 0.03
228 23 0.10
229 184 0.81
231 12 0.05
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (229 bp):
GATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCC
CGTCGAATAAGAGATGCAAATCATCTTGATCTACTTCAATGAAGGTCAGATCTGCTGTGTCTTGA
TCTACTCCCTATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCT
GCTATGTCTTCGATCTGCTCTCCGTCGAATAGGA
Found at i:62678010 original size:17 final size:17
Alignment explanation
Indices: 62677988--62678020 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
62677978 GATATGATAC
62677988 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
62678005 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
62678021 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:62678021 original size:18 final size:17
Alignment explanation
Indices: 62677988--62678021 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62677978 GATATGATAC
*
62677988 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
62678005 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
62678022 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:62678320 original size:23 final size:22
Alignment explanation
Indices: 62678290--62678334 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62678280 AAATTAAATC
62678290 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
62678313 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
62678335 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:62678337 original size:19 final size:19
Alignment explanation
Indices: 62678313--62678349 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
62678303 AATCATATCT
62678313 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
62678332 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
62678350 TGAAGATTAT
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:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62678357 original size:17 final size:19
Alignment explanation
Indices: 62678316--62678357 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62678306 CATATCTTCT
*
62678316 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
62678335 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
62678352 AAGATT
1 AAGATT
62678358 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:62679028 original size:21 final size:22
Alignment explanation
Indices: 62678983--62679028 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
62678973 CAGTATTTTG
*
62678983 CATAAATATACAAAAAATATAT
1 CATAAAAATACAAAAAATATAT
62679005 CATAAAAATA-AATAAAAT-TAT
1 CATAAAAATACAA-AAAATATAT
62679026 CAT
1 CAT
62679029 GCTTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
CATAAAAATACAAAAAATATAT
Found at i:62679231 original size:20 final size:21
Alignment explanation
Indices: 62679193--62679231 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62679183 CTAAAATGAA
62679193 AAATTATTATTTAAATTTTCT
1 AAATTATTATTTAAATTTTCT
*
62679214 AAATTTTTATTT-AATTTT
1 AAATTATTATTTAAATTTT
62679232 AAAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATTATTATTTAAATTTTCT
Found at i:62679524 original size:19 final size:19
Alignment explanation
Indices: 62679496--62679536 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
62679486 TAAAATTAAG
*
62679496 ATTATTATGATTATCACAA
1 ATTATCATGATTATCACAA
62679515 ATTATCATGATTATCACAA
1 ATTATCATGATTATCACAA
62679534 ATT
1 ATT
62679537 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTATCATGATTATCACAA
Found at i:62680096 original size:27 final size:27
Alignment explanation
Indices: 62680042--62680097 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
62680032 GTCTGGTCGA
*
62680042 GGTGGTGGTGGACGTGGCAGTGGTCGG
1 GGTGGTGGTGGACGTGGCAGTGGCCGG
**
62680069 GGTGGTGGTGGTGGTGG-ACGTGGCCGG
1 GGTGGTGGTGGACGTGGCA-GTGGCCGG
62680096 GG
1 GG
62680098 GCAGGGCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.05, C:0.11, G:0.62, T:0.21
Consensus pattern (27 bp):
GGTGGTGGTGGACGTGGCAGTGGCCGG
Found at i:62680257 original size:27 final size:27
Alignment explanation
Indices: 62680216--62680338 Score: 210
Period size: 27 Copynumber: 4.6 Consensus size: 27
62680206 TAACCCCCTT
*
62680216 CCTCCTCAGAGGGCTCCGGCTCAGCCA
1 CCTCCTCAGATGGCTCCGGCTCAGCCA
62680243 CCTCCTCAGATGGCTCCGGCTCAGCCA
1 CCTCCTCAGATGGCTCCGGCTCAGCCA
*
62680270 CCTCCTCAGATGGCTCCGGCTCAGCAA
1 CCTCCTCAGATGGCTCCGGCTCAGCCA
*
62680297 CCTCCTCAGATGGCTCCGGCTCAGTCA
1 CCTCCTCAGATGGCTCCGGCTCAGCCA
*
62680324 CCTCCTCAAATGGCT
1 CCTCCTCAGATGGCT
62680339 GTACCTCCGC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.16, C:0.42, G:0.22, T:0.20
Consensus pattern (27 bp):
CCTCCTCAGATGGCTCCGGCTCAGCCA
Found at i:62687984 original size:23 final size:22
Alignment explanation
Indices: 62687936--62688000 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 22
62687926 ACAAAATTTA
* *
62687936 TTTTATTTTATTAATAACATGT
1 TTTTATTTTATTTATAAAATGT
62687958 TTTTATTTCTATTTATCAAAATGT
1 TTTTATTT-TATTTAT-AAAATGT
* *
62687982 TTTTTTTTTATTTTTAAAA
1 TTTTATTTTATTTATAAAA
62688001 AATAGAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.32
23 12 0.32
24 13 0.35
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (22 bp):
TTTTATTTTATTTATAAAATGT
Found at i:62688001 original size:23 final size:24
Alignment explanation
Indices: 62687932--62688001 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 24
62687922 AAATACAAAA
62687932 TTTA-TTTTATTTTATTAATAACATGTT
1 TTTATTTTTA-TTT-TTAA-AA-ATGTT
* * *
62687959 TTTATTTCTATTTATCAAAATGTT
1 TTTATTTTTATTTTTAAAAATGTT
62687983 TTT-TTTTTATTTTTAAAAA
1 TTTATTTTTATTTTTAAAAA
62688002 ATAGAAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 13 0.36
24 8 0.22
25 2 0.06
26 2 0.06
27 7 0.19
28 4 0.11
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTATTTTTATTTTTAAAAATGTT
Found at i:62689371 original size:13 final size:12
Alignment explanation
Indices: 62689340--62689372 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
62689330 CACAGTGAAC
62689340 AAAAAAA-AAAA
1 AAAAAAAGAAAA
62689351 AAAAAAAGAAAA
1 AAAAAAAGAAAA
62689363 GAAAAAAAGA
1 -AAAAAAAGA
62689373 CAGCCGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 4 0.20
13 9 0.45
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:62690409 original size:18 final size:18
Alignment explanation
Indices: 62690386--62690422 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62690376 AATAAATAAC
62690386 AAAGAAACCCATCAAACT
1 AAAGAAACCCATCAAACT
62690404 AAAGAAACCCATCAAACT
1 AAAGAAACCCATCAAACT
62690422 A
1 A
62690423 TTTTGCTCAA
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:0.57, C:0.27, G:0.05, T:0.11
Consensus pattern (18 bp):
AAAGAAACCCATCAAACT
Found at i:62693380 original size:10 final size:10
Alignment explanation
Indices: 62693367--62693475 Score: 58
Period size: 10 Copynumber: 11.8 Consensus size: 10
62693357 GTTATAAAAA
62693367 AATAAAAATT
1 AATAAAAATT
*
62693377 AATAAAAGTT
1 AATAAAAATT
62693387 -ATAAAAATT
1 AATAAAAATT
* **
62693396 ATTAAATTTT
1 AATAAAAATT
62693406 AAT-AAAATAT
1 AATAAAAAT-T
62693416 AA-AAAAATT
1 AATAAAAATT
*
62693425 --TAAAATTT
1 AATAAAAATT
*
62693433 ACTAAAAATT
1 AATAAAAATT
*
62693443 -AGAAAAA--
1 AATAAAAATT
62693450 AATAAAAA-T
1 AATAAAAATT
* *
62693459 CATAAAAAAT
1 AATAAAAATT
62693469 -ATAAAAA
1 AATAAAAA
62693476 ATGTAAAGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
8 12 0.16
9 31 0.41
10 33 0.43
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (10 bp):
AATAAAAATT
Found at i:62693391 original size:27 final size:27
Alignment explanation
Indices: 62693352--62693476 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 27
62693342 ACATGTGACA
62693352 AAAAAGTTATAAAAAAATAAAAATTAAT
1 AAAAA-TTATAAAAAAATAAAAATTAAT
* * **
62693380 AAAAGTTATAAAAATTATTAAATTTTAAT
1 AAAAATTATAAAAA--AATAAAAATTAAT
* *
62693409 -AAAA-TATAAAAAAATTTAAAATTTACT
1 AAAAATTATAAAAAAA--TAAAAATTAAT
* *
62693436 AAAAATTAGAAAAAAATAAAAA-TCAT
1 AAAAATTATAAAAAAATAAAAATTAAT
*
62693462 AAAAAATATAAAAAA
1 AAAAATTATAAAAAA
62693477 TGTAAAGTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
25 1 0.01
26 15 0.19
27 31 0.40
28 11 0.14
29 19 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATTATAAAAAAATAAAAATTAAT
Found at i:62693455 original size:17 final size:18
Alignment explanation
Indices: 62693435--62693475 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
62693425 TAAAATTTAC
*
62693435 TAAAAATTAGAAAAAA-A
1 TAAAAATCAGAAAAAATA
*
62693452 TAAAAATCATAAAAAATA
1 TAAAAATCAGAAAAAATA
62693470 TAAAAA
1 TAAAAA
62693476 ATGTAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAAATCAGAAAAAATA
Found at i:62693477 original size:9 final size:9
Alignment explanation
Indices: 62693359--62693482 Score: 58
Period size: 9 Copynumber: 13.7 Consensus size: 9
62693349 ACAAAAAAGT
62693359 TATAAAAAA
1 TATAAAAAA
*
62693368 -ATAAAAAT
1 TATAAAAAA
**
62693376 TAATAAAAGT
1 T-ATAAAAAA
*
62693386 TATAAAAAT
1 TATAAAAAA
* *
62693395 TAT-TAAAT
1 TATAAAAAA
*
62693403 TTTAATAAAA
1 TATAA-AAAA
62693413 TATAAAAAAA
1 TAT-AAAAAA
* **
62693423 TTTAAAATT
1 TATAAAAAA
*
62693432 TACTAAAAAT
1 TA-TAAAAAA
*
62693442 TAGAAAAAA
1 TATAAAAAA
62693451 -AT-AAAAA
1 TATAAAAAA
62693458 TCATAAAAAA
1 T-ATAAAAAA
62693468 TATAAAAAA
1 TATAAAAAA
*
62693477 TGTAAA
1 TATAAA
62693483 GTTTTATAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
7 5 0.06
8 14 0.16
9 35 0.39
10 33 0.37
11 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
TATAAAAAA
Found at i:62693600 original size:19 final size:19
Alignment explanation
Indices: 62693576--62693674 Score: 60
Period size: 19 Copynumber: 5.2 Consensus size: 19
62693566 GTATAATAAT
62693576 TTTTATAAATTTTTACAAA
1 TTTTATAAATTTTTACAAA
*
62693595 TTTTAT-ATTTCTTTAC--A
1 TTTTATAAATT-TTTACAAA
* * ** * *
62693612 TTTTTTATATTTCCATATA
1 TTTTATAAATTTTTACAAA
* *
62693631 TTTTATAATTTTTTTTACAAT
1 TTTTATAA--ATTTTTACAAA
*
62693652 TTTTATAAAATTTTACAAA
1 TTTTATAAATTTTTACAAA
62693671 TTTT
1 TTTT
62693675 TATTATTTTT
Statistics
Matches: 56, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
17 8 0.14
18 5 0.09
19 30 0.54
21 13 0.23
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTTTACAAA
Found at i:62693694 original size:10 final size:10
Alignment explanation
Indices: 62693573--62693693 Score: 69
Period size: 10 Copynumber: 12.7 Consensus size: 10
62693563 CTGGTATAAT
62693573 AATTTTTATA
1 AATTTTTATA
*
62693583 AATTTTTACA
1 AATTTTTATA
62693593 AA-TTTTAT-
1 AATTTTTATA
62693601 -ATTTCTT-TA
1 AATTT-TTATA
*
62693610 CATTTTT-TA
1 AATTTTTATA
* **
62693619 TATTTCCATA
1 AATTTTTATA
*
62693629 TA-TTTTATA
1 AATTTTTATA
* *
62693638 ATTTTTTTTA
1 AATTTTTATA
62693648 CAATTTTTATA
1 -AATTTTTATA
* *
62693659 AAATTTTACA
1 AATTTTTATA
62693669 AATTTTTAT-
1 AATTTTTATA
*
62693678 TATTTTTAT-
1 AATTTTTATA
62693687 AATTTTT
1 AATTTTT
62693694 TTCTAATTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
7 1 0.01
8 3 0.03
9 34 0.40
10 40 0.47
11 8 0.09
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTATA
Found at i:62696934 original size:24 final size:23
Alignment explanation
Indices: 62696906--62696951 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
62696896 ATAATAATTC
62696906 AAGTTAAAATAATTCAACATTAAA
1 AAGTTAAAATAATTCAA-ATTAAA
**
62696930 AAGTTAATTTAATTCAAATTAA
1 AAGTTAAAATAATTCAAATTAA
62696952 TTTTATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AAGTTAAAATAATTCAAATTAAA
Found at i:62698110 original size:16 final size:16
Alignment explanation
Indices: 62698079--62698112 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62698069 CCATAAACCT
**
62698079 TTATTTTTTTTTCAAA
1 TTATTTTTTTAACAAA
62698095 TTATTTTTTTAACAAA
1 TTATTTTTTTAACAAA
62698111 TT
1 TT
62698113 GATGAAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTTTTTAACAAA
Found at i:62698882 original size:23 final size:23
Alignment explanation
Indices: 62698856--62698903 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
62698846 TGGAAGATTC
*
62698856 TTCGTTGAATTTCTCTATTTCAA
1 TTCGTTGAATTTCTCAATTTCAA
* *
62698879 TTCGTTGATTTTGTCAATTTCAA
1 TTCGTTGAATTTCTCAATTTCAA
62698902 TT
1 TT
62698904 ATCATCATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (23 bp):
TTCGTTGAATTTCTCAATTTCAA
Found at i:62700258 original size:61 final size:61
Alignment explanation
Indices: 62700175--62700293 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 61
62700165 ATTCAAAGGT
* ** *
62700175 AAAATATAATAGTACGTCATATCTTAAAATGAATTAATGACTATATACTTATAATTTTGTA
1 AAAATATAATAGTACGTAATATCTTAAAATGAATTAACAACCATATACTTATAATTTTGTA
** * ** *
62700236 AAAATATAATCTTACTTAATATCTTAAAATTTATTAACAACCATATATTTATAATTTT
1 AAAATATAATAGTACGTAATATCTTAAAATGAATTAACAACCATATACTTATAATTTT
62700294 CAATTACATT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (61 bp):
AAAATATAATAGTACGTAATATCTTAAAATGAATTAACAACCATATACTTATAATTTTGTA
Found at i:62701877 original size:14 final size:14
Alignment explanation
Indices: 62701858--62701895 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
62701848 GTTTGCCAGT
*
62701858 AAAATAATTTCTGG
1 AAAATAATTTCTAG
62701872 AAAATAATTTCTAG
1 AAAATAATTTCTAG
*
62701886 AAAATGATTT
1 AAAATAATTT
62701896 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAATAATTTCTAG
Found at i:62702077 original size:15 final size:14
Alignment explanation
Indices: 62702047--62702089 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
62702037 CACTTTCTTG
*
62702047 AAAA-TATTTCAAA
1 AAAACTATTTTAAA
62702060 AAAACTACTTTTAAA
1 AAAACTA-TTTTAAA
*
62702075 AAAGCTATTTTAAA
1 AAAACTATTTTAAA
62702089 A
1 A
62702090 CATATATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 4 0.15
14 10 0.38
15 12 0.46
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAACTATTTTAAA
Found at i:62703665 original size:23 final size:23
Alignment explanation
Indices: 62703583--62703669 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
62703573 CCTGATCAGT
*
62703583 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
62703605 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
62703625 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
62703648 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
62703670 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:62703798 original size:23 final size:23
Alignment explanation
Indices: 62703755--62703799 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62703745 TTAATAGGGT
*
62703755 ATTTCAATTCTCAATTCACTTTC
1 ATTTCAATTCTAAATTCACTTTC
*
62703778 ATTTCCATTCTAAGATT-ACTTT
1 ATTTCAATTCTAA-ATTCACTTT
62703800 TCAATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTCAATTCTAAATTCACTTTC
Found at i:62709029 original size:13 final size:14
Alignment explanation
Indices: 62709008--62709047 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
62708998 ATTTGATTGG
62709008 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
62709021 AATATGAATTAAAT
1 AAAATGAATTAAAT
62709035 AAAAGTGAATTAA
1 AAAA-TGAATTAA
62709048 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:62710027 original size:21 final size:21
Alignment explanation
Indices: 62710001--62710041 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
62709991 AAAATGTTGG
62710001 TTTAAATAATTATTGAAAGAT
1 TTTAAATAATTATTGAAAGAT
62710022 TTTAAATAATTATTGAAAGA
1 TTTAAATAATTATTGAAAGA
62710042 CTAATGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTAAATAATTATTGAAAGAT
Found at i:62710350 original size:26 final size:26
Alignment explanation
Indices: 62710321--62710402 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
62710311 TGGTACAAAT
62710321 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
62710347 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62710373 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62710399 TGAT
1 TGAT
62710403 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62713138 original size:15 final size:15
Alignment explanation
Indices: 62713118--62713149 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62713108 TAATGATTTT
*
62713118 ATGAAATGGTTATTG
1 ATGAAATGGATATTG
62713133 ATGAAATGGATATTG
1 ATGAAATGGATATTG
62713148 AT
1 AT
62713150 ATAATAAGAA
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:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (15 bp):
ATGAAATGGATATTG
Found at i:62716122 original size:17 final size:18
Alignment explanation
Indices: 62716102--62716141 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
62716092 ATTAAAAACC
62716102 AAAAATAAA-ACAAAAAT
1 AAAAATAAACACAAAAAT
*
62716119 AAAAA-AAACACACAAAT
1 AAAAATAAACACAAAAAT
62716136 AAAAAT
1 AAAAAT
62716142 CCAAATTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAATAAACACAAAAAT
Found at i:62716442 original size:32 final size:32
Alignment explanation
Indices: 62716401--62716465 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
62716391 CTGCTCCTCC
62716401 GTACGGATGATCCTGTAAAGAATACACGAGAA
1 GTACGGATGATCCTGTAAAGAATACACGAGAA
62716433 GTACGGATGATCCTGTAAAGAATACACGAGAA
1 GTACGGATGATCCTGTAAAGAATACACGAGAA
62716465 G
1 G
62716466 GAATAGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (32 bp):
GTACGGATGATCCTGTAAAGAATACACGAGAA
Found at i:62718614 original size:88 final size:88
Alignment explanation
Indices: 62718465--62718640 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
62718455 AATTTTTAAA
62718465 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
1 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
62718530 AATAATTATATATCCCTAGCTTT
66 AATAATTATATATCCCTAGCTTT
62718553 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
1 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
*
62718618 AATAATTATATATCCTTAGCTTT
66 AATAATTATATATCCCTAGCTTT
62718641 TATACAAGCT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (88 bp):
ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
AATAATTATATATCCCTAGCTTT
Found at i:62731451 original size:23 final size:23
Alignment explanation
Indices: 62731398--62731452 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
62731388 ACATTATTTT
*
62731398 GATTTTTTTAAAATTTATAATTA
1 GATTTTTTTAAAATTTATAAATA
* * * *
62731421 TATATTTTTGAATTTTATAAATA
1 GATTTTTTTAAAATTTATAAATA
62731444 GATTTTTTT
1 GATTTTTTT
62731453 TTAAACTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
GATTTTTTTAAAATTTATAAATA
Found at i:62731617 original size:7 final size:6
Alignment explanation
Indices: 62731606--62731668 Score: 63
Period size: 6 Copynumber: 9.5 Consensus size: 6
62731596 TCAAAAGTGT
*
62731606 TTTTAA TATTTAAA TATTTAA TATTATAG TTTTTAA TTTTAA TTTTAA
1 TTTTAA T-TTT-AA T-TTTAA T-TT-TAA TT-TTAA TTTTAA TTTTAA
62731654 TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTT
62731669 AAAAATTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
6 26 0.51
7 14 0.27
8 11 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (6 bp):
TTTTAA
Found at i:62731640 original size:15 final size:15
Alignment explanation
Indices: 62731604--62731663 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
62731594 AGTCAAAAGT
62731604 GTTTTTAATATTTAA
1 GTTTTTAATATTTAA
* *
62731619 ATATTTAATA-TTATA
1 GTTTTTAATATTTA-A
62731634 GTTTTTAAT-TTTAA
1 GTTTTTAATATTTAA
62731648 --TTTTAAT-TTTAA
1 GTTTTTAATATTTAA
62731660 -TTTT
1 GTTTT
62731664 AATTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 12 0.32
13 3 0.08
14 4 0.11
15 19 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
GTTTTTAATATTTAA
Found at i:62731647 original size:6 final size:6
Alignment explanation
Indices: 62731636--62731668 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
62731626 ATATTATAGT
62731636 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
62731669 AAAAATTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:62734038 original size:31 final size:30
Alignment explanation
Indices: 62733978--62734038 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
62733968 AAGAAATATA
* *
62733978 TTTTAAAAATTTTGTCAATTTTAAATATTT
1 TTTTAAAAATTTAGTCAATTTAAAATATTT
*
62734008 TTTTATAAAATTTAGTTAA-TTAAAATTATTT
1 TTTTA-AAAATTTAGTCAATTTAAAA-TATTT
62734039 GCATACCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTAAAAATTTAGTCAATTTAAAATATTT
Found at i:62738676 original size:44 final size:44
Alignment explanation
Indices: 62738601--62739610 Score: 1426
Period size: 44 Copynumber: 23.0 Consensus size: 44
62738591 AAATTCGTCG
* * * *
62738601 TCTTCGATTTGCTCTCTGTCAACACAAAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
*
62738645 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62738689 TCTTTGATTTGCTCTCCGCCAATATAGAGATGCCAAATCTGTTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62738733 TCTTCGATCTGCTCTTCGCCAATACAGAGATGCCAATTCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* *
62738777 TCTTTGATTTGCTCTCCGCCAATATAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* *
62738821 TCTTCGATCTGCTCTCCGCCAATACAGAGATGTCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62738865 TCTTTGATTTGCTCTCTGCCAATATAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62738909 TCTTTGATTTGCTCTCCGCCAATATAGAGATGCCAAATCTACTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62738953 TCTTCGATATGCTCTCCGCCAATATAGAGATGCCAAATATGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * * *
62738997 TCTTTGATTTGCTCTCCCCCAATATAGAGATGCCAAATCTACTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* *
62739041 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* *
62739085 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTACTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
62739129 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
** * * *
62739173 TCTTTAATTTGCTCTCCTCCAATATAGAAATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * * *
62739217 TATTCGATCTGCTCTTCGCCAATACAGAGATGTCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * * * * *
62739261 TATTTGATTTGCTCTTCACCAATATAAAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * * *
62739305 TCTTCGATCTGCTCTCTGCCAATACAGAGATGTCAAATTTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62739349 TCTTTGATTTGCTCTCTGCCAATATAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * * * *
62739393 TCTTTGATTTGCTCTCCGCCAAAATAGAGATGTCAAATCTACTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* * *
62739437 TCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTACTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
*
62739481 TCTTTGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
* *
62739525 TCTTCGATCTACTCTCCGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
*
62739569 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
1 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
62739611 AGGATTTGCC
Statistics
Matches: 867, Mismatches: 99, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 867 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (44 bp):
TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGCTA
Found at i:62751381 original size:132 final size:132
Alignment explanation
Indices: 62751128--62751368 Score: 331
Period size: 132 Copynumber: 1.8 Consensus size: 132
62751118 TTTCGAAGAG
* ** *
62751128 ATATTCGATTATTTTGAACAAACGGGAAATTGCAACCTAACACGATAGGGCACGATTCCCGAATT
1 ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
* ** * * *
62751193 ATCAAACATCGAGTATTGTCTTCGTTTTGGAAGGTTTTTTTATAAACACGAGTGAAAGCCTAAAG
66 ATCAAACACCGAGTATTACCTTCGTTTTGAAAGGTATTTTTAAAAACACGAGTGAAAGCCTAAAG
62751258 GA
131 GA
* * * *
62751260 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCTGAATT
1 ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
* *
62751325 GTCAAACACCGAGTATTACCTTCGTTTTTAAAGG-ATTTTTAAAA
66 ATCAAACACCGAGTATTACCTTCGTTTTGAAAGGTATTTTTAAAA
62751369 GATATGAGTG
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
131 8 0.09
132 85 0.91
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (132 bp):
ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
ATCAAACACCGAGTATTACCTTCGTTTTGAAAGGTATTTTTAAAAACACGAGTGAAAGCCTAAAG
GA
Found at i:62752197 original size:24 final size:27
Alignment explanation
Indices: 62752169--62752224 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
62752159 ATATTTAGAT
* *
62752169 AATAAGCT-ATATGTAAA-ACAC-AAA
1 AATAAGATGATATATAAATACACTAAA
*
62752193 AATAATATGATATATAAATACACTAAA
1 AATAAGATGATATATAAATACACTAAA
62752220 AATAA
1 AATAA
62752225 TAATTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 6 0.23
25 8 0.31
26 4 0.15
27 8 0.31
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (27 bp):
AATAAGATGATATATAAATACACTAAA
Found at i:62752198 original size:27 final size:27
Alignment explanation
Indices: 62752167--62752227 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
62752157 TAATATTTAG
*
62752167 ATAATAAGCTATATGTAAA-ACAC-AAAA
1 ATAATAAG--ATATATAAATACACTAAAA
*
62752194 ATAATATGATATATAAATACACTAAAA
1 ATAATAAGATATATAAATACACTAAAA
62752221 ATAATAA
1 ATAATAA
62752228 TTTTATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 8 0.28
26 4 0.14
27 17 0.59
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (27 bp):
ATAATAAGATATATAAATACACTAAAA
Found at i:62755110 original size:13 final size:14
Alignment explanation
Indices: 62755092--62755120 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62755082 ATCCCAAAAC
62755092 AACCC-AAATTTAA
1 AACCCAAAATTTAA
62755105 AACCCAAAATTTAA
1 AACCCAAAATTTAA
62755119 AA
1 AA
62755121 ACTCTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCAAAATTTAA
Found at i:62756487 original size:3 final size:3
Alignment explanation
Indices: 62756481--62756573 Score: 161
Period size: 3 Copynumber: 30.7 Consensus size: 3
62756471 TTTTATCATC
62756481 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62756529 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT CATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T -ATT ATT ATT AT
62756574 GTCAATTACT
Statistics
Matches: 87, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.02
3 81 0.93
4 2 0.02
5 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:62757364 original size:15 final size:15
Alignment explanation
Indices: 62757346--62757374 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62757336 TTCAAAAAAA
62757346 ATGGTTTCGACAGCT
1 ATGGTTTCGACAGCT
62757361 ATGGTTTCGACAGC
1 ATGGTTTCGACAGC
62757375 ATATTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
ATGGTTTCGACAGCT
Found at i:62757850 original size:2 final size:2
Alignment explanation
Indices: 62757843--62757869 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62757833 TAATGGACTA
62757843 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62757870 CTTACCATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62759642 original size:19 final size:19
Alignment explanation
Indices: 62759618--62759656 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62759608 CATGCTTTCA
62759618 AATGGAATGGGGGAATTGG
1 AATGGAATGGGGGAATTGG
62759637 AATGGAATGGGGGAATTGG
1 AATGGAATGGGGGAATTGG
62759656 A
1 A
62759657 TGTTCATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (19 bp):
AATGGAATGGGGGAATTGG
Found at i:62761719 original size:61 final size:61
Alignment explanation
Indices: 62761630--62761763 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 61
62761620 TTTTAGTAAA
* * * * *
62761630 CTAATACAAAGTAGTACCTAAATATTAATTTGGT-TAAAATAAAGTTTAGTAATTGTAACAT
1 CTAATACAAA-TAGTACCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATAACAT
* * *
62761691 CTAAGTACAAATGGTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATAATAT
1 CTAA-TACAAATAGTACCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATAACAT
*
62761753 TTAATACAAAT
1 CTAATACAAAT
62761764 TAAGCATTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 31 0.50
62 31 0.50
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (61 bp):
CTAATACAAATAGTACCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATAACAT
Found at i:62768997 original size:27 final size:27
Alignment explanation
Indices: 62768657--62768996 Score: 414
Period size: 27 Copynumber: 12.6 Consensus size: 27
62768647 AAAGTACTCC
62768657 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
62768684 CAAGTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
62768711 CGATTTGTAAAATTACCGTTTTACCCA
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
62768738 CAATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
62768765 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
62768792 CGATTTATAGAATTACCGTTTTAGCCC-
1 CGATTTACAGAATTACCGTTTTA-CCCT
* * *
62768819 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
62768846 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
62768873 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62768900 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
62768927 CGATTTATAGAATTACTGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
62768954 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
62768981 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
62768997 TAAAATACCC
Statistics
Matches: 275, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
26 4 0.01
27 267 0.97
28 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:62769029 original size:27 final size:27
Alignment explanation
Indices: 62768975--62769055 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
62768965 ATTACTGTTT
* **
62768975 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
***
62769002 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCAATTTGTAAAATTACTA-AAA
*
62769029 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
62769056 CACCTTTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACTAAAA
Found at i:62769034 original size:81 final size:80
Alignment explanation
Indices: 62768705--62769040 Score: 219
Period size: 81 Copynumber: 4.2 Consensus size: 80
62768695 ATTACCGTTT
** * * * * ****
62768705 TACCCTCGATTTGTAAAATTACCGTTTTACCCACAATTTATAAAATTACCGTTTTACCCTC-AGT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGA-T
* ***
62768769 TTATAGAATTACTATTT
65 TTATAAAATTAC-AGAA
* * * **** *
62768786 TACCCTCGATTTATAGAATTACCGTTTTAGCCC-CAATTTACATAATTACCGTTTTACCCCCGAT
1 TACCCTCGATTTACAGAATTACCGTTTTA-CCCTCGATTTACAAAATTACCAAAATACCCTCGAT
* * **
62768850 TTACATAATTATC-GTTT
65 TTATAAAATTA-CAG-AA
* ***
62768867 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * **
62768932 TATAGAATTACTGTT
66 TATAAAATTACAGAA
* * * * *
62768947 TCACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGT
1 T-ACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGAT
*
62769012 TTGTAAAATTACAGAAA
65 TTATAAAATTACAG-AA
*
62769029 TACCCTCAATTT
1 TACCCTCGATTT
62769041 GTAAAATTAC
Statistics
Matches: 216, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
80 7 0.03
81 203 0.94
82 6 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAAAATTACAGAA
Found at i:62769158 original size:27 final size:27
Alignment explanation
Indices: 62769081--62769158 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
62769071 AAATGACTAA
*
62769081 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTATAT-GGTAAAATGACCGT
* * *
62769108 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATATGGTAAAATGACCGT
*
62769135 AATACCCCTCTATGGTAAAATGAC
1 AATACCCCTATATGGTAAAATGAC
62769159 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTATATGGTAAAATGACCGT
Found at i:62770393 original size:9 final size:9
Alignment explanation
Indices: 62770381--62770437 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
62770371 TTTGATAAAC
62770381 ATGATATGT
1 ATGATATGT
*
62770390 ATGATATGCAC
1 ATGATATG--T
*
62770401 ATGACATGT
1 ATGATATGT
*
62770410 ATGATATGCAC
1 ATGATATG--T
62770421 ATGATATGT
1 ATGATATGT
62770430 ATGATATG
1 ATGATATG
62770438 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:62770404 original size:20 final size:20
Alignment explanation
Indices: 62770379--62770441 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
62770369 ATTTTGATAA
62770379 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62770399 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62770419 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62770439 ACA
1 ACA
62770442 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62770552 original size:24 final size:24
Alignment explanation
Indices: 62770496--62770718 Score: 335
Period size: 24 Copynumber: 9.4 Consensus size: 24
62770486 GAGGAAGTGA
62770496 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
62770519 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
62770543 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
62770567 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
62770590 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
62770614 AAAAGGGCTTATGCCTCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
62770638 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
62770661 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
62770685 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
62770709 AAAAGAGGCT
1 AAAAG-GGCT
62770719 AGGCCTCCAA
Statistics
Matches: 182, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
23 64 0.35
24 114 0.63
25 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:62770565 original size:47 final size:47
Alignment explanation
Indices: 62770496--62770711 Score: 335
Period size: 47 Copynumber: 4.6 Consensus size: 47
62770486 GAGGAAGTGA
62770496 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
62770543 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
62770590 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
62770638 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
62770685 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
62770712 AGAGGCTAGG
Statistics
Matches: 155, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 113 0.73
48 42 0.27
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:62770612 original size:71 final size:71
Alignment explanation
Indices: 62770496--62770718 Score: 392
Period size: 71 Copynumber: 3.1 Consensus size: 71
62770486 GAGGAAGTGA
*
62770496 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
62770561 GTTATC
66 GTTATC
*
62770567 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
62770632 GTTATC
66 GTTATC
* *
62770638 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
62770703 GTTATT
66 GTTATC
62770709 AAAAGAGGCT
1 AAAAG-GGCT
62770719 AGGCCTCCAA
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 141 0.97
72 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:62770961 original size:31 final size:31
Alignment explanation
Indices: 62770926--62770989 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
62770916 CGTTTACCGT
*
62770926 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
62770957 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
62770988 AA
1 AA
62770990 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Done.