Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, 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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 26
Found at i:3772763 original size:16 final size:15
Alignment explanation
Indices: 3772733--3772767 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
3772723 TGAACTAAAA
3772733 GTAATGGTATTGGTC
1 GTAATGGTATTGGTC
*
3772748 GTAATAGGTCTTGGTC
1 GTAAT-GGTATTGGTC
3772764 GTAA
1 GTAA
3772768 CAACACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.23, C:0.09, G:0.31, T:0.37
Consensus pattern (15 bp):
GTAATGGTATTGGTC
Found at i:3775821 original size:6 final size:6
Alignment explanation
Indices: 3775791--3775832 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
3775781 ATTAAGGAAA
3775791 GAAAATG GAAAATG GAAAA- -AAAAG GAAAAG GAAAAG GAAAAG
1 GAAAA-G GAAAA-G GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
3775833 TGGAGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.12
6 17 0.52
7 12 0.36
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (6 bp):
GAAAAG
Found at i:3775999 original size:13 final size:13
Alignment explanation
Indices: 3775981--3776010 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3775971 AATAATTCAA
3775981 AAATTAAAACATT
1 AAATTAAAACATT
3775994 AAATTAAAACATT
1 AAATTAAAACATT
3776007 AAAT
1 AAAT
3776011 AACTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATTAAAACATT
Found at i:3780693 original size:16 final size:16
Alignment explanation
Indices: 3780672--3780706 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3780662 GGTATTACCC
*
3780672 GACATGTTTTCAACCT
1 GACATGTTATCAACCT
*
3780688 GACATGTTATGAACCT
1 GACATGTTATCAACCT
3780704 GAC
1 GAC
3780707 CTGTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (16 bp):
GACATGTTATCAACCT
Found at i:3780923 original size:39 final size:39
Alignment explanation
Indices: 3780872--3780960 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
3780862 TTACTTTTTG
* *
3780872 AAATTTAGTTTTTATATTAATTATAATT-TTTATATTAT
1 AAATTTATTTTTTATATTAATTACAATTCTTTATATTAT
*
3780910 AAATTTGATTTTTTATATTAATTCCAATTCTTTATATTAT
1 AAATTT-ATTTTTTATATTAATTACAATTCTTTATATTAT
3780950 AAATTTTATTT
1 AAA-TTTATTT
3780961 ATAATCATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 6 0.13
39 19 0.42
40 17 0.38
41 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (39 bp):
AAATTTATTTTTTATATTAATTACAATTCTTTATATTAT
Found at i:3781576 original size:23 final size:23
Alignment explanation
Indices: 3781550--3781614 Score: 105
Period size: 23 Copynumber: 2.8 Consensus size: 23
3781540 ACAACAACCG
3781550 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
3781573 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCATTGCATCAATTCA
*
3781596 ACAAGCATCA-TGCAGTCAA
1 GCAAGCATCATTGCA-TCAA
3781615 AAAGCATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 4 0.10
23 36 0.90
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (23 bp):
GCAAGCATCATTGCATCAATTCA
Found at i:3784322 original size:24 final size:23
Alignment explanation
Indices: 3784293--3784370 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
3784283 GTTTCTAATA
*
3784293 GTTTGGATCCGGTTTCAGGTTCGG
1 GTTTGGATCGGGTTT-AGGTTCGG
* *
3784317 GTTTGGATTCGGGTTTGGGTTTGG
1 GTTTGGA-TCGGGTTTAGGTTCGG
* *
3784341 GTTTGGGTTCGGGTTTAGGATCGG
1 GTTT-GGATCGGGTTTAGGTTCGG
3784365 GTTTGG
1 GTTTGG
3784371 GTTTGGGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.04
24 34 0.76
25 9 0.20
ACGTcount: A:0.06, C:0.09, G:0.44, T:0.41
Consensus pattern (23 bp):
GTTTGGATCGGGTTTAGGTTCGG
Found at i:3784336 original size:6 final size:6
Alignment explanation
Indices: 3784310--3784431 Score: 86
Period size: 6 Copynumber: 20.7 Consensus size: 6
3784300 TCCGGTTTCA
* * * * *
3784310 GGTTCG GGTTTG GATTCG GGTTTG GGTTTG GGTTTG GGTTCG GGTTTA
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
* * * * * * * *
3784358 GGATCG GGTTTG GGTTTG GGTCTG GGTTT- AGTTAG TGTTTT GG-TTC
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
** *
3784404 GGTTCA AGTTTG GGTTTG GGTTTG GGTT
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTT
3784432 AGGGAAGATG
Statistics
Matches: 86, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
5 7 0.08
6 79 0.92
ACGTcount: A:0.06, C:0.06, G:0.43, T:0.45
Consensus pattern (6 bp):
GGTTTG
Found at i:3784378 original size:12 final size:12
Alignment explanation
Indices: 3784310--3784385 Score: 98
Period size: 12 Copynumber: 6.3 Consensus size: 12
3784300 TCCGGTTTCA
3784310 GGTTCGGGTTTG
1 GGTTCGGGTTTG
*
3784322 GATTCGGGTTTG
1 GGTTCGGGTTTG
*
3784334 GGTTTGGGTTTG
1 GGTTCGGGTTTG
*
3784346 GGTTCGGGTTTA
1 GGTTCGGGTTTG
*
3784358 GGATCGGGTTTG
1 GGTTCGGGTTTG
* *
3784370 GGTTTGGGTCTG
1 GGTTCGGGTTTG
3784382 GGTT
1 GGTT
3784386 TAGTTAGTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.04, C:0.07, G:0.47, T:0.42
Consensus pattern (12 bp):
GGTTCGGGTTTG
Found at i:3784964 original size:18 final size:18
Alignment explanation
Indices: 3784941--3784997 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
3784931 ACCATGCATC
3784941 GATGCACTCAGTGCATTT
1 GATGCACTCAGTGCATTT
*
3784959 GATGCA-TC-GTGCA-TC
1 GATGCACTCAGTGCATTT
*
3784974 GATGCACTCAGTGCTTTT
1 GATGCACTCAGTGCATTT
3784992 GATGCA
1 GATGCA
3784998 TCAATGCACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 6 0.18
18 13 0.39
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (18 bp):
GATGCACTCAGTGCATTT
Found at i:3784977 original size:33 final size:33
Alignment explanation
Indices: 3784935--3784999 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
3784925 GCACATACCA
3784935 TGCATCGATGCACTCAGTGCATTTGATGCATCG
1 TGCATCGATGCACTCAGTGCATTTGATGCATCG
*
3784968 TGCATCGATGCACTCAGTGCTTTTGATGCATC
1 TGCATCGATGCACTCAGTGCATTTGATGCATC
3785000 AATGCACTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (33 bp):
TGCATCGATGCACTCAGTGCATTTGATGCATCG
Found at i:3785017 original size:26 final size:26
Alignment explanation
Indices: 3784968--3785016 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
3784958 TGATGCATCG
*
3784968 TGCATCGATGCACTCAGTGCTTTTGA
1 TGCATCAATGCACTCAGTGCTTTTGA
3784994 TGCATCAATGCACTCAG-GCTTTT
1 TGCATCAATGCACTCAGTGCTTTT
3785017 TCAAAACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCATCAATGCACTCAGTGCTTTTGA
Found at i:3791104 original size:14 final size:14
Alignment explanation
Indices: 3791085--3791120 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
3791075 TGTTTGATGA
3791085 TTACAACCTAGATT
1 TTACAACCTAGATT
3791099 TTACAACCTAGATT
1 TTACAACCTAGATT
3791113 TTACAACC
1 TTACAACC
3791121 AATTTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (14 bp):
TTACAACCTAGATT
Found at i:3793506 original size:45 final size:46
Alignment explanation
Indices: 3793457--3793545 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
3793447 AAACATCGAA
* *
3793457 TGCATTTTATGCATCGATGCA-AATACCATGCATCGATGCACTCGG
1 TGCATTTGATGCATCGATGCATAAGACCATGCATCGATGCACTCGG
3793502 TGCATTTGATGCATCGATGCATAAGACCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCATAAGACCATGCATCGATGCACTC
3793546 AGGCTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCATAAGACCATGCATCGATGCACTCGG
Found at i:3793603 original size:19 final size:19
Alignment explanation
Indices: 3793576--3793626 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
3793566 ATGCATTTTA
*
3793576 TGCATCGATGCACACTTGG
1 TGCACCGATGCACACTTGG
3793595 TGCACCGATGCACACTTGG
1 TGCACCGATGCACACTTGG
3793614 TGCACCGATGCAC
1 TGCACCGATGCAC
3793627 TAAGTGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (19 bp):
TGCACCGATGCACACTTGG
Found at i:3795021 original size:51 final size:51
Alignment explanation
Indices: 3795002--3795131 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
3794992 ATATAGTTTA
* * *
3795002 TATATACCATATAGTTTATATATACTATATAATTTATATATACTAATGAAC
1 TATATAACATATAGTTTATATATAATATATAATATATATATACTAATGAAC
* *
3795053 TATATAACATATAGTTTATATATACTATATAGGT-TATATATACTAATGAAC
1 TATATAACATATAGTTTATATATAATATATA-ATATATATATACTAATGAAC
*
3795104 TATATAATATATAGTTTATATAT-ATATA
1 TATATAACATATAGTTTATATATAATATA
3795132 GTTTTTATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
50 4 0.05
51 69 0.93
52 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (51 bp):
TATATAACATATAGTTTATATATAATATATAATATATATATACTAATGAAC
Found at i:3795049 original size:69 final size:69
Alignment explanation
Indices: 3794966--3795097 Score: 228
Period size: 69 Copynumber: 1.9 Consensus size: 69
3794956 AATATGTAAG
* *
3794966 TTATATATAATAATGAACTATATAATATATAGTTTATATATACCATATAGTTTATATATACTATA
1 TTATATATAATAATGAACTATATAACATATAGTTTATATATACCATATAGGTTATATATACTATA
3795031 TAAT
66 TAAT
* *
3795035 TTATATATACTAATGAACTATATAACATATAGTTTATATATACTATATAGGTTATATATACTA
1 TTATATATAATAATGAACTATATAACATATAGTTTATATATACCATATAGGTTATATATACTA
3795098 ATGAACTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (69 bp):
TTATATATAATAATGAACTATATAACATATAGTTTATATATACCATATAGGTTATATATACTATA
TAAT
Found at i:3795126 original size:13 final size:13
Alignment explanation
Indices: 3795110--3795152 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3795100 GAACTATATA
3795110 ATATATAGTTTATAT
1 ATATATAG-TT-TAT
*
3795125 ATATATAGTTTTT
1 ATATATAGTTTAT
*
3795138 ATATATAGTTCAT
1 ATATATAGTTTAT
3795151 AT
1 AT
3795153 GTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.60
14 2 0.08
15 8 0.32
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:3795144 original size:2 final size:2
Alignment explanation
Indices: 3794905--3795131 Score: 67
Period size: 2 Copynumber: 114.5 Consensus size: 2
3794895 CTTTCAATTA
* *
3794905 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3794947 -T A- AT AA AT -T A- AT AT GT A- AGT -T AT AT AT A- AT A- AT GA-
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT -AT
* * *
3794982 ACT AT AT A- AT AT AT AGT TT AT AT AT ACC AT AT AGT TT AT AT AT
1 A-T AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT
* *
3795025 ACT AT AT A- AT TT AT AT AT ACT A- AT GA- ACT AT AT A- AC AT AT
1 A-T AT AT AT AT AT AT AT AT A-T AT AT -AT A-T AT AT AT AT AT AT
* * *
3795065 AGT TT AT AT AT ACT AT AT AG GT -T AT AT AT ACT A- AT GA- ACT AT
1 A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT -AT A-T AT
*
3795107 AT A- AT AT AT AGT TT AT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT A
3795132 GTTTTTATAT
Statistics
Matches: 167, Mismatches: 24, Indels: 68
0.64 0.09 0.26
Matches are distributed among these distances:
1 18 0.11
2 130 0.78
3 19 0.11
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3795191 original size:18 final size:18
Alignment explanation
Indices: 3794991--3795192 Score: 78
Period size: 18 Copynumber: 11.8 Consensus size: 18
3794981 AACTATATAA
* *
3794991 TATATAGTTTATATATAC
1 TATATAGTATATATAAAC
* * *
3795009 CATATAGTTTATATATAC
1 TATATAGTATATATAAAC
* * *
3795027 TATATAATTTATATATAC
1 TATATAGTATATATAAAC
*
3795045 TA-AT-GAACTATAT-AAC
1 TATATAGTA-TATATAAAC
* *
3795061 -ATATAGTTTATATATAC
1 TATATAGTATATATAAAC
*
3795078 TATATAGGT-TATATATAC
1 TATATA-GTATATATAAAC
*
3795096 TA-AT-GAACTATAT-AA-
1 TATATAGTA-TATATAAAC
*
3795111 TATATAGT-T-TATATA-
1 TATATAGTATATATAAAC
*
3795126 TATATAGT-T-T-T-TA-
1 TATATAGTATATATAAAC
*
3795139 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
3795159 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
3795177 TATATATGTAGTATAT
1 TATATA-GTA-TATAT
3795193 GCTTTATAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
13 9 0.06
14 5 0.03
15 16 0.11
16 13 0.09
17 19 0.13
18 67 0.45
19 7 0.05
20 12 0.08
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:3795270 original size:2 final size:2
Alignment explanation
Indices: 3795265--3795614 Score: 110
Period size: 2 Copynumber: 171.0 Consensus size: 2
3795255 ACTTTGAATT
* * *
3795265 TA TA TA T- TA TA AA T- TA TA TA AA TA TA AA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3795303 TA GTA TA TA AA TA TCA -A CTA TA -A TA TA TA GTA TA TA AA TA TCA
1 TA -TA TA TA TA TA T-A TA -TA TA TA TA TA TA -TA TA TA TA TA T-A
*
3795346 -A CTA TA -A TA TA TA GTA TA TA AA TA TCA -A CTA TA T- TA TA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA TA TA
* * * *
3795386 GT- TGA TA TA TA AA CTA TA GTT TA TA TA GTT TA TA TA TA TA GTT
1 -TA T-A TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
3795429 TT TA TA TA TA GT- TCA TA TG TA AA T- TA TA TA GTT TA TA TA TA
1 TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
3795470 TA GT- TCA TA TG TA -A TA -A TA TA AA CTA TA TA TA GTA TA TA GTA
1 TA -TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
* * *
3795512 TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA TA TA TA AA T- TA TA
1 TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
3795554 GTT TA TA TA GA T- TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3795596 TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
3795615 GTTCATGTCG
Statistics
Matches: 259, Mismatches: 41, Indels: 96
0.65 0.10 0.24
Matches are distributed among these distances:
1 20 0.08
2 205 0.79
3 34 0.13
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3795297 original size:27 final size:27
Alignment explanation
Indices: 3795267--3795387 Score: 188
Period size: 27 Copynumber: 4.5 Consensus size: 27
3795257 TTTGAATTTA
* * * *
3795267 TATATTATAAATTATATAAATATAAAT
1 TATATTATATAGTATATAAATATCAAC
3795294 TATATTATATAGTATATAAATATCAAC
1 TATATTATATAGTATATAAATATCAAC
*
3795321 TATAATATATAGTATATAAATATCAAC
1 TATATTATATAGTATATAAATATCAAC
*
3795348 TATAATATATAGTATATAAATATCAAC
1 TATATTATATAGTATATAAATATCAAC
3795375 TATATTATATAGT
1 TATATTATATAGT
3795388 TGATATATAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (27 bp):
TATATTATATAGTATATAAATATCAAC
Found at i:3795336 original size:7 final size:7
Alignment explanation
Indices: 3795265--3795385 Score: 60
Period size: 7 Copynumber: 17.6 Consensus size: 7
3795255 ACTTTGAATT
*
3795265 TATATAT
1 TATATAA
3795272 TATA-AA
1 TATATAA
3795278 TTATATAA
1 -TATATAA
3795286 -ATATAA
1 TATATAA
*
3795292 -ATTATAT
1 TA-TATAA
*
3795299 TATATAG
1 TATATAA
3795306 TATATAA
1 TATATAA
3795313 -ATATCAA
1 TATAT-AA
*
3795320 -CTATAA
1 TATATAA
*
3795326 TATATAG
1 TATATAA
3795333 TATATAA
1 TATATAA
3795340 -ATATCAA
1 TATAT-AA
*
3795347 -CTATAA
1 TATATAA
*
3795353 TATATAG
1 TATATAA
3795360 TATATAA
1 TATATAA
3795367 -ATATCAA
1 TATAT-AA
*
3795374 CTATATTA
1 -TATATAA
3795382 TATA
1 TATA
3795386 GTTGATATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
6 24 0.27
7 58 0.64
8 4 0.04
9 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (7 bp):
TATATAA
Found at i:3795343 original size:54 final size:54
Alignment explanation
Indices: 3795279--3795616 Score: 188
Period size: 54 Copynumber: 6.5 Consensus size: 54
3795269 TATTATAAAT
3795279 TATATAAATATAAATTATATTATATAGTATATAAATATCAACTATAATATATAG
1 TATATAAATATAAATTATATTATATAGTATATAAATATCAACTATAATATATAG
* * * *
3795333 TATATAAATATCAACTATAATATATAGTATATAAATATCAACTATATTATATAG
1 TATATAAATATAAATTATATTATATAGTATATAAATATCAACTATAATATATAG
* * * ** * *
3795387 T-TGAT--ATATAAACTATAGTTTATATAGTTTATATATAT-AGTTTTTATATATAG
1 TAT-ATAAATATAAATTATA--TTATATAGTATATAAATATCAACTATAATATATAG
* * * *
3795440 T-TCAT--ATGTAAATTATA-TAGTTTA-TATATATAGT-TC-A-TAT-GTA-ATA-
1 TAT-ATAAATATAAATTATATTA-TATAGTATATA-AATATCAACTATAATATATAG
* *
3795486 -ATATAAACTAT--A-TATAGTATATAGTATATAAATATCAACTATAGTATATAG
1 TATATAAA-TATAAATTATATTATATAGTATATAAATATCAACTATAATATATAG
* **
3795537 T-T-TATATATAAATTATAGTTTATATAG-AT-TTTATAT-ATA-TATATATATATA-
1 TATATAAATATAAATTATA--TTATATAGTATATAAATATCA-ACTATA-ATATATAG
* *
3795588 TATATATATATATATATATATTATATAGT
1 TATATAAATATAAAT-TATATTATATAGT
3795617 TCATGTCGAA
Statistics
Matches: 222, Mismatches: 32, Indels: 61
0.70 0.10 0.19
Matches are distributed among these distances:
45 11 0.05
46 12 0.05
47 5 0.02
48 7 0.03
49 8 0.04
50 14 0.06
51 12 0.05
52 36 0.16
53 37 0.17
54 80 0.36
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (54 bp):
TATATAAATATAAATTATATTATATAGTATATAAATATCAACTATAATATATAG
Found at i:3795396 original size:13 final size:13
Alignment explanation
Indices: 3795375--3795617 Score: 84
Period size: 13 Copynumber: 19.0 Consensus size: 13
3795365 AAATATCAAC
3795375 TATATTATATAGTT
1 TATA-TATATAGTT
* * * *
3795389 GATATATAAACTA
1 TATATATATAGTT
*
3795402 TAGTTTATATAGTT
1 TA-TATATATAGTT
3795416 TATATATATAGTT
1 TATATATATAGTT
*
3795429 TTTATATATAGTT
1 TATATATATAGTT
* *
3795442 CATATGTA-A---
1 TATATATATAGTT
3795451 -AT-TATATAGTT
1 TATATATATAGTT
3795462 TATATATATAGTT
1 TATATATATAGTT
* *
3795475 CATATGTA-A--T
1 TATATATATAGTT
* * *
3795485 AATATAAACTA-TA
1 TATATATA-TAGTT
*
3795498 TATAGTATATAGTA
1 TATA-TATATAGTT
* **
3795512 TATAAATATCA-AC
1 TATATATAT-AGTT
3795525 TATAGTATATAGTT
1 TATA-TATATAGTT
*
3795539 TATATATA-AATT
1 TATATATATAGTT
*
3795551 ATAGTTTATATAGATTT
1 -TA-TATATATAG--TT
*
3795568 TATATATATA-TA
1 TATATATATAGTT
*
3795580 TATATATATA-TA
1 TATATATATAGTT
*
3795592 TATATATATA-TA
1 TATATATATAGTT
3795604 TATATTATATAGTT
1 TATA-TATATAGTT
3795618 CATGTCGAAA
Statistics
Matches: 172, Mismatches: 35, Indels: 44
0.69 0.14 0.18
Matches are distributed among these distances:
7 3 0.02
8 3 0.02
10 6 0.03
12 37 0.22
13 75 0.44
14 36 0.21
15 8 0.05
16 2 0.01
17 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATATATAGTT
Found at i:3795409 original size:27 final size:25
Alignment explanation
Indices: 3795286--3795423 Score: 93
Period size: 27 Copynumber: 5.2 Consensus size: 25
3795276 AATTATATAA
*
3795286 ATATAAATTATATTATATAGTAT-AT
1 ATATAAACTATATTATATAGT-TGAT
* *
3795311 AAATATCAACTATAATATATAGTAT-AT
1 --ATATAAACTATATTATATAGT-TGAT
* *
3795338 AAATATCAACTATAATATATAGTAT-AT
1 --ATATAAACTATATTATATAGT-TGAT
*
3795365 AAATATCAACTATATTATATAGTTGAT
1 --ATATAAACTATATTATATAGTTGAT
*
3795392 ATATAAACTATAGTTTATATAGTTTAT
1 ATATAAACTATA--TTATATAGTTGAT
3795419 ATATA
1 ATATA
3795424 TAGTTTTTAT
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
25 11 0.11
26 1 0.01
27 90 0.88
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (25 bp):
ATATAAACTATATTATATAGTTGAT
Found at i:3795462 original size:33 final size:33
Alignment explanation
Indices: 3795420--3795483 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
3795410 ATAGTTTATA
*
3795420 TATATAGTTTTTATATATAGTTCATATGTAAAT
1 TATATAGTTTATATATATAGTTCATATGTAAAT
3795453 TATATAGTTTATATATATAGTTCATATGTAA
1 TATATAGTTTATATATATAGTTCATATGTAA
3795484 TAATATAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (33 bp):
TATATAGTTTATATATATAGTTCATATGTAAAT
Found at i:3796797 original size:9 final size:9
Alignment explanation
Indices: 3796769--3796801 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
3796759 ATATTATTCT
3796769 TTAATTAAA
1 TTAATTAAA
*
3796778 TT-ATAAAA
1 TTAATTAAA
3796786 TTAATTAAA
1 TTAATTAAA
3796795 TTAATTA
1 TTAATTA
3796802 GCATAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATTAAA
Found at i:3798470 original size:3 final size:3
Alignment explanation
Indices: 3798464--3798534 Score: 74
Period size: 3 Copynumber: 23.7 Consensus size: 3
3798454 GTATTATTTG
** **
3798464 TAA TAA TAA -ATA TATA TAA TAA TAA TAA TTG TAA TTG TAA T-A TAA
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3798509 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
3798535 TAAATAATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
2 3 0.05
3 49 0.86
4 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3798540 original size:9 final size:10
Alignment explanation
Indices: 3798466--3798542 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 10
3798456 ATTATTTGTA
3798466 ATAATAA-AT
1 ATAATAATAT
3798475 ATATATAATA-
1 ATA-ATAATAT
3798485 ATAATAAT-T
1 ATAATAATAT
*
3798494 GTAATTGTAATAT
1 ATAA---TAATAT
3798507 AATAATAATA-
1 -ATAATAATAT
3798517 ATAATAATA-
1 ATAATAATAT
3798526 ATAATAATAT
1 ATAATAATAT
3798536 A-AATAAT
1 ATAATAAT
3798543 GACGGAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
9 35 0.61
10 8 0.14
11 6 0.11
12 4 0.07
13 1 0.02
14 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:3798669 original size:25 final size:25
Alignment explanation
Indices: 3798627--3798676 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
3798617 CAAAAAGTTT
*
3798627 ATATAGTTCATTAATAAACTTTATA
1 ATATAGTTCATTAATAAACTATATA
*
3798652 ATATAGTTCA-TACGTAAACTATATA
1 ATATAGTTCATTA-ATAAACTATATA
3798677 GTTTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (25 bp):
ATATAGTTCATTAATAAACTATATA
Found at i:3798733 original size:50 final size:49
Alignment explanation
Indices: 3798674--3798768 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
3798664 CGTAAACTAT
*
3798674 ATAGTTTATATATATAGTTCATAAGTAAACTACTAAACTATATATATTAC
1 ATAGTTTATATATATAATTCATAAGTAAACTA-TAAACTATATATATTAC
* * *
3798724 ATAGTTTATATATATAATTCATATGTAAACTATATAGTATATATA
1 ATAGTTTATATATATAATTCATAAGTAAACTATAAACTATATATA
3798769 GTTCATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 11 0.27
50 30 0.73
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (49 bp):
ATAGTTTATATATATAATTCATAAGTAAACTATAAACTATATATATTAC
Found at i:3798757 original size:20 final size:23
Alignment explanation
Indices: 3798707--3798759 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
3798697 AGTAAACTAC
*
3798707 TAAACTATATATATTACATAGTT
1 TAAACTATATATATTACATAGTG
*
3798730 TATA-TATATA-ATT-CATA-TG
1 TAAACTATATATATTACATAGTG
3798749 TAAACTATATA
1 TAAACTATATA
3798760 GTATATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 3 0.12
22 6 0.23
23 3 0.12
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAACTATATATATTACATAGTG
Found at i:3798808 original size:29 final size:29
Alignment explanation
Indices: 3798732--3798800 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
3798722 ACATAGTTTA
*
3798732 TATATATAATTCATATGTAAACTATATAG
1 TATATATAATTCATATATAAACTATATAG
*
3798761 TATATATAGTTCATATATAAACTATATAG
1 TATATATAATTCATATATAAACTATATAG
3798790 TATATATAATT
1 TATATATAATT
3798801 TACATATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
TATATATAATTCATATATAAACTATATAG
Found at i:3798930 original size:24 final size:22
Alignment explanation
Indices: 3798897--3798953 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
3798887 AAATTAACCC
*
3798897 TAAACCATATA-TACTATATATATA
1 TAAACTATATAGT-CTATAT-TA-A
*
3798921 TAAACTATATAGTTTATATTAA
1 TAAACTATATAGTCTATATTAA
3798943 TAAACTATATA
1 TAAACTATATA
3798954 ATTTATACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 12 0.40
23 2 0.07
24 15 0.50
25 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAACTATATAGTCTATATTAA
Found at i:3798938 original size:20 final size:20
Alignment explanation
Indices: 3798915--3799353 Score: 157
Period size: 20 Copynumber: 22.4 Consensus size: 20
3798905 ATATACTATA
3798915 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
3798935 TATATTAATAAACTATATAATT
1 TATA-T-ATAAACTATATAGTT
* *
3798957 TATACATAGTA-TATATTA-TT
1 TATATATA-AACTATA-TAGTT
* *
3798977 TATA-ATTATAC-ATAATA-TA
1 TATATA-TAAACTAT-ATAGTT
* ** *
3798996 TAAATATAAGTTGTATAGTT
1 TATATATAAACTATATAGTT
* *
3799016 TATATATAATTCATATATAATT
1 TATATATAA-AC-TATATAGTT
*
3799038 TATATATAAACTATATAATT
1 TATATATAAACTATATAGTT
3799058 TA-ATTAATAAAC--TAT-G--
1 TATA-T-ATAAACTATATAGTT
* *
3799074 TA-AT-T-TA-TACATAGTT
1 TATATATAAACTATATAGTT
* *
3799090 CATATATAAACTATATAATT
1 TATATATAAACTATATAGTT
* **
3799110 TATACATGGTA-TATATAGTT
1 TATATAT-AAACTATATAGTT
*
3799130 TATACATAATATATATATATATAGTT
1 TAT--AT-ATA-A-A-CTATATAGTT
* *
3799156 TATATATAATA-TATAATAATA
1 TATATATAA-ACTAT-ATAGTT
*
3799177 TAAATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
* ** * * * *
3799197 TCTATATCTAGTTTATAATA
1 TATATATAAACTATATAGTT
*
3799217 TATATATATA-TATATA-TAT
1 TATATATAAACTATATAGT-T
3799236 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
3799256 TAT-T-T--A-TATATAGGT
1 TATATATAAACTATATAGTT
3799271 TATATTAATAAACTATATAGTT
1 TATA-T-ATAAACTATATAGTT
*
3799293 TATACATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
3799313 CATATAT-AA-TATATA---
1 TATATATAAACTATATAGTT
3799328 -A-ATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
3799346 TATATATA
1 TATATATA
3799354 TTATATTATT
Statistics
Matches: 315, Mismatches: 54, Indels: 100
0.67 0.12 0.21
Matches are distributed among these distances:
12 1 0.00
13 7 0.02
14 4 0.01
15 18 0.06
16 5 0.02
17 3 0.01
18 9 0.03
19 40 0.13
20 129 0.41
21 29 0.09
22 50 0.16
23 5 0.02
24 3 0.01
26 12 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:3799124 original size:2 final size:2
Alignment explanation
Indices: 3799119--3799400 Score: 126
Period size: 2 Copynumber: 141.0 Consensus size: 2
3799109 TTATACATGG
* * *
3799119 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA TA GTT TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
3799162 TA -A TA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA GTT TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* *
3799203 TC TA GTT TA TA -A TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * ** *
3799244 AA CTA TA TA GTT TA TT TA TA TA TA GG T- TA TA T- TA -A TA AA CTA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
3799286 TA TA GTT TA TA CA TA AA CTA TA TA GT- TCA TA TA TA -A TA TA TA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA T-A TA TA TA TA TA TA TA
* * *
3799328 AA TA TA AA CTA TA TA GTT TA TA TA TA T- TA TA T- TA T- TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3799369 GTT TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3799401 GTTGTTTCAA
Statistics
Matches: 208, Mismatches: 42, Indels: 60
0.67 0.14 0.19
Matches are distributed among these distances:
1 15 0.07
2 178 0.86
3 15 0.07
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3799170 original size:11 final size:11
Alignment explanation
Indices: 3798903--3799400 Score: 88
Period size: 11 Copynumber: 46.1 Consensus size: 11
3798893 ACCCTAAACC
*
3798903 ATATATACTAT
1 ATATATAATAT
*
3798914 ATATAT-ATAA
1 ATATATAATAT
* *
3798924 ACTATATAGTTT
1 A-TATATAATAT
*
3798936 ATAT-TAATAA
1 ATATATAATAT
*
3798946 ACTATATAATTT
1 A-TATATAATAT
* *
3798958 ATACATAGTAT
1 ATATATAATAT
*
3798969 ATAT-T-ATTT
1 ATATATAATAT
3798978 ATAATTATACATA-
1 AT-A-TATA-ATAT
3798991 ATATATAAATAT
1 ATATAT-AATAT
* * *
3799003 AAGTTGTATAGTTT
1 -A--TATATAATAT
3799017 ATATATAAT-T
1 ATATATAATAT
*
3799027 CATATATAATTT
1 -ATATATAATAT
3799039 ATATATAA-A-
1 ATATATAATAT
* *
3799048 CTATATAATTT
1 ATATATAATAT
*
3799059 A-AT-TAATAA
1 ATATATAATAT
* *
3799068 ACTATGTAATTT
1 A-TATATAATAT
* *
3799080 ATACATAGT-T
1 ATATATAATAT
3799090 CATATATAA-A-
1 -ATATATAATAT
* *
3799100 CTATATAATTT
1 ATATATAATAT
* **
3799111 ATACATGGTAT
1 ATATATAATAT
*
3799122 ATATAGT-TTAT
1 ATATA-TAATAT
*
3799133 ACATAATATATAT
1 ATAT-ATA-ATAT
* *
3799146 ATATATAGTTT
1 ATATATAATAT
3799157 ATATATAATAT
1 ATATATAATAT
3799168 ATA-ATAATAT
1 ATATATAATAT
*
3799178 AAATATAA-A-
1 ATATATAATAT
* *
3799187 CTATATAGT-T
1 ATATATAATAT
* *
3799197 -TCTAT-ATCT
1 ATATATAATAT
*
3799206 AGTTTATAATAT
1 A-TATATAATAT
3799218 ATATAT-ATAT
1 ATATATAATAT
*
3799228 ATATATATTAT
1 ATATATAATAT
3799239 ATATA-AACTAT
1 ATATATAA-TAT
* *
3799250 ATAGT-TTATTT
1 ATA-TATAATAT
*
3799261 ATATATAGGT-T
1 ATATATA-ATAT
*
3799272 ATAT-TAATAA
1 ATATATAATAT
* *
3799282 ACTATATAGTTT
1 A-TATATAATAT
*
3799294 ATACATAA-A-
1 ATATATAATAT
* *
3799303 CTATATAGT-T
1 ATATATAATAT
3799313 CATATATAATAT
1 -ATATATAATAT
* *
3799325 ATAAAT-ATAA
1 ATATATAATAT
* *
3799335 ACTATATAGTTT
1 A-TATATAATAT
*
3799347 ATATATATTAT
1 ATATATAATAT
*
3799358 AT-TATTATAT
1 ATATATAATAT
*
3799368 AGTTTAT-ATAT
1 A-TATATAATAT
3799379 ATATAT-ATAT
1 ATATATAATAT
*
3799389 ATATATATTAT
1 ATATATAATAT
3799400 A
1 A
3799401 GTTGTTTCAA
Statistics
Matches: 342, Mismatches: 91, Indels: 108
0.63 0.17 0.20
Matches are distributed among these distances:
8 1 0.00
9 39 0.11
10 63 0.18
11 182 0.53
12 38 0.11
13 10 0.03
14 5 0.01
15 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (11 bp):
ATATATAATAT
Found at i:3799242 original size:50 final size:54
Alignment explanation
Indices: 3799145--3799320 Score: 169
Period size: 59 Copynumber: 3.1 Consensus size: 54
3799135 ATAATATATA
3799145 TATATATAGTTTATATATAATATATAATAATATAAATATAAACTATATAGTTTC
1 TATATATAGTTTATATATAATATATAATAATATAAATATAAACTATATAGTTTC
* * *
3799199 TATATCTAGTTTATAATATATATATATATATATATATTATATATAAACTATATAGTTTATT
1 TATATATAGTTTAT-ATATA-ATATATA-ATA-ATA-TAAATATAAACTATATAG-TT-TC
* * * * * *
3799260 TATATATAGGTTATAT-TAATAAACTATATAGTTTATACATAAACTATATAG-TTC
1 TATATATAGTTTATATATAATATA-TA-ATAATATAAATATAAACTATATAGTTTC
3799314 -ATATATA
1 TATATATA
3799321 ATATATAAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
53 7 0.07
54 14 0.13
55 6 0.06
56 7 0.07
57 20 0.19
58 8 0.08
59 25 0.24
60 4 0.04
61 13 0.12
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (54 bp):
TATATATAGTTTATATATAATATATAATAATATAAATATAAACTATATAGTTTC
Found at i:3802974 original size:19 final size:17
Alignment explanation
Indices: 3802931--3802967 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3802921 ATAAGATTAT
3802931 CATGTCATTGCTTTTAA
1 CATGTCATTGCTTTTAA
*
3802948 CATGTCATTGTTTTTAA
1 CATGTCATTGCTTTTAA
3802965 CAT
1 CAT
3802968 ATGTCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (17 bp):
CATGTCATTGCTTTTAA
Found at i:3803912 original size:21 final size:20
Alignment explanation
Indices: 3803826--3803983 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
3803816 AAATGACCAA
**
3803826 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
3803845 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
3803865 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
3803885 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
3803906 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
3803927 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
3803947 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
3803968 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
3803984 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:3803974 original size:20 final size:20
Alignment explanation
Indices: 3803950--3804199 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
3803940 CGATTTTCCA
** *
3803950 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
3803970 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
3803990 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
*
3804010 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
3804030 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
3804050 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3804070 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3804090 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
3804110 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3804130 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
3804150 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
3804170 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
3804190 AAATCACAAC
1 AAATCGCAAC
3804200 ACTGAAATTT
Statistics
Matches: 202, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 201 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:3804923 original size:24 final size:24
Alignment explanation
Indices: 3804884--3804930 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3804874 AAATTTGGTC
3804884 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
3804908 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
3804931 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:3805122 original size:12 final size:12
Alignment explanation
Indices: 3805105--3805129 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3805095 ATATAATCCT
3805105 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3805117 GAAGAAGAAAAA
1 GAAGAAGAAAAA
3805129 G
1 G
3805130 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:3807494 original size:19 final size:19
Alignment explanation
Indices: 3807454--3807551 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
3807444 GATTCTCTCG
3807454 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
3807474 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3807493 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3807507 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3807526 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3807545 TTGCGAT
1 TTGCGAT
3807552 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3807548 original size:52 final size:53
Alignment explanation
Indices: 3807435--3807551 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
3807425 GAAATGAAAA
3807435 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3807488 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3807540 TCGCATTGCGAT
1 TCGCATTGCGAT
3807552 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:3807647 original size:14 final size:14
Alignment explanation
Indices: 3807628--3807682 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3807618 CGGAAATGAA
3807628 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3807642 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3807661 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3807675 AATCGCAA
1 AATCGCAA
3807683 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3807662 original size:33 final size:33
Alignment explanation
Indices: 3807610--3807701 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
3807600 CCATTACATT
3807610 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
3807644 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
3807677 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
3807702 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 49 0.84
34 9 0.16
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:3807701 original size:52 final size:52
Alignment explanation
Indices: 3807642--3807758 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
3807632 GCAACGAGAG
3807642 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
3807694 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
3807746 AATCGCATTGCGA
1 AATCGCAATGCGA
3807759 TTCTCCCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:3807807 original size:19 final size:19
Alignment explanation
Indices: 3807765--3807864 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
3807755 GCGATTCTCC
3807765 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
3807785 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
3807804 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
3807820 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
3807837 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
3807856 CATTGCGAT
1 CATTGCGAT
3807865 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:3807861 original size:52 final size:53
Alignment explanation
Indices: 3807748--3807864 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
3807738 GAAATTAAAA
3807748 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
3807801 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3807853 TCGCATTGCGAT
1 TCGCATTGCGAT
3807865 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:3807989 original size:14 final size:14
Alignment explanation
Indices: 3807970--3808007 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
3807960 GCATCAATTA
3807970 TACAAATCAACTTT
1 TACAAATCAACTTT
*
3807984 TACAAATCATCTTT
1 TACAAATCAACTTT
3807998 TACAAATCAA
1 TACAAATCAA
3808008 TTAAACAATC
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:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
TACAAATCAACTTT
Found at i:3809936 original size:20 final size:20
Alignment explanation
Indices: 3809911--3809974 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 20
3809901 TAGTTTACTT
*
3809911 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAACTCAAAA
*
3809931 TCGCAACGCGAAAC-CAAAA
1 TCGCAACACGAAACTCAAAA
*
3809950 TCGCAA-ACGAAA-TGAAAA
1 TCGCAACACGAAACTCAAAA
3809968 TCGCAAC
1 TCGCAAC
3809975 GACAGAATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 15 0.39
19 10 0.26
20 13 0.34
ACGTcount: A:0.48, C:0.27, G:0.14, T:0.11
Consensus pattern (20 bp):
TCGCAACACGAAACTCAAAA
Found at i:3809951 original size:19 final size:19
Alignment explanation
Indices: 3809911--3810038 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
3809901 TAGTTTACTT
* *
3809911 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
3809931 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* **
3809950 TCGCAA-ACGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3809968 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
3809982 TCGCAACGCGAAACCATAA
1 TCGCAACGCGAAACCAAAA
*
3810001 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
3810015 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
3810034 TCGCA
1 TCGCA
3810039 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.21
15 2 0.02
16 4 0.05
17 4 0.05
18 17 0.20
19 29 0.33
20 13 0.15
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:3810003 original size:33 final size:33
Alignment explanation
Indices: 3809964--3810038 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
3809954 AAACGAAATG
3809964 AAAATCGCAACGAC-AGAATCGCAACGCGAAACC
1 AAAATCGCAACGACAAG-ATCGCAACGCGAAACC
*
3809997 ATAATCGCAACGACAAGATCGCAACGCGAAACC
1 AAAATCGCAACGACAAGATCGCAACGCGAAACC
3810030 AAAATCGCA
1 AAAATCGCA
3810039 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGACAAGATCGCAACGCGAAACC
Found at i:3810056 original size:19 final size:19
Alignment explanation
Indices: 3810034--3810168 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3810024 GAAACCAAAA
*
3810034 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3810053 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3810069 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3810086 TCGCATTGCGA--TT-ATG
1 TCGCGTTGCGATTTTCATT
3810102 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3810119 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
3810138 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3810158 TCGTGTTGCGA
1 TCGCGTTGCGA
3810169 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3810075 original size:14 final size:14
Alignment explanation
Indices: 3810056--3810112 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3810046 TTTCATTTCG
3810056 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3810070 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
* *
3810087 CGCATTGCGATTATGT
1 CG--TTGCGATTCTTT
3810103 CGTTGCGATT
1 CGTTGCGATT
3810113 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3810081 original size:33 final size:33
Alignment explanation
Indices: 3810039--3810131 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
3810029 CAAAATCGCA
* *
3810039 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
*
3810072 TTGCGATTTTCATTTCGCATTGCGATTATGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
3810105 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
3810132 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTATGTCG
Found at i:3810366 original size:92 final size:93
Alignment explanation
Indices: 3810212--3810676 Score: 817
Period size: 93 Copynumber: 5.1 Consensus size: 93
3810202 TTGAATGGAT
3810212 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3810275 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
3810303 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3810367 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3810395 AAATTTACTTTCAACCAAAAGACACAAAACAAAG--AAATACTATTTCACAGTGTTAAAGAATAC
1 AAATTTACTTTCAACCAAAAG--ACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
3810458 ACAGTTTAGCAGAATTGGCAGCAACCGAAC
64 ACAGTTTAGCAGAATTGGCAGCAACCGAAC
3810488 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3810553 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
3810581 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTG-TAAAGAAT--AC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
3810641 AGTTTAGCAGAATTGGCAGCAACCGAA-
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
3810668 TAATTTACT
1 AAATTTACT
3810677 AAGCAATCTA
Statistics
Matches: 364, Mismatches: 3, Indels: 18
0.95 0.01 0.05
Matches are distributed among these distances:
87 8 0.02
88 29 0.08
90 8 0.02
91 50 0.14
92 76 0.21
93 183 0.50
94 2 0.01
95 8 0.02
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3812377 original size:19 final size:18
Alignment explanation
Indices: 3812353--3812435 Score: 84
Period size: 19 Copynumber: 4.7 Consensus size: 18
3812343 CGCACGAGAG
3812353 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
*
3812371 CAATCGCAACGCGAAATGA
1 -AATCGCAACGCGAGATGA
3812390 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
* *
3812404 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAGAT-GA
*
3812423 AATCGCAATGCGA
1 AATCGCAACGCGA
3812436 TTTTGGTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
14 8 0.15
15 1 0.02
16 8 0.15
18 8 0.15
19 29 0.54
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:3812401 original size:51 final size:51
Alignment explanation
Indices: 3812332--3812435 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
3812322 GTCTTTGGTT
* * *
3812332 GAAATGAAAATCGCACGAGAGAATCGCAACGCGAGATGACAATCGCAACGC
1 GAAATGAAAATCGCACGAGAGAATCGCAACGCGAAATAAAAATCGCAACGC
*
3812383 GAAATG-AAATCGCAACGAGAGAATCGCAACGCGAAATAAAAATCGCAATGC
1 GAAATGAAAATCGC-ACGAGAGAATCGCAACGCGAAATAAAAATCGCAACGC
3812434 GA
1 GA
3812436 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 7 0.15
51 41 0.85
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (51 bp):
GAAATGAAAATCGCACGAGAGAATCGCAACGCGAAATAAAAATCGCAACGC
Found at i:3812479 original size:33 final size:37
Alignment explanation
Indices: 3812431--3812516 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 37
3812421 AAAATCGCAA
**
3812431 TGCGATTTTGGTTTCGCGTT-G-C-G-ATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCGT
3812464 TGCGATTTTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT-CGACAG-CATTCTCTCGT
3812503 TGCGATTTTCATTT
1 TGCGATTTTCATTT
3812517 ATCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 18 0.40
35 1 0.02
36 1 0.02
37 1 0.02
39 24 0.53
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (37 bp):
TGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCGT
Found at i:3812505 original size:20 final size:20
Alignment explanation
Indices: 3812454--3812507 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
3812444 TCGCGTTGCG
***
3812454 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
3812474 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACAGTC
3812493 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
3812508 TTTTCATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:3812514 original size:20 final size:20
Alignment explanation
Indices: 3812454--3812528 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
3812444 TCGCGTTGCG
3812454 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* ***
3812474 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
3812493 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3812513 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
3812529 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.34
20 16 0.36
21 13 0.30
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:3812644 original size:33 final size:33
Alignment explanation
Indices: 3812602--3812672 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
3812592 AATACTAACT
3812602 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
3812635 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
3812668 TGAAA
1 TGAAA
3812673 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:3812901 original size:22 final size:22
Alignment explanation
Indices: 3812849--3812903 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3812839 TGGTTGTGAG
**
3812849 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3812871 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3812893 GGATTTCTTCG
1 GGATTTCTTCG
3812904 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:3813074 original size:20 final size:20
Alignment explanation
Indices: 3813049--3813236 Score: 176
Period size: 20 Copynumber: 9.7 Consensus size: 20
3813039 CTTTAAATAT
3813049 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3813069 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
3813091 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
3813110 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
3813130 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
3813150 -GCGTTGCGATTT--GGATA
1 CGCGTTGCGATTTACGGATA
*
3813167 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
3813187 C-CGTTGCGA-TTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
** *
3813205 CGCGTTGCGATTT-CATATT
1 CGCGTTGCGATTTACGGATA
3813224 CGCGTTGCGATTT
1 CGCGTTGCGATTT
3813237 TGGAAAATCG
Statistics
Matches: 138, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
17 3 0.02
18 17 0.12
19 45 0.33
20 57 0.41
21 14 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:3813126 original size:61 final size:58
Alignment explanation
Indices: 3813049--3813197 Score: 194
Period size: 61 Copynumber: 2.6 Consensus size: 58
3813039 CTTTAAATAT
*** *
3813049 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACCCA-TAGCGTTGCGATTT--GGATA
* *
3813110 CGCGTTGCGATATACGGATACGCATTGCGA-TTTACCCATAGCGTTGCGATTTGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACCCATAGCGTTGCGATTTGGATA
*
3813167 CACGTTGCGATTTACGGATAC-CGTTGCGATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATT
3813198 ATGTGTTCGC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
56 7 0.09
57 25 0.32
59 13 0.17
60 5 0.06
61 28 0.36
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (58 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACCCATAGCGTTGCGATTTGGATA
Found at i:3813175 original size:37 final size:38
Alignment explanation
Indices: 3813051--3813198 Score: 147
Period size: 37 Copynumber: 3.8 Consensus size: 38
3813041 TTAAATATCG
* * *
3813051 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA-T
1 CGTTGCGATTTACGGATA-GCGTTGCGA--TTACGGA-TACA
*
3813092 CGTTGCGATTTACGGATACGCGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATA-GCGTTGCGAT-TACGGATACA
* ** *
3813132 CATTGCGATTTACCCATAGCGTTGCGATT-TGGATACA
1 CGTTGCGATTTACGGATAGCGTTGCGATTACGGATACA
*
3813169 CGTTGCGATTTACGGATACCGTTGCGATTA
1 CGTTGCGATTTACGGATAGCGTTGCGATTA
3813199 TGTGTTCGCG
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
37 31 0.34
38 1 0.01
39 13 0.14
40 19 0.21
41 28 0.30
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (38 bp):
CGTTGCGATTTACGGATAGCGTTGCGATTACGGATACA
Found at i:3813230 original size:57 final size:59
Alignment explanation
Indices: 3813040--3813236 Score: 190
Period size: 57 Copynumber: 3.4 Consensus size: 59
3813030 ATAATGGCGC
* *
3813040 TTTAAATA-TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGA
1 TTTACATATTCGCGTTGCGATTTACGGATACGCGTTGCGA--TTATGTATTAGCGTTGCGA
** * * * ***
3813100 TTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACCCA-TAGCGTTGCGA
1 TTTACATATTCGCGTTGCGATTTACGGATACGCGTTGCGA-TTATGTATTAGCGTTGCGA
** * * *
3813159 TTTGGATA--CACGTTGCGATTTACGGATAC-CGTTGCGATTATGTGTTCGCGTTGCGA
1 TTTACATATTCGCGTTGCGATTTACGGATACGCGTTGCGATTATGTATTAGCGTTGCGA
3813215 TTT-CATATTCGCGTTGCGATTT
1 TTTACATATTCGCGTTGCGATTT
3813237 TGGAAAATCG
Statistics
Matches: 109, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
55 6 0.06
56 20 0.18
57 31 0.28
59 14 0.13
60 10 0.09
61 28 0.26
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (59 bp):
TTTACATATTCGCGTTGCGATTTACGGATACGCGTTGCGATTATGTATTAGCGTTGCGA
Found at i:3813253 original size:21 final size:21
Alignment explanation
Indices: 3813223--3813305 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
3813213 GATTTCATAT
*
3813223 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
3813244 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
3813265 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
3813286 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
3813306 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:3820184 original size:97 final size:95
Alignment explanation
Indices: 3820013--3820209 Score: 317
Period size: 97 Copynumber: 2.0 Consensus size: 95
3820003 TATCGACACT
3820013 TTATGCGTGCAACTCGTTTGTGCTTTTTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCA
1 TTATGCGTGCAACTCGTTTGTGCTTTTTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCA
3820078 TAATGTAATGTAT-CACAAATTAAAAAAAGTG
66 TAA-GTAATGTATACACAAATT-AAAAAAGTG
3820109 TTATGCGTGCAACTCGTTTGTGCTTTATTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTC
1 TTATGCGTGCAACTCGTTTGTGCTTT-TTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTC
3820174 GATACA-TAATGTATCGACACAAATTAAAAAAGTG
65 -ATA-AGTAATGTAT--ACACAAATTAAAAAAGTG
3820208 TT
1 TT
3820210 GATACTTCAT
Statistics
Matches: 95, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
96 26 0.27
97 46 0.48
98 3 0.03
99 12 0.13
100 8 0.08
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (95 bp):
TTATGCGTGCAACTCGTTTGTGCTTTTTTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCA
TAAGTAATGTATACACAAATTAAAAAAGTG
Found at i:3823012 original size:68 final size:69
Alignment explanation
Indices: 3822903--3823039 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 69
3822893 TGTATCGACA
3822903 CTTTTTTGTGCACTTTTTGACCATTTACATTCTGGACAAAACGTATCGACACAAATTC-AAGAGT
1 CTTTTTTGTGCACTTTTTGACCATTTACATTCTGGACAAAACGTATCGACACAAATTCAAAGAGT
3822967 GTCG
66 GTCG
3822971 CTTTTTTGTGCACTTTTTGACCATTTACATTCTGGACAAAACGTATCGACACAAATTCAAAGAGT
1 CTTTTTTGTGCACTTTTTGACCATTTACATTCTGGACAAAACGTATCGACACAAATTCAAAGAGT
3823036 GTCG
66 GTCG
3823040 ATACTTTATG
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 58 0.85
69 10 0.15
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (69 bp):
CTTTTTTGTGCACTTTTTGACCATTTACATTCTGGACAAAACGTATCGACACAAATTCAAAGAGT
GTCG
Found at i:3823357 original size:192 final size:192
Alignment explanation
Indices: 3822998--3823562 Score: 882
Period size: 192 Copynumber: 2.9 Consensus size: 192
3822988 TGACCATTTA
*
3822998 CATTCTGGACA-AAACGTATCGACACAAATTCAAAGAGTGTCGATACTTTATGTACATCTGTTTT
1 CATTCTGGACACAAA-GTATCGACACAAATTCAAA-AGTGTCGATACTTTATGTACACCTGTTTT
*
3823062 CTCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGAT
64 CTCATAAACCGGTGTATTT----C-GTTAGATTCATAATTTACCTATTACATTATAATTATGGGT
*
3823127 CTCGATGTTTTTGGGATCGATACTTGTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGG
124 CTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGG
3823192 AAAT
189 AAAT
*
3823196 CATTCTGGACACAAAGTATCGACACAAATTCAACATGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAA-AAGTGTCGATACTTTATGTACACCTGTTTTC
* * * *
3823261 TTATAAACTGGTGTATTT-GTTATATTTATAATTTACCTATTACATTATAATTATGGGTCTCGAT
65 TCATAAACCGGTGTATTTCGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGAT
* *
3823325 ATTTTTGGGATCGATACTTTTTATAAATGTATCGACAAATTTCCATGCACTTGGTAAGGAAAT
130 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAAT
*
3823388 CATTCTGGACACAAAGTATCGACACAAATTCAATAAGTGTCGATACTTTATGTACACATGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAA-AAGTGTCGATACTTTATGTACACCTGTTTTC
3823453 TCATAAACCGGTGTATTTAGATCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
65 TCATAAACCGGTGTA-TT---TC-GTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
3823518 TCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACAT
125 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
3823563 ATGTTTACCA
Statistics
Matches: 339, Mismatches: 20, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
192 178 0.53
193 2 0.01
196 1 0.00
198 154 0.45
199 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (192 bp):
CATTCTGGACACAAAGTATCGACACAAATTCAAAAGTGTCGATACTTTATGTACACCTGTTTTCT
CATAAACCGGTGTATTTCGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATG
TTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAAT
Found at i:3823919 original size:19 final size:19
Alignment explanation
Indices: 3823895--3823944 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3823885 TTACATTAAC
*
3823895 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
3823914 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
3823933 ATACAAAATTAA
1 ATACAAAATTAA
3823945 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:3825068 original size:16 final size:17
Alignment explanation
Indices: 3825035--3825069 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3825025 GAATCATTAG
*
3825035 GATTAATATCTTTTCAT
1 GATTAATATCTGTTCAT
3825052 GATTAATATC-GTTCAT
1 GATTAATATCTGTTCAT
3825068 GA
1 GA
3825070 AATATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (17 bp):
GATTAATATCTGTTCAT
Found at i:3828147 original size:182 final size:180
Alignment explanation
Indices: 3827931--3828579 Score: 748
Period size: 182 Copynumber: 3.6 Consensus size: 180
3827921 ATTAAAGTAC
* * * * * * *
3827931 CGACACTTTCAACATAACC-GCTAGCGCTTTACCGGTTTTTTCATTTCGATATCGGTTTTGTTAT
1 CGACACTTTCAATATATCCAG-TAGCTCTTTACCGGTTTTATCATTTCGAAACCGGTTTTGTCAT
* * * *
3827995 ATTTTTACCTATTATATTATTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGAGC
65 ATTTTTACCTGTTATATTACTATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGC
*
3828060 TATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
129 TATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAATTTAT
* * *
3828113 CGACACTTTCAATATATCCAGTAGTTTTTTACCGGTTTTATCATTTCGAAACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTATCATTTCGAAACCGGTTTTGTCATA
** * *
3828178 TTCGTACATGTTATATTACTATGGATCGATATATTTGTATAAAGTATCGACACTTTATAGGCGCT
66 TTTTTACCTGTTATATTACTATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGCGCT
* * * **
3828243 ATAACTTCTTATTTTTTAAATTCAAAAAGTGTTGATACTTATATTAACGTAT
130 ATAACTTCTTCTCTTTTAAATTC-AAAAGTGTCGATACTTATATTAATTTAT
* *** ** *
3828295 CGACACTTTTAATATATATGGTAGCTCTTTACCGGTTTTATCATTTCGTGACTGGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTATCATTTCGAAACCGGTTTTGTCATA
* * * ** *
3828360 CTTATACTTGTTATATTGTTATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGCT
66 TTTTTACCTGTTATATTACTATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGCT
* *
3828425 ATTACTTCTTCTCTTTTAAATTCCTAAAA-TGTCGATACTTAT-TTAAATCTAAT
130 ATAACTTCTTCTCTTTTAAATT-C-AAAAGTGTCGATACTTATATT-AAT-TTAT
* * ** * *
3828478 CGATACTTTCGATATATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GAAACCGGTTTTATCAT
1 CGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTATCAT-TTCGAAACCGGTTTTGTCAT
* *
3828542 ATTTTTACCTGTTATATTGCTATGGAGCGATACATTTT
65 ATTTTTACCTGTTATATTACTATGGATCGATACATTTT
3828580 TCATTTGTAT
Statistics
Matches: 390, Mismatches: 69, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
181 3 0.01
182 297 0.76
183 89 0.23
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (180 bp):
CGACACTTTCAATATATCCAGTAGCTCTTTACCGGTTTTATCATTTCGAAACCGGTTTTGTCATA
TTTTTACCTGTTATATTACTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTA
TAACTTCTTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAATTTAT
Found at i:3829911 original size:4 final size:4
Alignment explanation
Indices: 3829890--3829922 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
3829880 CCCCTCTCTT
*
3829890 TCCC T-CC TCCC TCAC TCCC TCCC TCCC TCCC TC
1 TCCC TCCC TCCC TCCC TCCC TCCC TCCC TCCC TC
3829923 TCTCTCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.03, C:0.70, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCC
Found at i:3830268 original size:28 final size:28
Alignment explanation
Indices: 3830228--3830281 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
3830218 TTACTCTAAG
*
3830228 TGTAAGAGAATGAGTGAAAGTAGACAAT
1 TGTAAGAGAATGAGTGAAAATAGACAAT
*
3830256 TGTAAGTGAATGAGTGAAAATAGACA
1 TGTAAGAGAATGAGTGAAAATAGACA
3830282 GTTAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.28, T:0.22
Consensus pattern (28 bp):
TGTAAGAGAATGAGTGAAAATAGACAAT
Found at i:3830540 original size:6 final size:6
Alignment explanation
Indices: 3830524--3830559 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
3830514 CTTAATTGCG
3830524 AAAATTT AAAATT AAAATT AAAATT AAAATTT AAAA
1 AAAA-TT AAAATT AAAATT AAAATT AAAA-TT AAAA
3830560 GTATTCGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:3830546 original size:12 final size:13
Alignment explanation
Indices: 3830524--3830559 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
3830514 CTTAATTGCG
3830524 AAAATTTAAAATT
1 AAAATTTAAAATT
3830537 AAAA-TTAAAATT
1 AAAATTTAAAATT
3830549 AAAATTTAAAA
1 AAAATTTAAAA
3830560 GTATTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:3836512 original size:24 final size:25
Alignment explanation
Indices: 3836485--3836535 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
3836475 TAAAAAAAGT
3836485 AAATATATATA-TA-ATATTTTCCAA
1 AAATATATATAGTATATATTTT-CAA
*
3836509 AAATCTATATAGTATATATTTTCAA
1 AAATATATATAGTATATATTTTCAA
3836534 AA
1 AA
3836536 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 7 0.29
26 7 0.29
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (25 bp):
AAATATATATAGTATATATTTTCAA
Found at i:3836626 original size:65 final size:63
Alignment explanation
Indices: 3836521--3836654 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 63
3836511 ATCTATATAG
* * *
3836521 TATATATTTTCAAAAGTATTTTAAAATTATATATATTATAAACTTTT-AAAATGTTTTCAAAAT
1 TATATATTTTCAAAAGTATTTTAAAACTATATATATTAT-AACTTTTCAAAATGATTTCAAAAC
*
3836584 TATATAGTTTTCAAAAATGT-TTTTAAAACTATATAT-TATATAAGTTTTCAAAATGATTTCAAA
1 TATATA-TTTTC-AAAA-GTATTTTAAAACTATATATAT-TATAACTTTTCAAAATGATTTCAAA
3836647 AC
62 AC
3836649 TATATA
1 TATATA
3836655 ATATATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
63 6 0.10
64 12 0.19
65 42 0.68
66 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (63 bp):
TATATATTTTCAAAAGTATTTTAAAACTATATATATTATAACTTTTCAAAATGATTTCAAAAC
Found at i:3836633 original size:37 final size:36
Alignment explanation
Indices: 3836582--3836845 Score: 213
Period size: 36 Copynumber: 7.2 Consensus size: 36
3836572 TGTTTTCAAA
3836582 ATTATAT-AGTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATAAGTTTTC-AAAATGTTTTTAAAACTATAT
* *
3836618 ATTATATAAGTTTTCAAAATGATTTCAAAACTATAT
1 ATTATATAAGTTTTCAAAATGTTTTTAAAACTATAT
* **
3836654 AATATATATATGTTTTCAAAATGTTTTTTTTAA--A-A-
1 -AT-TATATAAGTTTTCAAAATG-TTTTTAAAACTATAT
* * * *
3836689 ACTATAT-ATTTTTCAAAATGTTTTAAAAATTATAT
1 ATTATATAAGTTTTCAAAATGTTTTTAAAACTATAT
* *
3836724 AATATATATA-TTTTCAAAAATG-TTTTAAAAGTTATAT
1 ATTATATA-AGTTTTC-AAAATGTTTTTAAAA-CTATAT
* *
3836761 ATTATATTTA-TTTTCAAAATGTTTTGAATAAACTATAT
1 ATTATA-TAAGTTTTCAAAATGTTTT-TA-AAACTATAT
* *
3836799 AATATATAAATGTTTTCAAACATGTTTTCAAAACTATAT
1 ATTATAT-AA-GTTTTCAAA-ATGTTTTTAAAACTATAT
3836838 ATTATATA
1 ATTATATA
3836846 TATATTTTCA
Statistics
Matches: 185, Mismatches: 23, Indels: 38
0.75 0.09 0.15
Matches are distributed among these distances:
31 6 0.03
32 11 0.06
33 6 0.03
34 2 0.01
35 6 0.03
36 45 0.24
37 38 0.21
38 32 0.17
39 23 0.12
40 9 0.05
41 7 0.04
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
ATTATATAAGTTTTCAAAATGTTTTTAAAACTATAT
Found at i:3836723 original size:70 final size:72
Alignment explanation
Indices: 3836620--3836826 Score: 226
Period size: 70 Copynumber: 2.8 Consensus size: 72
3836610 AACTATATAT
* * **
3836620 TATATA-AGTTTTCAAAATGATTTCAAAACTATATAATATATATATGTTTTCAAAATGTTTT-TT
1 TATATATA-TTTTCAAAATGTTTTAAAAACTATATAATATATATATGTTTTCAAAATGTTTTAAG
3836683 TTAAAAAC
65 TTAAAAAC
*
3836691 TATATAT-TTTTCAAAATGTTTTAAAAATTATATAATATATATA--TTTTCAAAAATGTTTTAAA
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAATATATATATGTTTTC-AAAATGTTTT--A
* * *
3836753 AGTTATATAT
63 AGTTAAAAAC
* *
3836763 TATATTTATTTTCAAAATGTTTTGAATAAACTATATAATATATAAATGTTTTCAAACATGTTTT
1 TATATATATTTTCAAAATGTTTT-AA-AAACTATATAATATATATATGTTTTCAAA-ATGTTTT
3836827 CAAAACTATA
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
68 5 0.04
69 10 0.09
70 33 0.29
71 6 0.05
72 11 0.10
73 15 0.13
74 2 0.02
75 17 0.15
76 3 0.03
77 12 0.11
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (72 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATATAATATATATATGTTTTCAAAATGTTTTAAGT
TAAAAAC
Found at i:3836762 original size:39 final size:39
Alignment explanation
Indices: 3836584--3836858 Score: 212
Period size: 37 Copynumber: 7.4 Consensus size: 39
3836574 TTTTCAAAAT
*
3836584 TATATAGTTTTCAAAAATGTTTTTAAAACTATATAT--TA
1 TATATA-TTTTCAAAAATGTTTTCAAAACTATATATAATA
*
3836622 TATA-AGTTTTC-AAAATGATTTCAAAACTATATA-ATATA
1 TATATA-TTTTCAAAAATGTTTTCAAAACTATATATA-ATA
* * * *
3836660 TATATGTTTTC-AAAATGTTTT-----TTTTA-AAAACTA
1 TATATATTTTCAAAAATGTTTTCAAAACTATATATAA-TA
*
3836693 TATAT-TTTTC-AAAATGTTTT-AAAAAT-TATATAATA
1 TATATATTTTCAAAAATGTTTTCAAAACTATATATAATA
* *
3836728 TATATATTTTCAAAAATGTTTT-AAAAGT-TATATATTA
1 TATATATTTTCAAAAATGTTTTCAAAACTATATATAATA
* *
3836765 TATTTATTTTC-AAAATGTTTTGAATAAACTATATA-ATATA
1 TATATATTTTCAAAAATGTTTT-CA-AAACTATATATA-ATA
* * * *
3836805 TAAATGTTTTCAAACATGTTTTCAAAACTATATATTATA
1 TATATATTTTCAAAAATGTTTTCAAAACTATATATAATA
3836844 TATATATTTTCAAAA
1 TATATATTTTCAAAA
3836859 CCCATTTGCA
Statistics
Matches: 195, Mismatches: 22, Indels: 39
0.76 0.09 0.15
Matches are distributed among these distances:
32 17 0.09
33 11 0.06
35 9 0.05
36 39 0.20
37 40 0.21
38 25 0.13
39 30 0.15
40 15 0.08
41 9 0.05
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (39 bp):
TATATATTTTCAAAAATGTTTTCAAAACTATATATAATA
Found at i:3837144 original size:56 final size:56
Alignment explanation
Indices: 3837052--3837208 Score: 197
Period size: 56 Copynumber: 2.8 Consensus size: 56
3837042 GGCGAGGCCC
* * * * * * *
3837052 TTTTTATGCTTTTTAATGGTAACAACTAATACATATACTCTATTTTGAGACCTCTA
1 TTTTTATGCTTATTAATGATAACAACTGATAGATATACTCGATTTCGAGACCCCTA
* * * *
3837108 TTTTTATGCTTCTTAATGATAATAACTGATAGATATACTCGATTTCGGGGCCCCTA
1 TTTTTATGCTTATTAATGATAACAACTGATAGATATACTCGATTTCGAGACCCCTA
* *
3837164 TTTTTATGTTTATTAATGACAACAACTGATAGATATACTCGATTT
1 TTTTTATGCTTATTAATGATAACAACTGATAGATATACTCGATTT
3837209 AGGGGCTCTT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (56 bp):
TTTTTATGCTTATTAATGATAACAACTGATAGATATACTCGATTTCGAGACCCCTA
Found at i:3837367 original size:2 final size:2
Alignment explanation
Indices: 3837354--3837406 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
3837344 AATCCTACCT
*
3837354 TA TA TG TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3837395 TA TA TA TA TA TA
1 TA TA TA TA TA TA
3837407 AAGTGATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3839625 original size:15 final size:16
Alignment explanation
Indices: 3839591--3839645 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
3839581 GAAATCGTCG
* *
3839591 ACCCGGAAGTTCCGGGT
1 ACCCGGAA-ATCCAGGT
3839608 ACCCGGAAAT-CAGGT
1 ACCCGGAAATCCAGGT
* *
3839623 ACCCGAAAATCCGGGT
1 ACCCGGAAATCCAGGT
3839639 ACCCGGA
1 ACCCGGA
3839646 TTTGCACACC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.41
16 11 0.34
17 8 0.25
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.13
Consensus pattern (16 bp):
ACCCGGAAATCCAGGT
Found at i:3839641 original size:16 final size:16
Alignment explanation
Indices: 3839601--3839643 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
3839591 ACCCGGAAGT
*
3839601 TCCGGGTACCCGGAAA
1 TCCGGGTACCCGAAAA
*
3839617 T-CAGGTACCCGAAAA
1 TCCGGGTACCCGAAAA
3839632 TCCGGGTACCCG
1 TCCGGGTACCCG
3839644 GATTTGCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.14
Consensus pattern (16 bp):
TCCGGGTACCCGAAAA
Found at i:3839888 original size:60 final size:60
Alignment explanation
Indices: 3839761--3839890 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
3839751 TGGTTTGAGG
* ** * *
3839761 ATCAATTTAGAATGAGAGTCATAATTTAGAGATAAAATTAGGACATTCAAAAGTTTAAGA
1 ATCAATTTAGAATAAGAGTCATAATTTAGAGATAAAATTAAAACATTCAAAAATTTAAAA
* * * *
3839821 A-CTAATTTAGAATAAGATTCATAATTTA-AGGATGAAATTAAAATATTTAAAAATTTAAAA
1 ATC-AATTTAGAATAAGAGTCATAATTTAGA-GATAAAATTAAAACATTCAAAAATTTAAAA
3839881 ATCAATTTAG
1 ATCAATTTAG
3839891 TGTTTTAACT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
59 2 0.03
60 55 0.95
61 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.33
Consensus pattern (60 bp):
ATCAATTTAGAATAAGAGTCATAATTTAGAGATAAAATTAAAACATTCAAAAATTTAAAA
Found at i:3844786 original size:43 final size:43
Alignment explanation
Indices: 3844725--3844813 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
3844715 GCCAAAGCAG
3844725 TGTTCCTCGTTGGCCTGTGATGGTAAAGTTATAGACATAGCTT
1 TGTTCCTCGTTGGCCTGTGATGGTAAAGTTATAGACATAGCTT
3844768 TGTTCCTCGTTGGCCTGTGATGGTAAAGTTATAGACATAGCTT
1 TGTTCCTCGTTGGCCTGTGATGGTAAAGTTATAGACATAGCTT
3844811 TGT
1 TGT
3844814 CCTGTCGGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (43 bp):
TGTTCCTCGTTGGCCTGTGATGGTAAAGTTATAGACATAGCTT
Found at i:3846951 original size:17 final size:17
Alignment explanation
Indices: 3846931--3847024 Score: 179
Period size: 17 Copynumber: 5.5 Consensus size: 17
3846921 CGGTGTCGTT
*
3846931 TTAACGCCGTTAAATAG
1 TTAACGACGTTAAATAG
3846948 TTAACGACGTTAAATAG
1 TTAACGACGTTAAATAG
3846965 TTAACGACGTTAAATAG
1 TTAACGACGTTAAATAG
3846982 TTAACGACGTTAAATAG
1 TTAACGACGTTAAATAG
3846999 TTAACGACGTTAAATAG
1 TTAACGACGTTAAATAG
3847016 TTAACGACG
1 TTAACGACG
3847025 GAGTGACAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
17 76 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (17 bp):
TTAACGACGTTAAATAG
Found at i:3855740 original size:2 final size:2
Alignment explanation
Indices: 3855733--3855767 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3855723 ATCTTTGAGC
3855733 TA TA TA TA 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 TA TA TA TA T
3855768 TTAATCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3856816 original size:16 final size:16
Alignment explanation
Indices: 3856795--3856828 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3856785 CTCAAGAATT
*
3856795 GGGGTATGTTCTTGAG
1 GGGGTATATTCTTGAG
3856811 GGGGTATATTCTTGAG
1 GGGGTATATTCTTGAG
3856827 GG
1 GG
3856829 AGTTGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.44, T:0.35
Consensus pattern (16 bp):
GGGGTATATTCTTGAG
Found at i:3857355 original size:16 final size:14
Alignment explanation
Indices: 3857334--3857372 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
3857324 TTTTGTTGTC
3857334 TTTTTTATAATAATT
1 TTTTTTATAAT-ATT
*
3857349 ATTTTTTTTAATATT
1 -TTTTTTATAATATT
3857364 TTTTTTATA
1 TTTTTTATA
3857373 TTTTTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 3 0.14
16 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTATAATATT
Found at i:3857365 original size:12 final size:11
Alignment explanation
Indices: 3857348--3857378 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
3857338 TTATAATAAT
3857348 TATTTTTTTTAA
1 TATTTTTTTT-A
3857360 TATTTTTTTTA
1 TATTTTTTTTA
3857371 TATTTTTT
1 TATTTTTT
3857379 AGGTAGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTTTTTA
Found at i:3859038 original size:36 final size:36
Alignment explanation
Indices: 3858991--3859150 Score: 284
Period size: 36 Copynumber: 4.4 Consensus size: 36
3858981 AGAGGGCTAA
3858991 ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
1 ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
*
3859027 ATATAAAGACTAAATCAAAGTAGTAATTGAATTAAG
1 ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
* *
3859063 ATATAAAGACTAAATCAAAGTAGTAATTTAACTGAG
1 ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
*
3859099 ATATAAAGACTAAAACAAAGTAGTAATTTAATTAAG
1 ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
3859135 ATATAAAGACTAAATC
1 ATATAAAGACTAAATC
3859151 CCTAATTCAA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 116 1.00
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (36 bp):
ATATAAAGACTAAATCAAAGTAGTAATTTAATTAAG
Found at i:3869542 original size:31 final size:31
Alignment explanation
Indices: 3869504--3869725 Score: 381
Period size: 31 Copynumber: 7.2 Consensus size: 31
3869494 GGTCACAATA
3869504 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
3869535 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
3869566 TAAGCTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
3869597 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
3869628 TAAACTGTTCATATGTGTCTTTAAATATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
3869659 TAAATTGTTCATATGTGCCTCTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
3869690 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
3869721 TAAAC
1 TAAAC
3869726 CCTCGACTCT
Statistics
Matches: 177, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 177 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:3872350 original size:23 final size:23
Alignment explanation
Indices: 3872324--3872371 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3872314 ATAAAGTACA
*
3872324 ATAACATACTAGGTAGCCCTTAT
1 ATAACATAATAGGTAGCCCTTAT
** *
3872347 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCCCTTAT
3872370 AT
1 AT
3872372 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCCCTTAT
Found at i:3872827 original size:23 final size:23
Alignment explanation
Indices: 3872798--3872860 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3872788 ATATAACCAC
3872798 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
3872821 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
3872844 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3872861 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3873238 original size:430 final size:430
Alignment explanation
Indices: 3872438--3873923 Score: 2778
Period size: 430 Copynumber: 3.5 Consensus size: 430
3872428 TATTACATTA
* *
3872438 TATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAATTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
3872503 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
3872568 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
3872633 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
3872698 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
3872763 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATATCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
3872828 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
3872868 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
3872933 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
3872998 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
3873063 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
3873128 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCATAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
3873193 TTATAAAAATGATAGACACTTTACAATATAACCACTACATATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
3873258 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
3873298 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
3873363 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
3873428 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
3873493 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
3873558 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
3873623 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
* *
3873688 TACATTATATAAGCGATACCTATTACATCATATGTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
3873728 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AAAGTTATGTAA
* *
3873793 TTTATGTTTCAA-TTTTTTTAACAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTT
65 TTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
* * * * *
3873857 CATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTATAA-TTTAAATT
130 CATTTGCACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
3873921 TAA
194 TAA
3873924 CAACATTAAC
Statistics
Matches: 1032, Mismatches: 22, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
430 981 0.95
431 51 0.05
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:3873258 original size:23 final size:23
Alignment explanation
Indices: 3873232--3873290 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
3873222 AACCACTACA
3873232 TATTACATTATATAAACGATACC
1 TATTACATTATATAAACGATACC
* *
3873255 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACC
*
3873278 TATTACATCATAT
1 TATTACATTATAT
3873291 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACC
Found at i:3873673 original size:21 final size:22
Alignment explanation
Indices: 3873648--3873720 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
3873638 ACACTTTACA
*
3873648 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
3873671 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
* *
3873694 ATATAAGCGATACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
3873717 ATAT
1 ATAT
3873721 GTTTACCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:3873684 original size:23 final size:23
Alignment explanation
Indices: 3873658--3873720 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
3873648 ATATAACCAC
3873658 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
3873681 TACCTATTACATTATATAAGCGA
1 TACCTATTACATTATATAAACGA
*
3873704 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3873721 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3874180 original size:34 final size:34
Alignment explanation
Indices: 3874140--3874205 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
3874130 AAGTTGTAGA
3874140 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
3874174 TTTTGATTTCCTTTTGCTTGGCATCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCATCATATGAG
3874206 CTTTGGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
Found at i:3874501 original size:18 final size:18
Alignment explanation
Indices: 3874478--3874514 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3874468 CGAAATATAT
3874478 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
3874496 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
3874514 A
1 A
3874515 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:3874973 original size:23 final size:24
Alignment explanation
Indices: 3874947--3875009 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 24
3874937 ATATAACTAC
3874947 TACCTATTACATTATATAAACG-A
1 TACCTATTACATTATATAAACGCA
*
3874970 TACCTATTACATTATATAAGCGCA
1 TACCTATTACATTATATAAACGCA
*
3874994 -ACCTATTACATCATAT
1 TACCTATTACATTATAT
3875010 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (24 bp):
TACCTATTACATTATATAAACGCA
Found at i:3878207 original size:183 final size:183
Alignment explanation
Indices: 3877889--3878561 Score: 1197
Period size: 183 Copynumber: 3.7 Consensus size: 183
3877879 TTAAAATTAC
*
3877889 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * * * *
3877953 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACTGGA
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
*
3878018 TATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
3878072 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
3878136 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
3878201 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
3878255 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
3878320 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
3878385 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
3878438 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCTAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
3878503 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
3878562 ATATGTTGAA
Statistics
Matches: 475, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
183 472 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:3880035 original size:3 final size:3
Alignment explanation
Indices: 3880027--3880107 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
3880017 ACTTGTTTGG
* * * **
3880027 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
3880075 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3880108 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:3880044 original size:12 final size:12
Alignment explanation
Indices: 3880031--3880119 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
3880021 GTTTGGATCA
* *
3880031 TCATCTTCATCA
1 TCATCGTCATCT
* *
3880043 TCATCATCATCA
1 TCATCGTCATCT
* *
3880055 TCGTCATCATCT
1 TCATCGTCATCT
* *
3880067 TCATCGCCAGCT
1 TCATCGTCATCT
*
3880079 TCATCGTCATCA
1 TCATCGTCATCT
3880091 TCATCGTCATCT
1 TCATCGTCATCT
*
3880103 TCATCGTCAGCT
1 TCATCGTCATCT
3880115 TCATC
1 TCATC
3880120 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:3880050 original size:18 final size:18
Alignment explanation
Indices: 3880031--3880122 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
3880021 GTTTGGATCA
* *
3880031 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
3880049 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
3880067 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
3880085 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
3880103 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
3880121 TC
1 TC
3880123 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:3880083 original size:36 final size:36
Alignment explanation
Indices: 3880043--3880119 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
3880033 ATCTTCATCA
*
3880043 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
3880079 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
3880115 TCATC
1 TCATC
3880120 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:3880122 original size:6 final size:6
Alignment explanation
Indices: 3880031--3880122 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
3880021 GTTTGGATCA
* * * * * * * *
3880031 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
3880079 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
3880123 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:3882279 original size:199 final size:198
Alignment explanation
Indices: 3881584--3882949 Score: 2538
Period size: 199 Copynumber: 6.9 Consensus size: 198
3881574 TTTAAATTAG
3881584 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
3881649 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3881714 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3881778 AAA
196 AAA
3881781 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3881846 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3881911 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3881975 AAA
196 AAA
*
3881978 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACAGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3882043 ATTGTACCGGTTAGATTGAAAAATCACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882108 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3882173 GAAA
196 -AAA
*
3882177 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACAGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
3882242 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882307 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3882372 AAA
196 AAA
*
3882375 TATCGACACAAACTATATTAGTGTCGATACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3882440 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAGTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882505 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
3882570 AAAA
195 AAAA
*
3882574 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3882639 ATTGTACCGATTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882704 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3882769 GAAA
196 -AAA
* * * *
3882773 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
* * *
3882838 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
3882903 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3882950 GGCCATATTG
Statistics
Matches: 1144, Mismatches: 20, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
197 384 0.34
198 198 0.17
199 501 0.44
200 61 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:3882577 original size:397 final size:397
Alignment explanation
Indices: 3881584--3882949 Score: 2540
Period size: 397 Copynumber: 3.4 Consensus size: 397
3881574 TTTAAATTAG
3881584 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
3881649 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3881714 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
3881777 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
*
3881842 TATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
3881907 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
3881972 -AAAAAA
391 AAAAAAA
*
3881978 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACAGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3882043 ATTGTACCGGTTAGATTGAAAAATCACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882108 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
* *
3882173 GAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACAGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
3882238 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
3882303 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
3882368 AAAAAAA
391 AAAAAAA
*
3882375 TATCGACACAAACTATATTAGTGTCGATACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
*
3882440 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAGTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
3882505 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
3882570 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
*
3882635 TATAATTGTACCGATTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
3882700 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
3882765 AAAAGAAA
391 AAAA-AAA
* * * *
3882773 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
* * *
3882838 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
3882903 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3882950 GGCCATATTG
Statistics
Matches: 944, Mismatches: 23, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
394 189 0.20
396 194 0.21
397 392 0.42
398 108 0.11
399 61 0.06
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAAAAA
Found at i:3883114 original size:19 final size:19
Alignment explanation
Indices: 3883068--3883116 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3883058 TTATATTCAC
*
3883068 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
3883087 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3883106 ATACAAAATTA
1 ATACAAAATTA
3883117 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3885032 original size:21 final size:21
Alignment explanation
Indices: 3885007--3885071 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
3884997 CCCCTTATGC
* *
3885007 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
3885028 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
3885049 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
3885070 CT
1 CT
3885072 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:3887323 original size:17 final size:18
Alignment explanation
Indices: 3887301--3887343 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
3887291 ATATATCCGG
3887301 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
3887318 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
3887338 TATCAT
1 TATCAT
3887344 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:3887361 original size:20 final size:19
Alignment explanation
Indices: 3887306--3887352 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3887296 TCCGGTATCA
3887306 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
3887325 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
3887346 TTTTACC
1 TTTTACC
3887353 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Done.