Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007872.1 Hibiscus syriacus cultivar Beakdansim tig00110247_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: 853105
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:205018 original size:60 final size:60
Alignment explanation
Indices: 204911--205095 Score: 178
Period size: 60 Copynumber: 3.1 Consensus size: 60
204901 TTTGGATGAA
* * * * *
204911 TTGGGGATGAGATTGGAA-GTTCTAAAAGTTTAGGGACTGATTTAGAATGAGATTCATAGT
1 TTGGGGATGAAATTTGAATGTTC-AAAAGTTTAGGGACTAATTCAGAATGAGAATCATAGT
* * * * * *
204971 TTGGGGATGAAATTTGAATGCTCAAAATTTTAAGGACTAATTCAGAATGGGAGTCATAAT
1 TTGGGGATGAAATTTGAATGTTCAAAAGTTTAGGGACTAATTCAGAATGAGAATCATAGT
* * * * *
205031 TCGAGGATGAAA-TTGAATTGTTTAAAAGTTTAGGGACCAAATTGA-AATGAGAATCATAGT
1 TTGGGGATGAAATTTGAA-TGTTCAAAAGTTTAGGGA-CTAATTCAGAATGAGAATCATAGT
205091 TTGGG
1 TTGGG
205096 AACCTATGCA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
59 5 0.05
60 85 0.86
61 9 0.09
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (60 bp):
TTGGGGATGAAATTTGAATGTTCAAAAGTTTAGGGACTAATTCAGAATGAGAATCATAGT
Found at i:206741 original size:4 final size:4
Alignment explanation
Indices: 206734--208707 Score: 2220
Period size: 4 Copynumber: 498.5 Consensus size: 4
206724 TGTATGTATG
* * * *
206734 TACA TACA TACA TACA TACA TGCA TACA TGCA TACA TGCA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
206782 TACA TGC- TACA TGCA TACA TGCA TGCA TACA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
206829 TACA TACA TGCA T-CA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
206876 TACA TACA TACA TACA TACA TACA TACC TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
206924 TACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
206971 TACA TACA TACA TACAA TACA TAC- -ACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA
207018 TACA TACA TACA TACA -ACA TAC- TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207064 TACA TA-A TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207110 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207158 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207206 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * * *
207254 TACA TACA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TCCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
207302 TACA TACAA TACA TACA TACA TGCA TGCA TGCA TACA TGCA TACA TGCACA
1 TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA T--ACA
* * * * *
207353 TGCA TACA TGCA TACA TACA TGCA TACA TGCA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
207401 TGCA TACA TGCA TACA TGCA TACA TACA TGCA TACA TGCA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
207449 TACA TGCA TACA TGCA TACA TGCA TACA TACA TGCA TACA TACA TAAA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
207497 TACA TACA TAAA TACA TACA TACA TACA TACA TACA TAAA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207545 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207593 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207641 TAC- -ACA TACA TACA TACA TTAC- TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA TACA
207687 TACA TACA TAC- TACA TACA TACA TAC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
207733 TACA TAC- TACA TACA TACA T-CA TAC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
207778 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * ** * * * * * ** *
207826 CACA TACA TACA CCACA CCCCA CACA CACA CACA CACA CACA CCCA CACA
1 TACA TACA TACA -TACA -TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * * *
207876 -CCA CACA CACA CACA TACA CACA CACA CA-A CACA -ACA CACA CA-A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * * * *
207920 CACA CACA CACA CACA CACA CCACA CACA CACA CACA CACA TACA CACA
1 TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * *
207969 CACA CACA -ACA CACA CACA CACA CACA -ACA CACA TACA CACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
208015 CACA CACA CACA CACA CACA CA-A CACA TACA TACA TACA TA-A TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
208060 TACA TACTA TATA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
208109 TACA TACA TACA TACA TACA TACA TACA T--A TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
208155 TACA TACA TAC- TACA T-CA TAC- TACA TGCA TACA TACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
208200 TGCA TGCA TGCA TGCA TATA TACA T--A TACA TACA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
208246 TGCA TGCA TACA TACA TACA TACA TA-A TGCA TGCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
208293 TGCA TACA TGCA TACA TACA TGCA TACA TGCCA TACA TACA TGCA TACA
1 TACA TACA TACA TACA TACA TACA TACA T-ACA TACA TACA TACA TACA
* * * * * *
208342 TGCA TACA TGCA TACA TGCA TACA TGCACA TGCA TACA TGCA TACA TGCA
1 TACA TACA TACA TACA TACA TACA T--ACA TACA TACA TACA TACA TACA
* * * * *
208392 TACA TACA TAC- TGCA TGCA TACA TGCA TACA TGCA TACA TGCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
208439 TGCA TACA TACA TACA TACA TACA TACA TAAA TATA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
208487 TTACA TAC- TCCA TACA TACA TACA TACA TACCA TACA TACA TGCA TACA
1 -TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA
* * * * *
208536 TGCA TACA TGCA TACA TACA TGCA TGCA TACA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
208584 TGCA TGCA TACA TACA TGCA TACA TGCA TACA TGCA TACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
208632 TGCA TACA TACA TACA TGCA TGCA TGCA TACA TTCA TGCA TGCA TAACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-ACA
*
208681 TACA TACCA TACA TGCA TACA TACA TA
1 TACA TA-CA TACA TACA TACA TACA TA
208708 TACATGCATG
Statistics
Matches: 1765, Mismatches: 154, Indels: 102
0.87 0.08 0.05
Matches are distributed among these distances:
2 8 0.00
3 79 0.04
4 1627 0.92
5 43 0.02
6 8 0.00
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.23
Consensus pattern (4 bp):
TACA
Found at i:207826 original size:2 final size:2
Alignment explanation
Indices: 207819--208041 Score: 313
Period size: 2 Copynumber: 116.5 Consensus size: 2
207809 ATACATACAT
* * *
207819 AC AC AC AC AC AT AC AT AC AC -C AC AC -C CC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
207859 AC AC AC AC AC CC AC AC AC -C AC AC AC AC AC AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
207900 AC AC A- AC AC A- AC AC AC AC A- AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
207939 AC -C AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC A- AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
207979 AC AC AC AC AC AC AC AC A- AC AC AC AT AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
208020 AC AC AC AC AC AC AC AC A- AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC A
208042 TACATACATA
Statistics
Matches: 198, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
1 10 0.05
2 188 0.95
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:208740 original size:10 final size:8
Alignment explanation
Indices: 208713--208738 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
208703 ACATATACAT
208713 GCATGCGC
1 GCATGCGC
208721 GCATGCGC
1 GCATGCGC
208729 GCATGCGC
1 GCATGCGC
208737 GC
1 GC
208739 GCGCGCGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.38, G:0.38, T:0.12
Consensus pattern (8 bp):
GCATGCGC
Found at i:208744 original size:16 final size:16
Alignment explanation
Indices: 208713--208747 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
208703 ACATATACAT
*
208713 GCATGCGCGCATGCGC
1 GCATGCGCGCACGCGC
*
208729 GCATGCGCGCGCGCGC
1 GCATGCGCGCACGCGC
208745 GCA
1 GCA
208748 CACACACACC
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:0.11, C:0.40, G:0.40, T:0.09
Consensus pattern (16 bp):
GCATGCGCGCACGCGC
Found at i:210284 original size:2 final size:2
Alignment explanation
Indices: 210277--210302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
210267 GAATCATCTC
210277 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
210303 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211365 original size:19 final size:21
Alignment explanation
Indices: 211341--211387 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
211331 CTTTATATAT
*
211341 TATTTTTATTTAA-AAA-TAA
1 TATTTTTATTGAATAAATTAA
211360 TATTTTTATTGAATAAATTAA
1 TATTTTTATTGAATAAATTAA
211381 TATTTTT
1 TATTTTT
211388 TATAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
21 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTTATTGAATAAATTAA
Found at i:215080 original size:2 final size:2
Alignment explanation
Indices: 215073--215102 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
215063 ATGATTTTCC
215073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
215103 TTCACATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217242 original size:15 final size:15
Alignment explanation
Indices: 217219--217255 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
217209 TGCATGGTAG
*
217219 AAACGTATCCACCCT
1 AAACCTATCCACCCT
217234 AAACCTATCCACCCT
1 AAACCTATCCACCCT
217249 AAACCTA
1 AAACCTA
217256 ACGTGGATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.41, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCTATCCACCCT
Found at i:222733 original size:2 final size:2
Alignment explanation
Indices: 222722--222752 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
222712 CAAATTAGTA
222722 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
222753 TTAAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:223700 original size:6 final size:6
Alignment explanation
Indices: 223689--223719 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
223679 TTATTTATCG
223689 GATTTT GATTTT GATTTT GATTTT GATTTT G
1 GATTTT GATTTT GATTTT GATTTT GATTTT G
223720 GGTTTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (6 bp):
GATTTT
Found at i:231135 original size:19 final size:19
Alignment explanation
Indices: 231111--231149 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
231101 ATATAAGTAA
*
231111 ACATGACACATACATGCAT
1 ACATGACACATACATACAT
231130 ACATGACACATACATACAT
1 ACATGACACATACATACAT
231149 A
1 A
231150 TACAGTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.21
Consensus pattern (19 bp):
ACATGACACATACATACAT
Found at i:234442 original size:202 final size:204
Alignment explanation
Indices: 234087--234586 Score: 826
Period size: 202 Copynumber: 2.5 Consensus size: 204
234077 TTCGTATTAT
* * * *
234087 GTCAATAAATGTCGCTTTGGCCGAGTGGTTTAGGCGTGTGTCTGCTAAGTACATGGGGTTTCCCC
1 GTCAACAATTGTCGCTTTGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACATGGGGTTTCCCC
* * * * *
234152 GCGATAGTTCGAATATCTTAGGCGACGTTAAGTGTACCGTTTTGCCTAATCAAAACTAAAAGGGA
66 GCGAGAGTTCGAATCTCTCAGGCGACGTGAACTGTACCGTTTTGCCTAATCAAAACTAAAAGGGA
234217 AAATTATGCTCCAAGTCCCTAACTCTTTGTACCTTTGATG-TTGCTCCTTATAA-TTTGG-TTTC
131 AAATTATGCTCCAAGTCCCTAACTCTTTGTA-CTTTGATGTTTGCTCCTTATAATTTTGGTTTTC
234279 TCCATATCAA
195 TCCATATCAA
234289 GTCAACAATTGTCGCTTTGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACATGGGGTTTCCCC
1 GTCAACAATTGTCGCTTTGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACATGGGGTTTCCCC
*
234354 GCGAGAGTTCGAATCTCTCAGGCGACGTGAACTTTACCGTTTTGCCTAATCAAAACTAAAAGGGA
66 GCGAGAGTTCGAATCTCTCAGGCGACGTGAACTGTACCGTTTTGCCTAATCAAAACTAAAAGGGA
* *
234419 AAATTATGCTCCAATTCCCTAACTCTTTGTACTTTGATGTTTGGTCCTTATAATTTTGGTTTTCT
131 AAATTATGCTCCAAGTCCCTAACTCTTTGTACTTTGATGTTTGCTCCTTATAATTTTGGTTTTCT
234484 CCATATCAA
196 CCATATCAA
** *
234493 GTCAACAATTGTCGCTCCGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACAAGGGGTTTCCCC
1 GTCAACAATTGTCGCTTTGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACATGGGGTTTCCCC
*
234558 GCGAGAGTTTGAATCTCTCAGGCGACGTG
66 GCGAGAGTTCGAATCTCTCAGGCGACGTG
234587 TTAGTTTTTG
Statistics
Matches: 279, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
201 8 0.03
202 162 0.58
203 5 0.02
204 104 0.37
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (204 bp):
GTCAACAATTGTCGCTTTGGCCGAGTGGTTAAGGCGTGTGCCTGCTAAGTACATGGGGTTTCCCC
GCGAGAGTTCGAATCTCTCAGGCGACGTGAACTGTACCGTTTTGCCTAATCAAAACTAAAAGGGA
AAATTATGCTCCAAGTCCCTAACTCTTTGTACTTTGATGTTTGCTCCTTATAATTTTGGTTTTCT
CCATATCAA
Found at i:238177 original size:21 final size:22
Alignment explanation
Indices: 238092--238179 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 22
238082 TTTAATAATT
* *
238092 ATGTCTTTATGGAACATCTCTTT-
1 ATGTCTTTATGAAACGT-T-TTTC
*
238115 ATGTCTTTATGACACGTTTTTC
1 ATGTCTTTATGAAACGTTTTTC
*
238137 TATTTCTTTATGAAACGTTTTTC
1 -ATGTCTTTATGAAACGTTTTTC
* *
238160 -TGTCTTTATGATATGTTTTT
1 ATGTCTTTATGAAACGTTTTT
238180 TTATGACACA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
21 20 0.36
22 1 0.02
23 34 0.62
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (22 bp):
ATGTCTTTATGAAACGTTTTTC
Found at i:245548 original size:21 final size:20
Alignment explanation
Indices: 245502--245549 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
245492 GATTTTGACC
*
245502 ATCGCATTACGATTTTCGAA
1 ATCGCATTACGATTTTAGAA
* *
245522 ATTCGCGTTGCGATTTTAGATA
1 A-TCGCATTACGATTTTAGA-A
245544 ATCGCA
1 ATCGCA
245550 ATGCGAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 19 0.86
22 2 0.09
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
ATCGCATTACGATTTTAGAA
Found at i:245610 original size:20 final size:20
Alignment explanation
Indices: 245585--245690 Score: 133
Period size: 20 Copynumber: 5.2 Consensus size: 20
245575 ATAACACGTG
245585 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
245605 ATCGCAACGCGATTCGGAAT
1 ATCGCAACGCGATTCTGACT
**
245625 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
245645 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* *
245666 ATCGCAACGAGATTCCGACT
1 ATCGCAACGCGATTCTGACT
245686 ATCGC
1 ATCGC
245691 GTTGCGATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.01
20 55 0.75
21 15 0.21
22 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:245702 original size:61 final size:61
Alignment explanation
Indices: 245564--245690 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
245554 GAATATGTAA
* * *
245564 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGAAT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
*
245625 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
245686 ATCGC
1 ATCGC
245691 GTTGCGATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (61 bp):
ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
Found at i:245711 original size:61 final size:61
Alignment explanation
Indices: 245564--245720 Score: 179
Period size: 61 Copynumber: 2.6 Consensus size: 61
245554 GAATATGTAA
* *** * *
245564 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGAAT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
*** *
245625 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
*** * *
245686 ATCGCGTTGCGATAATATAAAATCGCAATGCGATT
1 ATCGCAACGCGATAATACAAAATCGCAACGCGATT
245721 TTCAAAGCGC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACTATCGCAACGAGATTCCGAAT
Found at i:245779 original size:22 final size:22
Alignment explanation
Indices: 245744--245809 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
245734 TAGTATCGCC
* *
245744 CCATCTCTGACGAAATCCGTCT
1 CCATCTCCGGCGAAATCCGTCT
* *
245766 CCATTTCCGGCGAAATCCGTCC
1 CCATCTCCGGCGAAATCCGTCT
245788 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGGCGAAATCCGTCT
245810 ATCTCCATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (22 bp):
CCATCTCCGGCGAAATCCGTCT
Found at i:245818 original size:26 final size:24
Alignment explanation
Indices: 245744--245820 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 24
245734 TAGTATCGCC
* *
245744 CCATCTCTGACGAAATCCG--TCT
1 CCATCTCCGGCGAAATCCGTCTCT
*
245766 CCATTTCCGGCGAAATCCGTC-C-
1 CCATCTCCGGCGAAATCCGTCTCT
245788 CCATCTCCGGCGAAATCCGTCTATCT
1 CCATCTCCGGCGAAATCCGTC--TCT
245814 CCATCTC
1 CCATCTC
245821 TCAGAGCCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 36 0.80
23 1 0.02
25 1 0.02
26 7 0.16
ACGTcount: A:0.19, C:0.40, G:0.14, T:0.26
Consensus pattern (24 bp):
CCATCTCCGGCGAAATCCGTCTCT
Found at i:246220 original size:20 final size:20
Alignment explanation
Indices: 246197--246249 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
246187 AATAGTCAAA
* *
246197 TTCGTTTTGCGATAATCATT
1 TTCGTGTTGCGATAATAATT
* **
246217 TTCGTGTTACGATTTTAATT
1 TTCGTGTTGCGATAATAATT
246237 TTCGTGTTGCGAT
1 TTCGTGTTGCGAT
246250 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATAATAATT
Found at i:246250 original size:20 final size:20
Alignment explanation
Indices: 246214--246259 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
246204 TGCGATAATC
246214 ATTTTCGTGTTACGATTTTA
1 ATTTTCGTGTTACGATTTTA
*
246234 ATTTTCGTGTTGCGATTTTA
1 ATTTTCGTGTTACGATTTTA
*
246254 AGTTTC
1 ATTTTC
246260 AGAAACTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTACGATTTTA
Found at i:248290 original size:23 final size:23
Alignment explanation
Indices: 248264--248365 Score: 141
Period size: 23 Copynumber: 4.4 Consensus size: 23
248254 CAGCTCATAT
** * *
248264 AATTGCACCTAAGTGTCACGTAG
1 AATTGCACCGGAGTGCCGCGTAG
248287 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCGCGTAG
*
248310 AATTACACCGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCGCGTAG
*
248333 AATTGCACCGGAGTGCCGCGTAA
1 AATTGCACCGGAGTGCCGCGTAG
*
248356 AATTACACCG
1 AATTGCACCG
248366 TAATGCCATA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGGAGTGCCGCGTAG
Found at i:249060 original size:21 final size:21
Alignment explanation
Indices: 249036--249076 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
249026 TCATATTCGT
*
249036 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
249057 TTGAATGGGTATCGATTCCC
1 TTGAAGGGGTATCGATTCCC
249077 TTAGCCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:250386 original size:74 final size:74
Alignment explanation
Indices: 250261--250420 Score: 248
Period size: 74 Copynumber: 2.2 Consensus size: 74
250251 AGAAGAATAG
* *
250261 TCGCAACACGAAAATGATTATCGCAACGCAAATTTGACTATCGCAACGGGATAATCGCAATGCGA
1 TCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGGGATAATCGCAATGCGA
250326 AAACGACTA
66 AAACGACTA
* * * * *
250335 TCGCAACGCGGAAATGACTATCGTAACGCGAATTTGACTATCTCAATGGGATAATCGCAATGCGA
1 TCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGGGATAATCGCAATGCGA
*
250400 AAATGACTA
66 AAACGACTA
250409 TCGCAACGCGAA
1 TCGCAACGCGAA
250421 TTTAGTTTCG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (74 bp):
TCGCAACGCGAAAATGACTATCGCAACGCAAATTTGACTATCGCAACGGGATAATCGCAATGCGA
AAACGACTA
Found at i:250419 original size:20 final size:20
Alignment explanation
Indices: 250261--250420 Score: 94
Period size: 20 Copynumber: 8.6 Consensus size: 20
250251 AGAAGAATAG
* *
250261 TCGCAACACGAAAATGATTA
1 TCGCAACGCGAAAATGACTA
*
250281 TCGCAACGC-AAATTTGACTA
1 TCGCAACGCGAAA-ATGACTA
*
250301 TCGCAACG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
* *
250315 TCGCAATGCGAAAACGACTA
1 TCGCAACGCGAAAATGACTA
*
250335 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
250355 TCGTAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
* * *
250375 TCTCAATG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
*
250389 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
250409 TCGCAACGCGAA
1 TCGCAACGCGAA
250421 TTTAGTTTCG
Statistics
Matches: 103, Mismatches: 23, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
14 16 0.16
15 2 0.02
16 2 0.02
17 5 0.05
18 2 0.02
19 4 0.04
20 72 0.70
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:250443 original size:14 final size:14
Alignment explanation
Indices: 250426--250467 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
250416 GCGAATTTAG
*
250426 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
250440 TTTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
250454 TATCTCGTTGCGAT
1 TTTCTCGTTGCGAT
250468 AGTCAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:250518 original size:20 final size:20
Alignment explanation
Indices: 250495--250533 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
250485 AATAATCATT
250495 TTCGTGTTGCGATTTTAAGC
1 TTCGTGTTGCGATTTTAAGC
250515 TTCGTGTTGCGATTTTAAG
1 TTCGTGTTGCGATTTTAAG
250534 TTTCAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTAAGC
Found at i:251109 original size:21 final size:21
Alignment explanation
Indices: 251018--251122 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
251008 GACTCACCTG
*
251018 TCATCGTTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
251039 TTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
251060 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
251081 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
* *
251102 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
251123 CCAATATTCT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:251115 original size:42 final size:42
Alignment explanation
Indices: 251014--251125 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
251004 GCCCGACTCA
* * ** *
251014 CCTGTCATCGTTCAAGAGGCCTCTCTTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
* **
251056 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
*
251098 CCTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CCTGTCATCGTTCAAGA-GTCCCCTCCCA
251126 ATATTCTAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.24
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
Found at i:252581 original size:36 final size:30
Alignment explanation
Indices: 252501--252566 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
252491 ATAAGAGTTG
*
252501 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
252531 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
252561 ATTTGT
1 ATTTGT
252567 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:252741 original size:20 final size:20
Alignment explanation
Indices: 252716--253033 Score: 289
Period size: 20 Copynumber: 16.9 Consensus size: 20
252706 GCGATTTTCT
*
252716 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
252736 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
252756 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
252776 CGTTGCGATAGTC-ATTTTG
1 CGTTGCGATAGTCAAATTCG
252795 CGTTGCGATTA-TC---TT--
1 CGTTGCGA-TAGTCAAATTCG
252810 -GTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
252829 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
252849 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
252869 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
252883 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
** *
252903 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
* *
252923 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
252937 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
252957 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
252977 CGTTGCGATAGTTATATTCG
1 CGTTGCGATAGTCAAATTCG
*
252997 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
253017 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
253034 GAATGTGTAA
Statistics
Matches: 251, Mismatches: 27, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.01
14 28 0.11
16 2 0.01
17 4 0.02
18 2 0.01
19 16 0.06
20 197 0.78
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:252762 original size:54 final size:54
Alignment explanation
Indices: 252677--253030 Score: 277
Period size: 54 Copynumber: 6.4 Consensus size: 54
252667 TTTGCATCAT
* * * *
252677 ATTCGCGTTGCGATAGTC-TAATACACTTTGCGATTTTCTCGTTGCGATAGTCAA
1 ATTCGCGTTGCGATAGTCAT-ATTCGCGTTGCGATTTTCGCGTTGCGATAGTCAA
* * *
252731 ATTCCCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCGCGTTGCGATAGTC-A
1 ATTCGCGTTGCGATAGTCATATTCGCGTTGCGAT--T----TTCGCGTTGCGATAGTCAA
* * * * * ** *
252790 TTTTGCGTTGCGATTA-TCTTGTT-GCGATAGTC-AAATTCGCGTTGCGATAGTCAT
1 ATTCGCGTTGCGA-TAGTCATATTCGCG-TTG-CGATTTTCGCGTTGCGATAGTCAA
* * * * *
252844 TTTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAA
1 ATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTTTCGCGTTGCGATAGTCAA
* * * * * *
252898 ATTCGCGTTGCGATAGTCATTTTTGCATTGCGATTATCCCGTTGCGATATTCAA
1 ATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTTTCGCGTTGCGATAGTCAA
* *
252952 ATTCACGTTGCGATAGTCATATTCGCGTTGCGATAGTTATATTCGCGTTGCGATAGTCAT
1 ATTCGCGTTGCGATAGTCATATTCGCGTTGCG--A--T-T-TTCGCGTTGCGATAGTCAA
253012 ATTCGCGTTGCGATAGTCA
1 ATTCGCGTTGCGATAGTCA
253031 AATGAATGTG
Statistics
Matches: 241, Mismatches: 39, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
53 20 0.08
54 143 0.59
55 2 0.01
56 2 0.01
58 3 0.01
59 19 0.08
60 52 0.22
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (54 bp):
ATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTTTCGCGTTGCGATAGTCAA
Found at i:252837 original size:34 final size:35
Alignment explanation
Indices: 252736--252911 Score: 160
Period size: 34 Copynumber: 4.8 Consensus size: 35
252726 GTCAAATTCC
* *
252736 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTATC---TT
* *
252774 CGCGTTGCGATAGTC-ATTTTGCGTTGCGATTATCTT
1 --CGTTGCGATAGTCAAATTCGCGTTGCGATTATCTT
*
252810 -GTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T-ATCTT
** * *
252847 CGCGTTGCGATAGTCATTTTCGCATTGCGATTATC-C
1 --CGTTGCGATAGTCAAATTCGCGTTGCGATTATCTT
252883 CGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
252912 AGTCATTTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
33 12 0.11
34 39 0.34
36 3 0.03
37 6 0.05
38 1 0.01
39 15 0.13
40 38 0.33
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (35 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTATCTT
Found at i:252904 original size:74 final size:73
Alignment explanation
Indices: 252733--253025 Score: 338
Period size: 74 Copynumber: 4.0 Consensus size: 73
252723 ATAGTCAAAT
* * * *
252733 TCCCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTGCGT
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTGCAT
252798 TGCGATTA
66 TGCGATTA
** *
252806 TCTTGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTT-GCA
252871 TTGCGATTA
65 TTGCGATTA
* * * ***
252880 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTTGCATTGCGATTA-TCCCGTTGCG
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCGTTGCGA-TAGTCATTTTGC-
* * *
252944 ATATTCAAAT-
64 AT-TGCGATTA
* * * * *
252954 TCACGTTGCGATAGTCATATTCGCGTTGCGATAGTTATATTCGCGTTGCGATAGTCATATTCGCG
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCAT-TTTGCA
253019 TTGCGAT
65 TTGCGAT
253026 AGTCAAATGA
Statistics
Matches: 183, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
73 62 0.34
74 112 0.61
75 9 0.05
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (73 bp):
TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTGCAT
TGCGATTA
Found at i:255296 original size:14 final size:14
Alignment explanation
Indices: 255277--255303 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
255267 TCCTGTGGCA
255277 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
255291 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
255304 TTTATTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:256405 original size:20 final size:20
Alignment explanation
Indices: 256377--256463 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
256367 AATTCAGTGA
*
256377 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
256397 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
**
256417 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
* * *
256438 TACGATAGTCTGAATTGCGT
1 TGCGATAGTCAGAATCGCGT
256458 TGCGAT
1 TGCGAT
256464 CACGTGTTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
19 2 0.04
20 36 0.68
21 13 0.25
22 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:256435 original size:41 final size:41
Alignment explanation
Indices: 256390--256481 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
256380 GTTAGTCAGA
256390 ATCGCGTTGCGATAGTCAGAATCT-CGTTGCGATCACGTATT
1 ATCGCGTTGCGATAGTCAGAAT-TGCGTTGCGATCACGTATT
* * *
256431 ATCGCGTTACGATAGTCTGAATTGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATAGTCAGAATTGCGTTGCGATCACGTATT
256472 ATCGCGTTGC
1 ATCGCGTTGC
256482 AATTTACATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATTGCGTTGCGATCACGTATT
Found at i:256443 original size:21 final size:21
Alignment explanation
Indices: 256414--256481 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
256404 GTCAGAATCT
256414 CGTTGCGATCACGTATTATCG
1 CGTTGCGATCACGTATTATCG
* * * *
256435 CGTTACGAT-A-GTCTGAATTG
1 CGTTGCGATCACGTAT-TATCG
*
256455 CGTTGCGATCACGTGTTATCG
1 CGTTGCGATCACGTATTATCG
256476 CGTTGC
1 CGTTGC
256482 AATTTACATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 18 0.50
22 3 0.08
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (21 bp):
CGTTGCGATCACGTATTATCG
Found at i:256552 original size:21 final size:21
Alignment explanation
Indices: 256510--256554 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
256500 ACGATTATCT
* *
256510 AAAATCGCAATGCGGATTTCA
1 AAAATCGCAATGCGAATGTCA
256531 AAAATCGCAATGC-AATGGTCA
1 AAAATCGCAATGCGAAT-GTCA
256552 AAA
1 AAA
256555 TCGTGTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAATCGCAATGCGAATGTCA
Found at i:256615 original size:19 final size:19
Alignment explanation
Indices: 256591--256627 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
256581 TGCGATAATG
* *
256591 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
256610 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
256628 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:259067 original size:28 final size:28
Alignment explanation
Indices: 258995--259087 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
258985 ACATAACTTA
* *
258995 AAACCACAACCCACAACCCCTAAACCTT
1 AAACCATAACCCACAAACCCTAAACCTT
* ** *
259023 AAAACCCTAACTTACAAACCCTAAACCCT
1 -AAACCATAACCCACAAACCCTAAACCTT
259052 AAACCATAACCCAC-AACCTCTAAACCTT
1 AAACCATAACCCACAAACC-CTAAACCTT
259080 AAACCATA
1 AAACCATA
259088 TCTTAGAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 4 0.08
28 27 0.51
29 22 0.42
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (28 bp):
AAACCATAACCCACAAACCCTAAACCTT
Found at i:260253 original size:18 final size:20
Alignment explanation
Indices: 260227--260267 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
260217 ATATTTTTTG
*
260227 TATAAAA-TT-AATGAATTT
1 TATAAAATTTAAATGAATAT
*
260245 TATATAATTTAAATGAATAT
1 TATAAAATTTAAATGAATAT
260265 TAT
1 TAT
260268 CCATGGCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TATAAAATTTAAATGAATAT
Found at i:262154 original size:29 final size:29
Alignment explanation
Indices: 262119--262226 Score: 144
Period size: 29 Copynumber: 3.7 Consensus size: 29
262109 CCCAACCCAT
* ****
262119 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCGGCGACCAAGG
*
262148 AGGTCGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAAGG
*
262177 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAAGG
*
262206 AGGTCGCCATGCACGCCCGGC
1 AGGTCGCCATGCACTCCCGGC
262227 AACCTTGTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.19, C:0.40, G:0.31, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCGGCGACCAAGG
Found at i:263546 original size:79 final size:80
Alignment explanation
Indices: 263404--263570 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 80
263394 CAAACGTCAC
* *
263404 TAAAATACGAGTATTTACCGATGTTTTTAAAAAATACCACAAAAGTACAATATTTAGCGGCGTTT
1 TAAAATACGAGTATTTACCGACGTTTTTAAAAAATACCACAAAAGTACAATATTTAGCAGCGTTT
*
263469 AGATAAAACA-CCAA
66 AGATAAAAAAGCCAA
* * *
263483 TAAAATA-TAGTATTTACCGGCG-TTTTAAAAAATAAGTCACGAAAA-TACAATATTTAGCAGCG
1 TAAAATACGAGTATTTACCGACGTTTTTAAAAAAT-A-CCAC-AAAAGTACAATATTTAGCAGCG
*
263545 TTTAGATAAAAAAGCCAC
63 TTTAGATAAAAAAGCCAA
263563 TAAAATAC
1 TAAAATAC
263571 TAAGCATTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
77 11 0.14
78 13 0.17
79 38 0.50
80 14 0.18
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (80 bp):
TAAAATACGAGTATTTACCGACGTTTTTAAAAAATACCACAAAAGTACAATATTTAGCAGCGTTT
AGATAAAAAAGCCAA
Found at i:263568 original size:40 final size:40
Alignment explanation
Indices: 263431--263570 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
263421 CCGATGTTTT
*
263431 TAAAAAATACCAC-AAAAGTACAATATTTAGCGGCGTTTAGA
1 TAAAAAA-GCCACTAAAA-TACAATATTTAGCGGCGTTTAGA
* * * * *
263472 TAAAACA-CCAATAAAATATAGTATTTACCGGCGTTTTA-A
1 TAAAAAAGCCACTAAAATACAATATTTAGCGGCG-TTTAGA
* * *
263511 -AAAATAAGTCACGAAAATACAATATTTAGCAGCGTTTAGA
1 TAAAA-AAGCCACTAAAATACAATATTTAGCGGCGTTTAGA
263551 TAAAAAAGCCACTAAAATAC
1 TAAAAAAGCCACTAAAATAC
263571 TAAGCATTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
38 4 0.05
39 23 0.29
40 41 0.53
41 10 0.13
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (40 bp):
TAAAAAAGCCACTAAAATACAATATTTAGCGGCGTTTAGA
Found at i:266227 original size:27 final size:27
Alignment explanation
Indices: 266195--266250 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
266185 TTATTATTTC
*
266195 TACCGGTTTTGTTATTATTGGGCGCTT
1 TACCGGTTTTGTTATTATTGGGCACTT
*
266222 TACCGGTTTTGTTATTGTTGGGCACTT
1 TACCGGTTTTGTTATTATTGGGCACTT
266249 TA
1 TA
266251 TCGAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.12, C:0.14, G:0.25, T:0.48
Consensus pattern (27 bp):
TACCGGTTTTGTTATTATTGGGCACTT
Found at i:267583 original size:3 final size:3
Alignment explanation
Indices: 267577--267615 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
267567 AAATAATAAA
267577 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
267616 TGTTTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:268404 original size:2 final size:2
Alignment explanation
Indices: 268397--268422 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
268387 TAAAAATGAC
268397 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
268423 TAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:269210 original size:31 final size:31
Alignment explanation
Indices: 269175--269234 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
269165 AATGATCATT
269175 AGACTATTCATTTTGTTCCAAACTCGTCACC
1 AGACTATTCATTTTGTTCCAAACTCGTCACC
269206 AGACTATTCATTTTGTTCCAAACTCGTCA
1 AGACTATTCATTTTGTTCCAAACTCGTCA
269235 TTTTCAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (31 bp):
AGACTATTCATTTTGTTCCAAACTCGTCACC
Found at i:269832 original size:14 final size:15
Alignment explanation
Indices: 269801--269838 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
269791 TGTTATTATT
*
269801 TTTAAAAAAATATCA
1 TTTAAAAATATATCA
269816 TTTAAAAATATAT-A
1 TTTAAAAATATATCA
*
269830 TTTTAAAAT
1 TTTAAAAAT
269839 CTAAACGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAAAAATATATCA
Found at i:283092 original size:284 final size:282
Alignment explanation
Indices: 282537--283713 Score: 1332
Period size: 282 Copynumber: 4.2 Consensus size: 282
282527 AAACTAACCA
* * * *
282537 CAACGACGAAAAATTACTTAATGACTAAAACATAAACT-A-ATATCACTATACTAGAAAAATGTG
1 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATATCATTATACTAG-CAAATGTG
* * * * * * * * * *
282600 GAAGACGGAAATTGGAAAAATCGCTACGAGTTTTCCCGATTATATGGCTATCATATATGTTTACA
65 GAAGATGAAAATCGGTAAAATCACTACAAGTTCTCCCGATTATATGACCATCATACATGTTTACA
* * *
282665 CTAATTATATAAGACCCCTCCATCACCATTC-GAGCCTATGACAATTAACAATGTTAAACTACAA
130 CTAATTATATAAGACCCCTCCATCACCATTCACAACCTATGACAACTAACAATGTTAAACTACAA
* * *
282729 GCTTGAAAACTCAATCACTGTCTTTACCAATAATTCAATTTCATCGCCAAATTTACACACACTTA
195 GTTTGAAAACTCAATCACTGTCTTGACCAATCATTCAATTTCATCGCCAAATTTA-ACACACTTA
282794 TCGATCCATGAGCTCGACTAACTT
259 TCGATCCATGAGCTCGACTAACTT
* ** * * *
282818 CAGCGACGAGAGGTTACCTAATGACTATAACTTAAACTAACATATCATTATACTAGCATAATTTG
1 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATATCATTATACTAGCA-AATGTG
* * * * *
282883 GAAGATGGAAATTGGTGAAATCACTACGATTTCTCCCGATTATATGACCATCATACATGTTTACA
65 GAAGATGAAAATCGGTAAAATCACTACAAGTTCTCCCGATTATATGACCATCATACATGTTTACA
* * *
282948 CTAACTATATAAGACCCCTCCATCACCATTCCCAACCTATGACAACTAACAATGTTCAACTACAA
130 CTAATTATATAAGACCCCTCCATCACCATTCACAACCTATGACAACTAACAATGTTAAACTACAA
* ** * * *
283013 GTTTGAAAACTCAATCACTGTCTAGACCAATCATTTGATTTCATTGCCAAATTTACTCGCACTTA
195 GTTTGAAAACTCAATCACTGTCTTGACCAATCATTCAATTTCATCGCCAAATTTA-ACACACTTA
* *
283078 TCGATCCATGAGCTCAATTAACTT
259 TCGATCCATGAGCTCGACTAACTT
*
283102 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAAC--AGCATTATACTAGCACAATGTG
1 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATATCATTATACTAGCA-AATGTG
* *
283165 GAAGATGAAAATCAGTAAAATCACTACAAGTTCTCCCGATTATATGACCGTCATACATGTTTACA
65 GAAGATGAAAATCGGTAAAATCACTACAAGTTCTCCCGATTATATGACCATCATACATGTTTACA
* * * *
283230 CTAATTATAAAAGGCCCCTCCGTCACCATTCACAACCTATGACAACGAACAATGTTAAACTACAA
130 CTAATTATATAAGACCCCTCCATCACCATTCACAACCTATGACAACTAACAATGTTAAACTACAA
* * **
283295 GTTTGAAAACTCGATCACTATCTTGACCAATCATTTGATTTCATCGCCAAATTT-ACACACTTA-
195 GTTTGAAAACTCAATCACTGTCTTGACCAATCATTCAATTTCATCGCCAAATTTAACACACTTAT
*
283358 CTGATCCATGAGCTCGATTAACTT
260 C-GATCCATGAGCTCGACTAACTT
*
283382 CAACGACGAGAAATTACCTAATG------AC-T---CGAAC--ATCATTATACTAGCAACATGTG
1 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATATCATTATACTAGCAA-ATGTG
* * *
283435 GAAGATGAAAATCGGTAAAATCAGTATAAGTTCTCCCGATTATATGACCA-CTGTACATGTTTAC
65 GAAGATGAAAATCGGTAAAATCACTACAAGTTCTCCCGATTATATGACCATC-ATACATGTTTAC
*
283499 ACTAATTATATAAGAGTATAAGACCCCTCCATCACCATTCACAACCTCTGAGGCTATGACAGCTA
129 ACT-A--AT-T---A-TATAAGACCCCTCCATCACCATTCACAA---C-----CTATGACAACTA
** * * * *
283564 ACAATGTTAAACTACAAGTTTGAAAACTCGGTCGCTGTCTTGACTAATCATTCAATATCATTGCC
178 ACAATGTTAAACTACAAGTTTGAAAACTCAATCACTGTCTTGACCAATCATTCAATTTCATCGCC
* *
283629 AAATTTGAACACACTTATCGATCCATAAGCTCGACTAACAT
243 AAATTT-AACACACTTATCGATCCATGAGCTCGACTAACTT
* * * * * *
283670 CAACTATGAGAAGTTACCCAATGACTAGAACATAAACTAGCATA
1 CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATA
283714 ATTTGGAAGT
Statistics
Matches: 765, Mismatches: 93, Indels: 57
0.84 0.10 0.06
Matches are distributed among these distances:
269 2 0.00
270 83 0.11
271 1 0.00
273 3 0.00
274 3 0.00
277 1 0.00
278 25 0.03
279 1 0.00
280 51 0.07
281 32 0.04
282 187 0.24
283 105 0.14
284 143 0.19
286 73 0.10
288 47 0.06
289 1 0.00
294 2 0.00
295 1 0.00
298 3 0.00
300 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (282 bp):
CAACGACGAGAAATTACCTAATGACTAAAACATAAACTAACATATCATTATACTAGCAAATGTGG
AAGATGAAAATCGGTAAAATCACTACAAGTTCTCCCGATTATATGACCATCATACATGTTTACAC
TAATTATATAAGACCCCTCCATCACCATTCACAACCTATGACAACTAACAATGTTAAACTACAAG
TTTGAAAACTCAATCACTGTCTTGACCAATCATTCAATTTCATCGCCAAATTTAACACACTTATC
GATCCATGAGCTCGACTAACTT
Found at i:284962 original size:16 final size:16
Alignment explanation
Indices: 284943--284976 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
284933 CAATATACGA
284943 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
284959 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
284975 AT
1 AT
284977 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:285053 original size:16 final size:18
Alignment explanation
Indices: 285021--285054 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
285011 TATTAATGTA
285021 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
285039 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
285055 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:285729 original size:130 final size:130
Alignment explanation
Indices: 285525--285772 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
285515 AATTTTCTTC
* *
285525 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
285590 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
285655 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
285720 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
285773 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:286220 original size:35 final size:35
Alignment explanation
Indices: 286170--286245 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
286160 AATTGAATTT
* *
286170 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
286205 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
286240 AATTGA
1 AATTGA
286246 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:286593 original size:21 final size:21
Alignment explanation
Indices: 286569--286609 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
286559 GGTAAAAATT
*
286569 TATCTAAAACATTATTATTTC
1 TATCTAAAACATTAATATTTC
*
286590 TATCTAAAATATTAATATTT
1 TATCTAAAACATTAATATTT
286610 TTTAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (21 bp):
TATCTAAAACATTAATATTTC
Found at i:288932 original size:21 final size:21
Alignment explanation
Indices: 288869--288933 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
288859 GTTGATCGTT
*
288869 ACGGTGCTGACGTGGTAATT-C
1 ACGGTGCTGACGTGG-CATTCC
* * ** *
288890 ACAGTGATGATATGGCAATCC
1 ACGGTGCTGACGTGGCATTCC
288911 ACGGTGCTGACGTGGCATTCC
1 ACGGTGCTGACGTGGCATTCC
288932 AC
1 AC
288934 AATGGTTGAT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (21 bp):
ACGGTGCTGACGTGGCATTCC
Found at i:302519 original size:95 final size:96
Alignment explanation
Indices: 302348--302584 Score: 397
Period size: 95 Copynumber: 2.5 Consensus size: 96
302338 ACTTAATAAA
302348 ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAATAAGATAATATTAGACATGGCATTGTTTA
1 ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAATAAGATAATATTAGACATGGCATTGTTTA
*
302413 AGTCAACAAGATAATATTAGTATATGA-TAT
66 AGGCAACAAGATAATATTAGTATATGATTAT
*
302443 ATTTTAAAGTATATTAATTTATAAAAATTTTAAAAATAAGATAATATTAGACATGGCATTGTTTA
1 ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAATAAGATAATATTAGACATGGCATTGTTTA
* *
302508 AGGCAATAAGATAATATTAGTATGTGATTTTAT
66 AGGCAACAAGATAATATTAGTATATGA--TTAT
*
302541 ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAA-AAAATAAT
1 ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAATAAGATAAT
302585 CCAGTCGTTT
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
95 88 0.66
97 7 0.05
98 38 0.29
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (96 bp):
ATTTTAAAGTATATTAATTTATTAAAATTTTAAAAATAAGATAATATTAGACATGGCATTGTTTA
AGGCAACAAGATAATATTAGTATATGATTAT
Found at i:303083 original size:59 final size:59
Alignment explanation
Indices: 303020--303133 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
303010 CACAAATGGT
* *
303020 CCCTTGAATATAGGGTACTATTTTGTTAAGT-CCTCTGATTATTAAAAGTTATAAAATAG
1 CCCTTGAATATAGGATACTATTTTGTTAAGTCCCT-TGACTATTAAAAGTTATAAAATAG
* * * *
303079 CCCTTTACTATAGGATATTATTTTGTTGAGTCCCTTGACTATTAAAAGTTATAAA
1 CCCTTGAATATAGGATACTATTTTGTTAAGTCCCTTGACTATTAAAAGTTATAAA
303134 GTGGTCACCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 45 0.94
60 3 0.06
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (59 bp):
CCCTTGAATATAGGATACTATTTTGTTAAGTCCCTTGACTATTAAAAGTTATAAAATAG
Found at i:309010 original size:22 final size:22
Alignment explanation
Indices: 308985--309037 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
308975 ATATATTTAT
308985 TAAAAATATTATTTGTATTCAA
1 TAAAAATATTATTTGTATTCAA
309007 TAAAAATATTATTTGTATTCAA
1 TAAAAATATTATTTGTATTCAA
309029 TAAAAATAT
1 TAAAAATAT
309038 AGATTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAAATATTATTTGTATTCAA
Found at i:310151 original size:21 final size:21
Alignment explanation
Indices: 310125--310167 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
310115 TGCTAAAATA
310125 ACGGTCCATAATACTGACATG
1 ACGGTCCATAATACTGACATG
310146 ACGGTCCATAATACTGACATG
1 ACGGTCCATAATACTGACATG
310167 A
1 A
310168 TAGTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (21 bp):
ACGGTCCATAATACTGACATG
Found at i:314465 original size:29 final size:30
Alignment explanation
Indices: 314433--314504 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
314423 TTGCATTTAG
314433 GTCCCCCAACTTTTAAAAC-TTGCAATATA
1 GTCCCCCAACTTTTAAAACGTTGCAATATA
* *** *
314462 GTCCCCCAACATTTATTCCGTTTGCAATATG
1 GTCCCCCAACTTTTAAAACG-TTGCAATATA
314493 GTCCCCCAACTT
1 GTCCCCCAACTT
314505 AAACTACTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 15 0.43
31 20 0.57
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.32
Consensus pattern (30 bp):
GTCCCCCAACTTTTAAAACGTTGCAATATA
Found at i:314653 original size:35 final size:35
Alignment explanation
Indices: 314607--314755 Score: 181
Period size: 35 Copynumber: 4.3 Consensus size: 35
314597 AAAACAACCC
* * *
314607 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* *
314642 TCAATTTCATTCTAAACCCAAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
314677 TCAATTAAATTTTAAATCCCAAATTCTAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
314712 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
314747 TCAATTTAA
1 TCAATTTAA
314756 GGTTTAGAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:314817 original size:35 final size:35
Alignment explanation
Indices: 314749--314823 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
314739 AAAATACTTC
* * *
314749 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
* *
314784 AATTTAGGGTTTAGAATGAAATT-AAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTGAA-GTATTTTGA
314819 AATTT
1 AATTT
314824 TGAACATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
Found at i:316998 original size:29 final size:28
Alignment explanation
Indices: 316919--317003 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
316909 TGTTTAGGGT
*
316919 AAAGTATACAAATGATCACCCGACCATTA
1 AAAGT-TACAAATGATCACCCGATCATTA
*
316948 AAAGTTGCAAATGATCACCCGATCATTA
1 AAAGTTACAAATGATCACCCGATCATTA
* *
316976 AAAGTTACAAAATAATCATCCGATCATT
1 AAAGTTAC-AAATGATCACCCGATCATT
317004 TATATATTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 28 0.56
29 22 0.44
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.25
Consensus pattern (28 bp):
AAAGTTACAAATGATCACCCGATCATTA
Found at i:319209 original size:80 final size:80
Alignment explanation
Indices: 319076--319239 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 80
319066 AGTTAACAGT
319076 AATTTGATTCGGTTAATAATCAAATTGACTGTTTGAACACTCCAATATCTGATAATATCATTCTC
1 AATTTGATTCGGTTAATAATCAAATTGACTGTTTGAACACTCCAATATCTGATAATATCATTCTC
319141 CAAAGTTCGAACATA
66 CAAAGTTCGAACATA
* *
319156 AATTTGGTTCGGTTAATAATCAAATTGACTGTTTGAACACTCCTATATCTGATAATATCATTCTC
1 AATTTGATTCGGTTAATAATCAAATTGACTGTTTGAACACTCCAATATCTGATAATATCATTCTC
319221 CAAAGTTCGAACATA
66 CAAAGTTCGAACATA
319236 AATT
1 AATT
319240 CTCTTTTTAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (80 bp):
AATTTGATTCGGTTAATAATCAAATTGACTGTTTGAACACTCCAATATCTGATAATATCATTCTC
CAAAGTTCGAACATA
Found at i:320507 original size:109 final size:106
Alignment explanation
Indices: 320316--320531 Score: 310
Period size: 108 Copynumber: 2.0 Consensus size: 106
320306 TCTACCTGCC
* * * * *
320316 AAATCTGATATCATATCGGCATGAATTTCCATACAAATACAGCTCACAACATAAAATCGATCAAC
1 AAATATGATATCATATCAGCATGAATCTCCATAAAAATACAGCTCACAACATAAAATCGATCAAA
320381 ATTTAAACAAATTCCAGAATCCAAAAACCAACATTAGCATTA
66 ATTTAAACAAATTCCAGAATCCAAAAA-CAACATTAGCATTA
* *
320423 AAATATGATATCATATCAAG-ATGAATCTCCATAAAAATTGCAGCTCAGAACATAAAA-CGGGAT
1 AAATATGATATCATATC-AGCATGAATCTCCATAAAAA-TACAGCTCACAACATAAAATC--GAT
320486 CAAAATTTAAACAAATTCCAGAATCCAAAAACAACATTAGCATTA
62 CAAAATTTAAACAAATTCCAGAATCCAAAAACAACATTAGCATTA
320531 A
1 A
320532 TCTCTAAAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
107 32 0.33
108 33 0.34
109 33 0.34
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (106 bp):
AAATATGATATCATATCAGCATGAATCTCCATAAAAATACAGCTCACAACATAAAATCGATCAAA
ATTTAAACAAATTCCAGAATCCAAAAACAACATTAGCATTA
Found at i:320977 original size:17 final size:18
Alignment explanation
Indices: 320944--320978 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
320934 GATCTAAACC
320944 AAAATAATATATTTTTAT
1 AAAATAATATATTTTTAT
*
320962 AAAATATTAT-TTTTTAT
1 AAAATAATATATTTTTAT
320979 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATAATATATTTTTAT
Found at i:321782 original size:22 final size:21
Alignment explanation
Indices: 321757--321797 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
321747 ATATTTTAAA
321757 ATTTAAAATTTAAAACTTTATC
1 ATTTAAAA-TTAAAACTTTATC
* *
321779 ATTTAATATTAAAATTTTA
1 ATTTAAAATTAAAACTTTA
321798 GGTTCGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAAAATTAAAACTTTATC
Found at i:323429 original size:21 final size:21
Alignment explanation
Indices: 323401--323441 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
323391 TTTGATTAAT
*
323401 ATTTAACTTGAG-TTGACTCG
1 ATTTAACTCGAGTTTGACTCG
323421 ATTTAAACTCGAGTTTGACTC
1 ATTT-AACTCGAGTTTGACTC
323442 AAGACCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
ATTTAACTCGAGTTTGACTCG
Found at i:323657 original size:25 final size:26
Alignment explanation
Indices: 323624--323677 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
323614 AAATTACTAA
323624 CTAATAA-TTA-TTATAATTTATTAAT
1 CTAATAATTTATTTAT-ATTTATTAAT
*
323649 CTAATAATTTATTTATTTTTATTAAT
1 CTAATAATTTATTTATATTTATTAAT
323675 CTA
1 CTA
323678 GGGTACTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 15 0.58
27 4 0.15
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
CTAATAATTTATTTATATTTATTAAT
Found at i:326168 original size:293 final size:287
Alignment explanation
Indices: 325629--326224 Score: 827
Period size: 293 Copynumber: 2.1 Consensus size: 287
325619 AGTTATTCAA
* * *
325629 TGTCATCTACAAAGCAGATTGGTATTTCGATATCAATTCTGTGTCGGAAGGTGACAACAGTAATT
1 TGTCATCTACAAAGCAGATTGGTAATTCGATACCAATTCTGTGTCGGAAGGTGACAACAGCAATT
* *
325694 AGATTATATTCCTCTGCTTCGTTAATGCCTGCTGAAATCCATTTCATTTCCAGGCAGTAGCCTTA
66 AGATTATATTCCTCTGCTTCGTTAATGCCTGCTGAAATCCATTTCATTTCCAGGCAGTAACATTA
* * * * * *
325759 GTGCAGGGAACAATGTTGATTTTTCTTATTTTTTAATTTTCCTTTGTGATATGGATTGTATTTTG
131 GTGCAAGGAACAATGTTGAATTTTCTTACTTTTTAATTTTCCATTGTGATATGGAATGTATATTG
* * * *
325824 TATGTGTATATGATGTGTTTTCAAAATGAATGCCTATAGTTGTTGGTGTTTTTGTTTAGTTAGTT
196 TATGTGTATATAATCTGTTTACAAAATGAATGCCTATAGTTGTTGGTGTTTTTGTTTAGTCAGTT
* * *
325889 TGTCCTTGACATTTT-GTTTCTAGATTT
261 TCTCCATGACATTTTCG-TTCTAGATCT
*
325916 TGTCATCTACAAAGCAGATTGGTAATTCGCTACCAATTCTTGTGTCGGAAGGTGACAACAGCAAT
1 TGTCATCTACAAAGCAGATTGGTAATTCGATACCAATTC-TGTGTCGGAAGGTGACAACAGCAAT
* * * * *
325981 TAGATGATGATATTTCCTCTGTTTTGTTAATGCCTGCTGAAATGCATTTCATTTTCATGCAGTAA
65 TAGAT--T-ATA-TTCCTCTGCTTCGTTAATGCCTGCTGAAATCCATTTCATTTCCAGGCAGTAA
326046 CATTAGTGCAAGGAACAATGTTGAAATTTTCTTACTTTTTAATTTTCCATTGTGATATGGAATGT
126 CATTAGTGCAAGGAACAATGTTG-AATTTTCTTACTTTTTAATTTTCCATTGTGATATGGAATGT
* * * *
326111 ATATTGTATGTGTATATAATCTGTTTACAAAATGAAT-TCTTTCATTTGTTTGTGTTTTTGTTTA
190 ATATTGTATGTGTATATAATCTGTTTACAAAATGAATGCCTAT-AGTTGTTGGTGTTTTTGTTTA
* *
326175 GTCGGTTTCTCCATGACATTTTCGTTCTGGATCT
254 GTCAGTTTCTCCATGACATTTTCGTTCTAGATCT
*
326209 TGTCATCCACAAAGCA
1 TGTCATCTACAAAGCA
326225 AATTTGTTTT
Statistics
Matches: 270, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
287 36 0.13
288 29 0.11
290 1 0.00
291 3 0.01
292 70 0.26
293 130 0.48
294 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (287 bp):
TGTCATCTACAAAGCAGATTGGTAATTCGATACCAATTCTGTGTCGGAAGGTGACAACAGCAATT
AGATTATATTCCTCTGCTTCGTTAATGCCTGCTGAAATCCATTTCATTTCCAGGCAGTAACATTA
GTGCAAGGAACAATGTTGAATTTTCTTACTTTTTAATTTTCCATTGTGATATGGAATGTATATTG
TATGTGTATATAATCTGTTTACAAAATGAATGCCTATAGTTGTTGGTGTTTTTGTTTAGTCAGTT
TCTCCATGACATTTTCGTTCTAGATCT
Found at i:333482 original size:12 final size:12
Alignment explanation
Indices: 333467--333492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
333457 TAAAAAAAAT
333467 AAAAAAATTAAA
1 AAAAAAATTAAA
333479 AAAAAAATTAAA
1 AAAAAAATTAAA
333491 AA
1 AA
333493 TGGAAAGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:346990 original size:23 final size:24
Alignment explanation
Indices: 346965--347008 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
346955 AAAATAATTT
346965 TTTTTAA-TTAT-TTAGGGTCGGG
1 TTTTTAAGTTATATTAGGGTCGGG
*
346987 TTTTTAAGTTATATTTGGGTCG
1 TTTTTAAGTTATATTAGGGTCG
347009 AGTGGAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.18, C:0.05, G:0.25, T:0.52
Consensus pattern (24 bp):
TTTTTAAGTTATATTAGGGTCGGG
Found at i:347061 original size:26 final size:26
Alignment explanation
Indices: 347003--347063 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
346993 AGTTATATTT
* *
347003 GGGTCGAGTGGAGTCTTTATTGGGTC
1 GGGTCGGGTGGAATCTTTATTGGGTC
*
347029 GGGTCGGGTGGAATCTTGT-TTTGGTC
1 GGGTCGGGTGGAATCTT-TATTGGGTC
347055 GGGTCGGGT
1 GGGTCGGGT
347064 CAGATCTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.08, C:0.11, G:0.46, T:0.34
Consensus pattern (26 bp):
GGGTCGGGTGGAATCTTTATTGGGTC
Found at i:352536 original size:332 final size:332
Alignment explanation
Indices: 351916--352579 Score: 903
Period size: 332 Copynumber: 2.0 Consensus size: 332
351906 TCCTGAATAG
* *
351916 CTAGCAGTTCAGATTTTGGAGCTTGAATAACAGTCCTTGCGGTTGACATGGGCTTGTCTTGTTAT
1 CTAGCAGTTCAGACTTTGGAGCTTGAATAACAATCCTTGCGGTTGACATGGGCTTGTCTTGTTAT
* * * *
351981 CTTTTAATGTTTTGGTCCTTTAACTGTGAATTTCTAGGGCTAATGCTAAAGAATGTGATTGTTTT
66 CTATTAATGTTTTGGTCCTTTAACTATGAATTTCTAGGGCTAATGCTAAAGAATCTGATCGTTTT
* *
352046 AACATAACGGATTTAGTGATGTAGAATGTAAATTAACCCAAATTATTTGGGATGAATAAGATGCG
131 AACATAACGGATTTACTGATGTAGAATGTAAATTAACCCAAATTATTTGGGATGAATAAGATGCA
* *
352111 TCCTAAGCACGGGGATAGGTGTTTTACTACCGGTCCATTGACCTTTTCGGTCATCCATTGGATCA
196 TCCTAAGCACGGGGATAGGTGTTTTACCACCGGTCCATTGACCTTTTCGGTCATCCATCGGATCA
* * * * * * *
352176 AAGTTTCTAGATTCTTCATAGAGAGCTTTCTAGTCATTA-GTGGTATTCCTAGATATTGAACAGG
261 AAGGTTCTAAATCCATCATAGAGAGCTTTCTAGT-AATAGGTGGTATTCCTAGAAATCGAACAGG
352240 CAATGTGC
325 CAATGTGC
* * *
352248 CTAGCAGTTCAGACTTTGGAGCTTGAATAACACATCTTTGTGGTTGCCAT-GGCGTTGTCTTGTT
1 CTAGCAGTTCAGACTTTGGAGCTTGAATAACA-ATCCTTGCGGTTGACATGGGC-TTGTCTTGTT
*
352312 ATCTATTAATGTTTTGGTCCTTTAACTATGAATTTCTGGGGCTAATGCTAAAGAATCTGATCGTT
64 ATCTATTAATGTTTTGGTCCTTTAACTATGAATTTCTAGGGCTAATGCTAAAGAATCTGATCGTT
** ** * *
352377 TT-ATGTAATTGATTTACTGATGTAGAATGTAAATTACCCCAAATTA-TTGGGATGAATAAGCTG
129 TTAACATAACGGATTTACTGATGTAGAATGTAAATTAACCCAAATTATTTGGGATGAATAAGATG
* * * *
352440 CATCCTACTAGCA-TGGGATAGGTGTTTTGCCACTGGTCCATTGATCTTTGT-GGTCA-CTCATC
194 CATCCTA--AGCACGGGGATAGGTGTTTTACCACCGGTCCATTGACCTTT-TCGGTCATC-CATC
* *
352502 GGATCAAAGGTTC-ACAATCCATCATGGTGAGCTTTCTAGTAATAGGTGGTATTCCTAGAAATCG
255 GGATCAAAGGTTCTA-AATCCATCATAGAGAGCTTTCTAGTAATAGGTGGTATTCCTAGAAATCG
352566 AACAGGCAATGTGC
319 AACAGGCAATGTGC
352580 TTAGTTTGAA
Statistics
Matches: 291, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
331 27 0.09
332 174 0.60
333 90 0.31
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (332 bp):
CTAGCAGTTCAGACTTTGGAGCTTGAATAACAATCCTTGCGGTTGACATGGGCTTGTCTTGTTAT
CTATTAATGTTTTGGTCCTTTAACTATGAATTTCTAGGGCTAATGCTAAAGAATCTGATCGTTTT
AACATAACGGATTTACTGATGTAGAATGTAAATTAACCCAAATTATTTGGGATGAATAAGATGCA
TCCTAAGCACGGGGATAGGTGTTTTACCACCGGTCCATTGACCTTTTCGGTCATCCATCGGATCA
AAGGTTCTAAATCCATCATAGAGAGCTTTCTAGTAATAGGTGGTATTCCTAGAAATCGAACAGGC
AATGTGC
Found at i:354972 original size:12 final size:12
Alignment explanation
Indices: 354955--354979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
354945 TCGAAAAACT
354955 AGCTTGGAAGTC
1 AGCTTGGAAGTC
354967 AGCTTGGAAGTC
1 AGCTTGGAAGTC
354979 A
1 A
354980 TTGTCCTCTT
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:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
AGCTTGGAAGTC
Found at i:364851 original size:56 final size:54
Alignment explanation
Indices: 364782--364963 Score: 244
Period size: 56 Copynumber: 3.4 Consensus size: 54
364772 CCCTATTTTC
*
364782 TAGATATATTCGATTTCGAAGCCTCTATTTTTATGCTTATTAATGGCAACAACTGA
1 TAGATATACTCGATTTCG--GCCTCTATTTTTATGCTTATTAATGGCAACAACTGA
*
364838 TAGATATACTCGATTTC--CC-CTATTTTTATGCTTCTTAATGGCAACAACTGA
1 TAGATATACTCGATTTCGGCCTCTATTTTTATGCTTATTAATGGCAACAACTGA
* * * *
364889 TAGATATACTCGATTTTGGGGCTCTTATTTATATGCTTATTAATGGCAACAACTAA
1 TAGATATACTCGA-TTTCGGCCTC-TATTTTTATGCTTATTAATGGCAACAACTGA
*
364945 TAGATATACTCAATTTCGG
1 TAGATATACTCGATTTCGG
364964 AACACCTATT
Statistics
Matches: 112, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
51 44 0.39
52 5 0.04
54 1 0.01
55 6 0.05
56 56 0.50
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (54 bp):
TAGATATACTCGATTTCGGCCTCTATTTTTATGCTTATTAATGGCAACAACTGA
Found at i:364876 original size:51 final size:51
Alignment explanation
Indices: 364806--364961 Score: 213
Period size: 51 Copynumber: 3.0 Consensus size: 51
364796 TTCGAAGCCT
364806 CTATTTTTATGCTTATTAATGGCAACAACTGATAGATATACTCGATTTCCC
1 CTATTTTTATGCTTATTAATGGCAACAACTGATAGATATACTCGATTTCCC
* *
364857 CTATTTTTATGCTTCTTAATGGCAACAACTGATAGATATACTCGATTTTGGGGCTC
1 CTATTTTTATGCTTATTAATGGCAACAACTGATAGATATACTCGA-TTT----CCC
* * * *
364913 TTATTTATATGCTTATTAATGGCAACAACTAATAGATATACTCAATTTC
1 CTATTTTTATGCTTATTAATGGCAACAACTGATAGATATACTCGATTTC
364962 GGAACACCTA
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
51 45 0.48
52 3 0.03
55 3 0.03
56 42 0.45
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (51 bp):
CTATTTTTATGCTTATTAATGGCAACAACTGATAGATATACTCGATTTCCC
Found at i:368894 original size:19 final size:20
Alignment explanation
Indices: 368867--368904 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
368857 TCAGAAATTC
368867 AAGTC-AAAATAATGAAGAA
1 AAGTCAAAAATAATGAAGAA
* *
368886 AAGTGAAAAATAATTAAGA
1 AAGTCAAAAATAATGAAGA
368905 TGATAATGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.63, C:0.03, G:0.16, T:0.18
Consensus pattern (20 bp):
AAGTCAAAAATAATGAAGAA
Found at i:369061 original size:18 final size:17
Alignment explanation
Indices: 369039--369088 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
369029 AATTGATATA
369039 ATAAAATATTTTATTAT
1 ATAAAATATTTTATTAT
* * *
369056 ATTAAA-ATTTGATAAT
1 ATAAAATATTTTATTAT
369072 ATAAAATAATTTTATTA
1 ATAAAAT-ATTTTATTA
369089 AATCATATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
16 13 0.52
17 5 0.20
18 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATAAAATATTTTATTAT
Found at i:371769 original size:20 final size:21
Alignment explanation
Indices: 371729--371769 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
371719 AAAAAAATTT
* *
371729 CTTAAAATATTATTATTTTTA
1 CTTAAAATATCAATATTTTTA
371750 CTTAAAATATCAAT-TTTTTA
1 CTTAAAATATCAATATTTTTA
371770 ACATTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTAAAATATCAATATTTTTA
Found at i:372462 original size:37 final size:37
Alignment explanation
Indices: 372421--372539 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 37
372411 ACTCTAAAAG
*
372421 TTCGGGTCAGATCGGAGTTGGGTGGAGGATATATATT
1 TTCGGGTCAGATCGGAGTTGGGCGGAGGATATATATT
* * * *
372458 TTCGGGTCAGGTCGG-GTTCGGACGAAGGATATAAATTT
1 TTCGGGTCAGATCGGAGTT-GGGCGGAGGATATATA-TT
* * * **
372496 TTCGAGTCGGATCGGA-TTCGGCGGTTGATATATATT
1 TTCGGGTCAGATCGGAGTTGGGCGGAGGATATATATT
372532 TTCGGGTC
1 TTCGGGTC
372540 GGAACTAGGG
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
36 12 0.19
37 36 0.56
38 16 0.25
ACGTcount: A:0.20, C:0.13, G:0.34, T:0.33
Consensus pattern (37 bp):
TTCGGGTCAGATCGGAGTTGGGCGGAGGATATATATT
Found at i:373758 original size:21 final size:21
Alignment explanation
Indices: 373734--373774 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
373724 ATATAGTAAC
373734 TAAACTATCAATTTTAGTACT
1 TAAACTATCAATTTTAGTACT
* *
373755 TAAATTATCAGTTTTAGTAC
1 TAAACTATCAATTTTAGTAC
373775 GTATTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
TAAACTATCAATTTTAGTACT
Found at i:373792 original size:32 final size:32
Alignment explanation
Indices: 373746--373806 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
373736 AACTATCAAT
** *
373746 TTTAGTACTTAAATTATCAGTTTTAGTACGTA
1 TTTAGTACACAAATTATCAATTTTAGTACGTA
373778 TTTAGTACACAAATTATCAATTTTAGTAC
1 TTTAGTACACAAATTATCAATTTTAGTAC
373807 TTAAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (32 bp):
TTTAGTACACAAATTATCAATTTTAGTACGTA
Found at i:373807 original size:53 final size:53
Alignment explanation
Indices: 373722--373822 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
373712 AATCATTTTT
373722 GTATATAGTAACTAAACTATCAATTTTAGTACTTAAATTATCAGTTTTAGTAC
1 GTATATAGTAACTAAACTATCAATTTTAGTACTTAAATTATCAGTTTTAGTAC
* * * *
373775 GTATTTAGTACAC-AAATTATCAATTTTAGTACTTAAATTTTCATTTTT
1 GTATATAGTA-ACTAAACTATCAATTTTAGTACTTAAATTATCAGTTTT
373823 TCCAAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 41 0.95
54 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (53 bp):
GTATATAGTAACTAAACTATCAATTTTAGTACTTAAATTATCAGTTTTAGTAC
Found at i:374641 original size:29 final size:31
Alignment explanation
Indices: 374573--374649 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
374563 TAAAATGTTA
* * * *
374573 TTTGGTCGAAATAAGTATCTAAACTTATCTT
1 TTTGGTCAAAATAGGTAACTAAACGTATCTT
374604 TTTGGTCAAAATAGGTAACTAAA-GTAT-TT
1 TTTGGTCAAAATAGGTAACTAAACGTATCTT
374633 TTTGGTCAAAATAGGTA
1 TTTGGTCAAAATAGGTA
374650 TCTAGATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 19 0.45
30 3 0.07
31 20 0.48
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTGGTCAAAATAGGTAACTAAACGTATCTT
Found at i:374660 original size:29 final size:29
Alignment explanation
Indices: 374573--374660 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
374563 TAAAATGTTA
* *
374573 TTTGGTCGAAATAAGTATCTAAACTTATCTT
1 TTTGGTCAAAATAGGTATCTAAA-TTAT-TT
* *
374604 TTTGGTCAAAATAGGTAACTAAAGTATTT
1 TTTGGTCAAAATAGGTATCTAAATTATTT
*
374633 TTTGGTCAAAATAGGTATCTAGATTATT
1 TTTGGTCAAAATAGGTATCTAAATTATT
374661 CAATTTCTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 27 0.54
30 3 0.06
31 20 0.40
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (29 bp):
TTTGGTCAAAATAGGTATCTAAATTATTT
Found at i:378121 original size:21 final size:21
Alignment explanation
Indices: 378088--378127 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
378078 TATATTGTAT
* *
378088 TTAATGCATGATATTACATAG
1 TTAATGCAGGATATCACATAG
*
378109 TTAATGTAGGATATCACAT
1 TTAATGCAGGATATCACAT
378128 TACATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
TTAATGCAGGATATCACATAG
Found at i:388695 original size:42 final size:41
Alignment explanation
Indices: 388618--388730 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 41
388608 AATAACCAAC
* * *
388618 AAATTCGCAACGTGA-TCT-CAAATTCGCAACACAGTTTCC
1 AAATTCGCAACGCGATTTTCCAAATTCGCAACACAGTTTCA
* * *
388657 AAATTCGCAACGCGAATTTTCCAGATTCGCAACTCAGTTTTA
1 AAATTCGCAACGCG-ATTTTCCAAATTCGCAACACAGTTTCA
*
388699 AAATTCGCAACGCGATTTTCCAAATCCGCAAC
1 AAATTCGCAACGCGATTTTCCAAATTCGCAAC
388731 GCGATTTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.21
40 1 0.02
41 18 0.29
42 31 0.49
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
AAATTCGCAACGCGATTTTCCAAATTCGCAACACAGTTTCA
Found at i:388728 original size:21 final size:21
Alignment explanation
Indices: 388617--388812 Score: 122
Period size: 20 Copynumber: 9.7 Consensus size: 21
388607 AAATAACCAA
* *
388617 CAAATTCGCAACGTGA-TCT-
1 CAAATTCGCAACGCGATTTTC
* *
388636 CAAATTCGCAACAC-AGTTTC
1 CAAATTCGCAACGCGATTTTC
388656 CAAATTCGCAACGCGAATTTTC
1 CAAATTCGCAACGCG-ATTTTC
* *
388678 CAGATTCGCAACTC-AGTTTT-
1 CAAATTCGCAACGCGA-TTTTC
*
388698 AAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGATTTTC
*
388719 CAAATCCGCAACGCGATTTT-
1 CAAATTCGCAACGCGATTTTC
* * * ** *
388739 CTAATTCGCGATGTTA-ATTC
1 CAAATTCGCAACGCGATTTTC
* * * *
388759 CGAATTCGCGACGCTA-ATTC
1 CAAATTCGCAACGCGATTTTC
*
388779 CTAATTCGCAACGCGATTTT-
1 CAAATTCGCAACGCGATTTTC
* *
388799 CTAATTCGCGACGC
1 CAAATTCGCAACGC
388813 TAATTCCTAA
Statistics
Matches: 141, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.01
19 16 0.11
20 82 0.58
21 25 0.18
22 17 0.12
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:388766 original size:20 final size:20
Alignment explanation
Indices: 388741--388869 Score: 114
Period size: 20 Copynumber: 6.5 Consensus size: 20
388731 GCGATTTTCT
* *
388741 AATTCGCGATGTTAATTCCG
1 AATTCGCGACGCTAATTCCG
*
388761 AATTCGCGACGCTAATTCCT
1 AATTCGCGACGCTAATTCCG
* * * * *
388781 AATTCGCAACGCGATTTTCT
1 AATTCGCGACGCTAATTCCG
*
388801 AATTCGCGACGCTAATTCCT
1 AATTCGCGACGCTAATTCCG
* * *
388821 AATCCGTGACGCTAAATCCG
1 AATTCGCGACGCTAATTCCG
** * *
388841 AATTAACAACGCTAATTCCT
1 AATTCGCGACGCTAATTCCG
388861 AATTCGCGA
1 AATTCGCGA
388870 TTCGCAACAC
Statistics
Matches: 84, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
AATTCGCGACGCTAATTCCG
Found at i:388785 original size:40 final size:40
Alignment explanation
Indices: 388739--388869 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 40
388729 ACGCGATTTT
* *
388739 CTAATTCGCGATGTTAATTCCGAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTCCGAATTCGCGACGCTAATTC
* * * * *
388779 CTAATTCGCAACGCGATTTTCTAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTCCGAATTCGCGACGCTAATTC
* * * ** *
388819 CTAATCCGTGACGCTAAATCCGAATTAACAACGCTAATTC
1 CTAATTCGCGACGCTAATTCCGAATTCGCGACGCTAATTC
388859 CTAATTCGCGA
1 CTAATTCGCGA
388870 TTCGCAACAC
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (40 bp):
CTAATTCGCGACGCTAATTCCGAATTCGCGACGCTAATTC
Found at i:388797 original size:60 final size:60
Alignment explanation
Indices: 388716--388870 Score: 184
Period size: 60 Copynumber: 2.6 Consensus size: 60
388706 CAACGCGATT
* * *
388716 TTCCAAATCCGCAACGCGATTTTCTAATTCGCGATGTTAATTCCGAATTCGCGACGCTAA
1 TTCCAAATTCGCAACGCGATTTTCTAATTCGCGATGCTAATTCCGAATCCGCGACGCTAA
* * * *
388776 TTCCTAATTCGCAACGCGATTTTCTAATTCGCGACGCTAATTCCTAATCCGTGACGCTAA
1 TTCCAAATTCGCAACGCGATTTTCTAATTCGCGATGCTAATTCCGAATCCGCGACGCTAA
* * ** * * *
388836 ATCCGAATTAACAACGCTAATTCCTAATTCGCGAT
1 TTCCAAATTCGCAACGCGATTTTCTAATTCGCGAT
388871 TCGCAACACG
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (60 bp):
TTCCAAATTCGCAACGCGATTTTCTAATTCGCGATGCTAATTCCGAATCCGCGACGCTAA
Found at i:388911 original size:20 final size:20
Alignment explanation
Indices: 388888--388951 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
388878 ACGATTTTGT
388888 AATTCGGAATTAGCGTCGCG
1 AATTCGGAATTAGCGTCGCG
* *
388908 AATTTGGAATTAGTGTCGCG
1 AATTCGGAATTAGCGTCGCG
*
388928 AATTAC-GAATTAGCATCGCG
1 AATT-CGGAATTAGCGTCGCG
388948 AATT
1 AATT
388952 AGAAAATCGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (20 bp):
AATTCGGAATTAGCGTCGCG
Found at i:402526 original size:119 final size:119
Alignment explanation
Indices: 402315--402555 Score: 482
Period size: 119 Copynumber: 2.0 Consensus size: 119
402305 CCCCAAAACA
402315 ATACTAATAAATCATTAATTTCACATATTCAGCTGTAAAAAGAGAAACAGGAGCTGTTTTGGAAG
1 ATACTAATAAATCATTAATTTCACATATTCAGCTGTAAAAAGAGAAACAGGAGCTGTTTTGGAAG
402380 GATGAAAAGAGCTACATACTTTGTCTGCATTAAGAATGCATGATTTTTCATTTT
66 GATGAAAAGAGCTACATACTTTGTCTGCATTAAGAATGCATGATTTTTCATTTT
402434 ATACTAATAAATCATTAATTTCACATATTCAGCTGTAAAAAGAGAAACAGGAGCTGTTTTGGAAG
1 ATACTAATAAATCATTAATTTCACATATTCAGCTGTAAAAAGAGAAACAGGAGCTGTTTTGGAAG
402499 GATGAAAAGAGCTACATACTTTGTCTGCATTAAGAATGCATGATTTTTCATTTT
66 GATGAAAAGAGCTACATACTTTGTCTGCATTAAGAATGCATGATTTTTCATTTT
402553 ATA
1 ATA
402556 TCAACGAATA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 122 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (119 bp):
ATACTAATAAATCATTAATTTCACATATTCAGCTGTAAAAAGAGAAACAGGAGCTGTTTTGGAAG
GATGAAAAGAGCTACATACTTTGTCTGCATTAAGAATGCATGATTTTTCATTTT
Found at i:405231 original size:50 final size:50
Alignment explanation
Indices: 405171--405267 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
405161 CATTATTAAT
* * * *
405171 TCGTTTGATTTTAGTCCCTCGTTCGTTAACTTTTGTTTGATTTTAGTCTC
1 TCGTTCGATTTTAGTCCCTCGTTCGTTAACTCTCGTTTAATTTTAGTCTC
*
405221 TCGTTCGATTTTAGTCTCTCGTTCGTTAACTCTCGTTTAATTTTAGT
1 TCGTTCGATTTTAGTCCCTCGTTCGTTAACTCTCGTTTAATTTTAGT
405268 TCTTCAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.53
Consensus pattern (50 bp):
TCGTTCGATTTTAGTCCCTCGTTCGTTAACTCTCGTTTAATTTTAGTCTC
Found at i:405232 original size:18 final size:18
Alignment explanation
Indices: 405209--405245 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
405199 ACTTTTGTTT
405209 GATTTTAGTCTCTCGTTC
1 GATTTTAGTCTCTCGTTC
405227 GATTTTAGTCTCTCGTTC
1 GATTTTAGTCTCTCGTTC
405245 G
1 G
405246 TTAACTCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.49
Consensus pattern (18 bp):
GATTTTAGTCTCTCGTTC
Found at i:408004 original size:195 final size:196
Alignment explanation
Indices: 407661--408043 Score: 540
Period size: 195 Copynumber: 2.0 Consensus size: 196
407651 TTTTCATGTC
* * * * *
407661 AATGAGTGTTCGTACGAGTGGTTGGGATTTATAAATTTGAATTTGTAAGAGCAAGTTTGAATCCT
1 AATGAGTGTTCGTACGAGTGATTGGGATTCAGAAATTTAAATTTGTAAGAGCAAGTTTAAATCCT
* * *
407726 ATTAATGTCACTCTTGGTGGACAATTTGTAAATTATTATGTAAATCTCAATTGTGTCTCAAGTAT
66 ATTAATGTCACTCTTGGTGGACAATTTGTAAATTACTATGTAAATCTCAATTGTATCTCAAATAT
* * *
407791 GCCATGACCTTGGATTAAGGGAGTCACCTCTGTCCTAAATTTTAATGTA-CAAAAAAATATTTTT
131 GCCATGACCTTAGATTAAGGGAGTCACATCTGACCTAAATTTTAATGTACCAAAAAAATATTTTT
407855 T
196 T
* * *
407856 AATGAGTGTT-GATCCGAGTGATTGGGATTCAGGAATTTAAATTTGTAAGGGCAAGTTTAAATCC
1 AATGAGTGTTCG-TACGAGTGATTGGGATTCAGAAATTTAAATTTGTAAGAGCAAGTTTAAATCC
* *
407920 TATTACCAT-T-ACTCTTGGTGGACAATTTGTAAATTCCTATGTAAATCTCAATTGTATCTTAAA
65 TATTA--ATGTCACTCTTGGTGGACAATTTGTAAATTACTATGTAAATCTCAATTGTATCTCAAA
* * *
407983 TATGCCCTGGCCTTAGATTAAGGGAGTCACATTTGACCTAAATTTTAATGTACCAAAAAAA
128 TATGCCATGACCTTAGATTAAGGGAGTCACATCTGACCTAAATTTTAATGTACCAAAAAAA
408044 AATATATATT
Statistics
Matches: 165, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
194 1 0.01
195 153 0.93
196 9 0.05
197 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (196 bp):
AATGAGTGTTCGTACGAGTGATTGGGATTCAGAAATTTAAATTTGTAAGAGCAAGTTTAAATCCT
ATTAATGTCACTCTTGGTGGACAATTTGTAAATTACTATGTAAATCTCAATTGTATCTCAAATAT
GCCATGACCTTAGATTAAGGGAGTCACATCTGACCTAAATTTTAATGTACCAAAAAAATATTTTT
T
Found at i:408546 original size:19 final size:20
Alignment explanation
Indices: 408478--408552 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 20
408468 ATACTCCTTT
408478 ATATATTATTTCCTTTCAATTAA
1 ATATATTATTT--TTTCAA-TAA
*
408501 ATATA-TATTTTTATCGAAGAA
1 ATATATTATTTTT-TC-AATAA
*
408522 AAATATTATTTTTT-AATAA
1 ATATATTATTTTTTCAATAA
408541 ATATATTATTTT
1 ATATATTATTTT
408553 AGGTCGGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
21 9 0.20
22 14 0.31
23 5 0.11
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (20 bp):
ATATATTATTTTTTCAATAA
Found at i:409954 original size:23 final size:22
Alignment explanation
Indices: 409917--409981 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
409907 CAAACAACCG
* *
409917 AAAACGTATCA-AAAGATAGAGA
1 AAAACGTGTCATAAAGATA-AAA
* *
409939 GAAACGTGTTATAAAGATAAAA
1 AAAACGTGTCATAAAGATAAAA
*
409961 AAAACGTGTCATAAAAATAAA
1 AAAACGTGTCATAAAGATAAA
409982 TATAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 28 0.80
23 7 0.20
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.18
Consensus pattern (22 bp):
AAAACGTGTCATAAAGATAAAA
Found at i:410548 original size:23 final size:21
Alignment explanation
Indices: 410513--410556 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
410503 TTAATTTTAA
410513 AAAATTTATGGTTATT-ATATT
1 AAAATTTATGGTT-TTAATATT
410534 AAAATTTATTGGGTTTTAATATT
1 AAAATTTA-T-GGTTTTAATATT
410557 TTAAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (21 bp):
AAAATTTATGGTTTTAATATT
Found at i:411326 original size:14 final size:14
Alignment explanation
Indices: 411303--411337 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
411293 GAATTATTAA
411303 TAAAAAATATAAAT
1 TAAAAAATATAAAT
* *
411317 TAAAATATATAATT
1 TAAAAAATATAAAT
411331 TAAAAAA
1 TAAAAAA
411338 ATTAGATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAAATATAAAT
Found at i:412970 original size:60 final size:60
Alignment explanation
Indices: 412852--412993 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
412842 TAATGAATAA
* **
412852 TCAAATGACCATTTTGTAACTTTTAATAGTAGAGAGACTTAACAAAACAACATTCTATAG
1 TCAAAGGACCATTTTGTAACTTTTAATAGTAGAGAGACTTAACAAAACAACACCCTATAG
* * ** *
412912 TCAAAGGACCATTTTGTAACTTTTAATAGTCGA-AGAACTTAATAAAGTAATACCCTATAG
1 TCAAAGGACCATTTTGTAACTTTTAATAGTAGAGAG-ACTTAACAAAACAACACCCTATAG
*
412972 TC-GAGGACCATTTGTGT-ACTTT
1 TCAAAGGACCATTT-TGTAACTTT
412994 ACCCATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
59 17 0.24
60 54 0.76
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (60 bp):
TCAAAGGACCATTTTGTAACTTTTAATAGTAGAGAGACTTAACAAAACAACACCCTATAG
Found at i:419422 original size:60 final size:60
Alignment explanation
Indices: 419358--419474 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
419348 ACTATGACTA
* * *
419358 TCATTCTAAATTAGTCCTCAAA-ATTTTGAACATTTTAGTTTCATCTCCAAAATATATCCT
1 TCATTCTAAATTAGTCCTCAAACATTTTCAACATTTCAATTTCATC-CCAAAATATATCCT
* * * *
419418 TCATTCTAAATTGGTCTTGAAACATTTTCAACATTTCAATTTCATCCCAAATTATAT
1 TCATTCTAAATTAGTCCTCAAACATTTTCAACATTTCAATTTCATCCCAAAATATAT
419475 GTATTCACAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 29 0.59
61 20 0.41
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCTCAAACATTTTCAACATTTCAATTTCATCCCAAAATATATCCT
Found at i:421601 original size:30 final size:30
Alignment explanation
Indices: 421562--421623 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
421552 GAATGGTAAA
* *
421562 TTATGCGTTTAGTACTTAAA-TTATCAATTT
1 TTATCCGTTTAGCACTTAAACTT-TCAATTT
421592 TTATCCGTTTAGCACTTAAACTTTCAATTT
1 TTATCCGTTTAGCACTTAAACTTTCAATTT
421622 TT
1 TT
421624 TTCTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (30 bp):
TTATCCGTTTAGCACTTAAACTTTCAATTT
Found at i:422656 original size:4 final size:4
Alignment explanation
Indices: 422647--422705 Score: 111
Period size: 4 Copynumber: 15.0 Consensus size: 4
422637 AAAGATCATC
422647 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
422695 AAG- AAGA AAGA
1 AAGA AAGA AAGA
422706 TTTGGTTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.06
4 51 0.94
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:424560 original size:102 final size:100
Alignment explanation
Indices: 424404--424773 Score: 515
Period size: 102 Copynumber: 3.6 Consensus size: 100
424394 CCGTTGTTGG
* * * * *
424404 TCCCTATTGAAGAACATTTACCATCCTTGGCTCCAAGTATTCCGGTAGTGTTGCCACCATCTCCT
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTGGTGTTGCCACCACCTCCT
* * * *
424469 CCATCCACGCGAACTCGAAATATAGCCCCGTCACCAT
66 CCATCCGCGCGAAC-CAAAATACAGCTCCG-CACCAT
* * *
424506 TCCCTATTGAAGAACATTTACCATCCTTGGCTCCAAGCATTCCAGTGGTGTTGCCACCACCTCCT
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTGGTGTTGCCACCACCTCCT
424571 CCATCCGCGCGAAACCAAAATACAGCTCCGCTACCAT
66 CCATCCGCGCG-AACCAAAATACAGCTCCGC-ACCAT
* *
424608 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCATTGGTGTTGCCACCATCTCCT
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTGGTGTTGCCACCACCTCCT
* * *
424673 CAATCCGTGCAAACCCAAAATACAGCTCCGCCACCAT
66 CCATCCGCGCGAA-CCAAAATACAGCTCCG-CACCAT
* *
424710 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCATTGGTGTTTCCACCACCTCC
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTGGTGTTGCCACCACCTCC
424774 GCTCGTTCAG
Statistics
Matches: 246, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
101 3 0.01
102 239 0.97
103 4 0.02
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (100 bp):
TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTGGTGTTGCCACCACCTCCT
CCATCCGCGCGAACCAAAATACAGCTCCGCACCAT
Found at i:424732 original size:204 final size:204
Alignment explanation
Indices: 424404--424773 Score: 569
Period size: 204 Copynumber: 1.8 Consensus size: 204
424394 CCGTTGTTGG
* * *
424404 TCCCTATTGAAGAACATTTACCATCCTTGGCTCCAAGTATTCCGGTAGTGTTGCCACCATCTCCT
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTAGTGTTGCCACCATCTCCT
* * * * * *
424469 CCATCCACGCGAACTCGAAATATAGCCCCGTCACCATTCCCTATTGAAGAACATTTACCATCCTT
66 CAATCCACGCAAACCCAAAATACAGCCCCGCCACCATTCCCTATTGAAGAACATTTACCATCCTT
* *
424534 GGCTCCAAGCATTCCAGTGGTGTTGCCACCACCTCCTCCATCCGCGCGAAACCAAAATACAGCTC
131 GGCACCAAGCACTCCAGTGGTGTTGCCACCACCTCCTCCATCCGCGCGAAACCAAAATACAGCTC
424599 CGCTACCAT
196 CGCTACCAT
* *
424608 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCATTGGTGTTGCCACCATCTCCT
1 TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTAGTGTTGCCACCATCTCCT
** *
424673 CAATCCGTGCAAACCCAAAATACAGCTCCGCCACCATTCCCTATTGAAGAACATTTACCATCCTT
66 CAATCCACGCAAACCCAAAATACAGCCCCGCCACCATTCCCTATTGAAGAACATTTACCATCCTT
* * *
424738 GGCACCAAGTACTCCATTGGTGTTTCCACCACCTCC
131 GGCACCAAGCACTCCAGTGGTGTTGCCACCACCTCC
424774 GCTCGTTCAG
Statistics
Matches: 147, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
204 147 1.00
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (204 bp):
TCCCTATTGAAGAACATTTACCATCCTTGGCACCAAGTACTCCAGTAGTGTTGCCACCATCTCCT
CAATCCACGCAAACCCAAAATACAGCCCCGCCACCATTCCCTATTGAAGAACATTTACCATCCTT
GGCACCAAGCACTCCAGTGGTGTTGCCACCACCTCCTCCATCCGCGCGAAACCAAAATACAGCTC
CGCTACCAT
Found at i:442203 original size:10 final size:10
Alignment explanation
Indices: 442190--442223 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
442180 TTTATTTACC
442190 ATTTATTTTT
1 ATTTATTTTT
442200 ATTTATTTTT
1 ATTTATTTTT
* *
442210 ATCTATTTCT
1 ATTTATTTTT
442220 ATTT
1 ATTT
442224 TACTAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:450314 original size:8 final size:8
Alignment explanation
Indices: 450293--450339 Score: 76
Period size: 8 Copynumber: 5.6 Consensus size: 8
450283 CTAAGTTGAA
450293 AAAAAAAC
1 AAAAAAAC
450301 ACAAAAAAC
1 A-AAAAAAC
450310 AAAAAAAC
1 AAAAAAAC
450318 AAAAAAAAC
1 -AAAAAAAC
450327 AAAAAAAC
1 AAAAAAAC
450335 AAAAA
1 AAAAA
450340 GAGAAGAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 21 0.57
9 16 0.43
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:450315 original size:17 final size:16
Alignment explanation
Indices: 450293--450339 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 16
450283 CTAAGTTGAA
450293 AAAAAAACACAAAAAAC
1 AAAAAAACA-AAAAAAC
450310 AAAAAAACAAAAAAAAC
1 AAAAAAAC-AAAAAAAC
450327 AAAAAAACAAAAA
1 AAAAAAACAAAAA
450340 GAGAAGAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.17
17 23 0.79
18 1 0.03
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:451349 original size:105 final size:105
Alignment explanation
Indices: 451166--451924 Score: 1132
Period size: 105 Copynumber: 7.2 Consensus size: 105
451156 AGGTTTTACC
451166 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
451231 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
451271 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
451336 ACGAAGTGACCGCTGGTTGTCAACAAACGTTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
451376 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
451441 ACGAAGGGACCGCTGGTTGTCAACAAACGTTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
451481 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
451546 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
451586 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
451651 ACGAAGGGACCGCTGGTTGTC-ACCAACCTTTCTCCAACT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* * *** *
451690 CAGAGCCAATTTCAACTTCACAACGAAGGATTTTGGACTCAAGACAGTACAAGTTCAACTTCACC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** *
451755 ACGAAGGGACCGCTGACTGTCAACAAACAACTTCTC-AATGT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAAT-T
* * * * * * * * *
451796 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAAACAGCACAAGCTCGACTTC-CC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
451860 AGCTAAGGGA-CGACTGACTGTCAGCAAACAATTTCTC-AATT
66 A-CGAAGGGACCG-CTGGTTGTCAACAAAC-ATTTCTCAAATT
* *
451901 CCATAGCCAATTCCAACTTCACAA
1 -CAGAGCCAATTTCAACTTCACAA
451925 ACAGATTGAC
Statistics
Matches: 612, Mismatches: 36, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
104 92 0.15
105 407 0.67
106 113 0.18
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:453104 original size:24 final size:23
Alignment explanation
Indices: 453065--453121 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
453055 ATTATTTTGC
*
453065 TATTTTTATTATTTAT-TCCTATT
1 TATTTTTATTAATTATAT-CTATT
*
453088 TATTTTTATATAATTATATTTATT
1 TATTTTTAT-TAATTATATCTATT
453112 TA-TTTTATTA
1 TATTTTTATTA
453122 TTACTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 2 0.07
23 15 0.50
24 12 0.40
25 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTTTTATTAATTATATCTATT
Found at i:459772 original size:21 final size:21
Alignment explanation
Indices: 459730--459802 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
459720 CCTTATCCCT
**
459730 AACTTAAAACCCTAAATTATA
1 AACTTAAAACCCTAAAGCATA
*
459751 AACTTTAAACCCTAAAGCATA
1 AACTTAAAACCCTAAAGCATA
* * * *
459772 ATCTCATAACCTCTAAACCATA
1 AACTTAAAACC-CTAAAGCATA
459794 AACCTTAAA
1 AA-CTTAAA
459803 TCTATTTTAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 25 0.64
22 10 0.26
23 4 0.10
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (21 bp):
AACTTAAAACCCTAAAGCATA
Found at i:461694 original size:59 final size:58
Alignment explanation
Indices: 461574--461697 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 58
461564 GAAAAGGGTG
* **
461574 AAGTATACAAATGATCCCCGACTATAGGGTATTGCTTTATTAAGTCCCTTTAATATAAA
1 AAGT-TACAAATGATCCCCGACTATAGAGTATTGCTTTATTAAGTCCCTCGAATATAAA
* * * * * *
461633 AAGTTACAAATGATCCTCTGACTATAGAGTGTTGCTTTGTTGAGTCCCTCGACTATTAA
1 AAGTTACAAATGATCC-CCGACTATAGAGTATTGCTTTATTAAGTCCCTCGAATATAAA
461692 AAGTTA
1 AAGTTA
461698 TAAAATGGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 12 0.22
59 43 0.78
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (58 bp):
AAGTTACAAATGATCCCCGACTATAGAGTATTGCTTTATTAAGTCCCTCGAATATAAA
Found at i:462634 original size:60 final size:59
Alignment explanation
Indices: 462553--462724 Score: 254
Period size: 59 Copynumber: 2.9 Consensus size: 59
462543 GCTCCTCGAC
* * * ** *
462553 TATAGGACGTTGCTTTATTGAGTCTCTTAACTATTAAAAGTTACAAAATTGTCTTTGGAT
1 TATAGGATGTTGCTTTGTTGAGTCAC-CGACTATTAAAAGTTACAAAATGGTCTTTGGAT
*
462613 TATAGGATGTTGTTTTGTTGAGTCACCGACTATTAAAAGTTACAAAATGGTCTTTGGAT
1 TATAGGATGTTGCTTTGTTGAGTCACCGACTATTAAAAGTTACAAAATGGTCTTTGGAT
*
462672 TATAGGATGTTGCTTTGTTGAGTCCCCCGACTATTAAAAGTTACAAAATGGTC
1 TATAGGATGTTGCTTTGTTGAGT-CACCGACTATTAAAAGTTACAAAATGGTC
462725 ACCCGACTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
59 52 0.51
60 50 0.49
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (59 bp):
TATAGGATGTTGCTTTGTTGAGTCACCGACTATTAAAAGTTACAAAATGGTCTTTGGAT
Found at i:466225 original size:16 final size:18
Alignment explanation
Indices: 466193--466226 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
466183 TATTAATGTA
466193 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
466211 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
466227 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:466930 original size:129 final size:130
Alignment explanation
Indices: 466693--466939 Score: 415
Period size: 129 Copynumber: 1.9 Consensus size: 130
466683 AATTTTCTTC
* *
466693 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
466758 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
466823 TAATTA-GTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
466887 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
466940 TATATAAATA
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 103 0.94
130 6 0.06
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Done.