Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007173.1 Hibiscus syriacus cultivar Beakdansim tig00018827_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: 1357898
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:868637 original size:2 final size:2
Alignment explanation
Indices: 868630--868676 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
868620 TAAAAGCTTT
868630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
868672 TA TA T
1 TA TA T
868677 GATTTCAACG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:879061 original size:125 final size:125
Alignment explanation
Indices: 878806--879062 Score: 302
Period size: 125 Copynumber: 2.1 Consensus size: 125
878796 ATACCCACAC
* * * * ** *
878806 TGGGGCATGACTGAACCCCCATCATTTTGAGATGACATGATTCGGATGAAGTAGGAATTGAGAAT
1 TGGGGCATAACTGAACCCACATCATGTTGAGATGACATGATTCGAACCAAGGAGGAATTGAGAAT
* * *
878871 GAGTCTTATAATTTGAGGTATTGGGGCATGTTGAAGGCCCGTACCAGGAAAAGATAATGT
66 GAGCCTTACAAATTGAGGTATTGGGGCATGTTGAAGGCCCGTACCAGGAAAAGATAATGT
* *
878931 CGGGGCATAACTGAACCCACATCATGTTGAGATGACAAT-ATTCGAACCAAGGAGGCA-TGAAGA
1 TGGGGCATAACTGAACCCACATCATGTTGAGATGAC-ATGATTCGAACCAAGGAGGAATTG-AGA
* * * * *** *
878994 ATGAGCCTTACAAATTGTGGTGTTGGGGTATTTTGAAGGCCCGTACCCTTATAAGATAATGT
64 ATGAGCCTTACAAATTGAGGTATTGGGGCATGTTGAAGGCCCGTACCAGGAAAAGATAATGT
879056 TGGGGCA
1 TGGGGCA
879063 CTAGTGAAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
124 2 0.02
125 105 0.96
126 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (125 bp):
TGGGGCATAACTGAACCCACATCATGTTGAGATGACATGATTCGAACCAAGGAGGAATTGAGAAT
GAGCCTTACAAATTGAGGTATTGGGGCATGTTGAAGGCCCGTACCAGGAAAAGATAATGT
Found at i:879920 original size:35 final size:35
Alignment explanation
Indices: 879874--880043 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
879864 GGGCAATTCA
*
879874 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAACC
* *
879909 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AACC
* *
879945 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAACC
** *
879980 ATCTTAAGCCTTCATAGAAGAGTAGTGAAGC-ATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAACC
*
880014 ATCTTAAGCCTTCACCAAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG
880044 AAAATCCATC
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
34 30 0.25
35 59 0.49
36 32 0.26
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAACC
Found at i:879990 original size:71 final size:69
Alignment explanation
Indices: 879874--880043 Score: 252
Period size: 71 Copynumber: 2.4 Consensus size: 69
879864 GGGCAATTCA
879874 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACCATCTTAAGCCTTCACCA-AAGAGGAGTGAA
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACCATCTTAAGCCTTCA-CAGAAGAGGAGTGAA
879938 GCAAACC
65 GC--ACC
* * *
879945 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGCCTTCATAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACCATCTTAAGCCTTCACAGAAGAGGAGTGAAG
*
880010 CATC
66 CACC
**
880014 ATCTTAAGCCTTCACCAAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAG
880044 AAAATCCATC
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
69 30 0.33
70 1 0.01
71 61 0.66
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (69 bp):
ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACCATCTTAAGCCTTCACAGAAGAGGAGTGAAG
CACC
Found at i:880438 original size:42 final size:41
Alignment explanation
Indices: 880372--880473 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
880362 TTCACAATTT
* * *
880372 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
* * *
880413 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
*
880455 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
880474 CATAAAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTAGAGCAAGATG
Found at i:880555 original size:207 final size:206
Alignment explanation
Indices: 880049--881537 Score: 2398
Period size: 207 Copynumber: 7.2 Consensus size: 206
880039 TGAAGAAAAT
* **
880049 CCATCCATAAAACCTTCGGGTATGATGTTTTCACATGAATTTG-GAAATGAAAATTGATGTTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAG-AATGAAAA---A----AAT
880113 AGATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
58 -GATGTTGGAATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCG
*
880178 GGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTC-TTAGAGC
122 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGC
*
880242 AAGTTGATAAGTCCTTCGGG
187 AAGATGATAAGTCCTTCGGG
*
880262 CCATCCACAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
880327 AATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
66 AA-TTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
880392 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGAT
130 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGAT
880457 AAGTCCTTCGGG
195 AAGTCCTTCGGG
880469 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
*
880534 AATTTTTTGAAAACGAAGAATGTGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
66 AA-TTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
* *
880599 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTAGACCAAGATGAT
130 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGAT
880664 AAGTCCTTCGGG
195 AAGTCCTTCGGG
880676 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
880741 AATTTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
66 AA-TTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCA
* *
880806 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTATAGCAAGATGAT
130 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGAT
*
880871 AAGTCGTTCGGG
195 AAGTCCTTCGGG
*
880883 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGTTGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
880947 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
66 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
*
881012 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGAAAGATGATA
131 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
881077 AGTCCTTCGGG
196 AGTCCTTCGGG
*
881088 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG--AAAAATAATGTTGG
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
* *
881151 AATTTTTGAAAACGAAAAATGCGAGTTTCAGAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
66 AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
* *
881216 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGCAAGATGATA
131 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
881281 AGTCCTTCGGG
196 AGTCCTTCGGG
* * * *
881292 CCATCCGTAAGACCTTCGGGTAGGATGTTTTCAAATGAATTTGA-AATG-AAGAAATGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATG--TT
* * *
881355 AAGAAGATGAAATTTTTGAAAACAAAGAATGCAATTTTCAAAATTTCACAATTTATAAGTCCTTC
64 -----G--G-AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTC
* * *
881420 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCAGTAAGTCTTTCGAG
121 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAG
* * *
881485 CATGATGCTTAAATCCTTCGGG
186 CAAGATG-ATAAGTCCTTCGGG
* ** *
881507 TCATCCATAAGGCCTTCGGGCAGGATGTTTT
1 CCATCCATAAAACCTTCGGGTAGGATGTTTT
881538 TCACCAAGAT
Statistics
Matches: 1211, Mismatches: 50, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
203 4 0.00
204 197 0.16
205 194 0.16
206 129 0.11
207 479 0.40
210 1 0.00
211 1 0.00
213 50 0.04
214 117 0.10
215 39 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (206 bp):
CCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATGTTGG
AATTTTTGAAAACGAAGAATGCGAGTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAG
TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTAGAGCAAGATGATA
AGTCCTTCGGG
Found at i:881473 original size:42 final size:42
Alignment explanation
Indices: 881414--881507 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
881404 AATTTATAAG
**
881414 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTAATCAGTAAGTCTTTCGAGCATGATGCTTAAA
881456 TCCTTCGGGTAATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGTAATCAGTAAGTCTTTCGAGCATGATGCTTAAA
881498 TCCTTCGGGT
1 TCCTTCGGGT
881508 CATCCATAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGTAATCAGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:894604 original size:9 final size:9
Alignment explanation
Indices: 894590--894615 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
894580 AAAACTCTAT
894590 TTTTCTTCA
1 TTTTCTTCA
894599 TTTTCTTCA
1 TTTTCTTCA
894608 TTTTCTTC
1 TTTTCTTC
894616 CTCTCTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTCTTCA
Found at i:897185 original size:17 final size:18
Alignment explanation
Indices: 897163--897202 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
897153 TTAATGGTTA
897163 AATAAAAT-CTATAGCAG
1 AATAAAATGCTATAGCAG
897180 AAT-AAATGCTATAGCAG
1 AATAAAATGCTATAGCAG
897197 AATAAA
1 AATAAA
897203 GAAATTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (18 bp):
AATAAAATGCTATAGCAG
Found at i:900517 original size:54 final size:54
Alignment explanation
Indices: 900445--900738 Score: 428
Period size: 54 Copynumber: 5.4 Consensus size: 54
900435 TATATGTTGC
* **
900445 AATTACCGTATCGGCACTATGTGTGCAACCCATATAATTCATAATGAGTTTGTG
1 AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
*
900499 AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGCG
1 AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
* * * *
900553 AATTATCGTATCGGCACTATGTTTGCAACCTACGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
* * * *
900607 AATTACTGTATCGGCACTATGTGTGCAACCCAAGTAATTTATAATGAGTTTGTG
1 AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
* * * *
900661 TATTACCGTATC-AGCACTATGTGTTCAACCCATGTAATTCACAATGAGTTTGTG
1 AATTACCGTATCGA-CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
900715 AATTACCGTATCGACACTATGTGT
1 AATTACCGTATCGACACTATGTGT
900739 ACAAAACCAC
Statistics
Matches: 215, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
54 214 1.00
55 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (54 bp):
AATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
Found at i:900727 original size:162 final size:162
Alignment explanation
Indices: 900445--900736 Score: 471
Period size: 162 Copynumber: 1.8 Consensus size: 162
900435 TATATGTTGC
900445 AATTACCGTATCGGCACTATGTGTGCAACCCATATAATTCATAATGAGTTTGTGAATTACCGTAT
1 AATTACCGTATCGGCACTATGTGTGCAACCCATATAATTCATAATGAGTTTGTGAATTACCGTAT
* * *
900510 CGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGCGAATTATCGTATCGGCACTATGT
66 CGACACTATGTGTGCAACCCACGTAATTCACAATGAGTTTGCGAATTACCGTATCGACACTATGT
900575 TTGCAACCTACGTAATTCATAATGAGTTTGTG
131 TTGCAACCTACGTAATTCATAATGAGTTTGTG
* * *
900607 AATTACTGTATCGGCACTATGTGTGCAACCCA-AGTAATTTATAATGAGTTTGTGTATTACCGTA
1 AATTACCGTATCGGCACTATGTGTGCAACCCATA-TAATTCATAATGAGTTTGTGAATTACCGTA
* * *
900671 TC-AGCACTATGTGTTCAACCCATGTAATTCACAATGAGTTTGTGAATTACCGTATCGACACTAT
65 TCGA-CACTATGTGTGCAACCCACGTAATTCACAATGAGTTTGCGAATTACCGTATCGACACTAT
900735 GT
129 GT
900737 GTACAAAACC
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
161 2 0.02
162 117 0.98
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (162 bp):
AATTACCGTATCGGCACTATGTGTGCAACCCATATAATTCATAATGAGTTTGTGAATTACCGTAT
CGACACTATGTGTGCAACCCACGTAATTCACAATGAGTTTGCGAATTACCGTATCGACACTATGT
TTGCAACCTACGTAATTCATAATGAGTTTGTG
Found at i:907914 original size:21 final size:23
Alignment explanation
Indices: 907890--907944 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
907880 CCCCTTGCTA
907890 TGTATCGATACA-T-CTTGAATG
1 TGTATCGATACATTCCTTGAATG
*
907911 TGTACCGATACATTCCTTGAATG
1 TGTATCGATACATTCCTTGAATG
*
907934 TGTATCAATAC
1 TGTATCGATAC
907945 CACCCGAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 11 0.38
22 1 0.03
23 17 0.59
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
TGTATCGATACATTCCTTGAATG
Found at i:908401 original size:18 final size:20
Alignment explanation
Indices: 908370--908411 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
908360 GAAAAAATTA
908370 TTTTATTTTAAATTGATGTT-
1 TTTTATTTTAAATT-ATGTTG
908390 TTTTA-TTT-AATTATGTTG
1 TTTTATTTTAAATTATGTTG
908408 TTTT
1 TTTT
908412 GAAAACTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 3 0.14
20 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTTATTTTAAATTATGTTG
Found at i:910254 original size:13 final size:13
Alignment explanation
Indices: 910232--910267 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
910222 AGGGGAGTAA
*
910232 ATTTTCAAAATTG
1 ATTTTCAAAAATG
910245 A-TTTCAAAAATG
1 ATTTTCAAAAATG
910257 ATTTTCAAAAA
1 ATTTTCAAAAA
910268 GAAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:910402 original size:19 final size:20
Alignment explanation
Indices: 910360--910403 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
910350 AATAAAGTAT
* *
910360 TATTGAATTTTAAGATTTTA
1 TATTCAATTTTAAGATTATA
910380 TATTCAATTTTAA-ATTATA
1 TATTCAATTTTAAGATTATA
910399 TATTC
1 TATTC
910404 GATTGAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTCAATTTTAAGATTATA
Found at i:916448 original size:54 final size:54
Alignment explanation
Indices: 916365--916604 Score: 374
Period size: 54 Copynumber: 4.4 Consensus size: 54
916355 TATATGTTGC
* *
916365 AATTATCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
* *
916419 AATTACCGTATCAGCACTATGTGTACAACCCACGTAATTCATAATGAGTTTATG
1 AATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
*
916473 AATTACCGTATC-GACACTATGTATGCAACCCACGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCAG-CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
**
916527 AATTACCGTATCAGCACTATGTGTGCAACCCACACAATTCATAATGAGTTTGTG
1 AATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
* * *
916581 AATTACTGTATCAACAATATGTGT
1 AATTACCGTATCAGCACTATGTGT
916605 ACAAAACCAC
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 169 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (54 bp):
AATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTG
Found at i:920020 original size:21 final size:22
Alignment explanation
Indices: 919995--920036 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
919985 AATACTGATA
919995 TTATAATTAAAA-TAAATTATG
1 TTATAATTAAAAGTAAATTATG
* *
920016 TTATATTTAAAAGTAATTTAT
1 TTATAATTAAAAGTAAATTAT
920037 AATGAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATAATTAAAAGTAAATTATG
Found at i:923182 original size:25 final size:25
Alignment explanation
Indices: 923146--923199 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
923136 TGTGATAAAT
*
923146 TTTTCAATTTGATCTTTAAATTTTG
1 TTTTCAATTTGATCTTTAAATTTAG
*
923171 TTTTC-ATATTGATTTTTAAATTTAG
1 TTTTCAAT-TTGATCTTTAAATTTAG
923196 TTTT
1 TTTT
923200 TTCTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (25 bp):
TTTTCAATTTGATCTTTAAATTTAG
Found at i:924566 original size:29 final size:29
Alignment explanation
Indices: 924521--924578 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
924511 ACTATTTAGC
*
924521 TAAAATCTATATAGTAAAGAATGTAAAGA
1 TAAAATATATATAGTAAAGAATGTAAAGA
*
924550 TAAAATATATATTGTAAAGAATGTAAAGA
1 TAAAATATATATAGTAAAGAATGTAAAGA
924579 AGGAATGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.29
Consensus pattern (29 bp):
TAAAATATATATAGTAAAGAATGTAAAGA
Found at i:926187 original size:20 final size:21
Alignment explanation
Indices: 926143--926186 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
926133 GCTTGACATT
*
926143 AAAAGAAAAATAAAGAAACTG
1 AAAAGAAAAATAAAGAAACAG
926164 AAAAG-AAAATAAAGAAA-AG
1 AAAAGAAAAATAAAGAAACAG
926183 AAAA
1 AAAA
926187 ATTTTATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAGAAAAATAAAGAAACAG
Found at i:932865 original size:32 final size:34
Alignment explanation
Indices: 932822--932890 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
932812 TTAAATAGAT
932822 TTTTAGTATTTTA-ATTAATTTTTAGG-ATATTAG
1 TTTTAGTATTTTATATTAA-TTTTAGGTATATTAG
* *
932855 TTTTA-TATTTTATATTTATTTTAGGTATTTTAG
1 TTTTAGTATTTTATATTAATTTTAGGTATATTAG
932888 TTT
1 TTT
932891 AAATAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (34 bp):
TTTTAGTATTTTATATTAATTTTAGGTATATTAG
Found at i:932942 original size:65 final size:65
Alignment explanation
Indices: 932859--932987 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
932849 TATTAGTTTT
*
932859 ATATTTTATATTTATTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAA
1 ATATTATATATTTATTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTATTTTAATTAGGATTTAA
932923 A
65 A
* *
932924 ATATTATATTATTT-TTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTATGATTTAA
1 ATATTATA-TATTTATTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAA
932988 GATGTTTTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
64 5 0.08
65 49 0.83
66 5 0.08
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (65 bp):
ATATTATATATTTATTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAAA
Found at i:933006 original size:65 final size:65
Alignment explanation
Indices: 932873--933014 Score: 180
Period size: 65 Copynumber: 2.2 Consensus size: 65
932863 TTTATATTTA
* *
932873 TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAAATATTATATTATTT
1 TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAAATATTATACTATGT
* * * * *
932938 TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTATGATTTAAGATGTTTTAGCT-T
1 TTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAAAATATTATA-CTAT
933001 GT
64 GT
*
933003 TTTTAGGAATTT
1 TTTTAGGTATTT
933015 GAAGGCTAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 5 0.07
65 61 0.91
66 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.15, T:0.56
Consensus pattern (65 bp):
TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAAAATATTATACTATGT
Found at i:933604 original size:18 final size:17
Alignment explanation
Indices: 933581--933622 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
933571 CTTTAATTTG
*
933581 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTAT-T
*
933599 TTTATTTAATTCTTATT
1 TTTATTTAATTATTATT
933616 TTTATTT
1 TTTATTT
933623 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTAATTATTATT
Found at i:936666 original size:17 final size:16
Alignment explanation
Indices: 936640--936671 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
936630 ATTTCATTCC
936640 ATTTATTTTATTTTTA
1 ATTTATTTTATTTTTA
936656 ATTTAATTTTATTTTT
1 ATTT-ATTTTATTTTT
936672 CTCTGAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTATTTTATTTTTA
Found at i:938214 original size:76 final size:75
Alignment explanation
Indices: 938124--938272 Score: 203
Period size: 76 Copynumber: 2.0 Consensus size: 75
938114 TAAACTCAAG
*
938124 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTT-TTATTTTAGTTTAAATAGGTTTTTAGT
1 TTTAGGATAATATTTT-AACATTATATATTTAT-TTTAATATTTTAGTTTAAATAGG-TTTTAGT
938187 ATTTTAATTAAGT
63 ATTTTAATTAAGT
* * * *
938200 TTTAGGATATTATTTTTATATTTTATATTTATTTTAGATATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAATATTTTAACATTATATATTTATTTTA-ATATTTTAGTTTAAATAGGTTTTAGTAT
938265 TTTAATTA
65 TTTAATTA
938273 GGATTTATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
75 10 0.15
76 37 0.57
77 18 0.28
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATATTTATTTTAATATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGT
Found at i:938223 original size:32 final size:32
Alignment explanation
Indices: 938179--938241 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
938169 TTTAAATAGG
938179 TTTTTAGTATTTTA-ATTAAGTTTTAGGATATTA
1 TTTTTAGTATTTTATATTAA-TTTTA-GATATTA
*
938212 TTTTTA-TATTTTATATTTATTTTAGATATT
1 TTTTTAGTATTTTATATTAATTTTAGATATT
938242 TTAGTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 12 0.43
33 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (32 bp):
TTTTTAGTATTTTATATTAATTTTAGATATTA
Found at i:938971 original size:19 final size:18
Alignment explanation
Indices: 938920--938968 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
938910 AATTTCTTTA
938920 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
938939 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
938958 ATTTTTTATTT
1 ATTTTTTATTT
938969 TAAAAATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:943832 original size:17 final size:18
Alignment explanation
Indices: 943806--943871 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 18
943796 TTAGGAAAAG
*
943806 AAATAATAAAAAA-ATTA
1 AAATAATAAAAAAGATAA
*
943823 AAATAGTAAAAAAGATAA
1 AAATAATAAAAAAGATAA
*
943841 AAATAAATAAAATAAATATATA
1 AAAT-AAT-AAA-AAAGATA-A
943863 AAATAATAA
1 AAATAATAA
943872 TAATAAGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.30
18 7 0.17
19 2 0.05
20 5 0.12
21 9 0.22
22 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAATAAAAAAGATAA
Found at i:943877 original size:31 final size:32
Alignment explanation
Indices: 943801--943877 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
943791 AAACGTTAGG
943801 AAAAGA-AATAATAAAAAAATTAAAATAGTAA
1 AAAAGATAATAATAAAAAAATTAAAATAGTAA
*
943832 AAAAGATAAAAATAAATAAAA-TAAATATA-TAA
1 AAAAGATAATAATAAA-AAAATTAAA-ATAGTAA
*
943864 AATA-ATAATAATAA
1 AAAAGATAATAATAA
943878 GAAGAAGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 15 0.38
32 18 0.45
33 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (32 bp):
AAAAGATAATAATAAAAAAATTAAAATAGTAA
Found at i:944127 original size:24 final size:24
Alignment explanation
Indices: 944072--944128 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
944062 ATATATTTGT
*
944072 AATTAAATAATATTTAAATAAATAA
1 AATTAAA-AAAATTTAAATAAATAA
944097 AGA-TAAAAAAATTTAAA-AAATTAA
1 A-ATTAAAAAAATTTAAATAAA-TAA
944121 AATTAAAA
1 AATTAAAA
944129 TGTGAAGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
25 5 0.18
26 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTAAAAAAATTTAAATAAATAA
Found at i:944181 original size:188 final size:192
Alignment explanation
Indices: 943971--944353 Score: 738
Period size: 188 Copynumber: 2.0 Consensus size: 192
943961 AAAAAATAAT
943971 AATAGTAATAATAATAATAAGGGGAAAAAGAAAACAAAATAAAAATAAAATATATACATGAATAA
1 AATAGTAATAATAATAATAAGGGGAAAAAGAAAACAAAATAAAAATAAAATATATACATGAATAA
944036 TGATAAAAAAAATAACAAT-ATAGAATATATATTTGTAATT-AA-ATAATATTTAAATAAATAAA
66 TGATAAAAAAAATAACAATAATAGAATATATATTTGTAATTAAATATAATATTTAAATAAATAAA
944098 GATAAAAAAATTT-AAAAAATTAAAATTAAAATGTGAAGGGACCTAATTGAAAGAGAAAACA
131 GATAAAAAAATTTAAAAAAATTAAAATTAAAATGTGAAGGGACCTAATTGAAAGAGAAAACA
944159 AATAGTAATAATAATAATAAGGGGAAAAAGAAAACAAAATAAAAATAAAATATATACATGAATAA
1 AATAGTAATAATAATAATAAGGGGAAAAAGAAAACAAAATAAAAATAAAATATATACATGAATAA
944224 TGATAAAAAAAATAACAATAATAGAATATATATTTGTAATTAAATATAATATTTAAATAAATAAA
66 TGATAAAAAAAATAACAATAATAGAATATATATTTGTAATTAAATATAATATTTAAATAAATAAA
944289 GATAAAAAAATTTAAAAAAATTAAAATTAAAATGTGAAGGGACCTAATTGAAAGAGAAAACA
131 GATAAAAAAATTTAAAAAAATTAAAATTAAAATGTGAAGGGACCTAATTGAAAGAGAAAACA
944351 AAT
1 AAT
944354 CAGGCGTCAA
Statistics
Matches: 191, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
188 84 0.44
189 21 0.11
190 2 0.01
191 33 0.17
192 51 0.27
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (192 bp):
AATAGTAATAATAATAATAAGGGGAAAAAGAAAACAAAATAAAAATAAAATATATACATGAATAA
TGATAAAAAAAATAACAATAATAGAATATATATTTGTAATTAAATATAATATTTAAATAAATAAA
GATAAAAAAATTTAAAAAAATTAAAATTAAAATGTGAAGGGACCTAATTGAAAGAGAAAACA
Found at i:948218 original size:100 final size:101
Alignment explanation
Indices: 947695--948237 Score: 514
Period size: 101 Copynumber: 5.4 Consensus size: 101
947685 ACATGTTTAA
* * * * ** *
947695 ATTTATAACATTACAGGTAGCGCCTTTTTATATTG-CAAACCATTTAAGTTATATGTGCCAAACA
1 ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTC-AACCGTTTAAGTTATATGTGTGAAACC
* * ** * *
947759 TGTTTCGTTAGGGTTATGTAAGATAAAGCAGAGCTAT
65 TGTTTCATTAGGGTTATGTAAGACAAAAAAGGGTTAT
* ** * ** * *
947796 ATTTATAACAATAAAGGAAACG-CTCTTTTATAGTGTCAAATGTTTAAGTTATATGTGAGAAACT
1 ATTTATAACAATAAAGGTAGTGCCT-TTTTATATTGTCAACCGTTTAAGTTATATGTGTGAAACC
* *
947860 TGTTTCATTAGGGTTTTGTAAGACAAAACAGGGTTAT
65 TGTTTCATTAGGGTTATGTAAGACAAAAAAGGGTTAT
* * *
947897 ATTTATAACAATAAAGGTAGTACCTTTTTATATTGTCAACCTTTTAAATTATATGTGTGAAACCT
1 ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTCAACCGTTTAAGTTATATGTGTGAAACCT
*
947962 GTTTTATTAGGGTTATGTAAGACAAAACAA-GGTTAT
66 GTTTCATTAGGGTTATGTAAGACAAAA-AAGGGTTAT
* * * *
947998 ATTTATAACAATAAAGGTAGTGCCTTTTTATAGTGTCAATCGTTTATGTCATATGT-TGAAACCT
1 ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTCAACCGTTTAAGTTATATGTGTGAAACCT
* * * * *
948062 TTTTTATTA--ATACACTGTACA-A-AAATAAA-GGTCTAA
66 GTTTCATTAGGGT-TA-TGTA-AGACAAA-AAAGGGT-TAT
* * * * *
948098 ATTTATAACAACACATGTAGTGCCTTTTTATTTTGTCAACCGTTTAAGTTATATGTTTGAAACCT
1 ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTCAACCGTTTAAGTTATATGTGTGAAACCT
* * * *
948163 -TTTCATTATGCTTATGAAAGATTAAAAAAGGGTTAT
66 GTTTCATTAGGGTTATGTAAGA-CAAAAAAGGGTTAT
*
948199 ATTTATAACAAT-AAGGTAGTGCCTTCTTATATTGTCAAC
1 ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTCAAC
948238 TATTAGGTTA
Statistics
Matches: 366, Mismatches: 60, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
98 1 0.00
99 10 0.03
100 108 0.30
101 236 0.64
102 11 0.03
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (101 bp):
ATTTATAACAATAAAGGTAGTGCCTTTTTATATTGTCAACCGTTTAAGTTATATGTGTGAAACCT
GTTTCATTAGGGTTATGTAAGACAAAAAAGGGTTAT
Found at i:954505 original size:2 final size:2
Alignment explanation
Indices: 954453--954488 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
954443 TGCATAGTGC
954453 AT AT AT AT AT AT A- AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954489 GTTTATACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:955247 original size:25 final size:26
Alignment explanation
Indices: 955197--955249 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
955187 GCGCTTGTGG
955197 AGGTGCTAATCCTTCCCCCCACGCGTA
1 AGGTGCTAATCCTT-CCCCCACGCGTA
955224 AGGTGCTAATCCTT-CCCCACGCGTA
1 AGGTGCTAATCCTTCCCCCACGCGTA
955249 A
1 A
955250 CTGACTCCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.46
27 14 0.54
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (26 bp):
AGGTGCTAATCCTTCCCCCACGCGTA
Found at i:967034 original size:113 final size:113
Alignment explanation
Indices: 966836--967045 Score: 357
Period size: 113 Copynumber: 1.9 Consensus size: 113
966826 GGTTCGATCT
*
966836 TGATTCAATGGATCAAATCCCCCAGATCTGATATTTCCTTCAGAGTAAGCGAAACAGGTCTCTCT
1 TGATTCAATGGATCAAATCCCCCAGATCTGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCT
*
966901 TATCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTATCC
66 TATCCAAGATTTGATATTCCCTTCAGAATAAGTGGAACAAGTCTATCC
* * * * *
966949 TGATTCAATGGATCAAATCCCTCATATTTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCT
1 TGATTCAATGGATCAAATCCCCCAGATCTGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCT
967014 TATCCAAGATTTGATATTCCCTTCAGAATAAG
66 TATCCAAGATTTGATATTCCCTTCAGAATAAG
967046 CCAAACAGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 90 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (113 bp):
TGATTCAATGGATCAAATCCCCCAGATCTGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCT
TATCCAAGATTTGATATTCCCTTCAGAATAAGTGGAACAAGTCTATCC
Found at i:967259 original size:109 final size:108
Alignment explanation
Indices: 967068--967369 Score: 407
Period size: 110 Copynumber: 2.8 Consensus size: 108
967058 CTTCCAGATT
*
967068 TGAGTGACAGTGGGAACAAGTCTACCGATTTAATGGATCAACTCTCCCAGATCTGATATTCCCTC
1 TGAGTGACAGT-GGAACAAGTCTACCGATTCAATGGATCAACTCT-CCAGATCTGATATTCCCTC
*
967133 AGAGGAAGC-AGAACAGATCTCT-TTTTTCAAGATTTGATATTCCC
64 AGAGGAAGCGA-AACAGATCTCTCTCTTTCAAGATTTGATATTCCC
* * *
967177 TGAGTGACAGTGGAACAAATCTGCCCGATTCAATGGATCAACTCTCCATATCTGATATTCCCTCA
1 TGAGTGACAGTGGAACAAGTCT-ACCGATTCAATGGATCAACTCTCCAGATCTGATATTCCCTCA
967242 GAGGAAGCGGAAACAGATCTCTCTCTTTCAAGATTTGATATTCCC
65 GAGGAAGC-GAAACAGATCTCTCTCTTTCAAGATTTGATATTCCC
* * * *
967287 TGAGTAACAGCGGAACAAGTCTATCTGATTCAAT-GATTAACATCTCCAGATCTGATATTCCCT-
1 TGAGTGACAGTGGAACAAGTCTA-CCGATTCAATGGATCAAC-TCTCCAGATCTGATATTCCCTC
967350 -GAGTGACAGCGAAACAGATC
64 AGAG-GA-AGCGAAACAGATC
967370 CCTCATCATA
Statistics
Matches: 173, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
108 40 0.23
109 60 0.35
110 73 0.42
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (108 bp):
TGAGTGACAGTGGAACAAGTCTACCGATTCAATGGATCAACTCTCCAGATCTGATATTCCCTCAG
AGGAAGCGAAACAGATCTCTCTCTTTCAAGATTTGATATTCCC
Found at i:967518 original size:3 final size:3
Alignment explanation
Indices: 967506--967538 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
967496 CGTCTTTTAA
*
967506 TAT T-T TAT TAT TAT TAT TAT TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
967539 GTTTTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:967543 original size:12 final size:12
Alignment explanation
Indices: 967510--967544 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
967500 TTTTAATATT
*
967510 TTATTATTATTA
1 TTATTATTTTTA
967522 TTATTATTTTTA
1 TTATTATTTTTA
*
967534 TTATTGTTTTT
1 TTATTATTTTT
967545 TTTGTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:967547 original size:15 final size:15
Alignment explanation
Indices: 967500--967538 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
967490 TCATCTCGTC
*
967500 TTTTAATATT-TTAT
1 TTTTATTATTATTAT
*
967514 TATTATTATTATTAT
1 TTTTATTATTATTAT
967529 TTTTATTATT
1 TTTTATTATT
967539 GTTTTTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:970772 original size:24 final size:24
Alignment explanation
Indices: 970744--970808 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
970734 GATTGAACTT
* *
970744 CTTCCATCGA-AATTGTTTGTACC
1 CTTCCATAGAGAATTGTTTGCACC
*
970767 CTTTCCATAGAGCATTGTTTGCACC
1 C-TTCCATAGAGAATTGTTTGCACC
*
970792 CTTCCATAGAGCATTGT
1 CTTCCATAGAGAATTGT
970809 ATCTTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.03
24 24 0.65
25 12 0.32
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (24 bp):
CTTCCATAGAGAATTGTTTGCACC
Found at i:970785 original size:25 final size:24
Alignment explanation
Indices: 970755--970808 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
970745 TTCCATCGAA
*
970755 ATTGTTTGTACCCTTTCCATAGAGC
1 ATTGTTTGCACCC-TTCCATAGAGC
970780 ATTGTTTGCACCCTTCCATAGAGC
1 ATTGTTTGCACCCTTCCATAGAGC
970804 ATTGT
1 ATTGT
970809 ATCTTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
ATTGTTTGCACCCTTCCATAGAGC
Found at i:976676 original size:21 final size:21
Alignment explanation
Indices: 976645--976700 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
976635 GGTGTTATTG
976645 AACTT-GTTGATGATGAATCT
1 AACTTGGTTGATGATGAATCT
976665 AACTTGGTTGATGATGAATCT
1 AACTTGGTTGATGATGAATCT
976686 AACTTGGTTGATGAT
1 AACTTGGTTGATGAT
976701 TTATATAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (21 bp):
AACTTGGTTGATGATGAATCT
Found at i:979858 original size:13 final size:13
Alignment explanation
Indices: 979836--979869 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
979826 AGGGGCAGTA
*
979836 ATTTTCAAAATTG
1 ATTTTCAAAAATG
979849 A-TTTCAAAAATG
1 ATTTTCAAAAATG
979861 ATTTTCAAA
1 ATTTTCAAA
979870 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:988395 original size:21 final size:20
Alignment explanation
Indices: 988366--988423 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 20
988356 ACCCTCGCTA
988366 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
*
988387 TGTACCGATACATTCCTTGAATG
1 TGTATCGATACA---CTTGAATG
988410 TGTATCGATACACT
1 TGTATCGATACACT
988424 CACAGGTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
23 17 0.53
24 2 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:989521 original size:15 final size:15
Alignment explanation
Indices: 989501--989529 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
989491 TAACACCTTT
989501 GGTTTAGATAACGAG
1 GGTTTAGATAACGAG
989516 GGTTTAGATAACGA
1 GGTTTAGATAACGA
989530 AAAAGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAG
Found at i:994223 original size:188 final size:188
Alignment explanation
Indices: 993906--994411 Score: 642
Period size: 188 Copynumber: 2.7 Consensus size: 188
993896 TTTTAGTGAC
* * * * * *
993906 CCATGACATTAATGGGCGTAACCGTATTTCTTATACATATTCATAATATTTTCAGTTTTAAACTT
1 CCATGACATTATTAGGCGCAACCGTATTTCTTATATATAATCATAACATTTTCAGTTTTAAACTT
* * * * * * * *
993971 AGTTTCTTATACTCA-GATCATCCAAGACCCCATCCGCTTAAACTCTGATAACATTATCGACGCA
66 ATTTTCTTATACT-AGGATAATCAAACACTCCATCAGCTTAAACTCTGATAATATTTTCGACGCA
* *
994035 ACCTATTTTATTATTAAAAATATTAACATGT-CATATTACAA-CATTTTTTTATTATGGAA
130 ACCTATTTTATTATT-AAAATATTAACAT-TCCAGATTAAAACCATTTTTTTATTATGGAA
**
994094 CCATGACATTATTAGGCGCAACTATATTTCTTATATATAATCATAACATTTTCAGTTTTAAACTT
1 CCATGACATTATTAGGCGCAACCGTATTTCTTATATATAATCATAACATTTTCAGTTTTAAACTT
* * * *
994159 ATTTTCTTATATTGGGATAATCAAACACTCCATCGGCTTAAATTCTGATAATATTTTCGACGCAA
66 ATTTTCTTATACTAGGATAATCAAACACTCCATCAGCTTAAACTCTGATAATATTTTCGACGCAA
* *
994224 CCTATTTTATTATTAAAATATTAACATTCCAGATTAAAACCTTTTTTTTATTATTGAA
131 CCTATTTTATTATTAAAATATTAACATTCCAGATTAAAACCATTTTTTTATTATGGAA
* * * * * * *
994282 CTATAACATTATTTGGCACAACCGTATTTCTTATATATGATTATAACATTTTTAGTTTTAAACTT
1 CCATGACATTATTAGGCGCAACCGTATTTCTTATATATAATCATAACATTTTCAGTTTTAAACTT
* * * *
994347 ATTTTCTTATACTAGGATAAT-AATCTCTCCATCAGTTTAAACTCTGATAATATTTTCGATGCAA
66 ATTTTCTTATACTAGGATAATCAAACACTCCATCAGCTTAAACTCTGATAATATTTTCGACGCAA
994411 C
131 C
994412 GGTATTTCTT
Statistics
Matches: 275, Mismatches: 40, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
186 1 0.00
187 59 0.21
188 215 0.78
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (188 bp):
CCATGACATTATTAGGCGCAACCGTATTTCTTATATATAATCATAACATTTTCAGTTTTAAACTT
ATTTTCTTATACTAGGATAATCAAACACTCCATCAGCTTAAACTCTGATAATATTTTCGACGCAA
CCTATTTTATTATTAAAATATTAACATTCCAGATTAAAACCATTTTTTTATTATGGAA
Found at i:1001703 original size:40 final size:40
Alignment explanation
Indices: 1001626--1001804 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
1001616 CGAGTCAAAT
* * * *
1001626 ATATGCATCGTAGTGC-TTACACAAAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCATGCCCACC
* *
1001665 ATATGCATCGAAGTGCATTACACATAAGGTCATTCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCATGCCCACC
** * *
1001705 ATATGCAGAGAAGTGCATTACATATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCATGCCCACC
* * * *
1001745 ATATGCACCAAAGTTCATTGCACATAAGGTCATGCCCATC
1 ATATGCACCGAAGTGCATTACACATAAGGTCATGCCCACC
*
1001785 ATATGCACCGAAGTGAATTA
1 ATATGCACCGAAGTGCATTA
1001805 ATCGATATGC
Statistics
Matches: 118, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 15 0.13
40 103 0.87
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
ATATGCACCGAAGTGCATTACACATAAGGTCATGCCCACC
Found at i:1001979 original size:22 final size:22
Alignment explanation
Indices: 1001953--1001995 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1001943 CGAAATATCA
*
1001953 TTCATGATAAATATCATATGTG
1 TTCATGATAAACATCATATGTG
*
1001975 TTCATGATAAGCATCATATGT
1 TTCATGATAAACATCATATGT
1001996 AAAGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCATGATAAACATCATATGTG
Found at i:1007364 original size:13 final size:13
Alignment explanation
Indices: 1007346--1007377 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1007336 AGTAAACTAG
*
1007346 AAATAATAATTAA
1 AAATAATAATGAA
1007359 AAATAATAATGAA
1 AAATAATAATGAA
1007372 AAATAA
1 AAATAA
1007378 AAAATTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
AAATAATAATGAA
Found at i:1009426 original size:6 final size:6
Alignment explanation
Indices: 1009410--1009464 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
1009400 AATTGAAAGG
* * *
1009410 AATTAA TATTAA GATTAA AATTAA AATAATAA AATT-A AATT-A AATAAA
1 AATTAA AATTAA AATTAA AATTAA AAT--TAA AATTAA AATTAA AATTAA
1009458 AATTAA A
1 AATTAA A
1009465 TAAATAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 9 0.22
6 26 0.63
8 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:1009461 original size:30 final size:32
Alignment explanation
Indices: 1009410--1009473 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
1009400 AATTGAAAGG
*
1009410 AATTAATATTAAGATTAAAATTAAA-ATAATAA
1 AATTAATATTAAGATAAAAATTAAATA-AATAA
1009442 AATTAA-ATTAA-ATAAAAATTAAATAAATAA
1 AATTAATATTAAGATAAAAATTAAATAAATAA
1009472 AA
1 AA
1009474 GAAACAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 18 0.60
31 6 0.20
32 6 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (32 bp):
AATTAATATTAAGATAAAAATTAAATAAATAA
Found at i:1010859 original size:15 final size:14
Alignment explanation
Indices: 1010841--1010921 Score: 81
Period size: 12 Copynumber: 6.3 Consensus size: 14
1010831 TAAATAGAAA
1010841 AATAATAT--TAAT
1 AATAATATAATAAT
1010853 AATAATATAAT-AT
1 AATAATATAATAAT
1010866 AAT-ATA-ATATAAT
1 AATAATATA-ATAAT
1010879 -ATAATATAATAAT
1 AATAATATAATAAT
1010892 ATATAATAT-ATAAT
1 A-ATAATATAATAAT
1010906 -ATAATATAAT-AT
1 AATAATATAATAAT
1010918 AATA
1 AATA
1010922 CATACTATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 19
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.02
12 24 0.41
13 20 0.34
14 7 0.12
15 7 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:1010864 original size:5 final size:5
Alignment explanation
Indices: 1010842--1010921 Score: 108
Period size: 5 Copynumber: 15.2 Consensus size: 5
1010832 AAATAGAAAA
1010842 ATAAT ATTAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-ATAT
1 ATAAT A-TAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
1010894 ATAATAT ATAAT ATAAT ATAAT ATAAT A
1 AT-A-AT ATAAT ATAAT ATAAT ATAAT A
1010922 CATACTATAT
Statistics
Matches: 70, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.01
5 53 0.76
6 9 0.13
7 7 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:1010956 original size:31 final size:29
Alignment explanation
Indices: 1010928--1010981 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1010918 AATACATACT
1010928 ATATATT-TA-TTT-AAAAACTATATAAC
1 ATATATTATATTTTCAAAAACTATATAAC
1010954 ATATATTATATTTTCAAAAACTATATAA
1 ATATATTATATTTTCAAAAACTATATAA
1010982 TATGTTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.28
27 2 0.08
28 3 0.12
29 13 0.52
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATATTATATTTTCAAAAACTATATAAC
Found at i:1010979 original size:22 final size:23
Alignment explanation
Indices: 1010954--1011005 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
1010944 ACTATATAAC
1010954 ATATATTATAT-TTTC-AAAAACT
1 ATATA-TATATGTTTCTAAAAACT
*
1010976 ATATA-ATATGTTTCTAAAAATT
1 ATATATATATGTTTCTAAAAACT
1010998 ATATATAT
1 ATATATAT
1011006 TATATATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 16 0.62
23 2 0.08
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATATATATGTTTCTAAAAACT
Found at i:1011137 original size:21 final size:22
Alignment explanation
Indices: 1011094--1011140 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1011084 GTTTTCAATA
*
1011094 ATATTTTCAAAAACTATACTAT
1 ATATCTTCAAAAACTATACTAT
1011116 ATATCTTCAAAAACTATA-TAT
1 ATATCTTCAAAAACTATACTAT
1011137 ATAT
1 ATAT
1011141 TGTATATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATCTTCAAAAACTATACTAT
Found at i:1011146 original size:28 final size:28
Alignment explanation
Indices: 1011115--1011169 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1011105 AACTATACTA
1011115 TATATCTTCAAAAACTA-TATATATATTG
1 TATAT-TTCAAAAACTATTATATATATTG
** *
1011143 TATATTTCTGAAATTATTATATATATT
1 TATATTTCAAAAACTATTATATATATT
1011170 ATCATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
TATATTTCAAAAACTATTATATATATTG
Found at i:1011943 original size:10 final size:10
Alignment explanation
Indices: 1011937--1011983 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
1011927 GTTAAATAAT
1011937 ATAAAATTAA
1 ATAAAATTAA
1011947 ATAAAAATTAA
1 AT-AAAATTAA
*
1011958 ATTAAATTAA
1 ATAAAATTAA
1011968 ATTAAAA--AA
1 A-TAAAATTAA
1011977 ATAAAAT
1 ATAAAAT
1011984 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 5 0.16
9 3 0.09
10 10 0.31
11 14 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAATTAA
Found at i:1011948 original size:5 final size:5
Alignment explanation
Indices: 1011940--1011973 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
1011930 AAATAATATA
*
1011940 AAATT AAATAA AAATT AAATT AAATT AAATT AAA
1 AAATT AAAT-T AAATT AAATT AAATT AAATT AAA
1011974 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
AAATT
Found at i:1011954 original size:21 final size:20
Alignment explanation
Indices: 1011930--1011983 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
1011920 ATTTAATGTT
1011930 AAATAATATAAAATTAAATAA
1 AAATAA-ATAAAATTAAATAA
* *
1011951 AAATTAAATTAAATTAAATTA
1 AAA-TAAATAAAATTAAATAA
1011972 AAA-AAATAAAAT
1 AAATAAATAAAAT
1011984 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAATAAAATTAAATAA
Found at i:1011957 original size:26 final size:23
Alignment explanation
Indices: 1011928--1011986 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
1011918 CAATTTAATG
1011928 TTAAATAATATAAAATTAAATAAAAA
1 TTAAATAA-ATAAAATT-AA-AAAAA
*
1011954 TTAAATTAAATTAAATTAAAAAAA
1 TTAAA-TAAATAAAATTAAAAAAA
*
1011978 TAAAATAAA
1 TTAAATAAA
1011987 AATTAAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 9 0.30
25 2 0.07
26 12 0.40
27 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TTAAATAAATAAAATTAAAAAAA
Found at i:1013262 original size:3 final size:3
Alignment explanation
Indices: 1013254--1013392 Score: 81
Period size: 3 Copynumber: 44.0 Consensus size: 3
1013244 ACTTACTATT
*
1013254 ATA ATA ATA ATA ATA ACA TATA ATA TATA ATA ATA ATA ATA ATA TATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA -ATA
* *
1013302 ATA GTA A-A TATA TATA TATA CT- ATA ATA TATA AT- ATA ATA AT- ATA
1 ATA ATA ATA -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * *
1013347 TTA TATA ATT AT- ATAA ATA ATA TATA CTA TATA ATA ATA TATA ATA
1 ATA -ATA ATA ATA AT-A ATA ATA -ATA ATA -ATA ATA ATA -ATA ATA
1013393 CTATATATTA
Statistics
Matches: 110, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
2 8 0.07
3 70 0.64
4 32 0.29
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:1013281 original size:7 final size:7
Alignment explanation
Indices: 1013253--1013462 Score: 145
Period size: 7 Copynumber: 30.1 Consensus size: 7
1013243 TACTTACTAT
1013253 TATAATA
1 TATAATA
1013260 -ATAATA
1 TATAATA
*
1013266 -ATAACA
1 TATAATA
1013272 TATAATA
1 TATAATA
1013279 TATAATA
1 TATAATA
1013286 -ATAATA
1 TATAATA
1013292 -ATAATA
1 TATAATA
1013298 TATAATA
1 TATAATA
*
1013305 GTAAATATA
1 -TATA-ATA
1013314 TATATATA
1 TATA-ATA
1013322 CTATAATA
1 -TATAATA
1013330 TATAATA
1 TATAATA
1013337 TAATAATA
1 T-ATAATA
1013345 TAT--TA
1 TATAATA
1013350 TATAAT-
1 TATAATA
1013356 TAT-ATA
1 TATAATA
*
1013362 AATAATA
1 TATAATA
*
1013369 TATACTA
1 TATAATA
1013376 TATAATA
1 TATAATA
1013383 -AT-ATA
1 TATAATA
*
1013388 TAATACTA
1 T-ATAATA
*
1013396 TATATTA
1 TATAATA
*
1013403 TAAAAATA
1 T-ATAATA
1013411 CTATAATA
1 -TATAATA
*
1013419 TATGATA
1 TATAATA
*
1013426 CCAT-ATCA
1 -TATAAT-A
1013434 TATAATA
1 TATAATA
*
1013441 TATAATG
1 TATAATA
*
1013448 TATAAAA
1 TATAATA
*
1013455 TATTATA
1 TATAATA
1013462 T
1 T
1013463 GATATAATAA
Statistics
Matches: 164, Mismatches: 21, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.06
6 30 0.18
7 79 0.48
8 37 0.23
9 8 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (7 bp):
TATAATA
Found at i:1013287 original size:26 final size:26
Alignment explanation
Indices: 1013253--1013392 Score: 139
Period size: 26 Copynumber: 5.3 Consensus size: 26
1013243 TACTTACTAT
*
1013253 TATAATAATAATAATAACATATAATA
1 TATAATAATAATAATAATATATAATA
1013279 TATAATAATAATAATAATATATAATA
1 TATAATAATAATAATAATATATAATA
1013305 GTA-AAT-AT-AT-ATATATACTATAATA
1 -TATAATAATAATAATA-ATA-TATAATA
1013330 TATAAT-ATAATAATATATTATATAATTA
1 TATAATAATAATAATA-A-TATATAA-TA
*
1013358 TATAAATAATATATACT-ATATAATAATA
1 TAT-AATAATA-ATAATAATAT-ATAATA
1013386 TATAATA
1 TATAATA
1013393 CTATATATTA
Statistics
Matches: 100, Mismatches: 2, Indels: 23
0.80 0.02 0.18
Matches are distributed among these distances:
23 3 0.03
24 7 0.07
25 14 0.14
26 30 0.30
27 16 0.16
28 15 0.15
29 8 0.08
30 3 0.03
31 4 0.04
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (26 bp):
TATAATAATAATAATAATATATAATA
Found at i:1013300 original size:2 final size:2
Alignment explanation
Indices: 1013271--1013444 Score: 84
Period size: 2 Copynumber: 93.5 Consensus size: 2
1013261 TAATAATAAC
1013271 AT AT A- AT AT AT A- AT A- AT A- AT A- AT A- AT AT AT A- AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
1013307 AA AT AT AT AT AT AT ACT AT A- AT AT AT A- AT AT A- AT A- AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1013346 AT -T AT AT A- AT -T AT AT AA AT A- AT AT AT ACT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
1013383 AT AT AT A- AT ACT AT AT AT -T AT AA AA AT ACT AT A- AT AT AT GAT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT
*
1013425 ACC AT AT CAT AT A- AT AT AT A
1 A-T AT AT -AT AT AT AT AT AT A
1013445 ATGTATAAAA
Statistics
Matches: 135, Mismatches: 8, Indels: 58
0.67 0.04 0.29
Matches are distributed among these distances:
1 21 0.16
2 99 0.73
3 15 0.11
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:1013332 original size:51 final size:50
Alignment explanation
Indices: 1013265--1013406 Score: 168
Period size: 46 Copynumber: 2.9 Consensus size: 50
1013255 TAATAATAAT
*
1013265 AATAACATATAATATATAATAATAATAATAATATATAATAGTAAATATATA
1 AATAATATATAATATATAATAATAATAATAATATATAATA-TAAATATATA
* *
1013316 TAT-ATACTATAATATATAAT-ATAATAAT-ATAT-T-ATATAATTATATA
1 AATAATA-TATAATATATAATAATAATAATAATATATAATATAAATATATA
* * *
1013362 AATAATATATACTATATAATAATATATAATACTATATATTATAAA
1 AATAATATATAATATATAATAATA-ATAATAATATATAATATAAA
1013407 AATACTATAA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
46 23 0.30
47 9 0.12
48 6 0.08
49 7 0.09
50 11 0.14
51 20 0.26
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (50 bp):
AATAATATATAATATATAATAATAATAATAATATATAATATAAATATATA
Found at i:1013354 original size:71 final size:72
Alignment explanation
Indices: 1013235--1013471 Score: 217
Period size: 71 Copynumber: 3.3 Consensus size: 72
1013225 TTATTATTAT
*
1013235 TATATATATACTTACTATTATA-ATAATAATAATAACATATAATATATAATAATA-ATAATAATA
1 TATATATATA--TACTATAATATATAAT-ATAAT-A-ATATAATATATAATAATATA-AATAATA
1013298 TATAATAGTA-AA
60 TATAATAGTATAA
* * *
1013310 TATATATATATACTATAATATATAATATAATAATATATTATATAATTATATAAATAATATATACT
1 TATATATATATACTATAATATATAATATAATAATATAATATATAATAATATAAATAATATATAAT
1013375 A-TATAA
66 AGTATAA
* * *
1013381 TA-ATATATAATACTAT-ATATTATAA-A-AATACTATAATATATGATACCATATCATATAATAT
1 TATATATAT-ATACTATAATA-TATAATATAATAATATAATATATAATA--ATAT-AAATAATAT
1013442 ATAAT-GTATAA
61 ATAATAGTATAA
*
1013453 AATAT-TATATGA-TATAATA
1 TATATATATAT-ACTATAATA
1013472 AAAAGGAATT
Statistics
Matches: 139, Mismatches: 11, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
69 15 0.11
70 12 0.09
71 54 0.39
72 27 0.19
73 16 0.12
74 5 0.04
75 10 0.07
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (72 bp):
TATATATATATACTATAATATATAATATAATAATATAATATATAATAATATAAATAATATATAAT
AGTATAA
Found at i:1013370 original size:53 final size:55
Alignment explanation
Indices: 1013269--1013462 Score: 178
Period size: 51 Copynumber: 3.6 Consensus size: 55
1013259 AATAATAATA
*
1013269 ACATATAATATATAATAATAATAATA-A-TATATAA-TA-GTAAATATATATATAT
1 ACATATAATATATAAT-ATAATAATATATTATATAATTATATAAATATATATATAT
1013321 AC-TATAATATATAATATAATAATATATTATATAATTATAT-AA-ATA-ATATAT
1 ACATATAATATATAATATAATAATATATTATATAATTATATAAATATATATATAT
* * *
1013372 ACTATATAATA-AT-ATATAATACTATATATTATAAAAATACTAT-AATATATGATACCAT
1 AC-ATATAATATATAATATAATA--ATATATTATATAATTA-TATAAATATAT-ATA-TAT
* *
1013430 ATCATATAATATATAATGT-ATAAAATATTATAT
1 A-CATATAATATATAATATAATAATATATTATAT
1013463 GATATAATAA
Statistics
Matches: 119, Mismatches: 7, Indels: 27
0.78 0.05 0.18
Matches are distributed among these distances:
50 9 0.08
51 30 0.25
52 14 0.12
53 25 0.21
54 6 0.05
55 3 0.03
57 12 0.10
58 11 0.09
59 6 0.05
60 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (55 bp):
ACATATAATATATAATATAATAATATATTATATAATTATATAAATATATATATAT
Found at i:1013442 original size:43 final size:43
Alignment explanation
Indices: 1013273--1013443 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
1013263 ATAATAACAT
*
1013273 ATAATATATAATAATAATAATAATATATAATAGTAAATATATATATATA
1 ATAATATATAAT-AT-ATAATAACATATAATA-T-AATATAT-TATA-A
* *
1013322 CTATAATATAT-A-ATATAATAATATATTATATAAT-TA-TATAA
1 --ATAATATATAATATATAATAACATATAATATAATATATTATAA
* *
1013363 ATAATATATACTATATAATAATATATAATACT-ATATATTATAA
1 ATAATATATAATATATAATAACATATAATA-TAATATATTATAA
* * *
1013406 A-AATACTATAATATATGATACCATATCATATAATATAT
1 ATAATA-TATAATATATAATAACATATAATATAATATAT
1013444 AATGTATAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
39 9 0.09
41 20 0.19
42 12 0.11
43 31 0.30
44 2 0.02
45 3 0.03
46 1 0.01
47 15 0.14
48 2 0.02
50 1 0.01
51 9 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (43 bp):
ATAATATATAATATATAATAACATATAATATAATATATTATAA
Found at i:1016714 original size:23 final size:22
Alignment explanation
Indices: 1016688--1016778 Score: 103
Period size: 23 Copynumber: 4.1 Consensus size: 22
1016678 GGTTCTACAC
1016688 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCGGGAC-ATTCTACGT
*
1016711 GGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGACA-TTCTACGT
* * *
1016734 GGTTCTTCGGGACATAC-ATGT
1 GGTCCTTCGGGACATTCTACGT
* *
1016755 GGTCATTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTACGT
1016777 GG
1 GG
1016779 CACTTTAGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.28
22 9 0.16
23 33 0.57
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTACGT
Found at i:1016769 original size:44 final size:46
Alignment explanation
Indices: 1016680--1016770 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
1016670 GAGTTGAGGG
* *
1016680 TTCTACACGGTCCTTCGGGACAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACACGGTCCTTCGGGACAATACTACGTGGTCATTCGGGACAT
* * *
1016726 TTCTACGCGGTTCTTCGGGAC-ATAC-ATGTGGTCATTCGGGACAT
1 TTCTACACGGTCCTTCGGGACAATACTACGTGGTCATTCGGGACAT
1016770 T
1 T
1016771 CTATGTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 18 0.45
45 3 0.08
46 19 0.47
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (46 bp):
TTCTACACGGTCCTTCGGGACAATACTACGTGGTCATTCGGGACAT
Found at i:1017966 original size:13 final size:13
Alignment explanation
Indices: 1017941--1017977 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1017931 AGAAAACTAA
1017941 AATAATGAATAAAT
1 AATAAT-AATAAAT
1017955 AATAATAATAAAT
1 AATAATAATAAAT
1017968 AATAATAATA
1 AATAATAATA
1017978 GTGACGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:1018313 original size:7 final size:7
Alignment explanation
Indices: 1018294--1018322 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1018284 GTTGATAATA
1018294 AAAATTT
1 AAAATTT
1018301 -AAATTT
1 AAAATTT
1018307 AAAATTT
1 AAAATTT
1018314 AAAATTT
1 AAAATTT
1018321 AA
1 AA
1018323 TAAATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:1020018 original size:54 final size:54
Alignment explanation
Indices: 1019955--1020105 Score: 184
Period size: 54 Copynumber: 2.8 Consensus size: 54
1019945 ATTAAGATTT
* *
1019955 ACACGTAGTGCTTATGTGATTGTTCATCAACACATGATGAATTTC-GTGAGTTAC
1 ACACATAGTGCTTATGTG-TTGTTCATCAACATATGATGAATTTCTGTGAGTTAC
* * *
1020009 ACACATAGTGCATGTACG-GTTGTTCATCAACATATGATGAA-TTCTGTGGGTTGC
1 ACACATAGTGC-T-TATGTGTTGTTCATCAACATATGATGAATTTCTGTGAGTTAC
1020063 ACACATAGTGCATGTATG-GTTGTTCATCAACATATGATGAATT
1 ACACATAGTGC-T-TATGTGTTGTTCATCAACATATGATGAATT
1020106 CCATGGGTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
53 3 0.03
54 78 0.90
55 3 0.03
56 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (54 bp):
ACACATAGTGCTTATGTGTTGTTCATCAACATATGATGAATTTCTGTGAGTTAC
Found at i:1020061 original size:31 final size:31
Alignment explanation
Indices: 1020026--1020116 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
1020016 GTGCATGTAC
*
1020026 GGTTGTTCATCAACATATGATGAATTCTGTG
1 GGTTGTTCATCAACATATGATGAATTCTATG
* *
1020057 GGTTG--CA-C-ACATA-G-TGCA-TGTAT-
1 GGTTGTTCATCAACATATGATGAATTCTATG
*
1020080 GGTTGTTCATCAACATATGATGAATTCCATG
1 GGTTGTTCATCAACATATGATGAATTCTATG
1020111 GGTTGT
1 GGTTGT
1020117 ACACATAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
23 5 0.11
24 3 0.07
25 5 0.11
26 2 0.04
27 10 0.22
28 2 0.04
29 5 0.11
30 3 0.07
31 11 0.24
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (31 bp):
GGTTGTTCATCAACATATGATGAATTCTATG
Found at i:1020095 original size:27 final size:27
Alignment explanation
Indices: 1020011--1020096 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
1020001 TGAGTTACAC
*
1020011 ACATAGTGCATGTACGGTTGTTCATCA
1 ACATAGTGCATGTATGGTTGTTCATCA
* * *
1020038 ACATA-TG-ATGAATTCTGTGGGTTGCA-C-
1 ACATAGTGCATGTA-T-GGT-TGTT-CATCA
1020065 ACATAGTGCATGTATGGTTGTTCATCA
1 ACATAGTGCATGTATGGTTGTTCATCA
1020092 ACATA
1 ACATA
1020097 TGATGAATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 6 0.14
26 6 0.14
27 19 0.43
28 7 0.16
29 6 0.14
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (27 bp):
ACATAGTGCATGTATGGTTGTTCATCA
Found at i:1020106 original size:54 final size:54
Alignment explanation
Indices: 1019974--1020126 Score: 227
Period size: 54 Copynumber: 2.8 Consensus size: 54
1019964 GCTTATGTGA
* * *
1019974 TTGTTCATCAACACATGATGAATT-TCGTGAGTTACACACATAGTGCATGTACGG
1 TTGTTCATCAACATATGATGAATTCT-GTGGGTTGCACACATAGTGCATGTACGG
*
1020028 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCATGTATGG
1 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGG
** *
1020082 TTGTTCATCAACATATGATGAATTCCATGGGTTGTACACATAGTG
1 TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTG
1020127 TAACATCCTA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 90 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (54 bp):
TTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGG
Found at i:1021358 original size:42 final size:42
Alignment explanation
Indices: 1021284--1021369 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
1021274 TCGAGGGTTC
* *
1021284 TATGTGGTCCTTCGGGATATATATATAATCCTTTGGAATATA
1 TATGTGGTCCTTCGGGACACATATATAATCCTTTGGAATATA
* * **
1021326 TATGTGGTTCTTCGGGACACATATTTGGTCCTTTGGAATATA
1 TATGTGGTCCTTCGGGACACATATATAATCCTTTGGAATATA
1021368 TA
1 TA
1021370 CGTCATCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (42 bp):
TATGTGGTCCTTCGGGACACATATATAATCCTTTGGAATATA
Found at i:1029077 original size:27 final size:27
Alignment explanation
Indices: 1029046--1029131 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
1029036 GGGGTGTTAC
1029046 ACATAGTGCATGTACGGTTGTTCATCA
1 ACATAGTGCATGTACGGTTGTTCATCA
* *
1029073 ACATATGATGAAT-TAC-ATTGGTTGCA-C-
1 ACATA-G-TGCATGTACGGTT-GTT-CATCA
* *
1029100 ACATAGTGCCTGTGCGGTTGTTCATCA
1 ACATAGTGCATGTACGGTTGTTCATCA
1029127 ACATA
1 ACATA
1029132 TGATGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
25 5 0.11
26 7 0.16
27 19 0.42
28 8 0.18
29 6 0.13
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (27 bp):
ACATAGTGCATGTACGGTTGTTCATCA
Found at i:1029637 original size:22 final size:22
Alignment explanation
Indices: 1029582--1029637 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
1029572 TTCTGGATCC
* * *
1029582 ATGGTATCGATACTTCTCTCCT
1 ATGGTATCGATACTTATATACT
*
1029604 A--GTACCGATACTTATATACT
1 ATGGTATCGATACTTATATACT
1029624 ATGGTATCGATACT
1 ATGGTATCGATACT
1029638 CCATTACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (22 bp):
ATGGTATCGATACTTATATACT
Found at i:1029668 original size:94 final size:93
Alignment explanation
Indices: 1029533--1029708 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 93
1029523 TACTATACCA
* ** * * * * *
1029533 GGTATCGATATCCCTTTTAGTATCAATATCATTTTTACATTCTGGATCCATGGTATCGATAC-TT
1 GGTATCGATATCCATTACAGTATCAATACCATTTCTACATTCTGAATCAATAGTATCGATACATT
*
1029597 CTCTCCTAGTACCGATACTTATATACTAT
66 CTC-CATAGTACCGATACTTATATACTAT
* *
1029626 GGTATCGATACTCCATTACAGTATCGATACCATTTCTGCATTCTGAATCAATAGTATCGATACAT
1 GGTATCGATA-TCCATTACAGTATCAATACCATTTCTACATTCTGAATCAATAGTATCGATACAT
*
1029691 TCTCCATAGTATCGATAC
65 TCTCCATAGTACCGATAC
1029709 CCCCTCAGTA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
93 10 0.14
94 54 0.78
95 5 0.07
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (93 bp):
GGTATCGATATCCATTACAGTATCAATACCATTTCTACATTCTGAATCAATAGTATCGATACATT
CTCCATAGTACCGATACTTATATACTAT
Found at i:1030375 original size:36 final size:36
Alignment explanation
Indices: 1030323--1030406 Score: 159
Period size: 36 Copynumber: 2.3 Consensus size: 36
1030313 AGGAATGAAT
*
1030323 TTTAAATTCATTTCTCCTTAAAGGACCTAAATACCC
1 TTTATATTCATTTCTCCTTAAAGGACCTAAATACCC
1030359 TTTATATTCATTTCTCCTTAAAGGACCTAAATACCC
1 TTTATATTCATTTCTCCTTAAAGGACCTAAATACCC
1030395 TTTATATTCATT
1 TTTATATTCATT
1030407 CATTTATACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.42
Consensus pattern (36 bp):
TTTATATTCATTTCTCCTTAAAGGACCTAAATACCC
Found at i:1030848 original size:163 final size:163
Alignment explanation
Indices: 1030574--1030888 Score: 432
Period size: 163 Copynumber: 1.9 Consensus size: 163
1030564 TGCCACCACT
* **
1030574 CTTGAAACTGCGGATGGCATCATGGTTGCTATCAGCGGCATCATCAATACCTCTCGTACACTTGA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCATCATCAATACCTCTCGTACACTTGA
*** * *
1030639 AAATGGCTTTTCACCTAAGGTCGAGTTTCTCATTGCGCTGCTATTCATGCTTATCCTGTCAATAT
66 AAACACCTTTTCACCTAAGGTCGAGTTTCCCATTGCACTGCTATTCATGCTTATCCTGTCAATAT
*
1030704 TTACCAATAATATCATCTTATCATATTCATATG
131 TTACCAACAATATCATCTTATCATATTCATATG
* * * *
1030737 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCTTCATCAATATCTCTCGTTCGCTTGA
1 CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCATCATCAATACCTCTCGTACACTTGA
** * * * * *
1030802 AAACACCTTTTCGTCTTAGGTTGAGTTTCCCATTGCACTTCTATTCATGCTTGTCCTGTTAATAT
66 AAACACCTTTTCACCTAAGGTCGAGTTTCCCATTGCACTGCTATTCATGCTTATCCTGTCAATAT
* *
1030867 TTGCCAACAATTTCATCTTATC
131 TTACCAACAATATCATCTTATC
1030889 GTACCTCTAA
Statistics
Matches: 130, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
163 130 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (163 bp):
CTTGAAACTGCCGATGGCATCACAGTTGCTATCAGCGGCATCATCAATACCTCTCGTACACTTGA
AAACACCTTTTCACCTAAGGTCGAGTTTCCCATTGCACTGCTATTCATGCTTATCCTGTCAATAT
TTACCAACAATATCATCTTATCATATTCATATG
Found at i:1033141 original size:21 final size:21
Alignment explanation
Indices: 1033117--1033161 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1033107 AAATAATTAT
*
1033117 TTATAATTAATTATTA-TAATA
1 TTATAATTAA-TACTACTAATA
*
1033138 TTATTATTAATACTACTAATA
1 TTATAATTAATACTACTAATA
1033159 TTA
1 TTA
1033162 CTTTTGCAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATAATTAATACTACTAATA
Found at i:1039464 original size:3 final size:3
Alignment explanation
Indices: 1039458--1039516 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
1039448 TTTGTTTTTT
** *
1039458 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTAA ATA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
*
1039503 TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TT
1039517 TACAAACAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1039484 original size:21 final size:22
Alignment explanation
Indices: 1039458--1039511 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
1039448 TTTGTTTTTT
1039458 TTATTATTATTAAA-ATTATTA
1 TTATTATTATTAAATATTATTA
1039479 TTATTATTATTAAATATTATTA
1 TTATTATTATTAAATATTATTA
*
1039501 -TATTATAATTA
1 TTATTATTATTA
1039512 TTATTTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTATTATTAAATATTATTA
Found at i:1039591 original size:31 final size:26
Alignment explanation
Indices: 1039523--1039603 Score: 135
Period size: 26 Copynumber: 3.1 Consensus size: 26
1039513 TATTTACAAA
1039523 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACTGGACCGGCC
*
1039549 CAGTTACAAACAAAACTGGACTGGCC
1 CAGTTACAAACAAAACTGGACCGGCC
* *
1039575 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACTGGACCGGCC
1039601 CAG
1 CAG
1039604 ACCAACCAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.41, C:0.30, G:0.19, T:0.11
Consensus pattern (26 bp):
CAGTTACAAACAAAACTGGACCGGCC
Found at i:1048335 original size:21 final size:20
Alignment explanation
Indices: 1048267--1048348 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
1048257 TTGGTGCAGA
*
1048267 GGGAATCGA-TCCCCCCAATG
1 GGGAACCGATTCCCCCCAA-G
*
1048287 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC---CAAG
1048311 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCA-AG
* *
1048332 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
1048349 TGGGGTTCTG
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.02
21 25 0.49
22 6 0.12
23 16 0.31
24 1 0.02
25 2 0.04
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCAAG
Found at i:1050650 original size:13 final size:13
Alignment explanation
Indices: 1050632--1050683 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
1050622 TTTTTTTCTA
1050632 ATTTCAAAACTTG
1 ATTTCAAAACTTG
* *
1050645 ATTTCAAAATTTTTCTA
1 ATTTCAAAA---CT-TG
1050662 ATTTCAAAACTTG
1 ATTTCAAAACTTG
1050675 ATTTCAAAA
1 ATTTCAAAA
1050684 ATCTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 19 0.61
14 1 0.03
16 1 0.03
17 10 0.32
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (13 bp):
ATTTCAAAACTTG
Found at i:1050660 original size:30 final size:30
Alignment explanation
Indices: 1050624--1050683 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1050614 TAATTTCATT
1050624 TTTTTCTAATTTCAAAACTTGATTTCAAAA
1 TTTTTCTAATTTCAAAACTTGATTTCAAAA
1050654 TTTTTCTAATTTCAAAACTTGATTTCAAAA
1 TTTTTCTAATTTCAAAACTTGATTTCAAAA
1050684 ATCTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTTTCTAATTTCAAAACTTGATTTCAAAA
Found at i:1053745 original size:21 final size:22
Alignment explanation
Indices: 1053696--1053772 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 22
1053686 TTTTCATACA
*
1053696 TGCA-TTTACATTTTGTATCTG
1 TGCATTTTGCATTTTGTATCTG
1053717 TGCATTTT-CATTTTGTATTCT-
1 TGCATTTTGCATTTTGTA-TCTG
* * *
1053738 TGCTTTTTGCATCTTTGCA-CTT
1 TGCATTTTGCAT-TTTGTATCTG
*
1053760 TTCATTTTGCATT
1 TGCATTTTGCATT
1053773 CATACTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 23 0.49
22 19 0.40
23 5 0.11
ACGTcount: A:0.14, C:0.17, G:0.12, T:0.57
Consensus pattern (22 bp):
TGCATTTTGCATTTTGTATCTG
Found at i:1053772 original size:7 final size:7
Alignment explanation
Indices: 1053717--1053772 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
1053707 TTTGTATCTG
1053717 TGCATTT
1 TGCATTT
1053724 T-CATTT
1 TGCATTT
*
1053730 TGTATTCT
1 TGCATT-T
*
1053738 TGCTTTT
1 TGCATTT
1053745 TGCATCTT
1 TGCAT-TT
1053753 TGCACTTT
1 TGCA-TTT
1053761 T-CATTT
1 TGCATTT
1053767 TGCATT
1 TGCATT
1053773 CATACTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 10 0.25
7 15 0.38
8 14 0.35
9 1 0.03
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:1053781 original size:37 final size:36
Alignment explanation
Indices: 1053706--1053781 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
1053696 TGCATTTACA
* * * *
1053706 TTTTGTATCTGTGCATTTTCATTTTGTATTCTTGCT
1 TTTTGCATCTGTGCATTTTCATTTTGCATTCATACT
*
1053742 TTTTGCATCTTTGCACTTTTCATTTTGCATTCATACT
1 TTTTGCATCTGTGCA-TTTTCATTTTGCATTCATACT
1053779 TTT
1 TTT
1053782 ATGTTTGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (36 bp):
TTTTGCATCTGTGCATTTTCATTTTGCATTCATACT
Found at i:1056040 original size:2 final size:2
Alignment explanation
Indices: 1056033--1056060 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1056023 TTATCCTTTA
1056033 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
1056061 TTTCTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1056408 original size:17 final size:17
Alignment explanation
Indices: 1056356--1056425 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
1056346 CTCATCCAGC
1056356 AAAGAAAGAAGAAA-GAAA
1 AAAGAAA-AA-AAAGGAAA
**
1056374 AAAG-AAAAAGGGGAAAA
1 AAAGAAAAAAAAGG-AAA
*
1056391 AAAGAAAAAAAATGAAA
1 AAAGAAAAAAAAGGAAA
*
1056408 AATGAAAAAAAAGGAAA
1 AAAGAAAAAAAAGGAAA
1056425 A
1 A
1056426 TTGAATCAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 3 0.07
17 28 0.67
18 10 0.24
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAGGAAA
Found at i:1056430 original size:17 final size:17
Alignment explanation
Indices: 1056388--1056430 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1056378 AAAAAGGGGA
* *
1056388 AAAAAAGAAAAAAAATG
1 AAAAATGAAAAAAAAGG
1056405 AAAAATGAAAAAAAAGG
1 AAAAATGAAAAAAAAGG
*
1056422 AAAATTGAA
1 AAAAATGAA
1056431 TCAAGAGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAAATGAAAAAAAAGG
Found at i:1058820 original size:115 final size:114
Alignment explanation
Indices: 1058660--1058884 Score: 360
Period size: 115 Copynumber: 2.0 Consensus size: 114
1058650 AAGTGCCATG
** *
1058660 TGCTCATAGTAGAAATAAGAAGACTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
* * * * *
1058725 TGGTTTGGTATGAACCTCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTCGGTAGGAACCAC-AAAACCAATCATTGGAATTAAAAGATGAATT
1058775 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
*
1058840 TGGTTCGGTAGGAACCACAGAACCAATCATTGGAATTAAAAGATG
66 TGGTTCGGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATG
1058885 GACTGCATGA
Statistics
Matches: 101, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
114 24 0.24
115 77 0.76
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
TGGTTCGGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:1061406 original size:22 final size:22
Alignment explanation
Indices: 1061379--1061420 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1061369 CTTCAAAGAT
*
1061379 GATTCTCTTTTTAAAGATGATA
1 GATTCTCTTTTCAAAGATGATA
1061401 GATTCTCTTTTCAAAGATGA
1 GATTCTCTTTTCAAAGATGA
1061421 AAGCTTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (22 bp):
GATTCTCTTTTCAAAGATGATA
Found at i:1062475 original size:184 final size:186
Alignment explanation
Indices: 1062138--1062508 Score: 647
Period size: 184 Copynumber: 2.0 Consensus size: 186
1062128 CAAATCAACA
1062138 TGTTATTTTGAAAAATAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATG
*
1062203 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCTCACAT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACAT
*
1062268 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
131 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGT
* * ** *
1062324 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTTATTTTATCTTTTCT-AAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATG
*
1062388 AAATTGTTGAAAAGTAAGAAAGCGATTTCCTTAG-TTTTTTTACTTAGTAAACTATTTCCCACAT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACAT
*
1062452 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGT
131 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGT
1062508 T
1 T
1062509 TTCAAAGCCT
Statistics
Matches: 176, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
184 84 0.48
185 39 0.22
186 53 0.30
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (186 bp):
TGTTATTTTGAAAAATAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATG
AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACAT
CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGT
Found at i:1062533 original size:76 final size:76
Alignment explanation
Indices: 1062449--1063085 Score: 1168
Period size: 76 Copynumber: 8.4 Consensus size: 76
1062439 CTATTTCCCA
*
1062449 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1062514 AGCCTTAGGGT
66 AGCCTTAGGGT
1062525 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1062589 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1062600 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1062665 AGACTTAGGGT
66 AGCCTTAGGGT
*
1062676 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1062741 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1062752 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1062817 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1062828 CATCTGTAAGGCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1062893 AGCCTTAGGGT
66 AGCCTTAGGGT
1062904 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1062969 ACCCTTAGGGT
66 AGCCTTAGGGT
*
1062980 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
1063045 AACCTTATGGT
66 AGCCTTAGGGT
1063056 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1063086 TTAAGACCTC
Statistics
Matches: 546, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
75 74 0.14
76 472 0.86
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1063253 original size:3 final size:3
Alignment explanation
Indices: 1063247--1063309 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
1063237 ATTTTTGTTT
** *
1063247 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1063294 TATA TAA TTA TTA TTA
1 T-TA TTA TTA TTA TTA
1063310 CAACAGTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.92
4 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1063273 original size:21 final size:21
Alignment explanation
Indices: 1063247--1063303 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
1063237 ATTTTTGTTT
1063247 TTATTATTATTATTAAAATTA
1 TTATTATTATTATTAAAATTA
1063268 TTATTATTATTATT-AAATTA
1 TTATTATTATTATTAAAATTA
*
1063288 TTATTATATATAATTA
1 TTATTAT-TATTATTA
1063304 TTATTACAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTATTATTATTAAAATTA
Found at i:1063349 original size:26 final size:26
Alignment explanation
Indices: 1063313--1063367 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
1063303 ATTATTACAA
* *
1063313 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
1063339 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
1063365 CAG
1 CAG
1063368 ACCAACCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.31, G:0.18, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:1069532 original size:37 final size:38
Alignment explanation
Indices: 1069436--1069534 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 38
1069426 CGGGTCGGGT
* * * *
1069436 TTTTTTTAAGTTTGCTATTCGGGTAGGG-TTGGATTGG
1 TTTTTTTAAGTGTGATATTCGGGTCGGGTTTGGATCGG
*
1069473 GTTTTTTAAGTGTGATA-T----TCGGGTTTGG-TCGG
1 TTTTTTTAAGTGTGATATTCGGGTCGGGTTTGGATCGG
1069505 TTTTTTTAAGTGTGATATTCGGGTCGGGTT
1 TTTTTTTAAGTGTGATATTCGGGTCGGGTT
1069535 CGGGTTTAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
32 23 0.46
33 5 0.10
36 1 0.02
37 21 0.42
ACGTcount: A:0.13, C:0.06, G:0.32, T:0.48
Consensus pattern (38 bp):
TTTTTTTAAGTGTGATATTCGGGTCGGGTTTGGATCGG
Found at i:1072363 original size:179 final size:180
Alignment explanation
Indices: 1072062--1072420 Score: 711
Period size: 179 Copynumber: 2.0 Consensus size: 180
1072052 TGAACATGTG
1072062 GAGGTCTATACATTGTACCCAAAGAGTCCATTGCTGCTTTTATCCCGGCTCCTCGGTCTGAAATA
1 GAGGTCTATACATTGTACCCAAAGAGTCCATTGCTGCTTTTATCCCGGCTCCTCGGTCTGAAATA
1072127 ATGCATATTCGTTCCCTGGTGACAACATGTAAACATAAATTTTTAAGGAAAAAGGCCCAAGACTC
66 ATGCATATTCGTTCCCTGGTGACAACATGTAAACATAAATTTTTAAGGAAAAAGGCCCAAGACTC
1072192 AGTGTCTTCTCCTTGAACGAGGGCAAACGCAGCGGGAAGAATATTGCGGT
131 AGTGTCTTCTCCTTGAACGAGGGCAAACGCAGCGGGAAGAATATTGCGGT
1072242 GAGGTCTATACATTGTACCC-AAGAGTCCATTGCTGCTTTTATCCCGGCTCCTCGGTCTGAAATA
1 GAGGTCTATACATTGTACCCAAAGAGTCCATTGCTGCTTTTATCCCGGCTCCTCGGTCTGAAATA
1072306 ATGCATATTCGTTCCCTGGTGACAACATGTAAACATAAATTTTTAAGGAAAAAGGCCCAAGACTC
66 ATGCATATTCGTTCCCTGGTGACAACATGTAAACATAAATTTTTAAGGAAAAAGGCCCAAGACTC
1072371 AGTGTCTTCTCCTTGAACGAGGGCAAACGCAGCGGGAAGAATATTGCGGT
131 AGTGTCTTCTCCTTGAACGAGGGCAAACGCAGCGGGAAGAATATTGCGGT
1072421 TTCCATCTTG
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 159 0.89
180 20 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (180 bp):
GAGGTCTATACATTGTACCCAAAGAGTCCATTGCTGCTTTTATCCCGGCTCCTCGGTCTGAAATA
ATGCATATTCGTTCCCTGGTGACAACATGTAAACATAAATTTTTAAGGAAAAAGGCCCAAGACTC
AGTGTCTTCTCCTTGAACGAGGGCAAACGCAGCGGGAAGAATATTGCGGT
Found at i:1074582 original size:127 final size:124
Alignment explanation
Indices: 1074176--1074649 Score: 615
Period size: 127 Copynumber: 3.9 Consensus size: 124
1074166 ATTCACATGA
* *
1074176 AGGCGTGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTACTA
1 AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
*
1074240 TGTCACTTATGTCCCCCGGAAACTATTAATGTC-ATACCTATTATTCCTTA-GGGACCGTG
66 TGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCC-TAGGGGA-CGTG
* * *
1074299 AAG-G-ATTCCCGGGGGGGCGCCTTCCATTA-TTTGTC--AGAATATGTTATCATTGCCCTATTA
1 AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
*
1074359 TGTCAC-TATGTTCCCCGG-AACTATT--TGTCAATA-CTATTA-T--TAGGGGACGTG
66 TGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCTAGGGGACGTG
* * * *
1074410 AAGGCACGTTCCCGGGGGCGCACCTTCCATTATTTTGTAATAGAATATGTTATCATTGCCCTATT
1 -AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
1074475 AGGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGTG
65 ATGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCC-TAGGGGAC-GTG
* * * *
1074537 ACGGCGCGTTCTCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATT
1 A-GGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
1074602 ATGTCACTTATGT-CCCC-AAAACTATTCATGTCAATACCTATTATTCCT
65 ATGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCT
1074650 TATATTATGT
Statistics
Matches: 309, Mismatches: 22, Indels: 39
0.84 0.06 0.11
Matches are distributed among these distances:
111 6 0.02
112 6 0.02
114 23 0.07
115 15 0.05
116 3 0.01
117 37 0.12
118 22 0.07
119 37 0.12
121 24 0.08
122 20 0.06
123 3 0.01
124 1 0.00
125 29 0.09
126 13 0.04
127 70 0.23
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (124 bp):
AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCTAGGGGACGTG
Found at i:1074658 original size:54 final size:56
Alignment explanation
Indices: 1074598--1074707 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
1074588 ATCATTGCCC
1074598 TATTATGTCACTTATGT-CCCC-AAAACTATTCATGTCAATACCTATTATTCCTTA
1 TATTATGTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
**
1074652 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTA
1 TATTATGTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
1074708 GGGGACCGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 17 0.33
55 4 0.08
56 31 0.60
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (56 bp):
TATTATGTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
Found at i:1074799 original size:180 final size:182
Alignment explanation
Indices: 1074471--1074832 Score: 620
Period size: 181 Copynumber: 2.0 Consensus size: 182
1074461 ATCATTGCCC
*
1074471 TATTAGGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGT
1 TATTAGGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACCGT
* *
1074536 GACGGCGCGTTCTCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTAT
66 GAAGGCGCGTTCCCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTAT
1074601 TATGTCACTTATGTCCCCA-AAACTATTCATGTCAATACCTATTATTCCTTA
131 TATGTCACTTATGTCCCCAGAAACTATTCATGTCAATACCTATTATTCCTTA
* * *
1074652 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTAGGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACCGT
** *
1074717 GAAGGCGCGTTCCCGG-GGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
66 GAAGGCGCGTTCCCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTAT
*
1074781 TATGTCACTTATGTCCCCAGGAACTATTCATGTCAATACCTATTATTCCTTA
131 TATGTCACTTATGTCCCCAGAAACTATTCATGTCAATACCTATTATTCCTTA
1074833 GGGGACGGTG
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
180 64 0.38
181 106 0.62
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (182 bp):
TATTAGGTCACTTATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACCGT
GAAGGCGCGTTCCCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTAT
TATGTCACTTATGTCCCCAGAAACTATTCATGTCAATACCTATTATTCCTTA
Found at i:1074910 original size:306 final size:300
Alignment explanation
Indices: 1074354--1074959 Score: 1004
Period size: 306 Copynumber: 2.0 Consensus size: 300
1074344 ATCATTGCCC
*
1074354 TATTATGTCACTATGTTCCCCGGAACTATTTGTCAATACTATTATTAGGGGACGTGAAGGCACGT
1 TATTATGTCACTATGTCCCCCGGAACTATTTGTCAATACTATTATTAGGGGACGTGAAGGCACGT
*
1074419 TCCCGGGGGCGCACCTTCCATTATTTTGTAATAGAATATGTTATCATTGCCCTATTAGGTCACTT
66 TCCCGGGGGCGCACCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTATTAGGTCACTT
*
1074484 ATGTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGTGACGGCGCGTTCT
131 ATGTCCCCAGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGTGACGGCGCGTTCT
1074549 CGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTCACTTATG
196 CGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTCACTTATG
1074614 T-CCCC-AAAACTATTCATGTCAATACCTATTATTCCTTA
261 TCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
1074652 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCAC-TATGTCCCCC-GGAACTATT--TGTCAATA-CTATTA----TTAGGGGA-CGT
* * *
1074717 GAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
56 GAAGGCACGTTCCCGGGGGCGCACCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTAT
* *
1074781 TATGTCACTTATGTCCCCAGG-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACGGTGAC
121 TAGGTCACTTATGTCCCCAGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGTGAC
* *
1074845 GGCGCGTTCTCGGAGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTAT
186 GGCGCGTTCTCGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTAT
1074910 GTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
251 GTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
1074960 GGGGACCGTG
Statistics
Matches: 286, Mismatches: 10, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
298 11 0.04
299 9 0.03
300 9 0.03
302 8 0.03
303 6 0.02
306 116 0.41
307 73 0.26
308 54 0.19
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (300 bp):
TATTATGTCACTATGTCCCCCGGAACTATTTGTCAATACTATTATTAGGGGACGTGAAGGCACGT
TCCCGGGGGCGCACCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTATTAGGTCACTT
ATGTCCCCAGGAAACTATTCATGTCAATACCTATTATTCCATAGGGGACGGTGACGGCGCGTTCT
CGGAGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTATTATGTCACTTATG
TCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTA
Found at i:1075009 original size:127 final size:127
Alignment explanation
Indices: 1074652--1075795 Score: 1933
Period size: 127 Copynumber: 9.1 Consensus size: 127
1074642 TTATTCCTTA
1074652 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1074717 GAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
* *
1074778 TATTATGTCACTTATGT-CCCCAGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACGGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
* * * * *
1074842 GACGGCGCGTTCTCGGAGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
**
1074904 TATTATGTCACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
* * ** *
1074969 GAATGCGCGTTCCCGGGGGCGCACCTTCTTTTATTTTGTCAGAGAATGTGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
*
1075031 TATTATGTCACTTATGTCCCCTGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1075096 GAAGGCGCGTTCCC--GGG-GCGCCTTCCATTATTTTGTCAGAGAATATG-TATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1075154 TATTATGTCACTTATGT-CCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
* *
1075218 GAAGGCGCGTTCCCGGGGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
* * *
1075280 TATTATGTCACTTATGTTCCCCGTGAACTATTCATGTCAATACCTATTATTCTTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
* *
1075345 GAAGGCGCGTTCCTGGGGGCGCGCCTTACATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1075407 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1075472 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
* * * *
1075534 TATTATGTAACTTATGTCCCTCGGGAGCTATTCATGTCAATACATATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
*
1075599 GAAGGCGCGTTCCCGGGGGCGCTCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
* * * *
1075661 TATTATGTCACTTTTGTCCCTCGTGAACTATTCATGTCAATACCTATTAGTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
* * *
1075726 GAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTTGTCAAAGAATATGTTATCATTACCC
66 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1075788 TATTATGT
1 TATTATGT
1075796 GAAGTGATAA
Statistics
Matches: 954, Mismatches: 57, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
122 60 0.06
123 28 0.03
124 28 0.03
125 92 0.10
126 103 0.11
127 643 0.67
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (127 bp):
TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
Found at i:1075355 original size:376 final size:377
Alignment explanation
Indices: 1074652--1075795 Score: 1972
Period size: 376 Copynumber: 3.0 Consensus size: 377
1074642 TTATTCCTTA
1074652 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1074717 GAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
66 GAAGGCGCGTTCCC-GGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* * *
1074782 ATGTCACTTATGTCCCCAGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACGGTGACGG
130 ATGTCACTTATGTCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGG
* *
1074847 CGCGTTCTCGGAGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
195 CGCGTTCCCGGGGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
* ** *
1074912 CACTTATGTCCCCCGAAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAATGCGC
260 CACTTATGTTCCCCGTGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
* *
1074977 GTTCCCGGGGGCGCACCTTCTTTTATTTTGTCAGAGAATGTGTTATCATTGCCC
325 GTTCCCGGGGGCGCACCTTC-ATTATTTTGTCAGAGAATATGTTATCATTGCCC
*
1075031 TATTATGTCACTTATGTCCCCTGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1075096 GAAGGCGCGTTCCC-GGGGCGCCTTCCATTATTTTGTCAGAGAATATG-TATCATTGCCCTATTA
66 GAAGGCGCGTTCCCGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
1075159 TGTCACTTATGTCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGC
131 TGTCACTTATGTCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGC
1075224 GCGTTCCCGGGGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
196 GCGTTCCCGGGGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
*
1075289 ACTTATGTTCCCCGTGAACTATTCATGTCAATACCTATTATTCTTTAGGGGACCGTGAAGGCGCG
261 ACTTATGTTCCCCGTGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCG
* *
1075354 TTCCTGGGGGCGCGCCTTACATTATTTTGTCAGAGAATATGTTATCATTGCCC
326 TTCCCGGGGGCGCACCTT-CATTATTTTGTCAGAGAATATGTTATCATTGCCC
1075407 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
1075472 GAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
66 GAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
* * *
1075537 TATGTAACTTATGTCCCTCGGGAGCTATTCATGTCAATACATATTATTCCTTAGGGGACCGTGAA
129 TATGTCACTTATGTCCC-CGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAA
*
1075602 GGCGCGTTCCCGGGGGCGCT-CCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
193 GGCGCGTTCCCGGGGACG-TGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
* *
1075666 TGTCACTTTTG-TCCCTCGTGAACTATTCATGTCAATACCTATTAGTCCTTAGGGGACCGTGAAG
257 TGTCACTTATGTTCCC-CGTGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAG
* *
1075730 GCGCGTTCCCGGGGGCGCACCTTCCATTATTTTGTCAAAGAATATGTTATCATTACCC
321 GCGCGTTCCCGGGGGCGCACCTT-CATTATTTTGTCAGAGAATATGTTATCATTGCCC
1075788 TATTATGT
1 TATTATGT
1075796 GAAGTGATAA
Statistics
Matches: 729, Mismatches: 28, Indels: 14
0.95 0.04 0.02
Matches are distributed among these distances:
376 326 0.45
377 34 0.05
378 3 0.00
379 108 0.15
380 34 0.05
381 223 0.31
382 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (377 bp):
TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGT
GAAGGCGCGTTCCCGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTTATGTCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGC
GCGTTCCCGGGGACGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTC
ACTTATGTTCCCCGTGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCG
TTCCCGGGGGCGCACCTTCATTATTTTGTCAGAGAATATGTTATCATTGCCC
Found at i:1075990 original size:33 final size:33
Alignment explanation
Indices: 1075951--1076047 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
1075941 TTGAATTTAA
* *
1075951 TAAATTTCGAATACTATAATTATATTTTAAATT
1 TAAATTTTGAATACTATAATTGTATTTTAAATT
* *
1075984 TAAATTTTGAATA-TATTATTTGTATTTTAATTT
1 TAAATTTTGAATACTA-TAATTGTATTTTAAATT
*
1076017 TAAATTTTAAATACTATAATTGTATTTTAAA
1 TAAATTTTGAATACTATAATTGTATTTTAAA
1076048 AACATTATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 2 0.04
33 51 0.93
34 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (33 bp):
TAAATTTTGAATACTATAATTGTATTTTAAATT
Found at i:1076594 original size:130 final size:135
Alignment explanation
Indices: 1076376--1076641 Score: 497
Period size: 130 Copynumber: 2.0 Consensus size: 135
1076366 ACGACCCAGG
1076376 AGGAGTGCTAGTAACCATCCCACCGCTCCCCGGGAACTGTGAAAACTGTGGAAACATTGGCATCG
1 AGGAGTGCTAGTAACCATCCCACCGCTCCCCGGGAACTGTGAAAACTGTGGAAACATTGGCATCG
1076441 ATGTTTGTGATCCATATGGAGATTGA-GTGTCTGA-G-GAAGCACCACCAGCCAAAT-A-ATGCA
66 ATGTTTGTGATCCATATGGAGATTGAGGTGTCTGAGGAGAAGCACCACCAGCCAAATAAGATGCA
1076501 TATGA
131 TATGA
1076506 AGGAGTGCTAGTAACCATCCCACCGCTCCCCGGGAACTGTGAAAACTGTGGAAACATTGGCATCG
1 AGGAGTGCTAGTAACCATCCCACCGCTCCCCGGGAACTGTGAAAACTGTGGAAACATTGGCATCG
1076571 ATGTTTGTGATCCATATGGAGATTGAGGTGTCTGAGGAGAAGCACCACCAGCCAAATAAGATGCA
66 ATGTTTGTGATCCATATGGAGATTGAGGTGTCTGAGGAGAAGCACCACCAGCCAAATAAGATGCA
1076636 TATGA
131 TATGA
1076641 A
1 A
1076642 CCATATTTTA
Statistics
Matches: 131, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
130 91 0.69
131 8 0.06
132 1 0.01
133 19 0.15
134 1 0.01
135 11 0.08
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (135 bp):
AGGAGTGCTAGTAACCATCCCACCGCTCCCCGGGAACTGTGAAAACTGTGGAAACATTGGCATCG
ATGTTTGTGATCCATATGGAGATTGAGGTGTCTGAGGAGAAGCACCACCAGCCAAATAAGATGCA
TATGA
Found at i:1076725 original size:21 final size:20
Alignment explanation
Indices: 1076701--1076766 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 20
1076691 TAAAACCCTA
*
1076701 CGGGCTAGGCATGTAACCTGG
1 CGGGCTAGGAATGTAACCT-G
1076722 CGGGCTAGGAATGTAACCCTG
1 CGGGCTAGGAATGTAA-CCTG
1076743 CGGGCTAGGAATGTAACCATG
1 CGGGCTAGGAATGTAACC-TG
1076764 CGG
1 CGG
1076767 AGATGACATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 2 0.05
21 37 0.88
22 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.18
Consensus pattern (20 bp):
CGGGCTAGGAATGTAACCTG
Found at i:1078557 original size:15 final size:15
Alignment explanation
Indices: 1078539--1078586 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
1078529 TTAGCAAAAA
1078539 AAATAATTAATTAAT
1 AAATAATTAATTAAT
1078554 AAATAA-TAATTATAT
1 AAATAATTAATTA-AT
*
1078569 AAAT-ATTATTTTAAT
1 AAATAATTA-ATTAAT
1078584 AAA
1 AAA
1078587 AAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 7 0.24
15 19 0.66
16 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATAATTAATTAAT
Found at i:1078625 original size:32 final size:30
Alignment explanation
Indices: 1078541--1078626 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
1078531 AGCAAAAAAA
*
1078541 ATAATTA-ATTAATAAATAATAAT-TATAT
1 ATAATTATATTAATAAAAAATAATATATAT
* * *
1078569 AAATATTATTTTAATAAAAAATAATATTTAT
1 ATA-ATTATATTAATAAAAAATAATATATAT
1078600 ATAATTATATTAATATAAAATATAATA
1 ATAATTATATTAATA-AAAA-ATAATA
1078627 ACTATTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.04
29 4 0.09
30 25 0.53
31 10 0.21
32 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAATTATATTAATAAAAAATAATATATAT
Found at i:1081950 original size:37 final size:37
Alignment explanation
Indices: 1081894--1082247 Score: 573
Period size: 37 Copynumber: 9.6 Consensus size: 37
1081884 ATTGGACTTG
1081894 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
1081931 AGATGGATTTGCTTTACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
1081968 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGTTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
1082005 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGATTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1082042 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* * * *
1082079 AGATTAATTTGCTTCACTACTCTTTGGTAAAGGATTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
1082116 AGATTGATTTGCTTTATTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
1082153 AGATTGGTTTGCTTCACTACTCTTCGGTAAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
1082190 AGATTGATTTGCTTCATTACTCTTCGGTGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
**
1082227 AGATTGATTTAATTCACTACT
1 AGATTGATTTGCTTCACTACT
1082248 TGTTGAAAAC
Statistics
Matches: 290, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 290 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (37 bp):
AGATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
Found at i:1082626 original size:66 final size:65
Alignment explanation
Indices: 1082546--1082705 Score: 227
Period size: 66 Copynumber: 2.4 Consensus size: 65
1082536 TTTTATTGAG
*
1082546 CATCGAATGCTTTTGATGTACCGATGCACAGACAATGCTTCGATGCACTCCAT-GCT-TTATTGA
1 CATCGAATGCTTTTGATGTACCGATGCACAGACAATGCATCGATGCACTCC-TGGCTCTT-TTG-
1082609 AAA
63 AAA
*
1082612 CATCGAATGCTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAA
1 CATCGAATGCTTTTGATGTACCGATGCACAGACAATGCATCGATGCACTCCTGGCTCTTTTGAAA
* *
1082677 CATCGAATG-TAATTAATGTACCGATGCAC
1 CATCGAATGCT-TTTGATGTACCGATGCAC
1082706 CCCTAGTGTA
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
64 1 0.01
65 29 0.33
66 55 0.63
67 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (65 bp):
CATCGAATGCTTTTGATGTACCGATGCACAGACAATGCATCGATGCACTCCTGGCTCTTTTGAAA
Found at i:1088511 original size:44 final size:43
Alignment explanation
Indices: 1088420--1088538 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 43
1088410 TCATGCAACT
* * *
1088420 TGCATCGATACACTAGGAAGTGTACCGATATATCCCTTGAATA
1 TGCATCGATACACTATGAAGTGCACCGATACATCCCTTGAATA
* * *
1088463 TGCATCGATACACTATGAAGGTGCACCGATGCATTCCTTGAATG
1 TGCATCGATACACTATGAA-GTGCACCGATACATCCCTTGAATA
* *
1088507 TGCATCAATACACTATGAAGTGCATCGATACA
1 TGCATCGATACACTATGAAGTGCACCGATACA
1088539 CTCGTCTGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 29 0.44
44 37 0.56
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACTATGAAGTGCACCGATACATCCCTTGAATA
Done.